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    <title>[2010.12962] Voronoi chains, blocks, and clusters in perturbed square lattices</title>
    <dc:date>2022-05-14T11:17:34+00:00</dc:date>
    <link>https://arxiv.org/abs/2010.12962</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Perturbed lattices provide simple models for studying many physical systems. In this paper we study the distribution of Voronoi chains, blocks, and clusters with prescribed combinatorial features in the perturbed square lattice, generalizing earlier work. In particular, we obtain analytic results for the presence of hexagonally-ordered regions within a square-ordered phase. Connections to high-temperature crystals and to non-equilibrium phase transitions are considered. In an appendix, we briefly consider the site-percolation threshold for this system.
]]></description>
<dc:subject>computational-geometry experiment looking-to-see rather-interesting statistical-mechanics noise signal-processing to-write-about to-simulate consider:forbidden-configurations</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:5978c94942e7/</dc:identifier>
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<item rdf:about="https://arxiv.org/abs/2102.02321">
    <title>[2102.02321] Hamiltonicity of graphs perturbed by a random geometric graph</title>
    <dc:date>2022-04-15T14:11:08+00:00</dc:date>
    <link>https://arxiv.org/abs/2102.02321</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[We study Hamiltonicity in graphs obtained as the union of a deterministic n-vertex graph H with linear degrees and a d-dimensional random geometric graph Gd(n,r), for any d≥1. We obtain an asymptotically optimal bound on the minimum r for which a.a.s. H∪Gd(n,r) is Hamiltonian. Our proof provides a linear time algorithm to find a Hamilton cycle in such graphs.
]]></description>
<dc:subject>graph-theory perturbations robustness rather-interesting looking-to-see experiment to-write-about to-simulate consider:visualization</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:84e39663a356/</dc:identifier>
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<item rdf:about="https://arxiv.org/abs/1911.09160">
    <title>[1911.09160] Three-dimensional crystals of adaptive knots</title>
    <dc:date>2022-03-29T15:52:47+00:00</dc:date>
    <link>https://arxiv.org/abs/1911.09160</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Starting from Gauss and Kelvin, knots in fields were postulated behaving like particles, but experimentally they were found only as transient features or required complex boundary conditions to exist and couldn't self-assemble into three-dimensional crystals. We introduce energetically stable micrometer-sized knots in helical fields of chiral liquid crystals. While spatially localized and freely diffusing in all directions, they resemble colloidal particles and atoms, self-assembling into crystalline lattices with open and closed structures. These knots are robust and topologically distinct from the host medium, though they can be morphed and reconfigured by weak stimuli under conditions like in displays. A combination of energy-minimizing numerical modeling and optical imaging uncovers the internal structure and topology of individual helical field knots and various hierarchical crystalline organizations they form.
]]></description>
<dc:subject>physics condensed-matter nonlinear-dynamics exotic-phases knot-theory theoretical-physics rather-interesting liquid-crystals materials-science speculative-design experiment looking-to-see</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:5e1e2ac02826/</dc:identifier>
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<item rdf:about="https://arxiv.org/abs/1801.06933">
    <title>[1801.06933] Heirarchical and synergistic self-assembly in composites of model Wormlike micellar-polymers and nanoparticles results in nanostructures with diverse morphologies</title>
    <dc:date>2022-03-15T15:49:14+00:00</dc:date>
    <link>https://arxiv.org/abs/1801.06933</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Using Monte Carlo simulations, we investigate the self-assembly of model nanoparticles inside a matrix of model equilibrium polymers (or matrix of Wormlike micelles) as a function of the polymeric matrix density and the excluded volume parameter between polymers and nanoparticles. In this paper, we show morphological transitions in the system architecture via synergistic self-assembly of nanoparticles and the equilibrium polymers. In a synergistic self-assembly, the resulting morphology of the system is a result of the interaction between both nanoparticles and the polymers, unlike the polymer templating method. We report the morphological transition of nanoparticle aggregates from percolating network-like structures to non-percolating clusters as a result of the change in the excluded volume parameter between nanoparticles and polymeric chains. In parallel with the change in the self-assembled structures of nanoparticles, the matrix of equilibrium polymers also shows a transition from a dispersed state to a percolating network-like structure formed by the clusters of polymeric chains. We show that the shape anisotropy of the nanoparticle clusters formed is governed by the polymeric density resulting in rod-like, sheet-like or other anisotropic nanoclusters. It is also shown that the pore shape and the pore size of the porous network of nanoparticles can be changed by changing the minimum approaching distance between nanoparticles and polymers. We provide a theoretical understanding of why various nanostructures with very different morphologies are obtained.
]]></description>
<dc:subject>self-assembly molecular-design rather-interesting materials-science indistinguishable-from-magic looking-to-see experiment</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:1f94a24c8222/</dc:identifier>
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<item rdf:about="https://fronkonstin.com/2020/03/26/watercolors/">
    <title>Watercolors | Fronkonstin</title>
    <dc:date>2022-01-02T13:23:13+00:00</dc:date>
    <link>https://fronkonstin.com/2020/03/26/watercolors/</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Sometimes I think about the reasons why I spend so many time doing experiments and writing my discoveries in a blog. Even although the main reason to start this blog was some kind of vanity, today I have pretty clear why I still keep writing it: to keep my mind tuned. I really enjoy looking for ideas, learning new algorithms, figuring out the way to translate them into code and trying to discover new territories going a step further. I cannot imagine my life without coding. Many good times in the last years have been in front of my laptop listening music and drinking a beer. In these strange times, confined at house, coding has became in something more important. It keeps me ahead from the sad news and moves my mind to places where everything is quiet, friendly and perfect. Blogging is my therapy, my mindfulness.

]]></description>
<dc:subject>art experiment blogging generative-art to-write-about to-try</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:54480838a71c/</dc:identifier>
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<item rdf:about="https://arxiv.org/abs/1906.01478">
    <title>[1906.01478] What do AI algorithms actually learn? - On false structures in deep learning</title>
    <dc:date>2021-07-12T23:51:46+00:00</dc:date>
    <link>https://arxiv.org/abs/1906.01478</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[There are two big unsolved mathematical questions in artificial intelligence (AI): (1) Why is deep learning so successful in classification problems and (2) why are neural nets based on deep learning at the same time universally unstable, where the instabilities make the networks vulnerable to adversarial attacks. We present a solution to these questions that can be summed up in two words; false structures. Indeed, deep learning does not learn the original structures that humans use when recognising images (cats have whiskers, paws, fur, pointy ears, etc), but rather different false structures that correlate with the original structure and hence yield the success. However, the false structure, unlike the original structure, is unstable. The false structure is simpler than the original structure, hence easier to learn with less data and the numerical algorithm used in the training will more easily converge to the neural network that captures the false structure. We formally define the concept of false structures and formulate the solution as a conjecture. Given that trained neural networks always are computed with approximations, this conjecture can only be established through a combination of theoretical and computational results similar to how one establishes a postulate in theoretical physics (e.g. the speed of light is constant). Establishing the conjecture fully will require a vast research program characterising the false structures. We provide the foundations for such a program establishing the existence of the false structures in practice. Finally, we discuss the far reaching consequences the existence of the false structures has on state-of-the-art AI and Smale's 18th problem.
]]></description>
<dc:subject>machine-learning ontology philosophy-of-engineering performance-measure internal-state rather-interesting to-write-about experiment</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:83f66d016382/</dc:identifier>
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</item>
<item rdf:about="https://jvns.ca/blog/2020/08/08/handwritten-font/">
    <title>An attempt to make a font look more handwritten</title>
    <dc:date>2021-06-25T09:34:50+00:00</dc:date>
    <link>https://jvns.ca/blog/2020/08/08/handwritten-font/</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[I’m actually not super happy with the results of this experiment, but I wanted to share it anyway because it was very easy and fun to play with fonts. And somebody asked me how to do it and I told her I’d write a blog post about it :)

]]></description>
<dc:subject>typography noise opentype experiment aesthetics rather-interesting to-write-about consider:in-browser</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:3a0104f2d283/</dc:identifier>
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<item rdf:about="https://arxiv.org/abs/1901.08656">
    <title>[1901.08656] Edges control clustering in levitated granular matter</title>
    <dc:date>2020-10-18T13:06:56+00:00</dc:date>
    <link>https://arxiv.org/abs/1901.08656</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[The properties of small clusters depend dramatically on the interactions between their constituent particles. However, it remains challenging to design and tune the interactions between macroscopic particles, such as in a granular material. Here, we use acoustic levitation to trap macroscopic grains and induce forces between them. Our main results show that particles levitated in an acoustic field prefer to make contact along sharp edges. The radius of curvature of the edges directly controls the magnitude of these forces. These highly directional interactions, combined with local contact forces, give rise to a diverse array of cluster shapes. Our results open up new possibilities for the design of specific forces between macroscopic particles, directing their assembly, and actuating their motion.
]]></description>
<dc:subject>materials-science indistinguishable-from-magic self-assembly self-organization physics! experiment to-write-about consider:simulation condensation</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:3abe610be83d/</dc:identifier>
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<item rdf:about="https://arxiv.org/abs/cond-mat/0001457">
    <title>[cond-mat/0001457] Compaction of Rods: Relaxation and Ordering in Vibrated, Anisotropic Granular Material</title>
    <dc:date>2020-10-15T10:32:33+00:00</dc:date>
    <link>https://arxiv.org/abs/cond-mat/0001457</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[We report on experiments to measure the temporal and spatial evolution of packing arrangements of anisotropic, cylindrical granular material, using high-resolution capacitive monitoring. In these experiments, the particle configurations start from an initially disordered, low-packing-fraction state and under vertical vibrations evolve to a dense, highly ordered, nematic state in which the long particle axes align with the vertical tube walls. We find that the orientational ordering process is reflected in a characteristic, steep rise in the local packing fraction. At any given height inside the packing, the ordering is initiated at the container walls and proceeds inward. We explore the evolution of the local as well as the height-averaged packing fraction as a function of vibration parameters and compare our results to relaxation experiments conducted on spherically shaped granular materials.
]]></description>
<dc:subject>granular-materials packing self-organization pattern-formation nonlinear-dynamics physics! experiment rather-interesting phase-transitions</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:f2214283ad66/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:granular-materials"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:packing"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:self-organization"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:pattern-formation"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:nonlinear-dynamics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:physics!"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:phase-transitions"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1902.00565">
    <title>[1902.00565] Random packing of rods in small containers</title>
    <dc:date>2020-10-14T11:31:57+00:00</dc:date>
    <link>https://arxiv.org/abs/1902.00565</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[We conduct experiments and simulations to study the disordered packing of rods in small containers. Experiments study cylindrical rods with aspect ratio ranging from 4 to 32; simulations use of spherocylinders with similar aspect ratios. In all cases, rods pack randomly in cylindrical containers whose smallest dimension is larger than the rod length. Packings in smaller containers have lower volume fractions than those in larger containers, demonstrating the influence of the boundaries. The volume fraction extrapolated to infinite container size decreases with increasing aspect ratio, in agreement with previous work. X-ray tomography experiments show that the boundary effects depend on the orientation of the boundary, indicating a strong influence of gravity, whereas the simulation finds boundary effects that are purely geometric. In all cases, the boundary influence extends approximately half a particle length into the interior of the container.
]]></description>
<dc:subject>granular-materials packing looking-to-see materials-science to-write-about simulation condensed-matter liquid-crystals experiment</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:9f1c6eb61ca8/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:granular-materials"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:packing"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:looking-to-see"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:materials-science"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:simulation"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:condensed-matter"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:liquid-crystals"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://www.biorxiv.org/content/10.1101/467944v1?rss=1">
    <title>Patterns and mechanisms of diminishing returns from beneficial mutations | bioRxiv</title>
    <dc:date>2020-10-07T15:49:31+00:00</dc:date>
    <link>https://www.biorxiv.org/content/10.1101/467944v1?rss=1</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Diminishing returns epistasis causes the benefit of the same advantageous mutation smaller in fitter genotypes, and is frequently observed in experimental evolution. However, its occurrence in other contexts, environment-dependence, and mechanistic basis are unclear. Here we address these questions using 1005 sequenced segregants generated from a yeast cross. Under each of 47 examined environments, 66-92% of tested polymorphisms exhibit diminishing returns epistasis. Surprisingly, improving environment quality also reduces the benefits of advantageous mutations even when fitness is controlled for, indicating the necessity to revise the global epistasis hypothesis. We propose that diminishing returns originates from the modular organization of life where the contribution of each functional module to fitness is determined jointly by the genotype and environment and has an upper limit, and demonstrate that our model predictions match empirical observations. These findings broaden the concept of diminishing returns epistasis, reveal its generality and potential cause, and have important evolutionary implications.

