bioRxiv directory

Zachary A Knecht;Ana F Silbering;Lina Ni;Mason Klein;Gonzalo Budelli;Rati Bell;Liliane Abuin;Anggie J Ferrer;Aravinthan D.T. Samuel;Richard Benton;Paul Allen Garrity;

10.1101/056267 — Neuroscience — Posted on 2016-05-31

14 Dopaminergic neurons modulate locomotion in Caenorhabditis elegans

Mohamed Abdelhack;

10.1101/056192 — Neuroscience — Posted on 2016-05-31

15 Large-scale trans-eQTLs affect hundreds of transcripts and mediate patterns of transcriptional co-regulation

Boel Brynedal;JinMyung Choi;Towfique Raj;Robert Bjornson;Barbara Stranger;Benjamin Neale;Benjamin Voight;Chris Cotsapas;

10.1101/056283 — Genetics — Posted on 2016-05-31

16 The Effects of Migration and Assortative Mating on Admixture Linkage Disequilibrium

Noah Zaitlen;Scott Huntsman;Donglei Hu;Melissa Spear;Celeste Eng;Sam S Oh;Marquitta J White;Angel Mak;Adam Davis;Kelly Meade;Emerita Brigino-Buenaventura;Michael A LeNoir;Kirsten Bibbins-Domingo;Esteban G Burchard;Eran Halperin;

10.1101/056168 — Genetics — Posted on 2016-05-31

17 Why are there so many independent origins of artemisinin resistance in malaria parasites?

Tim Anderson;Shalini Nair;Marina White;Ian Cheeseman;Standwell Nkhoma;Fatma Bilgic;Rose McGready;Elizabeth Ashley;Aung Pyae Phyo;Nicholas White;Francois Nosten;

10.1101/056291 — Evolutionary Biology — Posted on 2016-05-31

18 The Lair: A resource for exploratory analysis of published RNA-Seq data

Harold Pimentel;Pascal Sturmfels;Nicolas Bray;Pall Melsted;Lior Pachter;

10.1101/056200 — Bioinformatics — Posted on 2016-05-31

19 Kin Recognition in a Clonal Fish, Poecilia formosa

Amber Makowicz;Ralf Tiedemann;Rachel N Steele;Ingo Schlupp;

10.1101/055848 — Animal Behavior and Cognition — Posted on 2016-05-31

20 Accounting for Uncertainty in Gene Tree Estimation: Summary-Coalescent Species Tree Inference in a Challenging Radiation of Australian Lizards

Mozes P.K. Blom;Jason G. Bragg;Sally Potter;Craig Moritz;

10.1101/056085 — Evolutionary Biology — Posted on 2016-05-30

21 JuPOETs: A Constrained Multiobjective Optimization Approach to Estimate Biochemical Model Ensembles in the Julia Programming Language

David Bassen;Michael Vilkhovoy;Mason Minot;Jonathan T Butcher;Jeffrey D Varner;

10.1101/056044 — Systems Biology — Posted on 2016-05-30

22 Detailed dendritic excitatory/inhibitory balance through heterosynaptic spike-timing-dependent plasticity

Naoki Hiratani;Tomoki Fukai;

10.1101/056093 — Neuroscience — Posted on 2016-05-30

23 fMRI evidence of equivalent neural suppression by repetition and prior knowledge

Jordan Poppenk;Anthony R McIntosh;Morris Moscovitch;

10.1101/056069 — Neuroscience — Posted on 2016-05-30

24 Motor control by precisely timed spike patterns

Kyle H. Srivastava;Caroline M. Holmes;Michiel Vellema;Andrea Pack;Coen P. H. Elemans;Ilya Nemenman;Samuel J. Sober;

10.1101/056010 — Neuroscience — Posted on 2016-05-31

25 Motor control by precisely timed spike patterns

Kyle H. Srivastava;Caroline M. Holmes;Michiel Vellema;Andrea Pack;Coen P. H. Elemans;Ilya Nemenman;Samuel J. Sober;

10.1101/056010 — Neuroscience — Posted on 2016-05-30

26 Pan-cancer immunogenomic analyses reveal genotype-immunophenotype relationships and predictors of response to checkpoint blockade

Pornpimol Charoentong;Francesca Finotello;Mihaela Angelova;Clemens Mayer;Mirjana Efremova;Dietmar Rieder;Hubert Hackl;Zlatko Trajanoski;

10.1101/056101 — Genomics — Posted on 2016-05-31

27 Pan-cancer immunogenomic analyses reveal genotype-immunophenotype relationships and predictors of response to checkpoint blockade

Pornpimol Charoentong;Francesca Finotello;Mihaela Angelova;Clemens Mayer;Mirjana Efremova;Dietmar Rieder;Hubert Hackl;Zlatko Trajanoski;

10.1101/056101 — Genomics — Posted on 2016-05-30

28 Information use shapes range expansion dynamics into environmental gradients

Emanuel A. Fronhofer;Nicolai Nitsche;Florian Altermatt;

10.1101/056002 — Evolutionary Biology — Posted on 2016-05-30

29 Modeling Joint Abundance of Multiple Species Using Dirichlet Process Random Effects

Devin Johnson;Elizabeth Sinclair;

10.1101/056150 — Ecology — Posted on 2016-05-30

30 pcadapt: an R package to perform genome scans for selection based on principal component analysis

Keurcien Luu;Eric Bazin;Michael G.B. Blum;

10.1101/056135 — Ecology — Posted on 2016-05-30

31 Measurement uncertainty matters: ecological management using POMDPs

Milad Memarzadeh;Carl Boettiger;

10.1101/055319 — Ecology — Posted on 2016-05-30

32 Enhancing synergy of CAR T cell therapy and oncolytic virus therapy for pancreatic cancer.

Rachel Walker;Pedro E Navas;Samuel H Friedman;Simona Galliani;Aleksandra Karolak;Fiona MacFarlane;Robert Noble;Jan Poleszczuk;Shonagh Russell;Katarzyna A Rejniak;Amir Shahmoradi;Frederik Ziebell;Jason Brayer;Daniel Abate-Daga;Heiko Enderling;

10.1101/055988 — Cancer Biology — Posted on 2016-05-30

33 Rapid Dynamics of Cell-Shape Recovery in Response to Local Deformations

Kristina Haase;Tyler N Shendruk;Andrew E Pelling;

10.1101/056143 — Biophysics — Posted on 2016-05-30

34 GutCyc: a Multi-Study Collection of Human Gut Microbiome Metabolic Models

Aria S. Hahn;Tomer Altman;Kishori M. Konwar;Niels W. Hanson;Dongjae Kim;David A. Relman;David L. Dill;Steven J. Hallam;

10.1101/055574 — Bioinformatics — Posted on 2016-05-30

35 Quantitative cross-linking/mass spectrometry using isotope-labeled cross-linkers and MaxQuant

Zhuo Angel Chen;Lutz Fischer;Juergen Cox;Juri Rappsilber;

10.1101/055970 — Biochemistry — Posted on 2016-05-30

36 Ancient DNA reveals differences in behaviour and sociality between brown bears and extinct cave bears.

Gloria G Fortes;Aurora Grandal DAnglade;Ben Kolbe;Daniel Fernandes;Ioanna Meleg;Ana Garcia Vazquez;Ana Pinto Llona;Silviu Constantin;Trino J de Torres;Jose E Ortiz;Christine Frischauf;Gernot Rabeder;Michael Hofreiter;Axel Barlow;

10.1101/056119 — Animal Behavior and Cognition — Posted on 2016-05-30

37 A large field of view two-photon mesoscope with subcellular resolution for in vivo imaging

Nicholas James Sofroniew;Daniel Flickinger;Jonathan King;Karel Svoboda;

10.1101/055947 — Neuroscience — Posted on 2016-05-30

38 Specificity Principles in RNA-Guided Targeting

Namita Bisaria;Inga Jarmoskaite;Daniel Herschlag;

10.1101/055954 — Biochemistry — Posted on 2016-05-28

39 Tribe: The collaborative platform for reproducible web-based analysis of gene sets

Rene A Zelaya;Aaron K Wong;Alex T Frase;Marylyn D Ritchie;Casey S Greene;

10.1101/055913 — Bioinformatics — Posted on 2016-05-27

40 Transcription factors GAF and HSF act at distinct regulatory steps to modulate stress-induced gene activation

Fabiana M Duarte;Nicholas J Fuda;Dig B Mahat;Leighton J Core;Michael Guertin;John T Lis;

10.1101/055921 — Genomics — Posted on 2016-05-27

41 The coevolutionary romance of social learning and parasitic behavior

Richard McElreath;

10.1101/055889 — Evolutionary Biology — Posted on 2016-05-30

42 The coevolutionary romance of social learning and parasitic behavior

Richard McElreath;

10.1101/055889 — Evolutionary Biology — Posted on 2016-05-27

43 Improved insights into protein thermal stability: from the molecular to the structurome scale

Fabrizio Pucci;Marianne Rooman;

10.1101/055897 — Bioinformatics — Posted on 2016-05-27

44 Composite Brownian Walks Best Describe Livestock Mobility Patterns across Species

Takuto Sakamoto;Lloyd Sanders;Nobu Inazumi;

10.1101/055905 — Animal Behavior and Cognition — Posted on 2016-05-27

45 Rapidly evolving homing CRISPR barcodes

Reza Kalhor;Prashant Mali;George M Church;

10.1101/055863 — Synthetic Biology — Posted on 2016-05-27

46 Biogeographic Ancestry and Socioeconomic Outcomes in the Americas: a Meta-analysis

Emil O. W. Kirkegaard;Mingrui Wang;John Fuerst;

10.1101/055681 — Scientific Communication and Education — Posted on 2016-05-27

47 Rapid emergence of HCMV drug resistance in immunocompromised paediatric patients detected using target enrichment and deep sequencing

Charlotte Houldcroft;Josephine M Bryant;Daniel P Depledge;Ben K Margetts;Jacob Simmonds;Stephanos Nicolaou;Helena Tutill;Rachel Williams;Austen Worth;Stephen D Marks;Paul Veys;Elizabeth Whittaker;Judith Breuer;

10.1101/055814 — Microbiology — Posted on 2016-05-27

48 Controlling bias and inflation in epigenome- and transcriptome-wide association studies using the empirical null distribution

Maarten M. van Iterson;Erik W. van Zwet;The Bios Consortium;P. Eline Slagboom;Bastiaan T. Heijmans;

10.1101/055772 — Genomics — Posted on 2016-05-27

49 Principles for RNA metabolism and alternative transcription initiation within closely spaced promoters

Yun Chen;Athma A Pai;Jan Herudek;Michal Lubas;Nicola Meola;Aino I Jarvelin;Robin Andersson;Vicent Pelechano;Lars M Steinmetz;Torben Heick Jensen;Albin Sandelin;

10.1101/055731 — Genomics — Posted on 2016-05-27

50 Population structure of UK Biobank and ancient Eurasians reveals adaptation at genes influencing blood pressure

Kevin Galinsky;Po-Ru Loh;Swapan Mallick;Nick J Patterson;Alkes L Price;

10.1101/055855 — Genetics — Posted on 2016-05-27

51 Convergent evolution of genes controlling mitonuclear balance in annual fishes

Arne Sahm;Martin Bens;Matthias Platzer;Alessandro Cellerino;

10.1101/055780 — Evolutionary Biology — Posted on 2016-05-27

52 PIPI: PTM-Invariant Peptide Identification Using Coding Method

Fengchao Yu;Ning Li;Weichuan Yu;

10.1101/055806 — Bioinformatics — Posted on 2016-05-27

53 Accurate prediction of single-cell DNA methylation states using deep learning

Christof Angermueller;Heather Lee;Wolf Reik;Oliver Stegle;

10.1101/055715 — Bioinformatics — Posted on 2016-05-27

54 Signatures of personality on dense 3D facial images

Sile Hu;Jieyi Xiong;Pengcheng Fu;Lu Qiao;Jingze Tan;Li Jin;Kun Tang;

10.1101/055590 — Bioinformatics — Posted on 2016-05-30

55 Signatures of personality on dense 3D facial images

Sile Hu;Jieyi Xiong;Pengcheng Fu;Lu Qiao;Jingze Tan;Li Jin;Kun Tang;

10.1101/055590 — Bioinformatics — Posted on 2016-05-27

56 IPC - Isoelectric Point Calculator

Lukasz P Kozlowski;

10.1101/049841 — Bioinformatics — Posted on 2016-05-27

57 Adapting genotyping-by-sequencing for rice F2 populations.

Tomoyuki Furuta;Motoyuki Ashikari;Kshirod K Jena;Kazuyuki Doi;Stefan Reuscher;

10.1101/055798 — Plant Biology — Posted on 2016-05-27

58 α4-containing GABAA receptors on dopamine D2 receptor-expressing neurons mediate instrumental responding for conditioned reinforcers, and its potentiation by cocaine

Tom Macpherson;Claire I Dixon;Patricia H Janak;Delia Belelli;Jeremy J Lambert;David N Stephens;Sarah King;

10.1101/055822 — Neuroscience — Posted on 2016-05-27

59 Analysis of behavioral variables across domains and strains in zebrafish: Role of brain monoamines

Monica G Lima;Anderson M Herculano;Caio Maximino;

10.1101/055657 — Neuroscience — Posted on 2016-05-27

60 Genomic dimensions of Su(H)-targeted regulatory belts in Drosophila

Elizabeth Stroebele;Timothy Fuqua;Madelyn Warren;Danielle Herrig;Christian Noblett;Xin Yuan;Albert Erives;

10.1101/055707 — Developmental Biology — Posted on 2016-05-27

61 Aequatus: An open-source homology browser

Anil S. Thanki;Sarah Ayling;Javier Herrero;Robert P. Davey;

10.1101/055632 — Bioinformatics — Posted on 2016-05-27

62 Report of Partial findings from the National Toxicology Program Carcinogenesis Studies of Cell Phone Radiofrequency Radiation in Hsd: Sprague Dawley® SD rats (Whole Body Exposure)

Michael Wyde;Mark Cesta;Chad Blystone;Susan Elmore;Paul Foster;Michelle Hooth;Grace Kissling;David Malarkey;Robert Sills;Matthew Stout;Nigel Walker;Kristine Witt;Mary Wolfe;John Bucher;

10.1101/055699 — Cancer Biology — Posted on 2016-05-26

63 Sexual transmission causes a marked increase in the incidence of Zika in women in Rio de Janeiro, Brazil.

Flávio Codeço Coelho;Betina Durovni;Valeria Saraceni;Cristina Lemos;Claudia Torres Codeço;Sabrina Camargo;Luiz Max Carvalho;Leonardo Bastos;Denise Arduini;Daniel Villela;Margaret Armstrong;

10.1101/055459 — Epidemiology — Posted on 2016-05-26

64 Could a neuroscientist understand a microprocessor?

Eric Jonas;Konrad Kording;

10.1101/055624 — Neuroscience — Posted on 2016-05-26

65 Virtual cortical resection reveals push-pull network control mechanism preceding seizure evolution

Ankit N Khambhati;Kathryn A Davis;Timothy H Lucas;Brian Litt;Danielle S Bassett;

10.1101/055566 — Neuroscience — Posted on 2016-05-26

66 Knowledge.Bio: A Web application for exploring, building and sharing webs of biomedical relationships mined from PubMed

Richard Bruskiewich;Kenneth Huellas-Bruskiewicz;Farzin Ahmed;Rajaram Kaliyaperumal;Mark Thompson;Erik Schultes;Kristina M Hettne;Andrew I Su;Benjamin M Good;

10.1101/055525 — Bioinformatics — Posted on 2016-05-26

67 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 2016-05-26

68 The Social Networks of Neural Progenitor Cells

Arun S Mahadevan;Jacob T Robinson;Amina Ann Qutub;

10.1101/055533 — Systems Biology — Posted on 2016-05-26

69 Modelling the decay of hotspot motifs in broadly neutralizing antibody lineages

Kenneth Hoehn;Gerton Lunter;Oliver Pybus;

10.1101/055517 — Evolutionary Biology — Posted on 2016-05-26

70 Bringing Elton and Grinnell together: a quantitative framework to represent the biogeography of ecological interaction networks

Dominique Gravel;Benjamin Baiser;Jennifer A Dune;Jens-Peter Kopelke;Neo D Martinez;Tommi Nyman;Timothee Poisot;Daniel B Stouffer;Jason M Tylianakis;Spencer A Wood;Tomas Roslin;

10.1101/055558 — Ecology — Posted on 2016-05-26

71 Bringing Elton and Grinnell together: a quantitative framework to represent the biogeography of ecological interaction networks

Dominique Gravel;Benjamin Baiser;Jennifer A Dune;Jens-Peter Kopelke;Neo D Martinez;Tommi Nyman;Timothee Poisot;Daniel B Stouffer;Jason M Tylianakis;Spencer A Wood;Tomas Roslin;

10.1101/055558 — Ecology — Posted on 2016-05-26

72 Zika in Rio de Janeiro: Assessment of basic reproduction number and comparison with dengue outbreaks

Leonardo Bastos;Daniel A. M. Villela;Luiz Max Carvalho;Oswaldo G. Cruz;Marcelo F. C. Gomes;Betina Durovni;Maria Cristina Lemos;Valeria Saraceni;Flavio C. Coelho;Claudia T. Codeco;

10.1101/055475 — Scientific Communication and Education — Posted on 2016-05-25

73 Inferring time-derivatives, including cell growth rates, using Gaussian processes

Peter Swain;Keiran Stevenson;Allen Leary;Luis F Montano-Gutierrez;Ivan BN Clark;Jackie Vogel;Teuta Pilizota;

10.1101/055483 — Microbiology — Posted on 2016-05-25

74 Adaptation of mammalian myosin II sequences to body mass

Mark N Wass;Sarah T Jeanfavre;Michael Coghlan;Martin S Ridout;Anthony J Baines;Michael A Geeves;

10.1101/055434 — Evolutionary Biology — Posted on 2016-05-25

75 Accounting for tumor heterogeneity using a sample-specific error model improves sensitivity and specificity in mutation calling for sequencing data

Yu Fan;Liu Xi;Daniel S. T. Hughes;Jianjun Zhang;Jianhua Zhang;P. Andrew Futreal;David A. Wheeler;Wenyi Wang;

10.1101/055467 — Bioinformatics — Posted on 2016-05-25

76 Common genetic variation drives molecular heterogeneity in human iPSCs

Helena Kilpinen;Angela Goncalves;Andreas Leha;Vackar Afzal;Sofie Ashford;Sendu Bala;Dalila Bensaddek;Francesco Paolo Casale;Oliver Culley;Petr Danacek;Adam Faulconbridge;Peter Harrison;Davis McCarthy;Shane A McCarthy;Ruta Meleckyte;Yasin Memari;Nathalie Moens;Filipa Soares;Ian Streeter;Chukwuma A Agu;Alex Alderton;Rachel Nelson;Sarah Harper;Minal Patel;Laura Clarke;Reena Halai;Christopher M Kirton;Anja Kolb-Kokocinski;Philip Beales;Ewan Birney;Davide Danovi;Angus I Lamond;Willem H Ouwehand;Ludovic Vallier;Fiona M Watt;Richard Durbin;Oliver Stegle;Daniel J Gaffney;

