cicyt UNIZAR

Quantitative Biology

Authors and titles for recent submissions

[ total of 52 entries: 1-50 | 51-52 ]
[ showing 50 entries per page: fewer | more | all ]

Tue, 20 Mar 2018

[1]  arXiv:1803.06873 [pdf]
Title: The eBDIMS path-sampling server: generation, classification and interactive visualization of protein ensembles and transition pathways in 2D-motion space
Subjects: Biomolecules (q-bio.BM)
[2]  arXiv:1803.06740 [pdf]
Title: Metabolomic signature of type 1 diabetes-induced sensory loss and nerve damage in diabetic neuropathy
Comments: 17 pages, 3 figures
Subjects: Cell Behavior (q-bio.CB); Tissues and Organs (q-bio.TO)
[3]  arXiv:1803.06699 [pdf]
Title: Eshel Ben-Jacob: A unique individual in the science of collective phenomena
Authors: Herbert Levine
Comments: based on a meeting talk in June 2015; published in Landscapes of Collectivity, MIT Press this https URL
Subjects: Other Quantitative Biology (q-bio.OT); Cell Behavior (q-bio.CB)
[4]  arXiv:1803.06622 [pdf, other]
Title: Learning recurrent dynamics in spiking networks
Subjects: Neurons and Cognition (q-bio.NC); Artificial Intelligence (cs.AI); Learning (cs.LG); Neural and Evolutionary Computing (cs.NE)
[5]  arXiv:1803.06520 [pdf, other]
Title: Analysis of Triplet Motifs in Biological Signed Oriented Graphs Suggests a Relationship Between Fine Topology and Function
Subjects: Molecular Networks (q-bio.MN)
[6]  arXiv:1803.06410 [pdf, other]
Title: Accurate evaluation of size and refractive index for spherical objects in quantitative phase imaging
Comments: 14 pages, 10 figures, 1 table
Subjects: Quantitative Methods (q-bio.QM); Biological Physics (physics.bio-ph)
[7]  arXiv:1803.07063 (cross-list from physics.bio-ph) [pdf, other]
Title: Quantized Dehydration and the Determinants of Selectivity in the NaChBac Bacterial Sodium Channel
Comments: 13 pages 7 figure + Supplemental Information
Subjects: Biological Physics (physics.bio-ph); Biomolecules (q-bio.BM)
[8]  arXiv:1803.06935 (cross-list from physics.soc-ph) [pdf]
Title: Mathematical Analysis of Anthropogenic Signatures: The Great Deceleration
Authors: Ron W. Nielsen
Comments: 30 pages, 31 figures, 2 tables, 8991 words
Subjects: Physics and Society (physics.soc-ph); Populations and Evolution (q-bio.PE)
[9]  arXiv:1803.06544 (cross-list from cond-mat.soft) [pdf, ps, other]
Title: Long ligands reinforce biological adhesion under shear flow
Subjects: Soft Condensed Matter (cond-mat.soft); Biological Physics (physics.bio-ph); Cell Behavior (q-bio.CB)
[10]  arXiv:1803.06393 (cross-list from stat.AP) [pdf, other]
Title: Phylogeny-based tumor subclone identification using a Bayesian feature allocation model
Comments: 35 pages, 11 figures
Subjects: Applications (stat.AP); Tissues and Organs (q-bio.TO)

