bioRxiv directory

Loraine Campanati;Luiza M. Higa;Rodrigo Delvecchio;Paula Pezzuto;Ana Luiza Valadão;Fábio L. Monteiro;Grasiella M. Ventura;Carla Veríssimo;Renato S. Aguiar;Ana Maria B. De Filippis;Amilcar Tanuri;

10.1101/046599 — Microbiology — Posted on 2016-03-31

9 In Silico method for identification of MHC class I-like molecules in whole genomes

Peter Reinink;Ildiko van Rhijn;

10.1101/046607 — Immunology — Posted on 2016-03-31

10 Epigenetic regulation of miR-218 and its host gene, SLIT2 in breast cancer

Ganesh Babu;ARIVUDAI NAMBI;

10.1101/046482 — Genomics — Posted on 2016-03-31

11 Control of Transposon-mediated Activation of the glpFK Operon of Escherichia coli by two DNA binding Proteins

Zhongge Zhang;Milton H. Saier;

10.1101/046649 — Genetics — Posted on 2016-03-31

12 LOOKING FOR ENERGY IN POPULATION DATA : HOW TO DETECT SELF-ORGANIZATION IN HUMAN COMMUNITY DISTRIBUTION

Josep M Casas-Busquet;Agusti Poch-Pares;

10.1101/046557 — Ecology — Posted on 2016-03-31

13 A new dispersal-informed null model for community ecology shows strong performance

Eliot Miller;

10.1101/046524 — Ecology — Posted on 2016-03-31

14 OncoPhase: Quantification of somatic mutation cellular prevalence using phase information

Donatien Chedom-Fotso;Ahmed Ashour Ahmed;Christopher Yau;

10.1101/046631 — Bioinformatics — Posted on 2016-03-31

15 Evaluating performance of metagenomic characterization algorithms using in silico datasets generated with FASTQSim

Darrell O. Ricke;Anna Shcherbina;Nelson Chiu;

10.1101/046532 — Bioinformatics — Posted on 2016-03-31

16 Functional partitioning of local and distal gene expression regulation in multiple human tissues

Xuanyao Liu;Hilary Kiyo Finucane;Alexander Gusev;Gaurav Bhatia;Steven Gazal;Luke O'Connor;Brendan Bulik-Sullivan;Fred Wright;Patrick Sullivan;Benjamin Neale;Alkes Price;

10.1101/046383 — Genomics — Posted on 2016-03-31

17 Sensitive detection of rare disease-associated cell subsets via representation learning.

Eirini Arvaniti;Manfred Claassen;

10.1101/046508 — Bioinformatics — Posted on 2016-03-31

18 Multi-Connection Pattern Analysis: Decoding the Representational Content of Neural Communication

Yuanning Li;Avniel Singh Ghuman;

10.1101/046441 — Neuroscience — Posted on 2016-03-31

19 Multiplex shRNA Screening of Germ Cell Development by in vivo Transfection of Mouse Testis

Nicholas Ho;Abul Usmani;Yan Yin;Liang Ma;Donald Conrad;

10.1101/046391 — Genomics — Posted on 2016-03-31

20 Expansion of the CRISPR toolbox in an animal with tRNA-flanked Cas9 and Cpf1 gRNAs

Fillip Port;Simon L Bullock;

10.1101/046417 — Genetics — Posted on 2016-03-31

21 Expansion of the CRISPR toolbox in an animal with tRNA-flanked Cas9 and Cpf1 gRNAs

Fillip Port;Simon L Bullock;

10.1101/046417 — Genetics — Posted on 2016-03-31

22 Evolutionary determinants of morphological polymorphism in colonial animals

Carl Simpson;Jeremy B.C. Jackson;Amalia Herrera-Cubilla;

10.1101/046409 — Evolutionary Biology — Posted on 2016-03-31

23 Evolutionary stability of microbial communities with antibiotic degrading species

Eric D Kelsic;Kalin Vetsigian;Roy Kishony;

10.1101/045732 — Evolutionary Biology — Posted on 2016-03-31

24 FOCUS2: agile and sensitive classification of metagenomics data using a reduced database

Genivaldo Silva;Bas Dutilh;Robert Edwards;

10.1101/046425 — Bioinformatics — Posted on 2016-03-31

25 Nanoscopic compartmentalization of membrane protein motion at the axon initial segment

David Albrecht;Christian M Winterflood;Thomas Tschager;Helge Ewers;

10.1101/046375 — Cell Biology — Posted on 2016-03-31

26 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 2016-03-30

27 Structural and kinetic analysis of the COP9-Signalosome activation and the cullin-RING ubiquitin ligase deneddylation cycle

Ruzbeh Mosadeghi;Kurt M Reichermeier;Martin Winkler;Anne Schreiber;Justin M Reitsma;Yaru Zhang;Florian Stengel;Junyue Cao;Minsoo Kim;Michael J Sweredoski;Sonja Hess;Alexander Leitner;Ruedi Aebersold;Matthias Peter;Raymond J Deshaies;Radolsav I Enchev;

10.1101/046367 — Biochemistry — Posted on 2016-03-30

28 Metacognitive ability predicts hippocampal and prefrontal microstructure

Micah Allen;James C Glen;Daniel Mullensiefen;D. Sam Schwarzkopf;Martina F. Callaghan;Geraint Rees;

10.1101/046359 — Neuroscience — Posted on 2016-03-30

29 Classification of Wolbachia (Alphaproteobacteria, Rickettsiales): No evidence for a distinct supergroup in cave spiders

Michael Gerth;

10.1101/046169 — Microbiology — Posted on 2016-03-30

30 Bone marrow mesenchymal stem cells from osteoporotic patients do not show altered mitochondrial energetics or ultrastructure

Clemens WI Moll;Richard A. Lindtner;Georg F. Vogel;Martina Brunner;Karin Gutleben;Michael Blauth;Gerhard Krumschnabel;Hannes L. Ebner;

10.1101/046300 — Cell Biology — Posted on 2016-03-30

31 Zika virus outbreak in the Americas: Is Aedes albopictus an overlooked culprit?

Azeem Mehmood Butt;Izza Nasrullah;Raheel Qamar;Yigang Tong;

10.1101/044594 — Bioinformatics — Posted on 2016-03-30

32 Dorsal anterior cingulate and ventromedial prefrontal cortex have inverse roles in both foraging and economic choice

Amitai Shenhav;Mark A Straccia;Matthew M Botvinick;Jonathan D Cohen;

10.1101/046276 — Neuroscience — Posted on 2016-03-30

33 Multivariate Pattern Connectivity

Stefano Anzellotti;Caramazza;Rebecca Saxe;

10.1101/046151 — Neuroscience — Posted on 2016-03-30

34 FREEZE DRIED EXTRACTS OF Bidens biternata (Lour.) Merr. And Sheriff. SHOW SIGNIFICANT ANTIDIARRHEAL ACTIVITY IN -VIVO MODELS OF DIARRHEA

Dennis G Kinuthia;Anne W Muriithi;Peter Waweru Mwangi;

10.1101/046185 — Pharmacology and Toxicology — Posted on 2016-03-29

35 Population imaging at subcellular resolution supports specific and local inhibition by granule cells in the olfactory bulb

Martin Wienisch;Venkatesh N Murthy;

10.1101/046144 — Neuroscience — Posted on 2016-03-29

36 Development of genomic resources for four potential environmental bioindicator species: Isoperla grammatica, Amphinemura sulcicollis, Oniscus asellus and Baetis rhodani.

Hannah C Macdonald;Luis Cunha;Michael W Bruford;

10.1101/046227 — Genomics — Posted on 2016-03-29

37 Genome-wide measurement of spatial expression in patterning mutants of Drosophila melanogaster

Peter A. Combs;Michael B Eisen;

10.1101/046128 — Genomics — Posted on 2016-03-29

38 Locally Epistatic Models for Genome-wide Prediction and Association by Importance Sampling

Deniz Akdemir;Jean-Luc Jannink;

10.1101/046177 — Genetics — Posted on 2016-03-30

39 Locally Epistatic Models for Genome-wide Prediction and Association by Importance Sampling

Deniz Akdemir;Jean-Luc Jannink;

10.1101/046177 — Genetics — Posted on 2016-03-29

40 dupRadar: a Bioconductor package for the assessment of PCR artifacts in RNA-Seq data

Sergi Sayols;Denise Scherzinger;Holger Klein;

10.1101/046243 — Bioinformatics — Posted on 2016-03-29

41 SAMSA: A comprehensive metatranscriptome analysis pipeline

Samuel T Westreich;Ian Korf;David A Mills;Danielle G Lemay;

10.1101/046201 — Bioinformatics — Posted on 2016-03-29

42 BIGMAC : Breaking Inaccurate Genomes and Merging Assembled Contigs for long read metagenomic assembly

Ka Kit Lam;Richard Hall;Alicia Clum;Satish Rao;

10.1101/045690 — Bioinformatics — Posted on 2016-03-29

43 InfoDengue: a nowcasting system for the surveillance of dengue fever transmission

Claudia Codeco;Oswaldo Cruz;Thais I Riback;Carolin M Degener;Marcelo F Gomes;Daniel Villela;Leonardo Bastos;Sabrina Camargo;Valeria Saraceni;Maria Cristina F Lemos;Flavio C Coelho;

10.1101/046193 — Bioengineering — Posted on 2016-03-29

44 The dynamic landscape of fission yeast meiosis alternative-splice isoforms

Zheng Kuang;Jef D. Boeke;Stefan Canzar;

10.1101/045922 — Genomics — Posted on 2016-03-29

45 PhredEM: A Phred-Score-Informed Genotype-Calling Approach for Next-Generation Sequencing Studies

Peizhou Liao;Glen Satten;Yijuan Hu;

10.1101/046136 — Genetics — Posted on 2016-03-29

46 Exfoliating Bark Does Not Protect Platanus occidentalis L. From Root-Climbing Lianas

Thomas Rooney;James Milks;Justin Hibbard;

10.1101/046102 — Ecology — Posted on 2016-03-29

47 SCPattern: A statistical approach to identify and classify expression changes in single cell RNA-seq experiments with ordered conditions

Ning Leng;Li-Fang Chu;Jeea Choi;Christina Kendziorski;James Thomson;Ron Stewart;

10.1101/046110 — Bioinformatics — Posted on 2016-03-29

48 Syndecan functions to regulate Wnt-dependent axon guidance in C. elegans

Samantha N Hartin;Brian D Ackley;

10.1101/046094 — Cell Biology — Posted on 2016-03-28

49 Nanocall: An Open Source Basecaller for Oxford Nanopore Sequencing Data

Matei David;Lewis Jonathan Dursi;Delia Yao;Paul C Boutros;Jared T Simpson;

10.1101/046086 — Bioinformatics — Posted on 2016-03-28

50 Gene cloning and construction of prokaryotic and plant expression vectors of RICIN-A-Chain/PAP-S1 fusion protein and its inhibition of protein synthesis

Yasser S. Hassan;Sherry L. Ogg;

10.1101/046060 — Synthetic Biology — Posted on 2016-03-31

51 Gene cloning and construction of prokaryotic and plant expression vectors of RICIN-A-Chain/PAP-S1 fusion protein and its inhibition of protein synthesis

Yasser S. Hassan;Sherry L. Ogg;

10.1101/046060 — Synthetic Biology — Posted on 2016-03-28

52 Language impairments in ASD resulting from a failed domestication of the human brain

Antonio Benitez-Burraco;Wanda Lattanzi;Elliot Murphy;

10.1101/046037 — Neuroscience — Posted on 2016-03-28

53 NQO1 C609T (Pro187Ser) increases risk of carcinogenesis of Oral Submucous Fibrosis by interacting with phosphorylated p53 and cyclin D1

Sanjit Mukherjee;Jay Gopal Ray;Atul Katarkar;Keya Chaudhuri;

10.1101/046052 — Genetics — Posted on 2016-03-28

54 EVIDENCE FOR ALTERNATE STABLE STATES IN COLLAPSING ECOLOGICAL NETWORKS

Suresh Babu;Gitanjali Yadav;

10.1101/046045 — Ecology — Posted on 2016-03-28

55 The EARP Complex and its Interactor EIPR-1 are Required for Cargo Sorting to Dense-Core Vesicles

Irini Topalidou;Jérôme Cattin-Ortolá;Andrea L Pappas;Kirsten Cooper;Gennifer E Merrihew;Michael J MacCoss;Michael Ailion;

10.1101/046003 — Cell Biology — Posted on 2016-03-28

56 Lack of evidence for cross-frequency phase-phase coupling between theta and gamma oscillations in the hippocampus

Robson Scheffer-Teixeira;Adriano BL Tort;

10.1101/045963 — Neuroscience — Posted on 2016-03-28

57 Analysis of Antibody Hybridization and Autofluorescence in Touch Samples by Flow Cytometry: Implications for Front End Separation of Trace Mixture Evidence

M.Katherine Philpott;Cristina E Stanciu;Ye Jin Kwon;Eduardo Bustamante;Susan Greenspoon;Christopher J Ehrhardt;

10.1101/045948 — Genetics — Posted on 2016-03-28

58 Divergence Model of Protein Evolution

Darrell O. Ricke;

10.1101/045930 — Evolutionary Biology — Posted on 2016-03-28

59 Multi-site internal modification of long DNA substrates for single-molecule studies

Armando de la Torre;Yoori Kim;Andrew A Leal;Ilya J Finkelstein;

10.1101/045955 — Biochemistry — Posted on 2016-03-28

60 A meiotic drive element in the maize pathogen Fusarium verticillioides is located within a 102-kb region of chromosome V.

Jay Pyle;Tejas Patel;Brianna Merril;Chabu Nsokoshi;Morgan McCall;Robert H Proctor;Daren Brown;Thomas M Hammond;

10.1101/045914 — Genetics — Posted on 2016-03-27

61 Div-Seq: A single nucleus RNA-Seq method reveals dynamics of rare adult newborn neurons in the CNS

Naomi Habib;Yinqing Li;Matthias Heidenreich;Lukasz Swiech;John J Trombetta;Feng Zhang;Aviv Regev;

10.1101/045989 — Neuroscience — Posted on 2016-03-27

62 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 2016-03-27

63 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 2016-03-27

64 The neural correlates of two forms of spiritual love: an EEG study

E. S. Louise Faber;

10.1101/045898 — Neuroscience — Posted on 2016-03-27

65 Mixing of Porpoise Ecotypes in South Western UK Waters Revealed by Genetic Profiling

Michael C Fontaine;Oliver Thatcher;Nicolas Ray;Sylvain Piry;Andrew Brownlow;Nicholas J. Davison;Paul Jepson;Rob Deaville;Simon J Goodman;

10.1101/045807 — Evolutionary Biology — Posted on 2016-03-27

66 Integrating ecological genomics and eco-evo-devo reveals multiple adaptive peaks in ant populations of the Arizona Sky Islands

Marie-Julie Favé;Ehab Abouheif;

10.1101/045419 — Evolutionary Biology — Posted on 2016-03-29

67 Integrating ecological genomics and eco-evo-devo reveals multiple adaptive peaks in ant populations of the Arizona Sky Islands

Marie-Julie Favé;Ehab Abouheif;

10.1101/045419 — Evolutionary Biology — Posted on 2016-03-27

68 Disentangling the representation of identity from head view along the human face processing pathway.

J. Swaroop Guntupalli;Kelsey G Wheeler;M. Ida Gobbini;

10.1101/045823 — Neuroscience — Posted on 2016-03-27

69 Fate mapping caudal lateral epiblast reveals continuous contribution to neural and mesodermal lineages and the origin of secondary neural tube

Aida Rodrigo Albors;Pamela A Halley;Kate G Storey;

10.1101/045872 — — Posted on 2016-03-27

70 Vessel recruitment and derecruitment mechanism and paradoxical behaviour of vasoconstriction during ischaemia

Sarangam Majumdar;Kayalvizhi Lakshmanan;

10.1101/045864 — Biophysics — Posted on 2016-03-27

71 Has the time come for preprints in biology?

Needhi Bhalla;

10.1101/045799 — Scientific Communication and Education — Posted on 2016-03-26

72 Clusterflock: A Flocking Algorithm for Isolating Congruent Phylogenomic Datasets

Apurva Narechania;Richard H Baker;Rob DeSalle;Barun Mathema;Barry Kreiswirth;Sergios-Orestis Kolokotronis;Paul J Planet;

10.1101/045773 — Bioinformatics — Posted on 2016-03-25

73 Case-control association mapping without cases

Jimmy Z Liu;Yaniv Erlich;Joseph K Pickrell;

10.1101/045831 — Genetics — Posted on 2016-03-25

74 Are sexually selected traits affected by a poor environment early in life?

Regina Vega-Trejo;Michael Jennions;Megan Head;