10.1101/055160 — Genomics — Posted on 2016-05-25

77 Specialization of a polyphenism switch gene following serial duplications in Pristionchus nematodes

Erik J Ragsdale;Nicholas A Ivers;

10.1101/055384 — Evolutionary Biology — Posted on 2016-05-25

78 Late mitochondrial origin is pure artefact

William F Martin;Mayo Roettger;Chuan Ku;Sriram G. Garg;Shijulal Nelson-Sathi;Giddy Landan;

10.1101/055368 — Evolutionary Biology — Posted on 2016-05-25

79 The landscape of gene fusions in hepatocellular carcinoma

Chengpei Zhu;Yanling Lv;Liangcai Wu;Jinxia Guan;Xue Bai;Jianzhen Lin;Tingting Liu;Xinting Sang;Chenghai Xue;Haitao Zhao;

10.1101/055376 — Cancer Biology — Posted on 2016-05-25

80 A cross-package Bioconductor workflow for analysing methylation array data

Jovana Maksimovic;Belinda Phipson;Alicia Oshlack;

10.1101/055087 — Bioinformatics — Posted on 2016-05-25

81 Quantitative cross-linking/mass spectrometry reveals subtle protein conformational changes

Zhuo Angel Chen;Lutz Fischer;Salman Tahir;Jimi-Carlo Bukowski-Wills;Paul N. Barlow;Juri Rappsilber;

10.1101/055418 — Biochemistry — Posted on 2016-05-25

82 Transitive inference in humans and rhesus macaques after massed training of the last two list items

Greg Jensen;Yelda Alkan;Fabian Munoz;Vincent P Ferrera;Herbert S Terrace;

10.1101/055335 — Animal Behavior and Cognition — Posted on 2016-05-25

83 Achieving large dynamic range control of gene expression with a compact RNA transcription-translation regulator

Alexandra M Westbrook;Julius B Lucks;

10.1101/055327 — Synthetic Biology — Posted on 2016-05-24

84 Building a Web of Linked Data Resources to Advance Neuroscience Research

B Nolan Nichols;Satrajit S Ghosh;Tibor Auer;Thomas J Grabowskith;Camille Maumet;David Keator;Kilian Pohl;Jean-Baptiste Poline;

10.1101/053934 — Scientific Communication and Education — Posted on 2016-05-24

85 EXPERIMENTAL GRANULOMATOUS PULMONARY NOCARDIOSIS in BALB/c MICE

Roque M. Mifuji Lira;Alberto Yairh Limón Flores;Mario César Salinas Carmona;Alejandro Ortiz Stern;

10.1101/055293 — Immunology — Posted on 2016-05-24

86 Genetic Influences on Hormonal Markers of Chronic HPA Function in Human Hair

Elliot M Tucker-Drob;Andrew Grotzinger;Daniel A Briley;Laura E Engelhardt;Frank D Mann;Megan Patterson;Clemens Kirschbaum;Emma K Adam;Jessica A Church;Jennifer Tackett;K Paige Harden;

10.1101/055244 — Genetics — Posted on 2016-05-24

87 Eco-evolutionary dynamics of social dilemmas

Chaitanya S Gokhale;Christoph Hauert;

10.1101/055251 — Evolutionary Biology — Posted on 2016-05-24

88 A scalable strategy for high-throughput GFP tagging of endogenous human proteins

Manuel Leonetti;Sayaka Sekine;Daichi Kamiyama;Jonathan S Weissman;Bo Huang;

10.1101/055285 — Cell Biology — Posted on 2016-05-24

89 Activity flow over resting-state networks shapes cognitive task activations

Michael W Cole;Takuya Ito;Danielle S Bassett;Douglas H Schultz;

10.1101/055194 — Neuroscience — Posted on 2016-05-24

90 Dissection of Major Depressive Disorder using polygenic risk scores for Schizophrenia in two independent cohort.

Heather C Whalley;Mark J Adams;Lynsey Hall;Toni-Kim Clarke;Ana Maria Fernandez-Pujals;Jude Gibson;Ella Wigmore;Jonathan Hafferty;Saskia P Hagenaars;Gail Davies;Archie Campbell;Caroline Hayward;Stephen M Lawrie;David Porteous;Ian Deary;Andrew M McIntosh;

10.1101/054973 — Neuroscience — Posted on 2016-05-24

91 Genetic surfing in human populations: from genes to genomes

Stephan Peischl;Isabelle Dupanloup;Lars Bosshard;Laurent Excoffier;

10.1101/055145 — Genomics — Posted on 2016-05-24

92 REGULATORY ARCHITECTURE OF GENE EXPRESSION VARIATION IN THE THREESPINE STICKLEBACK, GASTEROSTEUS ACULEATUS.

Victoria L Pritchard;Heidi M. Viitaniemi;R.J. Scott McCairns;Juha Merila;Mikko Nikinmaa;Craig R Primmer;Erica H Leder;

10.1101/055061 — Genomics — Posted on 2016-05-24

93 Not just methods: User expertise explains the variability of outcomes of genome-wide studies

Kathleen E Lotterhos;Olivier Francois;Michael G.B. Blum;

10.1101/055046 — Ecology — Posted on 2016-05-24

94 A Key Cytoskeletal Regulator of Ubiquitination Amplifies TGFβ Signaling during Mouse Developmental Vascular Patterning

Ronak Shetty;Divyesh Joshi;Mamta Jain;Madavan Vasudevan;Jasper Chrysolite Paul;Ganesh Bhat;Poulomi Banerjee;Takaya Abe;Hiroshi Kiyonari;K Vijayraghavan;Maneesha S Inamdar;

10.1101/055129 — Developmental Biology — Posted on 2016-05-24

95 Talin-KANK1 interaction controls the recruitment of cortical microtubule stabilizing complexes to focal adhesions.

Benjamin P. Bouchet;Rosemarie E. Gough;Dieudonnee van de Willige;York-Christoph Ammon;Harm Post;Guillaume Jacquemet;A.F. Maarten Altelaar;Albert J.R. Heck;Benjamin T. Goult;Anna Akhmanova;

10.1101/055210 — Cell Biology — Posted on 2016-05-24

96 Stochastic models of gene transcription with upstream drives: exact solution and sample path characterization

Justine Dattani;Mauricio Barahona;

10.1101/055202 — Biophysics — Posted on 2016-05-24

97 Decoding the contents of working memory tracks strategy and performance in prospective remembering

Jarrod A Lewis-Peacock;Jonathan D Cohen;Kenneth A Norman;

10.1101/055004 — Neuroscience — Posted on 2016-05-24

98 APRICOT: an integrated computational pipeline for the sequence-based identification and characterization of RNA-binding proteins

Malvika Sharan;Konrad Ulrich Foerstner;Ana Eulalio;Joerg Vogel;

10.1101/055178 — Bioinformatics — Posted on 2016-05-24

99 Detecting differential growth of microbial populations with Gaussian process regression

Peter D Tonner;Cynthia L Darnell;Barbara E Engelhardt;Amy Schmid;

10.1101/055186 — Systems Biology — Posted on 2016-05-24

100 Personalized characterization of diseases using sample-specific networks

Xiaoping Liu;Yuetong Wang;Hongbin Ji;Kazuyuki Aihara;Luonan Chen;

10.1101/042838 — Systems Biology — Posted on 2016-05-24

101 Monomorphic genotypes within a generalist lineage of Campylobacter jejuni show signs of global dispersion

Ann-Katrin Llarena;Ji Zhang;Minna Vehkala;Niko Välimäki;Marjaana Hakkinen;Marja-Liisa Hänninen;Mati Roasto;Mihkel Mäesaar;Eduardo Taboada;Dillon Barker;Giuliano Garfolo;Cesare Cammà;Elisabetta Di Giannatale;Jukka Corander;Mirko Rossi;

10.1101/054932 — Microbiology — Posted on 2016-05-24

102 The C. elegans NF2/Merlin Molecule NFM-1 Non-Autonomously Regulates Neuroblast Migration and Interacts Genetically with the Guidance Cue SLT-1/Slit

Matthew P Josephson;Rana Aliani;Erik Lundquist;

10.1101/055079 — Developmental Biology — Posted on 2016-05-24

103 Highly expressed proteins prefer less informative amino acids

Guangzhong Wang;

10.1101/054981 — Systems Biology — Posted on 2016-05-24

104 The evolution of CHROMOMETHYLASES and gene body DNA methylation in plants

Adam J. Bewick;Chad E. Niederhuth;Nicholas A. Rohr;Patrick T. Griffin;Jim Leebens-Mack;Robert J. Schmitz;

10.1101/054924 — Plant Biology — Posted on 2016-05-25

105 The evolution of CHROMOMETHYLASES and gene body DNA methylation in plants

Adam J. Bewick;Chad E. Niederhuth;Nicholas A. Rohr;Patrick T. Griffin;Jim Leebens-Mack;Robert J. Schmitz;

10.1101/054924 — Plant Biology — Posted on 2016-05-24

106 Nucleolus association of chromosomal domains is largely maintained in cellular senescence despite massive nuclear reorganisation

Stefan Dillinger;Tobias Straub;Attila Nemeth;

10.1101/054908 — Genomics — Posted on 2016-05-24

107 Comparison of bacterial genome assembly software for MinION data

Kim Judge;Martin Hunt;Sandra Reuter;Alan Tracey;Michael A Quail;Julian Parkhill;Sharon J Peacock;

10.1101/049213 — Genomics — Posted on 2016-05-24

108 Exploring the Relationship between Abundance and Temperature with a Chemostat Model

Cristian A. Solari;Vanina J. Galzenati;Brian J. McGill;

10.1101/054940 — Ecology — Posted on 2016-05-24

109 Reference-free comparison of microbial communities via de Bruijn graphs

Serghei Mangul;David Koslicki;

10.1101/055020 — Bioinformatics — Posted on 2016-05-24

110 An open-hardware platform for optogenetics and photobiology

Karl Gerhardt;Evan Olson;Sebastian Castillo-Hair;Lucas Hartsough;Brian Landry;Felix Ekness;Rayka Yokoo;Eric Gomez;Prabha Ramakrishnan;Junghae Suh;David Savage;Jeffrey Tabor;

10.1101/055053 — Bioengineering — Posted on 2016-05-24

111 Potential pitfalls of FISH microscopy as assessment method for anaerobic digesters

Christian Abendroth;Sarah Hahnke;Michael Klocke;Olaf Luschnig;

10.1101/054999 — Microbiology — Posted on 2016-05-24

112 Metagenomic covariation along densely sampled environmental gradients in the Red Sea

Luke R Thompson;Gareth J Williams;Mohamed F Haroon;Ahmed Shibl;Peter Larsen;Joshua Shorenstein;Rob Knight;Ulrich Stingl;

10.1101/055012 — Microbiology — Posted on 2016-05-24

113 Prospects of genomic prediction in the USDA Soybean Germplasm Collection: Historical data creates robust models for enhancing selection of accessions.

Diego Jarquin;James Specht;Aaron Lorenz;

10.1101/055038 — Genomics — Posted on 2016-05-24

114 A precision metric for clinical genome sequencing

Rachel L Goldfeder;Euan A Ashley;

10.1101/051490 — Genomics — Posted on 2016-05-24

115 Tissue-Driven Hypothesis of Transcriptome Evolution: An Update

Howard T. Hallmark;Jeffrey A. Haltom;Xun Gu;

10.1101/054890 — Genetics — Posted on 2016-05-24

116 Population structure and coalescence in pedigrees: comparisons to the structured coalescent and a framework for inference

Peter R Wilton;Pierre Baduel;Matthieu M Landon;John Wakeley;

10.1101/054957 — Evolutionary Biology — Posted on 2016-05-24

117 Diploid male production correlates with genetic diversity in the parasitoid wasp Venturia canescens: a genetic approach with new microsatellite markers

Marie Collet;Chloé Vayssade;Alexandra Auguste;Laurence Mouton;Emmanuel Desouhant;Thibaut Malausa;Xavier Fauvergue;

10.1101/054866 — Ecology — Posted on 2016-05-24

118 Improved Annotation with de novo Transcriptome Assembly in Four Social Amoeba Species

Reema Singh;Hajara M Lawal;Christina Schilde;Gernot Gloeckner;Geoff J Barton;Pauline Schaap;Christian Cole;

10.1101/054536 — Bioinformatics — Posted on 2016-05-24

119 Centrifuge: rapid and sensitive classification of metagenomic sequences

Daehwan Kim;Li Song;Florian P Breitwieser;Steven L Salzberg;

10.1101/054965 — Bioinformatics — Posted on 2016-05-25

120 Centrifuge: rapid and sensitive classification of metagenomic sequences

Daehwan Kim;Li Song;Florian P Breitwieser;Steven L Salzberg;

10.1101/054965 — Bioinformatics — Posted on 2016-05-24

121 NCS1 regulates Ca2+-Dependent Focal Exocytosis of Golgi-derived Vesicles to Help Phagocytic uptake in Macrophages

Nimi Vashi;Syed Bilal Ahmad Andrabi;Swapnil S Ghanwat;Mrutyunjay Suar;Dhiraj Kumar;

10.1101/054858 — Cell Biology — Posted on 2016-05-23

122 Experiment-friendly kinetic analysis of single molecule data in and out of equilibrium

Sonja Schmid;Markus Götz;Thorsten Hugel;

10.1101/054577 — Biophysics — Posted on 2016-05-23

123 Beta regression improves the detection of differential DNA methylation for epigenetic epidemiology

Timothy J Triche;Peter W. Laird;Kimberly D. Siegmund;

10.1101/054643 — Bioinformatics — Posted on 2016-05-23

124 Evolution of local mutation rate and its determinants

Nadezhda V Terekhanova;Vladimir Seplyarskiy;Ruslan A. Soldatov;Georgii A Bazykin;

10.1101/054825 — Molecular Biology — Posted on 2016-05-22

125 Predicting Peptide-MHC Binding Affinities With Imputed Training Data

Alex Rubinsteyn;Timothy O'Donnell;Nandita Damaraju;Jeffrey Hammerbacher;

10.1101/054775 — Immunology — Posted on 2016-05-23

126 Predicting Peptide-MHC Binding Affinities With Imputed Training Data

Alex Rubinsteyn;Timothy O'Donnell;Nandita Damaraju;Jeffrey Hammerbacher;

10.1101/054775 — Immunology — Posted on 2016-05-22

127 The evolution of coercive policing in genetically mixed groups: the case of plasmid copy number control

Kyriakos Kentzoglanakis;Sam Brown;Richard Goldstein;

10.1101/053579 — Evolutionary Biology — Posted on 2016-05-22

128 Apontic regulates cell proliferation and development by activating the expression of hedgehog and cyclin E

Xian-Feng Wang;Qian Cheng;Chong-Lei Fu;Zi-Zhang Zhou;Susumu Hirose;Qing-Xin Liu;

10.1101/054809 — Developmental Biology — Posted on 2016-05-22

129 Scaffolding and Completing Genome Assemblies in Real-time with Nanopore Sequencing

Minh Duc Cao;Son Hoang Nguyen;Devika Ganesamoorthy;Alysha Elliott;Matthew Cooper;Lachlan J M Coin;

10.1101/054783 — Bioinformatics — Posted on 2016-05-22

130 Nonessential nucleoporins Nup2, Nup60 and Nup84 are required for normal meiosis in budding yeast

Daniel B Chu;Sean M Burgess;

10.1101/054791 — Genetics — Posted on 2016-05-21

131 Combining complex networks and data mining: why and how

Massimiliano Zanin;David Papo;Pedro A. Sousa;Ernestina Menasalvas;Andrea Nicchi;Elaine Kubik;Stefano Boccaletti;

10.1101/054064 — Biophysics — Posted on 2016-05-21

132 Substoichiometric molecular control and amplification of the initiation and nature of amyloid fibril formation: lessons from and for blood clotting. BioRXiv preprint.

Douglas B Kell;Etheresia Pretorius;

10.1101/054734 — Pathology — Posted on 2016-05-21

133 Parvalbumin interneuron dysfunction in a thalamus - prefrontal cortex circuit in Disc1 deficiency mice

Kristen Delevich;Hanna Jaaro-Peled;Mario Penzo;Akira Sawa;Bo Li;

10.1101/054759 — Neuroscience — Posted on 2016-05-21

134 C2c2 is a single-component programmable RNA-guided RNA-targeting CRISPR effector

Omar O Abudayyeh;Jonathan S Gootenberg;Silvana Konermann;Julia Joung;Ian M Slaymaker;David BT Cox;Sergey Shmakov;Kira S Makarova;Ekaterina Semenova;Leonid Minakhin;Konstantin Severinov;Aviv Regev;Eric S Lander;Eugene V Koonin;Feng Zhang;

10.1101/054742 — Molecular Biology — Posted on 2016-05-21

135 Scalable Design of Paired CRISPR Guide RNAs for Genomic Deletion

Carlos Pulido-Quetglas;Estel Aparicio-Prat;Carme Arnan;Taisia Polidori;Toni Hermoso;Emilio Palumbo;Julia Ponomarenko;Roderic Guigo;Rory Johnson;

10.1101/052795 — Genomics — Posted on 2016-05-22

136 Scalable Design of Paired CRISPR Guide RNAs for Genomic Deletion

Carlos Pulido-Quetglas;Estel Aparicio-Prat;Carme Arnan;Taisia Polidori;Toni Hermoso;Emilio Palumbo;Julia Ponomarenko;Roderic Guigo;Rory Johnson;

10.1101/052795 — Genomics — Posted on 2016-05-21

137 Isolation and characterization of electrochemically active subsurface Delftia and Azonexus species

Yamini Jangir;Sarah French;Lily M. Momper;Duane P. Moser;Jan P. Amend;Mohamed Y. El-Naggar;

10.1101/046979 — Microbiology — Posted on 2016-05-21

138 A full characterization of evolutionary tree topologies

Caroline Colijn;Giacomo Plazzotta;

10.1101/054544 — Evolutionary Biology — Posted on 2016-05-23

139 A full characterization of evolutionary tree topologies

Caroline Colijn;Giacomo Plazzotta;

10.1101/054544 — Evolutionary Biology — Posted on 2016-05-21

140 Coalescent inferences in conservation genetics: should the exception become the rule?

Valeria Montano;

10.1101/054528 — Evolutionary Biology — Posted on 2016-05-21

141 Tellurium: A Python Based Modeling and Reproducibility Platform for Systems Biology

Kiri Choi;Jesse Kyle Medley;Carroline Cannistra;Matthias Konig;Lucian Smith;Kaylene Stocking;Herbert M Sauro;

10.1101/054601 — Systems Biology — Posted on 2016-05-21

142 Circadian rhythms have significant effects on leaf-to-canopy gas exchange under field conditions

Victor Resco de Dios;Arthur Gessler;Juan Pedro Ferrio;Josu G. Alday;Michael Bahn;Jorge del Castillo;Sebastien Devidal;Sonia Garcia-Munoz;Zachary Kayler;Damien Landais;Paula Martin-Gomez;Alexandru Milcu;Clement Piel;Karin Pirhofer-Walzl;Olivier Ravel;Serajis Salekin;David T Tissue;Mark G Tjoelker;Jordi Voltas;Jacques Roy;

10.1101/054593 — Plant Biology — Posted on 2016-05-21

143 Cryptic diversity and population structure at small scales: The freshwater snail Ancylus (Planorbidae, Pulmonata) in the Montseny mountain range

Jan Niklas Macher;Martina Weiss;Arne Beermann;Florian Leese;

10.1101/054551 — Molecular Biology — Posted on 2016-05-21

144 The evolution of alternative splicing in Drosophila

Lauren Gibilisco;Qi Zhou;Shivani Mahajan;Doris Bachtrog;

10.1101/054700 — Genomics — Posted on 2016-05-21

145 Improved methods for multi-trait fine mapping of pleiotropic risk loci

Gleb Kichaev;Megan Roytman;Ruth Johnson;Eleazar Eskin;Sara Lindstroem;Peter Kraft;Bogdan Pasaniuc;

10.1101/054684 — Genetics — Posted on 2016-05-21

146 Improved methods for multi-trait fine mapping of pleiotropic risk loci

Gleb Kichaev;Megan Roytman;Ruth Johnson;Eleazar Eskin;Sara Lindstroem;Peter Kraft;Bogdan Pasaniuc;

10.1101/054684 — Genetics — Posted on 2016-05-21

147 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 2016-05-21

148 Steep difference between ecotypes and intermediate phenotype depression for shell trait integration in a marine snail hybrid zone.