Mon, 19 Mar 2018

[11]  arXiv:1803.06180 [pdf]
Title: Heterogeneity of Synaptic Input Connectivity Regulates Spike-based Neuronal Avalanches
Comments: 34 pages, 9 figures, 4 supplemental figures, 1 table
Subjects: Neurons and Cognition (q-bio.NC)
[12]  arXiv:1803.06132 [pdf, ps, other]
Title: Selection for synchronized cell division in simple multicellular organisms
Subjects: Populations and Evolution (q-bio.PE)
[13]  arXiv:1803.06002 [pdf]
Title: Ridge Regression Estimated Linear Probability Model Predictions of N-glycosylation in Proteins with Structural and Sequence Dat
Comments: 20 pages
Subjects: Quantitative Methods (q-bio.QM)
[14]  arXiv:1803.06288 (cross-list from cs.AI) [pdf]
Title: ORGaNICs: A Theory of Working Memory in Brains and Machines
Subjects: Artificial Intelligence (cs.AI); Neurons and Cognition (q-bio.NC)
[15]  arXiv:1803.06236 (cross-list from cs.LG) [pdf]
Title: Chemi-net: a graph convolutional network for accurate drug property prediction
Subjects: Learning (cs.LG); Quantitative Methods (q-bio.QM)
[16]  arXiv:1803.06096 (cross-list from math.ST) [pdf, other]
Title: Expected Time to Extinction of SIS Epidemic Model Using Quasy Stationary Distribution
Comments: 12 pages; 5 figures
Subjects: Statistics Theory (math.ST); Probability (math.PR); Populations and Evolution (q-bio.PE)
[17]  arXiv:1803.06013 (cross-list from physics.bio-ph) [pdf, other]
Title: Small-scale displacement fluctuations of vesicles in fibroblasts
Comments: 10 pages, 5 figures, 3 tables
Subjects: Biological Physics (physics.bio-ph); Subcellular Processes (q-bio.SC)
[18]  arXiv:1803.05985 (cross-list from stat.ML) [pdf]
Title: EEG machine learning with Higuchi fractal dimension and Sample Entropy as features for successful detection of depression
Comments: 34 pages, 4 Figures, 2 tables
Subjects: Machine Learning (stat.ML); Learning (cs.LG); Neurons and Cognition (q-bio.NC)
[19]  arXiv:1803.05938 (cross-list from physics.med-ph) [pdf, other]
Title: Low Rank plus Sparse Decomposition of ODFs for Improved Detection of Group-level Differences and Variable Correlations in White Matter
Comments: 20 pages, 11 figures, 5 supplementary figures
Subjects: Medical Physics (physics.med-ph); Biological Physics (physics.bio-ph); Neurons and Cognition (q-bio.NC)

Fri, 16 Mar 2018

[20]  arXiv:1803.05866 [pdf, other]
Title: The complexity of comparing multiply-labelled trees by extending phylogenetic-tree metrics
Comments: 31 pages, 6 figures
Subjects: Populations and Evolution (q-bio.PE); Data Structures and Algorithms (cs.DS); Combinatorics (math.CO)
[21]  arXiv:1803.05855 [pdf, ps, other]
Title: A game-theoretic mechanism for aggregation and dispersal of interacting populations
Comments: 47 pages, 12 figures
Subjects: Populations and Evolution (q-bio.PE)
[22]  arXiv:1803.05840 [pdf, other]
Title: Effective Connectivity from Single Trial fMRI Data by Sampling Biologically Plausible Models
Subjects: Neurons and Cognition (q-bio.NC); Data Analysis, Statistics and Probability (physics.data-an)
[23]  arXiv:1803.05783 [pdf, other]
Title: Receptive profiles induce functional architecture of V1
Subjects: Neurons and Cognition (q-bio.NC)
[24]  arXiv:1803.05429 [pdf, other]
Title: A system-wide network reconstruction of gene regulation and metabolism in Escherichia coli
Comments: 29 pages, 6 figures + Supplementary information
Subjects: Molecular Networks (q-bio.MN)
[25]  arXiv:1803.05897 (cross-list from cs.IT) [pdf, other]
Title: Contrasting information theoretic decompositions of modulatory and arithmetic interactions in neural information processing systems
Comments: 23 pages, 6 figures
Subjects: Information Theory (cs.IT); Neurons and Cognition (q-bio.NC); Quantitative Methods (q-bio.QM); Machine Learning (stat.ML)
[26]  arXiv:1803.05870 (cross-list from physics.bio-ph) [pdf, other]
Title: pH Sensing by Lipids in Membranes: The Fundamentals of pH-driven Migration, Polarization and Deformations of Lipid Bilayer Assemblies
Comments: 26 pages, 22 figures, review article
Subjects: Biological Physics (physics.bio-ph); Soft Condensed Matter (cond-mat.soft); Subcellular Processes (q-bio.SC)
[27]  arXiv:1803.05805 (cross-list from cs.HC) [pdf, other]
Title: Sonifying stochastic walks on biomolecular energy landscapes
Subjects: Human-Computer Interaction (cs.HC); Biological Physics (physics.bio-ph); Computational Physics (physics.comp-ph); Other Quantitative Biology (q-bio.OT)
[28]  arXiv:1803.05543 (cross-list from cond-mat.soft) [pdf, other]
Title: Active matter invasion of a viscous fluid and a no-flow theorem
Subjects: Soft Condensed Matter (cond-mat.soft); Biological Physics (physics.bio-ph); Fluid Dynamics (physics.flu-dyn); Cell Behavior (q-bio.CB)