10.1101/045740 — Evolutionary Biology — Posted on 2016-03-25

75 Sexual selection on body size, genitals and heterozygosity: effects of demography and habitat complexity

Megan Head;Andrew Kahn;J. Scott Keogh;Michael Jennions;

10.1101/045724 — Evolutionary Biology — Posted on 2016-03-25

76 Experimental evidence for sexual selection against inbred males when it truly counts

Regina Vega-Trejo;Megan Head;J. Scott Keogh;Michael Jennions;

10.1101/045716 — Evolutionary Biology — Posted on 2016-03-25

77 Distinct Responses to Reduplicated Chromosomes Require Distinct Mad2 Responses

Benjamin M Stormo;Donald T Fox;

10.1101/045781 — Cell Biology — Posted on 2016-03-25

78 GDP to GTP exchange on the microtubule end can contribute to the frequency of catastrophe

Felipe-Andres Piedra;Tae Kim;Emily S Garza;Elisabeth A Geyer;Alexander Burns;Xuecheng Ye;Luke M Rice;

10.1101/045765 — Cell Biology — Posted on 2016-03-25

79 Absence of Genome Reduction In Diverse, Facultative Endohyphal Bacteria

David A Baltrus;Kevin Dougherty;Kayla R Arendt;Marcel Huntemann;Alicia Clum;Manoj Pillay;Krishnaveni Palaniappan;Neha Varghese;Natalia Mikhailova;Dimitrios Stamatis;T.B.K. Reddy;Chew Yee Ngan;Chris Daum;Nicole Shapiro;Victor Markowitz;Natalia Ivanova;Nikos Kyrpides;Tanja Woyke;A. Elizabeth Arnold;

10.1101/045708 — Microbiology — Posted on 2016-03-25

80 Genome-wide association study identifies 17 new loci influencing concentrations of circulating cytokines and growth factors

Ari Ahola-Olli;Peter Würtz;Aki S Havulinna;Kristiina Aalto;Niina Pitkänen;Terho Lehtimäki;Mika Kähönen;Leo-Pekka Lyytikäinen;Emma Raitoharju;Ilkka Seppälä;Antti-Pekka Sarin;Samuli Ripatti;Aarno Palotie;Markus Perola;Jorma S Viikari;Sirpa Jalkanen;Mikael Maksimow;Veikko Salomaa;Marko Salmi;Johannes Kettunen;Olli Raitakari;

10.1101/045005 — Genomics — Posted on 2016-03-25

81 Recognizing the Continuous Nature of Expression Heterogeneity and Clinical Outcomes in Clear Cell Renal Cell Carcinoma

Xiaona Wei;Yukti Choudhury;Weng Khong Lim;John Anema;Richard Kahnoski;Brian Lane;John Ludlow;Masayuki Takahashi;Hiro-omi Kanayama;Arie Belldegrun;Hyung Kim;Craig Rogers;David Nicol;Bin Tean Teh;Min-Han Tan;

10.1101/044891 — Cancer Biology — Posted on 2016-03-25

82 Glycerol as the actuator of integral feedback control in yeast osmotic stress signaling

Suzannah Rutherford;

10.1101/045682 — Systems Biology — Posted on 2016-03-30

83 Glycerol as the actuator of integral feedback control in yeast osmotic stress signaling

Suzannah Rutherford;

10.1101/045682 — Systems Biology — Posted on 2016-03-25

84 Genomic evidence for population-specific responses to coevolving parasites in a New Zealand freshwater snail

Laura Bankers;Peter Fields;Kyle E. McElroy;Jeffrey Boore;John M. Logsdon;Maurine Neiman;

10.1101/045674 — Evolutionary Biology — Posted on 2016-03-25

85 Decision Making by Drosophila Flies

Julius Adler;Lar L Vang;

10.1101/045666 — Genetics — Posted on 2016-03-24

86 Mapping and Inheritance analysis of a novel dominant rice male sterility mutant, OsDMS-1

Kun Yang;Yun Chen;Min Shi;Richard Converse;Xin Chen;Baimei Zhao;Yi Zhang;Jun Lv;

10.1101/045625 — Genetics — Posted on 2016-03-24

87 A Multidisciplinary Approach to Explain Biological Aging and Longevity

Brett N Augsburger;

10.1101/045633 — Evolutionary Biology — Posted on 2016-03-24

88 Transvection and pairing of a Drosophila Hox long noncoding RNA in the regulation of Sex combs reduced

Tom Pettini;Matthew R Ronshaugen;

10.1101/045617 — Developmental Biology — Posted on 2016-03-24

89 Hormetic Shifting of Redox Environment by Pro-Oxidative Resveratrol Protects Cells Against Stress

Annabell Plauth;Anne Geikowski;Susanne Cichon;Silvia J Wowro;Linda Liedgens;Morten Rousseau;Christopher Weidner;Luise Fuhr;Magdalena Kliem;Gail Jenkins;Silvina Lotito;Linda Wainwright;Sascha Sauer;

10.1101/045567 — Biochemistry — Posted on 2016-03-24

90 Genotype-specific developmental plasticity shapes the timing and robustness of reproductive capacity in Caenorhabditis elegans

Bradly Alicea;

10.1101/045609 — Developmental Biology — Posted on 2016-03-24

91 Mechanical signals inhibit growth of a grafted tumor in vivo: Proof of Concept

Remy BROSSEL;Alexandre YAHI;Stephane DAVID;Laura MORENO VELASQUEZ;Jean-Marc GUINEBRETIERE;

10.1101/045534 — Cancer Biology — Posted on 2016-03-29

92 Mechanical signals inhibit growth of a grafted tumor in vivo: Proof of Concept

Remy BROSSEL;Alexandre YAHI;Stephane DAVID;Laura MORENO VELASQUEZ;Jean-Marc GUINEBRETIERE;

10.1101/045534 — Cancer Biology — Posted on 2016-03-25

93 Mechanical signals inhibit growth of a grafted tumor in vivo: Proof of Concept

Remy BROSSEL;Alexandre YAHI;Stephane DAVID;Laura MORENO VELASQUEZ;Jean-Marc GUINEBRETIERE;

10.1101/045534 — Cancer Biology — Posted on 2016-03-24

94 Relative contributions of conformational selection and induced fit

Denis Michel;

10.1101/045591 — Biochemistry — Posted on 2016-03-24

95 On the Origin and Evolutionary Consequences of Gene Body DNA Methylation

Adam J Bewick;Lexiang Ji;Chad E Niederhuth;Eva-Maria Willing;Brigitte T Hofmeister;Xiuling Shi;Li Wang;Zefu Lu;Nicholas A Rohr;Benjamin Hartwig;Christiane Kiefer;Roger B Deal;Jeremy Schmutz;Jane Grimwood;Hume Stroud;Steve E Jacobsen;Korbinian Schneeberger;Xiaoyu Zhang;Robert J Schmitz;

10.1101/045542 — Plant Biology — Posted on 2016-03-24

96 Empirical modelling of trait selection by partitioning selection into direct selection and selection that is mediated by interspecific interactions

Christian Damgaard;

10.1101/045583 — Ecology — Posted on 2016-03-24

97 Neural mechanisms for reward-modulated vector learning and navigation: from social insects to embodied agents

Dennis Goldschmidt;Poramate Manoonpong;Sakyasingha Dasgupta;

10.1101/045559 — Animal Behavior and Cognition — Posted on 2016-03-26

98 Neural mechanisms for reward-modulated vector learning and navigation: from social insects to embodied agents

Dennis Goldschmidt;Poramate Manoonpong;Sakyasingha Dasgupta;

10.1101/045559 — Animal Behavior and Cognition — Posted on 2016-03-25

99 Neural mechanisms for reward-modulated vector learning and navigation: from social insects to embodied agents

Dennis Goldschmidt;Poramate Manoonpong;Sakyasingha Dasgupta;

10.1101/045559 — Animal Behavior and Cognition — Posted on 2016-03-24

100 An algebraic approach to parameter optimization in bimolecular bistable systems

Vahid Mardanlou;Elisa Franco;

10.1101/045518 — Systems Biology — Posted on 2016-03-24

101 Complete mitochondrial genome of Muricea crassa and Muricea purpurea (Anthozoa: Octocorallia) from the eastern tropical Pacific

Angelo Poliseno;Odalisca Breedy;Michael Eitel;Gert Woerheide;Hector M Guzman;Stefan Krebs;Helmuth Blum;Sergio Vargas R.;

10.1101/042945 — Genomics — Posted on 2016-03-24

102 The power and pitfalls of Dirichlet-multinomial mixture models for ecological count data

John D. O'Brien;Nicholas Record;Peter Countway;

10.1101/045468 — Ecology — Posted on 2016-03-24

103 fluff: exploratory analysis and visualization of high-throughput sequencing data

Georgios Georgiou;Simon J van Heeringen;

10.1101/045526 — Bioinformatics — Posted on 2016-03-24

104 Towards standard practices for sharing computer code and programs in neuroscience

Stephen Eglen;Ben Marwick;Yaroslav Halchenko;Michael Hanke;Shoaib Sufi;Padraig Gleeson;R. Angus Silver;Andrew Davison;Linda Lanyon;Mathew Abrams;Thomas Wachtler;David J Willshaw;Christophe Pouzat;Jean-Baptiste Poline;

10.1101/045104 — Neuroscience — Posted on 2016-03-24

105 Testing pseudo-linear models of responses to natural scenes in primate retina

Alexander Heitman;Nora Brackbill;Martin Greschner;Alexander Sher;Alan M. Litke;E.J. Chichilnisky;

10.1101/045336 — Neuroscience — Posted on 2016-03-24

106 Isolation of infective Zika virus from urine and saliva of patients in Brazil

Myrna C Bonaldo;Ieda P Ribeiro;Noemia S. Lima;Alexandre A. C. Santos;Lidiane S.R. Menezes;Stephanie O.D. Cruz;Iasmim S. Mello;Nathália D. Furtado;Elaine E. Moura;Luana Damasceno;Keli A.B. Silva;Marcia G. Castro;Alexandra L. Gerber;Luiz G.P. Almeida;Ricardo Lourenço-de-Oliveira;Ana Tereza R. Vasconcelos;Patrícia Brasil;

10.1101/045443 — Microbiology — Posted on 2016-03-24

107 Association between use of the progestin Depot Medroxyprogesterone Acetate and Female Cervicovaginal Lavage Proinflammatory Cytokines among HIV-1 and HSV-2 co-infected African women: a case control study

Edwin Walong;Christopher Gontier;Walter Jaoko;Elizabeth Anne Bukusi;

10.1101/045344 — Immunology — Posted on 2016-03-24

108 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 2016-03-25

109 Cryopreservation of human mucosal leukocytes

10.1101/039578 — Immunology — Posted on 2016-03-24

110 Assessing the measurement transfer function of single-cell RNA sequencing

Hannah R. Dueck;Rizi Ai;Adrian Camarena;Bo Ding;Reymundo Dominguez;Oleg V. Evgrafov;Jian-Bing Fan;Stephen A. Fisher;Jennifer S. Herstein;Tae Kyung Kim;Jae Mun (Hugo) Kim;Ming-Yi Lin;Rui Liu;William J. Mack;Sean McGroty;Joseph Nguyen;Neeraj Salathia;Jamie Shallcross;Tade Souaiaia;Jennifer Spaethling;Chris P. Walker;Jinhui Wang;Kai Wang;Wei Wang;Andre Wilberg;Lina Zheng;Robert H. Chow;James Eberwine;James A. Knowles;Kun Zhang;Junhyong Kim;

10.1101/045450 — Genomics — Posted on 2016-03-24

111 Forward genetics by sequencing EMS variation induced inbred lines.

Charles Addo-Quaye;Elizabeth Buescher;Vijay Chaikam;Norman Best;Ivan Baxter;Brian Dilkes;

10.1101/045427 — Genetics — Posted on 2016-03-24

112 The genetic basis of host choice and resting behavior in the major African malaria vector, Anopheles arabiensis

Bradley J Main;Yoosook Lee;Heather Ferguson;Anicet Kihonda;Nicodem Govella;Katharina S Kreppel;Travis C Collier;Anthony J Cornel;Eleazar Eskin;Eun Yong Kang;Catelyn C Nieman;Allison M Weakley;Gregory Lanzaro;

10.1101/044701 — Genetics — Posted on 2016-03-24

113 Escherichia coli populations adapt to complex, unpredictable fluctuations without any trade-offs across environments

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

10.1101/045369 — Evolutionary Biology — Posted on 2016-03-24

114 Synthesis of titanium dioxide thin films and its application in reducing microbial load of milk

Shruthi N Kumar;Manjula Sarode;Ravishankar H N;

10.1101/045179 — Microbiology — Posted on 2016-03-23

115 Population heterogeneity in mutation rate increases mean fitness and the frequency of higher order mutants

Helen Alexander;Stephanie I. Mayer;Sebastian Bonhoeffer;

10.1101/045377 — Genetics — Posted on 2016-03-30

116 Population heterogeneity in mutation rate increases mean fitness and the frequency of higher order mutants

Helen Alexander;Stephanie I. Mayer;Sebastian Bonhoeffer;

10.1101/045377 — Genetics — Posted on 2016-03-23

117 Recent Cis-Trans Coevolution Driven by the Emergence of A Novel Gene in Drosophila

Benjamin H Krinsky;Robert Arthur;Kevin P White;Manyuan Long;

10.1101/045385 — Evolutionary Biology — Posted on 2016-03-23

118 Spirals, Scalp Whorls and Skin Biomechanics: Nature’s Own Design For Expansion

Sharad P. Paul;

10.1101/043992 — Evolutionary Biology — Posted on 2016-03-23

119 Deep mutational scanning reveals tail anchor characteristics important for mitochondrial targeting

Abdurrahman Keskin;Emel Akdogan;Cory D. Dunn;

10.1101/045351 — Cell Biology — Posted on 2016-03-26

120 Deep mutational scanning reveals tail anchor characteristics important for mitochondrial targeting

Abdurrahman Keskin;Emel Akdogan;Cory D. Dunn;

10.1101/045351 — Cell Biology — Posted on 2016-03-23

121 Modeling multi-particle complexes in stochastic chemical systems

Muir J Morrison;Justin B Kinney;

10.1101/045435 — Biophysics — Posted on 2016-03-23

122 Single cell chemotactic responses of Helicobacter pylori to urea in a microfluidic chip

Xuan Weng;Suresh Neethirajan;Adam Vogt;

10.1101/045328 — Bioengineering — Posted on 2016-03-23

123 Dual immunosensor based on methylene blue-electroadsorbed graphene oxide for rapid detection of influenza virus antigen

Murugan Veerapandian;Robert Hunter;Suresh Neethirajan;

10.1101/045310 — Bioengineering — Posted on 2016-03-23

124 Human mismatch repair system corrects errors produced during lagging strand replication more effectively

Maria Andrianova;Georgii A Bazykin;Sergey Nikolaev;Vladimir Seplyarskiy;

10.1101/045278 — Molecular Biology — Posted on 2016-03-23

125 Speciation by Symbiosis: The Microbiome and Behavior

J. Dylan Shropshire;Seth R. Bordenstein;

10.1101/045195 — Evolutionary Biology — Posted on 2016-03-23

126 The behaviour of hoverfly larvae (Diptera, Syrphidae) lessens the effects of floral subsidy in agricultural landscapes

Elsa A. Laubertie;Steve D. Wratten;Alexandra Magro;Jean Louis RGM Hemptinne;

10.1101/045286 — Ecology — Posted on 2016-03-23

127 Self-assembly Controls Self-cleavage of HHR from ASBVd(-): a Combined SANS and Modeling Study.

Fabrice Leclerc;Giuseppe Zaccai;Jacques Vergne;Martina Rihova;Anne Martel;Marie-Christine Maurel;

10.1101/045054 — Biophysics — Posted on 2016-03-23

128 Attention selectively reshapes the geometry of distributed semantic representation

Samuel A. Nastase;Andrew C. Connolly;Nikolaas N. Oosterhof;Yaroslav O. Halchenko;J. Swaroop Guntupalli;Matteo Visconti di Oleggio Castello;Jason Gors;M. Ida Gobbini;James V. Haxby;

10.1101/045252 — Neuroscience — Posted on 2016-03-23

129 Light sheet microscopy for everyone? Experience of building an OpenSPIM to study flatworm development

Johannes Girstmair;Anne Zakrzewski;François Lapraz;Mette Handberg-Thorsager;Pavel Tomancak;Peter Gabriel Pitrone;Fraser Simpson;Maximilian J Telford;

10.1101/045187 — Developmental Biology — Posted on 2016-03-23

130 Integrating tissue specific mechanisms into GWAS summary results

Alvaro Barbeira;Scott P Dickinson;Jason M Torres;Eric S Torstenson;Jiamao Zheng;Heather E Wheeler;Kaanan P Shah;Todd Edwards;GTEx Consortium;Dan Nicolae;Nancy J Cox;Hae Kyung Im;