Carlos Garcia;

10.1101/054569 — Evolutionary Biology — Posted on 2016-05-21

149 Robust Gap Repair in the Contractile Ring Ensures Timely Completion of Cytokinesis

Ana Marta Silva;Daniel Sampaio Osorio;Antonio Jose Pereira;Helder Maiato;Ines Mendes Mendes Pinto;Boris Rubinstein;Reto Gassmann;Ivo Andreas A Telley;Ana Xavier de Carvalho;

10.1101/052704 — Cell Biology — Posted on 2016-05-21

150 MPAthic: quantitative modeling of sequence-function relationships for massively parallel assays

William T. Ireland;Justin B. Kinney;

10.1101/054676 — Bioinformatics — Posted on 2016-05-21

151 The Use of Informativity in the Development of Robust Metaviromics-based Examinations

Siobhan C Watkins;Thomas Hatzopoulos;Catherine Putonti;

10.1101/054635 — Bioinformatics — Posted on 2016-05-21

152 Kinematic analysis of cell lineage reveals coherent and robust mechanical deformation patterns in zebrafish gastrulation

David Pastor-Escuredo;Benoit Lombardot;Thierry Savy;Adeline Boyreau;Jose M. Goicolea;Andres Santos;Paul Bourgine;Juan C. del Alamo;Nadine Peyrieras;Maria J. Ledesma-Carbayo;

10.1101/054353 — Systems Biology — Posted on 2016-05-22

153 Kinematic analysis of cell lineage reveals coherent and robust mechanical deformation patterns in zebrafish gastrulation

David Pastor-Escuredo;Benoit Lombardot;Thierry Savy;Adeline Boyreau;Jose M. Goicolea;Andres Santos;Paul Bourgine;Juan C. del Alamo;Nadine Peyrieras;Maria J. Ledesma-Carbayo;

10.1101/054353 — Systems Biology — Posted on 2016-05-20

154 Brain structure in pediatric Tourette syndrome

Alton C. Williams;Deanna J. Greene;Jonathan M. Koller;Bradley L. Schlaggar;Kevin J. Black;The Tourette Association of America Neuroimaging C;

10.1101/054437 — Neuroscience — Posted on 2016-05-20

155 Millions of Boreal Shield Lakes can be used to Probe the Evolution of Archaean Ocean Life

Sherry Schiff;Jackson Tsuji;Lingling Wu;Jason Venkiteswaran;Lewis Molot;Richard Elgood;Michael Paterson;Josh Neufeld;

10.1101/054478 — Microbiology — Posted on 2016-05-20

156 Diagnostic assessments of student thinking about stochastic processes.

Michael W. Klymkowsky;Katja Koehler;Melanie Cooper;

10.1101/053991 — Scientific Communication and Education — Posted on 2016-05-20

157 Disruption of human astn2 function by ZIKV ns4b gene as a molecular basis for Zika viral microcephaly

Bhaskar Ganguly;Enakshi Ganguly;

10.1101/054486 — Genomics — Posted on 2016-05-20

158 A better design for stratified medicine based on genomic prediction

Sang Hong Lee;W.M. Shalanee P. Weerasinghe;Naomi Wray;Michael Goddard;Julius Van der Werf;

10.1101/054494 — Genetics — Posted on 2016-05-20

159 Selective vulnerability of the brain to mutational classes explain why the same types of genes underlie different neuropsychiatric diseases

Shahar Shohat;Eyal Ben-David;Sagiv Shifman;

10.1101/054460 — Genetics — Posted on 2016-05-20

160 Long shelf-life streptavidin support-films suitable for electron microscopy of biological macromolecules

Bong-Gyoon Han;Zoe Watson;Hannah Kang;Arto Pulk;Kenneth Downing;Jamie Cate;Robert Glaeser;

10.1101/054452 — Biophysics — Posted on 2016-05-20

161 Continuous Genetic Recording with Self-Targeting CRISPR-Cas in Human Cells

Samuel Perli;Cheryl Cui;Timothy K Lu;

10.1101/053058 — Synthetic Biology — Posted on 2016-05-20

162 High-throughput mapping of single neuron projections by sequencing of barcoded RNA

Justus M Kebschull;Pedro Garcia da Silva;Ashlan P Reid;Ian D Peikon;Dinu F Albeanu;Anthony M Zador;

10.1101/054312 — Neuroscience — Posted on 2016-05-24

163 High-throughput mapping of single neuron projections by sequencing of barcoded RNA

Justus M Kebschull;Pedro Garcia da Silva;Ashlan P Reid;Ian D Peikon;Dinu F Albeanu;Anthony M Zador;

10.1101/054312 — Neuroscience — Posted on 2016-05-20

164 Population effect of influenza vaccination under co-circulation of non-vaccine variants and the case for a multi-strain A/H3N2 vaccine component

Colin J Worby;Jacco Wallinga;Marc Lipsitch;Edward Goldstein;

10.1101/054403 — Epidemiology — Posted on 2016-05-20

165 DeepCyTOF: Automated Cell Classification of Mass Cytometry Data by Deep Learning and Domain Adaptation

Huamin Li;Uri Shaham;Yi Yao;Ruth Montgomery;Yuval Kluger;

10.1101/054411 — Bioinformatics — Posted on 2016-05-31

166 DeepCyTOF: Automated Cell Classification of Mass Cytometry Data by Deep Learning and Domain Adaptation

Huamin Li;Uri Shaham;Yi Yao;Ruth Montgomery;Yuval Kluger;

10.1101/054411 — Bioinformatics — Posted on 2016-05-20

167 Best Practices in Data Analysis and Sharing in Neuroimaging using MRI

Thomas E. Nichols;Samir Das;Simon B. Eickhoff;Alan C. Evans;Tristan Glatard;Michael Hanke;Nikolaus Kriegeskorte;Michael P. Milham;Russell A. Poldrack;Jean-Baptiste Poline;Erika Proal;Bertrand Thirion;David C. Van Essen;Tonya White;B. T. Thomas Yeo;

10.1101/054262 — Neuroscience — Posted on 2016-05-20

168 Top-down modulation of stimulus drive via beta-gamma cross-frequency interaction.

Craig Geoffrey Richter;William Hedley Thompson;Conrado A Bosman;Pascal Fries;

10.1101/054288 — Neuroscience — Posted on 2016-05-27

169 Top-down modulation of stimulus drive via beta-gamma cross-frequency interaction.

Craig Geoffrey Richter;William Hedley Thompson;Conrado A Bosman;Pascal Fries;

10.1101/054288 — Neuroscience — Posted on 2016-05-19

170 Systematic comparison of monoclonal versus polyclonal antibodies for mapping histone modifications by ChIP-seq

Michele Busby;Catherine Xue;Yossi Farjoun;Elizabeth Gienger;Ido Yofe;Adrianne Gladden;Chad Nusbaum;Alon Goren;

10.1101/054387 — Genomics — Posted on 2016-05-19

171 Integrative genetic and epigenetic analysis uncovers regulatory mechanisms of autoimmune disease

Parisa Shooshtari;Hailiang Huang;Chris Cotsapas;

10.1101/054361 — Genetics — Posted on 2016-05-19

172 Deriving shape-based features for C. elegans locomotion using dimensionality reduction methods

Bertalan Gyenes;Andre Brown;

10.1101/054379 — Animal Behavior and Cognition — Posted on 2016-05-19

173 Reading out olfactory receptors: feedforward circuits detect odors in mixtures without demixing

Alexander Mathis;Dan Rokni;Vikrant Kapoor;Matthias Bethge;Venkatesh N Murthy;

10.1101/054247 — Neuroscience — Posted on 2016-05-21

174 Reading out olfactory receptors: feedforward circuits detect odors in mixtures without demixing

Alexander Mathis;Dan Rokni;Vikrant Kapoor;Matthias Bethge;Venkatesh N Murthy;

10.1101/054247 — Neuroscience — Posted on 2016-05-19

175 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 2016-05-19

176 LMethyR-SVM: Predict human enhancers using low methylated regions based on weighted support vector machines

Yang Dai;Jingting Xu;Hong Hu;

10.1101/054221 — Bioinformatics — Posted on 2016-05-19

177 WEVOTE: Weighted Voting Taxonomic Identification Method of Microbial Sequences

Ahmed A. Metwally;Yang Dai;Patricia Finn;David Perkins;

10.1101/054205 — Bioinformatics — Posted on 2016-05-22

178 WEVOTE: Weighted Voting Taxonomic Identification Method of Microbial Sequences

Ahmed A. Metwally;Yang Dai;Patricia Finn;David Perkins;

10.1101/054205 — Bioinformatics — Posted on 2016-05-19

179 APOBEC3A/B-induced mutagenesis is responsible for 20% of heritable mutations in the TpCpW context

Vladimir B. Seplyarskiy;Maria A. Andrianova;Georgii A. Bazykin;

10.1101/054197 — Molecular Biology — Posted on 2016-05-19

180 Clonal assessment of functional mutations in cancer based on a genotype-aware method for clonal reconstruction

Paul Deveau;Leo Colmet Daage;Derek Oldridge;Virginie Bernard;Angela Bellini;Mathieu Chicard;Nathalie Clement;Eve Lapouble;Valérie Combaret;Anne Boland;Vincent Meyer;Jean-François Deleuze;Isabelle Janoueix-Lerosey;Emmanuel Barillot;Olivier Delattre;John Maris;Gudrun Schleiermacher;Valentina Boeva;

10.1101/054346 — Cancer Biology — Posted on 2016-05-19

181 Parent-of-origin effect rough endosperm mutants in maize

Fang Bai;Mary Daliberti;Alyssa Bagadion;Niaoyun Xi;Yubing Li;John Baier;Chi-Wah Tseung;Matthew M. S. Evans;A. Mark Settles;

10.1101/054338 — Genetics — Posted on 2016-05-19

182 Experience-dependent increases in sharp-wave ripples near visual targets

Timothy K Leonard;Kari L Hoffman;

10.1101/054171 — Neuroscience — Posted on 2016-05-18

183 A brush fire feedback loop for the ramp-like rise in hominin brain size that began 2.4 million years ago

William H. Calvin;

10.1101/053827 — Neuroscience — Posted on 2016-05-18

184 Transformation of Independent Oscillatory Inputs into Temporally Precise Rate Codes

David Tingley;Andrew Alexander;Laleh Quinn;Andrea Chiba;Douglas Nitz;

10.1101/054163 — Neuroscience — Posted on 2016-05-18

185 Spatiotemporal structure of intracranial electric fields induced by transcranial electric stimulation in human and nonhuman primates

Alexander Opitz;Arnaud Falchier;Chao-Gan Yan;Erin Yeagle;Gary Linn;Pierre Megevand;Axel Thielscher;Michael Milham;Ashesh Mehta;Charles Schroeder;

10.1101/053892 — Neuroscience — Posted on 2016-05-18

186 Goggatomy: a Method for Opening Small Cuticular Compartments in Arthropods for Physiological Experiments

Alan R Kay;Davide Raccuglia;Jon Scholte;Elena Loukianova;Christopher A Barwacz;Steven A Armstrong;C Allan Guymon;Michael N Nitabach;Daniel F Eberl;

10.1101/053298 — Neuroscience — Posted on 2016-05-18

187 Landscape connectivity of a noxious invasive weed: human-aided or natural dispersal?

Diego F Alvarado-Serrano;Megan Van Etten;Shu-Mei Chang;Regina Baucom;

10.1101/054122 — Evolutionary Biology — Posted on 2016-05-18

188 Single molecule long read sequencing resolves the detailed structure of complex satellite DNA loci in Drosophila melanogaster

Daniel Emerson Khost;Danna G Eickbush;Amanda M Larracuente;

10.1101/054155 — Genomics — Posted on 2016-05-18

189 A variant by any name: quantifying annotation discordance across tools and clinical databases

Jennifer Yen;Sarah Garcia;Aldrin Montana;Jason Harris;Steven Chervitz;John West;Richard Chen;Deanna M Church;

10.1101/054023 — Genomics — Posted on 2016-05-19

190 A variant by any name: quantifying annotation discordance across tools and clinical databases

Jennifer Yen;Sarah Garcia;Aldrin Montana;Jason Harris;Steven Chervitz;John West;Richard Chen;Deanna M Church;

10.1101/054023 — Genomics — Posted on 2016-05-18

191 Illuminating Uveitis: Metagenomic Deep Sequencing Identifies Common and Rare Pathogens

Thuy Doan;Michael R Wilson;Emily D Crawford;Eric D Chow;Lillian M Khan;Kristeene A Knopp;Dongxiang Xia;Jill K Hacker;Jay M Stewart;John A Gonzales;Nisha R Acharya;Joseph L DeRisi;

10.1101/054148 — Scientific Communication and Education — Posted on 2016-05-18

192 Evidence for reassortment of highly divergent novel rotaviruses from bats in Cameroon, without evidence for human interspecies transmissions

Claude K Yinda;Mark Zeller;Nadiaá Conceição-Neto;Piet Maes;Ward Deboutte;Leen Beller;Elisabeth Heylen;Stephen M Ghogomu;Marc Van Ranst;Jelle Matthijnssens;

10.1101/054072 — Microbiology — Posted on 2016-05-18

193 Genome reduction in an abundant and ubiquitous soil bacterial lineage

Tess Brewer;Kim Handley;Paul Carini;Jack Gibert;Noah Fierer;

10.1101/053942 — Microbiology — Posted on 2016-05-18

194 PackIO and EphysViewer: software tools for acquisition and analysis of neuroscience data

Brendon O Watson;Rafael Yuste;Adam M Packer;

10.1101/054080 — Neuroscience — Posted on 2016-05-18

195 Establishment and stability of the latent HIV-1 DNA reservoir

Johanna Brodin;Fabio Zanini;Lina Thebo;Christa Lanz;Goran Bratt;Richard Neher;Jan Albert;

10.1101/053983 — Microbiology — Posted on 2016-05-23

196 Establishment and stability of the latent HIV-1 DNA reservoir

Johanna Brodin;Fabio Zanini;Lina Thebo;Christa Lanz;Goran Bratt;Richard Neher;Jan Albert;

10.1101/053983 — Microbiology — Posted on 2016-05-18

197 Initiation of mtDNA transcription is followed by pausing, and diverge across human cell types and during evolution

Amit Blumberg;Edward J. Rice;Anshul Kundaje;Charles G. Danko;Dan Mishmar;

10.1101/054031 — Genomics — Posted on 2016-05-18

198 Genomic Prediction of Hybrid Combinations in the Early Stages of a Maize Hybrid Breeding Pipeline

Dnyaneshwar Kadam;Sarah Potts;Martin O Bohn;Alexander E. Lipka;Aaron Lorenz;

10.1101/054015 — Genomics — Posted on 2016-05-18

199 Time-dependent fitness effects can drive bet-hedging populations extinct

Eric Libby;William C Ratcliff;

10.1101/054007 — Evolutionary Biology — Posted on 2016-05-18

200 Large scale chromosome folding is stable against local changes in chromatin structure

Ana Maria Florescu;Pierre Therizols;Angelo Rosa;

10.1101/054056 — Biophysics — Posted on 2016-05-18

201 Retrieving the topology of chromatin domains from deep sequencing data with correlation functions

Jana Molitor;Jan-Philipp Mallm;Karsten Rippe;Fabian Erdel;

10.1101/054049 — Bioinformatics — Posted on 2016-05-18

202 A comprehensive and scalable database search system for metaproteomics

Sandip Chatterjee;Gregory Stupp;Sung Kyu (Robin) Park;Jean-Christophe Ducom;John R Yates;Andrew I Su;Dennis W. Wolan;

10.1101/053975 — Bioinformatics — Posted on 2016-05-18

203 Glu-370 in the Large Subunit Influences the Substrate Binding, Allosteric, and Heat Stability Properties of Potato ADP-glucose Pyrophosphorylase

Ayse B Seferoglu;Seref Gul;Ugur M Dikbas;Kaan Koper;Ibrahim Baris;Mahmut Caliskan;Gul Cevahir;Ibrahim Kavakli;

10.1101/054106 — Biochemistry — Posted on 2016-05-18

204 Euclidean distance as a measure of ventral and dorsal white matter connectivity

Philipp Kellmeyer;

10.1101/053959 — Neuroscience — Posted on 2016-05-17

205 C. elegans PVD Neurons: A Platform for Functionally Validating and Characterizing Neuropsychiatric Risk Genes

Cristina Aguirre-Chen;Nuri Kim;Olivia Mendivil Ramos;Melissa Kramer;W. Richard McCombie;Christopher M. Hammell;

10.1101/053900 — Neuroscience — Posted on 2016-05-17

206 A hyperactive transcriptional state marks genome reactivation at the mitosis-G1 transition

Chris C.-S. Hsiung;Caroline Bartman;Peng Huang;Paul Ginart;Aaron J. Stonestrom;Cheryl A. Keller;Carolyne Face;Kristen S. Jahn;Perry Evans;Laavanya Sankaranarayanan;Belinda Giardine;Ross C. Hardison;Arjun Raj;Gerd A. Blobel;

10.1101/053678 — Molecular Biology — Posted on 2016-05-17

207 Environmental modification via a quorum sensing molecule influences the social landscape of siderophore production

Roman Popat;Freya Harrison;Luke McNally;Paul Williams;Stephen P Diggle;

10.1101/053918 — Microbiology — Posted on 2016-05-17

208 50-valent inactivated rhinovirus vaccine is broadly immunogenic in rhesus macaques