]]></description>
<dc:subject>genetics evolutionary-biology experiment rather-interesting fitness-landscapes looking-to-see</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:ae1c743ea6e7/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:genetics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:evolutionary-biology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:fitness-landscapes"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:looking-to-see"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/2004.14999">
    <title>[2004.14999] A Matter of Framing: The Impact of Linguistic Formalism on Probing Results</title>
    <dc:date>2020-09-02T11:37:38+00:00</dc:date>
    <link>https://arxiv.org/abs/2004.14999</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Deep pre-trained contextualized encoders like BERT (Delvin et al., 2019) demonstrate remarkable performance on a range of downstream tasks. A recent line of research in probing investigates the linguistic knowledge implicitly learned by these models during pre-training. While most work in probing operates on the task level, linguistic tasks are rarely uniform and can be represented in a variety of formalisms. Any linguistics-based probing study thereby inevitably commits to the formalism used to annotate the underlying data. Can the choice of formalism affect probing results? To investigate, we conduct an in-depth cross-formalism layer probing study in role semantics. We find linguistically meaningful differences in the encoding of semantic role- and proto-role information by BERT depending on the formalism and demonstrate that layer probing can detect subtle differences between the implementations of the same linguistic formalism. Our results suggest that linguistic formalism is an important dimension in probing studies, along with the commonly used cross-task and cross-lingual experimental settings.
]]></description>
<dc:subject>natural-language-processing deep-learning looking-to-see experiment rather-interesting reverse-engineering ontology define-your-terms feature-construction</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:2d972df4e4b9/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:natural-language-processing"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:deep-learning"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:looking-to-see"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:reverse-engineering"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:ontology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:define-your-terms"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:feature-construction"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1904.05970">
    <title>[1904.05970] Transverse excitations and zigzag transition in quasi-1D hard-disk system</title>
    <dc:date>2020-05-03T12:07:57+00:00</dc:date>
    <link>https://arxiv.org/abs/1904.05970</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Molecular dynamics computer simulations of collective excitations in a system of hard disks confined to a narrow channel of the specific width, that resembles 2D triangular lattice at disk close packing, are performed. We found that transverse excitations, which for hard-disk system are absent in the limit of 1D and are of acoustic nature in the limit of 2D, in the case of q1D hard-disk system emerge in the form of transverse optical excitations and could be considered as a tool to detect the structural transition to a zigzag ordering. By analyzing density evolution of longitudinal static structure factor and pair distribution function we have shown that driving force of zigzag ordering is caging phenomenon that in the case of hard-disk system is governed by excluded volume interaction with first and second neighbors and is of entropic origin.
]]></description>
<dc:subject>packing feature-discovery condensed-matter simulation rather-interesting constrained-dynamics to-simulate experiment consider:looking-to-see</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:d342d0ef3be2/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:packing"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:feature-discovery"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:condensed-matter"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:simulation"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:constrained-dynamics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-simulate"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:looking-to-see"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://nyaspubs.onlinelibrary.wiley.com/doi/full/10.1111/nyas.14321">
    <title>Evaluating the neurophysiological evidence for predictive processing as a model of perception - Walsh - 2020 - Annals of the New York Academy of Sciences - Wiley Online Library</title>
    <dc:date>2020-05-02T13:05:34+00:00</dc:date>
    <link>https://nyaspubs.onlinelibrary.wiley.com/doi/full/10.1111/nyas.14321</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[For many years, the dominant theoretical framework guiding research into the neural origins of perceptual experience has been provided by hierarchical feedforward models, in which sensory inputs are passed through a series of increasingly complex feature detectors. However, the long‐standing orthodoxy of these accounts has recently been challenged by a radically different set of theories that contend that perception arises from a purely inferential process supported by two distinct classes of neurons: those that transmit predictions about sensory states and those that signal sensory information that deviates from those predictions. Although these predictive processing (PP) models have become increasingly influential in cognitive neuroscience, they are also criticized for lacking the empirical support to justify their status. This limited evidence base partly reflects the considerable methodological challenges that are presented when trying to test the unique predictions of these models. However, a confluence of technological and theoretical advances has prompted a recent surge in human and nonhuman neurophysiological research seeking to fill this empirical gap. Here, we will review this new research and evaluate the degree to which its findings support the key claims of PP.

]]></description>
<dc:subject>cognition prediction psychology experiment rather-interesting to-write-about consider:artificial-intelligence looking-to-see</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:20402e0303da/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:cognition"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:prediction"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:psychology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:artificial-intelligence"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:looking-to-see"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://www.biorxiv.org/content/10.1101/214619v1?rss=1">
    <title>Multidimensional quantitative analysis of mRNA expression within intact vertebrate embryos | bioRxiv</title>
    <dc:date>2020-03-19T12:09:49+00:00</dc:date>
    <link>https://www.biorxiv.org/content/10.1101/214619v1?rss=1</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[For decades, in situ hybridization methods have been essential tools for studies of vertebrate development and disease, as they enable qualitative analyses of mRNA expression in an anatomical context. Quantitative mRNA analyses typically sacrifice the anatomy, relying on embryo microdissection, dissociation, cell sorting, and/or homogenization. Here, we eliminate the tradeoff between quantitation and anatomical context, using multiplexed in situ hybridization chain reaction (HCR) to perform accurate and precise relative quantitation of mRNA expression with subcellular resolution within whole-mount vertebrate embryos. Gene expression can be queried in two directions: read-out from anatomical space to expression space reveals co-expression relationships in selected regions of the specimen; conversely, read-in from multidimensional expression space to anatomical space reveals those anatomical locations in which selected gene co-expression relationships occur. As we demonstrate by examining gene circuits underlying somitogenesis, quantitative read-out and read-in analyses provide the strengths of flow cytometry expression analyses, but by preserving subcellular anatomical context, they enable iterative bi-directional queries that open a new era for in situ hybridization.

