预印本研究 | BioDir

▶ in silico Whole Genome Sequencer & Analyzer (iWGS): a computational pipeline to guide the design and analysis of de novo genome sequencing studies 2016-08-07

▶ Artefactual origin of biphasic cortical spike-LFP correlation 2016-08-07

▶ Odd-paired controls frequency doubling in Drosophila segmentation by altering the pair-rule gene regulatory network 2016-08-07

▶ Dynamics of lineage commitment revealed by single-cell transcriptomics of differentiating embryonic stem cells 2016-08-07

▶ ABySS 2.0: Resource-Efficient Assembly of Large Genomes using a Bloom Filter 2016-08-07

▶ Contextual connectivity: A framework for understanding the intrinsic dynamic architecture of large-scale functional brain networks 2016-08-07

▶ The Abundance of Large Piscivorous Ferox Trout (Salmo trutta) in Loch Rannoch, Scotland 2016-08-08

▶ A comparison of one-rate and two-rate inference frameworks for site-specific dN/dS estimation 2016-08-08

▶ Repeated duplication of Argonaute2 is associated with strong selection and testis specialization in Drosophila 2016-08-08

▶ MDM2 case study: Computational protocol utilizing protein flexibility and data mining improves ligand binding mode predictions 2016-08-08

▶ Maternal Genetic Ancestry and Legacy of 10th Century AD Hungarians 2016-08-08

▶ Population structure reduces the benefits from partner choice in mutualism 2016-08-08

▶ recount: A large-scale resource of analysis-ready RNA-seq expression data 2016-08-08

▶ No evidence for unknown archaic ancestry in South Asia 2016-08-08

▶ The fishing and natural mortality of large, piscivorous Bull Trout and Rainbow Trout in Kootenay Lake, British Columbia (2008-2013) 2016-08-08

▶ Into the Evening: Complex Interactions in the Arabidopsis circadian clock. 2016-08-08

▶ The hidden treasure in your data: Phasing with unexpected weak anomalous scatterers from routine datasets 2016-08-08

▶ Dynamics and fate of beneficial mutations under lineage contamination by linked deleterious mutations 2016-08-08

▶ Comparative survey of the relative impact of mRNA features on local ribosome profiling read density. 2016-08-09

▶ Mutations in the catalytic domain of human β-cardiac myosin that cause early onset hypertrophic cardiomyopathy significantly increase the fundamental parameters that determine ensemble force and velocity 2016-08-09

▶ Remnant American Chestnut (Castanea dentata (Marsh.) Borkh.; Fagaceae) in Upland Forests of Northwestern New York 2016-08-09

▶ Environmental DNA enables detection of terrestrial mammals from forest pond water 2016-08-09

▶ Common schizophrenia alleles are enriched in mutation-intolerant genes and maintained by background selection 2016-08-09

▶ Improvement of the threespine stickleback (Gasterosteus aculeatus) genome using a Hi-C-based Proximity-Guided Assembly method 2016-08-09

▶ Development and Application of Equilibrium Thermodynamic Models Describing Coupled Protein Oligomerization and Ligand Binding 2016-08-09

▶ Visualizing the Geography of Genetic Variants 2016-08-09

▶ Bacterial invasion of the pancreas revealed after analyses of the pancreatic cyst fluids 2016-08-09

▶ RNase H enables efficient repair of R-loop induced DNA damage 2016-08-09

▶ Analytic framework for stochastic binary biological switches 2016-08-09

▶ Linkage disequilibrium between single nucleotide polymorphisms and hypermutable loci 2016-08-10

▶ A new advanced backcross tomato population enables high resolution leaf QTL mapping and gene identification 2016-08-10

▶ Familiarity Facilitates Feature-based Face Processing 2016-08-10

▶ Analyzing climate variations on multiple timescales can guide Zika virus response measures 2016-08-10

▶ Modifications to a LATE MERISTEM IDENTITY-1 gene are responsible for the major leaf shapes of Upland cotton (Gossypium hirsutum L.) 2016-08-10

▶ Evaluating the genetic diagnostic power of exome sequencing: Identifying missing data. 2016-08-10

▶ A complete tool set for molecular QTL discovery and analysis 2016-08-10

▶ A comparison of Species Distribution Modeling approaches for an under-sampled parasite of public health importance, Echinococcus multilocularis. 2016-08-10

▶ The frequency spectrum of chromatin accessibility in Yorubans points toward a significant role of random genetic drift in shaping the chromatin landscape 2016-08-10

▶ Scale-Free Exponents of Resting State are Biomarkers of Neuro-Typical and Atypical Brain Activity 2016-08-10

▶ Contextual Fear Conditioning in Zebrafish 2016-08-10

▶ Bartender: an ultrafast and accurate clustering algorithm to count barcode and amplicon reads 2016-08-10

▶ Survival of Captive Chimpanzees: Impact of Location and Transfers 2016-08-10

▶ Phylogenomic Analysis of Ants, Bees and Stinging Wasps: Improved Taxon Sampling Enhances Understanding of Hymenopteran Evolution 2016-08-10

▶ Selection for mitochondrial quality drives the evolution of sexes with a dedicated germline 2016-08-11

▶ Dendritic trafficking faces physiologically critical speed-precision tradeoffs 2016-08-11

▶ Modification of plant regeneration medium decreases the time for recovery of Solanum lycopersicum cultivar M82 stable transgenic lines 2016-08-11

▶ AKT: Ancestry and Kinship Toolkit 2016-08-11

▶ WEVOTE: Weighted Voting Taxonomic Identification Method of Microbial Sequences 2016-08-11

▶ Reproducible Computational Workflows with Continuous Analysis 2016-08-11

▶ tHapMix: simulating tumour samples through haplotype mixtures 2016-08-11

▶ Genetic Allee effects and their interaction with ecological Allee effects 2016-08-11

▶ Whole genome sequencing of Plasmodium falciparum from dried blood spots using selective whole genome amplification 2016-08-11

▶ Gene expression markers of Tumor Infiltrating Leukocytes 2016-08-11

▶ Optogenetically controlled cargo shows full length human myosin VI integrates activation signals in vivo and in vitro 2016-08-11