Sujin Lee;Minh Trang Nguyen;Michael Currier;Joe Jenkins;Elizabeth Strobert;Adriana Kajon;Ranjna Madan-Lala;Yury Bochkov;James Gern;Krishnendu Roy;Xiaoyan Lu;Dean Erdman;Paul Spearman;Martin Moore;

10.1101/053967 — Immunology — Posted on 2016-05-17

209 Comparing the Statistical Fate of Paralogous and Orthologous Sequences

Florian Massip;Michael Sheinman;Sophie Schbath;Peter Arndt;

10.1101/053843 — Evolutionary Biology — Posted on 2016-05-17

210 Eusociality and other improbable evolutionary outcomes can be accelerated by trait hitchhiking in boom-bust feedback loops

William H. Calvin;

10.1101/053819 — Evolutionary Biology — Posted on 2016-05-18

211 Eusociality and other improbable evolutionary outcomes can be accelerated by trait hitchhiking in boom-bust feedback loops

William H. Calvin;

10.1101/053819 — Evolutionary Biology — Posted on 2016-05-17

212 Reanalysis of the Anthrax Epidemic in Rhodesia, 1978-84

James Wilson;Walter Brediger;Tom Albright;Julie Smith Gagen;

10.1101/053769 — Epidemiology — Posted on 2016-05-17

213 Serological evidence for localized and persistent antibody response in Zika virus-positive neonates with microcephaly (Brazil, 2015)- a secondary analysis

Andrew A. Lover;

10.1101/051326 — Epidemiology — Posted on 2016-05-17

214 EGAD: Ultra-fast functional analysis of gene networks

Sara Ballouz;Melanie Weber;Paul Pavlidis;Jesse Gillis;

10.1101/053868 — Bioinformatics — Posted on 2016-05-17

215 Protein complex prediction for large protein protein interaction networks with the Core&Peel Method

Marco Pellegrini;Miriam Baglioni;Filippo Geraci;

10.1101/053876 — Bioinformatics — Posted on 2016-05-17

216 Model selection in statistical historical biogeography of Neotropical insects-the Exophthalmus genus complex (Curculionidae: Entiminae)

Guanyang Zhang;Usmaan Basharat;Nicholas Matzke;Nico Franz;

10.1101/053611 — Evolutionary Biology — Posted on 2016-05-17

217 MAMMOTh: a new database for curated MAthematical Models of bioMOlecular sysTems

Fedor Kazantsev;Ilya Akberdin;Sergey Lashin;Natalia Ree;Vladimir Timonov;Alexander Ratushny;Tamara Khlebodarova;Vitaly Likhoshvai;

10.1101/053652 — Systems Biology — Posted on 2016-05-16

218 Cerebellar learning using perturbations

Guy Bouvier;Claudia Clopath;Célian Bimbard;Jean-Pierre Nadal;Nicolas Brunel;Vincent Hakim;Boris Barbour;

10.1101/053785 — Neuroscience — Posted on 2016-05-16

219 Dopamine neurons change the type of excitability in response to stimuli

Ekaterina Morozova;Denis Zakharov;Boris Gutkin;Christopher Lapish;Alexey Kuznetsov;

10.1101/053637 — Neuroscience — Posted on 2016-05-16

220 Bottom-up and top-down computations in high-level visual cortex

Kendrick Kay;Jason Yeatman;

10.1101/053595 — Neuroscience — Posted on 2016-05-16

221 Increasing tolerance of hospital Enterococcus faecium to hand-rub alcohols

Timothy Stinear;Sacha J. Pidot;Margaret M. C. Lam;Susan A. Ballard;M. Lindsay Grayson;Andrew A. Mahony;Elizabeth A. Grabsch;Geoffrey W. Coombs;J. Owen Robinson;Benjamin P. Howden;Paul D. R. Johnson;

10.1101/053728 — Microbiology — Posted on 2016-05-16

222 Dynamic substrate preferences and predicted metabolic properties of a simple microbial consortium

Onur Erbilgin;Benjamin P Bowen;Suzanne M Kosina;Stefan Jenkins;Rebecca K Lau;Trent R Northen;

10.1101/053777 — Microbiology — Posted on 2016-05-16

223 Excess of deleterious mutations around HLA genes reveals evolutionary cost of balancing selection

Tobias L Lenz;Victor Spirin;Daniel M Jordan;Shamil R Sunyaev;

10.1101/053793 — Evolutionary Biology — Posted on 2016-05-16

224 Characterization by Next Generation Sequencing Reveals the Molecular Mechanisms Driving the Faster Evolutionary rate of Cassava brown streak virus Compared with Ugandan cassava brown streak virus

Titus Alicai;Joseph Ndunguru;Peter Sseruwagi;Fred Tairo;Geoffrey Okao-Okuja;Resty Nanvubya;Lilliane Kiiza;Laura Kubatko;Monica A Kehoe;Laura M Boykin;

10.1101/053546 — Evolutionary Biology — Posted on 2016-05-16

225 An improved reversibly dimerizing mutant of the FK506-binding protein FKBP

Juan J. Barrero;Effrosyni Papanikou;Jason C. Casler;Kasey J. Day;Benjamin S. Glick;

10.1101/053751 — Cell Biology — Posted on 2016-05-16

226 Markov models of the apo-MDM2 lid region reveal diffuse yet two-state binding dynamics and receptor poses for computational docking

Sudipto Mukherjee;George A Pantelopulos;Vincent A Voelz;

10.1101/053603 — Biophysics — Posted on 2016-05-16

227 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 2016-05-16

228 Synthesizer: Expediting synthesis studies from context-free data with natural language processing

Lisa Gandy;Jordan Gumm;Benjamin Fertig;Michael J Kennish;Sameer Chavan;Ann Thessen;Luigi Marchionni;Xiaoxan Xia;Shambhavi Shankrit;Elana J Fertig;

10.1101/053629 — Bioinformatics — Posted on 2016-05-16

229 Accuracy, speed and error tolerance of short DNA sequence aligners

Mark Ziemann;

10.1101/053686 — Bioinformatics — Posted on 2016-05-16

230 AlmostSignificant: Simplifying quality control of high-throughput sequencing data.

Joseph Ward;Christian Cole;Melanie Febrer;Geoffrey Barton;

10.1101/053702 — Bioinformatics — Posted on 2016-05-16

231 gmos: Rapid detection of genome mosaicism over short evolutionary distances

Mirjana Domazet-Loso;Tomislav Domazet-Loso;

10.1101/053694 — Bioinformatics — Posted on 2016-05-16

232 Nociceptor-enriched genes required for normal thermal nociception.

Ken Honjo;Stephanie E. Mauthner;Yu Wang;J. H. Pate Skene;W. Daniel Tracey;

10.1101/053413 — Neuroscience — Posted on 2016-05-18

233 Nociceptor-enriched genes required for normal thermal nociception.

Ken Honjo;Stephanie E. Mauthner;Yu Wang;J. H. Pate Skene;W. Daniel Tracey;

10.1101/053413 — Neuroscience — Posted on 2016-05-16

234 Acute induction of anomalous blood clotting by molecular amplification of highly substoichiometric levels of bacterial lipopolysaccharide (LPS)

Etheresia Pretorius;Janette Bester;Sthembile Mbotwa;Christopher Robinson;Douglas B Kell;

10.1101/053538 — Microbiology — Posted on 2016-05-16

235 Excess of mutational jackpot events in growing populations due to gene surfing

Diana Fusco;Matti Gralka;Alex Anderson;Jona Kayser;Oskar Hallatschek;

10.1101/053405 — Evolutionary Biology — Posted on 2016-05-16

236 MODA: MOdule Differential Analysis for weighted gene co-expression network

Dong Li;James Brown;Luisa Orsini;Zhisong Pan;Guyu Hu;Shan He;

10.1101/053496 — Bioinformatics — Posted on 2016-05-31

237 MODA: MOdule Differential Analysis for weighted gene co-expression network

Dong Li;James Brown;Luisa Orsini;Zhisong Pan;Guyu Hu;Shan He;

10.1101/053496 — Bioinformatics — Posted on 2016-05-19

238 MODA: MOdule Differential Analysis for weighted gene co-expression network

Dong Li;James Brown;Luisa Orsini;Zhisong Pan;Guyu Hu;Shan He;

10.1101/053496 — Bioinformatics — Posted on 2016-05-16

239 Advances in the integration of transcriptional regulatory information into genome-scale metabolic models

R.P. Vivek-Ananth;Areejit Samal;

10.1101/053520 — Systems Biology — Posted on 2016-05-15

240 The proteasome acts as a hub for local and systemic plant immunity in Arabidopsis thaliana and constitutes a virulence target of Pseudomonas syringae type-III effector proteins

Suayib Ustun;Arsheed Sheikh;Selena Gimenez-Ibanez;Alexandra Jones;Vardis Ntoukakis;Frederik Bornke;

10.1101/053504 — Plant Biology — Posted on 2016-05-15

241 Figure-ground organization in visual cortex for natural scenes

Jonathan R. Williford;Rüdiger von der Heydt;

10.1101/053488 — Neuroscience — Posted on 2016-05-15

242 Utilizing Social Media and Video Games to Control #DIY Microscopes

Maxime Leblanc-Latour;Craig Bryan;Andrew Pelling;

10.1101/053470 — Biophysics — Posted on 2016-05-15

243 Stable host gene expression in the gut of adult Drosophila melanogaster with different bacterial mono-associations

Carolyn Elya;Vivian Zhang;Will Ludington;Michael B Eisen;

10.1101/053512 — Microbiology — Posted on 2016-05-15

244 Range overlap drives chromosome inversion fixation in passerine birds

Daniel M Hooper;

10.1101/053371 — Evolutionary Biology — Posted on 2016-05-14

245 Higher classification sensitivity of short metagenomic reads with CLARK-S

Rachid Ounit;Stefano Lonardi;

10.1101/053462 — Bioinformatics — Posted on 2016-05-14

246 VERSE: a versatile and efficient RNA-Seq read counting tool

Qin Zhu;Stephen A Fisher;Jamie Shallcross;Junhyong Kim;

10.1101/053306 — Bioinformatics — Posted on 2016-05-14

247 Redundancy, feedback, and robustness in the Arabidopsis thaliana BZR/BEH gene family

Jennifer Lachowiec;G. Alex Mason;Karla Schultz;Christine Queitsch;

10.1101/053447 — Genetics — Posted on 2016-05-14

248 RefSoil: A reference database of soil microbial genomes

Jinlyung Choi;Fan Yang;Ramunas Stepanauskas;Erick Cardenas;Aaron Garoutte;Ryan Williams;Jared Flater;James M Tiedje;Kirsten S. Hofmockel;Brian Gelder;Adina Howe;

10.1101/053397 — Ecology — Posted on 2016-05-14

249 Improved assembly of noisy long reads by k-mer validation

A. Bernardo Carvalho;Eduardo G Dupim;Gabriel Nassar;

10.1101/053256 — Genomics — Posted on 2016-05-14

250 Fractional Dosing of Yellow Fever Vaccine to Extend Supply: A Modeling Study

Joseph T. Wu;Corey M. Peak;Gabriel M. Leung;Marc Lipsitch;

10.1101/053421 — Epidemiology — Posted on 2016-05-14

251 Exact Bayesian lineage tree-based inference identifies Nanog negative autoregulation in mouse embryonic stem cells

Justin Shane Feigelman;Stefan Ganscha;Simon Hastreiter;Michael Schwarzfischer;Adam Filipczyk;Timm Schroeder;Fabian J Theis;Carsten Marr;Manfred Claassen;

10.1101/053231 — Systems Biology — Posted on 2016-05-13

252 Quantifying the degree of sharing of genetic and non-genetic causes of gene expression variability across four tissues.

Alfonso Buil;Ana Viñuela;Andrew Brown;Matthew Davies;Ismael Padioleau;Deborah Bielser;Luciana Romano;Daniel Glass;Paola Di Meglio;Kerrin Small;Timothy Spector;Emmanouil T Dermitzakis;

10.1101/053355 — Genomics — Posted on 2016-05-13

253 The multiple testing burden in sequencing-based disease studies of global populations

Sara Leslie Pulit;Sera A. Jytte de With;Paul I Wen de Bakker;

10.1101/053264 — Genetics — Posted on 2016-05-13

254 The last common ancestor of most bilaterian animals possessed at least 9 opsins

M Desmond Ramirez;Autum N Pairett;M Sabrina Pankey;Jeanne M Serb;Daniel I Speiser;Andrew J Swafford;Todd H. Oakley;

10.1101/052902 — Evolutionary Biology — Posted on 2016-05-13

255 Parasites and invasions: changes in gastrointestinal helminth assemblages in invasive and native rodents in Senegal.

Christophe Diagne;Alexis Ribas;Nathalie Charbonnel;Ambroise Dalecky;Caroline Tatard;Philippe Gauthier;Voitto Haukisalmi;Odile Fossati-Gaschignard;Khalilou Ba;Mamadou Kane;Youssoupha Niang;Mamoudou Diallo;Aliou Sow;Sylvain Piry;Mbacke Sembene;Carine Brouat;

10.1101/053082 — Ecology — Posted on 2016-05-13

256 KimLabIDV: Application for Interactive RNA-Seq Data Analysis and Visualization

Qin Zhu;Stephen A Fisher;Hannah Dueck;Sarah Middleton;Mugdha Khaladkar;Young-Ji Na;Junhyong Kim;

10.1101/053348 — Bioinformatics — Posted on 2016-05-13

257 KimLabIDV: Application for Interactive RNA-Seq Data Analysis and Visualization

Qin Zhu;Stephen A Fisher;Hannah Dueck;Sarah Middleton;Mugdha Khaladkar;Young-Ji Na;Junhyong Kim;

10.1101/053348 — Bioinformatics — Posted on 2016-05-13

258 Dumpster diving in RNA-sequencing to find the source of every last read

Serghei Mangul;Harry Taegyun Yang;Nicolas Strauli;Franziska Gruhl;Timothy Daley;Stephanie Christenson;Agata Wesolowska Andersen;Roberto Spreafico;Cydney Rios;Celeste Eng;Andrew D. Smith;Ryan D. Hernandez;Roel A. Ophoff;Jose Rodriguez Santana;Prescott G. Woodruff;Esteban Burchard;Max A. Seibold;Sagiv Shifman;Eleazar Eskin;Noah Zaitlen;

10.1101/053041 — Genomics — Posted on 2016-05-13

259 Corticosteroid and progesterone transactivation of mineralocorticoid receptors from Amur sturgeon and tropical gar

Akira Sugimoto;Kaori Oka;Rui Sato;Shinji Adachi;Michael E. Baker;Yoshinao Katsu;

10.1101/053199 — Evolutionary Biology — Posted on 2016-05-13

260 Potential impact of novel diagnostics and treatments on the burden of antibiotic resistant in Escherichia coli

Pierre Nouvellet;Julie Robotham;Nichola R Naylor;Neil Woodford;Neil M Ferguson;

10.1101/052944 — Epidemiology — Posted on 2016-05-13

261 Multiscale quantification of tissue behavior during amniote embryo axis elongation

Bertrand Benazeraf;Mathias Beaupeux;Martin Tchernookov;Allison Wallingford;Tasha Salisbury;Amelia Shirtz;Andrew Shirtz;Dave Huss;Olivier Pourquie;Paul Francois;Rusty Lansford;

10.1101/053124 — Developmental Biology — Posted on 2016-05-13

262 Cell-to-cell spread of microsporidia causes C. elegans organs to form syncytia

Keir M Balla;Robert J Luallen;Malina A Bakowski;Emily R Troemel;

10.1101/053181 — Cell Biology — Posted on 2016-05-13

263 Genome sequencing of a single tardigrade Hypsibius dujardini individual

Kazuharu Arakawa;Yuki Yoshida;Masaru Tomita;

10.1101/053223 — Genomics — Posted on 2016-05-13

264 Blind testing cross-linking/mass spectrometry under the auspices of the 11th critical assessment of methods of protein structure prediction (CASP11)

Adam Belsom;Michael Schneider;Lutz Fischer;Oliver Brock;Juri Rappsilber;

10.1101/053173 — Biochemistry — Posted on 2016-05-13

265 Host Gut Motility and Bacterial Competition Drive Instability in a Model Intestinal Microbiota

Travis J. Wiles;Matthew L. Jemielita;Ryan P. Baker;Brandon H. Schlomann;Savannah L. Logan;Julia Ganz;Ellie Melancon;Judith S. Eisen;Karen Guillemin;Raghuveer Parthasarathy;

10.1101/052985 — Microbiology — Posted on 2016-05-12

266 Synaptonemal complex components are required for meiotic checkpoint function in C. elegans

Tisha Bohr;Guinevere Ashley;Evan Eggleston;Kyra Firestone;Needhi Bhalla;

10.1101/052977 — Genetics — Posted on 2016-05-12

267 Soft selective sweeps in evolutionary rescue

Ben Wilson;Pleuni Pennings;Dmitri Petrov;

10.1101/052993 — Evolutionary Biology — Posted on 2016-05-12

268 MetaGxData: Breast and Ovarian Clinically Annotated Transcriptomics Datasets

Deena M.A. Gendoo;Natchar Ratanasirigulchai;Gregory M. Chen;Levi Waldron;Benjamin Haibe-Kains;

10.1101/052910 — Bioinformatics — Posted on 2016-05-12

269 Deep Machine Learning provides state-of-the-art performance in image-based plant phenotyping

Michael P Pound;Alexandra J Burgess;Michael H Wilson;Jonathan A Atkinson;Marcus Griffiths;Aaron S Jackson;Adrian Bulat;Georgios Tzimiropoulos;Darren M Wells;Erik H Murchie;Tony P Pridmore;Andrew P French;

10.1101/053033 — Bioinformatics — Posted on 2016-05-12

270 Elusive Plasmodium Species Complete the Human Malaria Genome Set

Gavin G. Rutledge;Ulrike Boehme;Mandy Sanders;Adam J. Reid;Oumou Maiga-Ascofare;Abdoulaye A. Djimde;Tobias O. Apinjoh;Lucas Amenga-Etego;Magnus Manske;John W. Barnwell;Francois Renaud;Benjamin Ollomo;Franck Prugnolle;Nicholas M. Anstey;Sarah Auburn;Ric N. Price;James S. McCarthy;Dominic P. Kwiatkowski;Chris I. Newbold;Matthew Berriman;Thomas D. Otto;

10.1101/052696 — Genomics — Posted on 2016-05-12

271 Refining the role of de novo protein truncating variants in neurodevelopmental disorders using population reference samples

Jack Kosmicki;Kaitlin Samocha;Daniel Howrigan;Stephan Sanders;Kamil Slowikowski;Monkol Lek;Konrad Karczewski;David Cutler;Bernie Devlin;Kathryn Roeder;Joseph Buxbaum;Benjamin Neale;Daniel MacArthur;Dennis Wall;Elise Robinson;Mark Daly;