]]></description>
<dc:subject>evo-devo developmental-biology molecular-biology indistinguishable-from-magic visualization experiment rather-interesting to-write-about consider:analogs-in-Alife</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:fc22084937df/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:evo-devo"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:developmental-biology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:molecular-biology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:indistinguishable-from-magic"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:visualization"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:analogs-in-Alife"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1501.04472">
    <title>[1501.04472] Local analysis of the history dependence in tetrahedra packings</title>
    <dc:date>2020-01-21T16:39:58+00:00</dc:date>
    <link>https://arxiv.org/abs/1501.04472</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[The mechanical properties of a granular sample depend frequently on the way the packing was prepared. However, is not well understood which properties of the packing store this information. Here we present an X-ray tomography study of three pairs of tetrahedra packings prepared with three different tapping protocols. The packings in each pair differs in the number of mechanical constraints C imposed on the particles by their contacts, while their bulk volume fraction ϕglobal is approximately the same. We decompose C into the contributions of the three different contact types possible between tetrahedra -- face-to-face (F2F), edge-to-face (E2F), and point contacts -- which each fix a different amount of constraints. We then perform a local analysis of the contact distribution by grouping the particles together according to their individual volume fraction ϕlocal computed from a Voronoi tessellation. We find that in samples which have been tapped sufficiently long the number of F2F contacts becomes an universal function of ϕlocal. In contrast the number of E2F and point contacts varies with the applied tapping protocol. Moreover, we find that the anisotropy of the shape of the Voronoi cells depends on the tapping protocol. This behavior differs from spheres and ellipsoids and posses a significant constraint for any mean-field approach to tetrahedra packings.
]]></description>
<dc:subject>granular-materials packing physics! experiment looking-to-see rather-interesting condensed-matter to-write-about to-simulate consider:matter.js consider:2d</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:93258bb8ee39/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:granular-materials"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:packing"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:physics!"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:looking-to-see"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:condensed-matter"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-simulate"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:matter.js"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:2d"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1903.08049">
    <title>[1903.08049] Algorithmic complexity of multiplex networks</title>
    <dc:date>2020-01-10T12:39:44+00:00</dc:date>
    <link>https://arxiv.org/abs/1903.08049</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Multilayer networks preserve full information about the different interactions among the constituents of a complex system, and have recently proven quite useful in modelling transportation networks, social circles, and the human brain. A fundamental and still open problem is to assess if and when the multilayer representation of a system is a qualitatively better model than the classical single-layer aggregated network approach. Here we tackle this problem from an algorithmic information theory perspective. We propose an intuitive way to encode a multilayer network into a bit string, and we define the complexity of a multilayer network as the ratio of the Kolmogorov complexity of the bit strings associated to the multilayer and to the corresponding aggregated graph. We find that there exists a maximum amount of additional information that a multilayer model can encode with respect to an equivalent single-layer graph. We show how our measure can be used to obtain low-dimensional representations of multidimensional systems, to cluster multilayer networks into a small set of meaningful super-families, and to detect tipping points in different time-varying multilayer graphs. These results suggest that information-theoretic approaches can be effectively employed in the study of multi-dimensional complex systems, and pave the way to a more systematic analysis of static and time-varying multidimensional complex systems.
]]></description>
<dc:subject>social-networks rather-interesting experiment finally multiple-network-models to-write-about to-simulate oh-but-not-Erdos-Renyi-please</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:54e8065e8b1f/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:social-networks"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:finally"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:multiple-network-models"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-simulate"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:oh-but-not-Erdos-Renyi-please"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1803.08202">
    <title>[1803.08202] Person Following by Autonomous Robots: A Categorical Overview</title>
    <dc:date>2019-11-02T12:50:11+00:00</dc:date>
    <link>https://arxiv.org/abs/1803.08202</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[A wide range of human-robot collaborative applications in diverse domains such as manufacturing, health care, the entertainment industry, and social interactions, require an autonomous robot to follow its human companion. Different working environments and applications pose diverse challenges by adding constraints on the choice of sensors, the degree of autonomy, and dynamics of a person-following robot. Researchers have addressed these challenges in many ways and contributed to the development of a large body of literature. This paper provides a comprehensive overview of the literature by categorizing different aspects of person-following by autonomous robots. Also, the corresponding operational challenges are identified based on various design choices for ground, underwater, and aerial scenarios. In addition, state-of-the-art methods for perception, planning, control, and interaction are elaborately discussed and their applicability in varied operational scenarios are presented. Then, some of the prominent methods are qualitatively compared, corresponding practicalities are illustrated, and their feasibility is analyzed for various use-cases. Furthermore, several prospective application areas are identified, and open problems are highlighted for future research.
]]></description>
<dc:subject>robotics review rather-interesting goal-balancing planning algorithms experiment looking-to-see machine-learning adaptive-control adaptive-behavior to-write-about image-processing</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:b54b85280659/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:robotics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:review"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:goal-balancing"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:planning"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:algorithms"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:looking-to-see"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:machine-learning"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:adaptive-control"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:adaptive-behavior"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:image-processing"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/cond-mat/0303017">
    <title>[cond-mat/0303017] Long surface wave instability in dense granular flows</title>
    <dc:date>2019-10-26T14:12:11+00:00</dc:date>
    <link>https://arxiv.org/abs/cond-mat/0303017</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[In this paper we present an experimental study of the long surface wave instability that can develop when a granular material flows down a rough inclined plane. The threshold and the dispersion relation of the instability are precisely measured by imposing a controlled perturbation at the entrance of the flow and measuring its evolution along the slope. The results are compared with the prediction of a linear stability analysis conducted in the framework of the depth-averaged or Saint-Venant equations. We show that when the friction law proposed in Pouliquen (1999a) is introduced in the Saint-Venant equations, the theory is able to predict quantitatively the stability threshold and the phase velocity of the waves but fails in predicting the observed cutoff frequency. The instability is shown to be of the same nature as the long wave instability observed in classical fluids but with characteristics that can dramatically differ due to the specificity of the granular rheology.
]]></description>
<dc:subject>granular-materials physics! self-organization rather-interesting experiment to-simulate consider:minimum-viable-model</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:65e5cba5b4a0/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:granular-materials"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:physics!"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:self-organization"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-simulate"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:minimum-viable-model"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1907.10924">
    <title>[1907.10924] Influence of the size of the intruder on the reorganization of a 2D granular medium</title>
    <dc:date>2019-09-08T14:38:35+00:00</dc:date>
    <link>https://arxiv.org/abs/1907.10924</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[We consider the rearrangements of a vertical twodimensional granular packing induced by the withdrawal of an intruder. Here, we focus on the influence of the size of the intruder on the reorganization process. The long term evolution of the granular packing is investigated as well as the avalanche dynamics that characterize the short term rearrangements around the intruder. For small enough intruder, we observe the formation of arches that periodically destabilize and influence the reorganization dynamics of the two-dimensional packing through larger rearrangement events.
]]></description>
<dc:subject>granular-materials nonlinear-dynamics complexology rather-interesting experiment looking-to-see robustness self-organization mesoscale-structure-formation to-simulate consider:dominoes</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:7fbc72d6344c/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:granular-materials"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:nonlinear-dynamics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:complexology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:looking-to-see"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:robustness"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:self-organization"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:mesoscale-structure-formation"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-simulate"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:dominoes"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1705.00721">
    <title>[1705.00721] Single microtubules and small networks become significantly stiffer on short time-scales upon mechanical stimulation</title>
    <dc:date>2019-06-12T13:50:33+00:00</dc:date>
    <link>https://arxiv.org/abs/1705.00721</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[The transfer of mechanical signals through cells is a complex phenomenon. To uncover a new mechanotransduction pathway, we study the frequency-dependent transport of mechanical stimuli by single microtubules and small networks in a bottom-up approach using optically trapped beads as anchor points. We interconnected microtubules to linear and triangular geometries to perform micro-rheology by defined oscillations of the beads relative to each other. We found a substantial stiffening of single filaments above a characteristic transition frequency of 1-30 Hz depending on the filament's molecular composition. Below this frequency, filament elasticity only depends on its contour and persistence length. Interestingly, this elastic behavior is transferable to small networks, where we found the surprising effect that linear two filament connections act as transistor-like, angle dependent momentum filters, whereas triangular networks act as stabilizing elements. These observations implicate that cells can tune mechanical signals by temporal and spatial filtering stronger and more flexibly than expected.
]]></description>
<dc:subject>phrasing! biophysics cytoskeleton microtubules structural-biology nanotechnology rather-interesting experiment looking-to-see</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:c7766fc0c267/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:phrasing!"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:biophysics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:cytoskeleton"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:microtubules"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:structural-biology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:nanotechnology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:looking-to-see"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1808.06271">
    <title>[1808.06271] Transforming mesoscale granular plasticity through particle shape</title>
    <dc:date>2019-05-02T08:55:06+00:00</dc:date>
    <link>https://arxiv.org/abs/1808.06271</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[When an amorphous material is strained beyond the point of yielding it enters a state of continual reconfiguration via dissipative, avalanche-like slip events that relieve built-up local stress. However, how the statistics of such events depend on local interactions among the constituent units remains debated. To address this we perform experiments on granular material in which we use particle shape to vary the interactions systematically. Granular material, confined under constant pressure boundary conditions, is uniaxially compressed while stress is measured and internal rearrangements are imaged with x-rays. We introduce volatility, a quantity from economic theory, as a powerful new tool to quantify the magnitude of stress fluctuations, finding systematic, shape-dependent trends. For all 22 investigated shapes the magnitude s of relaxation events is well-fit by a truncated power law distribution P(s)∼s−τexp(−s/s∗), as has been proposed within the context of plasticity models. The power law exponent τ for all shapes tested clusters around τ= 1.5, within experimental uncertainty covering the range 1.3 - 1.7. The shape independence of τ and its compatibility with mean field models indicate that the granularity of the system, but not particle shape, modifies the stress redistribution after a slip event away from that of continuum elasticity. Meanwhile, the characteristic maximum event size s∗ changes by two orders of magnitude and tracks the shape dependence of volatility. Particle shape in granular materials is therefore a powerful new factor influencing the distance at which an amorphous system operates from scale-free criticality. These experimental results are not captured by current models and suggest a need to reexamine the mechanisms driving mesoscale plastic deformation in amorphous systems.
]]></description>
<dc:subject>granular-materials condensed-matter rather-interesting looking-to-see experiment engineering-design consider:simulation consider:performance-measures complexology</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:ae5ff6a5ef63/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:granular-materials"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:condensed-matter"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:looking-to-see"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:engineering-design"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:simulation"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:performance-measures"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:complexology"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://elifesciences.org/articles/43599">
    <title>A multicellular way of life for a multipartite virus | eLife</title>
    <dc:date>2019-03-15T11:06:55+00:00</dc:date>
    <link>https://elifesciences.org/articles/43599</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[A founding paradigm in virology is that the spatial unit of the viral replication cycle is an individual cell. Multipartite viruses have a segmented genome where each segment is encapsidated separately. In this situation the viral genome is not recapitulated in a single virus particle but in the viral population. How multipartite viruses manage to efficiently infect individual cells with all segments, thus with the whole genome information, is a long-standing but perhaps deceptive mystery. By localizing and quantifying the genome segments of a nanovirus in host plant tissues we show that they rarely co-occur within individual cells. We further demonstrate that distinct segments accumulate independently in different cells and that the viral system is functional through complementation across cells. Our observation deviates from the classical conceptual framework in virology and opens an alternative possibility (at least for nanoviruses) where the infection can operate at a level above the individual cell level, defining a viral multicellular way of life.

]]></description>
<dc:subject>virology biology experiment life-history to-use-as-an-example to-write-about</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:ec7a30b5e051/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:virology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:biology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:life-history"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-use-as-an-example"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1001.1406">
    <title>[1001.1406] Some experiments with integral Apollonian circle packings</title>
    <dc:date>2019-03-08T00:59:58+00:00</dc:date>
    <link>https://arxiv.org/abs/1001.1406</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Bounded Apollonian circle packings (ACP's) are constructed by repeatedly inscribing circles into the triangular interstices of a configuration of four mutually tangent circles, one of which is internally tangent to the other three. If the original four circles have integer curvature, all of the circles in the packing will have integer curvature as well. In \cite{ll}, Sarnak proves that there are infinitely many circles of prime curvature and infinitely many pairs of tangent circles of prime curvature in a primitive integral ACP. In this paper, we give a heuristic backed up by numerical data for the number of circles of prime curvature less than x, and the number of "kissing primes," or {\it pairs} of circles of prime curvature less than x in a primitive integral ACP. We also provide experimental evidence towards a local to global principle for the curvatures in a primitive integral ACPs.]]></description>
<dc:subject>plane-geometry number-theory experiment looking-to-see rather-interesting to-understand</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:21308b26165e/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:plane-geometry"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:number-theory"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:looking-to-see"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-understand"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://fronkonstin.com/2018/05/15/the-pleasing-ratio-project/">
    <title>The Pleasing Ratio Project | Fronkonstin</title>
    <dc:date>2019-03-03T16:34:08+00:00</dc:date>
    <link>https://fronkonstin.com/2018/05/15/the-pleasing-ratio-project/</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Although my experiment is absolutely inspired in Fechner’s one, there is a important difference: I can explore a bigger set of ratios doing an A/B test. This makes this one a bit richer.

The experiment has also some interesting technical features:

the use of shinydashboard package to arrange the App
the use of shinyjs package to add javaScript to refresh the page when use choose to play again
to save votes in a text file
to read it to visualize results
Will I obtain the same results as Fechner? This is a living project whose results will change over the time so you can check it regularly.
]]></description>
<dc:subject>aesthetics experiment web-design rather-interesting</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:ceadd505a20b/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:aesthetics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:web-design"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://pages.ucsd.edu/~mckenzie/Lopes1991Theory&amp;Psychology.pdf">
    <title>[PDF] The Rhetoric of Irrationality</title>
    <dc:date>2019-03-03T12:17:02+00:00</dc:date>
    <link>https://pages.ucsd.edu/~mckenzie/Lopes1991Theory&amp;Psychology.pdf</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[The popularity of the `biases and heuristics' literature is examined critically in terms of the rhetorical factors that have mediated widely published claims that human judgment abilities are poor and even irrational. The logic of the original experiments is examined as well as the factors that cause that logic to be ambiguous and the implications of the experiments to be misrepresented. Questionable use of evaluative language in scientific articles and secondary gains to outside authors who spread the bias message are also examined.]]></description>
<dc:subject>cognition experiment planning heuristics models-and-modes via:? rather-interesting</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:6c9d002e0554/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:cognition"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:planning"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:heuristics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:models-and-modes"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:via:?"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://www.nature.com/articles/s41598-019-39558-8">
    <title>De novo origins of multicellularity in response to predation | Scientific Reports</title>
    <dc:date>2019-02-24T15:25:04+00:00</dc:date>
    <link>https://www.nature.com/articles/s41598-019-39558-8</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[The transition from unicellular to multicellular life was one of a few major events in the history of life that created new opportunities for more complex biological systems to evolve. Predation is hypothesized as one selective pressure that may have driven the evolution of multicellularity. Here we show that de novo origins of simple multicellularity can evolve in response to predation. We subjected outcrossed populations of the unicellular green alga Chlamydomonas reinhardtii to selection by the filter-feeding predator Paramecium tetraurelia. Two of five experimental populations evolved multicellular structures not observed in unselected control populations within ~750 asexual generations. Considerable variation exists in the evolved multicellular life cycles, with both cell number and propagule size varying among isolates. Survival assays show that evolved multicellular traits provide effective protection against predation. These results support the hypothesis that selection imposed by predators may have played a role in some origins of multicellularity.