▶ Rapid evolution of distinct Helicobacter pylori subpopulations in the Americas 2016-08-11

▶ ChIP-exo interrogation of Crp, DNA, and RNAP holoenzyme interactions 2016-08-11

▶ Lingering representations of stimulus history at encoding influence recall organization 2016-08-11

▶ Dopaminergic drugs decrease loss aversion in Parkinson’s disease with but not without depression 2016-08-11

▶ DeepWAS: Directly integrating regulatory information into GWAS using deep learning supports master regulator MEF2C as risk factor for major depressive disorder 2016-08-11

▶ Bootstrat: Population Informed Bootstrapping for Rare Variant Tests 2016-08-11

▶ Biotinylation by antibody recognition - A novel method for proximity labeling 2016-08-11

▶ Expression of segment polarity genes in brachiopods supports a non-segmental ancestral role of engrailed for bilaterians 2016-08-12

▶ Dissection of molecular assembly dynamics by tracking orientation and position of single molecules in live cells 2016-08-12

▶ Evo-engineering and the Cellular and Molecular Origins of the Vertebrate Spinal Cord 2016-08-12

▶ A Single Nucleotide Resolution Model for Large-Scale Simulations of Double Stranded DNA 2016-08-12

▶ Loss of a doublecortin (DCX) domain containing protein causes structural defects in a tubulin-based organelle of Toxoplasma gondii and impairs host cell invasion. 2016-08-12

▶ phyC: Clustering cancer evolutionary trees 2016-08-12

▶ Stochastic competitive exclusion leads to a cascade of species extinctions 2016-08-12

▶ Planning horizon affects prophylactic decision-making and epidemic dynamics 2016-08-12

▶ New method to reconstruct phylogenetic and transmission trees with sequence data from infectious disease outbreaks 2016-08-12

▶ Highly parallel direct RNA sequencing on an array of nanopores 2016-08-12

▶ ARGLU1 is a Glucocorticoid Receptor Coactivator and Splicing Modulator Important in Stress Hormone Signaling and Brain Development 2016-08-12

▶ Reward learning deficits in Parkinson’s disease depend on depression 2016-08-12

▶ The field of view available to the cortical reading circuitry 2016-08-12

▶ Tumor evolution of glioma intrinsic gene expression subtype associates with immunological changes in the microenvironment 2016-08-13

▶ Higher classification sensitivity of short metagenomic reads with CLARK-S 2016-08-13

▶ Meta-analysis reveals pathway signature of Septic Shock 2016-08-14

▶ Clinical Utility of Expanded Carrier Screening: Reproductive Behaviors of At-Risk Couples 2016-08-14

▶ Emergent rules for codon choice elucidated by editing rare arginine codons in Escherichia coli 2016-08-14

▶ High-resolution phenotypic landscape of the RNA Polymerase II trigger loop 2016-08-14

▶ A Systems-Level Model Reveals That 1,2-Propanediol Utilization Microcompartments Enhance Pathway Flux Through Intermediate Sequestration. 2016-08-14

▶ OncoSimulR: genetic simulation of cancer progression with arbitrary epistasis and mutator genes 2016-08-14

▶ Peptide partitions and protein identification: a computational analysis 2016-08-14

▶ climwin: An R Toolbox for Climate Window Analysis 2016-08-14

▶ A unifying comparative phylogenetic framework including traits coevolving across interacting lineages 2016-08-14

▶ Mapping eQTL by leveraging multiple tissues and DNA methylation 2016-08-14

▶ A conceptual view at microtubule plus end dynamics in neuronal axons 2016-08-15

▶ Fitness costs of noise in biochemical reaction networks and the evolutionary limits of cellular robustness 2016-08-15

▶ Exaggerated CpH Methylation in the Autism-Affected Brain 2016-08-15

▶ Genome-wide analysis of lncRNAs and mRNAs expression during the differentiation of abdominal preadipocytes in chicken 2016-08-15

▶ The Detailed 3D Multi-Loop Aggregate/Rosette Chromatin Architecture and Functional Dynamic Organization of the Human and Mouse Genomes 2016-08-15

▶ Genome-scale rates of evolutionary change in bacteria 2016-08-15

▶ Changes in brain morphology and working memory capacity over childhood 2016-08-15

▶ Frank-Starling law and Bowditch phenomenon may have the common theoretical grounds 2016-08-15

▶ Gene mapping of nine agronomic traits and genome assembly by resequencing a foxtail millet RIL population 2016-08-15

▶ scater: pre-processing, quality control, normalisation and visualisation of single-cell RNA-seq data in R 2016-08-15

▶ Statistical Association Mapping of Population-Structured Genetic Data 2016-08-15

▶ Fast, scalable prediction of deleterious noncoding variants from functional and population genomic data 2016-08-15

▶ One-cell Doubling Evaluation by Living Arrays of Yeast, ODELAY! 2016-08-15

▶ Transcriptomic Signatures for Ovulation in Vertebrates 2016-08-15

▶ Memory Replay in Balanced Recurrent Networks 2016-08-15

▶ BinSanity: Unsupervised Clustering of Environmental Microbial Assemblies Using Coverage and Affinity Propagation 2016-08-16

▶ Understanding the contributions of visual stimuli to contextual fear conditioning: a proof-of-concept study using LCD screens 2016-08-16

▶ Molecular mechanisms of substrate-controlled ring dynamics and sub-stepping in a nucleic-acid dependent hexameric motor 2016-08-16

▶ Ligand-induced and small molecule control of substrate loading in a hexameric helicase 2016-08-16

▶ Accurate eQTL prioritization with an ensemble-based framework 2016-08-16

▶ PubData: search engine for bioinformatics databases worldwide 2016-08-16

▶ HySA: A Hybrid Structural variant Assembly approach using next generation and single-molecule sequencing technologies 2016-08-16

▶ FOXA1 directs H3K4 monomethylation at enhancers via recruitment of the methyltransferase MLL3 2016-08-16

▶ The Modular Adaptive Ribosome 2016-08-16

▶ A Bacillus anthracis Genome Sequence from the Sverdlovsk 1979 Autopsy Specimens 2016-08-16

▶ DEAR-O: Differential Expression Analysis based on RNA-seq data - Online 2016-08-16

