bioRxiv directory

Shaked Afik;Kathleen B Yates;Kevin Bi;Samuel Darko;Jernej Godec;Ulrike Gerdemann;Leo Swadling;Daniel C Douek;Paul Klenerman;Eleanor J Barnes;Arlene H Sharpe;W. Nicholas Haining;Nir Yosef;

10.1101/072744 — Bioinformatics — Posted on 2016-08-31

16 Behavioral tagging and the penumbra of learning

Samuel J Gershman;

10.1101/072678 — Animal Behavior and Cognition — Posted on 2016-08-31

17 Population-genomic inference of the strength and timing of selection against gene flow

Simon Aeschbacher;Jessica Packard Selby;John H. Willis;Graham Coop;

10.1101/072736 — Evolutionary Biology — Posted on 2016-08-31

18 Containing Emerging Epidemics: a Quantitative Comparison of Quarantine and Symptom Monitoring

Corey M. Peak;Lauren M. Childs;Yonatan H. Grad;Caroline O. Buckee;

10.1101/072652 — Epidemiology — Posted on 2016-08-31

19 A phylogenetic transform enhances analysis of compositional microbiota data

Justin D Silverman;Alex Washburne;Sayan Mukherjee;Lawrence A David;

10.1101/072413 — Bioinformatics — Posted on 2016-08-31

20 Evaluating the Stability and Flexibility of DNA Methylation Patterns from Stem to Differentiated Cells

Minseung Choi;Diane P Genereux;Jamie Goodson;Haneen Al-Azzawi;Shannon Q. Allain;Stan Palasek;Carol B. Ware;Chris Cavanaugh;Daniel G. Miller;Winslow C. Johnson;Kevin D. Sinclair;Reinhard Stoger;Charles D. Laird;

10.1101/072488 — Genetics — Posted on 2016-08-31

21 Cooperative DNA binding by a splice variant of the transcription factor ETS1 that lacks autoinhibition

Daniel Samorodnitsky;Courtney Szyjka;Gerald Koudelka;

10.1101/070185 — Biochemistry — Posted on 2016-08-31

22 Mating success associated with the white gene in Drosophila melanogaster

Chengfeng Xiao;Shuang Qiu;R Meldrum Robertson;

10.1101/072710 — Animal Behavior and Cognition — Posted on 2016-08-31

23 A hierarchical Bayesian framework for understanding the spatiotemporal dynamics of the intestinal epithelium

Oliver J Maclaren;Aimee Parker;Carmen Pin;Simon R Carding;Alastair JM Watson;Alexander G Fletcher;Helen M Byrne;Philip K Maini;

10.1101/072561 — Systems Biology — Posted on 2016-08-31

24 Disrupted cholinergic modulation can underlie abnormal gamma rhythms in the schizophrenia and and auditory hallucination

Jung H. Lee;

10.1101/072504 — Pathology — Posted on 2016-08-31

25 A REPETITIVE MODULAR OSCILLATION UNDERLIES HUMAN BRAIN ELECTRIC ACTIVITY

Arturo Tozzi;James Peters;Norbert Jausovec;

10.1101/072538 — Neuroscience — Posted on 2016-08-31

26 Evolutionary Genetics of Insecticide Resistance and the Effects of Chemical Rotation

Dylan J Siniard;Michael J Wade;Douglas W Drury;

10.1101/072520 — Evolutionary Biology — Posted on 2016-08-31

27 The impacts of drift and selection on genomic evolution in holometabolous insects

K. Jun Tong;Sebastian Duchene;Nathan Lo;Simon Y.W. Ho;

10.1101/072512 — Evolutionary Biology — Posted on 2016-08-31

28 Deep Annotation of Protein Function across Diverse Bacteria from Mutant Phenotypes

Morgan N Price;Kelly M Wetmore;Robert Jordan Waters;Mark Callaghan;Jayashree Ray;Jennifer V Kuehl;Ryan A Melnyk;Jacob S Lamson;Yumi Suh;Zuelma Esquivel;Harini Sadeeshkumar;Romy Chakraborty;Benjamin E Rubin;James Bristow;Matthew J Blow;Adam P Arkin;Adam M Deutschbauer;

10.1101/072470 — Microbiology — Posted on 2016-08-31

29 Genomic signature of kin selection in an ant with obligately sterile workers

Michael R Warner;Alexander Mikheyev;Timothy A Linksvayer;

10.1101/072496 — Evolutionary Biology — Posted on 2016-08-31

30 Evolution of natal dispersal in spatially heterogenous environments

Robert S. Cantrell;Chris Cosner;Yuan Lou;Sebastian Schreiber;

10.1101/072462 — Ecology — Posted on 2016-08-31

31 Simera: Modelling the PCR Process to Simulate Realistic Chimera Formation

Ben Nichols;Christopher Quince;

10.1101/072447 — Bioinformatics — Posted on 2016-08-31

32 MetacodeR: An R package for manipulation and heat tree visualization of community taxonomic data from metabarcoding

Zachary S. L. Foster;Thomas Sharpton;Niklaus J Grunwald;

10.1101/071019 — Bioinformatics — Posted on 2016-08-31

33 A new foreperiod effect on single-trial phase coherence.\\ Part I: existence and relevance

Joaquin Rapela;Marissa Westerfield;Jeanne Townsend;Scott Makeig;

10.1101/072371 — Neuroscience — Posted on 2016-08-30

34 Panpulmonate transcriptomes reveal candidate genes involved in the adaptation to freshwater and terrestrial habitats in gastropods

Pedro Eduardo Romero;Barbara Feldmeyer;Markus Pfenninger;

10.1101/072389 — Evolutionary Biology — Posted on 2016-08-31

35 Panpulmonate transcriptomes reveal candidate genes involved in the adaptation to freshwater and terrestrial habitats in gastropods

Pedro Eduardo Romero;Barbara Feldmeyer;Markus Pfenninger;

10.1101/072389 — Evolutionary Biology — Posted on 2016-08-30

36 A revised dilution methodology and implications for estimates of rates of plankton mortality

Stephen J Beckett;Joshua S Weitz;

10.1101/072231 — Ecology — Posted on 2016-08-30

37 PRIMARY EVIDENCE OF A DONUT-LIKE, FOURTH SPATIAL DIMENSION IN THE BRAIN

James Peters;Ebubekir İnan;Arturo Tozzi;Sheela Ramanna;

10.1101/072397 — Neuroscience — Posted on 2016-08-30

38 Detecting consistent patterns of directional adaptation using differential selection codon models

Sahar Parto;Nicolas Lartillot;

10.1101/072405 — Bioinformatics — Posted on 2016-08-30

39 Zika infection of neural progenitor cells perturbs transcription in neurodevelopmental pathways

Lynn Yi;Harold Pimentel;Lior Pachter;

10.1101/072439 — Bioinformatics — Posted on 2016-08-30

40 A Neural Oscillatory Signature of Reference

Mante Nieuwland;Andrea E Martin;

10.1101/072322 — Neuroscience — Posted on 2016-08-30

41 Evolution of cell-to-cell variability in stochastic, controlled, heteroplasmic mtDNA populations

Iain Johnston;Nick Jones;

10.1101/072363 — Genetics — Posted on 2016-08-30

42 mtDNA diversity in human populations highlights the merit of haplotype matching in gene therapies

Ellen C Royrvik;Joerg P Burgstaller;Iain G Johnston;

10.1101/072348 — Genetics — Posted on 2016-08-31

43 mtDNA diversity in human populations highlights the merit of haplotype matching in gene therapies

Ellen C Royrvik;Joerg P Burgstaller;Iain G Johnston;

10.1101/072348 — Genetics — Posted on 2016-08-30

44 QCAT: testing causality of variants using only summary association statistics

Donghyung Lee;Tim Bigdeli;Vladimir Vladimirov;Ayman H Fanous;Silviu-Alin Bacanu;

10.1101/072355 — Genetics — Posted on 2016-08-31

45 QCAT: testing causality of variants using only summary association statistics

Donghyung Lee;Tim Bigdeli;Vladimir Vladimirov;Ayman H Fanous;Silviu-Alin Bacanu;

10.1101/072355 — Genetics — Posted on 2016-08-30

46 GAVIN - Gene-Aware Variant INterpretation for medical sequencing

K. Joeri van der Velde;Eddy N de Boer;Cleo van Diemen;Birgit Sikkema-Raddatz;Kristin Abbott;Alain Knopperts;Lude Franke;Rolf Sijmons;Tom J de Koning;Cisca Wijmenga;Richard Sinke;Morris Swertz;

10.1101/072330 — Bioinformatics — Posted on 2016-08-30

47 An immuno-suppressive aphid saliva protein is delivered into the cytosol of plant mesophyll cells during feeding.

Sam T Mugford;Elaine Barclay;Claire Drurey;Kim C Findlay;Saskia A Hogenhout;

10.1101/071811 — Plant Biology — Posted on 2016-08-30

48 Detecting High-Order Epistasis in Nonlinear Genotype-Phenotype Maps

Zachary R Sailer;Michael J Harms;

10.1101/072256 — Genetics — Posted on 2016-08-30

49 Genetic Prediction of Male Pattern Baldness

Saskia P Hagenaars;William David Hill;Sarah E Harris;Stuart J Ritchie;Gail Davies;David Liewald;Catharine Gale;David John Porteous;Ian Deary;Riccardo Marioni;

10.1101/072306 — Genetics — Posted on 2016-08-31

50 Genetic Prediction of Male Pattern Baldness

Saskia P Hagenaars;William David Hill;Sarah E Harris;Stuart J Ritchie;Gail Davies;David Liewald;Catharine Gale;David John Porteous;Ian Deary;Riccardo Marioni;

10.1101/072306 — Genetics — Posted on 2016-08-30

51 High GC Content Causes De Novo Created Proteins to be Intrinsically Disordered

Walter Basile;Oxana Sachenkova;Sara Light;Arne Elofsson;

10.1101/070003 — Evolutionary Biology — Posted on 2016-08-30

52 Biophysical models of protein evolution: Understanding the patterns of evolutionary sequence divergence

Julian Echave;Claus Wilke;

10.1101/072223 — Biophysics — Posted on 2016-08-30

53 Cooperativity and modularity in protein folding

Masaki Sasai;George Chikenji;Tomoki P Terada;

10.1101/072280 — Biophysics — Posted on 2016-08-30

54 MutationalPatterns: an integrative R package for studying patterns in base substitution catalogues

Francis Blokzijl;Roel Janssen;Ruben Van Boxtel;Edwin Cuppen;

10.1101/071761 — Bioinformatics — Posted on 2016-08-30

55 Radiation and hybridization of the Little Devil poison frog (Oophaga sylvatica) in Ecuador

Alexandre B Roland;Juan C Santos;Bella C Carriker;Stephanie N Caty;Elicio E Tapia;Luis A Coloma;Lauren A O'Connell;

10.1101/072181 — Evolutionary Biology — Posted on 2016-08-30

56 Evolutionary dynamics of an epigenetic switch in a fluctuating environment

Mariana Gómez-Schiavon;Nicolas E Buchler;

10.1101/072199 — Evolutionary Biology — Posted on 2016-08-30

57 Evolutionary dynamics of an epigenetic switch in a fluctuating environment

Mariana Gómez-Schiavon;Nicolas E Buchler;

10.1101/072199 — Evolutionary Biology — Posted on 2016-08-30

58 Paperfuge: An ultra-low cost, hand-powered centrifuge inspired by the mechanics of a whirligig toy

M. Saad Bhamla;Brandon Benson;Chew Chai;Georgios Katsikis;Aanchal Johri;Manu Prakash;

10.1101/072207 — Bioengineering — Posted on 2016-08-30

59 Factors contributing to the accumulation of reproductive isolation: a mixed model approach

Dean M Castillo;

10.1101/072264 — Evolutionary Biology — Posted on 2016-08-30

60 Microclimate and radiant energy measurements using a novel device for natural resource monitoring

Taylor Thomas;Adam Wolf;

10.1101/072108 — Ecology — Posted on 2016-08-30

61 Towards comprehensive and quantitative proteomics for diagnosis and therapy of human disease

Paolo Cifani;Alex Kentsis;

10.1101/072215 — Cell Biology — Posted on 2016-08-30

62 Revealing unobserved factors underlying cortical activity using a rectified latent variable model applied to neural population recordings

Matthew R Whiteway;Daniel A Butts;

10.1101/072173 — Neuroscience — Posted on 2016-08-29

63 The Reading Frame Surveillance Hypothesis and the Origins of RNAi

John T. Gray;

10.1101/071985 — Molecular Biology — Posted on 2016-08-30

64 The Reading Frame Surveillance Hypothesis and the Origins of RNAi

John T. Gray;

10.1101/071985 — Molecular Biology — Posted on 2016-08-29

65 Degradation of non-methylated DNA by MsPJI impairs its usefulness as epigenetic tool

Maria Belen Jerez;Maximiliano Juri Ayub;

10.1101/072090 — Molecular Biology — Posted on 2016-08-29

66 Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly

Valerie A Schneider;Tina Graves Lindsay;Kerstin Howe;Nathan Bouk;Hsiu-Chuan Chen;Paul A. Kitts;Terence D Murphy;Kim D. Pruitt;Françoise Thibaud-Nissen;Derek Albracht;Robert S Fulton;Milinn Kremitzki;Vince Magrini;Chris Markovic;Sean McGrath;Karyn Meltz Steinberg;Kate Auger;Will Chow;Joanna Collins;Glenn Harden;Tim Hubbard;Sarah Pelan;Jared T Simpson;Glen Threadgold;James Torrance;Jonathan Wood;Laura Clarke;Sergey Koren;Matthew Boitano;Heng Li;Chen-Shan Chin;Adam M. Phillippy;Richard Durbin;Richard K Wilson;Paul Flicek;Deanna M Church;

10.1101/072116 — Genomics — Posted on 2016-08-30

67 Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly

10.1101/072116 — Genomics — Posted on 2016-08-29

68 panX: pan-genome analysis and exploration

Wei Ding;Franz Baumdicker;Richard A Neher;

10.1101/072082 — Evolutionary Biology — Posted on 2016-08-29

69 Pollinator species traits do not predict either response to agricultural intensification or functional contribution

Ignasi Bartomeus;Daniel Cariveau;Tina Harrison;Rachael Winfree;

10.1101/072132 — Ecology — Posted on 2016-08-29

70 ENTROPY IN PRIMARY SENSORY AREAS LOWER THAN IN ASSOCIATIVE ONES: THE BRAIN LIES IN HIGHER DIMENSIONS THAN THE ENVIRONMENT

James Peters;Arturo Tozzi;Ebubekir İnan;Sheela Ramanna;

10.1101/071977 — Neuroscience — Posted on 2016-08-29

71 Calcium Dependent Gap Junction Plasticity: Modulation of Electrotonic Coupling in the Inferior Olive Glomerulus

Jornt De Gruijl;Piotr Sokol;Mario Negrello;Cris I De Zeeuw;

10.1101/072041 — Neuroscience — Posted on 2016-08-29

72 The Effects of Pitch Shifts on Delay-induced Changes in Vocal Sequencing in a Songbird

MacKenzie Wyatt;Emily A. Berthiaume;Conor W. Kelly;Samuel J. Sober;

10.1101/072009 — Neuroscience — Posted on 2016-08-29

73 Astrocytes locally translate transcripts in their peripheral processes

Kristina Sakers;Allison M Lake;Rohan Khazanchi;Rebecca Ouwenga;Michael J Vasek;Adish Dani;Joseph D Dougherty;

10.1101/071795 — Neuroscience — Posted on 2016-08-29

74 The dichotomous effects of caffeine on homologous recombination in mammalian cells

Alissa C Magwood;Maureen M Mundia;Dick D Mosser;Mark D Baker;

10.1101/072058 — Molecular Biology — Posted on 2016-08-29

75 Interactions between helicase and primase are crucial for DNA replication in the enteropathogen Clostridium difficile

Erika Van Eijk;Vasileios Paschalis;Matthew Green;Annemieke H. Friggen;Marilynn A. Larson;Keith Spriggs;Geoffrey Briggs;Panos Soultanas;Wiep Klaas Smits;

10.1101/071829 — Microbiology — Posted on 2016-08-29

76 Remating responses are shaped by male post-copulatory manipulation but not reinforcement in D. pseudoobscura

Jeremy S Davis;Dean M Castillo;Leonie C Moyle;

10.1101/072066 — Evolutionary Biology — Posted on 2016-08-29

77 Dissolved organic matter and inorganic mercury loadings favor novel methylators and fermentation metabolisms in oligotrophic sediments

Emily B. Graham;Joseph E. Knelman;Rachel S. Gabor;Shon Schooler;Diane M. McKnight;Diana Nemergut;

10.1101/072017 — Ecology — Posted on 2016-08-29

78 How ecological networks evolve

Timothée Poisot;Daniel Stouffer;

10.1101/071993 — Ecology — Posted on 2016-08-29

79 Deep mutational scanning identifies sites in influenza nucleoprotein that affect viral inhibition by MxA

Orr Ashenberg;Jai Padmakumar;Michael B Doud;Jesse Bloom;

10.1101/071969 — Microbiology — Posted on 2016-08-28

80 The Phenoscape Knowledgebase: tools and APIs for computing across phenotypes from evolutionary diversity and model organisms

James P Balhoff;Phenoscape project team;

10.1101/071951 — Bioinformatics — Posted on 2016-08-29

81 The Phenoscape Knowledgebase: tools and APIs for computing across phenotypes from evolutionary diversity and model organisms

James P Balhoff;Phenoscape project team;

10.1101/071951 — Bioinformatics — Posted on 2016-08-28

82 Matching tutor to student: rules and mechanisms for efficient two-stage learning in neural circuits

Tiberiu Tesileanu;Bence Ölveczky;Vijay Balasubramanian;

10.1101/071910 — Animal Behavior and Cognition — Posted on 2016-08-27

83 Paleochronic reversion in Psophocarpus, the decompression function in floral anatomic fields

Edward G F Benya;

10.1101/070540 — Plant Biology — Posted on 2016-08-27

84 Occipital white matter tracts in human and macaque

Hiromasa Takemura;Franco Pestilli;Kevin S Weiner;Georgios A Keliris;Sofia M Landi;Julia Sliwa;Frank Q Ye;Michael A Barnett;David A Leopold;Winrich A Freiwald;Nikos K Logothetis;Brian A Wandell;

10.1101/069443 — Neuroscience — Posted on 2016-08-27

85 Evolution of Drift Robustness in Small Populations of Digital Organisms

Thomas LaBar;Christoph Adami;

10.1101/071894 — Evolutionary Biology — Posted on 2016-08-27

86 Direction of actin flow dictates integrin LFA-1 orientation during leukocyte migration

Pontus Nordenfelt;Travis I. Moore;Shalin B. Mehta;Joseph Mathew Kalappurakkal;Vinay Swaminathan;Nobuyasu Koga;Talley J. Lambert;David Baker;Jenifer C. Waters;Rudolf Oldenbourg;Tomomi Tani;Satyajit Mayor;Clare M. Waterman;Timothy A. Springer;

10.1101/071936 — Cell Biology — Posted on 2016-08-27

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

Melissa Lever;Hong-Sheng Lim;Philipp Kruger;John Nguyen;Nicola Trendel;Enas Abu-Shah;Philip K Maini;Philip Anton van der Merwe;Omer Dushek;

10.1101/071878 — Immunology — Posted on 2016-08-27

88 Reinforcement of conspecific sperm precedence weakens sexual selection in sympatric populations of Drosophila

Dean M Castillo;Leonie C Moyle;

10.1101/071886 — Evolutionary Biology — Posted on 2016-08-27

89 Actin retrograde flow actively aligns and orients ligand-engaged integrins in focal adhesions.

Vinay Swaminathan;Joseph Mathew Kalappurakkal;Shalin B. Mehta;Pontus Nordenfelt;Travis I Moore;Koga Nobuyasu;David A. Baker;Rudolf Oldenbourg;Tomomi Tani;Satyajit Mayor;Timothy A Springer;Clare M Waterman;

10.1101/071852 — Cell Biology — Posted on 2016-08-27

90 Network analysis links genome-wide phenotypic and transcriptional stress responses in a bacterial pathogen with a large pan-genome.

Paul A. Jensen;Zeyu Zhu;Tim van Opijnen;

10.1101/071704 — Systems Biology — Posted on 2016-08-26

91 Fast Antibiotic Susceptibility Testing (FASTest) based on single cell growth rate measurements.

Özden BALTEKIN;Alexis Boucharin;Dan I Andersson;Johan Elf;

10.1101/071407 — Molecular Biology — Posted on 2016-08-26

92 Individual level predictions of Staphylococcus aureus bacteraemia-associated mortality.

Mario Recker;Maisem Laabei;Michelle Toleman;Sandra Reuter;Beth Blane;Estee Torok;Sion Bayliss;Sharon Peacock;Ruth Massey;

10.1101/071837 — Microbiology — Posted on 2016-08-26

93 Mycobacterium ulcerans low infectious dose and atypical mechanical transmission support insect bites and puncturing injuries in the spread of Buruli ulcer.