10.1101/045260 — Bioinformatics — Posted on 2016-03-23

131 Investigation of the Antimicrobial Activity of Soy Peptides by Developing a High Throughput Drug Screening Assay

Rekha Dhayakaran;Suresh Neethirajan;Xuan Weng;

10.1101/045294 — Bioengineering — Posted on 2016-03-23

132 Neural codes of architectural styles

Heeyoung Choo;Jack Nasar;Bardia Nikrahei;Dirk B Walther;

10.1101/045245 — Neuroscience — Posted on 2016-03-22

133 Signatures of archaic adaptive introgression in present-day human populations

Fernando Racimo;Davide Marnetto;Emilia Huerta-Sanchez;

10.1101/045237 — Evolutionary Biology — Posted on 2016-03-22

134 Genome-wide association study of 40,000 individuals identifies two novel loci associated with bipolar disorder

Liping Hou;Sarah E Bergen;Nirmala Akula;Jie Song;Christina M Hultman;Mikael Landen;Mazda Adli;Martin Alda;Raffaella Ardau;Barbara Arias;Jean-Michel Aubry;Lena Backlund;Judith A Badner;Thomas B Barrett;Michael Bauer;Bernhard T Baune;Frank Bellivier;Antonio Benabarre;Susanne Bengesser;Wade H Berrettini;Abesh Kumar Bhattacharjee;Joanna M Biernacka;Armin Birner;Cinnamon S Bloss;Clara Brichant-Petitjean;Elise T Bui;William Byerley;Pablo Cervantes;Caterina Chillotti;Sven Cichon;Francesc Colom;William Coryell;David W Craig;Cristiana Cruceanu;Piotr M Czerski;Tony Davis;Alexandre Dayer;Franziska Degenh

10.1101/044412 — Genetics — Posted on 2016-03-22

135 Phylogenetic expression profiling reveals widespread coordinated evolution of gene expression

Trevor Martin;Hunter Fraser;

10.1101/045211 — Evolutionary Biology — Posted on 2016-03-22

136 RNA Synthesis is Associated with Multiple TBP-Chromatin Binding Events

Hussain Asim Zaidi;David Auble;Stefan Bekiranov;

10.1101/045161 — Genomics — Posted on 2016-03-22

137 Adaptation in protein fitness landscapes is facilitated by indirect paths

Nicholas C. Wu;Lei Dai;C. Anders Olson;James O. Lloyd-Smith;Ren Sun;

10.1101/045096 — Evolutionary Biology — Posted on 2016-03-22

138 Costs of Clock-Environment Misalignment in Individual Cyanobacterial Cells

Guillaume Lambert;Michael J. Rust;Justin Chew;

10.1101/045146 — Cell Biology — Posted on 2016-03-22

139 Balanced excitation and inhibition decorrelates visual feature representation in the mammalian inner retina

Katrin Franke;Philipp Berens;Timm Schubert;Matthias Bethge;Thomas Euler;Tom Baden;

10.1101/040642 — Neuroscience — Posted on 2016-03-22

140 A trail camera imagery dataset of contrasting shrub and open microsites within the Carrizo Plain National Monument, San Luis Obispo County, California

Taylor Noble;Christopher Lortie;Michael Westphal;H. Scott Butterfield;

10.1101/044933 — Ecology — Posted on 2016-03-22

141 Controlling for confounding effects in single cell RNA sequencing studies using both control and target genes

Mengjie Chen;Xiang Zhou;

10.1101/045070 — Genomics — Posted on 2016-03-22

142 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 2016-03-21

143 A role for YY1 in sex-biased transcription revealed through X-linked promoter activity and allelic binding analyses

Chih-yu Chen;Wenqiang Shi;Allison M. Matthews;Yifeng Li;David J. Arenillas;Anthony Mathelier;Masayoshi Itoh;Hideya Kawaji;Timo Lassmann;FANTOM Consortium;Yoshihide Hayashizaki;Piero Carninci;Alistair R. R. Forrest;Carolyn Janet Brown;Wyeth Wasserman;

10.1101/044172 — Genomics — Posted on 2016-03-21

144 Genome sequence of tsetse bracoviruses: insights into symbiotic virus evolution

Kelvin M Kimenyi;Muna F Abry;Winnie Okeyo;Enock Matovu;Daniel Masiga;Benard W Kulohoma;

10.1101/045088 — Evolutionary Biology — Posted on 2016-03-21

145 In-vivo mutation rates and fitness landscape of HIV-1

Fabio Zanini;Vadim Puller;Johanna Brodin;Jan Albert;Richard Neher;

10.1101/045039 — Evolutionary Biology — Posted on 2016-03-21

146 Mining Large Heterogeneous Cancer Data Sets Using Boolean Implications

Subarna Sinha;David L Dill;

10.1101/045021 — Bioinformatics — Posted on 2016-03-21

147 AuPairWise: a method to estimate RNA-seq replicability through co-expression

Sara Ballouz;Jesse Gillis;

10.1101/044669 — Bioinformatics — Posted on 2016-03-21

148 Drosophila Mutants that Are Motile but Respond Poorly to All Stimuli Tested: Mutants that have a large defect in interaction with stimuli or in executive function

Lar L Vang;Julius Adler;

10.1101/045062 — Genetics — Posted on 2016-03-21

149 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 2016-03-21

150 A Whole Blood Molecular Signature for Acute Myocardial Infarction

Evan D Muse;Eric R Kramer;Haiying Wang;Paddy Barrett;Fereshteh Parviz;Mark A Novotny;Roger S Lasken;Timothy A Jatkoe;Glenn Oliveira;Hongfan Peng;Jerry Lu;Marc C Connelly;Kurt Schilling;Chandra Rao;Ali Torkamani;Eric J Topol;

10.1101/045013 — Genomics — Posted on 2016-03-21

151 Detection of pathways affected by positive selection in primate lineages ancestral to humans

Josephine Daub;Sebastien Moretti;Iakov Igorevich Davydov;Laurent Excoffier;Marc Robinson-Rechavi;

10.1101/044941 — Evolutionary Biology — Posted on 2016-03-21

152 Construction and Experimental Validation of a Petri net Model of Wnt/β-catenin Signaling

Annika Jacobsen;Nika Heijmans;Folkert Verkaar;Martine J. Smit;Jaap Heringa;Renée van Amerongen;K. Anton Feenstra;

10.1101/044966 — Bioinformatics — Posted on 2016-03-21

153 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 2016-03-21

154 Synaptic Transmission Parallels Neuromodulation in a Central Food-Intake Circuit

Philipp Schlegel;Michael J Texada;Anton Miroschnikow;Andreas Schoofs;Sebastian Hückesfeld;Marc Peters;Casey M Schneider-Mizell;Haluk Lacin;Feng Li;Richard D Fetter;James W Truman;Albert Cardona;Michael J Pankratz;

10.1101/044990 — Neuroscience — Posted on 2016-03-21

155 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 2016-03-21

156 Whole Genome Analysis of 132 Clinical Saccharomyces cerevisiae Strains Reveals Extensive Ploidy Variation

Yuan O Zhu;Gavin J Sherlock;Dmitri A Petrov;

10.1101/044958 — Genomics — Posted on 2016-03-21

157 Fossil calibrations for the arthropod Tree of Life

Joanna M Wolfe;Allison C Daley;David A Legg;Gregory D Edgecombe;

10.1101/044859 — Paleontology — Posted on 2016-03-21

158 Notions of similarity for computational biology models

Dagmar Waltemath;Ron Henkel;Robert Hoehndorf;Tim Kacprowski;Christian Knuepfer;Wolfram Liebermeister;

10.1101/044818 — Systems Biology — Posted on 2016-03-21

159 CHITOSAN FROM Portunus Pelagicus IN THE SYNTHESIS OF REDUCED GOLD NANOPARTICLE AS POTENTIAL CARRIER FOR THE DELIVERY OF ERYTHROPOIETIN

Maria Angelica M Duque;Rhowell N Tiozon;Rebecca C Nueva Espana;

10.1101/044875 — Pharmacology and Toxicology — Posted on 2016-03-21

160 Rapid Construction of a Whole-genome Transposon Insertion Collection for Shewanella oneidensis by Knockout Sudoku

Michael Baym;Lev Shaket;Isao A. Anzai;Oluwakemi Adesina;Buz Barstow;

10.1101/044768 — Genetics — Posted on 2016-03-31

161 Rapid Construction of a Whole-genome Transposon Insertion Collection for Shewanella oneidensis by Knockout Sudoku

Michael Baym;Lev Shaket;Isao A. Anzai;Oluwakemi Adesina;Buz Barstow;

10.1101/044768 — Genetics — Posted on 2016-03-21

162 Assemblytics: a web analytics tool for the detection of assembly-based variants

Maria Nattestad;Michael C Schatz;

10.1101/044925 — Genomics — Posted on 2016-03-20

163 The Opposing Effects of Hedonic and Eudaimonic Happiness on Gene Expression is Correlated Noise

Jeffrey A Walker;

10.1101/044917 — Genetics — Posted on 2016-03-21

164 The Opposing Effects of Hedonic and Eudaimonic Happiness on Gene Expression is Correlated Noise

Jeffrey A Walker;

10.1101/044917 — Genetics — Posted on 2016-03-20

165 Identification of combinatorial and singular genomic signatures of host adaptation in influenza A H1N1 and H3N2 subtypes

Zeeshan Khaliq;Mikael Leijon;Sandor Belak;Jan Komorowski;

10.1101/044909 — Bioinformatics — Posted on 2016-03-20

166 Genomic epidemiology and global diversity of the emerging bacterial pathogen Elizabethkingia anophelis

Sebastien Breurec;Alexis Criscuolo;Laure Diancourt;Olaya Rendueles-Garcia;Mathias Vandenbogaert;Virginie Passet;Valerie Caro;Eduardo P.C. Rocha;Marie Touchon;Sylvain Brisse;

10.1101/044792 — Microbiology — Posted on 2016-03-19

167 Antibody mediated epitope mimicry in the pathogenesis of Zika virus related disease

Jane Homan;Robert W Malone;Steven J Darnell;Robert D Bremel;

10.1101/044834 — Immunology — Posted on 2016-03-19

168 Seven SNPs in the Coding Sequence of Leptin Receptor Gene in Long-term Selected Japanese Quail Lines

Kemal Karabağ;Sezai Alkan;Taki Karslı;Cengiz İkten;İnci Sahin;Murat Soner Balcıoğlu;

10.1101/044826 — Genetics — Posted on 2016-03-19

169 Understanding Wolbachia acquisition and co-divergence of hosts and their associated bacteria: Wolbachia infection in the Chorthippus parallelus hybrid zone

Martinez-Rodriguez Paloma;Arroyo-Yebras Francisca;Bella Jose Luis;

10.1101/044784 — Evolutionary Biology — Posted on 2016-03-19

170 Growth Rate-Dependent Global Amplification of Gene Expression

Niki Athanasiadou;Benjamin Neymotin;Nathan Brandt;Darach Miller;Daniel Tranchina;David Gresham;

10.1101/044735 — Cell Biology — Posted on 2016-03-19

171 Extent of EMT promotes invasive, contact-induced sliding on progressively narrower fiber-like tracks

Daniel F Milano;Senthil K Muthuswamy;Anand R Asthagiri;

10.1101/044800 — Cancer Biology — Posted on 2016-03-19

172 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 2016-03-19

173 A catalogue of Bilaterian-specific genes - their function and expression profiles in early development

Andrea Kraemer-Eis;Luca Ferretti;Philipp Schiffer;Peter Heger;Thomas Wiehe;

10.1101/041806 — Evolutionary Biology — Posted on 2016-03-19

174 Many long intergenic non-coding RNAs distally regulate mRNA gene expression levels

Ian McDowell;Athma Pai;Cong Guo;Christopher M Vockley;Christopher D Brown;Timothy E Reddy;Barbara E Engelhardt;

10.1101/044719 — Genomics — Posted on 2016-03-19

175 Transcriptomic comparison of Drosophila snRNP biogenesis mutants: implications for Spinal Muscular Atrophy

Eric L. Garcia;Ying Wen;Kavita Praveen;A. Gregory Matera;

10.1101/044693 — Genomics — Posted on 2016-03-26

176 Transcriptomic comparison of Drosophila snRNP biogenesis mutants: implications for Spinal Muscular Atrophy

Eric L. Garcia;Ying Wen;Kavita Praveen;A. Gregory Matera;

10.1101/044693 — Genomics — Posted on 2016-03-19

177 An atypical role for the myeloid receptor Mincle in CNS injury

Thiruma Arumugam;Silvia Manzanero;Milena Furtado;Patrick Biggins;Yu-Hsuan Hsieh;Mathias Gelderblom;Kelli MacDonald;Ekaterina Salimova;Yu-I Li;Othmar Korn;Deborah Dewar;I Mhairi Macrae;Robert Ashman;Sung-Chun Tang;Nadia Rosenthal;Marc Ruitenberg;Tim Magnus;Christine Wells;

10.1101/044602 — Cell Biology — Posted on 2016-03-19

178 Effects of Unleaded Petroleum on the Macrophage Aggregates (MA) formation in Red King tilapia (Oreochromis sp.) Fingerlings

Ancel Jeff G Beso;Veronica Y Candelaria;Jennifer F dela Cruz;Margie S Tolentino;Anna Danica C Tameta;Allen Espinosa;

10.1101/044537 — Cell Biology — Posted on 2016-03-19

179 Zika Virus Disease: A Simple Model Approach to Rapid Impact Assessment

James Wilson;Robert Malone;Julie Smith Gagen;Roman Pabayo;Zika Response Working Group;

10.1101/044248 — Scientific Communication and Education — Posted on 2016-03-19

180 SnoVault and encodeD: A novel object-based storage system and applications to ENCODE metadata

Benjamin Hitz;Laurence D Rowe;Nikhil Podduturi;David Glick;Ulugbek Baymuradov;Venkat Malladi;Esther Chan;Jean Davidson;Idan Gabdank;Aditi Narayanan;Kathrina Onate;Jason Hilton;Marcus Ho;Brian Lee;Stuart Miyasato;Timothy Dreszer;Cricket Sloan;J Seth Strattan;Forrest Tanaka;Eurie L Hong;J. Michael Cherry;

10.1101/044578 — Bioinformatics — Posted on 2016-03-19

181 SnoVault and encodeD: A novel object-based storage system and applications to ENCODE metadata

10.1101/044578 — Bioinformatics — Posted on 2016-03-19

182 A mathematical model of non-photochemical quenching to study short-term light memory in plants

Anna Barbara Matuszyńska;Somayyeh Heidari;Peter Jahns;Oliver Ebenhoeh;

10.1101/044628 — Plant Biology — Posted on 2016-03-18

183 Probing the causal role of prestimulus interregional synchrony for perceptual integration via tACS

Rolandas Stonkus;Verena Braun;Jess Kerlin;Gregor Volberg;Simon Hanslmayr;

10.1101/044636 — Neuroscience — Posted on 2016-03-18

184 Connecting the sequence-space of bacterial signaling proteins to phenotypes using coevolutionary landscapes

Ryan R. Cheng;Olle Nordesjö;Ryan L. Hayes;Herbert Levine;Samuel C. Flores;José N. Onuchic;Faruck Morcos;

10.1101/044586 — Biophysics — Posted on 2016-03-18

185 Abrupt transitions to tumor extinction: A quasispecies phenotypic model

Josep Sardanyes;Regina Martinez;Carles Simo;Ricard Sole;

10.1101/044644 — Cancer Biology — Posted on 2016-03-18

186 ACE: adaptive cluster expansion for maximum entropy graphical model inference

John P Barton;Eleonora De Leonardis;Alice Coucke;Simona Cocco;

10.1101/044677 — Bioinformatics — Posted on 2016-03-18

187 NanoSim: nanopore sequence read simulator based on statistical characterization

Chen Yang;Justin Chu;René L Warren;Inanç Birol;

10.1101/044545 — Bioinformatics — Posted on 2016-03-18

188 NanoSim: nanopore sequence read simulator based on statistical characterization

Chen Yang;Justin Chu;René L Warren;Inanç Birol;

10.1101/044545 — Bioinformatics — Posted on 2016-03-18

189 Differential Canalograms Detect Outflow Changes from Trabecular Micro-Bypass Stents and Ab Interno Trabeculectomy

Hardik A Parikh;Ralitsa T. Loewen;Pritha Roy;Joel S. Schuman;Kira L. Lathrop;Nils A Loewen;

10.1101/044487 — Physiology — Posted on 2016-03-18

190 Quantification of Focal Outflow Enhancement using Differential Canalograms

Ralitsa T. Loewen;Eric N. Brown;Gordon Scott;Hardik Parikh;Joel S. Schuman;Nils A Loewen;

10.1101/044503 — Physiology — Posted on 2016-03-18

191 Mechanisms for action prediction operate differently in observers with motor experience

Lincoln John Colling;William F Thompson;John Sutton;

10.1101/044438 — Neuroscience — Posted on 2016-03-18

192 Adaptive divergence in transcriptome response to heat and acclimation in Arabidopsis thaliana plants from contrasting climates.