Thu, 15 Mar 2018

[29]  arXiv:1803.05377 [pdf]
Title: When few survive to tell the tale: thymus and gonad as auditioning organs
Comments: This version equals that submitted to Immunology and Cell Biology on 27th August 2017. After reviewer feedback there were later revisions that are not included here. This meets the publisher's requirement for preprint articles: "The submitted version of an article is the author's version that has not been peer-reviewed, nor had any value added to it by Wiley (such as formatting or copy editing)."
Subjects: Tissues and Organs (q-bio.TO)
[30]  arXiv:1803.05369 [pdf, ps, other]
Title: Complex activity patterns generated by short-term synaptic plasticity
Comments: 6 pages, 4 figures, ESANN conference
Journal-ref: ESANN 2017 proceedings, European Symposium on Artificial Neural Networks, Computational Intelligence and Machine Learning. Bruges (Belgium), 26-28 April 2017, Available from http://www.i6doc.com/en/
Subjects: Neurons and Cognition (q-bio.NC); Disordered Systems and Neural Networks (cond-mat.dis-nn); Chaotic Dynamics (nlin.CD)
[31]  arXiv:1803.05357 [pdf, ps, other]
Title: Interplay between epidermal stem cell dynamics and dermal deformations
Comments: 10 pages, 8 figures
Subjects: Tissues and Organs (q-bio.TO); Adaptation and Self-Organizing Systems (nlin.AO); Cell Behavior (q-bio.CB)
[32]  arXiv:1803.05275 [pdf, other]
Title: Biogeographical network analysis of plant species distribution in the Mediterranean region
Comments: 15 pages, 7 figures + Appendix
Subjects: Populations and Evolution (q-bio.PE); Quantitative Methods (q-bio.QM)
[33]  arXiv:1803.05136 [pdf, other]
Title: A primer on the use of probability generating functions in infectious disease modeling
Authors: Joel C. Miller
Subjects: Populations and Evolution (q-bio.PE); Physics and Society (physics.soc-ph); Quantitative Methods (q-bio.QM)
[34]  arXiv:1803.05048 [pdf, other]
Title: On the pros and cons of using temporal derivatives to assess brain functional connectivity
Comments: 10 pages, 7 figures
Subjects: Neurons and Cognition (q-bio.NC)
[35]  arXiv:1803.05025 [pdf, other]
Title: FDG kinetics in cells and tissues: a biochemically-driven compartmental approach
Subjects: Tissues and Organs (q-bio.TO)
[36]  arXiv:1803.05019 [pdf, other]
Title: Performance Analysis of MEC Approach for Haplotype Assembly
Comments: 10 pages, 4 figures
Subjects: Genomics (q-bio.GN)
[37]  arXiv:1803.05012 [pdf]
Title: Using RuleBuilder to graphically define and visualize BioNetGen-language patterns and reaction rules
Comments: 19 pages, 3 figures
Subjects: Quantitative Methods (q-bio.QM)
[38]  arXiv:1803.04999 [pdf, other]
Title: Removing both Internal and Unrealistic Energy-Generating Cycles in Flux Balance Analysis
Authors: Elad Noor
Comments: 13 pages, 3 figures
Subjects: Molecular Networks (q-bio.MN)
[39]  arXiv:1803.05117 (cross-list from cs.NE) [pdf, other]
Title: MT-Spike: A Multilayer Time-based Spiking Neuromorphic Architecture with Temporal Error Backpropagation
Comments: 36th International Conference On Computer Aided Design (ICCAD 2017)
Subjects: Neural and Evolutionary Computing (cs.NE); Neurons and Cognition (q-bio.NC)
[40]  arXiv:1803.05109 (cross-list from cs.NE) [pdf, other]
Title: PT-Spike: A Precise-Time-Dependent Single Spike Neuromorphic Architecture with Efficient Supervised Learning
Comments: 23rd Asia and South Pacific Design Automation Conference (ASP-DAC 2018)
Subjects: Neural and Evolutionary Computing (cs.NE); Neurons and Cognition (q-bio.NC)

Wed, 14 Mar 2018 (showing first 10 of 12 entries)