John R. Wallace;Kirstie M. Mangas;Jessica L. Porter;Renee Marcsisin;Sacha J. Pidot;Brian O. Howden;Till F. Omansen;Weiguang Zeng;Jason K. Axford;Paul D. R. Johnson;Timothy P. Stinear;

10.1101/071753 — Microbiology — Posted on 2016-08-27

94 Mycobacterium ulcerans low infectious dose and atypical mechanical transmission support insect bites and puncturing injuries in the spread of Buruli ulcer.

John R. Wallace;Kirstie M. Mangas;Jessica L. Porter;Renee Marcsisin;Sacha J. Pidot;Brian O. Howden;Till F. Omansen;Weiguang Zeng;Jason K. Axford;Paul D. R. Johnson;Timothy P. Stinear;

10.1101/071753 — Microbiology — Posted on 2016-08-26

95 Hepatocyte nuclear factor 4-mediated lipotoxicity provokes mitochondrial damage in peroxisome-deficient pex19 mutants

Margret Helene Buelow;Julia Sellin;Christian Wingen;Deniz Senyilmaz;Dominic Gosejacob;Aurelio A Teleman;Michael Hoch;

10.1101/071787 — Cell Biology — Posted on 2016-08-26

96 DNAmod: the DNA modification database

Ankur Jai Sood;Coby Viner;Michael M. Hoffman;

10.1101/071712 — Bioinformatics — Posted on 2016-08-26

97 Influence of a mono-frequency sound on bacteria can be a function of the sound-level

Vijay Kothari;Chinmayi Joshi;Pooja Patel;Milan Mehta;Sashikant Dubey;Brijesh Mishra;Niral Sarvaiya;

10.1101/071746 — Microbiology — Posted on 2016-08-26

98 Mating promotes lactic-acid gut bacteria in a gift-giving insect

Chad C Smith;Robert B Srygley;Emma I Dietrich;Ulrich Mueller;

10.1101/071001 — Microbiology — Posted on 2016-08-26

99 Characterization of the pscC (Type III secretion) gene of Pseudomonas aeruginosa (PA01) and assessment of immunogenicity of pscC protein in rats

Md Safiul Alam Bhuiyan;Daisy V John;Fernandes Opook;Hafiza Sultana;Kenneth Francis Rodrigues;

10.1101/071720 — Immunology — Posted on 2016-08-26

100 Metazoan ribotoxin genes acquired by Horizontal Gene Transfer

Walter Jesus Lapadula;Paula Lorena Marcet;Maria Laura Mascotti;Maria Virginia Sanchez-Puerta;Maximiliano Juri Ayub;

10.1101/071340 — Evolutionary Biology — Posted on 2016-08-26

101 Using simulation to aid trial design: ring-vaccination trials

Matt T. Hitchings;Rebecca F. Grais;Marc Lipsitch;

10.1101/071498 — Epidemiology — Posted on 2016-08-25

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

Daniel W Belsky;Terrie E Moffitt;Alan A Cohen;David L Corcoran;Morgan E Levine;Joseph Prinz;Jonathan Schaefer;Karen Sugden;Benjamin Williams;Richie Poulton;Avshalom Caspi;

10.1101/071373 — Epidemiology — Posted on 2016-08-27

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

Daniel W Belsky;Terrie E Moffitt;Alan A Cohen;David L Corcoran;Morgan E Levine;Joseph Prinz;Jonathan Schaefer;Karen Sugden;Benjamin Williams;Richie Poulton;Avshalom Caspi;

10.1101/071373 — Epidemiology — Posted on 2016-08-25

104 Dynamics Robustness of Cascading Systems

Jonathan Young;Testsuhiro S Hatakeyama;Kunihiko Kaneko;

10.1101/071589 — Systems Biology — Posted on 2016-08-25

105 Deep learning based root-soil segmentation from X-ray tomography

Clement DOUARRE;Richard SCHIELEIN;Carole FRINDEL;Stefan GERTH;David ROUSSEAU;

10.1101/071662 — Plant Biology — Posted on 2016-08-25

106 Impact of stroke on diurnal heart rate variability in rats

Sean Robert Huff;Samreen Ahmed;He Meng;Tiecheng Liu;Jimo Borjigin;Michael M. Wang;

10.1101/071555 — Neuroscience — Posted on 2016-08-25

107 Empirical assessment of published effect sizes and power in the recent cognitive neuroscience and psychology literature

Denes Szucs;John PA Ioannidis;

10.1101/071530 — Neuroscience — Posted on 2016-08-25

108 Laboratory strains of Aedes aegypti are Competent to Brazilian Zika virus

Andre Costa-da-Silva;Rafaella Sayuri Ioshino;Helena Araujo;Bianca Kojin;Paolo Marinho de Andrade Zanotto;Danielle Bruna Leal Oliveira;Stella Rezende Melo;Edison Luiz Durigon;Margareth Capurro;

10.1101/071654 — Molecular Biology — Posted on 2016-08-26

109 Laboratory strains of Aedes aegypti are Competent to Brazilian Zika virus

Andre Costa-da-Silva;Rafaella Sayuri Ioshino;Helena Araujo;Bianca Kojin;Paolo Marinho de Andrade Zanotto;Danielle Bruna Leal Oliveira;Stella Rezende Melo;Edison Luiz Durigon;Margareth Capurro;

10.1101/071654 — Molecular Biology — Posted on 2016-08-25

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

Walaa K Mousa;Charles Shearer;Victor Limay-Rios;Cassie L Ettinger;Jonathan A Eisen;Manish N Raizada;

10.1101/071548 — Microbiology — Posted on 2016-08-25

111 Bovine Lactoferrin Activity Against Chikungunya and Zika Viruses

Carlos A. M. Carvalho;Samir M. M. Casseb;Rafael B. Gonçalves;Eliana V. P. Silva;Andre M. O. Gomes;Pedro F. C. Vasconcelos;

10.1101/071571 — Microbiology — Posted on 2016-08-25

112 CRISPR/Cas9 gene drives in genetically variable and non-randomly mating wild populations

Douglas W Drury;Dylan J Siniard;Gabriel E Zentner;Michael J Wade;

10.1101/071670 — Genetics — Posted on 2016-08-25

113 Evaluating Mendelian nephrotic syndrome genes for evidence of risk alleles or oligogenicity that explain heritability

Brendan Crawford;Christopher E Gillies;Catherine C Robertson;Matthias Kretzler;Edgar A Otto;Virginia Vega-Warner;Hyun Min Kang;Matthew Sampson;

10.1101/071639 — Genetics — Posted on 2016-08-25

114 Interacting networks of resistance, virulence and core machinery genes identified by genome-wide epistasis analysis

Marcin J Skwark;Nicholas J Croucher;Santeri Puranen;Claire Chewapreecha;Maiju Pesonen;Yingying Xu;Paul Turner;Simon R Harris;Julian Parkhill;Stephen D Bentley;Erik Aurell;Jukka Corander;

10.1101/071696 — Genetics — Posted on 2016-08-25

115 TAF10 is required for the integrity of TFIID and SAGA complexes but is initially dispensable for somitogenesis in the mouse embryo

Paul Bardot;Stephane D Vincent;Marjorie Fournier;Alexis Hubaud;Mathilde Joint;Laszlo Tora;Olivier Pourquie;

10.1101/071324 — Developmental Biology — Posted on 2016-08-25

116 Molecular basis of outer kinetochore assembly on CENP-T

Pim J Huis in 't Veld;Sadasivam Jeganathan;Arsen Petrovic;Juliane John;Priyanka Singh;Florian Weissmann;Tanja Bange;Andrea Musacchio;

10.1101/071613 — Biochemistry — Posted on 2016-08-25

117 Sensory neuron fate is developmentally perturbed by Gars mutations causing human neuropathy

James N Sleigh;John M Dawes;Steven J West;Emily L Spaulding;Adriana Gomez-Martin;Robert W Burgess;M. Zameel Cader;Kevin Talbot;David L Bennett;Giampietro Schiavo;

10.1101/071159 — Neuroscience — Posted on 2016-08-25

118 Why are frameshift homologs widespread within and across species?

Xiaolong Wang;Quanjiang Dong;Gang Chen;Jianye Zhang;Yongqiang Liu;Jinqiao Zhao;Haibo Peng;Yalei Wang;Yujia Cai;Xuxiang Wang;Chao Yang;

10.1101/067736 — Genetics — Posted on 2016-08-25

119 Empowering Multi-Cohort Gene Expression Analysis to Increase Reproducibility

Winston A Haynes;Francesco Vallania;Charles Liu;Erika Bongen;Aurelie Tomczak;Marta Andres-Terrè;Shane Lofgren;Andrew Tam;Cole A Deisseroth;Matthew D Li;Timothy E Sweeney;Purvesh Khatri;

10.1101/071514 — Bioinformatics — Posted on 2016-08-25

120 The impact of chromatin dynamics on Cas9-mediated genome editing in human cells

Rene M. Daer;Josh P. Cutts;David A. Brafman;Karmella Haynes;

10.1101/071464 — Synthetic Biology — Posted on 2016-08-25

121 UNTANGLING THE COMPONENTS OF PHENOTYPIC PLASTICITY IN NONLINEAR REACTION NORMS OF DROSOPHILA MEDIOPUNCTATA PIGMENTATION

Felipe Bastos Rocha;Louis Bernard Klaczko;

10.1101/070599 — Genetics — Posted on 2016-08-25

122 Inference of the distribution of selection coefficients for new nonsynonymous mutations using large samples

Bernard Y Kim;Christian D Huber;Kirk E Lohmueller;

10.1101/071431 — Evolutionary Biology — Posted on 2016-08-25

123 Numerical Analysis of the Immersed Boundary Method for Cell-Based Simulation

Fergus R Cooper;Ruth E Baker;Alexander George Fletcher;

10.1101/071423 — Systems Biology — Posted on 2016-08-24

124 Representational models: A common framework for understanding encoding, pattern-component, and representational-similarity analysis

Joern Diedrichsen;Nikolaus Kriegeskorte;

10.1101/071472 — Neuroscience — Posted on 2016-08-24

125 Modeling time-series data from microbial communities

Benjamin J Ridenhour;Sarah L Brooker;Janet E Williams;James T Van Leuven;Aaron W Miller;M Denise Dearing;Christopher H Remien;

10.1101/071449 — Microbiology — Posted on 2016-08-24

126 Identification of Klebsiella capsule synthesis loci from whole genome data

Kelly Wyres;Ryan R Wick;Claire Gorrie;Adam Jenney;Rainer Follador;Nicholas R Thomson;Kathryn E Holt;

10.1101/071415 — Genomics — Posted on 2016-08-24

127 Robust nonparametric descriptors for clustering quantification in single-molecule localization microscopy

Shenghang Jiang;Sai Divya Challapalli;Yong Wang;

10.1101/071381 — Biophysics — Posted on 2016-08-25

128 Robust nonparametric descriptors for clustering quantification in single-molecule localization microscopy

Shenghang Jiang;Sai Divya Challapalli;Yong Wang;

10.1101/071381 — Biophysics — Posted on 2016-08-24

129 Newborn chicks show inherited variability in early social predispositions for hen-like stimuli

Elisabetta Versace;Ilaria Fracasso;Gabriele Baldan;Antonella Dalle Zotte;Giorgio Vallortigara;

10.1101/071456 — Animal Behavior and Cognition — Posted on 2016-08-24

130 Deciphering the tissue specificity of the protein secretory pathway in humans

Amir Feizi;Francesco Gatto;Mathias Uhlen;Jens Nielsen;

10.1101/070870 — Systems Biology — Posted on 2016-08-24

131 RNA-DEPENDENT SYNTHESIS OF MAMMALIAN mRNA: IDENTIFICATION OF CHIMERIC INTERMEDIATE AND PUTATIVE END PRODUCT

Sophia Rits;Bjorn R Olsen;Vladmir Volloch;

10.1101/071266 — Molecular Biology — Posted on 2016-08-25

132 RNA-DEPENDENT SYNTHESIS OF MAMMALIAN mRNA: IDENTIFICATION OF CHIMERIC INTERMEDIATE AND PUTATIVE END PRODUCT

Sophia Rits;Bjorn R Olsen;Vladmir Volloch;

10.1101/071266 — Molecular Biology — Posted on 2016-08-24

133 Heme concentration-dependently modulates the production of specific antibodies in murine

Guofu Li;Haiyan Xue;Zeng Fan;Yun Bai;

10.1101/071316 — Immunology — Posted on 2016-08-24

134 Micro-C XL: assaying chromosome conformation at length scales from the nucleosome to the entire genome

Tsung-Han Hsieh;Geoffrey Fudenberg;Anton Goloborodko;Oliver Rando;

10.1101/071357 — Genomics — Posted on 2016-08-24

135 Estimating time to the common ancestor for a beneficial allele

Joel Smith;Graham Coop;Matthew Stephens;John Novembre;

10.1101/071241 — Evolutionary Biology — Posted on 2016-08-24

136 Unlocked capacity of proteins to attack membranes characteristic of aggregation: the evil for diseases and aging from Pandora’s box

Liangzhong Lim;Yimei Lu;Jianxing Song;

10.1101/071274 — Biophysics — Posted on 2016-08-24

137 HLA-MA: Simple yet powerful matching of samples using HLA typing results

Clemens Messerschmidt;Manuel Holtgrewe;Dieter Beule;

10.1101/066548 — Bioinformatics — Posted on 2016-08-24

138 Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation

Sergey Koren;Brian P. Walenz;Konstantin Berlin;Jason R. Miller;Adam M. Phillippy;

10.1101/071282 — Bioinformatics — Posted on 2016-08-24

139 FICD acts bi-functionally to AMPylate and de-AMPylate the endoplasmic reticulum chaperone BiP

Steffen Preissler;Claudia Rato;Luke Perera;Vladimir Saudek;David Ron;

10.1101/071332 — Biochemistry — Posted on 2016-08-24

140 Closing the loop: tracking and perturbing behaviour of individuals in a group in real-time

Malte J. Rasch;Aobo Shi;Zilong Ji;

10.1101/071308 — Animal Behavior and Cognition — Posted on 2016-08-24

141 Inference of direction, diversity, and frequency of HIV-1 transmission using approximate Bayesian computation

Ethan O Romero-Severson;Ingo Bulla;Nick Hengartner;Ines Bartolo;Ana Abecasis;Jose M Azevedo-Pereira;Nuno Taveira;Thomas Leitner;

10.1101/071050 — Epidemiology — Posted on 2016-08-24

142 Molecular Counting with Localization Microscopy: A Redundant Labeling Approach

Daniel Nino;Yong Wang;Anton Zilman;Joshua N. Milstein;

10.1101/071191 — Biophysics — Posted on 2016-08-23

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

Michelle R Sanford;

10.1101/071027 — Zoology — Posted on 2016-08-23

144 What the Success of Brain Imaging Implies about the Neural Code

Olivia Guest;Bradley C Love;

10.1101/071076 — Neuroscience — Posted on 2016-08-24

145 What the Success of Brain Imaging Implies about the Neural Code

Olivia Guest;Bradley C Love;

10.1101/071076 — Neuroscience — Posted on 2016-08-24

146 What the Success of Brain Imaging Implies about the Neural Code

Olivia Guest;Bradley C Love;

10.1101/071076 — Neuroscience — Posted on 2016-08-23

147 Further confirmation for unknown archaic ancestry in Andaman and South Asia.

Mayukh Mondal;Ferran Casals;Partha P Majumder;Jaume Bertranpetit;

10.1101/071175 — Evolutionary Biology — Posted on 2016-08-23

148 Effects of plant evolution on nutrient cycling couple aboveground and belowground processes

Nicolas Loeuille;Tiphaine Le Mao;Sebastien Barot;

10.1101/071126 — Ecology — Posted on 2016-08-23

149 Ohana, a tool set for population genetic analyses of admixture components

Jade Yu Cheng;Thomas Mailund;Rasmus Nielsen;

10.1101/071233 — Bioinformatics — Posted on 2016-08-23

150 Edlib: A C/C++ library for fast, exact sequence alignment using edit distance

Martin Sosic;Mile Sikic;

10.1101/070649 — Bioinformatics — Posted on 2016-08-23

151 Dynamic updating of hippocampal object representations reflects new conceptual knowledge

Michael L Mack;Bradley C Love;Alison R Preston;

10.1101/071118 — Neuroscience — Posted on 2016-08-23

152 Determining the factors driving selective effects of new nonsynonymous mutations

Christian D Huber;Bernard Y Kim;Clare D Marsden;Kirk E Lohmueller;

10.1101/071209 — Evolutionary Biology — Posted on 2016-08-23

153 Growth Factors do not regulate Golgi Complex-to-ER relocation of GalNAc-Ts in HeLa cells

Gaetan G Herbomel;Raul E Rojas;Duy T Tran;Monica Ajinkya;Lauren Beck;Lawrence A Tabak;

10.1101/071225 — Cell Biology — Posted on 2016-08-23

154 Network Identification Methods

Young Hwan Chang;Claire Tomlin;

10.1101/071217 — Systems Biology — Posted on 2016-08-23

155 Ordinary Differential Equations in Cancer Biology

Margaret P Chapman;Claire J. Tomlin;

10.1101/071134 — Systems Biology — Posted on 2016-08-23

156 Prototyping of Bacillus megaterium genetic elements through automated cell-free characterization and Bayesian modelling

Simon J Moore;James T MacDonald;Sarah Weinecke;Nicolas Kylilis;Karen M Polizzi;Rebekka Biedendieck;Paul S Freemont;

10.1101/071100 — Synthetic Biology — Posted on 2016-08-23

157 Molecular signatures associated with ZIKV exposure in human cortical neural progenitors

Feiran Zhang;Christy Hammack;Sarah Ogden;Yichen Cheng;Emily Lee;Zhexing Wen;Xuyu Qian;Ha Nam Nguyen;Yujing Li;Bing Yao;Miao Xu;Tianlei Xu;Li Chen;Zhiqin Wang;Hao Feng;Wei-Kai Huang;Ki-jun Yoon;Chao Shan;Pei-Yong Shi;Luxoiu Huang;Zhaohui Qin;Kimberly Christian;Mingjiang Xu;Menghang Xia;Wei Zheng;Hao Wu;Hongjun Song;Hengli Tang;Guo-li Ming;Peng Jin;

10.1101/071183 — Genomics — Posted on 2016-08-23

158 Inferring physiological energetics of loggerhead turtle (Caretta caretta) from existing data using a general metabolic theory

Nina Marn;Bas A. L. M. Kooijman;Marko Jusup;Tarzan Legovic;Tin Klanjscek;

10.1101/070987 — Zoology — Posted on 2016-08-23

159 Using null models to infer microbial co-occurrence networks

Nora Connor;Albert Barberán;Aaron Clauset;

10.1101/070789 — Ecology — Posted on 2016-08-23

160 Simulations of biomass dynamics in community food webs

Eva DELMAS;Ulrich Brose;Dominique Gravel;Daniel Stouffer;Timothee Poisot;

10.1101/070946 — Ecology — Posted on 2016-08-23

161 PAPC couples the Segmentation Clock to somite morphogenesis by regulating N-cadherin dependent adhesion

Jerome Chal;Charlene Guillot;Olivier Pourquie;

10.1101/071084 — Developmental Biology — Posted on 2016-08-23

162 ResistoMap - online visualization of human gut microbiota antibiotic resistome

Konstantin Yarygin;Boris Kovarsky;Tatyana Bibikova;Damir Melnikov;Alexander Tyakht;Dmitry Alexeev;

10.1101/070714 — Bioinformatics — Posted on 2016-08-23

163 Scalable genomics: from raw data to aligned reads on Apache YARN

Francesco Versaci;Luca Pireddu;Gianluigi Zanetti;

10.1101/071092 — Bioinformatics — Posted on 2016-08-23

164 hdnom: Building Nomograms for Penalized Cox Models with High-Dimensional Survival Data

Nan Xiao;Qing-Song Xu;Miao-Zhu Li;

10.1101/065524 — Bioinformatics — Posted on 2016-08-23

165 Machine learning as a tool for predicting insincere effort in power grips

Peter Hahn;Eren Cenik;Karl-Josef Prommersberger;Marion Muehldorfer-Fodor;

10.1101/068494 — Bioinformatics — Posted on 2016-08-23

166 Population genetic history and polygenic risk biases in 1000 Genomes populations

Alicia R Martin;Christopher R Gignoux;Raymond K Walters;Genevieve L Wojcik;Simon Gravel;Mark J Daly;Carlos D Bustamante;Eimear E Kenny;

10.1101/070797 — Genomics — Posted on 2016-08-23

167 High-resolution DNA accessibility profiles increase the discovery and interpretability of genetic associations

Aviv Madar;Diana Chang;Feng Gao;Aaron J. Sams;Yedael Y. Waldman;Deborah S. Cunninghame Graham;Timothy J. Vyse;Andrew G. Clark;Alon Keinan;

10.1101/070268 — Genetics — Posted on 2016-08-23

168 Empirical validation of directed functional connectivity

Ravi D Mill;Anto Bagic;Walter Schneider;Michael W Cole;

10.1101/070979 — Neuroscience — Posted on 2016-08-22

169 Rhythmic entrainment source separation: Optimizing analyses of neural responses to rhythmic sensory stimulation

Michael X Cohen;Rasa Gulbinaite;

10.1101/070862 — Neuroscience — Posted on 2016-08-22

170 Subcortical volume and white matter integrity abnormalities in major depressive disorder: findings from UK Biobank (N=4446)

Xueyi Shen;Lianne Reus;Mark Adams;Simon Cox;Ian Deary;David Liewald;Mark Bastin;Daniel Smith;Heather Whalley;Andrew McIntosh;

10.1101/070912 — Neuroscience — Posted on 2016-08-22

171 Genetically targeted 3D visualisation of Drosophila neurons under Electron Microscopy and X-Ray Microscopy using miniSOG

Julian Ng;Alyssa Browning;Lorenz Lechner;Masako Terada;Gillian Howard;Gregory Jefferis;

10.1101/070755 — Neuroscience — Posted on 2016-08-22

172 Protein Collapse is Encoded in the Folded State Architecture

Himadri S Samanta;Pavel Zhuravlev;Michael Hinczewski;Naoto Hori;Shaon Chakrabarti;Dave Thirumalai;

10.1101/070920 — Biophysics — Posted on 2016-08-22

173 Opponent surrounds explain diversity of contextual phenomena across visual modalities

David A. Mely;Thomas Serre;

10.1101/070821 — Neuroscience — Posted on 2016-08-22

174 Neuronal gamma-band synchronization regulated by instantaneous modulations of the oscillation frequency

Eric Lowet;Mark Roberts;Alina Peter;Bart Gips;Peter De Weerd;

10.1101/070672 — Neuroscience — Posted on 2016-08-22

175 Influence of cognitive control on semantic representation

Waitsang Keung;Jonathan Cohen;Daniel Osherson;

10.1101/067553 — Neuroscience — Posted on 2016-08-22

176 Prevalence of Congenital Amusia

Isabelle Peretz;Dominique Vuvan;

10.1101/070961 — Neuroscience — Posted on 2016-08-22

177 SNP analysis implicates the role of cytosine methylation in introducing consequential mutations in Vibrio cholerae genomes.