10.1101/052886 — Genetics — Posted on 2016-05-12

272 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 2016-05-12

273 Going down the rabbit hole: a review on how to link genome-wide data with ecology and evolution in natural populations

Yann Bourgeois;

10.1101/052761 — Evolutionary Biology — Posted on 2016-05-12

274 Quantification of telomere features in tumor tissue sections by an automated 3D imaging-based workflow

Manuel Gunkel;Inn Chung;Stefan Worz;Katharina I Deeg;Ronald Simon;Guido Sauter;David T Jones;Andrey Korshunov;Karl Rohr;Holger Erfle;Karsten Rippe;

10.1101/053132 — Cancer Biology — Posted on 2016-05-12

275 Predictability and hierarchy in Drosophila behavior

Gordon J Berman;William Bialek;Joshua W Shaevitz;

10.1101/052928 — Animal Behavior and Cognition — Posted on 2016-05-12

276 Conceptual Confusion: the case of Epigenetics

Angela Oliveira Pisco;Aymeric Fouquier d'Herouel;Sui Huang;

10.1101/053009 — Systems Biology — Posted on 2016-05-12

277 search.bioPreprint: a discovery tool for cutting edge, preprint biomedical research articles

Carrie L Iwema;John LaDue;Angela Zack;Ansuman Chattopadhyay;

10.1101/052563 — Scientific Communication and Education — Posted on 2016-05-12

278 Antibiotic Stress Selects against Cooperation in a Pathogenic Bacterium

Marie Vasse;Robert Noble;Andrei R Akhmetzhanov;Clara Torres-Barceló;James Gurney;Simon Benateau;Claire Gougat-Barbera;Oliver Kaltz;Michael E Hochberg;

10.1101/053066 — Microbiology — Posted on 2016-05-12

279 Proteasome dysfunction triggers activation of SKN-1A/Nrf1 by the aspartic protease DDI-1.

Nicolas J Lehrbach;Gary Ruvkun;

10.1101/052936 — Genetics — Posted on 2016-05-12

280 Shared effect modeling reveals that a fraction of autoimmune disease associations are consistent with eQTLs in three immune cell types

Sung Chun;Alexandra Casparino;Nikolaos Patsopoulos;Damien Croteau-Chonka;Benjamin Raby;Philip De Jager;Shamil Sunyaev;Chris Cotsapas;

10.1101/053165 — Genetics — Posted on 2016-05-12

281 The cryptic origins of evolutionary novelty: 1,000-fold-faster trophic diversification rates without increased ecological opportunity or hybrid swarm

Christopher Herbert Martin;

10.1101/053140 — Evolutionary Biology — Posted on 2016-05-12

282 Resource limitation reveals a twofold benefit of eusociality

Emanuel Fronhofer;Juergen Liebig;Oliver Mitesser;Hans Joachim Poethke;

10.1101/053108 — Evolutionary Biology — Posted on 2016-05-12

283 Ecogenomics and biogeochemical impacts of uncultivated globally abundant ocean viruses

Simon Roux;Jennifer R Brum;Bas E. Dutilh;Shinichi Sunagawa;Melissa B Duhaime;Alexander Loy;Bonnie T Poulos;Natalie Solonenko;Elena Lara;Julie Poulain;Stephane PESANT;Stefanie Kandels-Lewis;Céline Dimier;Marc Picheral;Sarah Searson;Corinne Cruaud;Adriana Alberti;Carlos M. M Duarte;Josep M M Gasol;Dolors Vaqué;Tara Oceans Coordinators;Peer Bork;Silvia G Acinas;Patrick Wincker;Matthew B Sullivan;

10.1101/053090 — Ecology — Posted on 2016-05-12

284 Phages rarely encode antibiotic resistance genes: a cautionary tale for virome analysis

François Enault;Arnaud Briet;Léa Bouteille;Simon Roux;Matthew B Sullivan;Marie-Agnès Petit;

10.1101/053025 — Ecology — Posted on 2016-05-12

285 3D perception of maximum density zone on Ramachandran plots for Zika virus protein structures

Mayukh Mukhopadhyay;Parama Bhaumik;

10.1101/053074 — Bioinformatics — Posted on 2016-05-12

286 Meta-analysis of 2,104 trios provides support for 10 novel candidate genes for intellectual disability

Stefan H. Lelieveld;Margot R.F. Reijnders;Rolph Pfundt;Helger G. Yntema;Erik-Jan Kamsteeg;Petra de Vries;Bert B.A. de Vries;Marjolein H. Willemsen;Tjitske Kleefstra;Katharina Löhner;Maaike Vreeburg;Servi Stevens;Ineke van der Burgt;Ernie M.H.F. Bongers;Alexander P.A. Stegmann;Patrick Rump;Tuula Rinne;Marcel R. Nelen;Joris A. Veltman;Lisenka E.L.M. Vissers;Han G. Brunner;Christian Gilissen;

10.1101/052670 — Genetics — Posted on 2016-05-11

287 How human behavior drives the propagation of an emerging infection: the case of the 2014 Chikungunya outbreak in Martinique

Benjamin Roche;Beatrice Gaillard;Lucas Leger;Renelise Moutenda;Thomas Sochaki;Bernard Cazelles;Martine Ledrans;Alain Blateau;Didier Fontenille;Manuel Etienne;Frederic Simard;Marcel Salathe;Andre Yebakima;

10.1101/052183 — Epidemiology — Posted on 2016-05-12

288 How human behavior drives the propagation of an emerging infection: the case of the 2014 Chikungunya outbreak in Martinique

10.1101/052183 — Epidemiology — Posted on 2016-05-11

289 Systematic Reconstruction of Autism Biology with Multi-Level Whole Exome Analysis

Weijun Luo;Chaolin Zhang;Cory Brouwer;

10.1101/052878 — Genomics — Posted on 2016-05-11

290 Genetic overlap between schizophrenia and developmental psychopathology: a longitudinal approach applied to common childhood disorders between age 7 and 15 years

Michel G Nivard;Suzanne H Gage;Jouke-Jan Hottenga;Catherina E.M. van Beijsterveldt;Abdel Abdellaoui;Bart M.L. Baselmans;Lannie Ligthart;Beate St Pourcain;Dorret I Boomsma;Marcus M Munafo;Christel M Middeldorp;

10.1101/052829 — Genetics — Posted on 2016-05-11

291 Splice Variants of the SWR1-type Nucleosome Remodeling Factor Domino Have Distinct Functions during Drosophila melanogaster Oogenesis

Kenneth Boerner;Peter B. B Becker;

10.1101/052746 — Developmental Biology — Posted on 2016-05-11

292 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 2016-05-11

293 Efficient Maximum-Likelihood Inference For The Isolation-With-Initial-Migration Model With Potentially Asymmetric Gene Flow

Rui J. Costa;Hilde Wilkinson-Herbots;

10.1101/052894 — Evolutionary Biology — Posted on 2016-05-11

294 The Drosophila genes disconnected and disco-related together specify development of adult legs

Juan Rosario;James Mahaffey;

10.1101/052811 — Developmental Biology — Posted on 2016-05-13

295 The Drosophila genes disconnected and disco-related together specify development of adult legs

Juan Rosario;James Mahaffey;

10.1101/052811 — Developmental Biology — Posted on 2016-05-11

296 Whole organism lineage tracing by combinatorial and cumulative genome editing

Aaron McKenna;Gregory Findlay;James A Gagnon;Marshall Horwitz;Alexander Franz F Schier;Jay Shendure;

10.1101/052712 — Developmental Biology — Posted on 2016-05-11

297 Suitability of different mapping algorithms for genome-wide polymorphism scans with Pool-Seq data

Robert Kofler;Anna Maria Langmueller;Pierre Nouhaud;Kathrin Anna Otte;Christian Schloetterer;

10.1101/052845 — Genomics — Posted on 2016-05-11

298 Nicotine affects protein complex rearrangement in Caenorhabditis elegans cells

Robert Sobkowiak;Andrzej Zielezinski;Wojciech M Karlowski;Andrzej Lesicki;

10.1101/052738 — Cell Biology — Posted on 2016-05-11

299 The relative values of the turnover number and the dissociation rate constant determine the definition of the Michaelis-constant

Gassan Nazzal;

10.1101/052514 — Biochemistry — Posted on 2016-05-16

300 The relative values of the turnover number and the dissociation rate constant determine the definition of the Michaelis-constant

Gassan Nazzal;

10.1101/052514 — Biochemistry — Posted on 2016-05-12

301 The relative values of the turnover number and the dissociation rate constant determine the definition of the Michaelis-constant

Gassan Nazzal;

10.1101/052514 — Biochemistry — Posted on 2016-05-12

302 The relative values of the turnover number and the dissociation rate constant determine the definition of the Michaelis-constant

Gassan Nazzal;

10.1101/052514 — Biochemistry — Posted on 2016-05-11

303 Spatial mnemonic encoding: Theta power decreases co-occur with medial temporal lobe BOLD increases during the usage of the Method of Loci

Marie-Chrisin Fellner;Gregor Volberg;Maria Wimber;Markus Goldhacker;Mark W Greenlee;Simon Hanslmayr;

10.1101/052720 — Neuroscience — Posted on 2016-05-11

304 Rescuing perishable neuroanatomical information from a threatened biodiversity hotspot: Remote field methods for brain tissue preservation validated by cytoarchitectonic analysis, immunohistochemistry, and X-ray microcomputed tomography

Daniel F. Hughes;Ellen M. Walker;Paul M. Gignac;Anais Martinez;Kenichiro Negishi;Carl S. Lieb;Eli Greenbaum;Arshad M. Khan;

10.1101/052415 — Neuroscience — Posted on 2016-05-11

305 Self-driven jamming in growing microbial populations

Morgan Delarue;Jörn Hartung;Carl Schreck;Pawel Gniewek;Lucy Hu;Stephan Herminghaus;Oskar Hallatschek;

10.1101/052480 — Microbiology — Posted on 2016-05-11

306 Blind tests of RNA nearest neighbor energy prediction

Fang-Chieh Chou;Wipapat Kladwang;Kalli Kappel;Rhiju Das;

10.1101/052621 — Biophysics — Posted on 2016-05-11

307 Robust high throughput prokaryote de novo assembly and improvement pipeline for Illumina data

Andrew J. Page;Nishadi De Silva;Martin Hunt;Michael A. Quail;Julian Parkhill;Simon R. Harris;Thomas D. Otto;Jacqueline A. Keane;

10.1101/052688 — Bioinformatics — Posted on 2016-05-11

308 Maftools: Efficient analysis, visualization and summarization of MAF files from large-scale cohort based cancer studies.

Anand Mayakonda;H Phillip Koeffler;

10.1101/052662 — Bioinformatics — Posted on 2016-05-11

309 Systems-level chromosomal parameters represent the suprachromosomal basis for non-random chromosomal arrangement in human interphase nuclei

Sarosh N. Fatakia;Ishita S. Mehta;Basuthkar J. Rao;

10.1101/052498 — Genomics — Posted on 2016-05-30

310 Systems-level chromosomal parameters represent the suprachromosomal basis for non-random chromosomal arrangement in human interphase nuclei

Sarosh N. Fatakia;Ishita S. Mehta;Basuthkar J. Rao;

10.1101/052498 — Genomics — Posted on 2016-05-30

311 Systems-level chromosomal parameters represent the suprachromosomal basis for non-random chromosomal arrangement in human interphase nuclei

Sarosh N. Fatakia;Ishita S. Mehta;Basuthkar J. Rao;

10.1101/052498 — Genomics — Posted on 2016-05-10

312 Effect of population structure and migration when investigating genetic continuity using ancient DNA

Nuno M Silva;Susanne Kreutzer;Christina Papageorgopoulou;Mathias Currat;

10.1101/052548 — Genetics — Posted on 2016-05-10

313 iVirus: facilitating new insights in viral ecology with software and community datasets imbedded in a cyberinfrastructure

Benjamin Bolduc;Ken Youens-Clark;Simon Roux;Bonnie L Hurwitz;Matthew B Sullivan;

10.1101/052597 — Bioinformatics — Posted on 2016-05-10

314 Personal Pharmacogenetic Testing Enhances Pharmacy Student Knowledge and Attitude Towards Precision Medicine

Dalga Surofchy;Sam Oh;Joshua Galanter;Pin Xiang;Megan Li;Su Guo;Tejal Desai;Bernard Joseph Guglielmo;Kathy Giacomini;Janel Long-Boyle;Alan HB Wu;Esteban G Burchard;

10.1101/052043 — Scientific Communication and Education — Posted on 2016-05-10

315 The effect of local inter-inhibitory connectivity on the dynamics of an activity-dependent neuronal network growth model

Rosanna Barnard;Istvan Zoltan Kiss;Luc Berthouze;

10.1101/052589 — Neuroscience — Posted on 2016-05-10

316 Chromatin variation associated with liver metabolism is mediated by transposable elements

Juan Du;Amy Leung;Candi Trac;Brian W. Parks;Aldons J. Lusis;Rama Natarajan;Dustin E. Schones;

10.1101/052571 — Genomics — Posted on 2016-05-10

317 Measuring Mechanodynamics using an Unsupported Epithelial Monolayer Grown at an Air-Water Interface

Corinne Gullekson;Matthew Walker;James L. Harden;Andrew Pelling;

10.1101/052555 — Biophysics — Posted on 2016-05-13

318 Measuring Mechanodynamics using an Unsupported Epithelial Monolayer Grown at an Air-Water Interface

Corinne Gullekson;Matthew Walker;James L. Harden;Andrew Pelling;

10.1101/052555 — Biophysics — Posted on 2016-05-10

319 myCircos: Facilitating the Creation and Use of Circos Plots Online

Caroline Labelle;Geneviève Boucher;Sébastien Lemieux;

10.1101/052605 — Bioinformatics — Posted on 2016-05-10

320 A cellular and regulatory map of the GABAergic nervous system of C. elegans

Marie Gendrel;Emily G Atlas;Oliver Hobert;

10.1101/052431 — Neuroscience — Posted on 2016-05-16

321 A cellular and regulatory map of the GABAergic nervous system of C. elegans

Marie Gendrel;Emily G Atlas;Oliver Hobert;

10.1101/052431 — Neuroscience — Posted on 2016-05-10

322 A cellular and regulatory map of the GABAergic nervous system of C. elegans

Marie Gendrel;Emily G Atlas;Oliver Hobert;

10.1101/052431 — Neuroscience — Posted on 2016-05-10

323 Local field potentials primarily reflect inhibitory neuron activity in human and monkey cortex

Bartosz Telenczuk;Nima Dehghani;Michel Le Van Quyen;Sydney S Cash;Eric Halgren;Nicholas G Hatsopoulos;Alain Destexhe;

10.1101/052282 — Neuroscience — Posted on 2016-05-11

324 Local field potentials primarily reflect inhibitory neuron activity in human and monkey cortex

Bartosz Telenczuk;Nima Dehghani;Michel Le Van Quyen;Sydney S Cash;Eric Halgren;Nicholas G Hatsopoulos;Alain Destexhe;

10.1101/052282 — Neuroscience — Posted on 2016-05-10

325 Bacteria regulate choanoflagellate development with lipid activators, inhibitors, and synergists

Arielle Woznica;Alexandra M. Cantley;Christine Beemelmanns;Elizaveta Freinkman;Jon Clardy;Nicole King;

10.1101/052399 — Microbiology — Posted on 2016-05-10

326 A Zika virus-associated microcephaly case with background exposure to STORCH agents

Mauro M Hanaoka;Alexandre Fligelman Kanas;Carla Torres Braconi;Erica Araujo Mendes;Robert Andreata Santos;Luis Carlos de Souza Ferreira;Marielton dos Passos Cunha;Patricia Beltrao-Braga;Joao Leonardo Mendonca Dias;Carolina Manganeli Polonio;David Anibal Garrido Andrade;Carla Longo de Freitas;Cristiano Rossato;Wesley Nogueira Brandao;Jean Pierre Schatzmann Peron;Antonio Gomes Amorim Filho;Joelma Queiroz Andrade;Rossana Pulcineli Vieira Francisco;Fernando Kok;Lisa Suzuki;Claudia da Costa Leite;Leandro Tavares Lucato;Amadou Alpha Sall;Paolo Marinho de Andrade Zanotto;

10.1101/052340 — Microbiology — Posted on 2016-05-10

327 DIVERGENT IMMUNE PRIMING RESPONSES ACROSS FLOUR BEETLE LIFE STAGES AND POPULATIONS

Imroze Khan;Arun Prakash;Deepa Agashe;

10.1101/052472 — Evolutionary Biology — Posted on 2016-05-10

328 Automatic classification of behavior in zebrafish larvae

Adrien Jouary;German Sumbre;

10.1101/052324 — Animal Behavior and Cognition — Posted on 2016-05-10

329 Male density and rapid evolution of genital morphology in the seed beetle Callosobruchus maculatus

Deanna Soper;Willow Macy;

10.1101/052332 — Evolutionary Biology — Posted on 2016-05-10

330 The Decay of Disease Association with Declining Linkage Disequilibrium: A Fine Mapping Theorem

Mehdi Maadooliat;Naveen K Bansal;Jiblal Upadhya;Manzur R Farazi;Zhan Ye;Xiang Li;Steven J Schrodi;

10.1101/052381 — Genetics — Posted on 2016-05-10

331 Reference-based phasing using the Haplotype Reference Consortium panel

Po-Ru Loh;Petr Danecek;Pier Francesco Palamara;Christian Fuchsberger;Yakir A Reshef;Hilary K Finucane;Sebastian Schoenherr;Lukas Forer;Shane McCarthy;Goncalo R Abecasis;Richard Durbin;Alkes L Price;

10.1101/052308 — Genetics — Posted on 2016-05-10

332 On the evolutionary origins of equity

Stephane Debove;Nicolas Baumard;Jean-Baptiste Andre;

10.1101/052290 — Evolutionary Biology — Posted on 2016-05-10

333 Impacts of white-tailed deer on regional patterns of forest tree recruitment

Donald Macgregor Waller;Donald M. Waller;

10.1101/052357 — Ecology — Posted on 2016-05-10

334 Gene Expression Elucidates Functional Impact of Polygenic Risk for Schizophrenia

Menachem Fromer;Panos Roussos;Solveig K Sieberts;Jessica S Johnson;David H Kavanagh;Thanneer M Perumal;Douglas M Ruderfer;Edwin C Oh;Aaron Topol;Hardik R Shah;Lambertus L Klei;Robin Kramer;Dalila Pinto;Zeynep H Gumus;A. Ercument Cicek;Kristen Dang;Andrew Browne;Cong Lu;Li Xie;Ben Readhead;Eli A Stahl;Mahsa Parvisi;Tymor Hamamsy;John F Fullard;Ying-Chih Wang;Milind C Mahajan;Jonathan M.J. Derry;Joel Dudley;Scott E Hemby;Benjamin A Logsdon;Konrad Talbot;Towfique Raj;David A Bennett;Phil L De Jager;Jun Zhu;Bin Zhang;Patrick F Sullivan;Andrew Chess;Shaun M Purcell;Leslie A Shinobu;Lara M Mangravit