▶ Modeling and docking antibody structures with Rosetta 2016-08-16

▶ Separase Protease Activity is Required for Cytokinesis in addition to Chromosome Segregation 2016-08-16

▶ XRN1 is a Species-Specific Virus Restriction Factor in Yeasts 2016-08-16

▶ The evolution of the natural killer complex; a comparison between mammals using new high-quality genome assemblies and targeted annotation 2016-08-16

▶ Rare schizophrenia risk variants are enriched in genes shared with neurodevelopmental disorders 2016-08-16

▶ Next generation whole genome sequencing of Plasmodium falciparum using NextSeq500 technology in India 2016-08-16

▶ Novel blaKPC-carrying species identified in the hospital environment 2016-08-16

▶ Systems Biomedicine of Rabies Delineates the Affected Signaling Pathways 2016-08-16

▶ Role of autoregulation and relative synthesis of operon partners in alternative sigma factor networks 2016-08-17

▶ Non-Mendelian inheritance of SNP markers reveals extensive chromosomal translocations in dioecious hops (Humulus lupulus L.) 2016-08-17

▶ Oxidative DNA damage is epigenetic by regulating gene transcription via base excision repair 2016-08-17

▶ Pervasive concerted evolution in gene expression shapes cell type transcriptomes 2016-08-17

▶ A novel quantile regression approach for eQTL discovery 2016-08-17

▶ Pherotype polymorphism in Streptococcus pneumoniae and its effects on population structure and recombination 2016-08-17

▶ A non-zero variance of Tajima’s estimator for two sequences even for infinitely many unlinked loci 2016-08-17

▶ Large scale genomic analysis shows no evidence for repeated pathogen adaptation during the invasive phase of bacterial meningitis in humans 2016-08-17

▶ Easi-CRISPR: Efficient germline modification with long ssDNA donors 2016-08-17

▶ Orientation tuning depends on spatial frequency in mouse visual cortex 2016-08-17

▶ Internal states drive nutrient homeostasis by modulating exploration-exploitation trade-off 2016-08-17

▶ Epistasis and destabilizing mutations shape gene expression variability in humans via distinct modes of action 2016-08-18

▶ chromstaR: Tracking combinatorial chromatin state dynamics in space and time 2016-08-18

▶ Population scale mapping of novel transposable element diversity reveals links to gene regulation and epigenomic variation 2016-08-18

▶ Identifying outlier loci in admixed and in continuous populations using ancestral population differentiation statistics 2016-08-18

▶ Stem Cell Plasticity and Niche Dynamics in Cancer Progression 2016-08-18

▶ Clustered brachiopod Hox genes are not expressed collinearly and are associated with lophotrochozoan novelties 2016-08-18

▶ Tuberculosis susceptibility and vaccine protection are independently controlled by host genotype 2016-08-18

▶ A gene for genetic background in Zea mays: fine-mapping enhancer of teosinte branched1.2 (etb1.2) to a YABBY class transcription factor 2016-08-18

▶ Analysis of infection biomarkers within a Bayesian framework reveals their role in pneumococcal pneumonia diagnosis in HIV patients 2016-08-18

▶ Pulsatile lipid vesicles under osmotic stress 2016-08-18

▶ Mathematical Methods for Modeling Chemical Reaction Networks 2016-08-18

▶ Single-cell quantitation of histones and histone post-translational modifications across the cell cycle by high-throughput imaging 2016-08-18

▶ Reconstructing the backbone of the Saccharomycotina yeast phylogeny using genome-scale data 2016-08-18

▶ Natural and laboratory mutations in kuzbanian are associated with heavy metal stress phenotypes in Drosophila melanogaster 2016-08-18

▶ Escherichia coli populations adapt to complex, unpredictable fluctuations by minimizing trade-offs across environments 2016-08-18

▶ How cognitive genetic factors influence fertility outcomes: A mediational SEM analysis. 2016-08-18

▶ Phenome-wide Heritability Analysis of the UK Biobank 2016-08-18

▶ An Automated Microwell Platform for Large-Scale Single Cell RNA-Seq 2016-08-18

▶ Rad51 catalytic mutants differentially affect the Rad51 nucleoprotein filament 2016-08-18

▶ Personalized epilepsy seizure detection using random forest classification over one-dimension transformed EEG data 2016-08-18

▶ Temperature regimes impact coral assemblages along environmental gradients on lagoonal reefs in Belize 2016-08-19

▶ CD44 Controls Endothelial Proliferation and Functions as Endogenous Inhibitor of Angiogenesis 2016-08-19

▶ Association of AKAP6 and MIR2113 with cognitive performance in a population based sample of older adults 2016-08-19

▶ Microbial Signatures of Oral Dysbiosis, Periodontitis and Edentulism Revealed by Gene Meter Methodology 2016-08-19

▶ Reward-based training of recurrent neural networks for cognitive and value-based tasks 2016-08-19

▶ Quantifying uncertainty of taxonomic placement in DNA barcoding and metabarcoding 2016-08-19

▶ Evolution of copper resistance in the kiwifruit pathogen Pseudomonas syringae pv. actinidiae through acquisition of integrative conjugative elements and plasmids 2016-08-19

▶ ANU-ADRI and not Genetic Risk score predicts MCI in a cohort of older adults followed for 12 years 2016-08-19

▶ The ExAC Browser: Displaying reference data information from over 60,000 exomes 2016-08-19

▶ Direct determination of diploid genome sequences 2016-08-19

▶ A framework to assess the contribution of bioaerosols to the outcome of meteorological contexts favorable for rainfall 2016-08-21

▶ Local PCA shows how the effect of population structure differs along the genome 2016-08-21

▶ Genome-wide prediction of microRNAs in Zika virus genomes reveals possible interactions with human genes involved in the nervous system development 2016-08-21

▶ Intrinsic functional connectivity resembles cortical architecture at various levels of isoflurane anesthesia 2016-08-21

▶ Cholesterol activates the G-protein coupled receptor Smoothened to promote morphogenetic signaling 2016-08-21

▶ Strigolactone regulates shoot development through a core signalling pathway 2016-08-21

▶ Elevated serum adenosine deaminase levels in neuroleptic-naive patients with recent-onset schizophrenia 2016-08-21