]]></description>
<dc:subject>evolutionary-biology multicellularity major-transitions-in-evolution rather-interesting experiment to-write-about</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:de1e2c4ee667/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:evolutionary-biology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:multicellularity"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:major-transitions-in-evolution"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://link.springer.com/article/10.1007/s41965-018-00006-7">
    <title>Towards experimental P-systems using multivesicular liposomes | SpringerLink</title>
    <dc:date>2019-02-14T02:08:54+00:00</dc:date>
    <link>https://link.springer.com/article/10.1007/s41965-018-00006-7</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[P-systems are abstract computational models inspired by the phospholipid bilayer membranes generated by biological cells. Illustrated here is a mechanism by which recursive liposome structures (multivesicular liposomes) may be experimentally produced through electroformation of dipalmitoylphosphatidylcholine films for use in ‘real’ P-systems. We first present the electroformation protocol and microscopic characterisation of incident liposomes towards estimating the size of computing elements, level of internal compartment recursion, fault tolerance and stability. Following, we demonstrate multiple routes towards embedding symbols, namely modification of swelling solutions, passive diffusion, and microinjection. Finally, we discuss how computing devices based on P-systems can be produced and their current limitations.

]]></description>
<dc:subject>unconventional-computing molecular-machinery rather-interesting vesicular-computing experiment nanotechnology to-write-about to-simulate</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:1a04f7554a0c/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:unconventional-computing"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:molecular-machinery"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:vesicular-computing"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:nanotechnology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-simulate"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://www.pnas.org/content/early/2019/01/18/1815156116">
    <title>Enhancing human learning via spaced repetition optimization | PNAS</title>
    <dc:date>2019-02-08T15:33:59+00:00</dc:date>
    <link>https://www.pnas.org/content/early/2019/01/18/1815156116</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Understanding human memory has been a long-standing problem in various scientific disciplines. Early works focused on characterizing human memory using small-scale controlled experiments and these empirical studies later motivated the design of spaced repetition algorithms for efficient memorization. However, current spaced repetition algorithms are rule-based heuristics with hard-coded parameters, which do not leverage the automated fine-grained monitoring and greater degree of control offered by modern online learning platforms. In this work, we develop a computational framework to derive optimal spaced repetition algorithms, specially designed to adapt to the learners’ performance. A large-scale natural experiment using data from a popular language-learning online platform provides empirical evidence that the spaced repetition algorithms derived using our framework are significantly superior to alternatives.

]]></description>
<dc:subject>memory learning experiment actual-humans cognition machine-learning implications</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:88b5c023fb9e/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:memory"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:learning"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:actual-humans"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:cognition"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:machine-learning"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:implications"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://www.thenewatlantis.com/publications/why-data-is-never-raw">
    <title>Why Data Is Never Raw - The New Atlantis</title>
    <dc:date>2019-02-05T10:12:20+00:00</dc:date>
    <link>https://www.thenewatlantis.com/publications/why-data-is-never-raw</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[We tend to think of data as the raw material of evidence. Just as many substances, like sugar or oil, are transformed from a raw state to a processed state, data is subjected to a series of transformations before it can be put to use. Thus a distinction is sometimes made between “raw” data and processed data, with “raw data” often seen as a kind of ground truth, a “just the facts, ma’am” empirical starting point. For example, Lea Ypi, in Global Justice and Avant-Garde Political Agency (2012), critiques a common view of how argument proceeds in political theory, the idea that there is “a first, pre-interpretive, stage” at which “we are concerned with the identification of the raw data of interpretation.” According to this naive view, rival political theorists all begin with the same “basic, uncontroversial, sociological facts in need of critical scrutiny and interpretation.”

Although the idea of raw data is useful, it can also be misleading, because, as we’ve seen, even the initial collection of data already involves intentions, assumptions, and choices that amount to a kind of pre-processing. A related issue is that of how to handle seemingly bad data points. Digital instruments may identify certain measurements as faulty and automatically discard them (using error detection circuits and algorithms), or they may attempt to counter measurement error by combining multiple measurements (using averaging or other methods).

]]></description>
<dc:subject>social-construction-of-knowledge data-is-sin philosophy-of-science statistics public-policy experiment</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:1cea6f802ae6/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:social-construction-of-knowledge"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:data-is-sin"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:philosophy-of-science"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:statistics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:public-policy"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://deepmind.com/blog/grid-cells/">
    <title>Navigating with grid-like representations in artificial agents | DeepMind</title>
    <dc:date>2018-05-26T13:59:40+00:00</dc:date>
    <link>https://deepmind.com/blog/grid-cells/</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Most animals, including humans, are able to flexibly navigate the world they live in – exploring new areas, returning quickly to remembered places, and taking shortcuts. Indeed, these abilities feel so easy and natural that it is not immediately obvious how complex the underlying processes really are. In contrast, spatial navigation remains a substantial challenge for artificial agents whose abilities are far outstripped by those of mammals.

]]></description>
<dc:subject>ethology experiment artificial-life neural-networks to-write-about consider:nudge consider:pattern-libraries</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:5222a281ced1/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:ethology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:artificial-life"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:neural-networks"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:nudge"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:pattern-libraries"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://www.rifters.com/crawl/?p=7875">
    <title>No Moods, Ads or Cutesy Fucking Icons » Arc Weld</title>
    <dc:date>2018-03-25T15:39:02+00:00</dc:date>
    <link>http://www.rifters.com/crawl/?p=7875</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[There’s this gene, Arc, active in our neurons. It’s essential for cognition and longterm memory in mammals; knockout mice who lack it can’t remember from one day to the next where they left the cheese. It looks and acts an awful lot like something called a gag— a “group-specific antigen”, something which codes for the core structural proteins of retroviruses. Like a gag, Arc codes for a protein that assembles into  capsids (basically, shuttles containing messenger RNA). These accumulate in the dendrites, cross the synaptic junction in little vesicles: a payload from one neuron to another.
]]></description>
<dc:subject>via:mymarkup theoretical-biology experiment to-write-about neuroscience rather-interesting</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:2f0711460dc3/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:via:mymarkup"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:theoretical-biology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:neuroscience"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://pdfs.semanticscholar.org/d002/e03ee5f5d10c5e758f3e641e73bf0618ec2a.pdf">
    <title>Autonomous model protocell division driven by molecular replication (PDF)</title>
    <dc:date>2018-02-25T12:15:11+00:00</dc:date>
    <link>https://pdfs.semanticscholar.org/d002/e03ee5f5d10c5e758f3e641e73bf0618ec2a.pdf</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[The coupling of compartmentalisation with molecular replication is thought to be crucial for the emergence of the first evolvable chemical systems. Minimal artificial replicators have been designed based on molecular recognition, inspired by the template copying of DNA, but none yet have been coupled to compartmentalisation. Here, we present an oil-in-water droplet system comprising an amphiphilic imine dissolved in chloroform that catalyses its own formation by bringing together a hydrophilic and a hydrophobic precursor, which leads to repeated droplet division. We demonstrate that the presence of the amphiphilic replicator, by lowering the interfacial tension between droplets of the reaction mixture and the aqueous phase, causes them to divide. Periodic sampling by a droplet-robot demonstrates that the extent of fission is increased as the reaction progresses, producing more compartments with increased self-replication. This bridges a divide, showing how replication at the molecular level can be used to drive macroscale droplet fission.]]></description>
<dc:subject>origin-of-life experiment rather-interesting self-organization replicators to-write-about</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:6fba45e2a7d3/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:origin-of-life"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:self-organization"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:replicators"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://www.biorxiv.org/content/early/2016/08/18/070151?rss=1%2522">
    <title>Tracing co-regulatory network dynamics in noisy, single-cell transcriptome trajectories | bioRxiv</title>
    <dc:date>2017-10-03T11:01:27+00:00</dc:date>
    <link>https://www.biorxiv.org/content/early/2016/08/18/070151?rss=1%2522</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[The availability of gene expression data at the single cell level makes it possible to probe the molecular underpinnings of complex biological processes such as differentiation and oncogenesis. Promising new methods have emerged for reconstructing a progression 'trajectory' from static single-cell transcriptome measurements. However, it remains unclear how to adequately model the appreciable level of noise in these data to elucidate gene regulatory network rewiring. Here, we present a framework called Single Cell Inference of MorphIng Trajectoiries and their Associated Regulation (SCIMITAR) that infers progressions from static single-cell transcriptomes by employing a continuous parametrization of Gaussian mixtures in high-dimensional curves. SCIMITAR yields rich models from the data that highlight genes with expression and coexpression patterns that are associated with the inferred progression. Further, SCIMITAR extracts regulatory states from the implicated trajectory-evolving co-expression networks. We benchmark the method on simulated data to show that it yields accurate cell ordering and gene network inferences. Applied to the interpretation of a single-cell human fetal neuron dataset, SCIMITAR finds progression-associated genes in cornerstone neural differentiation pathways missed by standard differential expression tests. Finally, by leveraging the rewiring of gene-gene co-expression relations across the progression, the method reveals the rise and fall of co-regulatory states and trajectory-dependent gene modules. These analyses implicate new transcription factors in neural differentiation including putative co-factors for the multi-functional NFAT pathway.

]]></description>
<dc:subject>gene-regulatory-networks bioinformatics systems-biology rather-interesting modeling experiment nudge-targets consider:looking-to-see</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:2f149bc59c46/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:gene-regulatory-networks"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:bioinformatics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:systems-biology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:modeling"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:nudge-targets"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:looking-to-see"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://www.biorxiv.org/content/early/2017/07/20/166066?rss=1">
    <title>The cis-regulatory dynamics of embryonic development at single cell resolution | bioRxiv</title>
    <dc:date>2017-09-29T13:34:41+00:00</dc:date>
    <link>https://www.biorxiv.org/content/early/2017/07/20/166066?rss=1</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Single cell measurements of gene expression are providing new insights into lineage commitment, yet the regulatory changes underlying individual cell trajectories remain elusive. Here, we profiled chromatin accessibility in over 20,000 single nuclei across multiple stages of Drosophila embryogenesis. Our data reveal heterogeneity in the regulatory landscape prior to gastrulation that reflects anatomical position, a feature that aligns with future cell fate. During mid embryogenesis, tissue granularity emerges such that cell types can be inferred by their chromatin accessibility, while maintaining a signature of their germ layer of origin. We identify over 30,000 distal elements with tissue-specific accessibility. Using transgenic embryos, we tested the germ layer specificity of a subset of predicted enhancers, achieving near-perfect accuracy. Overall, these data demonstrate the power of shotgun single cell profiling of embryos to resolve dynamic changes in open chromatin during development, and to uncover the cis-regulatory programs of germ layers and cell types.