Supriya Khedkar;Aswin Sai Narain Seshasayee;Mohak Sharda;

10.1101/070839 — Genomics — Posted on 2016-08-22

178 A genome-wide haplotype association analysis of major depressive disorder identifies two genome-wide significant haplotypes

David M Howard;Lynsey S Hall;Jonathan D Hafferty;Yanni Zeng;Mark J Adams;Toni-Kim Clarke;David J Porteous;Caroline Hayward;Blair H Smith;Alison D Murray;Niamh M Ryan;Kathryn L Evans;Chris S Haley;Ian J Deary;Pippa A Thomson;Andrew M McIntosh;

10.1101/068643 — Genetics — Posted on 2016-08-22

179 Thousands of primer-free, high-quality, full-length SSU rRNA sequences from all domains of life

Soeren M Karst;Morten S Dueholm;Simon J McIlroy;Rasmus H Kirkegaard;Per H Nielsen;Mads Albertsen;

10.1101/070771 — Ecology — Posted on 2016-08-22

180 Population dynamics of Arabis alpina in the French Alps: evidence for demographic compensation?

Marco Andrello;Pierre de Villemereuil;Delphine Busson;Oscar E. Gaggiotti;Irene Till-Bottraud;

10.1101/070847 — Ecology — Posted on 2016-08-22

181 OrchID: a Generalized Framework for Taxonomic Classification of Images Using Evolved Artificial Neural Networks

Serano Pereira;Barbara Gravendeel;Patrick Wijntjes;Rutger Vos;

10.1101/070904 — Bioinformatics — Posted on 2016-08-22

182 Information theory and the phenotypic complexity of evolutionary adaptations and innovations

Andreas Wagner;

10.1101/070854 — Evolutionary Biology — Posted on 2016-08-22

183 ChimPipe: Accurate detection of fusion genes and transcription-induced chimeras from RNA-seq data

Bernardo Rodriguez Martin;Emilio Palumbo;Santiago Marco-Sola;Thasso Griebel;Paolo Ribeca;Graciela Alonso;Alberto Rastrojo;Begona Aguado;Roderic Guigo;Sarah Djebali;

10.1101/070888 — Bioinformatics — Posted on 2016-08-22

184 MINT: A multivariate integrative method to identify reproducible molecular signatures across independent experiments and platforms

Florian Rohart;Aida Eslami;Nicholas Matigian;Stephanie Bougeard;Kim-Anh Le Cao;

10.1101/070813 — Bioinformatics — Posted on 2016-08-22

185 Elevated serum adenosine deaminase levels in neuroleptic-naive patients with recent-onset schizophrenia

Arun Sasidharan;Sunil Kumar;John P John;Mariamma Philip;Sarada Subramanian;Sanjeev Jain;Bindu M Kutty;

10.1101/070748 — Neuroscience — Posted on 2016-08-21

186 Genetic correlations among brain-behavioral and immune-related phenotypes based on genome-wide association data.

Daniel S. Tylee;Jonathan L. Hess;Muhammad A. Tahir;Esha Sharma;Rainer Malik;Bradford B. Worrall;Andrew J. Levine;Jeremy J. Martinson;Sergey Nejenstev;Doug Speed;Annegret Fischer;Eric Mick;Brian R. Walker;Andrew Crawford;Struan F. A. Grant;Constantin Polychronakos;Jonathan P. Bradfield;Patrick M. A. Sleiman;Hakon Hakonarson;The METASTROKE Consortium of the International Str;The Netherlands Twin Registry;The neuroCHARGE Working Group;The Obsessive Compulsive and Tourette Syndrome Wor;Stephen V. Faraone;Stephen J. Glatt;

10.1101/070730 — Bioinformatics — Posted on 2016-08-21

187 Strigolactone regulates shoot development through a core signalling pathway

Tom Bennett;Yueyang Liang;Madeleine Seale;Sally P Ward;Dorte Mueller;Ottoline Leyser;

10.1101/070763 — Plant Biology — Posted on 2016-08-21

188 Cholesterol activates the G-protein coupled receptor Smoothened to promote morphogenetic signaling

Giovanni Luchetti;Ria Sircar;Jennifer H Kong;Sigrid Nachtergaele;Andreas Sagner;Eamon FX Byrne;Douglas F Covey;Christian Siebold;Rajat Rohatgi;

10.1101/070623 — Developmental Biology — Posted on 2016-08-21

189 Intrinsic functional connectivity resembles cortical architecture at various levels of isoflurane anesthesia

Felix Fischer;Florian Pieper;Edgar Galindo-Leon;Gerhard Engler;Claus C. Hilgetag;Andreas K. Engel;

10.1101/070524 — Neuroscience — Posted on 2016-08-21

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

Juan Cristina;Natalia Echeverria;Fabiana Gambaro;Alvaro Fajardo;Pilar Moreno;

10.1101/070656 — Microbiology — Posted on 2016-08-21

191 Local PCA shows how the effect of population structure differs along the genome

Han Li;Peter Ralph;

10.1101/070615 — Genomics — Posted on 2016-08-21

192 A framework to assess the contribution of bioaerosols to the outcome of meteorological contexts favorable for rainfall

Cindy E. Morris;Samuel Soubeyrand;E. Keith Bigg;Jessie M. Creamean;David C. Sands;

10.1101/070532 — Ecology — Posted on 2016-08-21

193 DeepAD: Alzheimer′s Disease Classification via Deep Convolutional Neural Networks using MRI and fMRI

Saman Sarraf;Ghassem Tofighi;for the Alzheimer's Disease Neuroimaging Initiativ;

10.1101/070441 — Bioinformatics — Posted on 2016-08-30

194 DeepAD: Alzheimer′s Disease Classification via Deep Convolutional Neural Networks using MRI and fMRI

Saman Sarraf;Ghassem Tofighi;for the Alzheimer's Disease Neuroimaging Initiativ;

10.1101/070441 — Bioinformatics — Posted on 2016-08-21

195 Direct determination of diploid genome sequences

Neil I Weisenfeld;Vijay Kumar;Preyas Shah;Deanna Church;David B Jaffe;

10.1101/070425 — Genomics — Posted on 2016-08-19

196 The ExAC Browser: Displaying reference data information from over 60,000 exomes

Konrad J Karczewski;Ben Weisburd;Brett Thomas;Douglas M Ruderfer;David Kavanagh;Tymor Hamamsy;Monkol Lek;Kaitlin E Samocha;Beryl B Cummings;Daniel Birnbaum;The Exome Aggregation Consortium;Mark J Daly;Daniel G MacArthur;

10.1101/070581 — Genomics — Posted on 2016-08-19

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

Shea Andrews;Ranmalee Eramudugolla;Jorge I Velez;Nicolas Cherbuin;Simon Easteal;Kaarin J Anstey;

10.1101/070516 — Genetics — Posted on 2016-08-19

198 Evolution of copper resistance in the kiwifruit pathogen Pseudomonas syringae pv. actinidiae through acquisition of integrative conjugative elements and plasmids

Elena Colombi;Christina Straub;Sven Kunzel;Matthew D Templeton;Honour C McCann;Paul B Rainey;

10.1101/070391 — Evolutionary Biology — Posted on 2016-08-19

199 Quantifying uncertainty of taxonomic placement in DNA barcoding and metabarcoding

Panu Somervuo;Douglas W. Yu;Charles Xu;Yinqiu Ji;Jenni Hultman;Helena Wirta;Otso Ovaskainen;

10.1101/070573 — Bioinformatics — Posted on 2016-08-19

200 Deep Learning and Association Rule Mining for Predicting Drug Response in Cancer

Konstantinos N Vougas;Thomas Jackson;Alexander Polyzos;Michael Liontos;Elizabeth O Johnson;Vassilis Georgoulias;Paul Townsend;Jiri Bartek;Vassilis G Gorgoulis;

10.1101/070490 — Bioinformatics — Posted on 2016-08-19

201 Targeted re-sequencing reveals the genetic signatures and the reticulate history of barley domestication

Artem Pankin;Janine Altmüller;Christian Becker;Maria von Korff;

10.1101/070078 — Plant Biology — Posted on 2016-08-19

202 Reward-based training of recurrent neural networks for cognitive and value-based tasks

H. Francis Song;Guangyu R. Yang;Xiao-Jing Wang;

10.1101/070375 — Neuroscience — Posted on 2016-08-19

203 Microbial Signatures of Oral Dysbiosis, Periodontitis and Edentulism Revealed by Gene Meter Methodology

M Colby Hunter;Alexander E Pozhitkov;Peter Anthony Noble;

10.1101/070367 — Microbiology — Posted on 2016-08-19

204 DNA damage is a major cause of sequencing errors, directly confounding variant identification.

Lixin Chen;Pingfang Liu;Thomas Corwin Evans;Laurence Michele Ettwiller;

10.1101/070334 — Genomics — Posted on 2016-08-23

205 DNA damage is a major cause of sequencing errors, directly confounding variant identification.

Lixin Chen;Pingfang Liu;Thomas Corwin Evans;Laurence Michele Ettwiller;

10.1101/070334 — Genomics — Posted on 2016-08-19

206 Association of AKAP6 and MIR2113 with cognitive performance in a population based sample of older adults

Shea Andrews;Debjani Das;Kaarin J Anstey;Simon Easteal;

10.1101/070409 — Genetics — Posted on 2016-08-19

207 Widespread Historical Contingency in Influenza Viruses

Jean Claude Nshogozabahizi;Jonathan Dench;Stephane Aris-Brosou;

10.1101/070094 — Evolutionary Biology — Posted on 2016-08-19

208 Assembly of Radically Recoded E. coli Genome Segments

Julie E. Norville;Cameron L. Gardner;Eduardo Aponte;Conor K. Camplisson;Alexandra Gonzales;David K. Barclay;Katerina A. Turner;Victoria Longe;Maria Mincheva;Jun Teramoto;Kento Tominaga;Ryota Sugimoto;James E. DiCarlo;Marc Guell;Eriona Hysolli;John Aach;Christopher J. Gregg;Barry L. Wanner;George M. Church;

10.1101/070417 — Synthetic Biology — Posted on 2016-08-31

209 Assembly of Radically Recoded E. coli Genome Segments

10.1101/070417 — Synthetic Biology — Posted on 2016-08-19

210 Personalized epilepsy seizure detection using random forest classification over one-dimension transformed EEG data

Marco Pinto Orellana;Fabio Cerqueira;

10.1101/070300 — Neuroscience — Posted on 2016-08-18

211 Rad51 catalytic mutants differentially affect the Rad51 nucleoprotein filament

Maureen M Mundia;Alissa C Magwood;Mark D Baker;

10.1101/070276 — Molecular Biology — Posted on 2016-08-18

212 An Automated Microwell Platform for Large-Scale Single Cell RNA-Seq

Jinzhou Yuan;Peter A. Sims;

10.1101/070193 — Genomics — Posted on 2016-08-18

213 Phenome-wide Heritability Analysis of the UK Biobank

Tian Ge;Chia-Yen Chen;Benjamin M. Neale;Mert R. Sabuncu;Jordan W. Smoller;

10.1101/070177 — Genetics — Posted on 2016-08-18

214 How cognitive genetic factors influence fertility outcomes: A mediational SEM analysis.

Michael A Woodley;Joseph A Schwartz;Kevin M Beaver;

10.1101/070128 — Genetics — Posted on 2016-08-18

215 Escherichia coli populations adapt to complex, unpredictable fluctuations by minimizing trade-offs across environments

Shraddha Madhav Karve;Devika Bhave;Dhanashri Nevgi;Sutirth Dey;

10.1101/070318 — Evolutionary Biology — Posted on 2016-08-18

216 Natural and laboratory mutations in kuzbanian are associated with heavy metal stress phenotypes in Drosophila melanogaster

Hung Le;Lain Guio;Miriam Merenciano;Quirze Rovira;Maite G Barron;Josefa Gonzalez;

10.1101/070243 — Evolutionary Biology — Posted on 2016-08-18

217 Reconstructing the backbone of the Saccharomycotina yeast phylogeny using genome-scale data

Xing-Xing Shen;Xiaofan Zhou;Jacek Kominek;Cletus P Kurtzman;Chris Todd Hittinger;Antonis Rokas;

10.1101/070235 — Evolutionary Biology — Posted on 2016-08-18

218 Multidimensionality of plant defenses and herbivore niches: implications for eco-evolutionary dynamics

nicolas loeuille;Celine Hauzy;

10.1101/070250 — Ecology — Posted on 2016-08-18

219 Eph/ephrin signaling controls progenitor identities in the ventral spinal cord

Julien Laussu;Christophe Audouard;Anthony Kischel;Poincyane Assis-Nascimento;Nathalie Escalas;Daniel Liebl;Cathy Soula;Alice Davy;

10.1101/070227 — Developmental Biology — Posted on 2016-08-18

220 Single-cell quantitation of histones and histone post-translational modifications across the cell cycle by high-throughput imaging

Linda Karine Zane;Fleur Chapus;Gianluca Pegoraro;Tom Misteli;

10.1101/070219 — Cell Biology — Posted on 2016-08-18

221 Mathematical Methods for Modeling Chemical Reaction Networks

Justin Carden;Casian Pantea;Gheorge Craciun;Raghu Machiraju;Parag Mallick;

10.1101/070326 — Biophysics — Posted on 2016-08-18

222 Pulsatile lipid vesicles under osmotic stress

Morgan Chabanon;James C.S. Ho;Bo Liedberg;Atul N. Parikh;Padmini Rangamani;

10.1101/070342 — Biophysics — Posted on 2016-08-18

223 Analysis of infection biomarkers within a Bayesian framework reveals their role in pneumococcal pneumonia diagnosis in HIV patients

Austin G Meyer;

10.1101/070144 — Epidemiology — Posted on 2016-08-18

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

Chin Jian Yang;Lisa E Kursel;Anthony J Studer;Madelaine E Bartlett;Clint Whipple;John F Doebley;

10.1101/070201 — Genetics — Posted on 2016-08-18

225 Viral outbreaks involve destabilised viruses: evidence from Ebola, Influenza and Zika

Stephane Aris-Brosou;Neke Ibeh;Jessica Noël;

10.1101/070102 — Evolutionary Biology — Posted on 2016-08-18

226 Tracing co-regulatory network dynamics in noisy, single-cell transcriptome trajectories

Pablo Cordero;Joshua M Stuart;

10.1101/070151 — Bioinformatics — Posted on 2016-08-18

227 StarBEAST2 brings faster species tree inference and accurate estimates of substitution rates

Huw A Ogilvie;Alexei J Drummond;

10.1101/070169 — Bioinformatics — Posted on 2016-08-18

228 Tuberculosis susceptibility and vaccine protection are independently controlled by host genotype

Clare M Smith;Megan Proulx;Andrew J Olive;Dominick Laddy;Bibhuti Mishra;Caitlin Moss;Nuria Martinez Gutierrez;Michelle M Bellerose;Palmira Barreira-Silva;Jia Yao Phuah;Richard E Baker;Samuel M Behar;Hardy Kornfeld;Thomas G Evans;Gillian Beamer;Christopher M Sassetti;

10.1101/064253 — Microbiology — Posted on 2016-08-18

229 Crowding-induced transcriptional bursts dictate nucleosome and polymerase density profiles along genes

Aafke A van den Berg;Martin Depken;

10.1101/065268 — Biophysics — Posted on 2016-08-18

230 Internal states drive nutrient homeostasis by modulating exploration-exploitation trade-off

Veronica Maria Corrales-Carvajal;Aldo A Faisal;Carlos Ribeiro;

10.1101/070086 — Neuroscience — Posted on 2016-08-17

231 Predicting functional neuroanatomical maps from fusing brain networks with genetic information

Florian Ganglberger;Joanna Kaczanowska;Josef M. Penninger;Andreas Hess;Katja Buehler;Wulf Haubensak;

10.1101/070037 — Neuroscience — Posted on 2016-08-17

232 Orientation tuning depends on spatial frequency in mouse visual cortex

Inbal Ayzenshtat;Jesse Jackson;Rafael Yuste;

10.1101/069997 — Neuroscience — Posted on 2016-08-17

233 Easi-CRISPR: Efficient germline modification with long ssDNA donors

Rolen M Quadros;Masato Ohtsuka;Donald W Harms;Tomomi Aida;Ronald Redder;Hiromi Miura;Guy P Richardson;Mark A Behlke;Sarah A Zeiner;Ashley M Jacobi;Lisa D Urness;Suzanne L Mansour;Channabasavaiah B Gurumurthy;

10.1101/069963 — Genomics — Posted on 2016-08-17

234 Large scale genomic analysis shows no evidence for repeated pathogen adaptation during the invasive phase of bacterial meningitis in humans

John Lees;Philip H. C. Kremer;Ana S Manso;Nicholas J Croucher;Bart Ferwerda;Mercedes Valls Serón;Marco R Oggioni;Julian Parkhill;Matthjis C Brouwer;Arie van der Ende;Diederik van de Beek;Stephen D Bentley;

10.1101/070045 — Genomics — Posted on 2016-08-17

235 A non-zero variance of Tajima’s estimator for two sequences even for infinitely many unlinked loci

Léandra King;John Wakeley;Shai Carmi;

10.1101/069989 — Evolutionary Biology — Posted on 2016-08-17

236 Pherotype polymorphism in Streptococcus pneumoniae and its effects on population structure and recombination

Eric L Miller;Benjamin A Evans;Omar E Cornejo;Ian S Roberts;Daniel Rozen;

10.1101/070011 — Evolutionary Biology — Posted on 2016-08-17

237 A novel quantile regression approach for eQTL discovery

Xiaoyu Song;Gen Li;Iuliana Ionita-Laza;Ying Wei;

10.1101/070052 — Bioinformatics — Posted on 2016-08-17

238 Pervasive concerted evolution in gene expression shapes cell type transcriptomes

Cong Liang;Jacob M. Musser;Alison Cloutier;Richard Prum;Gunter Wagner;

10.1101/070060 — Bioinformatics — Posted on 2016-08-17

239 Oxidative DNA damage is epigenetic by regulating gene transcription via base excision repair

Aaron M. Fleming;Yun Ding;Cynthia J Burrows;

10.1101/069955 — Biochemistry — Posted on 2016-08-17

240 Systems Biomedicine of Rabies Delineates the Affected Signaling Pathways

Sadegh Azimzadeh Jamalkandi;Hamid Gholami Pourbadie;Mehdi Mirzaie;Sayed Hamid Reza Mozhgani;Farsheed Noorbakhsh;Behrouz Vaziri;Alireza Gholami;Naser Ansari-Pour;Mohieddin Jafari;

10.1101/068817 — Systems Biology — Posted on 2016-08-16

241 What is the link between stringent response, endoribonuclease encoding Type II Toxin-Antitoxin systems and persistence?