▶ Effects of linked selective sweeps on demographic inference and model selection 2016-08-22

▶ Stochastic simulation tools and continuum models for describing two-dimensional collective cell spreading with universal growth functions 2016-08-22

▶ Towards an integration of deep learning and neuroscience 2016-08-22

▶ The evolution of DNA methylation and its relationship to sociality in insects 2016-08-22

▶ Neuronal control of the fingertips is socially configured in touchscreen smartphone users 2016-08-22

▶ ChimPipe: Accurate detection of fusion genes and transcription-induced chimeras from RNA-seq data 2016-08-22

▶ Information theory and the phenotypic complexity of evolutionary adaptations and innovations 2016-08-22

▶ OrchID: a Generalized Framework for Taxonomic Classification of Images Using Evolved Artificial Neural Networks 2016-08-22

▶ Population dynamics of Arabis alpina in the French Alps: evidence for demographic compensation? 2016-08-22

▶ Thousands of primer-free, high-quality, full-length SSU rRNA sequences from all domains of life 2016-08-22

▶ SNP analysis implicates the role of cytosine methylation in introducing consequential mutations in Vibrio cholerae genomes. 2016-08-22

▶ Prevalence of Congenital Amusia 2016-08-22

▶ Influence of cognitive control on semantic representation 2016-08-22

▶ Opponent surrounds explain diversity of contextual phenomena across visual modalities 2016-08-22

▶ Genetically targeted 3D visualisation of Drosophila neurons under Electron Microscopy and X-Ray Microscopy using miniSOG 2016-08-22

▶ Rhythmic entrainment source separation: Optimizing analyses of neural responses to rhythmic sensory stimulation 2016-08-22

▶ Empirical validation of directed functional connectivity 2016-08-22

▶ Signatures of archaic adaptive introgression in present-day human populations 2016-08-23

▶ The population tracking model: A simple, scalable statistical model for neural population data 2016-08-23

▶ DNA damage is a major cause of sequencing errors, directly confounding variant identification. 2016-08-23

▶ High-resolution DNA accessibility profiles increase the discovery and interpretability of genetic associations 2016-08-23

▶ Machine learning as a tool for predicting insincere effort in power grips 2016-08-23

▶ hdnom: Building Nomograms for Penalized Cox Models with High-Dimensional Survival Data 2016-08-23

▶ ResistoMap - online visualization of human gut microbiota antibiotic resistome 2016-08-23

▶ PAPC couples the Segmentation Clock to somite morphogenesis by regulating N-cadherin dependent adhesion 2016-08-23

▶ Simulations of biomass dynamics in community food webs 2016-08-23

▶ Using null models to infer microbial co-occurrence networks 2016-08-23

▶ Inferring physiological energetics of loggerhead turtle (Caretta caretta) from existing data using a general metabolic theory 2016-08-23

▶ Molecular signatures associated with ZIKV exposure in human cortical neural progenitors 2016-08-23

▶ Prototyping of Bacillus megaterium genetic elements through automated cell-free characterization and Bayesian modelling 2016-08-23

▶ Ordinary Differential Equations in Cancer Biology 2016-08-23

▶ Growth Factors do not regulate Golgi Complex-to-ER relocation of GalNAc-Ts in HeLa cells 2016-08-23

▶ Determining the factors driving selective effects of new nonsynonymous mutations 2016-08-23

▶ Dynamic updating of hippocampal object representations reflects new conceptual knowledge 2016-08-23

▶ Edlib: A C/C++ library for fast, exact sequence alignment using edit distance 2016-08-23

▶ Ohana, a tool set for population genetic analyses of admixture components 2016-08-23

▶ Effects of plant evolution on nutrient cycling couple aboveground and belowground processes 2016-08-23

▶ Further confirmation for unknown archaic ancestry in Andaman and South Asia. 2016-08-23

▶ Wild-type U2AF1 antagonizes the splicing program characteristic of U2AF1-mutant tumors and is required for cell survival 2016-08-24

▶ Using approximate Bayesian computation to quantify cell-cell adhesion parameters in a cell migratory process 2016-08-24

▶ 3-5 Hz membrane potential oscillations decrease the gain of neurons in visual cortex 2016-08-24

▶ What is the link between stringent response, endoribonuclease encoding Type II Toxin-Antitoxin systems and persistence? 2016-08-24

▶ Inference of direction, diversity, and frequency of HIV-1 transmission using approximate Bayesian computation 2016-08-24

▶ Closing the loop: tracking and perturbing behaviour of individuals in a group in real-time 2016-08-24

▶ FICD acts bi-functionally to AMPylate and de-AMPylate the endoplasmic reticulum chaperone BiP 2016-08-24

▶ HLA-MA: Simple yet powerful matching of samples using HLA typing results 2016-08-24

▶ Unlocked capacity of proteins to attack membranes characteristic of aggregation: the evil for diseases and aging from Pandora’s box 2016-08-24

▶ Estimating time to the common ancestor for a beneficial allele 2016-08-24

▶ Micro-C XL: assaying chromosome conformation at length scales from the nucleosome to the entire genome 2016-08-24

▶ Heme concentration-dependently modulates the production of specific antibodies in murine 2016-08-24

▶ Deciphering the tissue specificity of the protein secretory pathway in humans 2016-08-24

▶ Newborn chicks show inherited variability in early social predispositions for hen-like stimuli 2016-08-24

▶ Modeling time-series data from microbial communities 2016-08-24

▶ Numerical Analysis of the Immersed Boundary Method for Cell-Based Simulation 2016-08-24

▶ Computational Pan-Genomics: Status, Promises and Challenges 2016-08-25

▶ Ending AIDS: Progress and prospects for the control of HIV and TB in South Africa 2016-08-25

▶ RNA-DEPENDENT SYNTHESIS OF MAMMALIAN mRNA: IDENTIFICATION OF CHIMERIC INTERMEDIATE AND PUTATIVE END PRODUCT 2016-08-25

▶ Robust nonparametric descriptors for clustering quantification in single-molecule localization microscopy 2016-08-25

▶ Inference of the distribution of selection coefficients for new nonsynonymous mutations using large samples 2016-08-25