[41]  arXiv:1803.04915 [pdf]
Title: Nutritionally recommended food for semi- to strict vegetarian diets based on large-scale nutrient composition data
Comments: Supplementary material is available at the journal website
Journal-ref: Scientific Reports 8:4344 (2018)
Subjects: Other Quantitative Biology (q-bio.OT); Social and Information Networks (cs.SI); Physics and Society (physics.soc-ph)
[42]  arXiv:1803.04661 [pdf]
Title: Pharmacophore and ligand-guided screening of antibacterial leads targeting antibiotic resistance factor in Gram-negative bacteria
Comments: 13 pages, 4 figures, 1 table
Subjects: Biomolecules (q-bio.BM)
[43]  arXiv:1803.04659 [pdf, other]
Title: Protein Mutation Stability Ternary Classification using Neural Networks and Rigidity Analysis
Comments: To appear in the Proceedings of 10th International Conference on Bioinformatics and Computational Biology (BICOB 2018)
Subjects: Quantitative Methods (q-bio.QM)
[44]  arXiv:1803.04640 [pdf, other]
Title: Bayesian Detection of Abnormal ADS in Mutant Caenorhabditis elegans Embryos
Subjects: Quantitative Methods (q-bio.QM); Applications (stat.AP)
[45]  arXiv:1803.04500 [pdf]
Title: The hypotensive effect of activated apelin receptor is correlated with \b{eta}-arrestin recruitment
Comments: This is the accepted (postprint) version of the following article: Besserer-Offroy \'E, et al. (2018), Pharmacol Res. doi: 10.1016/j.phrs.2018.02.032, which has been accepted and published in final form at this https URL V1: Preprint version V2: Accepted (postprint) version
Journal-ref: Elie Besserer-Offroy, et al. Pharmacol Res, Epub 9 March 2018
Subjects: Molecular Networks (q-bio.MN); Biomolecules (q-bio.BM); Cell Behavior (q-bio.CB); Quantitative Methods (q-bio.QM)
[46]  arXiv:1803.04498 [pdf]
Title: The signaling signature of the neurotensin type 1 receptor with endogenous ligands
Comments: This is the accepted (postprint) version of the following article: Besserer-Offroy \'E, et al. (2017). Eur J Pharmacol. doi: 10.1016/j.ejphar.2017.03.046, which has been accepted and published in its final form at this http URL V1: Preprint version V2: Accepted version (postprint)
Journal-ref: Besserer-Offroy \'E, et al. (2017). Eur J Pharmacol. 805 (2017) 1-13
Subjects: Cell Behavior (q-bio.CB); Molecular Networks (q-bio.MN); Subcellular Processes (q-bio.SC)
[47]  arXiv:1803.04487 [pdf]
Title: Integrated machine learning pipeline for aberrant biomarker enrichment (i-mAB): characterizing clusters of differentiation within a compendium of systemic lupus erythematosus patients
Comments: 18 pages, 6 figures, 4 tables. Submitted on March 8, 2018 for consideration within the Proceedings of the American Medical Informatics Association 2018 Annual Symposium
Subjects: Molecular Networks (q-bio.MN)
[48]  arXiv:1803.04479 [pdf]
Title: Machine Learning Harnesses Molecular Dynamics to Discover New $μ$ Opioid Chemotypes
Comments: 28 pages, machine learning, computational biology, GPCRs, molecular dynamics, molecular docking, molecular simulation
Subjects: Biomolecules (q-bio.BM); Machine Learning (stat.ML)
[49]  arXiv:1803.04851 (cross-list from physics.bio-ph) [pdf, other]
Title: Reaction rate theory for supramolecular kinetics: application to protein aggregation
Subjects: Biological Physics (physics.bio-ph); Biomolecules (q-bio.BM)
[50]  arXiv:1803.04774 (cross-list from cs.OH) [pdf, other]
Title: CANA: A python package for quantifying control and canalization in Boolean Networks
Comments: Submitted to the Systems Biology section of Frontiers in Physiology
Subjects: Other Computer Science (cs.OH); Computational Engineering, Finance, and Science (cs.CE); Discrete Mathematics (cs.DM); Systems and Control (cs.SY); Molecular Networks (q-bio.MN); Quantitative Methods (q-bio.QM)
[ total of 52 entries: 1-50 | 51-52 ]
[ showing 50 entries per page: fewer | more | all ]

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