Bhaskar Chandra Mohan Ramisetty;Dimpy Ghosh;Moumita Roy Chowdhury;Ramachandran Sarojini Santhosh;

10.1101/069831 — Microbiology — Posted on 2016-08-24

242 What is the link between stringent response, endoribonuclease encoding Type II Toxin-Antitoxin systems and persistence?

Bhaskar Chandra Mohan Ramisetty;Dimpy Ghosh;Moumita Roy Chowdhury;Ramachandran Sarojini Santhosh;

10.1101/069831 — Microbiology — Posted on 2016-08-16

243 Novel blaKPC-carrying species identified in the hospital environment

Hang T.T. Phan;Zoie Aiken;Oluwafemi Akinremi;Julie Cawthorne;Andrew Dodgson;Angela Downes;Matthew Ellington;Ryan George;Amy Mather;Nicole Stoesser;Stephanie Thomas;

10.1101/069856 — Microbiology — Posted on 2016-08-16

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

Dong Zhang;Nicholi Pitra;Mark Coles;Edward S. Buckler;Paul Matthews;

10.1101/069849 — Genomics — Posted on 2016-08-17

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

Dong Zhang;Nicholi Pitra;Mark Coles;Edward S. Buckler;Paul Matthews;

10.1101/069849 — Genomics — Posted on 2016-08-16

246 Next generation whole genome sequencing of Plasmodium falciparum using NextSeq500 technology in India

Alassane Mbengue;Pragya Namdev;Tarkeshwar Kumar;Kasturi Haldar;Souvik Bhattacharjee;

10.1101/068676 — Genomics — Posted on 2016-08-16

247 Rare schizophrenia risk variants are enriched in genes shared with neurodevelopmental disorders

Tarjinder Singh;James T. R. Walters;Mandy Johnstone;David Curtis;Jaana Suvisaari;Minna Torniainen;Elliott Rees;Conrad Iyegbe;Douglas Blackwood;Andrew M. McIntosh;Georg Kirov;Daniel Geschwind;Robin M. Murray;Marta Di Forti;Elvira Bramon;INTERVAL Study;UK10K Consortium;Aarno Palotie;Michael C. O'Donovan;Michael J. Owen;Jeffrey C. Barrett;

10.1101/069344 — Genetics — Posted on 2016-08-16

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

John C Schwartz;Mark S Gibson;Dorothea Heimeier;Sergey Koren;Adam M Phillippy;Derek M Bickhart;Timothy PL Smith;Juan F Medrano;John A Hammond;

10.1101/069922 — Genetics — Posted on 2016-08-16

249 XRN1 is a Species-Specific Virus Restriction Factor in Yeasts

Paul A Rowley;Brandon Ho;Sarah Bushong;Arlen Johnson;Sara L Sawyer;

10.1101/069799 — Evolutionary Biology — Posted on 2016-08-16

250 Separase Protease Activity is Required for Cytokinesis in addition to Chromosome Segregation

Xiaofei Bai;Joshua Bembenek;

10.1101/069906 — Cell Biology — Posted on 2016-08-16

251 Modeling and docking antibody structures with Rosetta

Brian D. Weitzner;Jeliazko Jeliazkov;Sergey Lyskov;Nicholas A Marze;Daisuke Kuroda;Rahel Frick;Naireeta Biswas;Jeffrey J Gray;

10.1101/069930 — Biophysics — Posted on 2016-08-16

252 DEAR-O: Differential Expression Analysis based on RNA-seq data - Online

Zong-Hong Zhang;Naomi R Wray;Qiongyi Zhao;

10.1101/069807 — Bioinformatics — Posted on 2016-08-16

253 A Bacillus anthracis Genome Sequence from the Sverdlovsk 1979 Autopsy Specimens

Jason W. Sahl;Talima Pearson;Richard Okinaka;James M. Schupp;John D. Gillece;Hannah Heaton;Dawn Birdsell;Crystal Hepp;Viacheslav Fofanov;Rámon Noseda;Antonio Fasanella;Alex Hoffmaster;David M. Wagner;Paul Keim;

10.1101/069914 — Genomics — Posted on 2016-08-16

254 The Modular Adaptive Ribosome

Anupama Yadav;Aparna Radhakrishnan;Anshuman Panda;Amartya Singh;Himanshu Sinha;Gyan Bhanot;

10.1101/068361 — Systems Biology — Posted on 2016-08-16

255 FOXA1 directs H3K4 monomethylation at enhancers via recruitment of the methyltransferase MLL3

Kamila M. Jozwik;Igor Chernukhin;Aurelien A. Serandour;Sankari Nagarajan;Jason S. Carroll;

10.1101/069450 — Genomics — Posted on 2016-08-16

256 HySA: A Hybrid Structural variant Assembly approach using next generation and single-molecule sequencing technologies

Xian Fan;Mark Chaisson;Luay Nakhleh;Ken Chen;

10.1101/069815 — Bioinformatics — Posted on 2016-08-16

257 PubData: search engine for bioinformatics databases worldwide

Bohdan Khomtchouk;Kasra A. Vand;Thor Wahlestedt;Kelly Khomtchouk;Mohammed K. Sayed;Claes Wahlestedt;

10.1101/069575 — Bioinformatics — Posted on 2016-08-16

258 290 Metagenome-assembled Genomes from the Mediterranean Sea: Ongoing Effort to Generate Genomes from the Tara Oceans Dataset

Benjamin J Tully;Rohan Sachdeva;Elaina D Graham;John F Heidelberg;

10.1101/069484 — Microbiology — Posted on 2016-08-16

259 Accurate eQTL prioritization with an ensemble-based framework

Haoyang Zeng;Matthew D. Edwards;Yuchun Guo;David K. Gifford;

10.1101/069757 — Genomics — Posted on 2016-08-16

260 Ligand-induced and small molecule control of substrate loading in a hexameric helicase

Michael R. Lawson;Kevin Dyer;James M. Berger;

10.1101/069773 — Biochemistry — Posted on 2016-08-16

261 Molecular mechanisms of substrate-controlled ring dynamics and sub-stepping in a nucleic-acid dependent hexameric motor

Nathan D. Thomsen;Michael R. Lawson;Lea B. Witkowsky;Song Qu;James M. Berger;

10.1101/069559 — Biochemistry — Posted on 2016-08-16

262 Understanding the contributions of visual stimuli to contextual fear conditioning: a proof-of-concept study using LCD screens

Nathen J. Murawski;Arun Asok;

10.1101/069781 — Animal Behavior and Cognition — Posted on 2016-08-16

263 The large majority of intergenic sites in bacteria are selectively constrained, even when known regulatory elements are excluded

Harry A Thorpe;Sion C Bayliss;Laurence D Hurst;Edward J Feil;

10.1101/069708 — Genomics — Posted on 2016-08-29

264 The large majority of intergenic sites in bacteria are selectively constrained, even when known regulatory elements are excluded

Harry A Thorpe;Sion C Bayliss;Laurence D Hurst;Edward J Feil;

10.1101/069708 — Genomics — Posted on 2016-08-15

265 BinSanity: Unsupervised Clustering of Environmental Microbial Assemblies Using Coverage and Affinity Propagation

Elaina Graham;John Heidelberg;Benjamin Tully;

10.1101/069567 — Bioinformatics — Posted on 2016-08-16

266 BinSanity: Unsupervised Clustering of Environmental Microbial Assemblies Using Coverage and Affinity Propagation

Elaina Graham;John Heidelberg;Benjamin Tully;

10.1101/069567 — Bioinformatics — Posted on 2016-08-15

267 Memory Replay in Balanced Recurrent Networks

Nikolay Chenkov;Henning Sprekeler;Richard Kempter;

10.1101/069641 — Neuroscience — Posted on 2016-08-15

268 Transcriptomic Signatures for Ovulation in Vertebrates

Dongteng Liu;Michael Brewer;Shixi Chen;Wanshu Hong;Yong Zhu;

10.1101/069716 — Molecular Biology — Posted on 2016-08-15

269 One-cell Doubling Evaluation by Living Arrays of Yeast, ODELAY!

Thurston Herricks;David J Dilworth;Fred D Mast;Song Li;Jennifer J Smith;Alexander V Ratushny;John D Aitchison;

10.1101/069724 — Microbiology — Posted on 2016-08-15

270 Fast, scalable prediction of deleterious noncoding variants from functional and population genomic data

Yi-Fei Huang;Brad Gulko;Adam Siepel;

10.1101/069682 — Genomics — Posted on 2016-08-15

271 Statistical Association Mapping of Population-Structured Genetic Data

Amir Najafi;Sepehr Janghorbani;Seyed Abolfazl Motahari;Emad Fatemizadeh;

10.1101/069658 — Bioinformatics — Posted on 2016-08-15

272 scater: pre-processing, quality control, normalisation and visualisation of single-cell RNA-seq data in R

Davis J McCarthy;Kieran R Campbell;Aaron T L Lun;Quin F Wills;

10.1101/069633 — Bioinformatics — Posted on 2016-08-15

273 Gene mapping of nine agronomic traits and genome assembly by resequencing a foxtail millet RIL population

Xuemei NI;Qiuju Xia;Shu Cheng;Hui Li;Guangyu Fan;Houbao Zhang;Tao Guo;Ping Huang;Haitao Xiang;Qingchun Chen;Ning Li;Hongfeng Zou;Xuemei Cai;Xuejing Lei;Xiaoming Wang;Chengshu Zhou;Zhihai Zhao;Gengyun Zhang;Zhiwu Quan;

10.1101/069625 — Genomics — Posted on 2016-08-15

274 Frank-Starling law and Bowditch phenomenon may have the common theoretical grounds

Yuri Kamnev;

10.1101/069609 — Physiology — Posted on 2016-08-15

275 Changes in brain morphology and working memory capacity over childhood

Joe Bathelt;Susan Elizabeth Gathercole;Amy Johnson;Duncan Edward Astle;

10.1101/069617 — Neuroscience — Posted on 2016-08-15

276 Genome-scale rates of evolutionary change in bacteria

Sebastian Duchêne;Kathryn E Holt;François-Xavier Weill;Simon Le Hello;Jane Hawkey;David J Edwards;Mathieu Fourment;Edward C Holmes;

10.1101/069492 — Evolutionary Biology — Posted on 2016-08-15

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

Tobias Aurelius Knoch;Malte Wachsmuth;Nick Kepper;Michael Lesnussa;Anis Abuseiris;A. M. Ali Imam;Petros Kolovos;Jessica Zuin;Christel E. M. Kockx;Rutger W. W. Brouwer;Harmen J. G. van de Werken;Wilfred F. J. van IJken;Kerstin S. Wendt;Frank G. Grosveld;

10.1101/064642 — Genomics — Posted on 2016-08-15

278 Genome-wide analysis of lncRNAs and mRNAs expression during the differentiation of abdominal preadipocytes in chicken

Tao Zhang;Xiangqian Zhang;Kunpeng Han;Genxi Zhang;Jinyu Wang;Kaizhou Xie;Qian Xue;

10.1101/069591 — Molecular Biology — Posted on 2016-08-15

279 Mapping eQTL by leveraging multiple tissues and DNA methylation

Chaitanya R Acharya;Kouros Owzar;Andrew S Allen;

10.1101/069534 — Genomics — Posted on 2016-08-14

280 A functional analysis of the contribution of climatic niche divergence to adaptive radiation

Alex R Gunderson;D. Luke Mahler;Manuel Leal;

10.1101/069294 — Evolutionary Biology — Posted on 2016-08-14

281 A unifying comparative phylogenetic framework including traits coevolving across interacting lineages

Marc Manceau;Amaury Lambert;Helene Morlon;

10.1101/069518 — Evolutionary Biology — Posted on 2016-08-14

282 climwin: An R Toolbox for Climate Window Analysis

Liam D. Bailey;Martijn van de Pol;

10.1101/069427 — Ecology — Posted on 2016-08-14

283 Peptide partitions and protein identification: a computational analysis

G Sampath;

10.1101/069526 — Bioinformatics — Posted on 2016-08-14

284 OncoSimulR: genetic simulation of cancer progression with arbitrary epistasis and mutator genes

Ramon Diaz-Uriarte;

10.1101/069500 — Bioinformatics — Posted on 2016-08-14

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

Christopher M Jakobson;Marilyn F. Slininger;Danielle Tullman-Ercek;Niall M. Mangan;

10.1101/069542 — Systems Biology — Posted on 2016-08-14

286 High-resolution phenotypic landscape of the RNA Polymerase II trigger loop

Chenxi Qiu;Olivia C. Erinne;Jui Dave;Ping Cui;Huiyan Jin;Nandhini Muthukrishnan;Leung K. Tang;Sabareesh Ganesh Babu;Kenny C. Lam;Paul J. Vandeventer;Ralf Strohner;Jan Van den Brulle;Sing-Hoi Sze;Craig D. Kaplan;

10.1101/068726 — Molecular Biology — Posted on 2016-08-14

287 Emergent rules for codon choice elucidated by editing rare arginine codons in Escherichia coli

Michael G Napolitano;Matthieu Landon;Christopher J. Gregg;Marc J Lajoie;Lakshmi N. Govindarajan;Joshua A. Mosberg;Gleb Kuznetsov;Daniel B. Goodman;Oscar Vargas-Rodriguez;Farren J. Isaacs;Dieter Söll;George M. Church;

10.1101/069385 — Genomics — Posted on 2016-08-14

288 Clinical Utility of Expanded Carrier Screening: Reproductive Behaviors of At-Risk Couples

Caroline Ghiossi;James D Goldberg;Imran S Haque;Gabriel A Lazarin;Kenny K Wong;

10.1101/069393 — Genetics — Posted on 2016-08-14

289 Plant Cysteine Oxidases are Dioxygenases that Directly Enable Arginyl Transferase-Catalyzed Arginylation of N-End Rule Targets

Mark D White;Maria Klecker;Richard Hopkinson;Daan Weits;Carolin Mueller;Christin Naumann;Rebecca O Neill;James Wickens;Tom N Grossmann;Nico Dissmeyer;Emily Flashman;

10.1101/069336 — Biochemistry — Posted on 2016-08-14

290 The field of view available to the cortical reading circuitry

Rosemary Le;Nathan Witthoft;Michal Ben-Shachar;Brian Wandell;

10.1101/069369 — Neuroscience — Posted on 2016-08-12

291 Reward learning deficits in Parkinson’s disease depend on depression

Monique HM Timmer;Guillaume Sescousse;Marieke E van der Schaaf;Rianne AJ Esselink;Roshan Cools;

10.1101/069062 — Neuroscience — Posted on 2016-08-12

292 ARGLU1 is a Glucocorticoid Receptor Coactivator and Splicing Modulator Important in Stress Hormone Signaling and Brain Development

Lilia Magomedova;Jens Tiefenbach;Emma Zilberman;Veronique Voisin;Melanie Robitaille;Serge Gueroussov;Manuel Irimia;Debashish Ray;Rucha Patel;ChangJiang Xu;Pancharatnam Jeyasuria;Gary D. Bader;Timothy R. Hughes;Henry Krause;Benjamin J. Blencowe;Stephane Angers;Carolyn L. Cummins;

10.1101/069161 — Molecular Biology — Posted on 2016-08-12

293 Recurrent promoter mutations in melanoma are defined by an extended context-specific mutational signature

Johan Fredriksson;Erik Larsson;

10.1101/069351 — Genomics — Posted on 2016-08-12

294 Highly parallel direct RNA sequencing on an array of nanopores

Daniel R Garalde;Elizabeth A Snell;Daniel Jachimowicz;Andrew J Heron;Mark Bruce;Joseph Lloyd;Anthony Warland;Nadia Pantic;Tigist Admassu;Jonah Ciccone;Sabrina Serra;Jemma Keenan;Samuel Martin;Luke McNeill;Jayne Wallace;Lakmal Jayasinghe;Chris Wright;Javier Blasco;Botond Sipos;Stephen Young;Sissel Juul;James Clarke;Daniel J Turner;

10.1101/068809 — Genomics — Posted on 2016-08-12

295 Gene-culture co-inheritance of a behavioral trait.

Elliot G Aguilar;Erol Akçay;

10.1101/069286 — Evolutionary Biology — Posted on 2016-08-12

296 New method to reconstruct phylogenetic and transmission trees with sequence data from infectious disease outbreaks

Don Klinkenberg;Jantien Backer;Xavier Didelot;Caroline Colijn;Jacco Wallinga;

10.1101/069195 — Epidemiology — Posted on 2016-08-12

297 Planning horizon affects prophylactic decision-making and epidemic dynamics

Luis G. Nardin;Craig R. Miller;Benjamin J. Ridenhour;Stephen M. Krone;Paul Joyce;Bert O. Baumgaertner;

10.1101/069013 — Epidemiology — Posted on 2016-08-12

298 Stochastic competitive exclusion leads to a cascade of species extinctions

Jose A Capitan;Sara Cuenda;David Alonso;

10.1101/069203 — Ecology — Posted on 2016-08-12

299 Efficient randomization of biological networks while preserving functional characterization of individual nodes

Francesco Iorio;Andrea Gobbi;Thomas Cokelaer;Marti Bernardo Faura;Giuseppe Jurman;Julio Saez-Rodriguez;

10.1101/069245 — Bioinformatics — Posted on 2016-08-12

300 phyC: Clustering cancer evolutionary trees

Yusuke Matsui;Atsushi Niida;Ryutaro Uchi;Koshi Mimori;Satoru Miyano;Teppei Shimamura;

10.1101/069302 — Bioinformatics — Posted on 2016-08-12

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

Eiji Nagayasu;Yu-chen Hwang;Jun Liu;John Murray;Ke Hu;

10.1101/069377 — Cell Biology — Posted on 2016-08-12

302 A Single Nucleotide Resolution Model for Large-Scale Simulations of Double Stranded DNA

Yair Augusto Gutierrez Fosado;Davide Michieletto;Jim Allan;Chris Brackley;Oliver Henrich;Davide Marenduzzo;

10.1101/069310 — Biophysics — Posted on 2016-08-12

303 Physical model of the sequence-to-function map of proteins

Tsvi Tlusty;Albert Libchaber;Jean-Pierre Eckmann;

10.1101/069039 — Biophysics — Posted on 2016-08-12

304 Evo-engineering and the Cellular and Molecular Origins of the Vertebrate Spinal Cord

Benjamin Steventon;Alfonso Martinez Arias;

10.1101/068882 — Developmental Biology — Posted on 2016-08-12

305 Low-pH induced reversible reorganizations of chloroplast thylakoid membranes - as revealed by small-angle neutron scattering

Renata Unnep;Otto Zsiros;Zsolt T Horcsik;Marton Marko;Anjana Jajoo;Joachim Kohlbrecher;Gyozo Garab;Gergely Nagy;

10.1101/069211 — Plant Biology — Posted on 2016-08-11

306 Differential state-dependence of low and high firing neurons in the hippocampus

Hiroyuki Miyawaki;Kamran Diba;

10.1101/069237 — Neuroscience — Posted on 2016-08-11

307 Dynamic representation of time in brain states

Fernanda Dantas Bueno;Vanessa Carneiro Morita;Raphael Y Camargo;Marcelo B Reyes;Marcelo Salvador Caetano;Andre M Cravo;

10.1101/069278 — Neuroscience — Posted on 2016-08-11

308 3-5 Hz membrane potential oscillations decrease the gain of neurons in visual cortex

Michael C Einstein;Pierre-Olivier Polack;Peyman Golshani;

10.1101/069252 — Neuroscience — Posted on 2016-08-24

309 3-5 Hz membrane potential oscillations decrease the gain of neurons in visual cortex

Michael C Einstein;Pierre-Olivier Polack;Peyman Golshani;