▶ The impact of chromatin dynamics on Cas9-mediated genome editing in human cells 2016-08-25

▶ Empowering Multi-Cohort Gene Expression Analysis to Increase Reproducibility 2016-08-25

▶ Sensory neuron fate is developmentally perturbed by Gars mutations causing human neuropathy 2016-08-25

▶ Molecular basis of outer kinetochore assembly on CENP-T 2016-08-25

▶ Interacting networks of resistance, virulence and core machinery genes identified by genome-wide epistasis analysis 2016-08-25

▶ Evaluating Mendelian nephrotic syndrome genes for evidence of risk alleles or oligogenicity that explain heritability 2016-08-25

▶ CRISPR/Cas9 gene drives in genetically variable and non-randomly mating wild populations 2016-08-25

▶ Bovine Lactoferrin Activity Against Chikungunya and Zika Viruses 2016-08-25

▶ Root hair-endophyte stacking (RHESt) in an ancient Afro-Indian crop creates an unusual physico-chemical barrier to trap pathogen(s) 2016-08-25

▶ Empirical assessment of published effect sizes and power in the recent cognitive neuroscience and psychology literature 2016-08-25

▶ Impact of stroke on diurnal heart rate variability in rats 2016-08-25

▶ Deep learning based root-soil segmentation from X-ray tomography 2016-08-25

▶ Dynamics Robustness of Cascading Systems 2016-08-25

▶ Using simulation to aid trial design: ring-vaccination trials 2016-08-25

▶ Low base-substitution mutation rate in the germline genome of ciliate Tetrahymena thermophila 2016-08-26

▶ Metavisitor, a suite of Galaxy tools for simple and rapid detection and discovery of viruses in deep sequence data 2016-08-26

▶ Botrytis cinerea loss and restoration of virulence during in vitro culture follows flux in global DNA methylation 2016-08-26

▶ Ephemeral protein binding to DNA shapes stable nuclear bodies and chromatin domains 2016-08-26

▶ Laboratory strains of Aedes aegypti are Competent to Brazilian Zika virus 2016-08-26

▶ Metazoan ribotoxin genes acquired by Horizontal Gene Transfer 2016-08-26

▶ Characterization of the pscC (Type III secretion) gene of Pseudomonas aeruginosa (PA01) and assessment of immunogenicity of pscC protein in rats 2016-08-26

▶ Mating promotes lactic-acid gut bacteria in a gift-giving insect 2016-08-26

▶ Influence of a mono-frequency sound on bacteria can be a function of the sound-level 2016-08-26

▶ DNAmod: the DNA modification database 2016-08-26

▶ Hepatocyte nuclear factor 4-mediated lipotoxicity provokes mitochondrial damage in peroxisome-deficient pex19 mutants 2016-08-26

▶ Individual level predictions of Staphylococcus aureus bacteraemia-associated mortality. 2016-08-26

▶ Network analysis links genome-wide phenotypic and transcriptional stress responses in a bacterial pathogen with a large pan-genome. 2016-08-26

▶ A Model for Brain Life History Evolution 2016-08-27

▶ A feedback loop able to enlarge the brain for 2.4 myr without Darwin’s selective survival 2016-08-27

▶ The validity of pairwise models in predicting community dynamics 2016-08-27

▶ Telomere, epigenetic clock, and biomarker-composite quantifications of biological aging: Do they measure the same thing? 2016-08-27

▶ Actin retrograde flow actively aligns and orients ligand-engaged integrins in focal adhesions. 2016-08-27

▶ Architecture of a minimal signalling pathway explains the T cell response to a 1,000,000-fold variation in antigen affinity and dose 2016-08-27

▶ Occipital white matter tracts in human and macaque 2016-08-27

▶ Topologically associated domains are ancient features that coincide with Metazoan clusters of extreme noncoding conservation 2016-08-28

▶ Integrative networks illuminate biological factors underlying gene-disease associations 2016-08-28

▶ Genetic loci associated with coronary artery disease harbor evidence of selection and antagonistic pleiotropy 2016-08-28

▶ Perturbation-response genes reveal signaling footprints in cancer gene expression 2016-08-28

▶ Deep mutational scanning identifies sites in influenza nucleoprotein that affect viral inhibition by MxA 2016-08-28

▶ Canopy position has a profound effect on soybean seed composition 2016-08-29

▶ Predicting symptom severity in autism spectrum disorder based on cortical thickness measures in agglomerative data 2016-08-29

▶ Towards robust evolutionary inference with integral projection models 2016-08-29

▶ Colocalization of GWAS and eQTL Signals Detects Target Genes 2016-08-29

▶ The large majority of intergenic sites in bacteria are selectively constrained, even when known regulatory elements are excluded 2016-08-29

▶ The Phenoscape Knowledgebase: tools and APIs for computing across phenotypes from evolutionary diversity and model organisms 2016-08-29

▶ How ecological networks evolve 2016-08-29

▶ Interactions between helicase and primase are crucial for DNA replication in the enteropathogen Clostridium difficile 2016-08-29

▶ The dichotomous effects of caffeine on homologous recombination in mammalian cells 2016-08-29

▶ The Effects of Pitch Shifts on Delay-induced Changes in Vocal Sequencing in a Songbird 2016-08-29

▶ Calcium Dependent Gap Junction Plasticity: Modulation of Electrotonic Coupling in the Inferior Olive Glomerulus 2016-08-29

▶ ENTROPY IN PRIMARY SENSORY AREAS LOWER THAN IN ASSOCIATIVE ONES: THE BRAIN LIES IN HIGHER DIMENSIONS THAN THE ENVIRONMENT 2016-08-29

▶ panX: pan-genome analysis and exploration 2016-08-29

▶ Degradation of non-methylated DNA by MsPJI impairs its usefulness as epigenetic tool 2016-08-29

▶ Revealing unobserved factors underlying cortical activity using a rectified latent variable model applied to neural population recordings 2016-08-29

▶ Salmon provides accurate, fast, and bias-aware transcript expression estimates using dual-phase inference 2016-08-30

▶ Increased taxon sampling reveals thousands of hidden orthologs in flatworms 2016-08-30

▶ Use of multiple picosecond high-mass molecular dynamics simulations to predict crystallographic B-factors of folded globular proteins 2016-08-30