10.1101/052209 — Genomics — Posted on 2016-05-09

335 EM and component-wise boosting for Hidden Markov Models: a machine-learning approach to capture-recapture

Robert William Rankin;

10.1101/052266 — Ecology — Posted on 2016-05-30

336 EM and component-wise boosting for Hidden Markov Models: a machine-learning approach to capture-recapture

Robert William Rankin;

10.1101/052266 — Ecology — Posted on 2016-05-14

337 EM and component-wise boosting for Hidden Markov Models: a machine-learning approach to capture-recapture

Robert William Rankin;

10.1101/052266 — Ecology — Posted on 2016-05-11

338 EM and component-wise boosting for Hidden Markov Models: a machine-learning approach to capture-recapture

Robert William Rankin;

10.1101/052266 — Ecology — Posted on 2016-05-10

339 EM and component-wise boosting for Hidden Markov Models: a machine-learning approach to capture-recapture

Robert William Rankin;

10.1101/052266 — Ecology — Posted on 2016-05-09

340 From cytoskeletal dynamics to organ asymmetry: a non-linear, regulative pathway underlies left-right patterning

Gary S McDowell;Suvithan Rajadurai;Michael Levin;

10.1101/052191 — Developmental Biology — Posted on 2016-05-09

341 Entropy and codon bias in HIV-1

Aakash Pandey;

10.1101/052274 — Bioinformatics — Posted on 2016-05-09

342 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 2016-05-26

343 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 2016-05-09

344 Visualization and analysis of single-cell RNA-seq data by kernel-based similarity learning

Bo Wang;Junjie Zhu;Emma Pierson;Daniele Ramazzotti;Serafim Batzoglou;

10.1101/052225 — Bioinformatics — Posted on 2016-05-09

345 HapIso : An Accurate Method for the Haplotype-Specific Isoforms Reconstruction from Long Single-Molecule Reads

Serghei Mangul;Harry Taegyun Yang;Farhad Hormozdiari;Elizabeth Tseng;Alex Zelikovsky;Eleazar Eskin;

10.1101/050906 — Bioinformatics — Posted on 2016-05-09

346 Analytical considerations for comparative transcriptomics of wild organisms.

Trevor J. Krabbenhoft;Thomas F. Turner;

10.1101/048652 — Genomics — Posted on 2016-05-09

347 Whole-genome sequencing of an advanced case of small-cell gallbladder neuroendocrine carcinoma

Maolan Li;Fatao liu;Yijian Zhang;Xiangsong Wu;Wenguang Wu;Xu-an Wang;Shuai Zhao;Shibo Liu;Haibin Liang;Fei Zhang;Yuan Gao;Shanshan Xiang;Huaifeng Li;Wei Lu;Hao Weng;Jiasheng Mu;Yijun Shu;Runfa Bao;Lin Jiang;Yunping Hu;Wei Gong;Yun Zhang;Tieliang Ma;Kai Zhang;Yun Liu;Yingbin Liu;

10.1101/052316 — Genetics — Posted on 2016-05-09

348 Anchor negatively regulates BMP signaling to control Drosophila wing development

Xiaochun Wang;Ziguang Liu;Lihua Jin;

10.1101/052217 — Developmental Biology — Posted on 2016-05-09

349 UMI-tools: Modelling sequencing errors in Unique Molecular Identifiers to improve quantification accuracy

Tom Sean Smith;Andreas Heger;Ian Sudbery;

10.1101/051755 — Bioinformatics — Posted on 2016-05-10

350 UMI-tools: Modelling sequencing errors in Unique Molecular Identifiers to improve quantification accuracy

Tom Sean Smith;Andreas Heger;Ian Sudbery;

10.1101/051755 — Bioinformatics — Posted on 2016-05-09

351 A Critical, Nonlinear Threshold Dictates Bacterial Invasion and Initial Kinetics During Influenza

Amber M. Smith;Amanda P. Smith;

10.1101/052175 — Microbiology — Posted on 2016-05-08

352 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 2016-05-08

353 Cell-cycle coupled expression minimizes random fluctuations in gene product levels

Mohammad Soltani;Abhyudai Singh;

10.1101/052159 — Systems Biology — Posted on 2016-05-08

354 Matching models across abstraction levels with Gaussian Processes

Giulio Caravagna;Luca Bortolussi;Guido Sanguinetti;

10.1101/052100 — Biophysics — Posted on 2016-05-08

355 Drosophila poised enhancers are generated during tissue patterning with the help of repression

Nina Koenecke;Jeff Johnston;Qiye He;Julia Zeitlinger;

10.1101/052142 — Genomics — Posted on 2016-05-07

356 Transcriptomic analysis of diplomonad parasites reveals a trans-spliced intron in a helicase gene in Giardia

Scott William Roy;

10.1101/052134 — Genomics — Posted on 2016-05-07

357 Detection of human adaptation during the past 2,000 years

Yair Field;Evan A Boyle;Natalie Telis;Ziyue Gao;Kyle J Gaulton;David Golan;Loic Yengo;Ghislain Rocheleau;Philippe Froguel;Mark I McCarthy;Jonathan K Pritchard;

10.1101/052084 — Genetics — Posted on 2016-05-07

358 Adaptation in isolated populations: when does it happen and when can we tell?

Jessica Crisci;Matthew D Dean;Peter L. Ralph;

10.1101/052050 — Evolutionary Biology — Posted on 2016-05-07

359 Evolutionary dynamics of chloroplast genomes in low light: a case study of the endolithic green alga Ostreobium quekettii

Vanessa R. Marcelino;Ma Chiela M. Cremen;Christopher J. Jackson;Anthony W.D. Larkum;Heroen Verbruggen;

10.1101/049833 — Evolutionary Biology — Posted on 2016-05-07

360 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 2016-05-07

361 Denoising genome-wide histone ChIP-seq with convolutional neural networks

Pang Wei Koh;Emma Pierson;Anshul Kundaje;

10.1101/052118 — Bioinformatics — Posted on 2016-05-07

362 Gene- and pathway-based association tests for multiple traits with GWAS summary statistics

Il-Youp Kwak;Wei Pan;

10.1101/052068 — Bioinformatics — Posted on 2016-05-07

363 Localized structural frustration for evaluating the impact of sequence variants

Sushant Kumar;Declan Clarke;Mark Gerstein;

10.1101/052027 — Bioinformatics — Posted on 2016-05-08

364 Localized structural frustration for evaluating the impact of sequence variants

Sushant Kumar;Declan Clarke;Mark Gerstein;

10.1101/052027 — Bioinformatics — Posted on 2016-05-07

365 Synthetic lipid-containing scaffolds enhance production by co-localizing enzymes

Cameron A. Myhrvold;Jessica K. Polka;Pamela A. Silver;

10.1101/052035 — Synthetic Biology — Posted on 2016-05-06

366 Refined biomimetic model of chronic pain healed with erythropoietin

Mary R. Hannaman;Douglas A. Fitts;Rose M. Doss;David E. Weinstein;Joseph L. Bryant;

10.1101/051979 — Neuroscience — Posted on 2016-05-06

367 Dendritic spine taxonomy and shape transition analysis

Tomasz Kuśmierczyk;Michał Łukasik;Marta Magnowska;Matylda Roszkowska;Grzegorz Bokota;Dariusz Plewczynski;

10.1101/051227 — Neuroscience — Posted on 2016-05-06

368 Complementary learning systems within the hippocampus: A neural network modeling approach to reconciling episodic memory with statistical learning

Anna C Schapiro;Nicholas B Turk-Browne;Matthew M Botvinick;Kenneth A Norman;

10.1101/051870 — Neuroscience — Posted on 2016-05-06

369 GEFs and Rac GTPases control directional specificity of neurite extension along the anterior-posterior axis

Martin Chalfie;Chaogu Zheng;Margarete Diaz-Cuadros;

10.1101/052019 — Neuroscience — Posted on 2016-05-06

370 GeMSTONE: Orchestrated Prioritization of Human Germline Mutations in the Cloud

Siwei Chen;Juan Felipe Beltrán;Xiaomu Wei;Steven Lipkin;Clara Esteban-Jurado;Sebastià Franch-Expósito;Sergi Castellví-Bel;Haiyuan Yu;

10.1101/052001 — Bioinformatics — Posted on 2016-05-09

371 GeMSTONE: Orchestrated Prioritization of Human Germline Mutations in the Cloud

Siwei Chen;Juan Felipe Beltrán;Xiaomu Wei;Steven Lipkin;Clara Esteban-Jurado;Sebastià Franch-Expósito;Sergi Castellví-Bel;Haiyuan Yu;

10.1101/052001 — Bioinformatics — Posted on 2016-05-06

372 Inference of maternal allele inheritance via hierarchical Bayesian model in noninvasive prenatal diagnosis

Chunxuan Shao;

10.1101/051995 — Bioinformatics — Posted on 2016-05-06

373 High-yield methods for accurate two-alternative visual psychophysics in head-fixed mice

Christopher P Burgess;Nicholas Steinmetz;Armin Lak;Peter Zatka-Haas;Adam Ranson;Miles Wells;Sylvia Schroeder;Elina A K Jacobs;Charu Bai Reddy;Sofia Soares;Jennnifer F Linden;Joseph J Paton;Kenneth D Harris;Matteo Carandini;

10.1101/051912 — Neuroscience — Posted on 2016-05-09

374 High-yield methods for accurate two-alternative visual psychophysics in head-fixed mice

10.1101/051912 — Neuroscience — Posted on 2016-05-06

375 Data-Driven Phenotypic Categorization for Neurobiological Analyses: Beyond DSM-5 Labels

Nicholas Van Dam;David O'Connor;Enitan T Marcelle;Erica J Ho;Richard Cameron Craddock;Russell H Tobe;Vilma Gabbay;James J Hudziak;Francisco Xavier Castellanos;Bennett L Leventhal;Michael P Milham;

10.1101/051789 — Neuroscience — Posted on 2016-05-06

376 AtRTD2: A Reference Transcript Dataset for accurate quantification of alternative splicing and expression changes in Arabidopsis thaliana RNA-seq data

Runxuan Zhang;Cristiane P G Calixto;Yamile Marquez;Peter Venhuizen;Nikoleta A Tzioutziou;Wenbin Guo;Mark Spensley;Nicolas Frei dit Frey;Heribert Hirt;Allan B James;Hugh G Nimmo;Andrea Barta;Maria Kalyna;John W S Brown;

10.1101/051938 — Genomics — Posted on 2016-05-06

377 Novel metrics to measure coverage in whole exome sequencing datasets reveal local and global non-uniformity

Qingyu Wang;Shashikant Cooduvalli;Naomi S Altman;Santhosh Girirajan;

10.1101/051888 — Genomics — Posted on 2016-05-05

378 Shear-induced nitric oxide production by endothelial cells

Krishna Sriram;Justin G. Laughlin;Padmini Rangamani;Daniel M. Tartakovsky;

10.1101/051946 — Systems Biology — Posted on 2016-05-05

379 A novel homology-based algorithm for the identification of physically linked clusters of paralogous genes

Juan F Ortiz;Antonis Rokas;

10.1101/051953 — Genomics — Posted on 2016-05-05

380 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 2016-05-05

381 From epigenetic landscape to phenotypic fitness landscape: evolutionary effect of pathogens on host traits

Jomar F. Rabajante;Mark Jayson V. Cortez;Jerrold M. Tubay;Ariel L. Babierra;

10.1101/051904 — Evolutionary Biology — Posted on 2016-05-05

382 Separating spandrels from phenotypic targets of selection in adaptive molecular evolution

Stevan A Springer;Michael Manhart;Alexandre V Morozov;

10.1101/051862 — Evolutionary Biology — Posted on 2016-05-05

383 Maximum intrinsic rate of population increase in sharks, rays, and chimaeras: the importance of survival to maturity

Sebastián A. Pardo;Holly K. Kindsvater;John D. Reynolds;Nicholas K. Dulvy;

10.1101/051482 — Ecology — Posted on 2016-05-05

384 A signature of neural coding at human perceptual limits

Paul Bays;

10.1101/051714 — Neuroscience — Posted on 2016-05-25

385 A signature of neural coding at human perceptual limits

Paul Bays;

10.1101/051714 — Neuroscience — Posted on 2016-05-05

386 Estimating effective population size from temporal allele frequency changes in experimental evolution

Agnes Jonas;Thomas Taus;Carolin Kosiol;Christian Schlötterer;Andreas Futschik;

10.1101/051854 — Evolutionary Biology — Posted on 2016-05-05

387 Genetic evidence for natural selection in humans in the contemporary United States

Jonathan Beauchamp;

10.1101/037929 — Evolutionary Biology — Posted on 2016-05-05

388 Bracken: Estimating species abundance in metagenomics data

Jennifer Lu;Florian P Breitwieser;Peter Thielen;Steven L Salzberg;

10.1101/051813 — Bioinformatics — Posted on 2016-05-05

389 Methods for High-Throughput Drug Combination Screening and Synergy Scoring

Liye He;Evgeny Kulesskiy;Jani Saarela;Laura Turunen;Krister Wennerberg;Tero Aittokallio;Jing Tang;

10.1101/051698 — Systems Biology — Posted on 2016-05-05

390 Membrane state diagrams make electrophysiological models simple

Robert Law;Stephanie R Jones;

10.1101/051839 — Physiology — Posted on 2016-05-05

391 Consensus Phylogenetic trees of Fifteen Prokaryotic Aminoacyl-tRNA Synthetase Polypeptides based on Euclidean Geometry of All-Pairs Distances and Concatenation

Rhishikesh R Bargaje;Milner Kumar;Sohan P Modak;

10.1101/051623 — Evolutionary Biology — Posted on 2016-05-06

392 Consensus Phylogenetic trees of Fifteen Prokaryotic Aminoacyl-tRNA Synthetase Polypeptides based on Euclidean Geometry of All-Pairs Distances and Concatenation

Rhishikesh R Bargaje;Milner Kumar;Sohan P Modak;

10.1101/051623 — Evolutionary Biology — Posted on 2016-05-05

393 Lysis, Lysogeny, and Virus-Microbe Ratios

Joshua Weitz;Stephen J Beckett;Jennifer R Brum;B. B. Cael;Jonathan Dushoff;

10.1101/051805 — Ecology — Posted on 2016-05-05

394 Calcium imaging reveals coordinated simple spike pauses in populations of Cerebellar Purkinje cells

Jorge Enrique Ramirez;Brandon M Stell;

10.1101/051730 — Neuroscience — Posted on 2016-05-04

395 Age differences in brain white matter microstructure in UK Biobank (N = 3,513)

Simon R Cox;Stuart J Ritchie;Elliot M Tucker-Drob;David C Liewald;Saskia P Hagenaars;Gail Davies;Joanna M Wardlaw;Catharine R Gale;Mark E Bastin;Ian J Deary;

10.1101/051771 — Neuroscience — Posted on 2016-05-04

396 Interactions between Nodal and Wnt signalling Drive Robust Symmetry Breaking and Axial Organisation in Gastruloids (Embryonic Organoids)

David Andrew Turner;Cherise R Glodowski;Alonso-Crisostomo Luz;Peter Baillie-Johnson;Penny C Hayward;Jérôme Collignon;Carsten Gustavsen;Palle Serup;Christian Schröter;Alfonso Martinez Arias;

10.1101/051722 — Developmental Biology — Posted on 2016-05-13

397 Interactions between Nodal and Wnt signalling Drive Robust Symmetry Breaking and Axial Organisation in Gastruloids (Embryonic Organoids)

David Andrew Turner;Cherise R Glodowski;Alonso-Crisostomo Luz;Peter Baillie-Johnson;Penny C Hayward;Jérôme Collignon;Carsten Gustavsen;Palle Serup;Christian Schröter;Alfonso Martinez Arias;

10.1101/051722 — Developmental Biology — Posted on 2016-05-04

398 Reconstitution of three-phase microtubule polymerisation dynamics

Takashi Moriwaki;Gohta Goshima;

10.1101/051672 — Cell Biology — Posted on 2016-05-04

399 Chytrid fungi construct actin-rich pseudopods, implicating actin regulators WASP and SCAR in an ancient mode of cell motility

Lillian K. Fritz-Laylin;Samuel J. Lord;R. Dyche Mullins;

10.1101/051821 — Cell Biology — Posted on 2016-05-04

400 Biophysically motivated regulatory network inference: progress and prospects

Richard Bonneau;Tarmo Aijo;

10.1101/051847 — Bioinformatics — Posted on 2016-05-04

401 Imaging decision-related neural cascades in the human brain

Jordan Muraskin;Truman Brown;Jennifer Walz;Bryan Conroy;Robin I Goldman;Paul Sajda;

10.1101/050856 — Neuroscience — Posted on 2016-05-05

402 Imaging decision-related neural cascades in the human brain

Jordan Muraskin;Truman Brown;Jennifer Walz;Bryan Conroy;Robin I Goldman;Paul Sajda;

10.1101/050856 — Neuroscience — Posted on 2016-05-04

403 Clustering RNA-seq expression data using grade of membership models

Kushal K Dey;Chiaowen Joyce Hsiao;Matthew Stephens;

10.1101/051631 — Genetics — Posted on 2016-05-04

404 Evolutionary dynamics of abundant stop codon readthrough in Anopheles and Drosophila

Irwin Jungreis;Clara S Chan;Robert M Waterhouse;Gabriel Fields;Michael F Lin;Manolis Kellis;

10.1101/051557 — Molecular Biology — Posted on 2016-05-03

405 Capturing Evolutionary Signatures in Transcriptomes with myTAI

Hajk-Georg Drost;Alexander Gabel;Tomislav Domazet-Lošo;Marcel Quint;Ivo Grosse;

10.1101/051565 — Genomics — Posted on 2016-05-03

406 Adaptively introgressed Neandertal haplotype at the OAS locus functionally impacts innate immune responses in humans.

Aaron J Sams;Anne Dumaine;Johann Nédélec;Vania Yotova;Caroline Alfieri;Jerome E Tanner;Philipp W Messer;Luis B Barreiro;

10.1101/051466 — Evolutionary Biology — Posted on 2016-05-04

407 Adaptively introgressed Neandertal haplotype at the OAS locus functionally impacts innate immune responses in humans.