10.1101/069252 — Neuroscience — Posted on 2016-08-11

310 Inferring Fitness Landscapes and Selection on Phenotypic States from Single-Cell Genealogical Data

Takashi Nozoe;Edo Kussell;Yuichi Wakamoto;

10.1101/069260 — Systems Biology — Posted on 2016-08-11

311 Tissue-specific functional effect prediction of genetic variation and applications to complex trait genetics

Daniel Backenroth;Krzysztof Kiryluk;Bin Xu;Lynn Pethukova;Badri Vardarajan;Ekta Khurana;Angela Christiano;Joseph Buxbaum;Iuliana Ionita-Laza;

10.1101/069229 — Bioinformatics — Posted on 2016-08-11

312 Biotinylation by antibody recognition - A novel method for proximity labeling

Daniel Zvi Bar;Kathleen Atkatsh;Urraca Tavarez;Michael R Erdos;Yosef Gruenbaum;Francis S. Collins;

10.1101/069187 — Biochemistry — Posted on 2016-08-11

313 IMAN: Interlog protein network reconstruction, Matching and ANalysis

Mohieddin Jafari;Payman Nickchi;Abdollah Safari;Soheil Jahangiri Tazehkand;Mehdi Mirzaie;

10.1101/069104 — Systems Biology — Posted on 2016-08-11

314 Bootstrat: Population Informed Bootstrapping for Rare Variant Tests

Hailiang Huang;Gina M Peloso;Daniel Howrigan;Barbara Rakitsch;Carl Johann Simon-Gabriel;Jacqueline I Goldstein;Mark J Daly;Karsten Borgwardt;Benjamin M Neale;

10.1101/068999 — Genomics — Posted on 2016-08-11

315 Conserved traits of spiralian development in the bryozoan Membranipora membranacea

Bruno Cossermelli Vellutini;Jose M Martin-Duran;Andreas Hejnol;

10.1101/068783 — Developmental Biology — Posted on 2016-08-11

316 Tunable synthetic transcription factors assembled from TALE-like repeat elements

Orlando de Lange;Niklas Schandry;Markus Wunderlich;Kenneth Berendzen;Thomas Lahaye;

10.1101/068908 — Bioengineering — Posted on 2016-08-11

317 DeepWAS: Directly integrating regulatory information into GWAS using deep learning supports master regulator MEF2C as risk factor for major depressive disorder

Gökcen Eraslan;Janine Arloth;Jade Martins;Stella Iurato;Darina Czamara;Elisabeth B. Binder;Fabian J. Theis;Nikola S. Mueller;

10.1101/069096 — Systems Biology — Posted on 2016-08-11

318 Dopaminergic drugs decrease loss aversion in Parkinson’s disease with but not without depression

Monique HM Timmer;Guillaume Sescousse;Rianne AJ Esselink;Payam Piray;Roshan Cools;

10.1101/069047 — Neuroscience — Posted on 2016-08-11

319 Lingering representations of stimulus history at encoding influence recall organization

Stephanie C.Y. Chan;Marissa C. Applegate;Neal W Morton;Sean M. Polyn;Kenneth A. Norman;

10.1101/068353 — Neuroscience — Posted on 2016-08-11

320 iELVis: An open source MATLAB toolbox for localizing and visualizing human intracranial electrode data

David M. Groppe;Stephan Bickel;Andrew R. Dykstra;Xiuyuan Wang;Pierre Mégevand;Manuel R. Mercier;Fred A. Lado;Ashesh D. Mehta;Christopher J. Honey;

10.1101/069179 — Neuroscience — Posted on 2016-08-11

321 ChIP-exo interrogation of Crp, DNA, and RNAP holoenzyme interactions

Haythem Latif;Stephen Federowicz;Ali Ebrahim;Janna Tarasova;Richard Szubin;Jose Utrilla;Karsten Zengler;Bernhard Palsson;

10.1101/069021 — Molecular Biology — Posted on 2016-08-11

322 Exaggerated CpH Methylation in the Autism-Affected Brain

Shannon E Ellis;Simone Gupta;Anna Moes;Andrew B West;Dan E Arking;

10.1101/069120 — Genetics — Posted on 2016-08-15

323 Exaggerated CpH Methylation in the Autism-Affected Brain

Shannon E Ellis;Simone Gupta;Anna Moes;Andrew B West;Dan E Arking;

10.1101/069120 — Genetics — Posted on 2016-08-11

324 Rapid evolution of distinct Helicobacter pylori subpopulations in the Americas

Kaisa Thorell;Koji Yahara;Elvire Berthenet;Daniel J Lawson;Ikuko Kato;Alfonso Tenorio Mendez;Federico Canzian;Maria Mercedes Bravo;Rumiko Suzuki;Yoshio Yamaoka;Javier Torres;Samuel K Sheppard;Daniel Falush;

10.1101/069070 — Genetics — Posted on 2016-08-11

325 Exploring evolutionary relationships across the genome using topology weighting

Simon H. Martin;Steven M. Van Belleghem;

10.1101/069112 — Evolutionary Biology — Posted on 2016-08-11

326 Dissection of molecular assembly dynamics by tracking orientation and position of single molecules in live cells

Shalin B. Mehta;Molly McQuilken;Patrick La Riviere;Patricia Occhipinti;Amitabh Verma;Rudolf Oldenbourg;Amy S. Gladfelter;Tomomi Tani;

10.1101/068767 — Biophysics — Posted on 2016-08-12

327 Dissection of molecular assembly dynamics by tracking orientation and position of single molecules in live cells

Shalin B. Mehta;Molly McQuilken;Patrick La Riviere;Patricia Occhipinti;Amitabh Verma;Rudolf Oldenbourg;Amy S. Gladfelter;Tomomi Tani;

10.1101/068767 — Biophysics — Posted on 2016-08-11

328 Optogenetically controlled cargo shows full length human myosin VI integrates activation signals in vivo and in vitro

Alexander R French;Tobin R Sosnick;Ronald Rock;

10.1101/068965 — Biophysics — Posted on 2016-08-11

329 Gene expression markers of Tumor Infiltrating Leukocytes

Patrick Danaher;Sarah Warren;Lucas Dennis;Leonard D'Amico;Andrew White;Mary L Disis;Melissa A Geller;Kunle Odunsi;Joseph Beechem;Stephen P Fling;

10.1101/068940 — Bioinformatics — Posted on 2016-08-11

330 CAMSA: a Tool for Comparative Analysis and Merging of Scaffold Assemblies

Sergey S. Aganezov;Max A. Alekseyev;

10.1101/069153 — Bioinformatics — Posted on 2016-08-11

331 Whole genome sequencing of Plasmodium falciparum from dried blood spots using selective whole genome amplification

Samuel O. Oyola;Cristina Valente Ariani;William Hamilton;Mihir Kekre;Lucas Amenga-Etego;Anita Ghansah;Gavin R. Rutledge;Seth Redmond;Magnus Manske;Dushyanth Jyothi;Chris G. Jacob;Thomas Otto;Kirk Rockett;Chris I. Newbold;Matthew Berriman;Dominic P. Kwiatkowski;

10.1101/067546 — Genomics — Posted on 2016-08-11

332 Phylogenomic Analysis of Ants, Bees and Stinging Wasps: Improved Taxon Sampling Enhances Understanding of Hymenopteran Evolution

Michael G. Branstetter;Bryan N. Danforth;James P. Pitts;Brant C. Faircloth;Philip S. Ward;Matthew L. Buffington;Michael W. Gates;Robert R. Kula;Sean G. Brady;

10.1101/068957 — Evolutionary Biology — Posted on 2016-08-10

333 Survival of Captive Chimpanzees: Impact of Location and Transfers

Michael Lauer;

10.1101/068858 — Epidemiology — Posted on 2016-08-10

334 The Powers and Perils of Post-Marketing Data Analysis: Quantification and Mitigation of Biases in the FDA Adverse Event Reporting System

Mateusz Maciejewski;Eugen Lounkine;Steven Whitebread;Pierre Farmer;Brian K. Shoichet;Laszlo Urban;

10.1101/068692 — Pharmacology and Toxicology — Posted on 2016-08-14

335 The Powers and Perils of Post-Marketing Data Analysis: Quantification and Mitigation of Biases in the FDA Adverse Event Reporting System

Mateusz Maciejewski;Eugen Lounkine;Steven Whitebread;Pierre Farmer;Brian K. Shoichet;Laszlo Urban;

10.1101/068692 — Pharmacology and Toxicology — Posted on 2016-08-10

336 Modeling the multiple facets of speciation-with-gene-flow towards improving divergence history inference of a recent fish adaptive radiation.

Clement Rougeux;Louis Bernatchez;Pierre-Alexandre Gagnaire;

10.1101/068932 — Evolutionary Biology — Posted on 2016-08-10

337 Bartender: an ultrafast and accurate clustering algorithm to count barcode and amplicon reads

Lu Zhao;Zhimin Liu;Sasha F. Levy;Song Wu;

10.1101/068916 — Bioinformatics — Posted on 2016-08-10

338 Contextual Fear Conditioning in Zebrafish

Justin W Kenney;Ian C Scott;Sheena A Josselyn;Paul W Frankland;

10.1101/068833 — Neuroscience — Posted on 2016-08-10

339 Scale-Free Exponents of Resting State are Biomarkers of Neuro-Typical and Atypical Brain Activity

Stephen Jose Hanson;Dana Mastrovito;Catherine Hanson;Joe Ramsey;Clark Glymour;

10.1101/068841 — Bioinformatics — Posted on 2016-08-10

340 Using approximate Bayesian computation to quantify cell-cell adhesion parameters in a cell migratory process

Robert Ross;Ruth Baker;Andrew Parker;Matthew Ford;Richard Mort;Christian Yates;

10.1101/068791 — Systems Biology — Posted on 2016-08-24

341 Using approximate Bayesian computation to quantify cell-cell adhesion parameters in a cell migratory process

Robert Ross;Ruth Baker;Andrew Parker;Matthew Ford;Richard Mort;Christian Yates;

10.1101/068791 — Systems Biology — Posted on 2016-08-10

342 The frequency spectrum of chromatin accessibility in Yorubans points toward a significant role of random genetic drift in shaping the chromatin landscape

Mariah Weavil-Abueg;Joshua G Schraiber;

10.1101/068718 — Evolutionary Biology — Posted on 2016-08-10

343 The frequency spectrum of chromatin accessibility in Yorubans points toward a significant role of random genetic drift in shaping the chromatin landscape

Mariah Weavil-Abueg;Joshua G Schraiber;

10.1101/068718 — Evolutionary Biology — Posted on 2016-08-10

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

Heather M Williams;Brian Egan;Katharina Dittmar;

10.1101/068734 — Ecology — Posted on 2016-08-10

345 CIDR: Ultrafast and accurate clustering through imputation for single-cell RNA-Seq data

Peijie Lin;Michael Troup;Joshua W. K. Ho;

10.1101/068775 — Bioinformatics — Posted on 2016-08-31

346 CIDR: Ultrafast and accurate clustering through imputation for single-cell RNA-Seq data

Peijie Lin;Michael Troup;Joshua W. K. Ho;

10.1101/068775 — Bioinformatics — Posted on 2016-08-10

347 A complete tool set for molecular QTL discovery and analysis

Olivier Delaneau;Halit Ongen;Andrew Anand Brown;Alexandre Fort;Nikolaos Panousis;Emmanouil Dermitzakis;

10.1101/068635 — Bioinformatics — Posted on 2016-08-10

348 Evaluating the genetic diagnostic power of exome sequencing: Identifying missing data.

Pascual Lorente-Arencibia;Deyan Guacaran;Antonio Tugores;

10.1101/068825 — Bioinformatics — Posted on 2016-08-10

349 Analytic framework for stochastic binary biological switches

Guilherme Innocentini;Sarah Guiziou;Jerome Bonnet;Ovidiu Radulescu;

10.1101/068759 — Synthetic Biology — Posted on 2016-08-09

350 RNase H enables efficient repair of R-loop induced DNA damage

Jeremy D. Amon;Douglas Koshland;

10.1101/068742 — Molecular Biology — Posted on 2016-08-09

351 Palmitoylation of the oncogenic RhoGEF TGAT is dispensable for membrane affinity and consequent activation of RhoA

Jakobus van Unen;Dennis Botman;Taofei Yin;Yi I. Wu;Mark A. Hink;Theodorus W.J. Gadella;Marten Postma;Joachim Goedhart;

10.1101/062729 — Cell Biology — Posted on 2016-08-09

352 Compensation masks trophic cascades in complex food webs

Ashkaan K Fahimipour;Kurt E Anderson;Richard J Williams;

10.1101/068569 — Ecology — Posted on 2016-08-09

353 Oxytocin enhances intrinsic corticostriatal functional connectivity in women

Richard Alexander Ingmar Bethlehem;Michael V. Lombardo;Meng-Chuan Lai;Bonnie Auyeung;Sarah Crockford;Julia Deakin;Sentil Soubramanian;Akeem Sule;Prantik Kundu;Valerie Voon;Simon Baron-Cohen;

10.1101/068585 — Neuroscience — Posted on 2016-08-09

354 Bacterial invasion of the pancreas revealed after analyses of the pancreatic cyst fluids

Vilvapathy Narayanan;Wesley K Utomo;Marco J Bruno;Maikel P Peppelenbosch;Sergey R Konstantinov;

10.1101/064550 — Microbiology — Posted on 2016-08-09

355 Animals transcribe at least half of the genome

Warren R Francis;Gert Wörheide;

10.1101/068627 — Genomics — Posted on 2016-08-12

356 Animals transcribe at least half of the genome

Warren R Francis;Gert Wörheide;

10.1101/068627 — Genomics — Posted on 2016-08-10

357 Animals transcribe at least half of the genome

Warren R Francis;Gert Wörheide;

10.1101/068627 — Genomics — Posted on 2016-08-09

358 Polygenic analysis of schizophrenia and 19 immune diseases reveals modest pleiotropy

Jennie G Pouget;Schizophrenia Working Group of the PGC;Buhm Han;Emmanuel Mignot;Hanna M Ollila;Jonathan Barker;Sarah Spain;Nick Dand;Richard Trembath;Javier Martin;Maureen D Mayes;Lara Bossini-Castillo;Elena Lopez-Isac;Ying Jin;Stephanie Santorico;Richard A Spritz;Soumya Raychaudhuri;Jo Knight;

10.1101/068684 — Genetics — Posted on 2016-08-09

359 Visualizing the Geography of Genetic Variants

Joseph H Marcus;John Novembre;

10.1101/068536 — Genetics — Posted on 2016-08-09

360 Development and Application of Equilibrium Thermodynamic Models Describing Coupled Protein Oligomerization and Ligand Binding

Martin L Rennie;Richard L Kingston;

10.1101/068577 — Biochemistry — Posted on 2016-08-09

361 Hierarchical Bayesian estimation of metacognitive efficiency from confidence ratings

Stephen M Fleming;

10.1101/068601 — Animal Behavior and Cognition — Posted on 2016-08-09

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

Catherine L. Peichel;Shawn T. Sullivan;Ivan Liachko;Michael A. White;

10.1101/068528 — Genomics — Posted on 2016-08-09

363 Common schizophrenia alleles are enriched in mutation-intolerant genes and maintained by background selection

Antonio F Pardiñas;Peter Holmans;Andrew J Pocklington;Valentina Escott-Price;Stephan Ripke;Noa Carrera;Sophie E Legge;Sophie Bishop;Darren Cameron;Marian L Hamshere;Jun Han;Leon Hubbard;Amy Lynham;Kiran Mantripragada;Elliott Rees;James H MacCabe;Steven A McCarroll;Bernhard T Baune;Gerome Breen;Enda M Byrne;Udo Dannlowski;Thalia C Eley;Caroline Hayward;Nicholas G Martin;Andrew M McIntosh;Robert Plomin;David J Porteous;Naomi R Wray;the GERAD1 Consortium;David A Collier;Dan Rujescu;George Kirov;Michael J Owen;Michael C O'Donovan;James T R Walters;

10.1101/068593 — Genomics — Posted on 2016-08-09

364 Fitness costs of noise in biochemical reaction networks and the evolutionary limits of cellular robustness

J. David Van Dyken;

10.1101/068510 — Evolutionary Biology — Posted on 2016-08-15

365 Fitness costs of noise in biochemical reaction networks and the evolutionary limits of cellular robustness

J. David Van Dyken;

10.1101/068510 — Evolutionary Biology — Posted on 2016-08-09

366 Environmental DNA enables detection of terrestrial mammals from forest pond water

Masayuki Ushio;Hisato Fukuda;Toshiki Inoue;Kobayashi Makoto;Osamu Kishida;Keiichi Sato;Koichi Murata;Masato Nikaido;Tetsuya Sado;Yukuto Sato;Masamichi Takeshita;Wataru Iwasaki;Hiroki Yamanaka;Michio Kondoh;Masaki Miya;

10.1101/068551 — Ecology — Posted on 2016-08-09

367 Remnant American Chestnut (Castanea dentata (Marsh.) Borkh.; Fagaceae) in Upland Forests of Northwestern New York

Robert G. Laport;

10.1101/068544 — Ecology — Posted on 2016-08-09

368 Excitability in the p53 network mediates robust signaling with tunable activation thresholds in single cells

Gregor Moenke;Elena Christiano;Ana Finzel;Dhana Friedrich;Hanspeter Herzel;Martin Falcke;Alexander Loewer;

10.1101/068668 — Cell Biology — Posted on 2016-08-09

369 Dynamics and fate of beneficial mutations under lineage contamination by linked deleterious mutations

Sophie Penisson;Tanya Singh;Paul D. Sniegowski;Philip J Gerrish;

10.1101/068429 — Evolutionary Biology — Posted on 2016-08-08

370 The hidden treasure in your data: Phasing with unexpected weak anomalous scatterers from routine datasets

Raghurama P Hegde;Steven C Almo;Udupi A Ramagopal;

10.1101/068403 — Biophysics — Posted on 2016-08-08

371 Multiple binding modes of ibuprofen in human serum albumin identified by absolute binding free energy calculations

Stefania Evoli;David Mobley;Rita Guzzi;Bruno Rizzuti;

10.1101/068502 — Biochemistry — Posted on 2016-08-08

372 Into the Evening: Complex Interactions in the Arabidopsis circadian clock.

He A Huang;Dmitri A. Nusinow;

10.1101/068460 — Plant Biology — Posted on 2016-08-08

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

Joseph Thorley;Greg Andrusak;

10.1101/068387 — Ecology — Posted on 2016-08-08

374 No evidence for unknown archaic ancestry in South Asia

Pontus Skoglund;Swapan Mallick;Nick Patterson;David Reich;

10.1101/068155 — Genomics — Posted on 2016-08-08

375 recount: A large-scale resource of analysis-ready RNA-seq expression data

Leonardo Collado-Torres;Abhinav Nellore;Kai Kammers;Shannon E Ellis;Margaret A Taub;Kasper D Hansen;Andrew E Jaffe;Ben Langmead;Jeffrey Leek;

10.1101/068478 — Genomics — Posted on 2016-08-08

376 Testing for local adaptation and evolutionary potential along altitudinal gradients in rainforest Drosophila: limitations of laboratory estimates.