]]></description>
<dc:subject>cell-biology developmental-biology biological-engineering indistinguishable-from-magic to-understand systems-biology experiment</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:83f380dbc3b5/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:cell-biology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:developmental-biology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:biological-engineering"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:indistinguishable-from-magic"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-understand"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:systems-biology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1708.08134">
    <title>[1708.08134] Measuring social spam and the effect of bots on information diffusion in social media</title>
    <dc:date>2017-09-02T13:34:34+00:00</dc:date>
    <link>https://arxiv.org/abs/1708.08134</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Bots have been playing a crucial role in online platform ecosystems, as efficient and automatic tools to generate content and diffuse information to the social media human population. In this chapter, we will discuss the role of social bots in content spreading dynamics in social media. In particular, we will first investigate some differences between diffusion dynamics of content generated by bots, as opposed to humans, in the context of political communication, then study the characteristics of bots behind the diffusion dynamics of social media spam campaigns.
]]></description>
<dc:subject>social-media bots cultural-engineering propaganda experiment rather-interesting social-networks influence crowds</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:0765b453d3af/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:social-media"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:bots"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:cultural-engineering"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:propaganda"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:social-networks"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:influence"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:crowds"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1704.01565">
    <title>[1704.01565] Charging changes contact composition in binary sphere packings</title>
    <dc:date>2017-08-13T14:03:58+00:00</dc:date>
    <link>https://arxiv.org/abs/1704.01565</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Equal volume mixtures of small and large polytetrafluorethylene (PTFE) spheres are shaken in an atmosphere of controlled humidity which allows to also control their tribo-charging. We find that the contact numbers are charge-dependent: as the charge density of the beads increases, the number of same-type contacts decreases and the number of opposite-type contacts increases. This change is not caused by a global segregation of the sample. Hence, tribo-charging can be a way to tune the local composition of a granular material.
]]></description>
<dc:subject>packing condensed-matter looking-to-see experiment rather-interesting granular-materials to-write-about it's-more-complicated-than-you-think</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:1bd0c0af7328/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:packing"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:condensed-matter"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:looking-to-see"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:granular-materials"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:it's-more-complicated-than-you-think"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1607.00363">
    <title>[1607.00363] Using smartphone pressure sensors to measure vertical velocities of elevators, stairways, and drones</title>
    <dc:date>2017-08-13T14:00:58+00:00</dc:date>
    <link>https://arxiv.org/abs/1607.00363</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[We measure the vertical velocities of elevators, pedestrians climbing stairs, and drones (flying unmanned aerial vehicles), by means of smartphone pressure sensors. The barometric pressure obtained with the smartphone is related to the altitude of the device via the hydrostatic approximation. From the altitude values, vertical velocities are derived. The approximation considered is valid in the first hundred meters of the inner layers of the atmosphere. In addition to pressure, acceleration values were also recorded using the built-in accelerometer. Numerical integration was performed, obtaining both vertical velocity and altitude. We show that data obtained using the pressure sensor is significantly less noisy than that obtained using the accelerometer. Error accumulation is also evident in the numerical integration of the acceleration values. In the proposed experiments, the pressure sensor also outperforms GPS, because this sensor does not receive satellite signals indoors and, in general, the operating frequency is considerably lower than that of the pressure sensor. In the cases in which it is possible, comparison with reference values taken from the architectural plans of buildings validates the results obtained using the pressure sensor. This proposal is ideally performed as an external or outreach activity with students to gain insight about fundamental questions in mechanics, fluids, and thermodynamics.
]]></description>
<dc:subject>physics looking-to-see experiment rather-interesting want to-write-about to-do</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:3267aea1017f/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:physics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:looking-to-see"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:want"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-do"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1706.04791">
    <title>[1706.04791] Obstacle-shape effect in a two-dimensional granular silo flow field</title>
    <dc:date>2017-08-13T13:58:37+00:00</dc:date>
    <link>https://arxiv.org/abs/1706.04791</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[We conducted simple experiment and numerical simulation of two-dimensional granular discharge flow driven by gravity under the influence of an obstacle. According to the previous work (Zuriguel {\it et al.,\,Phys.\,Rev.\,Lett.}\,{\bf 107}: 278001, 2011), the clogging of granular discharge flow can be suppressed by putting a circular obstacle at a proper position. In order to investigate the details of obstacle effect in granular flow, we focused on particle dynamics in this study. From the experimental and numerical data, we found that the obstacle remarkably affects the horizontal-velocity distribution and packing fraction at the vicinity of the exit. In addition to the circular obstacle, we utilized triangular, inverted-triangular, and horizontal-bar obstacles to discuss the obstacle-shape effect in granular discharge flow. Based on the investigation of dynamical quantities such as velocity distributions, granular temperature, and volume fraction, we found that the triangular obstacle or horizontal bar could be very effective to prevent the clogging. From the obtained result, we consider that the detouring of particles around the obstacle and resultant low packing fraction at the exit region effectively prevent the clogging in a certain class of granular discharge flow.
]]></description>
<dc:subject>granular-materials looking-to-see experiment physics rather-interesting to-write-about</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:d6f39b60ae55/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:granular-materials"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:looking-to-see"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:physics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1706.08224">
    <title>[1706.08224] Do GANs actually learn the distribution? An empirical study</title>
    <dc:date>2017-07-09T11:28:53+00:00</dc:date>
    <link>https://arxiv.org/abs/1706.08224</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Do GANS (Generative Adversarial Nets) actually learn the target distribution? The foundational paper of (Goodfellow et al 2014) suggested they do, if they were given sufficiently large deep nets, sample size, and computation time. A recent theoretical analysis in Arora et al (to appear at ICML 2017) raised doubts whether the same holds when discriminator has finite size. It showed that the training objective can approach its optimum value even if the generated distribution has very low support ---in other words, the training objective is unable to prevent mode collapse. The current note reports experiments suggesting that such problems are not merely theoretical. It presents empirical evidence that well-known GANs approaches do learn distributions of fairly low support, and thus presumably are not learning the target distribution. The main technical contribution is a new proposed test, based upon the famous birthday paradox, for estimating the support size of the generated distribution.
]]></description>
<dc:subject>deep-learning neural-networks looking-to-see probability-theory algorithms experiment rather-interesting to-write-about</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:b77c7818207e/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:deep-learning"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:neural-networks"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:looking-to-see"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:probability-theory"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:algorithms"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1704.00347">
    <title>[1704.00347] Self-organization of charged particles in circular geometry</title>
    <dc:date>2017-06-17T12:20:08+00:00</dc:date>
    <link>https://arxiv.org/abs/1704.00347</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[The basic principles of self-organization of one-component charged particles, confined in disk and circular parabolic potentials, are proposed. A system of equations is derived, that allows us to determine equilibrium configurations for an arbitrary, but finite, number of charged particles that are distributed over several rings. Our approach reduces significantly the computational effort in minimizing the energy of equilibrium configurations and demonstrates a remarkable agreement with the values provided by molecular dynamics calculations. With the increase of particle number n>180 we find a steady formation of a centered hexagonal lattice that smoothly transforms to valence circular rings in the ground state configurations for both potentials.
]]></description>
<dc:subject>self-organization physics experiment simulation simplicity rather-interesting to-write-about pattern-formation stamp-collecting</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:72692d04b43e/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:self-organization"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:physics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:simulation"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:simplicity"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:pattern-formation"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:stamp-collecting"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1705.08429">
    <title>[1705.08429] The chemical bond as an emergent phenomenon</title>
    <dc:date>2017-06-17T11:59:52+00:00</dc:date>
    <link>https://arxiv.org/abs/1705.08429</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[We first argue that the covalent bond and the various closed-shell interactions can be thought of as symmetry broken versions of one and the same interaction, viz., the multi-center bond. We use specially chosen molecular units to show that the symmetry breaking is controlled by density and electronegativity variation. We show that the bond order changes with bond deformation but in a step-like fashion, regions of near constancy separated by electronic localization transitions. These will often cause displacive transitions as well so that the bond strength, order, and length are established self-consistently. We further argue on the inherent relation of the covalent, closed-shell, and multi-center interactions with ionic and metallic bonding. All of these interactions can be viewed as distinct sectors on a phase diagram with density and electronegativity variation as control variables; the ionic and covalent/secondary sectors are associated with on-site and bond-order charge density wave respectively, the metallic sectorwith an electronic fluid. While displaying a contiguity at low densities, the metallic and ionic interactions represent distinct phases separated by discontinuous transitions at sufficiently high densities. Multi-center interactions emerge as a hybrid of the metallic and ionic bond that results from spatial coexistence of delocalized and localized electrons. In the present description, the issue of the stability of a compound is that of mutual miscibility of electronic fluids with distinct degrees of electron localization, supra-atomic ordering in complex inorganic compounds comes about naturally. The notions of electronic localization advanced hereby suggest a high throughput, automated procedure for screening candidate compounds and structures with regard to stability, without the need for computationally costly geometric optimization.
]]></description>
<dc:subject>chemistry rather-interesting theoretical-chemistry emergence experiment to-write-about philosophy-of-science ontology</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:d6adbe4d72ff/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:chemistry"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:theoretical-chemistry"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:emergence"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:philosophy-of-science"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:ontology"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1705.00924">
    <title>[1705.00924] Split Packing: Algorithms for Packing Circles with Optimal Worst-Case Density</title>
    <dc:date>2017-06-11T12:00:50+00:00</dc:date>
    <link>https://arxiv.org/abs/1705.00924</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[In the circle packing problem for triangular containers, one asks whether a given set of circles can be packed into a given triangle. Packing problems like this have been shown to be 𝖭𝖯-hard. In this paper, we present a new sufficient condition for packing circles into any right or obtuse triangle using only the circles' combined area: It is possible to pack any circle instance whose combined area does not exceed the triangle's incircle. This area condition is tight, in the sense that for any larger area, there are instances which cannot be packed. 
A similar result for square containers has been established earlier this year, using the versatile, divide-and-conquer-based Split Packing algorithm. In this paper, we present a generalized, weighted version of this approach, allowing us to construct packings of circles into asymmetric triangles. It seems crucial to the success of these results that Split Packing does not depend on an orthogonal subdivision structure. Beside realizing all packings below the critical density bound, our algorithm can also be used as a constant-factor approximation algorithm when looking for the smallest non-acute triangle of a given side ratio in which a given set of circles can be packed. 
An interactive visualization of the Split Packing approach and other related material can be found at this https URL]]></description>
<dc:subject>packing computational-complexity computational-geometry experiment rather-interesting to-write-about</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:c53786facf11/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:packing"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:computational-complexity"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:computational-geometry"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/math/0608131">
    <title>[math/0608131] Many sets have more sums than differences</title>
    <dc:date>2017-06-11T10:48:36+00:00</dc:date>
    <link>https://arxiv.org/abs/math/0608131</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Since addition is commutative but subtraction is not, the sumset S+S of a finite set S is predisposed to be smaller than the difference set S-S. In this paper, however, we show that each of the three possibilities (|S+S|>|S-S|, |S+S|=|S-S|, |S+S|<|S-S|) occur for a positive proportion of the subsets of {0, 1, ..., n-1}. We also show that the difference |S+S| - |S-S| can take any integer value, and we show that the expected number of omitted differences is asymptotically 6 while the expected number of missing sums is asymptotically 10. Other data and conjectures on the distribution of these quantities are also given.]]></description>
<dc:subject>number-theory rather-interesting to-write-about experiment nudge-targets consider:feature-discovery</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:45d031ccff3b/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:number-theory"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:nudge-targets"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:feature-discovery"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://biorxiv.org/content/early/2017/04/13/127332?rss=1">
    <title>Intracellular metabolic circuits shape inter-species microbial interactions | bioRxiv</title>
    <dc:date>2017-04-25T10:25:19+00:00</dc:date>
    <link>http://biorxiv.org/content/early/2017/04/13/127332?rss=1</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Metabolite exchanges in microbial communities give rise to ecological interaction networks that influence ecosystem diversity and stability. These exchanges depend on complex intracellular pathways thus raising the question of whether ecological interactions are inferable from genomes. We address these questions by integrating genome-scale models of metabolism, to compute the fitness of interacting microbes, with evolutionary game theory, which uses these fitness values to infer evolutionarily stable interactions in multi-species microbial "games". After validating our approach using data on sucrose hydrolysis by S. cerevisiae, we performed over 80,000 in silico experiments to evaluate the rise of unidirectional and cross-feeding metabolic dependencies in populations of Escherichia coli secreting 189 amino acid pairs. We found that, despite the diversity of exchanged amino acids, most pairs conform to general patterns of inter-species interactions. However, several amino acid pairs deviate from these patterns due to pleiotropy and epistasis in metabolic pathways. To better understand the emergence of cross-feeding, we performed in silico invasion experiments and found possible evolutionary paths that could lead to such association. Overall, our study provides mechanistic insights into the rise of evolutionarily stable interdependencies, with important implications for biomedicine and microbiome engineering.