▶ microRNA-mRNA interaction identification in Wilms tumor using principalcomponent analysis based unsupervised feature extraction 2016-08-30

▶ Evolution trajectories of snake genes and genomes revealed by comparative analyses of five-pacer viper 2016-08-30

▶ Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly 2016-08-30

▶ Towards comprehensive and quantitative proteomics for diagnosis and therapy of human disease 2016-08-30

▶ Microclimate and radiant energy measurements using a novel device for natural resource monitoring 2016-08-30

▶ Paperfuge: An ultra-low cost, hand-powered centrifuge inspired by the mechanics of a whirligig toy 2016-08-30

▶ Evolutionary dynamics of an epigenetic switch in a fluctuating environment 2016-08-30

▶ Radiation and hybridization of the Little Devil poison frog (Oophaga sylvatica) in Ecuador 2016-08-30

▶ Cooperativity and modularity in protein folding 2016-08-30

▶ Biophysical models of protein evolution: Understanding the patterns of evolutionary sequence divergence 2016-08-30

▶ High GC Content Causes De Novo Created Proteins to be Intrinsically Disordered 2016-08-30

▶ GAVIN - Gene-Aware Variant INterpretation for medical sequencing 2016-08-30

▶ Evolution of cell-to-cell variability in stochastic, controlled, heteroplasmic mtDNA populations 2016-08-30

▶ A Neural Oscillatory Signature of Reference 2016-08-30

▶ Do Read Errors Matter for Genome Assembly? 2016-08-31

▶ Quantifying Differences and Similarities in Whole-brain White Matter Architecture Using Local Connectome Fingerprints 2016-08-31

▶ Estimating dispersal kernels using genetic parentage data 2016-08-31

▶ Connecting the sequence-space of bacterial signaling proteins to phenotypes using coevolutionary landscapes 2016-08-31

▶ Predictive computational phenotyping and biomarker discovery using reference-free genome comparisons 2016-08-31

▶ Effective Dynamic Models of Metabolic Networks 2016-08-31

▶ Eukaryotic Association Module in Phage WO Genomes from Wolbachia 2016-08-31

▶ Large-scale analysis of post-translational modifications in E. coli under glucose-limiting conditions 2016-08-31

▶ Patterns of individual variation in visual pathway structure and function in the sighted and blind 2016-08-31

▶ Recombination-driven genome evolution and stability of bacterial species 2016-08-31

▶ Assembly of Radically Recoded E. coli Genome Segments 2016-08-31

▶ Genetic Prediction of Male Pattern Baldness 2016-08-31

▶ QCAT: testing causality of variants using only summary association statistics 2016-08-31

▶ mtDNA diversity in human populations highlights the merit of haplotype matching in gene therapies 2016-08-31

▶ Simera: Modelling the PCR Process to Simulate Realistic Chimera Formation 2016-08-31

▶ Evolution of natal dispersal in spatially heterogenous environments 2016-08-31

▶ Genomic signature of kin selection in an ant with obligately sterile workers 2016-08-31

▶ Deep Annotation of Protein Function across Diverse Bacteria from Mutant Phenotypes 2016-08-31

▶ The impacts of drift and selection on genomic evolution in holometabolous insects 2016-08-31

▶ Evolutionary Genetics of Insecticide Resistance and the Effects of Chemical Rotation 2016-08-31

▶ A REPETITIVE MODULAR OSCILLATION UNDERLIES HUMAN BRAIN ELECTRIC ACTIVITY 2016-08-31

▶ Cooperative DNA binding by a splice variant of the transcription factor ETS1 that lacks autoinhibition 2016-08-31

▶ DNA from dust: comparative genomics of large DNA viruses in field surveillance samples 2016-09-01

▶ The Interaction of Genotype and Environment Determines Variation in the Maize Kernel Ionome 2016-09-01

▶ Synaptonemal complex components are required for meiotic checkpoint function in C. elegans 2016-09-01

▶ Genes mirror migrations and cultures in prehistoric Europe - a population genomic perspective 2016-09-01

▶ Quorum sensing modulatory effect of sound stimulation on Serratia marcescens and Pseudomonas aeruginosa 2016-09-01

▶ eIF3 plays distinct roles at the mRNA entry and exit channels of the ribosomal preinitiation complex 2016-09-01

▶ Contig annotation tool CAT robustly classifies assembled metagenomic contigs and long sequences 2016-09-01

▶ Perpendicular axes of incipient speciation generated by mitochondrial introgression 2016-09-01

▶ Integrating gene expression with summary association statistics to identify susceptibility genes for 30 complex traits 2016-09-01

▶ Dissecting the genetics of complex traits using summary association statistics 2016-09-01

▶ Regions of very low H3K27me3 partition the Drosophila genome into topological domains 2016-09-01

▶ Regulation of cancer epigenomes with a histone-binding synthetic transcription factor 2016-09-01

▶ CH···O Interactions Are Not the Cause of Trends in Reactivity and Secondary Kinetic Isotope Effects for Enzymatic SN2 Methyl Transfer Reactions 2016-09-01

▶ CIViC: A knowledgebase for expert-crowdsourcing the clinical interpretation of variants in cancer. 2016-09-01

▶ Selection on heterozygosity drives adaptation in intra- and interspecific hybrids 2016-09-01

▶ MUSCLES OF FACIAL EXPRESSION IN EXTINCT SPECIES OF THE GENUS HOMO 2016-09-01

▶ Natural Variation in Arabidopsis Cvi-0 Accession Uncovers Regulation of Guard Cell CO2 Signaling by MPK12 2016-09-01

▶ SC3 - consensus clustering of single-cell RNA-Seq data 2016-09-02

▶ Tunable bet hedging in yeast responses to osmotic stress 2016-09-02

▶ The regulatable MAL32 promoter in S. cerevisiae: characteristics and tools to facilitate its use 2016-09-02

▶ Panpulmonate transcriptomes reveal candidate genes involved in the adaptation to freshwater and terrestrial habitats in gastropods 2016-09-02

▶ The visual white matter: The application of diffusion MRI and fiber tractography to vision science 2016-09-02

▶ Comprehensive Analysis of Two Shank3 and the Cacna1c Mouse Models of Autism Spectrum Disorder 2016-09-02