Nana Zhang;Elizabeth Vierling;Stephen Tonsor;

10.1101/044446 — Evolutionary Biology — Posted on 2016-03-18

193 Novel Covariance-Based Neutrality Test of Time-Series Data Reveals Asymmetries in Ecological and Economic Systems

Alex Washburne;Daniel Lacker;Josh Burby;

10.1101/044495 — Ecology — Posted on 2016-03-18

194 Contrasting avoidance - tolerance in heat stress response from thermally contrasting climates in Arabidopsis thaliana

Nana Zhang;Philip Carlucci;Joshua Nguyen;Jai-W Hayes-Jackson;Stephen Tonsor;

10.1101/044461 — Ecology — Posted on 2016-03-18

195 Automated SWATH Data Analysis Using Targeted Extraction of Ion Chromatograms

Hannes L Röst;Ruedi Aebersold;Olga T Schubert;

10.1101/044552 — Bioinformatics — Posted on 2016-03-19

196 Automated SWATH Data Analysis Using Targeted Extraction of Ion Chromatograms

Hannes L Röst;Ruedi Aebersold;Olga T Schubert;

10.1101/044552 — Bioinformatics — Posted on 2016-03-18

197 A Structural and Functional View of Polypharmacology

Aurelio Moya Garcia;Natalie L Dawson;Felix A Kruger;John Overington;Christine Orengo;Juan Antonio Garcia Ranea;

10.1101/044289 — Bioinformatics — Posted on 2016-03-18

198 AVOCADO: Visualization of Workflow-Derived Data Provenance for Reproducible Biomedical Research

Holger Stitz;Stefan Luger;Marc Streit;Nils Gehlenborg;

10.1101/044164 — Bioinformatics — Posted on 2016-03-18

199 Modeling Chromosome Maintenance as a Property of Cell Cycle in Saccharomyces cerevisiae

Jesse P. Frumkin;Biranchi N. Patra;Antony Sevold;Kumkum Ganguly;Chaya Patel;Stephanie Yoon;Molly B. Schmid;Animesh Ray;

10.1101/044339 — Systems Biology — Posted on 2016-03-18

200 Modeling Chromosome Maintenance as a Property of Cell Cycle in Saccharomyces cerevisiae

Jesse P. Frumkin;Biranchi N. Patra;Antony Sevold;Kumkum Ganguly;Chaya Patel;Stephanie Yoon;Molly B. Schmid;Animesh Ray;

10.1101/044339 — Systems Biology — Posted on 2016-03-17

201 Gene Transfer to the Outflow Tract

Yalong Dang;Ralitsa Loewen;Hardik Parikh;Pritha Roy;Nils Loewen;

10.1101/044396 — Molecular Biology — Posted on 2016-03-18

202 Gene Transfer to the Outflow Tract

Yalong Dang;Ralitsa Loewen;Hardik Parikh;Pritha Roy;Nils Loewen;

10.1101/044396 — Molecular Biology — Posted on 2016-03-17

203 Genomic data reveal similar genetic differentiation between invertebrates living under and on a riverine floodplain

Steve Jordan;Amanda DelVecchia;Brian K Hand;Laney Hayssen;Clark Nissley;Gordon Luikart;Jack Stanford;

10.1101/044073 — Genomics — Posted on 2016-03-17

204 Estimating dispersal kernels using genetic parentage data

Michael Bode;David Williamson;Hugo Harrison;Nick Outram;Geoffrey P Jones;

10.1101/044305 — Ecology — Posted on 2016-03-17

205 Devil in the details: growth, productivity, and extinction risk of a data-sparse devil ray

Sebastián A. Pardo;Holly K. Kindsvater;Elizabeth Cuevas-Zimbrón;Oscar Sosa-Nishizaki;Juan Carlos Pérez-Jiménez;Nicholas K. Dulvy;

10.1101/043885 — Ecology — Posted on 2016-03-17

206 Unusual intragenic suppression of an IFT52 gene disruption links hypoxia to the intraflagellar transport in Tetrahymena thermophila.

Drashti Dave;Gautham Pandiyan;Dorota Wloga;Jacek Gaertig;

10.1101/044420 — Cell Biology — Posted on 2016-03-17

207 Experimental tests of the quantum property of protein folding

Liaofu Luo;

10.1101/044230 — Biophysics — Posted on 2016-03-17

208 Evaluation of a Computational Diagnostic for Epistasis in Plant Breeding Populations

Reka Howard;William D Beavis;Alicia Carriquiry;

10.1101/044453 — Genomics — Posted on 2016-03-17

209 Cis-regulatory evolution in prokaryotes revealed by interspecific archaeal hybrids.

Carlo Artieri;Adit Naor;Israela Turgeman-Grott;Yiqi Zhou;Ryan York;Uri Gophna;Hunter Fraser;

10.1101/044362 — Evolutionary Biology — Posted on 2016-03-17

210 Genomic and Metagenomic Analyses Reveal Parallel Ecological Divergence in Heliosperma pusillum (Caryophyllaceae)

Emiliano Trucchi;Bozo Frajman;Thomas Haverkamp;Peter Schoenswetter;Ovidiu Paun;

10.1101/044354 — Evolutionary Biology — Posted on 2016-03-17

211 Three distinct velocities of elongating RNA polymerase define exons and introns

Qianqian Ye;Yoon Jung Kim;Hongyu Zhao;Tae Hoon Kim;

10.1101/044123 — Genomics — Posted on 2016-03-17

212 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 2016-03-17

213 Language deficits in schizophrenia and autism as related oscillatory connectomopathies: an evolutionary account

Elliot Murphy;Antonio Benitez-Burraco;

10.1101/044198 — Neuroscience — Posted on 2016-03-16

214 Contour junctions underlie neural representations of scene categories in high-level human visual cortex

Heeyoung Choo;Dirk B Walther;

10.1101/044156 — Neuroscience — Posted on 2016-03-18

215 Contour junctions underlie neural representations of scene categories in high-level human visual cortex

Heeyoung Choo;Dirk B Walther;

10.1101/044156 — Neuroscience — Posted on 2016-03-16

216 iFORM: incorporating Find Occurrence of Regulatory Motifs

Chao Ren;Hebing Chen;Feng Liu;Hao Li;Xiaochen Bo;Wenjie Shu;

10.1101/044214 — Bioinformatics — Posted on 2016-03-16

217 mixMC: a multivariate statistical framework to gain insight into Microbial Communities

Kim-Anh Le Cao;Mary-Ellen Costello;Vanessa Anne Lakis;Francois Bartolo;Xin-Yi Chua;Remi Brazeilles;Pascale Rondeau;

10.1101/044206 — Bioinformatics — Posted on 2016-03-16

218 Strawberry: fast and accurate genome-guided transcript reconstruction and quantification from RNA-seq

Ruolin Liu;Julie Dickerson;

10.1101/043802 — Bioinformatics — Posted on 2016-03-16

219 Correlation/causation in ecology: towards mechanistic explanations for the Species-Area Relationship

Andersonn Prestes;

10.1101/044081 — Ecology — Posted on 2016-03-16

220 Relic DNA is abundant in soil and obscures estimates of soil microbial diversity

Paul Carini;Patrick J Marsden;Jonathan W Leff;Emily E Morgan;Michael S Strickland;Noah Fierer;

10.1101/043372 — Ecology — Posted on 2016-03-17

221 Relic DNA is abundant in soil and obscures estimates of soil microbial diversity

Paul Carini;Patrick J Marsden;Jonathan W Leff;Emily E Morgan;Michael S Strickland;Noah Fierer;

10.1101/043372 — Ecology — Posted on 2016-03-17

222 Relic DNA is abundant in soil and obscures estimates of soil microbial diversity

Paul Carini;Patrick J Marsden;Jonathan W Leff;Emily E Morgan;Michael S Strickland;Noah Fierer;

10.1101/043372 — Ecology — Posted on 2016-03-16

223 Divergence of gene regulatory network linkages during specification of ectoderm and mesoderm in early development of sea urchins

Eric M Erkenbrack;Eric H Davidson;

10.1101/044149 — Developmental Biology — Posted on 2016-03-16

224 Hybrid systems approach to modeling stochastic dynamics of cell size

Cesar Augusto Vargas-Garcia;Abhyudai Singh;

10.1101/044131 — Systems Biology — Posted on 2016-03-16

225 Macroscopic coherent structures in a stochastic neural network: from interface dynamics to coarse-grained bifurcation analysis

Daniele Avitabile;Kyle C. A. Wedgwood;

10.1101/043976 — Neuroscience — Posted on 2016-03-16

226 A statistical framework for neuroimaging data analysis based on mutual information estimated via a Gaussian copula

Robin A. A. Ince;Bruno L. Giordano;Christoph Kayser;Guillaume A. Rousselet;Joachim Gross;Philippe G. Schyns;

10.1101/043745 — Neuroscience — Posted on 2016-03-16

227 The Deceptively Simple N170 Reflects Network Information Processing Mechanisms Involving Visual Feature Coding and Transfer Across Hemispheres

Robin A. A. Ince;Kasia Jaworska;Joachim Gross;Stefano Panzeri;Nicola J. van Rijsbergen;Guillaume A. Rousselet;Philippe G. Schyns;

10.1101/044065 — Neuroscience — Posted on 2016-03-16

228 LeafCutter: Annotation-free quantification of RNA splicing

Yang I Li;David A Knowles;Jonathan K Pritchard;

10.1101/044107 — Genomics — Posted on 2016-03-16

229 Improved Placement of Multi-Mapping Small RNAs

Nathan R Johnson;Jonathan M Yeoh;Ceyda Coruh;Michael J Axtell;

10.1101/044099 — Bioinformatics — Posted on 2016-03-16

230 Membrane insertion of- and membrane potential sensing by semiconductor voltage nanosensors: feasibility demonstration

Kyoungwon Park;Yung Kuo;Volodymyr Shvadchak;Antonino Ingargiola;Xinghong Dai;Lawrence Hsiung;Wookyeom Kim;Hong Zhou;Peng Zou;Alex Levine;Jack Li;Shimon Weiss;

10.1101/044057 — Bioengineering — Posted on 2016-03-16

231 Object-finding skill created by repeated reward experience

Ali Ghazizadeh;Whitney Griggs;Okihide Hikosaka;

10.1101/043786 — Neuroscience — Posted on 2016-03-16

232 The aptabot: an inducibly affinity-switching, minimally invasive in vivo contrast agent

Elleard Heffern;Jason Fuller;Russell Hanson;

10.1101/043950 — Neuroscience — Posted on 2016-03-16

233 Nol12 is a multifunctional endonuclease at the nexus of RNA and DNA metabolism

Daniel D Scott;Christian Trahan;Pierre-Joachim Zindy;Lisbeth-Carolina Aguilar;Marc Delubac;Karen E Wei;Marlene Oeffinger;

10.1101/043935 — Molecular Biology — Posted on 2016-03-16

234 THE PATTERN OF BACTERIA AND ITS RESISTANCE ON ADULT SEPSIS PATIENT AT Dr. MOEWARDI GENERAL HOSPITAL, INDONESIA

Andika Dwi Mahendra;M Kuswandi Tirtodiharjo;Ika Trisharyanti D Kusuma;

10.1101/044032 — Microbiology — Posted on 2016-03-16

235 Implementing rapid, robust, cost-effective, patient-centred, routine genetic testing in ovarian cancer patients

Angela George;Daniel Riddell;Sheila Seal;Sabrina Talukdar;Shazia Mahamdallie;Elise Ruark;Victoria Cloke;Ingrid Slade;Zoe Kemp;Martin Gore;Ann Strydom;Susana Banerjee;Helen Hanson;Nazneen Rahman;Mainstreaming Cancer Genetics (MCG) Programme;

10.1101/044024 — Genetics — Posted on 2016-03-16

236 The role of transposable elements for gene expression in Capsella hybrids and allopolyploids

Kim Steige;Johan Reimegård;Carolin A Rebernig;Claudia Köhler;Douglas G Scofield;Tanja Slotte;

10.1101/044016 — Evolutionary Biology — Posted on 2016-03-16

237 Climatic warming strengthens a positive feedback between alpine shrubs and fire

James S Camac;Richard J Williams;Carl-Henrik Wahren;Ary A Hoffmann;Peter A Vesk;

10.1101/043919 — Ecology — Posted on 2016-03-16

238 Effect of stand characteristics on tree species richness in and around a conservation area of Bangladesh

Muha Abdullah Al Abdullah Pavel;Sharif A. Mukul;Mohammad Belal Uddin;Kazuhiro Harada;Mohammed Abu Sayed Arfin Khan;

10.1101/044008 — Ecology — Posted on 2016-03-16

239 REVIEW AND ANALYSIS OF MERCURY LEVELS IN BLUE MARLIN (Makaira nigricans, Lacepede 1802) AND SWORDFISH (Xiphias gladius, Linnaeus 1758)

Tiago Rodrigues;Alberto Ferreira Amorim;

10.1101/043893 — Biochemistry — Posted on 2016-03-16

240 Transcriptome remodeling contributes to epidemic disease caused by the human pathogen Streptococcus pyogenes

Stephen Beres;Priyanka Kachroo;Waleed Nasser;Randall Olsen;Luchang Zhu;Anthony Flores;Ivan de la Riva;Jesus Paez-Mayorga;Francisco Jimenez;Concepcion Cantu;Jaana Vuopio;Jari Jalava;Karl Kristinsson;Magnus Gottfredsson;Jukka Corander;Nahuel Fittipaldi;Maria Chiara Di Luca;Dezemona Petrelli;Luca Vitali;Annessa Raiford;Leslie Jenkins;James Musser;

10.1101/043877 — Evolutionary Biology — Posted on 2016-03-16

241 The Cancer Epitope Trees of 23 Early Cervical Cancers in Chinese Women

Xia Li;Hailiang Huang;Yanfang Guang;Yuhua Gong;Chen-Yi He;Xin Yi;Qi;Zhi-Ying Chen;

10.1101/043927 — Cancer Biology — Posted on 2016-03-16

242 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 2016-03-15

243 Genetic predictors of gene expression associated with risk of bipolar disorder

Kaanan Shah;Heather E Wheeler;Eric R Gamazon;Dan L Nicolae;Nancy J Cox;Hae Kyung Im;

10.1101/043752 — Genetics — Posted on 2016-03-15

244 Left-right leaf asymmetry in decussate and distichous phyllotactic systems

Ciera C Martinez;Daniel H Chitwood;Richard S Smith;Neelima R Sinha;

10.1101/043869 — Plant Biology — Posted on 2016-03-15

245 Topologically associated domains are ancient features that coincide with Metazoan clusters of extreme noncoding conservation

Nathan Harmston;Elizabeth Ing-Simmons;Ge Tan;Malcolm Perry;Matthias Merkenschlager;Boris Lenhard;

10.1101/042952 — Genomics — Posted on 2016-03-15

246 A mus-51 RIP allele for transformation of Neurospora crassa

Zachary J Smith;Stacy Bedore;Stephanie Spingler;Thomas M Hammond;

10.1101/043828 — Genetics — Posted on 2016-03-15

247 Local RhoA Activation Induces Cytokinetic Furrows Independent of Spindle Position and Cell Cycle Stage

Elizabeth Wagner;Michael Glotzer;

10.1101/043836 — Cell Biology — Posted on 2016-03-15

248 LoLoPicker: Detecting Low Allelic-Fraction Variants in Low-Quality Cancer Samples from Whole-exome Sequencing Data

Jian Carrot-Zhang;Jacek Majewski;

10.1101/043612 — Bioinformatics — Posted on 2016-03-23

249 LoLoPicker: Detecting Low Allelic-Fraction Variants in Low-Quality Cancer Samples from Whole-exome Sequencing Data

Jian Carrot-Zhang;Jacek Majewski;

10.1101/043612 — Bioinformatics — Posted on 2016-03-16

250 LoLoPicker: Detecting Low Allelic-Fraction Variants in Low-Quality Cancer Samples from Whole-exome Sequencing Data

Jian Carrot-Zhang;Jacek Majewski;

10.1101/043612 — Bioinformatics — Posted on 2016-03-15

251 Common species link global ecosystems to climate change

Bjarte Hannisdal;Kristian A. Haaga;Trond Reitan;David Diego;Lee Hsiang Liow;