Aaron J Sams;Anne Dumaine;Johann Nédélec;Vania Yotova;Caroline Alfieri;Jerome E Tanner;Philipp W Messer;Luis B Barreiro;

10.1101/051466 — Evolutionary Biology — Posted on 2016-05-03

408 Inferring phage-bacteria infection networks from time series data

Luis Jover;Justin Romberg;Joshua S Weitz;

10.1101/051581 — Ecology — Posted on 2016-05-03

409 Pan- and core- network analysis of co-expression genes in a model plant

Fei He;Sergei Maslov;

10.1101/051656 — Bioinformatics — Posted on 2016-05-03

410 Performance in a GO/NOGO perceptual task reflects a balance between impulsive and instrumental components of behaviour

Aleksandra Berditchevskaia;Romain Caze;Simon R Schultz;

10.1101/051607 — Animal Behavior and Cognition — Posted on 2016-05-03

411 System-wide quantitative proteomics of the metabolic syndrome in mice: genotypic and dietary effects

Camille Terfve;Eduard Sabido;Yibo Wu;Emanuel Goncalves;Meena Choi;Stefania Vaga;Olga Vitek;Julio Saez-Rodriguez;Ruedi Aebersold;

10.1101/051508 — Systems Biology — Posted on 2016-05-12

412 System-wide quantitative proteomics of the metabolic syndrome in mice: genotypic and dietary effects

Camille Terfve;Eduard Sabido;Yibo Wu;Emanuel Goncalves;Meena Choi;Stefania Vaga;Olga Vitek;Julio Saez-Rodriguez;Ruedi Aebersold;

10.1101/051508 — Systems Biology — Posted on 2016-05-03

413 Pathway and network-based strategies to translate genetic discoveries into effective therapies

Casey S Greene;Benjamin F Voight;

10.1101/051524 — Genetics — Posted on 2016-05-03

414 Elevated nonlinearity as indicator of transition to overexploitation in fish stocks

Vasilis Dakos;Sarah Glaser;Chih-hao Hsieh;George Sugihara;

10.1101/051532 — Ecology — Posted on 2016-05-03

415 Dual functions of Intraflagellar Transport Protein IFT20 in spermiogenesis: formation of sperm flagella and removal of cytoplasm by autophagy

Zhengang Zhang;Wei Li;Yong Zhang;Ling Zhang;Maria Teves;Hong Liu;Junpin Liu;Jerome Strauss;Gregory Pazour;James Foster;Rex Hess;Zhibing Zhang;

10.1101/051219 — Developmental Biology — Posted on 2016-05-03

416 trio-sga: facilitating de novo assembly of highly heterozygous genomes with parent-child trios

Milan Malinsky;Jared T Simpson;Richard Durbin;

10.1101/051516 — Bioinformatics — Posted on 2016-05-03

417 LD Hub: a centralized database and web interface to perform LD score regression that maximizes the potential of summary level GWAS data for SNP heritability and genetic correlation analysis

JIE ZHENG;Mesut Erzurumluoglu;Benjamin Elsworth;Laurence Howe;Philip Haycock;Gibran Hemani;Katherine Tansey;Charles Laurin;Beate St. Pourcain;Nicole Warrington;Hilary Finucane;Alkes Price;Brendan Bulik-Sullivan;Verneri Anttila;Lavinia Paternoster;Tom Gaunt;David Evans;Benjamin Neale;

10.1101/051094 — Bioinformatics — Posted on 2016-05-03

418 Acidic pH is a Metabolic Switch for 2‐Hydroxyglutarate Generation and Signaling

Sergiy M Nadtochiy;Xenia Schafer;Dragony Fu;Keith Nehrke;Joshua Munger;Paul S Brookes;

10.1101/051599 — Biochemistry — Posted on 2016-05-03

419 Mutational signatures associated with tobacco smoking in human cancer

Ludmil B Alexandrov;Young Seok Ju;Kerstin Haase;Peter Van Loo;Inigo Martincorena;Serena Nik-Zainal;Yasushi Totoki;Akihiro Fujimoto;Hidewaki Nakagawa;Tatsuhiro Shibata;Peter J Campbell;Paolo Vineis;David H Phillips;Michael R Stratton;

10.1101/051417 — Cancer Biology — Posted on 2016-05-03

420 Multi-ethnic polygenic risk scores improve risk prediction in diverse populations.

Carla Marquez-Luna;The SIGMA Type 2 Diabetes Consortium;Alkes L. Price;

10.1101/051458 — Bioinformatics — Posted on 2016-05-02

421 A Graph Extension of the Positional Burrows-Wheeler Transform and its Applications

Adam M Novak;Erik Garrison;Benedict Paten;

10.1101/051409 — Bioinformatics — Posted on 2016-05-02

422 Sub-atomic resolution X-ray diffraction of the SH3 domain from the post-synaptic density protein Shank3

Srinivas Kumar Ponna;Matti Myllykoski;Tobias M Boeckers;Petri Kursula;

10.1101/051425 — Biochemistry — Posted on 2016-05-03

423 Sub-atomic resolution X-ray diffraction of the SH3 domain from the post-synaptic density protein Shank3

Srinivas Kumar Ponna;Matti Myllykoski;Tobias M Boeckers;Petri Kursula;

10.1101/051425 — Biochemistry — Posted on 2016-05-02

424 P2Y2 purinergic receptor is induced following human cytomegalovirus infection and its activity is required for efficient viral replication

Saisai Chen;Thomas Shenk;Maciej T Nogalski;

10.1101/051391 — Microbiology — Posted on 2016-05-02

425 Optimizing multiplex CRISPR/Cas9-based genome editing for wheat

Wei Wang;Alina Akhunova;Shiaoman Chao;Eduard Akhunov;

10.1101/051342 — Genomics — Posted on 2016-05-12

426 Optimizing multiplex CRISPR/Cas9-based genome editing for wheat

Wei Wang;Alina Akhunova;Shiaoman Chao;Eduard Akhunov;

10.1101/051342 — Genomics — Posted on 2016-05-04

427 Optimizing multiplex CRISPR/Cas9-based genome editing for wheat

Wei Wang;Alina Akhunova;Shiaoman Chao;Eduard Akhunov;

10.1101/051342 — Genomics — Posted on 2016-05-02

428 Probing the mechanisms of intron creation in a fast-evolving mite

Scott W Roy;

10.1101/051292 — Genomics — Posted on 2016-05-02

429 SPATIALLY EXPLICIT MODELS TO INVESTIGATE GEOGRAPHIC PATTERNS IN THE DISTRIBUTION OF FORENSIC STRs

Francesco Messina;Andrea Finocchio;Nejat Akar;Aphrodite Loutradis;Emmanuel I. Michalodimitrakis;Radim Brdicka;Carla Jodice;Andrea Novelletto;

10.1101/051375 — Genetics — Posted on 2016-05-02

430 Description of a new genus of primitive ants from Canadian amber, with the study of relationships between crown ants and stem ants (Hymenoptera: Formicidae)

Leonid Borysenko;

10.1101/051367 — Zoology — Posted on 2016-05-02

431 Generating an Executable Model of the Drosophila Central Complex

Lev E Givon;Aurel A Lazar;

10.1101/051318 — Neuroscience — Posted on 2016-05-23

432 Generating an Executable Model of the Drosophila Central Complex

Lev E Givon;Aurel A Lazar;

10.1101/051318 — Neuroscience — Posted on 2016-05-02

433 Systematic exploration of unsupervised methods for mapping behavior

Jeremy G Todd;Jamey S Kain;Benjamin de Bivort;

10.1101/051300 — Neuroscience — Posted on 2016-05-02

434 Chloroquine inhibits Zika Virus infection in different cellular models

Rodrigo Delvecchio;Luiza M Higa;Paula Pezzuto;Ana Luiza Valadao;Patricia P Garcez;Fabio L Monteiro;Erick C Loiola;Stevens Rehen;Loraine Campanati;Renato Santana de Aguiar;Amilcar Tanuri;

10.1101/051268 — Microbiology — Posted on 2016-05-02

435 Transcriptome Analysis Reveals Skin Lipid Metabolism Related to Wool Diameter in Sheep

Shao yin FU;Yun Xia QI;Xiao long HE;Lai DA;Biao WANG;Rigele TE;Jiang hong WU;Ding YANG;Yong bin LIU;Weng guang ZHANG;

10.1101/051359 — Genetics — Posted on 2016-05-02

436 CRISPR-Cas9 targeted deletion of the C9orf72 repeat expansion mutation corrects cellular phenotypes in patient-derived iPS cells

Mochtar Pribadi;Zhongan Yang;Tanya S Kim;Elliot W Swartz;Alden Y Huang;Jason A Chen;Deepika Dokuru;Jaeyun Baek;Fuying Gao;Andrea T Fua;Kevin Wojta;Qing Wang;Ed Lezcano;Stephanie Ng;Farid F Chehab;Anna Karydas;Jamie Fong;Harry V Vinters;Bruce L Miller;Giovanni Coppola;

10.1101/051193 — Neuroscience — Posted on 2016-05-02

437 The genetic basis of natural variation in C. elegans telomere length

Daniel E Cook;Stefan Zdraljevic;Robyn E Tanny;Beomseok Seo;David Riccardi;Luke M Noble;Matthew V Rockman;Mark Alkema;Christian Braendle;Jan Kammenga;John Wang;Leonid Kruglyak;Marie-Anne Felix;Junho Lee;Erik Andersen;

10.1101/051276 — Genetics — Posted on 2016-05-02

438 Eliminating redundancy among protein sequences using submodular optimization

Maxwell W Libbrecht;Jeffrey A Bilmes;William Stafford Noble;

10.1101/051201 — Bioinformatics — Posted on 2016-05-02

439 A scalable method for automatically measuring pharyngeal pumping in C. elegans

Monika Scholz;Dylan J Lynch;Kyung Suk Lee;Erel Levine;David Biron;

10.1101/051243 — Animal Behavior and Cognition — Posted on 2016-05-02

440 Risk estimates for microcephaly related to Zika virus infection - from French Polynesia to Bahia, Brazil

Michael A Johansson;Luis Mier-y-Teran-Romero;Jennita Reefhuis;Suzanne M Gilboa;Susan L Hills;

10.1101/051060 — Epidemiology — Posted on 2016-05-02

441 QTL mapping reveals complex genetic architecture of quantitative virulence in the wheat pathogen Zymoseptoria tritici.

Ethan L. Stewart;Daniel Croll;Mark H. Lendenmann;Andrea Sanchez-Vallet;Fanny E. Hartmann;Javier Palma-Guerrero;Xin Ma;Bruce McDonald;

10.1101/051169 — Genetics — Posted on 2016-05-07

442 QTL mapping reveals complex genetic architecture of quantitative virulence in the wheat pathogen Zymoseptoria tritici.

Ethan L. Stewart;Daniel Croll;Mark H. Lendenmann;Andrea Sanchez-Vallet;Fanny E. Hartmann;Javier Palma-Guerrero;Xin Ma;Bruce McDonald;

10.1101/051169 — Genetics — Posted on 2016-05-01

443 Higher fungal diversity is correlated with lower CO2 emissions from dead wood in a natural forest

Yahan Yang;Douglas A. Schaefer;Weijie Liu;Viorel D. Popescu;Chenxue Yang;Xiaoyang Wang;Chunying Wu;Douglas W. Yu;

10.1101/051235 — Ecology — Posted on 2016-05-01

444 Genomic positional conservation identifies topological anchor point (tap)RNAs linked to developmental loci

Paulo P Amaral;Tommaso Leonardi;Namshik Han;Emmanuelle Vire;Dennis K Gascoigne;Raul Arias-Carrasco;Magdalena Buscher;Anda Zhang;Stefano Pluchino;Vinicius Maracaja-Coutinho;Helder I Nakaya;Martin Hemberg;Ramin Shiekhattar;Anton J Enright;Tony Kouzarides;

10.1101/051052 — Molecular Biology — Posted on 2016-05-04

445 Zika Fetal Neuropathogenesis: Etiology of a Viral Syndrome

Robert W Malone;Zachary Klase;Svetlana Khakhina;Michael V Callahan;Jill Glasspool-Malone;Adriano De Bernardi Schneider;

10.1101/050674 — Developmental Biology — Posted on 2016-05-08

446 Understanding properties of the master effector of phage shock operon in Mycobacterium tuberculosis via bioinformatics approach

Zarrin Basharat;Azra Yasmin;

10.1101/050047 — Bioinformatics — Posted on 2016-05-05

447 Amyloid β-peptides interfere with mitochondrial preprotein import competence by a co-aggregation process

Giovanna Cenini;Cornelia Rüb;Michael Bruderek;Wolfgang Voos;

10.1101/050617 — Cell Biology — Posted on 2016-05-04

448 Ayurvedic Amalaki Rasayana promotes improved stress tolerance and thus has anti-aging effects in Drosophila melanogaster

Vibha Dwivedi;Subhash C. Lakhotia;

10.1101/050476 — Cell Biology — Posted on 2016-05-04

449 Pan-retinal characterisation of Light Responses from Ganglion Cells in the Developing Mouse Retina

Gerrit Hilgen;Sahar Pirmoradian;Daniela Pamplona;Pierre Kornprobst;Bruno Cessac;Matthias H Hennig;Evelyne Sernagor;

10.1101/050393 — Neuroscience — Posted on 2016-05-26

450 Nano Random Forests to mine protein complexes and their relationships in quantitative proteomics data

Luis F Montano-Gutierrez;Shinya Ohta;Georg Kustatscher;William C Earnshaw;Juri Rappsilber;

10.1101/050302 — Cell Biology — Posted on 2016-05-01

451 Two frequency bands contain the most stimulus-related information in visual cortex

Christopher M Lewis;Conrado A Bosman;Nicolas M Brunet;Bruss Lima;Mark J. Roberts;Thilo Womelsdorf;Peter de Weerd;Sergio Neuenschwander;Wolf Singer;Pascal Fries;

10.1101/049718 — Neuroscience — Posted on 2016-05-13

452 Pan-cancer analysis of the metabolic reaction network

Francesco Gatto;Jens Nielsen;

10.1101/050187 — Cancer Biology — Posted on 2016-05-17

453 Annotation Regression for Genome-Wide Association Studies with an Application to Psychiatric Genomic Consortium Data

Sunyoung Shin;Sunduz Keles;

10.1101/049932 — Bioinformatics — Posted on 2016-05-09

454 The Pseudomonas aeruginosa PSL polysaccharide is a social but non-cheatable trait in biofilms

Yasuhiko Irie;Aled Roberts;Kasper N Kragh;Vernita D Gordon;Jamie Hutchison;Rosalind J Allen;Gavin Melaugh;Thomas Bjarnsholt;Stuart A West;Stephen P Diggle;

10.1101/049783 — Microbiology — Posted on 2016-05-05

455 The Prevalence of Inappropriate Image Duplication in Biomedical Research Publications

Elisabeth M Bik;Arturo Casadevall;Ferric C Fang;

10.1101/049452 — Scientific Communication and Education — Posted on 2016-05-17

456 High-Throughput Sequencing of Transposable Elements Insertions Provides Evidence for Adaptive Evolution of the Invasive Asian Tiger Mosquito Towards Temperate Environments

Clement Goubert;Helene Henri;Guillaume Minard;Claire Valiente Moro;Patrick Mavingui;Cristina Vieira;Matthieu Boulesteix;

10.1101/049197 — Genomics — Posted on 2016-05-26

457 Mega-analysis of 31,396 individuals from 6 countries uncovers strong gene-environment interaction for human fertility

Felix C Tropf;Renske M Verweij;Peter J van der Most;Gert Stulp;Andrew Bakshi;Daniel A Briley;Matthew Robinson;Anastasia Numan;Tonu Esko;Andres Metspalu;Sarah E. Medland;Nicholas G. Martin;Harold Snieder;S Hong Lee;Melinda C Mills;

10.1101/049163 — Genetics — Posted on 2016-05-02

458 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 2016-05-20

459 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 2016-05-13

460 Ten Simple Rules for Taking Advantage of git and GitHub

Yasset Perez-Riverol;Laurent Gatto;Rui Wang;Timo Sachsenberg;Julian Uszkoreit;Felipe Leprevost;Christian Fufezan;Tobias Ternent;Stephen J Eglen;Daniel S. S Katz;Tom J Pollard;Alexander Konovalov;Robert M Flight;Kai Blin;Juan Antonio Vizcaino;

10.1101/048744 — Bioinformatics — Posted on 2016-05-13

461 Ten Simple Rules for Taking Advantage of git and GitHub

10.1101/048744 — Bioinformatics — Posted on 2016-05-06

462 k-BOOM: A Bayesian approach to ontology structure inference, with applications in disease ontology construction

Christopher J Mungall;Sebastian Koehler;Peter Robinson;Ian Holmes;Melissa Haendel;

10.1101/048843 — Bioinformatics — Posted on 2016-05-18

463 Transient structural variations alter gene expression and quantitative traits in Schizosaccharomyces pombe.

Daniel Charlton Jeffares;Clemency Jolly;Mimoza Hoti;Doug Speed;Charalampos Rallis;Liam Shaw;Francois Balloux;Christophe Dessimoz;Jurg Bahler;Fritz Sedlazeck;

10.1101/047266 — Genomics — Posted on 2016-05-04

464 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 2016-05-20

465 Do aye-ayes echolocate? Studying convergent genomic evolution in a primate auditory specialist

Richard J Bankoff;Michael Jerjos;Baily Hohman;Elise Lauterbur;Logan Kistler;George H Perry;

10.1101/048165 — Evolutionary Biology — Posted on 2016-05-12

466 Analyzing Repast Symphony models in R with RRepast package

Antonio Prestes García;Alfonso Rodríguez-Patón;

10.1101/047985 — Bioinformatics — Posted on 2016-05-02

467 Fluorescence resonance energy transfer and protein-induced fluorescence enhancement as synergetic multi-scale molecular rulers

Evelyn Ploetz;Eitan Lerner;Florence Husada;Martin Roelfes;SangYoon Chung;Johannes Hohlbein;Shimon Weiss;Thorben Cordes;

10.1101/047779 — Biophysics — Posted on 2016-05-11

468 Arkas: Rapid and Reproducible RNAseq Analysis for End Users

Anthony Richard Colombo;Timothy J Triche;Giridharan Ramsingh;

10.1101/031435 — Bioinformatics — Posted on 2016-05-20

469 PICS: Pathway Informed Classification System for cancer analysis using gene expression data

Michael Young;David Craft;

10.1101/047514 — Genomics — Posted on 2016-05-11

470 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 2016-05-14

471 A rhesus macaque model of Asia lineage Zika virus infection

Dawn M. Dudley;Matthew T. Aliota;Emma L. Mohr;Andrea M. Weiler;Gabrielle Lehrer-Brey;Kim L. Weisgrau;Mariel S. Mohns;Meghan E. Breitbach;Mustafa N. Rasheed;Christina M. Newman;Dane D. Gellerup;Louise H. Moncla;Jennifer Post;Nancy Schultz-Darken;Michele L. Schotkzo;Jennifer M. Hayes;Josh A. Eudailey;M. Anthony Moody;Sallie R. Permar;Shelby L. O'Connor;Eva G. Rakasz;Heather A. Simmons;Saverio Capuano;Thaddeus G. Golos;Jorge E. Osorio;Thomas C. Friedrich;David H. O'Connor;

10.1101/046334 — Pathology — Posted on 2016-05-10

472 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 2016-05-04

473 Widespread natural variation of DNA methylation within angiosperms

Chad E Niederhuth;Adam J Bewick;Lexiang Ji;Magdy Alabady;Kyung Do Kim;Justin T Page;Qing Li;Nicholas A Rohr;Aditi Rambani;John M Burke;Josh A Udall;Chiedozie Egesi;Jeremy Schmutz;Jane Grimwood;Scott A Jackson;Nathan M Springer;Robert J Schmitz;