▶ Sexual dimorphism in the Drosophila metabolome increases throughout development 2016-09-02

▶ Ankyrin G membrane partners drive the establishment and maintenance of the axon initial segment 2016-09-02

▶ Reductive Analytics on Big MS Data leads to tremendous reduction in time for peptide deduction 2016-09-02

▶ Trends in DNA methylation with age replicate across diverse human populations 2016-09-02

▶ Zika virus replication in the mosquito Culex quinquefasciatus in Brazil 2016-09-02

▶ Learning improves conscious access at the bottom, but not the top: Reverse hierarchical effects in perceptual learning and metacognition 2016-09-02

▶ A Novel Clustering Method for Patient Stratification 2016-09-03

▶ Gene expression analysis provides insight into the physiology of the important staple food crop cassava 2016-09-03

▶ Network Modules Driving Plant Stress Response, Tolerance and Adaptation: A case study using Abscisic acid Induced Protein-protein Interactome of Arabidopsis thaliana 2016-09-03

▶ Decellularised Human Liver is too Heterogeneous for Designing a Generic ECM-mimic Hepatic Scaffold 2016-09-04

▶ Direct and Indirect Models for Protein Chemical Denaturation are Characteristic of Opposite Dynamic Properties 2016-09-04

▶ A Scalable Algorithm for Structure Identification of Complex Gene Regulatory Network from Temporal Expression Data 2016-09-04

▶ Pitfalls in Inferring Human Microbial Dynamics from Temporal Metagenomics Data 2016-09-04

▶ Wolbachia infections in Aedes aegypti differ markedly in their response to cyclical heat stress 2016-09-04

▶ Recent advances in the study of fine-scale population structure in humans 2016-09-04

▶ High throughput sequencing of multiple amplicons for barcoding and integrative taxonomy 2016-09-04

▶ Fossils matter: improved estimates of divergence times in Pinus reveal older diversification 2016-09-04

▶ Range stability predicts lineage persistence in a morphologically cryptic ground squirrel species complex 2016-09-04

▶ GPhase: Greedy Approach for Accurate Haplotype Inferencing 2016-09-04

▶ Acute and chronic gregarisation are associated with distinct DNA methylation fingerprints in desert locusts 2016-09-05

▶ A Multi-Crystal Method for Extracting Obscured Signal from Crystallographic Electron Density 2016-09-05

▶ LoRTE: Detecting transposon-induced genomic variants using low coverage PacBio long read sequences 2016-09-05

▶ Behavioral syndromes can reduce population density: behavior and demographic heterogeneity 2016-09-05

▶ Comparative genomics and metagenomics analyses of endangered Père David’s deer (Elaphurus davidianus) provide insights into population recovery 2016-09-05

▶ Improving the temporal accuracy of functional Magnetic Resonance Imaging 2016-09-05

▶ Impact of type 2 diabetes on cardiorespiratory function and exercise performance 2016-09-05

▶ Precise label-free quantitative proteomes in high-throughput by microLC and data-independent SWATH acquisition 2016-09-05

▶ TP53 copy number expansion correlates with the evolution of increased body size and an enhanced DNA damage response in elephants 2016-09-06

▶ Auxin-induced expression divergence between Arabidopsis species likely originates within the TIR1/AFB-AUX/IAA-ARF module 2016-09-06

▶ A Common Class of Transcripts with 5′-Intron Depletion, Distinct Early Coding Sequence Features, and N1-Methyladenosine Modification 2016-09-06

▶ Lognormal firing rate distribution reveals prominent fluctuation-driven regime in spinal motor networks 2016-09-06

▶ Mosaic Mutations in Blood DNA Sequence Are Associated with Solid Tumor Cancers 2016-09-06

▶ On the estimation errors of KM and V from time-course experiments using the Michaelis-Menten equation 2016-09-06

▶ Zika virus infection as a cause of congenital brain abnormalities and Guillain-Barre syndrome: systematic review 2016-09-06

▶ Transcriptome analysis revealed the possible contribution of chromosome introgression fragments from Sea Island cotton (Gossypium barbadense) to fiber strength in Upland cotton (Gossypium hirsutum) 2016-09-06

▶ Ethnically relevant consensus Korean reference genome towards personal reference genomes 2016-09-06

▶ Molecular adaptation in Rubisco: discriminating between convergent evolution and positive selection using mechanistic and classical codon models 2016-09-06

▶ De novo extraction of microbial strains from metagenomes reveals intra-species niche partitioning 2016-09-06

▶ SVScore: An Impact Prediction Tool For Structural Variation 2016-09-06

▶ High-throughput detection of RNA processing in bacteria 2016-09-06

▶ Integrative classification of human coding and non-coding genes based on RNA metabolism profiles 2016-09-06

▶ Genome-wide binding of posterior HOXA/D transcription factors reveals subgrouping and association with CTCF 2016-09-06

▶ Interplay between periodic stimulation and GABAergic inhibition in striatal network oscillations 2016-09-06

▶ Volumetric Two-photon Imaging of Neurons Using Stereoscopy (vTwINS) 2016-09-06

▶ Overlap of movement planning and movement execution reduces reaction time by up to 100ms. 2016-09-07

▶ Real-time Zika risk assessment in the United States 2016-09-07

▶ Immunoecology of species with alternative reproductive tactics and strategies 2016-09-07

▶ The evolutionary origin of bilaterian smooth and striated myocytes 2016-09-07

▶ An efficient electroporation protocol for the genetic modification of mammalian cells 2016-09-07

▶ Spatial patterning of P granules by RNA-induced phase separation of the intrinsically-disordered protein MEG-3 2016-09-07

▶ A Bayesian method for reducing bias in neural representational similarity analysis 2016-09-07

▶ Draft genomes of clinical Bacillus cereus isolates AH725 and B06.009 closely related to reference strains ATCC 14579 and ATCC 10987 2016-09-07

▶ Survey of the Heritability and Sparsity of Gene Expression Traits Across Human Tissues 2016-09-08

▶ Robust cell tracking in epithelial tissues through identification of maximum common subgraphs 2016-09-08