10.1101/043729 — Paleontology — Posted on 2016-03-15

252 Transdermal electrical neuromodulation of the trigeminal sensory nuclear complex improves sleep quality and mood.

Alyssa M. Boasso;Hailey Mortimore;Rhonda Silva;Linh Aven;William J. Tyler;

10.1101/043901 — Neuroscience — Posted on 2016-03-15

253 A proposed rule for updating of the head direction cell reference frame following rotations in three dimensions

Jonathan Wilson;Hector Page;Kate Jeffery;

10.1101/043711 — Neuroscience — Posted on 2016-03-15

254 Tissue culture as a source of replicates in non-model plants: variation in cold tolerance in Arabidopsis lyrata ssp. petraea

Tanaka Kenta;Jessica Edwards;Roger K Butlin;Terry Burke;Paul Quick;Peter Urwin;Matthew P. Davey;

10.1101/043695 — Genetics — Posted on 2016-03-15

255 Prediction of kinase-specific phosphorylation sites through an integrative model of protein context and sequence

Ralph Patrick;Coralie Horin;Bostjan Kobe;Kim-Anh Lê Cao;Mikael Bodèn;

10.1101/043679 — Bioinformatics — Posted on 2016-03-15

256 Synlet: an R package for systemically analyzing synthetic lethal RNA interference screen data

Chunxuan Shao;Frank Westermann;Thomas Höfer;

10.1101/043570 — Bioinformatics — Posted on 2016-03-15

257 Hierarchical Association Coefficient Algorithm

Bongsong Kim;

10.1101/043844 — Bioinformatics — Posted on 2016-03-16

258 Hierarchical Association Coefficient Algorithm

Bongsong Kim;

10.1101/043844 — Bioinformatics — Posted on 2016-03-16

259 Hierarchical Association Coefficient Algorithm

Bongsong Kim;

10.1101/043844 — Bioinformatics — Posted on 2016-03-15

260 Trophoblast survival signaling during human placentation requires HIF-induced transcription of HSP70

Chandni V Jain;Philip Jessmon;Charbel T Barrak;Alan D Bolnick;Brian A Kilburn;Michael Hertz;D. Randall Armant;

10.1101/043851 — Developmental Biology — Posted on 2016-03-15

261 Modeling methyl-sensitive transcription factor motifs with an expanded epigenetic alphabet

Coby Viner;James Johnson;Nicolas Walker;Hui Shi;Marcela Sjöberg;David J. Adams;Anne C. Ferguson-Smith;Timothy L. Bailey;Michael M. Hoffman;

10.1101/043794 — Bioinformatics — Posted on 2016-03-15

262 Finding De novo methylated DNA motifs

Vu Ngo;Wei Wang;

10.1101/043810 — Bioinformatics — Posted on 2016-03-15

263 Complex ancient genetic structure and cultural transitions in southern African populations.

Francesco Montinaro;George Busby;Miguel Gonzalez-Santos;Ockie Oosthuitzen;Erika Oosthutizen;Paolo Anagnostou;Giovanni Destro-Bisol;Vincenzo Pascali;Cristian Capelli;

10.1101/043562 — Genomics — Posted on 2016-03-15

264 The evolutionary fates of a large segmental duplication in mouse

Andrew Parker Morgan;James Matthew Holt;Rachel Clara McMullan;Timothy A Bell;Amelia Mary-Frances Clayshulte;John Paul Didion;Liran Yadgary;David Thybert;Duncan T Odom;Paul Flicek;Leonard McMillan;Fernando Pardo-Manuel de Villena;

10.1101/043687 — Genetics — Posted on 2016-03-15

265 The evolutionary fates of a large segmental duplication in mouse

10.1101/043687 — Genetics — Posted on 2016-03-15

266 RNA-seq based analysis of population structure within the maize inbred B73

Zhikai Liang;James C Schnable;

10.1101/043513 — Bioinformatics — Posted on 2016-03-15

267 Royal decree: gene expression in transgenerationally immune primed bumblebee workers mimics a primary immune response

Seth M Barribeau;Paul Schmid-Hempel;Ben M Sadd;

10.1101/043638 — Evolutionary Biology — Posted on 2016-03-15

268 A little walk from physical to biological complexity: protein folding and stability

Fabrizio Pucci;Marianne Rooman;

10.1101/043737 — Bioinformatics — Posted on 2016-03-15

269 GenVisR: Genomic Visualizations in R

Zachary L Skidmore;Alex H Wagner;Robert Lesurf;Katie M Campbell;Jason Kunisaki;Obi L Griffith;Malachi Griffith;

10.1101/043604 — Bioinformatics — Posted on 2016-03-26

270 GenVisR: Genomic Visualizations in R

Zachary L Skidmore;Alex H Wagner;Robert Lesurf;Katie M Campbell;Jason Kunisaki;Obi L Griffith;Malachi Griffith;

10.1101/043604 — Bioinformatics — Posted on 2016-03-15

271 Survey of the Heritability and Sparsity of Gene Expression Traits Across Human Tissues

Heather E Wheeler;Kaanan P Shah;Jonathon Brenner;Tzintzuni Garcia;Keston Aquino-Michaels;GTEx Consortium;Nancy J Cox;Dan L Nicolae;Hae Kyung Im;

10.1101/043653 — Genomics — Posted on 2016-03-15

272 Survey of the Heritability and Sparsity of Gene Expression Traits Across Human Tissues

Heather E Wheeler;Kaanan P Shah;Jonathon Brenner;Tzintzuni Garcia;Keston Aquino-Michaels;GTEx Consortium;Nancy J Cox;Dan L Nicolae;Hae Kyung Im;

10.1101/043653 — Genomics — Posted on 2016-03-15

273 Pathway-Structured Predictive Model for Cancer Survival Prediction: A Two-Stage Approach

Xinyan Zhang;Yan Li;Tomi Akinyemiju;Akinyemi Ojesina;Phillip Buckhaults;Nianjun Liu;Bo Xu;Nengjun Yi;

10.1101/043661 — Bioinformatics — Posted on 2016-03-15

274 Using reciprocity for relating the simulation of transcranial current stimulation to the EEG forward problem

Sven Wagner;Felix Lucka;Johannes Vorwerk;Christoph Herrmann;Guido Nolte;Martin Burger;Carsten H. Wolters;

10.1101/043554 — Neuroscience — Posted on 2016-03-15

275 Bridging the gap between genes and language deficits in schizophrenia: an oscillopathic approach

Elliot Murphy;Antonio Benitez-Burraco;

10.1101/043547 — Neuroscience — Posted on 2016-03-15

276 Hybrid Discrete-Continuum Cellular Automaton (HCA) model of Prostate to Bone Metastasis

Arturo Araujo;David Bastanta;

10.1101/043620 — Cancer Biology — Posted on 2016-03-15

277 KlebSeq: A Diagnostic Tool for Healthcare Surveillance and Antimicrobial Resistance Monitoring of Klebsiella pneumoniae

Jolene R Bowers;Darrin Lemmer;Jason W Sahl;Talima Pearson;Elizabeth M Driebe;David M Engelthaler;Paul Keim;

10.1101/043471 — Molecular Biology — Posted on 2016-03-14

278 FastProject: A Tool for Low-Dimensional Analysis of Single-Cell RNA-Seq Data

David DeTomaso;Nir Yosef;

10.1101/043463 — Genomics — Posted on 2016-03-12

279 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 2016-03-12

280 Computational Pan-Genomics: Status, Promises and Challenges

Tobias Marschall;Manja Marz;Thomas Abeel;Louis Dijkstra;Bas E Dutilh;Ali Ghaffaari;Paul Kersey;Wigard Kloosterman;Veli Makinen;Adam Novak;Benedict Paten;David Porubsky;Eric RIVALS;Can Alkan;Jasmijn Baaijens;Paul I. W. de Bakker;Valentina Boeva;Raoul J.P. Bonnal;Francesca Chiaromonte;Rayan Chikhi;Francesca D. Ciccarelli;Robin Cijvat;Erwin Datema;Cornelia M. Van Duijn;Evan E. Eichler;Corinna Ernst;Eleazar Eskin;Erik Garrison;Mohammed El-Kebir;Gunnar W. Klau;Jan O Korbel;Eric-Wubbo Lameijer;Ben Langmead;Marcel Martin;Paul Medvedev;John C. Mu;Pieter Neerincx;Klaasjan Ouwens;Pierre Peterlongo;Pisan

10.1101/043430 — Genomics — Posted on 2016-03-29

281 Computational Pan-Genomics: Status, Promises and Challenges

10.1101/043430 — Genomics — Posted on 2016-03-12

282 Assessment of functional convergence across study designs in autism

Sara Ballouz;Jesse Gillis;

10.1101/043422 — Genetics — Posted on 2016-03-12

283 Can secondary contact following range expansion be distinguished from barriers to gene flow?

Johanna Bertl;Michael G. B. Blum;

10.1101/043398 — Evolutionary Biology — Posted on 2016-03-12

284 Neural Pattern Change During Encoding of a Narrative Predicts Retrospective Duration Estimates

Olga Lositsky;Janice Chen;Daniel Toker;Christopher J Honey;Jordan L Poppenk;Uri Hasson;Kenneth A Norman;

10.1101/043075 — Neuroscience — Posted on 2016-03-12

285 Genome-wide association between transcription factor expression and chromatin accessibility reveals chromatin state regulators

David Felix Lamparter;Daniel Marbach;Rico Rueedi;Sven Bergmann;Zoltan Kutalik;

10.1101/043414 — Genomics — Posted on 2016-03-12

286 From genomes to phenotypes: Traitar, the microbial trait analyzer

Aaron Weimann;Kyra Mooren;Jeremy Frank;Phillip B Pope;Andreas Bremges;Alice C McHardy;

10.1101/043315 — Bioinformatics — Posted on 2016-03-12

287 PCR-free library preparation greatly reduces stutter noise at short tandem repeats

Melissa Gymrek;

10.1101/043448 — Bioinformatics — Posted on 2016-03-12

288 Whole-genome characterization in pedigreed non-human primates using Genotyping-By-Sequencing and imputation.

Ben N Bimber;Michael J Raboin;John Letaw;Kimberly Nevonen;Jennifer E Spindel;Susan McCouch;Rita Cervera-Juanes;Eliot Spindel;Lucia Carbone;Betsy Ferguson;Amanda Vinson;

10.1101/043240 — Genomics — Posted on 2016-03-12

289 Beyond clines: lineages and haplotype blocks in hybrid zones

Alisa Sedghifar;Yaniv Brandvain;Peter Ralph;

10.1101/043190 — Genetics — Posted on 2016-03-12

290 Demographic stochasticity and resource autocorrelation control biological invasions in heterogeneous landscapes

Andrea Giometto;Florian Altermatt;Andrea Rinaldo;

10.1101/043331 — Ecology — Posted on 2016-03-12

291 Cerebrospinal Fluid and Interstitial Fluid Motion via the Glymphatic Pathway Modelled by Optimal Mass Transport

Vadim Ratner;Yi Gao;Hedok Lee;Maikan Nedergaard;Helene Benveniste;Allen R Tannenbaum;

10.1101/043281 — Neuroscience — Posted on 2016-03-11

292 ALADIN is Required for the Production of Fertile Mouse Oocytes.

Sara Carvalhal;Michelle Stevense;Katrin Koehler;Ronald Naumann;Angela Huebner;Rolf Jessberger;Eric Griffis;

10.1101/043307 — Cell Biology — Posted on 2016-03-11

293 Comprehensive discovery of subsample gene expression components by information explanation: therapeutic implications in cancer

Shirley Pepke;Greg Ver Steeg;

10.1101/043257 — Systems Biology — Posted on 2016-03-11

294 Understanding melanopsin using bayesian generative models − an Introduction

Benedikt V Ehinger;Dennis Eickelbeck;Katharina Spoida;Stefan Herlitze;Peter König;

10.1101/043273 — Neuroscience — Posted on 2016-03-11

295 Replicator Dynamics with Feedback-Evolving Games: Towards a Co-Evolutionary Game Theory

Joshua S Weitz;Sam P Brown;Ceyhun Eksin;Keith Paarporn;William C Ratcliff;

10.1101/043299 — Evolutionary Biology — Posted on 2016-03-11

296 Nature lessons: the whitefly bacterial endosymbiont is a minimal amino acid factory with unusual energetics

Jorge Calle-Espinosa;Miguel Ponce-de-Leon;Diego Santos-Garcia;Francisco J. Silva;Francisco Montero;Juli Pereto;

10.1101/043349 — Systems Biology — Posted on 2016-03-11

297 Exploratory analysis and error modeling of a sequencing technology

Michael Inouye;Kerrin S Small;Yik Y Teo;Heng Li;Nava Whiteford;Tom Skelly;Irina Abnizova;Daniel J Turner;Panos Deloukas;Dominic P Kwiatkowski;Clive G Brown;Taane G Clark;

10.1101/043042 — Genomics — Posted on 2016-03-13

298 Exploratory analysis and error modeling of a sequencing technology

Michael Inouye;Kerrin S Small;Yik Y Teo;Heng Li;Nava Whiteford;Tom Skelly;Irina Abnizova;Daniel J Turner;Panos Deloukas;Dominic P Kwiatkowski;Clive G Brown;Taane G Clark;

10.1101/043042 — Genomics — Posted on 2016-03-11

299 Comparative analysis of dengue and Zika outbreaks reveals differences by setting and virus

Sebastian Funk;Adam J. Kucharski;Anton Camacho;Rosalind M. Eggo;Laith Yakob;Lawrence M. Murray;W. John Edmunds;

10.1101/043265 — Ecology — Posted on 2016-03-24

300 Comparative analysis of dengue and Zika outbreaks reveals differences by setting and virus

Sebastian Funk;Adam J. Kucharski;Anton Camacho;Rosalind M. Eggo;Laith Yakob;Lawrence M. Murray;W. John Edmunds;

10.1101/043265 — Ecology — Posted on 2016-03-12

301 Comparative analysis of dengue and Zika outbreaks reveals differences by setting and virus

Sebastian Funk;Adam J. Kucharski;Anton Camacho;Rosalind M. Eggo;Laith Yakob;Lawrence M. Murray;W. John Edmunds;

10.1101/043265 — Ecology — Posted on 2016-03-11

302 Combining multiple tools outperforms individual methods in gene set enrichment analyses

Monther Alhamdoosh;Milica Ng;Nicholas J. Wilson;Julie M. Sheridan;Huy Huynh;Michael J. Wilson;Matthew E. Ritchie;

10.1101/042580 — Bioinformatics — Posted on 2016-03-11

303 Metabolic adaptations in a range expanding arthropod

Katrien Hilde Petra Van Petegem;David Renault;Robby Stoks;Dries Bonte;

10.1101/043208 — Ecology — Posted on 2016-03-11

304 Structural basis for acyl group discrimination by human Gcn5L2

Alison E. Ringel;Cynthia Wolberger;

10.1101/043364 — Biophysics — Posted on 2016-03-11

305 Choice-induced biases in perception

Long Luu;Alan A Stocker;

10.1101/043224 — Neuroscience — Posted on 2016-03-10

306 Modeling of Large-Scale Functional Brain Networks Based on Structural Connectivity from DTI: Comparison with EEG Derived Phase Coupling Networks and Evaluation of Alternative Methods along the Modeling Path

Holger Finger;Marlene Bönstrup;Bastian Cheng;Arnaud Messé;Claus Hilgetag;Götz Thomalla;Christian Gerloff;Peter König;

10.1101/043109 — Neuroscience — Posted on 2016-03-10

307 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 2016-03-10

308 A method to exploit the structure of genetic ancestry space to enhance case-control studies

Corneliu A Bodea;Benjamin M Neale;Stephan Ripke;The International IBD Genetics Consortium;Mark J Daly;Bernie Devlin;Kathryn Roeder;

10.1101/043166 — Genomics — Posted on 2016-03-10

309 Nomadic Lifestyle of Lactobacillus plantarum Revealed by Comparative Genomics of 54 strains Isolated from Different Niches

Maria Elena Martino;Jumamurat R. Bayjanov;Brian E. Caffrey;Michiel Wels;Pauline Joncour;Sandrine Hughes;Benjamin Gillet;Michiel Kleerebezem;Sacha A. F. T. van Hijum;Francois Leulier;

10.1101/043117 — Genomics — Posted on 2016-03-10

310 Grand paternal inheritance of an acquired metabolic trait induced by ancestral obesity is associated with sperm RNA

Jennifer E Cropley;Sally A Eaton;Alastair Aiken;Paul E Young;Eleni Giannoulatou;Joshua WK Ho;Michael E Buckland;Simon P Keam;Gyorgy Hutvagner;David T Humphreys;Katherine G Langley;Darren Henstridge;David Martin;Mark A Febbraio;Catherine M Suter;