Eleanor K O'Brien;Megan Higgie;Alan Reynolds;Ary A Hoffmann;Jon R Bridle;

10.1101/068080 — Evolutionary Biology — Posted on 2016-08-08

377 Population structure reduces the benefits from partner choice in mutualism

Erol Akcay;

10.1101/068445 — Evolutionary Biology — Posted on 2016-08-08

378 Fundamental principles governing sporulation efficiency: A network theory approach

Camellia Sarkar;Saumya Gupta;Himanshu Sinha;Sarika Jalan;

10.1101/068270 — Systems Biology — Posted on 2016-08-07

379 Contextual connectivity: A framework for understanding the intrinsic dynamic architecture of large-scale functional brain networks

Rastko Ciric;Jason Nomi;Lucina Uddin;Ajay Satpute;

10.1101/068320 — Neuroscience — Posted on 2016-08-07

380 Genome Integration and Reactivation of the Virophage Mavirus In the Marine Protozoan Cafeteria roenbergensis

Matthias G Fischer;Thomas Hackl;

10.1101/068312 — Microbiology — Posted on 2016-08-07

381 ABySS 2.0: Resource-Efficient Assembly of Large Genomes using a Bloom Filter

Shaun D Jackman;Benjamin P Vandervalk;Hamid Mohamadi;Justin Chu;Sarah Yeo;S Austin Hammond;Golnaz Jahesh;Hamza Khan;Lauren Coombe;Rene L Warren;Inanc Birol;

10.1101/068338 — Bioinformatics — Posted on 2016-08-07

382 Human inferences about sequences: A minimal transition probability model

Florent Meyniel;Maxime Maheu;Stanislas Dehaene;

10.1101/068346 — Animal Behavior and Cognition — Posted on 2016-08-07

383 Dynamics of lineage commitment revealed by single-cell transcriptomics of differentiating embryonic stem cells

Stefan Semrau;Johanna Goldmann;Magali Soumillon;Tarjei S. Mikkelsen;Rudolf Jaenisch;Alexander van Oudenaarden;

10.1101/068288 — Systems Biology — Posted on 2016-08-07

384 Cytoarchitectonic similarity is a wiring principle of the human connectome

Alexandros Goulas;Rene Werner;Sarah F Beul;Dennis Saering;Martijn van den Heuvel;Lazaros C Triarhou;Claus C Hilgetag;

10.1101/068254 — Neuroscience — Posted on 2016-08-06

385 Large-scale multivariate activation states of the human brain

Richard H Chen;Takuya Ito;Kaustubh R Kulkarni;Michael W Cole;

10.1101/068221 — Neuroscience — Posted on 2016-08-06

386 Rapid expansion of immune-related gene families in the house fly, Musca domestica

Timothy B. Sackton;Brian Lazzaro;Andrew Clark;

10.1101/068213 — Evolutionary Biology — Posted on 2016-08-06

387 Genomic signatures of introgression at late stages of speciation in a malaria mosquito

Colince Kamdem;Caroline Fouet;Stephanie Gamez;Bradley J White;

10.1101/068239 — Evolutionary Biology — Posted on 2016-08-06

388 Chromosomal inversions facilitate chromosome-scale evolution in Anopheles funestus

Caroline Fouet;Colince Kamdem;Bradley J White;

10.1101/068205 — Evolutionary Biology — Posted on 2016-08-06

389 Extensive genetic diversity among populations of the malaria mosquito Anopheles moucheti revealed by population genomics

Caroline Fouet;Colince Kamdem;Stephanie Gamez;Bradley J White;

10.1101/068247 — Evolutionary Biology — Posted on 2016-08-06

390 A FLIC motility assay reveals myosin-6 coordination limited by actin filament buckling

Agata K Krenc;Jagoda J Rokicka;Ronald S Rock;

10.1101/068163 — Biophysics — Posted on 2016-08-06

391 How the AFF1/4 scaffold recruits the elongation factor ELL2 to promote HIV-1 proviral transcription

Shiqian Qi;Zichong Li;Ursula Schulze-Gahmen;Goran Stjepanovic;Qiang Zhou;James Hurley;

10.1101/068262 — Biochemistry — Posted on 2016-08-06

392 Ancient European dog genomes reveal continuity since the early Neolithic

Laura Botigue;Shiya Song;Amelie Scheu;Shyamalika Gopalan;Amanda Pendleton;Matthew Oetjens;Angela Taravella;Timo Seregély;Andrea Zeeb-Lanz;Rose-Marie Arbogast;Dean Bobo;Kevin Daly;Martina Unterländer;Joachim Burger;Jeffrey Kidd;Krishna R Veeramah;

10.1101/068189 — Genomics — Posted on 2016-08-07

393 Ancient European dog genomes reveal continuity since the early Neolithic

10.1101/068189 — Genomics — Posted on 2016-08-05

394 AN ISOCHORE FRAMEWORK UNDERLIES CHROMATIN ARCHITECTURE

Kamel Jabbari;Giorgio Bernardi;

10.1101/068114 — Genomics — Posted on 2016-08-05

395 Sympatry with the devil? Niche-based approach explains the mechanisms allowing 1 coexistence of native and non-native salmonids

Camille Musseau;Simone Vincenzi;Dušan Jesenšek;Stéphanie Boulêtreau;Frédéric Santoul;Alain Jean Crivelli;

10.1101/068171 — Ecology — Posted on 2016-08-05

396 Structural and Functional Analyses of PolyProline-II helices in Globular Proteins

Prasun Kumar;Manju Bansal;

10.1101/068098 — Bioinformatics — Posted on 2016-08-05

397 PBrowse: A web-based platform for real-time collaborative exploration of genomic data

Peter S Szot;Andrian Yang;Xin Wang;Chirag Parsania;Uwe Röhm;Koon Ho Wong;Joshua W. K. Ho;

10.1101/068049 — Bioinformatics — Posted on 2016-08-05

398 Dynamic Maternal Gradients Control Timing and Shift-Rates for Gap Gene Expression

Berta Verd;Anton Crombach;Johannes Jaeger;

10.1101/068064 — Systems Biology — Posted on 2016-08-05

399 A damped oscillator imposes temporal order on posterior gap gene expression in Drosophila

Berta Verd;Erik Clark;Anton Crombach;Johannes Jaeger;

10.1101/068072 — Developmental Biology — Posted on 2016-08-05

400 On the estimation errors of KM and V from time-course experiments using the Michaelis-Menten equation

Wylie Stroberg;Santiago Schnell;

10.1101/068015 — Biochemistry — Posted on 2016-08-05

401 Long-time analytic approximation of large stochastic oscillators: simulation, analysis and inference

Giorgos Minas;David A Rand;

10.1101/068148 — Systems Biology — Posted on 2016-08-05

402 Synthetic Photosynthetic Consortia Define Interactions Leading to Robustness and Photoproduction

Stephanie G. Hays;Leo L.W. Yan;Pamela A. Silver;Daniel C. Ducat;

10.1101/068130 — Synthetic Biology — Posted on 2016-08-05

403 Removing bias against short sequences enables northern blotting to better complement RNA-seq for the study of small RNAs

Yun S Choi;Lanelle O Edwards;Aubrey DiBello;Antony Merlin Jose;

10.1101/068031 — Molecular Biology — Posted on 2016-08-05

404 Overcoming the dichotomy: new insights into the genomic diversity of open and isolated European populations

Paolo Anagnostou;Valentina Dominici;Cinzia Battaggia;Luca Pagani;Miguel Vilar;Spencer Wells;Davide Pettener;Stefania Sarno;Alessio Boattini;Paolo Francalacci;Vincenza Colonna;Giuseppe Vona;Carla Caló;Giovanni Destro Bisol;Sergio Tofanelli;

10.1101/067850 — Genomics — Posted on 2016-08-05

405 Population genomics of C. melanopterus using target gene capture data: demographic inferences and conservation perspectives

Pierpaolo Maisano Delser;Shannon Corrigan;Matthew Hale;Chenhong Li;Michel Veuille;Serge Planes;Gavin Naylor;Stefano Mona;

10.1101/068106 — Genomics — Posted on 2016-08-05

406 Identification of Brain Expression Quantitative Trait Loci Associated with Schizophrenia and Affective Disorders in Normal Brain Tissue

Oneil G Bhalala;Artika P Nath;UK Brain Expression Consortium;Michael Inouye;Christopher R Sibley;

10.1101/068007 — Genetics — Posted on 2016-08-05

407 An autonomous meiosis-specific region of yeast Nup2 (hNup50) promotes normal meiotic chromosome dynamics in Saccharomyces cerevisiae.

Daniel B. Chu;Sean M Burgess;

10.1101/068056 — Genetics — Posted on 2016-08-05

408 Fast and accurate de novo genome assembly from long uncorrected reads

Robert Vaser;Ivan Sovic;Niranjan Nagarajan;Mile Sikic;

10.1101/068122 — Bioinformatics — Posted on 2016-08-05

409 Evolution of simple multicellularity increases environmental complexity

Maria Rebolleda-Gomez;William C. Ratcliff;Fankhauser Jonathon;Michael Travisano;

10.1101/067991 — Evolutionary Biology — Posted on 2016-08-05

410 Optimized implementations of voxel-wise degree centrality and local functional connectivity density mapping in AFNI

Richard Craddock;Daniel Clark;

10.1101/067702 — Bioinformatics — Posted on 2016-08-05

411 Interactive online brain shape visualization

Anisha Keshavan;Arno Klein;Benjamin Cipollini;

10.1101/067678 — Bioinformatics — Posted on 2016-08-05

412 Comprehensive population-based genome sequencing provides insight into hematopoietic regulatory mechanisms

Michael Guo;Satish K Nandakumar;Jacob C Ulirsch;Seyedeh Maryam Zekavat;Jason D Buenrostro;Pradeep Natarajan;Rany Salem;Roberto Chiarle;Mario Mitt;Mart Kals;Kalle Parn;Krista Fischer;Lili Milani;Reedik Magi;Priit Palta;Stacey B Gabriel;Andres Metspalu;Eric S Lander;Sekar Kathiresan;Joel N Hirschhorn;Tonu Esko;Vijay G Sankaran;

10.1101/067934 — Genetics — Posted on 2016-08-05

413 Comprehensive population-based genome sequencing provides insight into hematopoietic regulatory mechanisms

10.1101/067934 — Genetics — Posted on 2016-08-04

414 Recombination-driven genome evolution and stability of bacterial species

Purushottam Dixit;Tin Y Pang;Sergei Maslov;

10.1101/067942 — Evolutionary Biology — Posted on 2016-08-31

415 Recombination-driven genome evolution and stability of bacterial species

Purushottam Dixit;Tin Y Pang;Sergei Maslov;

10.1101/067942 — Evolutionary Biology — Posted on 2016-08-05

416 Recombination-driven genome evolution and stability of bacterial species

Purushottam Dixit;Tin Y Pang;Sergei Maslov;

10.1101/067942 — Evolutionary Biology — Posted on 2016-08-04

417 Community structure follows simple assembly rules in microbial microcosms

Jonathan Friedman;Logan M Higgins;Jeff Gore;

10.1101/067926 — Ecology — Posted on 2016-08-04

418 Fast and accurate spike sorting in vitro and in vivo for up to thousands of electrodes

Pierre Yger;Giulia L. B. Spampinato;Elric Esposito;Baptiste Lefebvre;Stephane Deny;Christophe Gardella;Marcel Stimberg;Florian Jetter;Guenther Zeck;Serge Picaud;Jens Duebel;Olivier Marre;

10.1101/067843 — Neuroscience — Posted on 2016-08-04

419 Single Cell Transcriptome Conservation in Cryopreserved Cells and Tissues

Amy Guillaumet-Adkins;Gustavo Rodriguez-Esteban;Elisabetta Mereu;Alberto Villanueva;August Vidal;Marta Gut;Ivo Gut;Holger Heyn;

10.1101/067884 — Genomics — Posted on 2016-08-04

420 Insights into mortality patterns and causes of death through a process point of view

James Anderson;Ting Li;David J Sharrow;

10.1101/067967 — Epidemiology — Posted on 2016-08-05

421 Insights into mortality patterns and causes of death through a process point of view

James Anderson;Ting Li;David J Sharrow;

10.1101/067967 — Epidemiology — Posted on 2016-08-04

422 An Atlas of Human Kinase Regulation

David Ochoa;Mindaugas Jonikas;Robert T Lawrence;Bachir El Debs;Joel Selkrig;Athanasios Typas;Judit Villen;Silvia Santos;Pedro Beltrao;

10.1101/067900 — Systems Biology — Posted on 2016-08-04

423 Low activity microstates during sleep

Hiroyuki Miyawaki;Yazan Billeh;Kamran Diba;

10.1101/067892 — Neuroscience — Posted on 2016-08-05

424 Low activity microstates during sleep

Hiroyuki Miyawaki;Yazan Billeh;Kamran Diba;

10.1101/067892 — Neuroscience — Posted on 2016-08-04

425 Direct correlation between motile behavior and protein abundance in single cells

Yann S Dufour;Sébastien Gillet;Nicholas W Frankel;Douglas B Weibel;Thierry Emonet;

10.1101/067918 — Microbiology — Posted on 2016-08-04

426 Late Onset Alzheimer’s disease risk variants in cognitive decline: The PATH Through Life Study

Shea J Andrews;Debjani Das;Kaarin J Anstey;Simon Easteal;

10.1101/067694 — Genetics — Posted on 2016-08-04

427 Evolution trajectories of snake genes and genomes revealed by comparative analyses of five-pacer viper

Wei Yin;Zongji Wang;Qiye Li;Jinmin Lian;Yang Zhou;Bingzheng Lu;Lijun Jin;Pengxin Qiu;Pei Zhang;Wenbo Zhu;Bo Wen;Yijun Huang;Zhilong Lin;Bitao Qiu;Xingwen Su;Huanming Yang;Guojie Zhang;Guangmei Yan;Qi Zhou;

10.1101/067538 — Evolutionary Biology — Posted on 2016-08-30

428 Evolution trajectories of snake genes and genomes revealed by comparative analyses of five-pacer viper

10.1101/067538 — Evolutionary Biology — Posted on 2016-08-04

429 Genetic Diversity, Population Structure and Species Delimitation of Trialeurodes vaporariorum (Greenhouse whitefly)

James M Wainaina;Paul De Barro;Laura Kubatko;Monica A Kehoe;Jagger Harvey;David Karanja;Laura Boykin;

10.1101/067769 — Evolutionary Biology — Posted on 2016-08-04

430 Beyond the Hypercube: Evolutionary Accessibility of Fitness Landscapes with Realistic Mutational Networks

Marcin Zagorski;Zdzislaw Burda;Bartlomiej Waclaw;

10.1101/067819 — Evolutionary Biology — Posted on 2016-08-04

431 The genealogical decomposition of a matrix population model with applications to the aggregation of stages

François Bienvenu;Erol Akcay;Stéphane Legendre;David McCandlish;

10.1101/067793 — Ecology — Posted on 2016-08-04

432 Accelerated cell divisions drive the outgrowth of the regenerating spinal cord in axolotls

Fabian Rost;Aida Rodrigo Albors;Vladimir Mazurov;Lutz Brusch;Andreas Deutsch;Elly M Tanaka;Osvaldo Chara;

10.1101/067785 — Developmental Biology — Posted on 2016-08-04

433 Experimental Reconstitution of Chronic ER Stress in the Liver Reveals Feedback Suppression of Bip mRNA Expression

Javier A. Gomez;D. Thomas Rutkowski;

10.1101/067744 — Cell Biology — Posted on 2016-08-04

434 GTSE1 tunes microtubule stability for chromosome alignment and segregation through MCAK inhibition

Shweta Bendre;Arnaud Rondelet;Conrad Hall;Nadine Schmidt;Yu-Chih Lin;Gary Brouhard;Alexander Bird;

10.1101/067827 — Cell Biology — Posted on 2016-08-04

435 An RNA-binding tropomyosin recruits kinesin-1 dynamically to oskar mRNPs

Imre Gaspar;Vasily Sysoev;Artem Komissarov;Anne Ephrussi;

10.1101/067876 — Cell Biology — Posted on 2016-08-04

436 Ultraslow water-mediated transmembrane interactions regulate the activation of A2A adenosine receptor

Yoonji Lee;Songmi Kim;Sun Choi;Changbong Hyeon;

10.1101/067751 — Biophysics — Posted on 2016-08-04

437 Adverse effects of culture media on human pluripotent stem cells

Megha Prakash Bangalore;Syama Adhikarla;Odity Mukherjee;Mitradas M. Panicker;

10.1101/067868 — Cell Biology — Posted on 2016-08-05

438 Adverse effects of culture media on human pluripotent stem cells

Megha Prakash Bangalore;Syama Adhikarla;Odity Mukherjee;Mitradas M. Panicker;

10.1101/067868 — Cell Biology — Posted on 2016-08-04

439 Modeling Hsp70/Hsp40 interaction by multi-scale molecular simulations and co-evolutionary sequence analysis

Duccio Malinverni;Alfredo Jost Lopez;Paolo De Los Rios;Gerhard Hummer;Alessandro Barducci;

10.1101/067421 — Biophysics — Posted on 2016-08-04

440 BayesFM: a software program to fine-map multiple causative variants in GWAS identified risk loci.

Ming Fang;Michel Georges;

10.1101/067801 — Bioinformatics — Posted on 2016-08-04

441 Signatures of human European Paleolithic expansion shown by resequencing of non-recombining X-chromosome segments

Pierpaolo Maisano Delser;Rita Neumann;Stephane Ballereau;Pille Hallast;Chiara Batini;Daniel Zadik;Mark Jobling;

10.1101/067835 — Genetics — Posted on 2016-08-04

442 Mutations in EBF3 disturb transcriptional profiles and underlie a novel syndrome of intellectual disability, ataxia and facial dysmorphism

Frederike Leonie Harms;Katta Mohan Girisha;Andrew Alexander Hardigan;Fanny Kortum;Anju Shukla;Malik Alawi;Ashwin Dalal;Lauren Brady;Mark Tarnopolsky;Lynne M. Bird;Sophia Ceulemans;Martina Bebin;Kevin M. Bowling;Susan M. Hiatt;Edward J. Lose;Michelle Primiano;Wendy K. Chung;Jane Juusola;Zeynep C. Akdemir;Matthew Bainbridge;Wu-Lin Charng;Margaret Drummond-Borg;Mohammad K. Eldomery;Ayman W. El-Hattab;Mohammed A.M. Saleh;Stephane Bezieau;Benjamin Cogne;Bertrand Isidor;Sebastien Kury;James R. Lupski;Richard M. Myers;Gregory M. Cooper;Kerstin Kutsche;

10.1101/067454 — Genetics — Posted on 2016-08-03

443 rehh 2.0: a reimplementation of the R package rehh to detect positive selection from haplotype structure.

Mathieu Gautier;Alexander Klassmann;Renaud Vitalis;

10.1101/067629 — Evolutionary Biology — Posted on 2016-08-03

444 Conservation of co-evolving protein interfaces bridges prokaryote-eukaryote homologies in the twilight zone

Juan Rodriguez-Rivas;Simone Marsili;David Juan;Alfonso Valencia;

10.1101/067587 — Bioinformatics — Posted on 2016-08-05

445 Conservation of co-evolving protein interfaces bridges prokaryote-eukaryote homologies in the twilight zone

Juan Rodriguez-Rivas;Simone Marsili;David Juan;Alfonso Valencia;

10.1101/067587 — Bioinformatics — Posted on 2016-08-03

446 Rapid resistome mapping using nanopore sequencing

Eric van der Helm;Lejla Imamovic;Mostafa M Hashim M. Ellabaan;Willem van Schaik;Anna Koza;Morten Otto Alexander O. A. Sommer;

10.1101/067652 — Microbiology — Posted on 2016-08-04

447 Rapid resistome mapping using nanopore sequencing

Eric van der Helm;Lejla Imamovic;Mostafa M Hashim M. Ellabaan;Willem van Schaik;Anna Koza;Morten Otto Alexander O. A. Sommer;

10.1101/067652 — Microbiology — Posted on 2016-08-03

448 GSuite HyperBrowser: integrative analysis of dataset collections across the genome and epigenome

Boris Simovski;Daniel Vodak;Sveinung Gundersen;Diana Domanska;Abdulrahman Azab;Lars Holden;Marit Holden;Ivar Grytten;Knut Dagestad Rand;Finn Drablos;Morten Johansen;Antonio Mora;Christin Lund-Andersen;Bastian Fromm;Ragnhild Eskeland;Odd Stokke Gabrielsen;Sigve Nakken;Mads Bengtsen;Alexander Johan Nederbragt;Hildur Sif Thorarensen;Johannes Andreas Akse;Ingrid Glad;Eivind Hovig;Geir Kjetil Sandve;

10.1101/067561 — Genomics — Posted on 2016-08-03

449 Pollutants and insecticides drive local adaptation in African malaria mosquitoes

Colince Kamdem;Caroline Fouet;Stephanie Gamez;Bradley J White;

10.1101/067660 — Evolutionary Biology — Posted on 2016-08-03

450 DIABLO - an integrative, multi-omics, multivariate method for multi-group classification

Amrit Singh;Benoit Gautier;Casey P. Shannon;Michael Vacher;Florian Rohart;Scott J Tebutt;Kim-Anh Le Cao;

10.1101/067611 — Bioinformatics — Posted on 2016-08-03

451 Habits without Values

Kevin Miller;Amitai Shenhav;Elliot Ludvig;

10.1101/067603 — Animal Behavior and Cognition — Posted on 2016-08-03

452 NUCLEAR FACTOR Y, subunit A (NF-YA) proteins positively regulate flowering and act through FLOWERING LOCUS T

Chamindika Siriwardana;Nerina Gnesutta;Roderick Kumimoto;Daniel Jones;Zachary Myers;Roberto Mantovani;Ben F Holt;

10.1101/066399 — Plant Biology — Posted on 2016-08-03

453 Local expectation violations result in global activity gain in primary visual cortex

Peter Kok;Lieke L.F. van Lieshout;Floris P. de Lange;

10.1101/067579 — Neuroscience — Posted on 2016-08-03

454 Morphometric analysis of Passiflora leaves I: the relationship between landmarks of the vasculature and elliptical Fourier descriptors of the blade

Daniel H Chitwood;Wagner C Otoni;

10.1101/067512 — Plant Biology — Posted on 2016-08-03

455 Morphometric analysis of Passiflora leaves II: divergent heteroblastic trajectories underlie the disparate leaf shapes among Passiflora species

Daniel H Chitwood;Wagner C Otoni;

10.1101/067520 — Plant Biology — Posted on 2016-08-03

456 Sequence elimination in hybrid offspring of wheat-Agropyron cristatum (L.) Gaertn introgression line Pubing3504 × common wheat cultivar Jing4839

Wu Xiaoyang;Chen Dan;Lu Yuqing;Zhang Jinpeng;Liu Weihua;Yang Xinming;Li Xiuquan;Du Juan;Li Lihui;

10.1101/067504 — Genomics — Posted on 2016-08-03

457 Intrinsic K-Ras dynamics: A novel molecular dynamics data analysis method shows causality between residue pairs

Sezen Vatansever;Zeynep Gumus;Burak Erman;

10.1101/067496 — Biophysics — Posted on 2016-08-02

458 NUCLEAR FACTOR Y, subunit C (NF-YC) transcription factors are positive regulators of photomorphogenesis in Arabidopsis thaliana

Zachary A Myers;Roderick W Kumimoto;Chamindika L Siriwardana;Krystal K Gayler;Jan R Risinger;Daniela Pezzetta;Ben F Holt;

10.1101/067462 — Plant Biology — Posted on 2016-08-02

459 Experimental estimation of the effects of all amino-acid mutations to HIV Env

Hugh K Haddox;Adam S Dingens;Jesse Bloom;

10.1101/067470 — Microbiology — Posted on 2016-08-02

460 Cancer treatment scheduling and dynamic heterogeneity in social dilemmas of tumour acidity and vasculature

Artem Kaznatcheev;Robert Vander Velde;Jacob G Scott;David Basanta;

10.1101/067488 — Cancer Biology — Posted on 2016-08-02

461 The intertwined metabolism of Medicago truncatula and its nitrogen fixing symbiont Sinorhizobium meliloti elucidated by genome-scale metabolic models.