10.1101/045880 — Plant Biology — Posted on 2016-05-30

474 Relative contributions of conformational selection and induced fit

Denis Michel;

10.1101/045591 — Biochemistry — Posted on 2016-05-31

475 Cryopreservation of human mucosal leukocytes

Sean M. Hughes;Zhiquan Shu;Claire N. Levy;April L. Ferre;Heather Hartig;Cifeng Fang;Gretchen Lentz;Michael Fialkow;Anna C Kirby;Kristina M Adams Waldorf;Ronald S Veazey;Anja Germann;Hagen von Briesen;M. Juliana McElrath;Charlene S Dezzutti;Elizabeth Sinclair;Chris A. R. Baker;Barbara L Shacklett;Dayong Gao;Florian Hladik;

10.1101/039578 — Immunology — Posted on 2016-05-18

476 RNA Synthesis is Associated with Multiple TBP-Chromatin Binding Events

Hussain Asim Zaidi;David Auble;Stefan Bekiranov;

10.1101/045161 — Genomics — Posted on 2016-05-24

477 Evaluation of SNP-based genotyping to monitor tuberculosis control in a high MDR-TB setting

Nestani Tukvadze;Indra L Bergval;Nino Bablishvili;Nino Bzekalava;Anja RJ Schuitema;Jessica de Beer;Rina de Zwaan;Sandra Alba;Dick van Soolingen;Rusudan Aspindzelashvili;Richard M Anthony;Sarah Sengstake;

10.1101/044370 — Microbiology — Posted on 2016-05-27

478 Proteomic and genomic characterization of a yeast model for Ogden syndrome

Max Doerfel;Han Fang;Jonathan Crain;Michael E Klingener;Jake Weiser;Gholson J Lyon;

10.1101/045047 — Genomics — Posted on 2016-05-03

479 Genome-Wide Analysis of Single Non-Templated Nucleotides in Plant Endogenous siRNAs and miRNAs

Feng Wang;Nathan R Johnson;Ceyda Coruh;Michael J Axtell;

10.1101/044982 — Plant Biology — Posted on 2016-05-12

480 A neural basis for the spatial suppression of visual motion perception

Liu D Liu;Ralf M Haefner;Christopher C Pack;

10.1101/044974 — Neuroscience — Posted on 2016-05-05

481 Single-Cell Gene Expression Profi ling and Cell State Dynamics: Collecting Data, Correlating Data Points and Connecting the Dots

Carsten Marr;Joseph Xu Zhou;Sui Huang;

10.1101/044743 — Systems Biology — Posted on 2016-05-12

482 Anxiolytic treatment impairs helping behavior in rats

Inbal Ben-Ami Bartal;Haozhe Shan;Nora Molasky;Teresa Murray;Jasper Williams;Jean Decety;Peggy Mason;

10.1101/044180 — Animal Behavior and Cognition — Posted on 2016-05-20

483 Improved Placement of Multi-Mapping Small RNAs

Nathan R Johnson;Jonathan M Yeoh;Ceyda Coruh;Michael J Axtell;

10.1101/044099 — Bioinformatics — Posted on 2016-05-09

484 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 2016-05-11

485 Most Compositae (Asteraceae) are descendants of a paleohexaploid and all share a paleotetraploid ancestor with the Calyceraceae

Michael Barker;Zheng Li;Thomas Kidder;Chris Reardon;Zhao Lai;Luiz Oliveira;Moira Scascitelli;Loren Rieseberg;

10.1101/043455 — Evolutionary Biology — Posted on 2016-05-06

486 Septins are involved at the early stages of macroautophagy.

Gaurav Barve;Shreyas Sridhar;Amol Aher;Sunaina Singh;Lakshmeesha K.N.;Ravi Manjithaya;

10.1101/043133 — Cell Biology — Posted on 2016-05-04

487 Exact length distribution of filamentous structures assembled from a finite pool of subunits

David Harbage;Jane Kondev;

10.1101/042184 — Biophysics — Posted on 2016-05-03

488 A missense mutation in TUBD1 is associated with high juvenile mortality in Braunvieh and Fleckvieh cattle

Hermann Schwarzenbacher;Johann Burgstaller;Franz R Seefried;Christine Wurmser;Monika Hilbe;Simone Jung;Christian Fuerst;Nora Dinhopl;Herbert Weissenboeck;Birgit Fuerst-Waltl;Marlies Dolezal;Reinhard Winkler;Oskar Grueter;Ulrich Bleul;Thomas Wittek;Ruedi Fries;Hubert Pausch;

10.1101/041921 — Genomics — Posted on 2016-05-03

489 A Powerful Procedure for Pathway-based Meta-Analysis Using Summary Statistics Identifies 43 Pathways Associated with Type II Diabetes in European Populations

Han Zhang;William Wheeler;Paula L Hyland;Yifan Yang;Jianxin Shi;Nilanjan Chatterjee;Kai Yu;

10.1101/041244 — Genetics — Posted on 2016-05-01

490 Identification and qualification of 500 nuclear, single-copy, orthologous genes for the Eupulmonata (Gastropoda) using transcriptome sequencing and exon-capture

Luisa C Teasdale;Frank Koehler;Kevin D Murray;Tim O'Hara;Adnan Moussalli;

10.1101/035543 — Genomics — Posted on 2016-05-03

491 eQTL regulating Transcript Levels Associated with Diverse Biological Processes in Tomato

Aashish Ranjan;Jessica M Budke;Steven D Rowland;Daniel H Chitwood;Ravi Kumar;Leonela Carriedo;Yasunori Ichihashi;Kristina Zumstein;Julin N Maloof;Neelima R Sinha;

10.1101/040592 — Genomics — Posted on 2016-05-31

492 CAGEd-oPOSSUM: motif enrichment analysis from CAGE-derived TSSs

David J Arenillas;Alistair R.R. Forrest;Hideya Kawaji;Timo Lassman;The FANTOM Consortium;Wyeth W. Wasserman;Anthony Mathelier;

10.1101/040667 — Bioinformatics — Posted on 2016-05-06

493 Boiler: Lossy compression of RNA-seq alignments using coverage vectors

Jacob Pritt;Ben Langmead;

10.1101/040634 — Bioinformatics — Posted on 2016-05-27

494 Micro- and macroevolutionary trade-offs in plant-feeding insects

Daniel Peterson;Nate B. Hardy;Benjamin B. Normark;

10.1101/040311 — Evolutionary Biology — Posted on 2016-05-25

495 Semi-Supervised Learning of the Electronic Health Record for Phenotype Stratification

Brett K Beaulieu-Jones;Casey S Greene;

10.1101/039800 — Bioinformatics — Posted on 2016-05-26

496 A Central Limit Theorem for Punctuated Equilibrium

Krzysztof Bartoszek;

10.1101/039867 — Evolutionary Biology — Posted on 2016-05-11

497 Aging shapes the population-mean and -dispersion of gene expression in human brains

Candice L Brinkmeyer-Langford;Jinting Guan;Guoli Ji;James J Cai;

10.1101/039933 — Genetics — Posted on 2016-05-19

498 Transhydrogenase and growth substrate influence lipid hydrogen isotope ratios in Desulfovibrio alaskensis G20

William D. Leavitt;Theodore M Flynn;Melanie K Suess;Alexander S Bradley;

10.1101/039792 — Microbiology — Posted on 2016-05-13

499 Tetraeffective causes, mortacauses, and vitacauses of mortality and survivorship

Michael Epelbaum;

10.1101/039438 — Ecology — Posted on 2016-05-30

500 Model-based projections of Zika virus infections in childbearing women in the Americas

Alex Perkins;Amir Siraj;Corrine Warren Ruktanonchai;Moritz Kraemer;Andrew Tatem;

10.1101/039610 — Ecology — Posted on 2016-05-19

501 Salmonid chromosome evolution as revealed by a novel method for comparing RADseq linkage maps

Ben J G Sutherland;Thierry Gosselin;Eric Normandeau;Manuel Lamothe;Nathalie Isabel;Celine Audet;Louis Bernatchez;

10.1101/039164 — Genetics — Posted on 2016-05-25

502 Non-linear tumor-immune interactions arising from spatial metabolic heterogeneity

Mark Robertson-Tessi;Robert J Gillies;Robert A Gatenby;Alexander RA Anderson;

10.1101/038273 — Cancer Biology — Posted on 2016-05-04

503 ELF3 polyQ variation in Arabidopsis thaliana reveals a PIF4-independent role in thermoresponsive flowering.

Maximilian O Press;Amy Lanctot;Christine Queitsch;

10.1101/038257 — Plant Biology — Posted on 2016-05-27

504 Dichotomy of cellular inhibition by small-molecule inhibitors revealed by single-cell analysis

Robert Vogel;Amir Erez;Grégoire Altan-Bonnet;

10.1101/038000 — Systems Biology — Posted on 2016-05-06

505 The wiring diagram of a glomerular olfactory system

Matthew E. Berck;Avinash Khandelwal;Lindsey Claus;Luis Hernandez-Nunez;Guangwei Si;Christopher J. Tabone;Feng Li;James W. Truman;Richard D. Fetter;Matthieu Louis;Aravinthan D. T. Samuel;Albert Cardona;

10.1101/037721 — Neuroscience — Posted on 2016-05-12

506 The prognostic potential of alternative transcript isoforms across human tumors

Juan L. Trincado;Endre Sebestyen;Amadis Pages;Eduardo Eyras;

10.1101/036947 — Cancer Biology — Posted on 2016-05-19

507 A convex optimization approach for identification of human tissue-specific interactomes

Shahin Mohammadi;Ananth Grama;

10.1101/036830 — Systems Biology — Posted on 2016-05-05

508 Differential methylation between ethnic sub-groups reflects the effect of genetic ancestry and environmental exposures

Joshua M Galanter;Christopher R Gignoux;Sam S Oh;Dara Torgerson;Maria Pino-Yanes;Neeta Thakur;Celeste Eng;Donglei Hu;Scott Huntsmann;Harold J Farber;Pedro Avila;Emerita Brigino-Buenaventura;Michael LeNoir;Kelly Meade;Denise Serebrisky;William Rodriguez-Cintron;Rajessh Kumar;Jose R Rodriguez-Santana;Max Seibold;Luisa Borrell;Esteban G Burchard;Noah Zaitlen;

10.1101/036822 — Genetics — Posted on 2016-05-19

509 An Ancestry Based Approach for Detecting Interactions

Danny Park;Itamar Eskin;Eun Yong Kang;Eric R Gamazon;Celeste Eng;Christopher R Gignoux;Joshua M Galanter;Esteban Burchard;Chun J Ye;Hugues Aschard;Eleazar Eskin;Eran Halperin;Noah Zaitlen;

10.1101/036640 — Genetics — Posted on 2016-05-01

510 Assessing Variations in Areal Organization for the Intrinsic Brain: From Fingerprints to Reliability

Ting Xu;Alexander Opitz;R. Cameron Craddock;Margaret Wright;Xi-Nian Zuo;Michael Milham;

10.1101/035790 — Neuroscience — Posted on 2016-05-16

511 PEDLA: predicting enhancers with a deep learning-based algorithmic framework

Feng Liu;Hao Li;Chao Ren;Xiaochen Bo;Wenjie Shu;

10.1101/036129 — Bioinformatics — Posted on 2016-05-18

512 Genome-wide identification and characterisation of HOT regions in the human genome

Hao Li;Feng Liu;Chao Ren;Xiaochen Bo;Wenjie Shu;

10.1101/036152 — Genomics — Posted on 2016-05-18

513 Choosing panels of genomics assays using submodular optimization

Kai Wei;Maxwell W Libbrecht;Jeffrey A Bilmes;William Noble;

10.1101/036137 — Bioinformatics — Posted on 2016-05-27

514 Comparative analysis of single-cell RNA sequencing methods

Christoph Ziegenhain;Beate Vieth;Swati Parekh;Björn Reinius;Martha Smets;Heinrich Leonhardt;Ines Hellmann;Wolfgang Enard;

10.1101/035758 — Genomics — Posted on 2016-05-31

515 scDD: A statistical approach for identifying differential distributions in single-cell RNA-seq experiments

Keegan D. Korthauer;Li-Fang Chu;Michael A. Newton;Yuan Li;James Thomson;Ron Stewart;Christina Kendziorski;

10.1101/035501 — Genomics — Posted on 2016-05-13

516 The Fisher-Wright model with deterministic seed bank and selection

Bendix Koopmann;Johannes Mueller;Aurelien Tellier;Daniel Zivkovic;

10.1101/035246 — Evolutionary Biology — Posted on 2016-05-20

517 High-throughput pipeline for de-novo assembly and drug resistance mutations identification from Next-Generation Sequencing viral data of residual diagnostic samples

Tiziano Gallo Cassarino;Dan Frampton;Robert Sugar;Elijah Charles;Zisis Kozlakidis;Paul Kellam;

10.1101/035154 — Bioinformatics — Posted on 2016-05-17

518 High-throughput pipeline for de-novo assembly and drug resistance mutations identification from Next-Generation Sequencing viral data of residual diagnostic samples

Tiziano Gallo Cassarino;Dan Frampton;Robert Sugar;Elijah Charles;Zisis Kozlakidis;Paul Kellam;

10.1101/035154 — Bioinformatics — Posted on 2016-05-16

519 High-throughput pipeline for de-novo assembly and drug resistance mutations identification from Next-Generation Sequencing viral data of residual diagnostic samples

Tiziano Gallo Cassarino;Dan Frampton;Robert Sugar;Elijah Charles;Zisis Kozlakidis;Paul Kellam;

10.1101/035154 — Bioinformatics — Posted on 2016-05-13

520 State aggregation for fast likelihood computations in molecular evolution

Iakov I Davydov;Marc Robinson-Rechavi;Nicolas Salamin;

10.1101/035063 — Bioinformatics — Posted on 2016-05-12

521 MeSH-informed enrichment analysis and MeSH-guided semantic similarity among functional terms and gene products in chicken

Gota Morota;Timothy Mathes Beissinger;Francisco Peñagaricano;

10.1101/034975 — Genetics — Posted on 2016-05-10

522 MicroScope: ChIP-seq and RNA-seq software analysis suite for gene expression heatmaps

Bohdan B Khomtchouk;James Hennessy;Claes Wahlestedt;

10.1101/034694 — Bioinformatics — Posted on 2016-05-30

523 The Brain Imaging Data Structure: a standard for organizing and describing outputs of neuroimaging experiments

Krzysztof Jacek Gorgolewski;Tibor Auer;Vince D. Calhoun;R. Cameron Craddock;Samir Das;Eugene P. Duff;Guillaume Flandin;Satrajit S. Ghosh;Tristan Glatard;Yaroslav O. Halchenko;Daniel A. Handwerker;Michael Hanke;David Keator;Xiangrui Li;Zachary Michael;Camille Maumet;B. Nolan Nichols;Thomas E. Nichols;John Pellman;Jean-Baptiste Poline;Ariel Rokem;Gunnar Schaefer;Vanessa Sochat;William Triplett;Jessica A. Turner;Gaël Varoquaux;Russell A. Poldrack;

10.1101/034561 — Neuroscience — Posted on 2016-05-12

524 A Multiscale Framework for Deconstructing the Ecosystem Physical Template of High-Altitudes Lakes

Dragos G Zaharescu;Peter S Hooda;Carmen I Burghelea;Antonio Palanca-Soler;

10.1101/034405 — Ecology — Posted on 2016-05-26

525 Mutation rates and the evolution of germline structure

Aylwyn Scally;

10.1101/034298 — Genetics — Posted on 2016-05-16

526 Human copy number variants are enriched in regions of low-mappability

Jean Monlong;Caroline Meloche;Guy Rouleau;Patrick Cossette;Simon Louis Girard;Guillaume Bourque;

10.1101/034165 — Genomics — Posted on 2016-05-09

527 On the Apportionment of Population Structure

Yaron Granot;Omri Tal;Saharon Rosset;Karl Skorecki;

10.1101/033852 — Evolutionary Biology — Posted on 2016-05-25

528 Competition between binding sites determines gene expression at low transcription factor concentrations

David van Dijk;Eilon Sharon;Maya Lotan-Pompan;Adina Weinberger;Eran Segal;Lucas Carey;

10.1101/033753 — Systems Biology — Posted on 2016-05-05

529 Avoidance of stochastic RNA interactions can be harnessed to control protein expression levels in bacteria and archaea

Sinan Ugur Umu;Anthony M Poole;Renwick C.J. Dobson;Paul P. Gardner;

10.1101/033613 — Bioinformatics — Posted on 2016-05-06

530 Immigration rates during population density reduction in a coral reef fish

Katrine Turgeon;Donald L. Kramer;

10.1101/033274 — Ecology — Posted on 2016-05-10

531 The role of deleterious substitutions in crop genomes

Thomas J Y Kono;Fengli Fu;Mohsen Mohammadi;Paul J Hoffman;Chaochih Liu;Robert M Stupar;Kevin P Smith;Peter Tiffin;Justin C Fay;Peter L Morrell;

10.1101/033175 — Genetics — Posted on 2016-05-12

532 Latitude delineates patterns of biogeography in terrestrial Streptomyces

Mallory J Choudoir;James R Doroghazi;Daniel H Buckley;

10.1101/032169 — Microbiology — Posted on 2016-05-05

533 Cortical state and natural movie responses in cat visual cortex

Martin A Spacek;Nicholas V Swindale;

10.1101/031765 — Neuroscience — Posted on 2016-05-23

534 pong: fast analysis and visualization of latent clusters in population genetic data

Aaron A Behr;Katherine Z Liu;Gracie Liu-Fang;Priyanka Nakka;Sohini Ramachandran;

10.1101/031815 — Genomics — Posted on 2016-05-18

535 Comprehensive cross-population analysis of high-grade serous ovarian cancer supports no more than three subtypes

Gregory P Way;James Rudd;Chen Wang;Habib Hamidi;Brooke L Fridley;Gottfried Konecny;Ellen L Goode;Casey S Greene;Jennifer A Doherty;

10.1101/030239 — Cancer Biology — Posted on 2016-05-19

536 Analysis of protein-coding genetic variation in 60,706 humans

Exome Aggregation Consortium;Monkol Lek;Konrad Karczewski;Eric Minikel;Kaitlin Samocha;Eric Banks;Timothy Fennell;Anne O'Donnell-Luria;James Ware;Andrew Hill;Beryl Cummings;Taru Tukiainen;Daniel Birnbaum;Jack Kosmicki;Laramie Duncan;Karol Estrada;Fengmei Zhao;James Zou;Emma Pierce-Hoffman;Joanne Berghout;David Cooper;Nicole Deflaux;Mark DePristo;Ron Do;Jason Flannick;Menachem Fromer;Laura Gauthier;Jackie Goldstein;Namrata Gupta;Daniel Howrigan;Adam Kiezun;Mitja Kurki;Ami Levy Moonshine;Pradeep Natarajan;Lorena Orozco;Gina Peloso;Ryan Poplin;Manuel Rivas;Valentin Ruano-Rubio;Samuel Rose;Douglas