10.1101/042101 — Genetics — Posted on 2016-03-10

311 Adaptive divergence in brain composition between ecologically distinct incipient species

Stephen H Montgomery;Richard M Merrill;

10.1101/043182 — Evolutionary Biology — Posted on 2016-03-10

312 Genetics of cortico-cerebellar expansion in anthropoid primates: a comparative approach

Peter W Harrison;Stephen H Montgomery;

10.1101/043174 — Evolutionary Biology — Posted on 2016-03-10

313 Antimicrobial functions of lactoferrin promote genetic conflicts in ancient primates and modern humans

Matthew F. Barber;Zev N. Kronenberg;Mark Yandell;Nels C. Elde;

10.1101/043091 — Evolutionary Biology — Posted on 2016-03-10

314 The Effects of Evolution and Spatial Structure on Diversity in Biological Reserves

Emily Louise Dolson;Michael J Wiser;Charles A Ofria;

10.1101/043083 — Ecology — Posted on 2016-03-10

315 Hierarchical cortical transcriptome disorganization in autism

Michael V Lombardo;Eric Courchesne;Nathan E Lewis;Tiziano Pramparo;

10.1101/042937 — Genomics — Posted on 2016-03-15

316 Hierarchical cortical transcriptome disorganization in autism

Michael V Lombardo;Eric Courchesne;Nathan E Lewis;Tiziano Pramparo;

10.1101/042937 — Genomics — Posted on 2016-03-10

317 Highly accessible AU-rich regions in 3′ untranslated regions are hotspots for binding of proteins and miRNAs

Mireya Plass;Simon H Rasmussen;Anders Krogh;

10.1101/042986 — Bioinformatics — Posted on 2016-03-13

318 Highly accessible AU-rich regions in 3′ untranslated regions are hotspots for binding of proteins and miRNAs

Mireya Plass;Simon H Rasmussen;Anders Krogh;

10.1101/042986 — Bioinformatics — Posted on 2016-03-10

319 Highly accessible AU-rich regions in 3′ untranslated regions are hotspots for binding of proteins and miRNAs

Mireya Plass;Simon H Rasmussen;Anders Krogh;

10.1101/042986 — Bioinformatics — Posted on 2016-03-10

320 Brain oscillations track the formation of episodic memories in the real world

Benjamin Griffiths;Ali Mazaheri;Stefan Debener;Simon Hanslmayr;

10.1101/042929 — Neuroscience — Posted on 2016-03-09

321 Characterization of new RNA polymerase III and RNA polymerase II transcriptional promoters in the Bovine Leukemia Virus genome

Benoit Van Driessche;Anthony Rodari;Nadege Delacourt;Sylvain Fauquenoy;Caroline Vanhulle;Arsene Burny;Olivier Rohr;Carine Van Lint;

10.1101/043034 — Molecular Biology — Posted on 2016-03-09

322 Novel Genetic Risk factors for Asthma in African American Children: Precision Medicine and The SAGE II Study.

Marquitta J White;Oona Risse-Adams;Page Goddard;Maria G Contreras;Jennifer Adams;Donglei Hu;Celeste Eng;Sam S Oh;Adam Davis;Kelley Meade;Emerita Brigino-Buenaventura;Michael A Lenoir;Kirsten Bibbins-Domingo;Maria Pino-Yanes;Esteban Burchard;

10.1101/043018 — Genetics — Posted on 2016-03-30

323 Novel Genetic Risk factors for Asthma in African American Children: Precision Medicine and The SAGE II Study.

10.1101/043018 — Genetics — Posted on 2016-03-09

324 Molecular genetic contributions to social deprivation and household income in UK Biobank (n = 112,151)

William David Hill;Saskia P Hagenaars;Riccardo E Marioni;Sarah E Harris;David CM Liewald;Gail Davies;International Consortium for Blood Pressure;Andrew M McIntosh;Catharine R Gale;Ian J Deary;

10.1101/043000 — Genetics — Posted on 2016-03-09

325 Evolutionary consequences of DNA methylation in a basal metazoan

Groves Dixon;Line K Bay;Mikhail V Matz;

10.1101/043026 — Evolutionary Biology — Posted on 2016-03-09

326 Active Microrheology of Intestinal Mucus in the Larval Zebrafish

Michael J. Taormina;Raghuveer Parthasarathy;

10.1101/042994 — Biophysics — Posted on 2016-03-09

327 Crunch: Completely Automated Analysis of ChIP-seq Data

Severin Berger;Saeed Omidi;Mikhail Pachkov;Phil Arnold;Nicholas Kelley;Silvia Salatino;Erik van Nimwegen;

10.1101/042903 — Bioinformatics — Posted on 2016-03-09

328 Bioengineering cobalt chromium cardiovascular stent biomaterial for biofunctionalization

Thamarasee M Jeewandara;

10.1101/042770 — Bioengineering — Posted on 2016-03-09

329 DIRC3 and close to NABP1 Genetics Polymorphisms correlated with Prognostic Survival in Patients with Laryngeal Squamous Cell Carcinoma

Zhen Shen;Wanli Ren;Yanxia Bai;Zhengshuai Chen;Jingjie Li;Bin Li;Tianbo Jin;Peilong Cao;Shao Yuan;

10.1101/042978 — Plant Biology — Posted on 2016-03-09

330 Epistasis and the dynamics of reversion in molecular evolution

David M McCandlish;Premal Shah;Joshua B Plotkin;

10.1101/042895 — Evolutionary Biology — Posted on 2016-03-09

331 A fast and accurate method for detection of IBD shared haplotypes in genome-wide SNP data

Douglas W. Bjelland;Uday Lingala;Piyush Patel;Matt Jones;Matthew C. Keller;

10.1101/042879 — Bioinformatics — Posted on 2016-03-09

332 Discovery of Primary, Cofactor, and Novel Transcription Factor Binding Site Motifs by Recursive, Thresholded Entropy Minimization

Ruipeng Lu;Eliseos J Mucaki;Peter K Rogan;

10.1101/042853 — Bioinformatics — Posted on 2016-03-09

333 Onset, timing, and exposure therapy of stress disorders: mechanistic insight from a mathematical model of oscillating neuroendocrine dynamics

Lae Un Kim;Maria R D'Orsogna;Tom Chou;

10.1101/042887 — Physiology — Posted on 2016-03-08

334 Application of database-independent approach to assess the quality of OTU picking methods

Patrick D Schloss;

10.1101/042812 — Microbiology — Posted on 2016-03-26

335 Application of database-independent approach to assess the quality of OTU picking methods

Patrick D Schloss;

10.1101/042812 — Microbiology — Posted on 2016-03-08

336 A Unified Framework for Variance Component Estimation with Summary Statistics in Genome-wide Association Studies

Xiang Zhou;

10.1101/042846 — Genetics — Posted on 2016-03-08

337 Drosophila CLAMP is an essential protein with sex-specific roles in males and females

Jennifer A. Urban;Caroline A. Doherty;William T. Jordan;Jacob E. Bliss;Jessica Feng;Marcela M. Soruco;Leila E. Reider;Erica N. Larschan;

10.1101/042820 — Genetics — Posted on 2016-03-08

338 Natural selection and genetic diversity in the butterfly Heliconius melpomene

Simon Henry Martin;Markus Moest;Wiliam J Palmer;Camilo Salazar;W. Owen McMillan;Francis M Jiggins;Chris D Jiggins;

10.1101/042796 — Evolutionary Biology — Posted on 2016-03-08

339 Older fathers’ children have lower evolutionary fitness across four centuries and in four populations

Ruben C. Arslan;Kai P. Willführ;Emma Frans;Karin J. H. Verweij;Mikko Myrskylä;Eckart Voland;Catarina Almqvist;Brendan P. Zietsch;Lars Penke;

10.1101/042788 — Evolutionary Biology — Posted on 2016-03-08

340 Adaptive significance of quorum sensing-dependent regulation of public goods by integration of growth rate: a trade-off between survival and efficiency

Arvin Nickzad;Eric Deziel;

10.1101/042739 — Microbiology — Posted on 2016-03-07

341 Omura’s whale (Balaenoptera omurai) stranding on Qeshm Island, Iran: further evidence for a wide (sub)tropical distribution, including the Persian Gulf

Sharif Ranjbar;Mohammad Sayed Dakhteh;Koen Van Waerebeek;

10.1101/042614 — Zoology — Posted on 2016-03-07

342 Lipid profiles and body mass index of young students in Jordan

Balasim Alquraishi;Eman Rababah;

10.1101/042697 — Physiology — Posted on 2016-03-07

343 Functional metagenomics using Pseudomonas putida expands the known diversity of polyhydroxyalkanoate synthases and enables the production of novel polyhydroxyalkanoate copolymers

Jiujun Cheng;Trevor Charles;

10.1101/042705 — Microbiology — Posted on 2016-03-10

344 Functional metagenomics using Pseudomonas putida expands the known diversity of polyhydroxyalkanoate synthases and enables the production of novel polyhydroxyalkanoate copolymers

Jiujun Cheng;Trevor Charles;

10.1101/042705 — Microbiology — Posted on 2016-03-07

345 Accelerating Wright-Fisher Forward Simulations on the Graphics Processing Unit

David S. Lawrie;

10.1101/042622 — Evolutionary Biology — Posted on 2016-03-31

346 Accelerating Wright-Fisher Forward Simulations on the Graphics Processing Unit

David S. Lawrie;

10.1101/042622 — Evolutionary Biology — Posted on 2016-03-07

347 Does linked selection explain the narrow range of genetic diversity across species?

Graham Coop;

10.1101/042598 — Evolutionary Biology — Posted on 2016-03-07

348 Symmetric assembly and disassembly of an ecological network

Jason Tylianakis;Laura Martínez-García;Sarah Richardson;Duane Peltzer;Ian A. Dickie;

10.1101/042572 — Ecology — Posted on 2016-03-07

349 AnnoLnc: a web server for systematically annotating novel human lncRNAs

Mei Hou;Xing Tang;Feng Tian;Fangyuan Shi;Fenglin Liu;Ge Gao;

10.1101/042655 — Bioinformatics — Posted on 2016-03-07

350 mLDM: a new hierarchical Bayesian statistical model for sparse microbioal association discovery

Yuqing Yang;Ning Chen;Ting Chen;

10.1101/042630 — Bioinformatics — Posted on 2016-03-07

351 Engineered kinesin motor proteins amenable to small molecule inhibition

Martin F Engelke;Michael Winding;Yang Yue;Shankar Shastry;Federico Teloni;Sanjay Reddy;T. Lynne Blasius;Pushpanjali Soppina;William O Hancock;Vladimir I Gelfand;Kristen Verhey;

10.1101/042663 — Cell Biology — Posted on 2016-03-07

352 Positive selection on a regulatory insertion-deletion polymorphism in FADS2 influences apparent endogenous synthesis of arachidonic acid

Kumar S.D. Kothapalli;Kaixiong Ye;Maithili S. Gadgil;Susan E. Carlson;Kimberly O. O'Brien;Ji Yao Zhang;Hui Gyu Park;Kinsley Ojukwu;James Zou;Stephanie S. Hyon;Kalpana S. Joshi;Alon Keinan;J. Thomas Brenna;

10.1101/042549 — Evolutionary Biology — Posted on 2016-03-06

353 Horizontal transfer in bacterial Methionyl tRNA synthetase is very common shown by Genus and phyla level phylogenetic analysis.

Prabhakar Ghorpade;Avinash Pange;Bhaskar Sharma;

10.1101/042366 — Evolutionary Biology — Posted on 2016-03-06

354 Exploring miRNAs as the key to understand symptoms induced by ZIKA virus infection through a collaborative database.

Victor Pylro;Francislon Oliveira;Daniel Morais;Sara Orellana;Fabiano Pais;Julliane Medeiros;Juliana Geraldo;Jack Gilbert;Angela Volpini;Gabriel Fernandes;

10.1101/042382 — Bioinformatics — Posted on 2016-03-06

355 Pre-treatment with the methanol extract of Withania somnifera prevents Diazinon -induced cardiotoxic effects of organophosphate poisoning

Eric Mwangi Irungu;Peter Waweru Mwangi;Frederick O Bukachi;

10.1101/042523 — Physiology — Posted on 2016-03-05

356 Diurnal variation of circulating interleukin-6 in humans: a meta-analysis

Gustav Nilsonne;Mats Lekander;Torbjörn Åkerstedt;John Axelsson;Michael Ingre;

10.1101/042507 — Immunology — Posted on 2016-03-07

357 Diurnal variation of circulating interleukin-6 in humans: a meta-analysis

Gustav Nilsonne;Mats Lekander;Torbjörn Åkerstedt;John Axelsson;Michael Ingre;

10.1101/042507 — Immunology — Posted on 2016-03-05

358 Partial duplication of the CRYBB1-CRYBA4 locus is associated with autosomal dominant congenital cataract

Owen M Siggs;Shari Javadiyan;Shiwani Sharma;Emmanuelle Souzeau;Karen M Lower;Deepa A Taranath;Jo Black;John Pater;John G. Willoughby;Kathryn P Burdon;Jamie E Craig;

10.1101/042515 — Genetics — Posted on 2016-03-05

359 The Plasmodium falciparum drugome and its polypharmacological implications

Yinliang Zhang;Li Xie;Lei Xie;Philip Bourne;

10.1101/042481 — Systems Biology — Posted on 2016-03-05

360 Fast and inexpensive detection of bacterial viability and drug effectiveness through metabolic monitoring

Sondos Ayyash;Wen I Wu;Ponnambalam Ravi Selvaganapathy;

10.1101/042499 — Bioengineering — Posted on 2016-03-05

361 Have coral snake mimics diversified more than non-mimics?

Daniel S. Caetano;Laura R.V. Alencar;Paulo Passos;Felipe G. Grazziotin;Hussam Zaher;Marcio Martins;

10.1101/042440 — Evolutionary Biology — Posted on 2016-03-05

362 Bayesian large-scale multiple regression with summary statistics from genome-wide association studies

Xiang Zhu;Matthew Stephens;

10.1101/042457 — Genetics — Posted on 2016-03-04

363 A Novel Initiation Pathway in Escherichia Coli Transcription

Eitan Lerner;SangYoon Chung;Benjamin Levi Allen;Shuang Wang;Jookyung June Lee;Winson Shijia Lu;Logan Wilson Grimaud;Antonino Ingargiola;Xavier Michalet;Yazan Alhadid;Sergei Borukhov;Terence Strick;Dylan J. Taatjes;Shimon Weiss;

10.1101/042432 — Biochemistry — Posted on 2016-03-27

364 A Novel Initiation Pathway in Escherichia Coli Transcription

10.1101/042432 — Biochemistry — Posted on 2016-03-04

365 Limiting the Development of Anti-Cancer Drug Resistance in a Spatial Model of Micrometastases

Ami B Shah;Katarzyna A Rejniak;Jana L Gevertz;

10.1101/042408 — Systems Biology — Posted on 2016-03-04

366 Preprint: A robust peptidomics mass spectrometry platform for measuring oxytocin in plasma and serum

Ole Kristian Brandtzaeg;Elin Johnsen;Hanne Roberg-Larsen;Knut Fredrik Seip;Siri Leknes;Elsa Lundanes;Steven Ray Wilson;

10.1101/042416 — Neuroscience — Posted on 2016-03-04

367 Stochasticity in the Genotype-Phenotype Map: Implications for the Robustness and Persistence of Bet-Hedging

Daniel Nichol;Mark Robertson-Tessi;Peter Jeavons;Alexander RA Anderson;

10.1101/042424 — Evolutionary Biology — Posted on 2016-03-04

368 Resolving the conflict between associative overdominance and background selection

Lei Zhao;Brian Charlesworth;

10.1101/042390 — Evolutionary Biology — Posted on 2016-03-04

369 The Ensembl Variant Effect Predictor

William McLaren;Laurent Gil;Sarah E Hunt;Harpreet Singh Riat;Graham R. S. Ritchie;Anja Thormann;Paul Flicek;Fiona Cunningham;

10.1101/042374 — Bioinformatics — Posted on 2016-03-04

370 A susceptible mouse model for Zika virus infection

Stuart D Dowall;Victoria A Graham;Emma Rayner;Barry Atkinson;Graham Hall;Robert J Watson;Andrew Bosworth;Laura C Bonney;Samantha Kitchen;Roger Hewson;

10.1101/042358 — Microbiology — Posted on 2016-03-04

371 The Effects of Ribosome Autocatalysis and Negative Feedback in Resource Competition

Fiona Chandra;Domitilla Del Vecchio;