Thomas Pfau;Nils Christian;Shyam K. Masakapalli;Lee J. Sweetlove;Mark G. Poolman;Oliver Ebenhoeh;

10.1101/067348 — Systems Biology — Posted on 2016-08-02

462 Dendrites of DG granule cells contribute to pattern separation by controlling sparsity

Spyridon Chavlis;Panagiotis C Petrantonakis;Panayiota Poirazi;

10.1101/067389 — Neuroscience — Posted on 2016-08-03

463 Dendrites of DG granule cells contribute to pattern separation by controlling sparsity

Spyridon Chavlis;Panagiotis C Petrantonakis;Panayiota Poirazi;

10.1101/067389 — Neuroscience — Posted on 2016-08-02

464 Transcriptome-wide association study of schizophrenia and chromatin activity yields mechanistic disease insights

Alexander Gusev;Nick Mancuso;Hilary K Finucane;Yakir Reshef;Lingyun Song;Alexias Safi;Edwin Oh;SCZ Working Group of the Psychiatric Genomics Cons;Steven McCaroll;Benjamin Neale;Roel Ophoff;Michael C O'Donovan;Nicholas Katsanis;Gregory E Crawford;Patrick F Sullivan;Bogdan Pasaniuc;Alkes L Price;

10.1101/067355 — Genomics — Posted on 2016-08-02

465 The role of vertical symbiont transmission in altering cooperation and fitness of coral-Symbiodinium symbioses

Carly D Kenkel;Line K Bay;

10.1101/067322 — Evolutionary Biology — Posted on 2016-08-02

466 Beyond Brownian motion and the Ornstein-Uhlenbeck process: Stochastic diffusion models for the evolution of quantitative characters.

Simon Phillip Blomberg;

10.1101/067363 — Evolutionary Biology — Posted on 2016-08-02

467 Fungi exposed to chronic nitrogen enrichment are less able to decay leaf litter

Linda van Diepen;Serita Frey;Elizabeth Landis;Eric Morrison;Anne Pringle;

10.1101/067306 — Ecology — Posted on 2016-08-02

468 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

Arjun S Adhikari;Kristina B Kooiker;Chao Liu;Saswata S Sarkar;Daniel Bernstein;James A Spudich;Kathleen M Ruppel;

10.1101/067066 — Biophysics — Posted on 2016-08-09

469 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

Arjun S Adhikari;Kristina B Kooiker;Chao Liu;Saswata S Sarkar;Daniel Bernstein;James A Spudich;Kathleen M Ruppel;

10.1101/067066 — Biophysics — Posted on 2016-08-02

470 Coupled Nosé-Hoover equations of motions without time scaling

Ikuo Fukuda;Kei Moritsugu;

10.1101/067397 — Biophysics — Posted on 2016-08-02

471 A Scalable Data Access Layer to Manage Structured Heterogeneous Biomedical Data

Giovanni Delussu;Luca Lianas;Francesca Frexia;Gianluigi Zanetti;

10.1101/067371 — Bioinformatics — Posted on 2016-08-04

472 A Scalable Data Access Layer to Manage Structured Heterogeneous Biomedical Data

Giovanni Delussu;Luca Lianas;Francesca Frexia;Gianluigi Zanetti;

10.1101/067371 — Bioinformatics — Posted on 2016-08-02

473 High-Quality Assembly of an Individual of Yoruban Descent

Karyn Meltz Steinberg;Tina Graves-Lindsay;Valerie A Schneider;Mark J.P. Chaisson;Chad Tomlinson;John L Huddleston;Patrick Minx;Milinn Kremitzki;Derek Albrecht;Vincent Magrini;Sean McGrath;Archana Raja;Carl Baker;Lana Harshman;LaDeana W Hillier;Francoise Thibaud-Nissen;Nathan Bouk;Amy Ly;Chris Amemiya;Joyce Tang;Evan E Eichler;Robert S Fulton;Wesley C Warren;Deanna M Church;Richard K Wilson;

10.1101/067447 — Bioinformatics — Posted on 2016-08-02

474 RECRUITMENT OF GROUPER BROODSTOCK ON THE BASIS OF SINGLE LOCUS DNA MARKERS

Kennth Francis Rodrigues;Syarul Nataqain Baharum;Ahmad Zaidi Tani;

10.1101/067231 — Genetics — Posted on 2016-08-02

475 Advances in the recovery of haplotypes from the metagenome

Samuel M Nicholls;Wayne Aubrey;Kurt de Grave;Leander Schietgat;Chris J Creevey;Amanda Clare;

10.1101/067215 — Bioinformatics — Posted on 2016-08-02

476 Improved long read correction for de novo assembly using an FM-index

James M Holt;Jeremy R Wang;Corbin D Jones;Leonard McMillan;

10.1101/067272 — Bioinformatics — Posted on 2016-08-02

477 Modeling translation elongation dynamics by deep learning reveals new insights into the landscape of ribosome stalling

Sai Zhang;Hailin Hu;Jingtian Zhou;Xuan He;Jianyang Zeng;

10.1101/067108 — Bioinformatics — Posted on 2016-08-03

478 Modeling translation elongation dynamics by deep learning reveals new insights into the landscape of ribosome stalling

Sai Zhang;Hailin Hu;Jingtian Zhou;Xuan He;Jianyang Zeng;

10.1101/067108 — Bioinformatics — Posted on 2016-08-02

479 Spherical: an iterative workflow for assembling metagenomic datasets

Thomas Hitch;Chris Creevey;

10.1101/067256 — Bioinformatics — Posted on 2016-08-02

480 One tagger, many uses - Illustrating the power of ontologies in dictionary-based named entity recognition

Lars Juhl Jensen;

10.1101/067132 — Bioinformatics — Posted on 2016-08-02

481 Aging increases lateral but not local inhibition of orientation processing in primary visual cortex

Zhengchun Wang;Shan Yu;Yu Fu;Yifeng Zhou;Tzvetomir Tzvetanov;

10.1101/067264 — Neuroscience — Posted on 2016-08-01

482 Bayesian Inference of Two-Dimensional Contrast Sensitivity Functions

Xiaoxiao Wang;Huan Wang;Jinfeng Huang;Tzvetomir Tzvetanov;Yifeng Zhou;

10.1101/067116 — Neuroscience — Posted on 2016-08-01

483 Different combinations of ErbB receptor dimers generate opposing signals that regulate cell proliferation in cardiac valve development

Ryo Iwamoto;Naoki Mine;Hiroto Mizushima;Eisuke Mekada;

10.1101/067249 — Developmental Biology — Posted on 2016-08-01

484 Polo kinase phosphorylation determines C. elegans centrosome size and density by biasing SPD-5 toward an assembly-competent conformation

Oliver Wueseke;David Zwicker;Anne Schwager;Yao Liang Wong;Karen Oegema;Frank Julicher;Anthony A Hyman;Jeffrey Woodruff;

10.1101/067223 — Cell Biology — Posted on 2016-08-01

485 Literature mining supports a next-generation modeling approach to predict cellular byproduct secretion

Zachary Andrew King;Edward J O'Brien;Adam M Feist;Bernhard O Palsson;

10.1101/066944 — Systems Biology — Posted on 2016-08-01

486 A global view of meiotic double-strand break end resection

Eleni P. Mimitou;Shintaro Yamada;Scott Keeney;

10.1101/067199 — Molecular Biology — Posted on 2016-08-01

487 Stochastic Assembly Produces Heterogeneous Communities in the C. elegans Intestine

Nicole Vega;Jeff Gore;

10.1101/067173 — Microbiology — Posted on 2016-08-01

488 Small molecules with antibiofilm, antivirulence and antibiotic synergy activities against Pseudomonas aeruginosa.

Erik van Tilburg Bernardes;Laetitia Charron-Mazenod;David Reading;Shauna L Reckseidler-Zenteno;Shawn Lewenza;

10.1101/067074 — Microbiology — Posted on 2016-08-01

489 Improved genome assembly of American alligator genome reveals conserved architecture of estrogen signaling

Edward Stallknecht Rice;Satomi Kohno;John St. John;Son Pham;Jonathan Howard;Liana Lareau;Brendan O'Connell;Glenn Hickey;Joel Armstrong;Alden Deran;Ian Fiddes;Roy N. Platt;Cathy Gresham;Fiona McCarthy;Colin Kern;David Haan;Tan Phan;Carl Schmidt;Jeremy Sanford;David A. Ray;Benedict Paten;Louis J Guillette;Richard E Green;

10.1101/067165 — Genomics — Posted on 2016-08-01

490 Evolutionary thrift: mycobacteria repurpose plasmid diversity during adaptation of type VII secretion systems

Tatum D Mortimer;Alexandra M. Weber;Caitlin S. Pepperell;

10.1101/067207 — Evolutionary Biology — Posted on 2016-08-01

491 Population cycles and species diversity in dynamic Kill-the-Winner model of microbial ecosystems

sergei maslov;kim snepppen;

10.1101/067124 — Evolutionary Biology — Posted on 2016-08-01

492 PathScore: a web tool for identifying altered pathways in cancer data

Stephen G Gaffney;Jeffrey P. Townsend;

10.1101/067090 — Bioinformatics — Posted on 2016-08-01

493 Genome-wide biases in the rate and molecular spectrum of spontaneous mutations in Vibrio cholerae and Vibrio fischeri

Marcus M Dillon;Way Sung;Robert Sebra;Michael Lynch;Vaughn Cooper;

10.1101/066829 — Genetics — Posted on 2016-08-01

494 Accelerated selection of a viral RNA polymerase variant during gene copy number amplification promotes rapid evolution of vaccinia virus

Kelsey R. Cone;Zev N. Kronenberg;Mark Yandell;Nels C. Elde;

10.1101/066845 — Evolutionary Biology — Posted on 2016-08-01

495 The Preprocessed Connectomes Project Repository of Manually Corrected Skull-stripped T1-weighted Anatomical MRI Data.

Benjamin Puccio;James P Pooley;John S Pellman;Elise C Taverna;Richard Cameron Craddock;

10.1101/067017 — Neuroscience — Posted on 2016-08-04

496 Monitoring the circadian clock in human blood using personalized machine learning

Jacob J Hughey;

10.1101/066126 — Bioinformatics — Posted on 2016-08-03

497 Temporal Stability and Molecular Persistence of the Bone Marrow Plasma Cell Antibody Repertoire

Gabriel Wu;Nai-Kong Cheung;George Georgiou;Edward Marcotte;Gregory C Ippolito;

10.1101/066878 — Immunology — Posted on 2016-08-02

498 Bright photoactivatable fluorophores for single-molecule imaging

Luke D Lavis;Jonathan B Grimm;Brian P English;Anand K Muthusamy;Brian P Mehl;Peng Dong;Timothy A Brown;Zhe Liu;Timothée Lionnet;

10.1101/066779 — Cell Biology — Posted on 2016-08-04

499 A Dynamic Mode of Mitotic Bookmarking by Transcription Factors

Sheila S Teves;Luye An;Anders S Hansen;Liangqi Xie;Xavier Darzacq;Robert Tjian;

10.1101/066464 — Molecular Biology — Posted on 2016-08-01

500 Drosophila Mutants that Are Motile but Respond Poorly to All Stimuli Tested

Lar L Vang;Julius Adler;

10.1101/066423 — Animal Behavior and Cognition — Posted on 2016-08-31

501 Ephemeral protein binding to DNA shapes stable nuclear bodies and chromatin domains

Chris A Brackley;Benno Liebchen;Davide Michieletto;Francois Mouvet;Peter R Cook;Davide Marenduzzo;

10.1101/065664 — — Posted on 2016-08-26

502 The genome of the crustacean Parhyale hawaiensis: a model for animal development, regeneration, immunity and lignocellulose digestion

Damian Kao;Alvina G Lai;Evangelia Stamataki;Silvana Rosic;Nikolaos Konstantinides;Erin Jarvis;Alessia Di Donfrancesco;Natalia Pouchkina-Stantcheva;Marie Semon;Marco Grillo;Heather Bruce;Suyash Kumar;Igor Siwanowicz;Andy Le;Andrew Lemire;Michael Eisen;Cassandra Extavour;William Browne;Carsten Wolff;Michalis Averof;Nipam H Patel;Peter Sarkies;Anastasios Pavlopoulos;Aziz Aboobaker;

10.1101/065789 — Genomics — Posted on 2016-08-02

503 Perturbation-response genes reveal signaling footprints in cancer gene expression

Michael Schubert;Bertram Klinger;Martina Klünemann;Mathew J Garnett;Nils Blüthgen;Julio Saez-Rodriguez;

10.1101/065672 — Bioinformatics — Posted on 2016-08-28

504 Patterns of individual variation in visual pathway structure and function in the sighted and blind

Geoffrey Karl Aguirre;Ritobrato Datta;Noah Benson;Sashank Prasad;Samuel G Jacobson;Artur V Cideciyan;Holly Bridge;Kate Watkins;Omar H Butt;Alexsandra S Dain;Lauren Brandes;Efstathios Gennatas;

10.1101/065441 — Neuroscience — Posted on 2016-08-31

505 Neuroendocrine Modulation Sustains the C. elegans Forward Motor State

Maria A. Lim;Jyothsna Chitturi;Valeriya Laskova;Jun Meng;Daniel Findeis;Anne Wiekenberg;Ben Mulcahy;Linjiao Luo;Yan Li;Yangning Lu;Wesley Hung;Yixin Qu;Chi-Yip Ho;Douglas Holmyard;Ni Ji;Rebecca WcWhirter;Aravinthan D. T. Samuel;David Miller;Ralf Schnabel;John Calarco;Mei Zhen;

10.1101/065235 — Neuroscience — Posted on 2016-08-17

506 Understanding How Microbiomes Influence the Systems they Inhabit: Insight from Ecosystem Ecology

Ed Hall;Emily Bernhardt;Raven Bier;Mark Bradford;Claudia Boot;Jim Cotner;Paul del Giorgio;Sarah Evans;Emily Graham;Stuart Jones;Jay Lennon;Ken Locey;Diana Nemergut;Brooke Osborne;Jenny Rocca;Josh Schimel;Matt Wallenstein;

10.1101/065128 — Microbiology — Posted on 2016-08-30

507 Colocalization of GWAS and eQTL Signals Detects Target Genes

Farhad Hormozdiari;Martijn van de Bunt;Ayellet V. Segre;Xiao Li;Jong Wha J Joo;Michael Bilow;Jae Hoon Sul;Sriram Sankararaman;Bogdan Pasaniuc;Eleazar Eskin;

10.1101/065037 — Genetics — Posted on 2016-08-29

508 An aging-independent replicative lifespan in a symmetrically dividing eukaryote

Eric C. Spivey;Stephen K. Jones;James R. Rybarski;Fatema A. Saifuddin;Ilya J. Finkelstein;

10.1101/064832 — Cell Biology — Posted on 2016-08-01

509 Genome urbanization: Clusters of topologically co-regulated genes delineate functional compartments in the genome of S. cerevisiae

Maria Tsochatzidou;Maria Malliarou;Joaquim Roca;Christoforos Nikolaou;

10.1101/064667 — Genomics — Posted on 2016-08-12

510 Towards robust evolutionary inference with integral projection models

Maria Joao Janeiro;Marco Festa-Bianchet;Fanie Pelletier;David W Coltman;Michael B Morrissey;

10.1101/064618 — Evolutionary Biology — Posted on 2016-08-29

511 Genetic loci associated with coronary artery disease harbor evidence of selection and antagonistic pleiotropy

Sean G Byars;Qinqin Huang;Lesley-Ann Gray;Samuli Ripatti;Gad Abraham;Stephen C Stearns;Michael Inouye;

10.1101/064758 — Genomics — Posted on 2016-08-28

512 The population tracking model: A simple, scalable statistical model for neural population data

Cian O'Donnell;J Tiago Goncalves;Nick Whiteley;Carlos Portera-Cailliau;Terrence J Sejnowski;

10.1101/064717 — Neuroscience — Posted on 2016-08-23

513 Neuronal control of the fingertips is socially configured in touchscreen smartphone users

Arko Ghosh;Myriam Balerna;

10.1101/064485 — Neuroscience — Posted on 2016-08-22

514 Neuronal control of the fingertips is socially configured in touchscreen smartphone users

Arko Ghosh;Myriam Balerna;

10.1101/064485 — Neuroscience — Posted on 2016-08-04

515 Functional genetic characterization by CRISPR-Cas9 of two enhancers of FOXP2 in a child with speech and language impairment

Raul Torres-Ruiz;Antonio Benitez-Burraco;Marta Martinez-Lage;Sandra Rodriguez-Perales;Paloma Garcia-Bellido;

10.1101/064196 — Molecular Biology — Posted on 2016-08-02

516 Benzoate and Salicylate Tolerant Strains Lose Antibiotic Resistance during Laboratory Evolution of Escherichia coli K-12

Kaitlin E Creamer;Frederick S Ditmars;Preston J Basting;Karina S Kunka;Issam N Hamdallah;Sean P Bush;Zachary Scott;Amanda He;Stephanie R Penix;Alexandra S Gonzales;Elizabeth K Eder;Dominic Camperchioli;Adama Berndt;Michelle W Clark;Kerry A Rouhier;Joan L Slonczewski;

10.1101/063271 — Microbiology — Posted on 2016-08-26

517 Inbreeding parents should invest more resources in fewer offspring

Alexander Bradley Duthie;Aline M Lee;Jane M Reid;

10.1101/062794 — Evolutionary Biology — Posted on 2016-08-22

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

Ryan J Andres;Viktoriya Coneva;Margaret Frank;John R Tuttle;Sang-Won Han;Luis F Samayoa;Baljinder Kaur;Linglong Zhu;Hui Fang;Daryl T Bowman;Marcela Rojas-Pierce;Candace H Haigler;Don C Jones;James B Holland;Daniel H Chitwood;Vasu Kuraparthy;

10.1101/062612 — Plant Biology — Posted on 2016-08-10

519 A conceptual view at microtubule plus end dynamics in neuronal axons

André Voelzmann;Ines Hahn;Simon Pearce;Natalia P Sánchez-Soriano;Andreas Prokop;

10.1101/062711 — Neuroscience — Posted on 2016-08-15

520 A conceptual view at microtubule plus end dynamics in neuronal axons

André Voelzmann;Ines Hahn;Simon Pearce;Natalia P Sánchez-Soriano;Andreas Prokop;

10.1101/062711 — Neuroscience — Posted on 2016-08-12

521 Integrative networks illuminate biological factors underlying gene-disease associations

Arjun Krishnan;Jaclyn N Taroni;Casey S Greene;

10.1101/062695 — Bioinformatics — Posted on 2016-08-28

522 The evolution of DNA methylation and its relationship to sociality in insects

Adam J Bewick;Kevin J Vogel;Allen J Moore;Robert J Schmitz;