▶ Insects and associated arthropods analyzed during medicolegal death investigations in Harris County, Texas, USA: January 2013- April 2016 2016-09-08

▶ MTQuant: "Seeing" Beyond the Diffraction Limit in Fluorescence Images to Quantify Neuronal Microtubule Organization 2016-09-08

▶ Secondary-structure prediction revisited: Pβ and Pc represent structures of amyloids and aid elucidating phenomena in interspecies transmissions of prion. 2016-09-08

▶ Overcoming confounding plate effects in differential expression analyses of single-cell RNA-seq data 2016-09-08

▶ HiChIP: Efficient and sensitive analysis of protein-directed genome architecture 2016-09-08

▶ 13C metabolic flux ratio analysis by direct measurement of free metabolic intermediates in L. mexicana using gas chromatography-mass spectrometry 2016-09-08

▶ Insertion patterns of P{lacW} and P{EP} artificial transposons on the third chromosome of Drosophila melanogaster 2016-09-08

▶ The impact of the newly licensed dengue vaccine in endemic countries 2016-09-08

▶ Design of Vaccine Trials during Outbreaks with and without a Delayed Vaccination Comparator 2016-09-08

▶ Learning to cooperate: The evolution of social rewards in repeated interactions 2016-09-08

▶ Power Analysis of Single Cell RNA‐Sequencing Experiments 2016-09-08

▶ Assessing data quality in citizen science - preprint 2016-09-08

▶ Optimal Point Process Filtering and Estimation of the Coalescent Process 2016-09-09

▶ What the Success of Brain Imaging Implies about the Neural Code 2016-09-09

▶ Genome-wide association and HLA region fine-mapping studies identify susceptibility loci for multiple common infections 2016-09-09

▶ Ultrasensitive detection of TCR hypervariable region in solid-tissue RNA-seq data 2016-09-09

▶ Comparing individual-based approaches to modelling the self-organization of multicellular tissues 2016-09-09

▶ Automated Visualization of Rule-based Models 2016-09-09

▶ SINTAX: a simple non-Bayesian taxonomy classifier for 16S and ITS sequences 2016-09-09

▶ A framework for RNA quality correction in differential expression analysis 2016-09-09

▶ Fitness effects of thermal stress differ between outcrossing and selfing populations in Caenorhabditis elegans 2016-09-09

▶ Who’s who? Detecting and resolving sample anomalies in human DNA sequencing studies with peddy 2016-09-09

▶ MAPPING OF LONG-RANGE CHROMATIN INTERACTIONS BY PROXIMITY LIGATION ASSISTED CHIP-SEQ 2016-09-09

▶ The impact of rare variation on gene expression across tissues 2016-09-09

▶ Local genetic effects on gene expression across 44 human tissues 2016-09-09

▶ Distant regulatory effects of genetic variation in multiple human tissues 2016-09-09

▶ A single intracellular protein governs the critical transition from an individual to a coordinated population response during quorum sensing: Origins of primordial language 2016-09-09

▶ Shared roles of dorsal and subgenual anterior cingulate cortices in economic decisions 2016-09-09

▶ Prefrontal cortical control of a brainstem social behavior circuit 2016-09-09

▶ Stochastic dynamics of genetic broadcasting networks 2016-09-09

▶ Gender disparity in computational biology research publications 2016-09-09

▶ Dis-integrating the fly: A mutational perspective on phenotypic integration and covariation 2016-09-10

▶ Reconstitution of three-phase microtubule polymerisation dynamics 2016-09-10

▶ A phenomenological spatial model for macro-ecological patterns in species-rich ecosystems 2016-09-10

▶ Simulation model for dynamics of three types of annual plants 2016-09-10

▶ Properties of compostite feedback-feedforward pulse generating motifs. 2016-09-10

▶ Genome-wide reconstruction of complex structural variants using read clouds 2016-09-10

▶ Rapid metagenomic next-generation sequencing during an investigation of hospital-acquired human parainfluenza virus 3 infections 2016-09-10

▶ Calculation of a distribution free estimate of effect size and confidence intervals using VBA/Excel 2016-09-10

▶ A simple proposal for the publication of journal citation distributions 2016-09-11

▶ Identification of quercetin from fruits to immediately fight Zika 2016-09-11

▶ Estimating the causal tissues for complex traits and diseases 2016-09-11

▶ Validation of Reference Genes for RT-qPCR in Marine Bivalve Ecotoxicology: Systematic Review and Case Study 2016-09-11

▶ Top-Down Beta Oscillatory Signaling Conveys Behavioral Context to Primary Visual Cortex 2016-09-11

▶ Global Reduction of Information Exchange during Anesthetic-Induced Unconsciousness 2016-09-11

▶ Revealing complex ecological dynamics via symbolic regression 2016-09-11

▶ Predicting binding free energies: Frontiers and benchmarks 2016-09-11

▶ ŌvSim: a Simulation of the Population Dynamics of Mammalian Ovarian Follicles 2016-09-12

▶ The Computational Nature of Memory Modification 2016-09-12

▶ Genomic evidence for population-specific responses to coevolving parasites in a New Zealand freshwater snail 2016-09-12

▶ Adaptively introgressed Neandertal haplotype at the OAS locus functionally impacts innate immune responses in humans. 2016-09-12

▶ Extrinsic repair of injured dendrites as a paradigm for regeneration by fusion 2016-09-12

▶ Phylogenetic factorization of compositional data 2016-09-12

▶ UCHIME2: improved chimera prediction for amplicon sequencing 2016-09-12

▶ Single-cell transcriptome analysis of fish immune cells provides insight into the evolution of vertebrate immunity 2016-09-12

▶ A note on detecting statistical outliers in psychophysical data 2016-09-12

▶ Chromatin marks govern mutation landscape of cancer at early stage of progression 2016-09-12

▶ A bromodomain-DNA interaction facilitates acetylation-dependent bivalent nucleosome recognition by the BET protein BRDT 2016-09-12

▶ Annotation and differential analysis of alternative splicing using de novo assembly of RNAseq data 2016-09-12

▶ Metagenomic sequencing of dung beetle intestinal contents directly detects and identifies mammalian fauna 2016-09-12

▶ Quantifying the extent to which index event biases influence large genetic association studies 2016-09-12