10.1101/042127 — Systems Biology — Posted on 2016-03-04

372 Plant root pathogens over 120,000 years of temperate rainforest ecosystem development

Ian A. Dickie;Angela Wakelin;Laura Martinez-Garcia;Sarah J. Richardson;Andreas Makiola;Jason M. Tylianakis;

10.1101/042341 — Ecology — Posted on 2016-03-04

373 Phylogeny-aware Identification and Correction of Taxonomically Mislabeled Sequences

Alexey M Kozlov;Jiajie Zhang;Pelin Yilmaz;Frank Oliver Glockner;Alexandros Stamatakis;

10.1101/042200 — Bioinformatics — Posted on 2016-03-04

374 Environmental gene regulatory influence networks in rice (Oryza sativa): response to water deficit, high temperature and agricultural environments

Olivia Wilkins;Christoph Hafemiester;Anne Plessis;Meisha-Marika Holloway-Phillips;Gina M Pham;Addrienne B. Nicotra;Glenn B. Gregorio;S. V. Krishna Jagadish;Endang M. Septiningsih;Richard Bonneau;Michael Purugganan;

10.1101/042317 — Systems Biology — Posted on 2016-03-03

375 Dynamics and Control of Phloem Loading of Indoleacetic Acid in Seedling Cotyledons of Ricinus Communis During Germination

Imre Tamas;Peter J Davies;

10.1101/042333 — Plant Biology — Posted on 2016-03-03

376 The roles of LINEs, LTRs and SINEs in lineage-specific gene family expansions in the human and mouse genomes

Václav Janoušek;Christina M Laukaitis;Alexey Yanchukov;Robert Karn;

10.1101/042309 — Genomics — Posted on 2016-03-03

377 Transposable Element Evolution in the Allotetraploid Capsella bursa-pastoris

J Arvid Agren;Hui-Run Huang;Stephen I Wright;

10.1101/042325 — Evolutionary Biology — Posted on 2016-03-03

378 RNA‐guided endonuclease‐driven mutagenesis in tobacco followed by efficient fixation of mutated sequences in doubled haploid plants

Sindy Schedel;Stefanie Pencs;Goetz Hensel;Andrea Mueller;Jochen Kumlehn;

10.1101/042291 — Plant Biology — Posted on 2016-03-03

379 Repeated replacement of an intrabacterial symbiont in the tripartite nested mealybug symbiosis

Filip Husnik;John P McCutcheon;

10.1101/042267 — Genomics — Posted on 2016-03-03

380 Powerful decomposition of complex traits in a diploid model using Phased Outbred Lines

Johan Hallin;Kaspar Martens;Alexander Young;Martin Zackrisson;Francisco Salinas;Leopold Parts;Jonas Warringer;Gianni Liti;

10.1101/042176 — Genetics — Posted on 2016-03-03

381 Genotyping Allelic and Copy Number Variation in the Immunoglobulin Heavy Chain Locus

Shishi Luo;Jane A Yu;Yun S. Song;

10.1101/042226 — Genetics — Posted on 2016-03-03

382 Genetic heterogeneity in autism: from single gene to a pathway perspective

Joon Yong An;Charles Claudianos;

10.1101/042218 — Genetics — Posted on 2016-03-06

383 Genetic heterogeneity in autism: from single gene to a pathway perspective

Joon Yong An;Charles Claudianos;

10.1101/042218 — Genetics — Posted on 2016-03-03

384 The regulator-executor-phenotype architecture shaped by natural selection

Han Chen;Chung-I Wu;Xionglei He;

10.1101/026443 — Genetics — Posted on 2016-03-03

385 Establishing elements of a synthetic biology platform for Vaccinia virus production: BioBrickTM design, serum-free virus production and microcarrier-based cultivation of CV-1 cells.

Shuchang Liu;Ludmila Ruban;Yaohe Wang;Yuhong Zhou;Darren N. Nicholas Nesbeth;

10.1101/042275 — Synthetic Biology — Posted on 2016-03-03

386 Advancing insect vector biology research: a community survey for future directions, research applications and infrastructure requirements

Alain Kohl;Emilie Pondeville;Esther Schnettler;Andrea Crisanti;Clelia Supparo;George K Christophides;Paul J Kersey;Gareth L Maslen;Willem Takken;Constantianus J. M. Koenraadt;Clelia F Oliva;Núria Busquets;F Xavier Abad;Anna-Bella Failloux;Elena A Levashina;Anthony J Wilson;Eva Veronesi;Maëlle Pichard;Sarah Arnaud Marsh;Frédéric Simard;Kenneth D Vernick;

10.1101/042242 — Scientific Communication and Education — Posted on 2016-03-03

387 Consensus Gene Expression Subtypes Of Epithelial Tumors

Anguraj Sadanandam;

10.1101/042234 — Cancer Biology — Posted on 2016-03-03

388 Assortative mating can impede or facilitate fixation of underdominant alleles

Mitchell Newberry;David McCandlish;Joshua B Plotkin;

10.1101/042192 — Evolutionary Biology — Posted on 2016-03-16

389 Assortative mating can impede or facilitate fixation of underdominant alleles

Mitchell Newberry;David McCandlish;Joshua B Plotkin;

10.1101/042192 — Evolutionary Biology — Posted on 2016-03-03

390 Assortative mating can impede or facilitate fixation of underdominant alleles

Mitchell Newberry;David McCandlish;Joshua B Plotkin;

10.1101/042192 — Evolutionary Biology — Posted on 2016-03-03

391 Coordination of brain wide activity dynamics by dopaminergic neurons

Garret Stuber;Heather Decot;Vijay Namboodiri;Wei Gao;Jenna McHenry;Josh Jennings;Sung-Ho Lee;Pranish Kantak;Yu-Chieh Jill Kao;Manamita Das;Ilana Witten;Karl Deisseroth;Yen-Yu Ian Shih;

10.1101/042168 — Neuroscience — Posted on 2016-03-02

392 Exact length distribution of filamentous structures assembled from a finite pool of subunits

David Harbage;Jane Kondev;

10.1101/042184 — Biophysics — Posted on 2016-03-02

393 A Sister of PIN1 gene in tomato (Solanum lycopersicum) defines organ initiation patterns by maintaining epidermal auxin flux

Ciera Martinez;Daniel Koenig;Daniel H Chitwood;Neelima Sinha;

10.1101/042150 — Plant Biology — Posted on 2016-03-02

394 Times to Key Events in the Course of Zika Infection and their Implications for Surveillance: A Systematic Review and Pooled Analysis

Justin Lessler;Cassandra T. Ott;Andrea C. Carcelen;Jacob M. Konikoff;Joe Williamson;Qifang Bi;Nicholas G. Reich;Derek A. T. Cummings;Lauren M. Kucirka;Lelia H. Chaisson;

10.1101/041913 — Immunology — Posted on 2016-03-02

395 Evolution in Eggs and Phases: experimental evolution of fecundity and reproductive timing in Caenorhabditis elegans

Bradly J Alicea;

10.1101/042143 — Evolutionary Biology — Posted on 2016-03-26

396 Evolution in Eggs and Phases: experimental evolution of fecundity and reproductive timing in Caenorhabditis elegans

Bradly J Alicea;

10.1101/042143 — Evolutionary Biology — Posted on 2016-03-02

397 Demographic inference under the coalescent in a spatial continuum

Stephane Guindon;Hongbin Guo;David Welch;

10.1101/042135 — Evolutionary Biology — Posted on 2016-03-02

398 An ATM/Wip1-dependent timer controls the minimal duration of a DNA-damage mediated cell cycle arrest

Himjyot Jaiswal;Jan Benada;Erik Mullers;Karen Akopyan;Kamila Burdova;Tobias Koolmeister;Thomas Helleday;Rene Medema;Libor Macurek;Arne Lindqvist;

10.1101/042119 — Cell Biology — Posted on 2016-03-02

399 OncoScape: Exploring the cancer aberration landscape by genomic data fusion

Andreas Schlicker;Magali Michaut;Rubayte Rahman;Lodewyk Wessels;

10.1101/041962 — Bioinformatics — Posted on 2016-03-02

400 Decomposing the site frequency spectrum: the impact of tree topology on neutrality tests

Alice Ledda;Guillaume Achaz;Thomas Wiehe;Luca Ferretti;

10.1101/042044 — Genetics — Posted on 2016-03-01

401 Fast imaging of DNA motion reveals distinct sub-diffusion regimes at the site of DNA damage

Judith Mine-Hattab;Vincent Recamier;Ignacio Izeddin;Rodney Rothstein;Xavier Darzacq;

10.1101/042051 — Biophysics — Posted on 2016-03-01

402 Phosphorus acquisition efficiency in arbuscular mycorrhizal maize is correlated with the abundance of root-external hyphae and the accumulation of transcripts encoding PHT1 phosphate transporters

Ruairidh J H Sawers;Simon F Svane;Clement Quan;Mette Gronlund;Barbara Wozniak;Mesfin Nigussie;Matthais Mueller;Eliecer Gonzalez-Munoz;Ricardo Chavez Montes;Ivan Baxter;Jerome Goudet;Iver Jakobsen;Uta Paszkowski;

10.1101/042028 — Plant Biology — Posted on 2016-03-01

403 Compound biological signatures facilitate phenotypic screening and target elucidation

Alvaro Cortes Cabrera;Daniel Lucena-Agell;Mariano Redondo-Horcajo;Isabel Barasoain;Fernando Diaz;Bernhard Fasching;Paula Petrone;

10.1101/041947 — Pharmacology and Toxicology — Posted on 2016-03-02

404 Compound biological signatures facilitate phenotypic screening and target elucidation

Alvaro Cortes Cabrera;Daniel Lucena-Agell;Mariano Redondo-Horcajo;Isabel Barasoain;Fernando Diaz;Bernhard Fasching;Paula Petrone;

10.1101/041947 — Pharmacology and Toxicology — Posted on 2016-03-01

405 Core Genes Evolve Rapidly in the Long-term Evolution Experiment with Escherichia coli

Rohan Maddamsetti;Philip J Hatcher;Barry L. Williams;Richard E. Lenski;

10.1101/042069 — Evolutionary Biology — Posted on 2016-03-01

406 Measuring epistasis in fitness landscapes: the correlation of fitness effects of mutations

Luca Ferretti;Benjamin Schmiegelt;Daniel Weinreich;Atsushi Yamauchi;Yutaka Kobayashi;Fumio Tajima;Guillaume Achaz;

10.1101/042010 — Evolutionary Biology — Posted on 2016-03-01

407 Glycolytic enzymes localize to synapses under energy stress to support synaptic function

SoRi Jang;Jessica C. Nelson;Eric G. Bend;Lucelenie Rodríguez-Laureano;Felipe G. Tueros;Luis Cartagenova;Katherine Underwood;Erik M. Jorgensen;Daniel A. Colón-Ramos;

10.1101/042002 — Cell Biology — Posted on 2016-03-01

408 The viral polymerase inhibitor 7-deaza-2’-C-methyladenosine is a potent inhibitor of in vitro Zika virus replication and delays disease progression in a robust mouse infection model

Joanna Zmurko;Rafael E Marques;Dominique Schols;Erik Verbeken;Suzanne J.F. Kaptein;Johan Neyts;

10.1101/041905 — Microbiology — Posted on 2016-03-01

409 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 2016-03-01

410 Towards Consensus Gene Ages

Benjamin J. Liebeskind;Claire D. McWhite;Edward M. Marcotte;

10.1101/042036 — Genomics — Posted on 2016-03-01

411 Whole genome sequencing identifies a novel factor required for secretory granule maturation in Tetrahymena thermophila

Cassandra Kontur;Santosh Kumar;Xun Lan;Jonathan K Pritchard;Aaron P Turkewitz;

10.1101/042085 — Genetics — Posted on 2016-03-01

412 A CRISPR screen reveals a WNT7B-FZD5 signaling circuit as a therapeutic opportunity in pancreatic cancer.

Zachary Steinhart;Traver Hart;Megha Chandrashekhar;Zvezdan Pavlovic;Melanie Robitaille;Xiaowei Wang;Jarrett Adams;James Pan;Sachdev Sidhu;Jason Moffat;Stephane Angers;

10.1101/041996 — Cancer Biology — Posted on 2016-03-01

413 A simple analytical formula to compute the residual Mutual Information between pairs of data vectors

Jens Kleinjung;Anthony C.C. Coolen;

10.1101/041988 — Bioinformatics — Posted on 2016-03-02

414 A simple analytical formula to compute the residual Mutual Information between pairs of data vectors

Jens Kleinjung;Anthony C.C. Coolen;

10.1101/041988 — Bioinformatics — Posted on 2016-03-01

415 Robust digital logic circuits in eukaryotic cells with CRISPR/dCas9 NOR gates

Miles W Gander;Justin D Vrana;William E. Voje;James M Carothers;Eric Klavins;

10.1101/041871 — Synthetic Biology — Posted on 2016-03-02

416 Robust digital logic circuits in eukaryotic cells with CRISPR/dCas9 NOR gates

Miles W Gander;Justin D Vrana;William E. Voje;James M Carothers;Eric Klavins;

10.1101/041871 — Synthetic Biology — Posted on 2016-03-01

417 Robust digital logic circuits in eukaryotic cells with CRISPR/dCas9 NOR gates

Miles W Gander;Justin D Vrana;William E. Voje;James M Carothers;Eric Klavins;

10.1101/041871 — Synthetic Biology — Posted on 2016-03-01

418 Zika Virus: Endemic Versus Epidemic Dynamics and Implications for Disease Spread in the Americas

Sharon Bewick;William F Fagan;Justin M Calabrese;Folashade Agusto;

10.1101/041897 — Ecology — Posted on 2016-03-07

419 Dissecting resistance mechanisms in melanoma combination therapy

Eunjung Kim;Alexander Anderson;

10.1101/041855 — Cancer Biology — Posted on 2016-03-07

420 Vcfanno: fast, flexible annotation of genetic variants

Brent Pedersen;Ryan Layer;Aaron Quinlan;

10.1101/041863 — Bioinformatics — Posted on 2016-03-02

421 Diffusion pseudotime robustly reconstructs lineage branching

Laleh Haghverdi;Maren Buettner;F. Alexander Wolf;Florian Buettner;Fabian J. Theis;

10.1101/041384 — Bioinformatics — Posted on 2016-03-02

422 Pollinator specialization imposes stronger evolutionary constraints on flower shape

Simon Joly;François Lambert;Hermine Alexandre;Étienne Léveillé-Bourret;John L. Clark;

10.1101/041533 — Evolutionary Biology — Posted on 2016-03-01

423 Modeling cumulative biological phenomena with Suppes-Bayes causal networks

DANIELE RAMAZZOTTI;Alex Graudenzi;Marco Antoniotti;

10.1101/041343 — Bioinformatics — Posted on 2016-03-31

424 NextflowWorkbench: Reproducible and Reusable Workflows for Beginners and Experts

Jason P Kurs;Manuele Simi;Fabien Campagne;

10.1101/041236 — Bioinformatics — Posted on 2016-03-28

425 Inhibitory control of shared variability in cortical networks

Carsen Stringer;Marius Pachitariu;Michael Okun;Peter Bartho;Kenneth Harris;Peter Latham;Maneesh Sahani;Nicholas Lesica;

10.1101/041103 — Neuroscience — Posted on 2016-03-02

426 Ecological factors rather than barriers to dispersal shape genetic structure of algal symbionts in horizontally-transmitting corals

Sarah W. Davies;Drew Wham;Matthew R Kanke;Mikhail V Matz;

10.1101/037994 — Ecology — Posted on 2016-03-03

427 Characterization and Transposon Mutagenesis of the Maize (Zea mays) Pho1 Gene Family

Nancy Salazar-Vidal;Edith Acosta-Segovia;Nidia Sanchez-Leon;Kevin R Ahern;Thomas P Brutnell;Ruairidh J H Sawers;

10.1101/040899 — Plant Biology — Posted on 2016-03-03

428 Atomic structure of Hsp90:Cdc37:Cdk4 reveals Hsp90 regulates kinase via dramatic unfolding

Kliment A Verba;Ray YR Wang;Akihiko Arakawa;Yanxin Liu;Mikako Shirouzu;Shigeyuki Yokoyama;David A Agard;

10.1101/040907 — Biochemistry — Posted on 2016-03-04

429 Accurate promoter and enhancer identification in 127 ENCODE and Roadmap Epigenomics cell types and tissues by GenoSTAN

Benedikt Zacher;Margaux Michel;Bjoern Schwalb;Patrick Cramer;Achim Tresch;Julien Gagneur;

10.1101/041020 — Genomics — Posted on 2016-03-06

430 AC-PCA: simultaneous dimension reduction and adjustment for confounding variation

Zhixiang Lin;Can Yang;Ying Zhu;John C. Duchi;Yao Fu;Yong Wang;Bai Jiang;Mahdi Zamanighomi;Xuming Xu;Mingfeng Li;Nenad Sestan;Hongyu Zhao;Wing Hung Wong;