]]></description>
<dc:subject>theoretical-biology systems-biology community-formation experiment simulation microbiology rather-interesting to-write-about boundary-drawing open-systems</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:6dd8c9f36972/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:theoretical-biology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:systems-biology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:community-formation"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:simulation"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:microbiology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:boundary-drawing"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:open-systems"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1503.05756">
    <title>[1503.05756] Lattice Mechanics of Origami Tessellations</title>
    <dc:date>2017-04-23T10:31:32+00:00</dc:date>
    <link>https://arxiv.org/abs/1503.05756</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Origami-based design holds promise for developing materials whose mechanical properties are tuned by crease patterns introduced to thin sheets. Although there has been heuristic developments in constructing patterns with desirable qualities, the bridge between origami and physics has yet to be fully developed. To truly consider origami structures as a class of materials, methods akin to solid mechanics need to be developed to understand their long-wavelength behavior. We introduce here a lattice theory for examining the mechanics of origami tessellations in terms of the topology of their crease pattern and the relationship between the folds at each vertex. This formulation provides a general method for associating mechanical properties with periodic folded structures, and allows for a concrete connection between more conventional materials and the mechanical metamaterials constructed using origami-based design.
]]></description>
<dc:subject>origami engineering-design rather-interesting to-write-about metamaterials kinematics simulation experiment</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:8684b3ff5a73/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:origami"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:engineering-design"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:metamaterials"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:kinematics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:simulation"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1703.04792">
    <title>[1703.04792] Frustration and thermalisation in an artificial magnetic quasicrystal</title>
    <dc:date>2017-04-17T12:04:12+00:00</dc:date>
    <link>https://arxiv.org/abs/1703.04792</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[We have created and studied artificial magnetic quasicrystals based on Penrose tiling patterns of interacting nanomagnets that lack the translational symmetry of spatially periodic artificial spin ices. Vertex-level degeneracy and frustration induced by the network topology of the Penrose pattern leads to a low energy configuration that we propose as a ground state. It has two parts, a quasi-one-dimensional rigid "skeleton" that spans the entire pattern and is capable of long-range order, and clusters of macrospins within it that are degenerate in a nearest neighbour model, and so are "flippable". These lead to macroscopic degeneracy for the array as a whole. Magnetic force microscopy imaging of Penrose tiling arrays revealed superdomains that are larger for more strongly coupled arrays. The superdomain size is larger after AC-demagnetisation and especially after annealing the array above its blocking temperature.
]]></description>
<dc:subject>experiment frustrated-networks complexology quasicrystals looking-to-see rather-interesting</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:871598a61766/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:frustrated-networks"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:complexology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:quasicrystals"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:looking-to-see"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1611.10055">
    <title>[1611.10055] How bees and foams respond to curved confinement: level set boundary representations in the Surface Evolver</title>
    <dc:date>2017-03-24T21:38:23+00:00</dc:date>
    <link>https://arxiv.org/abs/1611.10055</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA["Ultimately, we believe that the strongly curved surface proved to much of a frustration to the bees…"]]></description>
<dc:subject>BEES! packing self-organization rather-interesting experiment soap-bubbles</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:7bfd65ee8e98/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:BEES!"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:packing"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:self-organization"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:soap-bubbles"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://search.arxiv.org:8081/paper.jsp?r=1408.0302&amp;qid=1490097869827ler_nCnN_397128995&amp;qs=%22recreational+math%22+OR+%22recreational+mathematics%22+OR+%22mathematical+recreations%22&amp;byDate=1">
    <title>[1408.0302] Imitative learning as a connector of collective brains</title>
    <dc:date>2017-03-23T23:42:19+00:00</dc:date>
    <link>http://search.arxiv.org:8081/paper.jsp?r=1408.0302&amp;qid=1490097869827ler_nCnN_397128995&amp;qs=%22recreational+math%22+OR+%22recreational+mathematics%22+OR+%22mathematical+recreations%22&amp;byDate=1</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[The notion that cooperation can aid a group of agents to solve problems more efficiently than if those agents worked in isolation is prevalent, despite the little quantitative groundwork to support it. Here we consider a primordial form of cooperation -- imitative learning -- that allows an effective exchange of information between agents, which are viewed as the processing units of a social intelligence system or collective brain. In particular, we use agent-based simulations to study the performance of a group of agents in solving a cryptarithmetic problem. An agent can either perform local random moves to explore the solution space of the problem or imitate a model agent -- the best performing agent in its influence network. There is a complex trade-off between the number of agents N and the imitation probability p, and for the optimal balance between these parameters we observe a thirtyfold diminution in the computational cost to find the solution of the cryptarithmetic problem as compared with the independent search. If those parameters are chosen far from the optimal setting, however, then imitative learning can impair greatly the performance of the group. The observed maladaptation of imitative learning for large N offers an alternative explanation for the group size of social animals.
]]></description>
<dc:subject>collective-intelligence agent-based wisdom-of-crowds rather-interesting experiment simulation to-write-about</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:2cb45064ce93/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:collective-intelligence"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:agent-based"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:wisdom-of-crowds"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:simulation"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1204.1749">
    <title>[1204.1749] Robust Soldier Crab Ball Gate</title>
    <dc:date>2017-03-05T22:16:22+00:00</dc:date>
    <link>https://arxiv.org/abs/1204.1749</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Soldier crabs Mictyris guinotae exhibit pronounced swarming behaviour. The swarms of the crabs tolerant of perturbations. In computer models and laboratory experiments we demonstrate that swarms of soldier crabs can implement logical gates when placed in a geometrically constrained environment.
]]></description>
<dc:subject>via:futility-closet biologically-inspired biological-engineering collective-behavior unconventional-computing swarms experiment simulation artificial-life</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:dbd111032f3f/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:via:futility-closet"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:biologically-inspired"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:biological-engineering"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:collective-behavior"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:unconventional-computing"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:swarms"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:simulation"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:artificial-life"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://biorxiv.org/content/early/2016/12/26/096792?rss=1%2522">
    <title>A highly parallel strategy for storage of digital information in living cells | bioRxiv</title>
    <dc:date>2017-02-04T11:35:36+00:00</dc:date>
    <link>http://biorxiv.org/content/early/2016/12/26/096792?rss=1%2522</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Encoding arbitrary digital information in DNA has attracted attention as a potential avenue for large scale and long term data storage. However, in order to enable DNA data storage technologies there needs to be improvements in data storage fidelity (tolerance to mutation), the facility of writing and reading the data (biases and systematic error arising from synthesis and sequencing), and overall scalability. To this end, we have developed and implemented an encoding scheme that is suitable for detecting and correcting errors that may arise during storage, writing, and reading, such as those arising from nucleotide substitutions, insertions, and deletions. We propose a scheme for parallelized long term storage of encoded sequences that relies on overlaps rather than the address blocks found in previously published work. Using computer simulations, we illustrate the encoding, sequencing, decoding, and recovery of encoded information, ultimately demonstrating the possibility of a successful round-trip read/write. These demonstrations show that in theory a precise control over error tolerance is possible. Even after simulated degradation of DNA, recovery of original data is possible owing to the error correction capabilities built into the encoding strategy. A secondary advantage of our method is that the statistical characteristics (such as repetitiveness and GC-composition) of encoded sequences can also be tailored without sacrificing the overall ability to store large amounts of data. Finally, the combination of the overlap-based partitioning of data with the LZMA compression that is integral to encoding means that the entire sequence must be present for successful decoding. This feature enables inordinately strong encryptions. As a potential application, an encrypted pathogen genome could be could be distributed and carried by cells without danger of being expressed, and could not even be read out in the absence of the entire DNA consortium.

]]></description>
<dc:subject>biological-engineering information-theory experiment synthetic-biology to-write-about</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:4187bfa58988/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:biological-engineering"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:information-theory"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:synthetic-biology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1610.04171">
    <title>[1610.04171] Cuddling Ellipsoids: Densest local structures of uniaxial ellipsoids</title>
    <dc:date>2016-12-28T12:00:50+00:00</dc:date>
    <link>https://arxiv.org/abs/1610.04171</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Connecting the collective behavior of disordered systems with local structure on the particle scale is an important challenge, for example in granular and glassy systems. Compounding complexity, in many scientific and industrial applications, particles are polydisperse, aspherical or even of varying shape. Here, we investigate a generalization of the classical kissing problem in order to understand the local building blocks of packings of aspherical grains. We numerically determine the densest local structures of uniaxial ellipsoids by minimizing the Set Voronoi cell volume around a given particle. Depending on the particle aspect ratio, different local structures are observed and classified by symmetry and Voronoi coordination number. In extended disordered packings of frictionless particles, knowledge of the densest structures allows to rescale the Voronoi volume distributions onto the single-parameter family of k-Gamma distributions. Moreover, we find that approximate icosahedral clusters are found in random packings, while the optimal local structures for more aspherical particles are not formed.
]]></description>
<dc:subject>packing computational-geometry physics! granular-materials experiment rather-interesting simulation nudge-targets consider:looking-to-see consider:representation</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:9746d5f80e6d/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:packing"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:computational-geometry"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:physics!"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:granular-materials"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:simulation"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:nudge-targets"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:looking-to-see"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:representation"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1602.05627">
    <title>[1602.05627] The sands of time run faster near the end</title>
    <dc:date>2016-12-28T01:49:21+00:00</dc:date>
    <link>https://arxiv.org/abs/1602.05627</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Submerged granular hoppers exhibit an unexpected surge in discharge rate as they empty [Wilson et al. 2015]. With a more sensitive apparatus, we find that this surge depends on hopper diameter and also happens in air --- though the effect is smaller and previously unnoticed. We also find that the surge may be turned off by fixing the rate of fluid flow through the granular packing. With no flow control, dye injected on top of the packing gets drawn into the grains, at a rate that increases as the hopper empties. Thus we conclude that the surge is caused by a self-generated pumping of fluid through the packing. We successfully model this effect via a driving pressure set by the dilation of grains as they exit. This highlights a surprising and unrecognized role that interstitial fluid plays in setting the discharge rate, and likely also in controlling clog formation, for granular hoppers whether in air or under water.
]]></description>
<dc:subject>granular-materials physics! experiment rather-interesting fluid-dynamics</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:ab0b89d6fc00/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:granular-materials"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:physics!"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:fluid-dynamics"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="https://arxiv.org/abs/1605.06716">
    <title>[1605.06716] A geometric-Structure Theory for maximally Random Jammed Packings</title>
    <dc:date>2016-12-25T23:12:55+00:00</dc:date>
    <link>https://arxiv.org/abs/1605.06716</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Maximally random jammed (MRJ) particle packings can be viewed as prototypical glasses in that they are maximally disordered while simultaneously being mechanically rigid. The prediction of the MRJ packing density phi, among other packing properties of frictionless particles, still poses many theoretical challenges, even for congruent spheres or disks. Using the geometric-structure approach, we derive for the first time a highly accurate formula for MRJ densities for a very wide class of twodimensional frictionless packings, namely, binary convex superdisks, with shapes that continuously interpolate between circles and squares.
]]></description>
<dc:subject>packing experiment simulation physics! phase-transitions condensed-matter nudge-targets consider:feature-discovery</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:ff3893431a2f/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:packing"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:simulation"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:physics!"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:phase-transitions"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:condensed-matter"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:nudge-targets"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:feature-discovery"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://biorxiv.org/content/early/2016/12/03/091298?rss=1%2522">
    <title>Compositional Inductive Biases in Function Learning | bioRxiv</title>
    <dc:date>2016-12-17T19:07:45+00:00</dc:date>
    <link>http://biorxiv.org/content/early/2016/12/03/091298?rss=1%2522</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[How do people recognize and learn about complex functional structure? Taking inspiration from other areas of cognitive science, we propose that this is achieved by harnessing compositionality: complex structure is decomposed into simpler building blocks. We formalize this idea within the framework of Bayesian regression using a grammar over Gaussian process kernels, and compare this approach with other structure learning approaches. Participants consistently chose compositional (over non-compositional) extrapolations and interpolations of functions. Experiments designed to elicit priors over functional patterns revealed an inductive bias for compositional structure. Compositional functions were perceived as subjectively more predictable than non-compositional functions, and exhibited other signatures of predictability, such as enhanced memorability and reduced numerosity. Taken together, these results support the view that the human intuitive theory of functions is inherently compositional.