10.1101/062455 — Evolutionary Biology — Posted on 2016-08-22

523 Humans do not evidence choice biases in simple discrimination tasks

Daniel Linares;Joan Lopez-Moliner;

10.1101/062380 — Neuroscience — Posted on 2016-08-22

524 HINGE: Long-Read Assembly Achieves Optimal Repeat Resolution

Govinda M Kamath;Ilan Shomorony;Fei Xia;Thomas A Courtade;David N Tse;

10.1101/062117 — Bioinformatics — Posted on 2016-08-01

525 Ending AIDS: Progress and prospects for the control of HIV and TB in South Africa

Brian Gerard Williams;Somya Gupta;Matthew Wollmers;Reuben Granich;

10.1101/061929 — Epidemiology — Posted on 2016-08-25

526 Immunoecology of species with alternative reproductive tactics and strategies

George A Lozano;Albert F. H. Ros;

10.1101/062083 — Evolutionary Biology — Posted on 2016-08-24

527 Genetic Allee effects and their interaction with ecological Allee effects

Meike Wittmann;Hanna Stuis;Dirk Metzler;

10.1101/061549 — Ecology — Posted on 2016-08-11

528 The validity of pairwise models in predicting community dynamics

Babak Momeni;Li Xie;Wenying Shou;

10.1101/060988 — Ecology — Posted on 2016-08-27

529 Temperature-induced transcriptional responses of the deep-biosphere bacterium, Kosmotoga olearia, illuminate its adaptation to growth from 20 ° to 79°

Stephen M. J. Pollo;Abigail A. Adebusuy;Timothy J. Straub;Julia M. Foght;Olga Zhaxybayeva;Camilla L. Nesbo;

10.1101/060053 — Evolutionary Biology — Posted on 2016-08-13

530 Scanning the Horizon: challenges and solutions for neuroimaging research

Russell Poldrack;Chris I Baker;Joke Durnez;Krzysztof Gorgolewski;Paul M Matthews;Marcus Munafo;Thomas Nichols;Jean-Baptiste Poline;Edward Vul;Tal Yarkoni;

10.1101/059188 — Scientific Communication and Education — Posted on 2016-08-01

531 Analyzing climate variations on multiple timescales can guide Zika virus response measures

Angel G Munoz;Madeleine C Thomson;Lisa Goddard;Sylvain Aldighieri;

10.1101/059808 — Epidemiology — Posted on 2016-08-10

532 Analysis of recent and ancestral recombination reveals high-resolution population structure in Streptococcus pneumoniae

Rafal Mostowy;Nicholas J. Croucher;Cheryl P. Andam;Jukka Corander;William P. Hanage;Pekka Marttinen;

10.1101/059642 — Bioinformatics — Posted on 2016-08-01

533 Botrytis cinerea loss and restoration of virulence during in vitro culture follows flux in global DNA methylation

Jimmy Breen;Luis Mur;Anushen Sivakumaran;Aderemi Akinyemi;Mike Wilkinson;Carlos Marcelino Rodriguez Lopez;

10.1101/059477 — Genomics — Posted on 2016-08-26

534 Botrytis cinerea loss and restoration of virulence during in vitro culture follows flux in global DNA methylation

Jimmy Breen;Luis Mur;Anushen Sivakumaran;Aderemi Akinyemi;Mike Wilkinson;Carlos Marcelino Rodriguez Lopez;

10.1101/059477 — Genomics — Posted on 2016-08-04

535 microRNA-mRNA interaction identification in Wilms tumor using principalcomponent analysis based unsupervised feature extraction

Y-h. Taguchi;

10.1101/059295 — Bioinformatics — Posted on 2016-08-30

536 Modelling the effects of bacterial cell state and spatial location on tuberculosis treatment: Insights from a hybrid multiscale cellular automaton model

Ruth Bowness;Mark A. J. Chaplain;Gibin G. Powathill;Stephen H. Gillespie;

10.1101/059113 — Microbiology — Posted on 2016-08-17

537 Modelling the effects of bacterial cell state and spatial location on tuberculosis treatment: Insights from a hybrid multiscale cellular automaton model

Ruth Bowness;Mark A. J. Chaplain;Gibin G. Powathill;Stephen H. Gillespie;

10.1101/059113 — Microbiology — Posted on 2016-08-11

538 Clustered brachiopod Hox genes are not expressed collinearly and are associated with lophotrochozoan novelties

Sabrina M. Schiemann;Jose M. M. Martin-Duran;Aina Borve;Bruno C. Vellutini;Yale J. Passamaneck;Andreas Hejnol;

10.1101/058669 — Evolutionary Biology — Posted on 2016-08-18

539 Towards an integration of deep learning and neuroscience

Adam Henry Marblestone;Greg Wayne;Konrad P Kording;

10.1101/058545 — Neuroscience — Posted on 2016-08-22

540 Familiarity Facilitates Feature-based Face Processing

Matteo Visconti di Oleggio Castello;Kelsey G. Wheeler;Carlo Cipolli;Maria Ida Gobbini;

10.1101/058537 — Neuroscience — Posted on 2016-08-10

541 Human germline mutation and the erratic evolutionary clock

Priya Moorjani;Ziyue Gao;Molly Przeworski;

10.1101/058024 — Evolutionary Biology — Posted on 2016-08-05

542 Dynamics Affecting the Risk of Silent Circulation When Oral Polio Vaccination Is Stopped

James S Koopman;Christopher J Henry;Joonha Park;Joseph Eisenberg;Marisa Eisenberg;Edward L Ionides;

10.1101/058099 — Epidemiology — Posted on 2016-08-04

543 Synergistic elimination of bacteria by phage and the immune system

Chung Yin (Joey) Leung;Joshua S. Weitz;

10.1101/057927 — Microbiology — Posted on 2016-08-16

544 tHapMix: simulating tumour samples through haplotype mixtures

Sergii Ivakhno;Camilla Colombo;Stephen Tanner;Philip Tedder;Stefano Berri;Anthony J. Cox;

10.1101/057414 — Bioinformatics — Posted on 2016-08-11

545 Stem Cell Plasticity and Niche Dynamics in Cancer Progression

Noemi Picco;Robert Gatenby;Alexander Anderson;

10.1101/056762 — Cancer Biology — Posted on 2016-08-18

546 Maternal Genetic Ancestry and Legacy of 10th Century AD Hungarians

Aranka Csösz;Anna Szecsenyi-Nagy;Veronika Csakyova;Peter Lango;Viktoria Bodis;Kitti Köhler;Gyongyver Tomory;Melinda Nagy;Balazs Gusztav Mende;

10.1101/056655 — Genetics — Posted on 2016-08-08

547 Reproducible Computational Workflows with Continuous Analysis

Brett K Beaulieu-Jones;Casey S Greene;

10.1101/056473 — Bioinformatics — Posted on 2016-08-11

548 A reference dataset of 5.4 million phased human variants validated by genetic inheritance from sequencing a three-generation 17-member pedigree

Michael A Eberle;Epameinondas Fritzilas;Peter Krusche;Morten Kallberg;Benjamin L Moore;Mitchell A Bekritsky;Zamin Iqbal;Han-Yu Chuang;Sean J Humphray;Aaron L Halpern;Semyon Kruglyak;Elliott H Margulies;Gil McVean;David R Bentley;

10.1101/055541 — Bioinformatics — Posted on 2016-08-02

549 Identifying outlier loci in admixed and in continuous populations using ancestral population differentiation statistics

Helena Martins;Kevin Caye;Keurcien Luu;Michael GB Blum;Olivier Francois;

10.1101/054585 — Evolutionary Biology — Posted on 2016-08-18

550 MDM2 case study: Computational protocol utilizing protein flexibility and data mining improves ligand binding mode predictions

Anthony T Ascone;Ridwan Sakidja;

10.1101/054239 — Cancer Biology — Posted on 2016-08-08

551 WEVOTE: Weighted Voting Taxonomic Identification Method of Microbial Sequences

Ahmed A. Metwally;Yang Dai;Patricia Finn;David Perkins;

10.1101/054205 — Bioinformatics — Posted on 2016-08-11

552 A feedback loop able to enlarge the brain for 2.4 myr without Darwin’s selective survival

William H. Calvin;

10.1101/053827 — Neuroscience — Posted on 2016-08-27

553 Stochastic simulation tools and continuum models for describing two-dimensional collective cell spreading with universal growth functions

Wang Jin;Catherine Penington;Scott McCue;Matthew Simpson;

10.1101/052969 — Biophysics — Posted on 2016-08-22

554 Higher classification sensitivity of short metagenomic reads with CLARK-S

Rachid Ounit;Stefano Lonardi;

10.1101/053462 — Bioinformatics — Posted on 2016-08-13

555 Seed size and its rate of evolution correlate with species diversification across angiosperms

Javier Igea;Eleanor F Miller;Alexander ST Papadopulos;Andrew J Tanentzap;

10.1101/053116 — Evolutionary Biology — Posted on 2016-08-01

556 A novel independence test for somatic alterations in cancer shows that biology drives mutual exclusivity but chance explains co-occurrence

Sander Canisius;John Martens;Lodewyk Wessels;

10.1101/052803 — Bioinformatics — Posted on 2016-08-03

557 Entropy and codon bias in HIV-1

Aakash Pandey;

10.1101/052274 — Bioinformatics — Posted on 2016-08-27

558 Odd-paired controls frequency doubling in Drosophila segmentation by altering the pair-rule gene regulatory network

Erik Clark;Michael Akam;

10.1101/052241 — Developmental Biology — Posted on 2016-08-07

559 Tumor evolution of glioma intrinsic gene expression subtype associates with immunological changes in the microenvironment

Qianghu Wang;Xin Hu;Baoli Hu;Florian Muller;Hoon Kim;Massimo Squatrito;Tom Mikkelsen;Lisa Scarpace;Floris Barthel;Yu-Hsi Lin;Nikunj Satani;Emmanuel Martinez-Ledesma;Edward Chang;Adriana Olar;Guocan Wang;Ana C. deCarvalho;Eskil Eskilsson;Siyuan Zheng;Amy B. Heimberger;Erik P. Sulman;Do-Hyun Nam;Roel G.W. Verhaak;

10.1101/052076 — — Posted on 2016-08-13

560 Tumor evolution of glioma intrinsic gene expression subtype associates with immunological changes in the microenvironment

10.1101/052076 — — Posted on 2016-08-12

561 Use of multiple picosecond high-mass molecular dynamics simulations to predict crystallographic B-factors of folded globular proteins

Yuan-Ping Pang;

10.1101/052126 — Biophysics — Posted on 2016-08-30

562 Use of multiple picosecond high-mass molecular dynamics simulations to predict crystallographic B-factors of folded globular proteins

Yuan-Ping Pang;

10.1101/052126 — Biophysics — Posted on 2016-08-29

563 Meta-analysis reveals pathway signature of Septic Shock

Samanwoy Mukhopadhyay;Abhaydeep Pandey;Pravat Thatoi;Bidyut K Das;Balachandran Ravindran;Samsiddhi Bhattacharjee;Saroj Kant Mohapatra;

10.1101/051706 — Genomics — Posted on 2016-08-14

564 Large-scale analysis of post-translational modifications in E. coli under glucose-limiting conditions

Colin W. Brown;Viswanadham Sridhara;Daniel R. Boutz;Maria D. Person;Edward M. Marcotte;Jeffrey E. Barrick;Claus Wilke;

10.1101/051185 — Microbiology — Posted on 2016-08-31

565 Artefactual origin of biphasic cortical spike-LFP correlation

Michael Okun;

10.1101/051029 — Neuroscience — Posted on 2016-08-07

566 Increased taxon sampling reveals thousands of hidden orthologs in flatworms

Jose M Martin-Duran;Joseph F Ryan;Bruno Cossermelli Vellutini;Kevin Pang;Andreas Hejnol;

10.1101/050724 — Bioinformatics — Posted on 2016-08-30

567 A qualitative model of the rod photoreceptor in natural context

Timothee T Dubuc;Etienne B Roesch;

10.1101/050823 — Bioinformatics — Posted on 2016-08-05

568 A Model for Brain Life History Evolution

Mauricio Gonzalez-Forero;Timm Faulwasser;Laurent Lehmann;

10.1101/050534 — Evolutionary Biology — Posted on 2016-08-27

569 Activated Ras expression in eye discs with altered levels of hsrω lncRNA causes JNK-induced Dilp8 secretion and reduces post-pupal ecdysone leading to early pupal death in Drosophila

Mukulika Ray;Subhash C. Lakhotia;

10.1101/049882 — Developmental Biology — Posted on 2016-08-10

570 Inferring node dates from tip dates in fossil Canidae: the importance of tree priors

Nicholas Joseph Matzke;April Wright;

10.1101/049643 — Evolutionary Biology — Posted on 2016-08-02

571 Sanctions, partner recognition, and variation in mutualistic symbiosis

Jeremy B Yoder;Peter Tiffin;

10.1101/049593 — Evolutionary Biology — Posted on 2016-08-20

572 CD44 Controls Endothelial Proliferation and Functions as Endogenous Inhibitor of Angiogenesis

Anne Pink;Marianna Skolnaja;Taavi Paell;Andres Valkna;

10.1101/049494 — Cell Biology — Posted on 2016-08-19

573 Eukaryotic Association Module in Phage WO Genomes from Wolbachia

Sarah R Bordenstein;Seth R Bordenstein;

10.1101/049049 — Genomics — Posted on 2016-08-31

574 Metavisitor, a suite of Galaxy tools for simple and rapid detection and discovery of viruses in deep sequence data

Guillaume Carissimo;Marius van den Beek;Juliana Pegoraro;Kenneth D Vernick;Christophe Antoniewski;

10.1101/048983 — Bioinformatics — Posted on 2016-08-26

575 On the (un-)predictability of a large intragenic fitness landscape

Claudia Bank;Sebastian Matuszewski;Ryan T. Hietpas;Jeffrey D. Jensen;

10.1101/048769 — Evolutionary Biology — Posted on 2016-08-11

576 Wild-type U2AF1 antagonizes the splicing program characteristic of U2AF1-mutant tumors and is required for cell survival

Dennis Liang Fei;Hayley Motowski;Rakesh Chatrikhi;Sameer Prasad;Jovian Yu;Shaojian Gao;Clara Kielkopf;Robert K Bradley;Harold Varmus;

10.1101/048553 — Cancer Biology — Posted on 2016-08-24

577 AKT: Ancestry and Kinship Toolkit

Rudy Arthur;Ole Schulz-Trieglaff;Anthony J Cox;Jared Michael O'Connell;

10.1101/047829 — Bioinformatics — Posted on 2016-08-11

578 Effective Dynamic Models of Metabolic Networks

Michael Vilkhovoy;Mason Minot;Jeffrey Varner;

10.1101/047316 — Systems Biology — Posted on 2016-08-31

579 Effects of linked selective sweeps on demographic inference and model selection

Daniel R Schrider;Alexander G Shanku;Andrew D Kern;

10.1101/047019 — Evolutionary Biology — Posted on 2016-08-22

580 Bias in community-weighted mean analysis relating species attributes to sample attributes: justification and remedy

David Zeleny;

10.1101/046946 — Ecology — Posted on 2016-08-30

581 The CARD-CC/Bcl10/paracaspase signaling complex is functionally conserved since the last common ancestor of planulozoa.

Jens Staal;Yasmine Driege;Alice Borghi;Paco Hulpiau;Laurens Lievens;Ismail Gul;Srividhya Sundararaman;Amanda Goncalves;Ineke Dhondt;Bart Braeckman;Ulrich Technau;Yvan Saeys;Frans Van Roy;Rudi Beyaert;

10.1101/046789 — Evolutionary Biology — Posted on 2016-08-16

582 Modification of plant regeneration medium decreases the time for recovery of Solanum lycopersicum cultivar M82 stable transgenic lines

Sarika Gupta;Joyce Van Eck;

10.1101/046839 — Plant Biology — Posted on 2016-08-11

583 Repeated duplication of Argonaute2 is associated with strong selection and testis specialization in Drosophila

Samuel H Lewis;Claire L Webster;Heli Salmela;Darren J Obbard;

10.1101/046490 — Evolutionary Biology — Posted on 2016-08-08

584 Multi-Connection Pattern Analysis: Decoding the Representational Content of Neural Communication

Yuanning Li;Avniel Singh Ghuman;

10.1101/046441 — Neuroscience — Posted on 2016-08-22

585 Predictive computational phenotyping and biomarker discovery using reference-free genome comparisons

Alexandre Drouin;Sébastien Giguère;Maxime Déraspe;Mario Marchand;Michael Tyers;Vivian G Loo;Anne-Marie Bourgault;François Laviolette;Jacques Corbeil;

10.1101/045153 — Bioinformatics — Posted on 2016-08-31

586 A Multidisciplinary Approach to Explain Biological Aging and Longevity

Brett N Augsburger;

10.1101/045633 — Evolutionary Biology — Posted on 2016-08-26

587 Signatures of archaic adaptive introgression in present-day human populations

Fernando Racimo;Davide Marnetto;Emilia Huerta-Sanchez;

10.1101/045237 — Evolutionary Biology — Posted on 2016-08-23

588 A mathematical model of non-photochemical quenching to study short-term light memory in plants

Anna Barbara Matuszyńska;Somayyeh Heidari;Peter Jahns;Oliver Ebenhoeh;

10.1101/044628 — Plant Biology — Posted on 2016-08-02

589 Connecting the sequence-space of bacterial signaling proteins to phenotypes using coevolutionary landscapes

Ryan R. Cheng;Olle Nordesjö;Ryan L. Hayes;Herbert Levine;Samuel C. Flores;José N. Onuchic;Faruck Morcos;

10.1101/044586 — Biophysics — Posted on 2016-08-31

590 Estimating dispersal kernels using genetic parentage data

Michael Bode;David Williamson;Hugo Harrison;Nick Outram;Geoffrey P Jones;

10.1101/044305 — Ecology — Posted on 2016-08-31

591 Divergence of gene regulatory network linkages during specification of ectoderm and mesoderm in early development of sea urchins

Eric M Erkenbrack;Eric H Davidson;

10.1101/044149 — Developmental Biology — Posted on 2016-08-02

592 Quantifying Differences and Similarities in Whole-brain White Matter Architecture Using Local Connectome Fingerprints

Fang-Cheng Yeh;Jean Vettel;Aarti Singh;Barnabas Poczos;Scott Grafton;Kirk Erickson;Wen-Yih Isaac Tseng;Timothy Verstynen;

10.1101/043778 — Neuroscience — Posted on 2016-08-31

593 Topologically associated domains are ancient features that coincide with Metazoan clusters of extreme noncoding conservation

Nathan Harmston;Elizabeth Ing-Simmons;Ge Tan;Malcolm Perry;Matthias Merkenschlager;Boris Lenhard;

10.1101/042952 — Genomics — Posted on 2016-08-28

594 Complex ancient genetic structure and cultural transitions in southern African populations.

Francesco Montinaro;George Busby;Miguel Gonzalez-Santos;Ockie Oosthuitzen;Erika Oosthutizen;Paolo Anagnostou;Giovanni Destro-Bisol;Vincenzo Pascali;Cristian Capelli;

10.1101/043562 — Genomics — Posted on 2016-08-02

595 Computational Pan-Genomics: Status, Promises and Challenges

Tobias Marschall;Manja Marz;Thomas Abeel;Louis Dijkstra;Bas E Dutilh;Ali Ghaffaari;Paul Kersey;Wigard Kloosterman;Veli Makinen;Adam Novak;Benedict Paten;David Porubsky;Eric RIVALS;Can Alkan;Jasmijn Baaijens;Paul I. W. de Bakker;Valentina Boeva;Raoul J.P. Bonnal;Francesca Chiaromonte;Rayan Chikhi;Francesca D. Ciccarelli;Robin Cijvat;Erwin Datema;Cornelia M. Van Duijn;Evan E. Eichler;Corinna Ernst;Eleazar Eskin;Erik Garrison;Mohammed El-Kebir;Gunnar W. Klau;Jan O Korbel;Eric-Wubbo Lameijer;Ben Langmead;Marcel Martin;Paul Medvedev;John C. Mu;Pieter Neerincx;Klaasjan Ouwens;Pierre Peterlongo;Pisan

10.1101/043430 — Genomics — Posted on 2016-08-25

596 A new advanced backcross tomato population enables high resolution leaf QTL mapping and gene identification

Daniel Fulop;Aashish Ranjan;Itai Ofner;Michael F. Covington;Daniel H. Chitwood;Donnelly West;Yasunori Ichihashi;Lauren Headland;Daniel Zamir;Julin N. Maloof;Neelima R. Sinha;