]]></description>
<dc:subject>psychology statistics rather-interesting pattern-discovery cognition modeling-is-not-mathematics experiment generative-models nudge-targets consider:looking-to-see consider:classification</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:6055a0cc2617/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:psychology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:statistics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:pattern-discovery"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:cognition"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:modeling-is-not-mathematics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:generative-models"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:nudge-targets"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:looking-to-see"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:classification"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://biorxiv.org/content/early/2016/12/03/091389?rss=1%2522">
    <title>Exploring the mutational robustness of nucleic acids by searching genotype neighbourhoods in sequence space | bioRxiv</title>
    <dc:date>2016-12-17T13:53:57+00:00</dc:date>
    <link>http://biorxiv.org/content/early/2016/12/03/091389?rss=1%2522</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[To assess the mutational robustness of nucleic acids, many genome- and protein-level studies have been performed; in these investigations, nucleic acids are treated as genetic information carriers and transferrers. However, the molecular mechanism through which mutations alter the structural, dynamic and functional properties of nucleic acids is poorly understood. Here, we performed SELEX in silico study to investigate the fitness distribution of the nucleic acid genotype neighborhood in a sequence space for L-Arm binding aptamer. Although most mutants of the L-Arm-binding aptamer failed to retain their ligand-binding ability, two novel functional genotype neighborhoods were isolated by SELEX in silico and experimentally verified to have similar binding affinity (Kd = 69.3 μM and 110.7 μM) as the wild-type aptamer (Kd = 114.4 μM). Based on data from the current study and previous research, mutational robustness is strongly influenced by the local base environment and ligand-binding mode, whereas bases distant from the binding pocket provide potential evolutionary pathways to approach global fitness maximum. Our work provides an example of successful application of SELEX in silico to optimize an aptamer and demonstrates the strong sensitivity of mutational robustness to the site of genetic variation.

]]></description>
<dc:subject>biophysics structural-biology fitness-landscapes combinatorial-libraries aptamers rather-interesting to-write-about experiment</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:f84e913f3f8f/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:biophysics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:structural-biology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:fitness-landscapes"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:combinatorial-libraries"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:aptamers"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:to-write-about"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://arxiv.org/abs/1606.01241">
    <title>[1606.01241] A Better Method for Volume Determination of Regularly and Irregularly Shaped Nanoparticles with Enhanced Accuracy</title>
    <dc:date>2016-07-27T01:19:17+00:00</dc:date>
    <link>http://arxiv.org/abs/1606.01241</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Nanoparticles (NPs) are widely used in diverse application areas, such as medicine, engineering, and cosmetics. The size (or volume) of NPs is one of the most important parameters for their successful application. It is relatively straightforward to determine the volume of regular NPs such as spheres and cubes from a one-dimensional or two-dimensional measurement. However, due to the three-dimensional nature of NPs, it is challenging to determine the proper physical size of many types of regularly and irregularly-shaped NPs (IS-NPs) at high-throughput using a single tool. Here, we present a relatively simple method that statistically determines a better volume estimate of many types of NPs by combining measurements from their top-down projection areas and peak-heights using two tools. The proposed method is significantly faster and more economical than the electron tomography method. We demonstrate the improved accuracy of the combined method over scanning electron microscopy (SEM) and atomic force microscopy (AFM) by using both modeling and measurements. This study also shows that SEM provides a more accurate estimate of size than AFM for most IS-NP size measurements. The method provides a much needed, proper high-throughput volumetric measurement method useful for many applications.
]]></description>
<dc:subject>measurement approximation rather-interesting metrology experiment nanotechnology engineering nudge-targets consider:looking-to-see algorithms</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:28d998de191d/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:measurement"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:approximation"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:metrology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:nanotechnology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:engineering"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:nudge-targets"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:looking-to-see"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:algorithms"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://arxiv.org/abs/1606.06563">
    <title>[1606.06563] Active micromachines: Microfluidics powered by mesoscale turbulence</title>
    <dc:date>2016-07-25T12:01:35+00:00</dc:date>
    <link>http://arxiv.org/abs/1606.06563</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Dense active matter, from bacterial suspensions and microtubule bundles driven by motor proteins to cellular monolayers and synthetic Janus particles, is characterised by mesoscale turbulence, the emergence of chaotic flow structures. By immersing an ordered array of symmetric rotors in an active fluid, we introduce a microfluidic system that exploits spontaneous symmetry breaking in mesoscale turbulence to generate work. The lattice of rotors self-organises into a spin-state where neighbouring discs continuously rotate in permanent alternating directions due to combined hydrodynamic and elastic effects. Our virtual prototype demonstrates a new research direction for the design of micromachines powered by the nematohydrodynamic properties of active turbulence.
]]></description>
<dc:subject>fluid-dynamics microfluidics nanotechnology engineering-design experiment rather-interesting</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:a8e33f50dbff/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:fluid-dynamics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:microfluidics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:nanotechnology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:engineering-design"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://arxiv.org/abs/1607.06183">
    <title>[1607.06183] Natural selection in the colloid world: Active chiral spirals</title>
    <dc:date>2016-07-24T01:49:56+00:00</dc:date>
    <link>http://arxiv.org/abs/1607.06183</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[We present a model system in which to study natural selection in the colloid world. In the assembly of active Janus particles into rotating pinwheels when mixed with trace amounts of homogeneous colloids in the presence of an AC electric field, broken symmetry in the rotation direction produces spiral, chiral shapes. Locked into a central rotation point by the center particle, the spiral arms are found to trail rotation of the overall cluster. To achieve a steady state, the spiral arms undergo an evolutionary process to coordinate their motion. Because all the particles as segments of the pinwheel arms are self-propelled, asymmetric arm lengths are tolerated. Reconfiguration of these structures can happen in various ways and various mechanisms of this directed structural change are analyzed in detail. We introduce the concept of VIP (very important particles) to express that sustainability of active structures is most sensitive to only a few particles at strategic locations in the moving self-assembled structures.
]]></description>
<dc:subject>self-organization self-assembly spiral-waves nonlinear-dynamics complexology rather-interesting experiment</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:43108ce48a03/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:self-organization"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:self-assembly"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:spiral-waves"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:nonlinear-dynamics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:complexology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://arxiv.org/abs/1604.05978">
    <title>[1604.05978] A topological insight into restricted Boltzmann machines</title>
    <dc:date>2016-07-22T11:06:49+00:00</dc:date>
    <link>http://arxiv.org/abs/1604.05978</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Restricted Boltzmann Machines (RBMs) and models derived from them have been successfully used as basic building blocks in deep artificial neural networks for automatic features extraction, unsupervised weights initialization, but also as density estimators. Thus, their generative and discriminative capabilities, but also their computational time are instrumental to a wide range of applications. Our main contribution is to look at RBMs from a topological perspective, bringing insights from network science. Firstly, here we show that RBMs and Gaussian RBMs (GRBMs) are bipartite graphs which naturally have a small-world topology. Secondly, we demonstrate both on synthetic and real-world datasets that by constraining RBMs and GRBMs to a scale-free topology (while still considering local neighborhoods and data distribution), we reduce the number of weights that need to be computed by a few orders of magnitude, at virtually no loss in generative performance. Thirdly, we show that, for a fixed number of weights, our proposed sparse models (which by design have a higher number of hidden neurons) achieve better generative capabilities than standard fully connected RBMs and GRBMs (which by design have a smaller number of hidden neurons), at no additional computational costs.
]]></description>
<dc:subject>machine-learning algorithms experiment neural-networks restricted-boltzmann-machines self-organization</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:f5434d9ed27b/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:machine-learning"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:algorithms"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:neural-networks"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:restricted-boltzmann-machines"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:self-organization"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://arxiv.org/abs/1607.05688">
    <title>[1607.05688] Towards 'smart lasers': self-optimisation of an ultrafast pulse source using a genetic algorithm</title>
    <dc:date>2016-07-22T10:27:27+00:00</dc:date>
    <link>http://arxiv.org/abs/1607.05688</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Short-pulse fibre lasers are a complex dynamical system possessing a broad space of operating states that can be accessed through control of cavity parameters. Determination of target regimes is a multi-parameter global optimisation problem. Here, we report the implementation of a genetic algorithm to intelligently locate optimum parameters for stable single-pulse mode-locking in a Figure-8 fibre laser, and fully automate the system turn-on procedure. Stable ultrashort pulses are repeatably achieved by employing a compound fitness function that monitors both temporal and spectral output properties of the laser. Our method of encoding photonics expertise into an algorithm and applying machine-learning principles paves the way to self-optimising `smart' optical technologies.
]]></description>
<dc:subject>physics lasers rather-interesting experiment evolutionary-algorithms engineering-design adaptive-control</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:0c234c1985bf/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:physics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:lasers"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:evolutionary-algorithms"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:engineering-design"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:adaptive-control"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://biorxiv.org/content/early/2016/05/26/055624">
    <title>Could a neuroscientist understand a microprocessor? | bioRxiv</title>
    <dc:date>2016-05-28T21:04:34+00:00</dc:date>
    <link>http://biorxiv.org/content/early/2016/05/26/055624</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[There is a popular belief in neuroscience that we are primarily data limited, that producing large, multimodal, and complex datasets will, enabled by data analysis algorithms, lead to fundamental insights into the way the brain processes information. Microprocessors are among those artificial information processing systems that are both complex and that we understand at all levels, from the overall logical flow, via logical gates, to the dynamics of transistors. Here we take a simulated classical microprocessor as a model organism, and use our ability to perform arbitrary experiments on it to see if popular data analysis methods from neuroscience can elucidate the way it processes information. We show that the approaches reveal interesting structure in the data but do not meaningfully describe the hierarchy of information processing in the processor. This suggests that current approaches in neuroscience may fall short of producing meaningful models of the brain.

]]></description>
<dc:subject>via:numerous neural-networks inference modeling experiment rather-interesting big-data bioinformatics looking-to-see</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:cd7d452bf53f/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:via:numerous"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:neural-networks"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:inference"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:modeling"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:big-data"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:bioinformatics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:looking-to-see"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://arxiv.org/abs/1605.03373">
    <title>[1605.03373] Nonlinear decoding of a complex movie from the mammalian retina</title>
    <dc:date>2016-05-13T11:13:54+00:00</dc:date>
    <link>http://arxiv.org/abs/1605.03373</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Retinal circuitry transforms spatiotemporal patterns of light into spiking activity of ganglion cells, which provide the sole visual input to the brain. Recent advances have led to a detailed characterization of retinal activity and stimulus encoding by large neural populations. The inverse problem of decoding, where the stimulus is reconstructed from spikes, has received less attention, in particular for complex input movies that should be reconstructed "pixel-by-pixel". We recorded around a hundred neurons from a dense patch in a rat retina and decoded movies of multiple small discs executing mutually-avoiding random motions. We constructed nonlinear (kernelized) decoders that improved significantly over linear decoding results, mostly due to their ability to reliably separate between neural responses driven by locally fluctuating light signals, and responses at locally constant light driven by spontaneous or network activity. This improvement crucially depended on the precise, non-Poisson temporal structure of individual spike trains, which originated in the spike-history dependence of neural responses. Our results suggest a general paradigm in which downstream neural circuitry could discriminate between spontaneous and stimulus-driven activity on the basis of higher-order statistical structure intrinsic to the incoming spike trains.
]]></description>
<dc:subject>neurology physiology experiment inverse-problems rather-interesting cognition nudge-targets consider:looking-to-see data-analysis</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:9b587cbf7067/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:neurology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:physiology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:inverse-problems"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:cognition"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:nudge-targets"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:looking-to-see"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:data-analysis"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://arxiv.org/abs/1512.05180">
    <title>[1512.05180] Failure Mechanism of True 2D Granular Flows</title>
    <dc:date>2016-03-29T11:54:10+00:00</dc:date>
    <link>http://arxiv.org/abs/1512.05180</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Most previous experimental investigations of two-dimensional (2D) granular column collapses have been conducted using three-dimensional (3D) granular materials in narrow horizontal channels (i.e., quasi-2D condition). Our recent research on 2D granular column collapses by using 2D granular materials (i.e., aluminum rods) has revealed results that differ markedly from those reported in the literature. We assume a 2D column with an initial height of h0 and initial width of d0, a defined as their ratio (a =h0/d0), a final height of h , and maximum run-out distance of d . The experimental data suggest that for the low a regime (a <0.65) the ratio of the final height to initial height is 1. However, for the high a regime (a >0.65), the ratio of a to (d-d0)/d0, h0/h , or d/d0 is expressed by power-law relations. In particular, the following power-function ratios (h0/h=1.42a^2/3 and d/d0=4.30a^0.72) are proposed for every a >0.65. In contrast, the ratio (d-d0)/d0=3.25a^0.96 only holds for 0.65< a< 1.5, whereas the ratio (d-d0)/d0=3.80a^0.73 holds for a>1.5. In addition, the influence of ground contact surfaces (hard or soft beds) on the final run-out distance and destruction zone of the granular column under true 2D conditions is investigated.
]]></description>
<dc:subject>physics granular-materials condensed-matter rather-interesting experiment</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:c092b3b910a3/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:physics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:granular-materials"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:condensed-matter"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://arxiv.org/abs/1603.07610v1">
    <title>[1603.07610v1] Going Out of Business: Auction House Behavior in the Massively Multi-Player Online Game</title>
    <dc:date>2016-03-27T15:13:25+00:00</dc:date>
    <link>http://arxiv.org/abs/1603.07610v1</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[The in-game economies of massively multi-player online games (MMOGs) are complex systems that have to be carefully designed and managed. This paper presents the results of an analysis of auction house data from the MMOG Glitch, across a 14 month time period, the entire lifetime of the game. The data comprise almost 3 million data points, over 20,000 unique players and more than 650 products. Furthermore, an interactive visualization, based on Sankey flow diagrams, is presented which shows the proportion of the different clusters across each time bin, as well as the flow of players between clusters. The diagram allows evaluation of migration of players between clusters as a function of time, as well as churn analysis. The presented work provides a template analysis and visualization model for progression-based or temporal-based analysis of player behavior broadly applicable to games.
]]></description>
<dc:subject>experiment economics rather-interesting MMORPG games network-theory visualization nice</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:b7e4367e3415/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:economics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:MMORPG"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:games"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:network-theory"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:visualization"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:nice"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://arxiv.org/abs/1510.05500">
    <title>[1510.05500] Capillary Interactions on Fluid Interfaces: Opportunities for Directed Assembly</title>
    <dc:date>2016-02-25T11:29:20+00:00</dc:date>
    <link>http://arxiv.org/abs/1510.05500</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[A particle placed in soft matter distorts its host and creates an energy landscape. This can occur, for example, for particles in liquid crystals, for particles on lipid bilayers or for particles trapped at fluid interfaces. Such energies can be used to direct particles to assemble with remarkable degrees of control over orientation and structure. These notes explore that concept for capillary interactions, beginning with particle trapping at fluid interfaces, addressing pair interactions on planar interfaces and culminating with curvature capillary migration. Particular care is given to the solution of the associated boundary value problems to determine the energies of interaction. Experimental exploration of these interactions on planar and curved interfaces is described. Theory and experiment are compared. These interactions provide a rich toolkit for directed assembly of materials, and, owing to their close analogy to related systems, pave the way to new explorations in materials science.
]]></description>
<dc:subject>self-assembly soft-matter nanotechnology microfluidics rather-interesting experiment engineering-design</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:4fa731cf0b7b/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:self-assembly"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:soft-matter"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:nanotechnology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:microfluidics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:engineering-design"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://arxiv.org/abs/1512.00268">
    <title>[1512.00268] Chromatin assortativity: integrating epigenomic data and 3D genomic structure</title>
    <dc:date>2016-02-25T11:23:58+00:00</dc:date>
    <link>http://arxiv.org/abs/1512.00268</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Background: The field of 3D chromatin interaction mapping is changing our point of view on the genome, paving the way for new insights into its organization. Network analysis is a natural and powerful way of modelling chromatin interactions. Assortativity is a network property that has been widely used in the social sciences to measure the probability of nodes with similar values of a specific feature to interact preferentially. We propose a new approach, using Chromatin feature Assortativity (ChAs), to integrate the epigenomic landscape of a specific cell type with its chromatin interaction network. Results: We use high-resolution Promoter Capture Hi-C and Hi-Cap data as well as ChIA-PET data from embryonic stem cells to generate promoter-centered interaction networks. We calculate the presence of a collection of 78 chromatin features in the chromatin fragments constituting the nodes of the network. Based on the ChAs of these epigenomic features calculated in 4 different interaction networks, we find Polycomb Group proteins and associated histone marks to play a prominent role. Remarkably, in promoter-centered networks, we observe higher ChAs of the actively elongating form of RNA Polymerase 2 compared to inactive forms in interactions between promoters and other elements. Conclusions: Contacts amongst promoters and between promoters and other elements have different characteristic epigenomic features. Using ChAs we identify a possible role of the elongating form of RNAPII in enhancer activity. Our approach facilitates the study of multiple genome-wide epigenomic profiles, considering network topology and allowing for the comparison of any number of chromatin interaction networks.
]]></description>
<dc:subject>bioinformatics structural-biology it's-more-complicated-than-you-think supramolecular-complex cell-biology molecular-machinery experiment</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:d7eadedfcdd2/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:bioinformatics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:structural-biology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:it's-more-complicated-than-you-think"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:supramolecular-complex"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:cell-biology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:molecular-machinery"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://arxiv.org/abs/1509.05226">
    <title>[1509.05226] Investigation of asymmetry in E. coli growth rate</title>
    <dc:date>2016-01-03T13:21:50+00:00</dc:date>
    <link>http://arxiv.org/abs/1509.05226</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[The data we analyze derives from the observation of numerous cells of the bacterium Escherichia coli (E. coli) growing and dividing. Single cells grow and divide to give birth to two daughter cells, that in turn grow and divide. Thus, a colony of cells from a single ancestor is structured as a binary genealogical tree. At each node the measured data is the growth rate of the bacterium. In this paper, we study two different data sets. One set corresponds to small complete trees, whereas the other one corresponds to long specific sub-trees. Our aim is to compare both sets. This paper is accessible to post graduate students and readers with advanced knowledge in statistics.
]]></description>
<dc:subject>microbiology experiment cell-biology rather-interesting consider:simulation nudge-targets</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:eb0c0d9c1436/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:microbiology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:cell-biology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:consider:simulation"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:nudge-targets"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://arxiv.org/abs/1512.03443">
    <title>[1512.03443] Scalable Modeling of Conversational-role based Self-presentation Characteristics in Large Online Forums</title>
    <dc:date>2015-12-28T14:19:11+00:00</dc:date>
    <link>http://arxiv.org/abs/1512.03443</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[Online discussion forums are complex webs of overlapping subcommunities (macrolevel structure, across threads) in which users enact different roles depending on which subcommunity they are participating in within a particular time point (microlevel structure, within threads). This sub-network structure is implicit in massive collections of threads. To uncover this structure, we develop a scalable algorithm based on stochastic variational inference and leverage topic models (LDA) along with mixed membership stochastic block (MMSB) models. We evaluate our model on three large-scale datasets, Cancer-ThreadStarter (22K users and 14.4K threads), Cancer-NameMention(15.1K users and 12.4K threads) and StackOverFlow (1.19 million users and 4.55 million threads). Qualitatively, we demonstrate that our model can provide useful explanations of microlevel and macrolevel user presentation characteristics in different communities using the topics discovered from posts. Quantitatively, we show that our model does better than MMSB and LDA in predicting user reply structure within threads. In addition, we demonstrate via synthetic data experiments that the proposed active sub-network discovery model is stable and recovers the original parameters of the experimental setup with high probability.
]]></description>
<dc:subject>social-norms social-networks community community-formation rather-interesting sociology experiment</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:f486d4c2b1d1/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:social-norms"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:social-networks"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:community"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:community-formation"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:rather-interesting"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:sociology"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
</rdf:Bag></taxo:topics>
</item>
<item rdf:about="http://arxiv.org/abs/1507.00530">
    <title>[1507.00530] On-chip Maxwell's demon as an information-powered refrigerator</title>
    <dc:date>2015-12-23T12:40:37+00:00</dc:date>
    <link>http://arxiv.org/abs/1507.00530</link>
    <dc:creator>Vaguery</dc:creator><description><![CDATA[We present an experimental realization of an autonomous Maxwell's Demon, which extracts microscopic information from a System and reduces its entropy by applying feedback. It is based on two capacitively coupled single electron devices, both integrated on the same electronic circuit. This setup allows a detailed analysis of the thermodynamics of both the Demon and the System as well as their mutual information exchange. The operation of the Demon is directly observed as a temperature drop in the System. We also observe a simultaneous temperature rise in the Demon arising from the thermodynamic cost of generating the mutual information.
]]></description>
<dc:subject>the-fyoochoor thermodynamics information-theory experiment engineering-design well-there-it-is-then</dc:subject>
<dc:source>https://pinboard.in/</dc:source>
<dc:identifier>https://pinboard.in/u:Vaguery/b:c8dde76817ca/</dc:identifier>
<taxo:topics><rdf:Bag>	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:the-fyoochoor"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:thermodynamics"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:information-theory"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:experiment"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:engineering-design"/>
	<rdf:li rdf:resource="https://pinboard.in/u:Vaguery/t:well-there-it-is-then"/>
</rdf:Bag></taxo:topics>
</item>
</rdf:RDF>