10.1101/040485 — Bioinformatics — Posted on 2016-03-08

431 Evolution of HIV virulence in response to widespread scale up of antiretroviral therapy: a modeling study

Joshua Herbeck;John Mittler;Geoffrey Gottlieb;Steve Goodreau;James Murphy;Anne Cori;Michael Pickles;Christophe Fraser;

10.1101/039560 — Evolutionary Biology — Posted on 2016-03-17

432 Evolution of HIV virulence in response to widespread scale up of antiretroviral therapy: a modeling study

Joshua Herbeck;John Mittler;Geoffrey Gottlieb;Steve Goodreau;James Murphy;Anne Cori;Michael Pickles;Christophe Fraser;

10.1101/039560 — Evolutionary Biology — Posted on 2016-03-02

433 An ecological assessment of the pandemic threat of Zika virus

Colin Carlson;Eric Dougherty;Wayne Getz;

10.1101/040386 — Ecology — Posted on 2016-03-09

434 Distinct stages in the recognition, sorting and packaging of proTGFα into COPII coated transport vesicles

Pengcheng Zhang;Randy Schekman;

10.1101/040410 — Cell Biology — Posted on 2016-03-29

435 ZIKA - How Fast Does This Virus Mutate ?

Ian S Logan;

10.1101/040303 — Genetics — Posted on 2016-03-08

436 Micro- and macroevolutionary trade-offs in plant-feeding insects

Daniel Peterson;Nate B. Hardy;Benjamin B. Normark;

10.1101/040311 — Evolutionary Biology — Posted on 2016-03-09

437 Micro- and macroevolutionary trade-offs in plant-feeding insects

Daniel Peterson;Nate B. Hardy;Benjamin B. Normark;

10.1101/040311 — Evolutionary Biology — Posted on 2016-03-09

438 SNP-based heritability estimation: measurement noise, population stratification and stability

Eric R Gamazon;Danny S Park;

10.1101/040055 — Genomics — Posted on 2016-03-08

439 Tunable bet hedging in yeast responses to osmotic stress

Yoshikazu Hirate;Samuel Bottani;Wyming Lee Pang;Suzannah Rutherford;

10.1101/039982 — Evolutionary Biology — Posted on 2016-03-07

440 Infection avoidance behaviour: female fruit flies adjust foraging effort in response to internal and external cues of viral infection

Pedro F Vale;Michael D Jardine;

10.1101/039750 — Animal Behavior and Cognition — Posted on 2016-03-23

441 FRETBursts: An Open Source Toolkit for Analysis of Freely-Diffusing Single-Molecule FRET

Antonino Ingargiola;Eitan Lerner;SangYoon Chung;Shimon Weiss;Xavier Michalet;

10.1101/039198 — Biophysics — Posted on 2016-03-11

442 Transmission dynamics of Zika virus in island populations: a modelling analysis of the 2013-14 French Polynesia outbreak

Adam J Kucharski;Sebastian Funk;Rosalind M M Eggo;Henri-Pierre Mallet;John Edmunds;Eric J Nilles;

10.1101/038588 — Ecology — Posted on 2016-03-31

443 Getting the hologenome concept right: An eco-evolutionary framework for hosts and their microbiomes

Kevin R Theis;Nolwenn M. Dheilly;Jonathan L. Klassen;Robert M. Brucker;John F. Baines;Thomas C.G. Bosch;John F. Cryan;Scott F. Gilbert;Charles J. Goodnight;Elisabeth A. Lloyd;Jan Sapp;Philippe Vandenkoornhuyse;Ilana Zilber-Rosenberg;Eugene Rosenberg;Seth R. Bordenstein;

10.1101/038596 — Evolutionary Biology — Posted on 2016-03-08

444 Sequence element enrichment analysis to determine the genetic basis of bacterial phenotypes

John A Lees;Minna Vehkala;Niko Välimäki;Simon R Harris;Claire Chewapreecha;Nicholas J Croucher;Pekka Marttinen;Mark R Davies;Andrew C Steer;Stephen Y C Tong;Antti Honkela;Julian Parkhill;Stephen D Bentley;Jukka Corander;

10.1101/038463 — Genomics — Posted on 2016-03-02

445 Punctuated evolution and transitional hybrid network in an ancestral cell cycle of fungi

Edgar M. Medina;Jonathan J. Turner;Raluca Gordan;Jan M. Skotheim;Nicolas E. Buchler;

10.1101/038372 — Evolutionary Biology — Posted on 2016-03-02

446 Intracranial Markers of Conscious Face Perception in Humans

Fabiano Baroni;Jochem van Kempen;Hiroto Kawasaki;Christopher K. Kovach;Hiroyuki Oya;Matthew A. Howard;Ralph Adolphs;Naotsugu Tsuchiya;

10.1101/037234 — Neuroscience — Posted on 2016-03-11

447 msVolcano: a flexible web application for visualizing quantitative proteomics data.

Sukhdeep Singh;Marco Hein;Francis Stewart;

10.1101/038356 — Bioinformatics — Posted on 2016-03-05

448 Hybrid asexuality as a primary reproductive barrier: on the interconnection between asexuality and speciation

Karel Janko;Jan Pačes;Hilde Wilkinson-Herbots;Rui J Costa;Jan Röslein;Pavel Drozd;Nataliia Iakovenko;Jakub Rídl;Jan Kočí;Radka Reifová;Vēra Šlechtová;Lukáš Choleva;

10.1101/038299 — Evolutionary Biology — Posted on 2016-03-21

449 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 2016-03-22

450 Bayesian inference of natural selection from allele frequency time series

Joshua Schraiber;Steven N. Evans;Montgomery Slatkin;

10.1101/037200 — Evolutionary Biology — Posted on 2016-03-04

451 Believer-Skeptic meets Actor-Critic: Rethinking the role basal ganglia pathways in decision-making and reinforcement learning

Kyle Dunovan;Timothy Verstynen;

10.1101/037085 — Neuroscience — Posted on 2016-03-30

452 A frameshift mutation in GON4L is associated with proportionate dwarfism in Fleckvieh cattle

Hermann Schwarzenbacher;Christine Wurmser;Krzysztof Flisikowski;Lubica Misurova;Simone Jung;Martin C Langenmayer;Angelika Schnieke;Gabriela Knubben-Schweizer;Ruedi Fries;Hubert Pausch;

10.1101/036889 — Genomics — Posted on 2016-03-09

453 How clonal are bacteria over time?

B. Jesse Shapiro;

10.1101/036780 — Evolutionary Biology — Posted on 2016-03-24

454 Fast and accurate single-cell RNA-Seq analysis by clustering of transcript-compatibility counts

Vasilis Ntranos;Govinda M. Kamath;Jesse Zhang;Lior Pachter;David N. Tse;

10.1101/036863 — Genomics — Posted on 2016-03-04

455 Evidence for a probabilistic, brain-distributed, recursive mechanism for decision-making

Javier A Caballero;Mark D Humphries;Kevin N Gurney;

10.1101/036277 — Neuroscience — Posted on 2016-03-17

456 Canopy position has a profound effect on soybean seed composition

Steven Huber;Kunzhi Li;Randall Nelson;Alexander Ulyanov;Catherine DeMuro;Ivan Baxter;

10.1101/036004 — Plant Biology — Posted on 2016-03-29

457 Efficient detection of repeating sites to accelerate phylogenetic likelihood calculations

Kassian Kobert;Alexandros Stamatakis;Tomáš Flouri;

10.1101/035873 — Bioinformatics — Posted on 2016-03-16

458 Hilbert-Schmidt and Sobol sensitivity indices for static and time series Wnt signaling measurements in colorectal cancer - Part A

shriprakash sinha;

10.1101/035519 — Systems Biology — Posted on 2016-03-04

459 Rail-dbGaP: analyzing dbGaP-protected data in the cloud with Amazon Elastic MapReduce

Abhinav Nellore;Christopher Wilks;Kasper D Hansen;Jeffrey T Leek;Ben Langmead;

10.1101/035287 — Bioinformatics — Posted on 2016-03-05

460 MBPpred: Proteome-wide detection of membrane lipid-binding proteins using profile Hidden Markov Models

Katerina C Nastou;Georgios N Tsaousis;Nikolaos C Papandreou;Stavros J Hamodrakas;

10.1101/034942 — Bioinformatics — Posted on 2016-03-26

461 Estimation of the lag time in a subsequent monomer addition model for fibril elongation

Suzanne K. Shoffner;Santiago Schnell;

10.1101/034900 — Biochemistry — Posted on 2016-03-01

462 BrowseVCF: a web-based application and workflow to quickly prioritise disease-causative variants in VCF files.

Silvia Salatino;Varun Ramraj;

10.1101/034769 — Bioinformatics — Posted on 2016-03-04

463 COGNITIVE ENDOPHENOTYPES OF MODERN AND EXTINCT HOMININS ASSOCIATED WITH NTNG GENE PARALOGS

Pavel Prosselkov;Ryota Hashimoto;Denis Polygalov;Ohi Kazutaka;Qi Zhang;Thomas J. McHugh;Masatoshi Takeda;Shigeyoshi Itohara;

10.1101/034413 — Genomics — Posted on 2016-03-07

464 COGNITIVE DOMAINS FUNCTION COMPLEMENTATION BY NTNG GENE PARALOGS

Pavel Prosselkov;Denis Polygalov;Qi Zhang;Thomas J. McHugh;Shigeyoshi Itohara;

10.1101/034645 — Genomics — Posted on 2016-03-07

465 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 2016-03-29

466 An evolutionary hourglass of herbivore-induced transcriptomic responses in Nicotiana attenuata

Matthew Durrant;Justin Boyer;Ian T. Baldwin;Shuqing Xu;

10.1101/034603 — Evolutionary Biology — Posted on 2016-03-07

467 Data-driven hypothesis weighting increases detection power in multiple testing

Nikolaos Ignatiadis;Bernd Klaus;Judith Zaugg;Wolfgang Huber;

10.1101/034330 — Bioinformatics — Posted on 2016-03-30

468 Structural specialities, curiosities and record-breaking features of crustacean reproduction

Günter Vogt;

10.1101/034223 — Zoology — Posted on 2016-03-31

469 When three traits make a line: Evolution of phenotypic plasticity and genetic assimilation through linear reaction norms in stochastic environments

Torbjorn Ergon;Rolf Ergon;

10.1101/034256 — Evolutionary Biology — Posted on 2016-03-21

470 CrispRVariants: precisely charting the mutation spectrum in genome engineering experiments

Helen Lindsay;Alexa Burger;Berthin Biyong;Anastasia Felker;Christopher Hess;Jonas Zaugg;Elena Chiavacci;Carolin Anders;Martin Jinek;Christian Mosimann;Mark D Robinson;

10.1101/034140 — Bioinformatics — Posted on 2016-03-10

471 Drosophila learn efficient paths to a food source

Rapeechai Navawongse;Deepak Choudhury;Marlena Raczkowska;James C Stewart;Terrence Lim;Mashiur Rahman;Alicia Guek Geok Toh;Zhiping Wang;Adam Claridge-Chang;

10.1101/033969 — Animal Behavior and Cognition — Posted on 2016-03-21

472 On the Apportionment of Population Structure

Yaron Granot;Omri Tal;Saharon Rosset;Karl Skorecki;

10.1101/033852 — Evolutionary Biology — Posted on 2016-03-22

473 A new Defective Helper RNA to produce Sindbis virus that infects neurons but does not propagate

Justus M Kebschull;Pedro Garcia da Silva;Anthony M Zador;

10.1101/033738 — Microbiology — Posted on 2016-03-16

474 Unraveling the Genetic Architecture of Cryptic Genetic Variation

Anupama Yadav;Kaustubh Dhole;Himanshu Sinha;

10.1101/033621 — Genetics — Posted on 2016-03-03

475 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 2016-03-23

476 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 2016-03-18

477 Reticulate evolution is favoured in influenza niche switching.

Eric J. Ma;Nichola J. Hill;Kyle Yuan;Justin Zabilansky;Jonathan A. Runstadler;

10.1101/033514 — Ecology — Posted on 2016-03-22

478 A conserved abundant cytoplasmic long noncoding RNA modulates repression by Pumilio proteins in human cells

Ailone Tichon;Noa Gil;Yoav Lubelsky;Tal Havkin Solomon;Doron Lemze;Shalev Itzkovitz;Noam Stern-Ginossar;Igor Ulitsky;

10.1101/033423 — Molecular Biology — Posted on 2016-03-21

479 No evidence for extensive horizontal gene transfer in the genome of the tardigrade Hypsibius dujardini

Georgios Koutsovoulos;Sujai Kumar;Dominik R Laetsch;Lewis Stevens;Jennifer Daub;Claire Conlon;Habib Maroon;Fran Thomas;Aziz Aboobaker;Mark Blaxter;

10.1101/033464 — Genomics — Posted on 2016-03-02

480 A Bayesian network approach for modeling mixed features in TCGA ovarian cancer data

Qingyang Zhang;Ji-Ping Wang;

10.1101/033332 — Systems Biology — Posted on 2016-03-26

481 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 2016-03-17

482 Quantitative proteome-based guidelines for intrinsic disorder characterization

Michael Vincent;Mark Whidden;Santiago Schnell;

10.1101/032847 — Bioinformatics — Posted on 2016-03-08

483 Latitude delineates patterns of biogeography in terrestrial Streptomyces

Mallory J Choudoir;James R Doroghazi;Daniel H Buckley;

10.1101/032169 — Microbiology — Posted on 2016-03-01

484 Diversity of fate outcomes in cell pairs under lateral inhibition

Nara Guisoni;Rosa Martinez Corral;Jordi Garcia-Ojalvo;Joaquin de Navascues;

10.1101/032078 — Developmental Biology — Posted on 2016-03-22

485 The Genetic Equidistance Phenomenon at the Proteomic Level

Denghui Luo;Shi Huang;

10.1101/031914 — Evolutionary Biology — Posted on 2016-03-01

486 Recent demography drives changes in linked selection across the maize genome

Timothy Mathes Beissinger;Li Wang;Kate Crosby;Arun Durvasula;Matthew B Hufford;Jeff Ross-Ibarra;

10.1101/031666 — Evolutionary Biology — Posted on 2016-03-24

487 The Genetic Cost of Neanderthal Introgression

Kelley Harris;Rasmus Nielsen;

10.1101/030387 — Evolutionary Biology — Posted on 2016-03-29

488 MetaR: simple, high-level languages for data analysis with the R ecosystem

Fabien Campagne;William ER Digan;Manuele Simi;

10.1101/030254 — Bioinformatics — Posted on 2016-03-17

Manja Wachsmuth;Alexander Huebner;Mingkun Li;Burkhard Madea;Mark Stoneking;

10.1101/030205 — Evolutionary Biology — Posted on 2016-03-16

490 Hydraulic conductance and the maintenance of water balance in flowers

Adam Roddy;Craig R. Brodersen;Todd E. Dawson;

10.1101/030122 — Physiology — Posted on 2016-03-09

491 Relative Citation Ratio (RCR): A new metric that uses citation rates to measure influence at the article level

Bruce Ian Hutchins;Xin Yuan;James M Anderson;George M Santangelo;

10.1101/029629 — Scientific Communication and Education — Posted on 2016-03-30

492 Homomorphic ZW Chromosomes in a Wild Strawberry Show Distinctive Recombination Heterogeneity but a Small Sex-Determining Region

Jacob Tennessen;Rajanikanth Govindarajulu;Aaron Liston;Tia-Lynn Ashman;

10.1101/029611 — Genetics — Posted on 2016-03-26

493 Projection-specific visual feature encoding by layer 5 cortical subnetworks.

Gyorgy Lur;Martin Vinck;Lan Tang;Jessica A Cardin;Michael J Higley;

10.1101/028910 — Neuroscience — Posted on 2016-03-18

494 Molecular Mechanisms for the Biological Storage of Renewable Energy

Buz Barstow;

10.1101/028381 — Systems Biology — Posted on 2016-03-20

495 Methylation of histone H4 lysine 20 by PR-Set7 ensures the integrity of late replicating sequence domains in Drosophila

Yulong Li;Robin Leigh Armstrong;Robert Duronio;David MacAlpine;

10.1101/028100 — Genomics — Posted on 2016-03-09

496 Behavioral flexibility and problem solving in an invasive bird

Corina J Logan;

10.1101/027706 — Animal Behavior and Cognition — Posted on 2016-03-02

497 Mixed Effects Models for Resampled Network Statistics Improves Statistical Power to Find Differences in Multi-Subject Functional Connectivity

Manjari Narayan;Genevera I Allen;

10.1101/027516 — Neuroscience — Posted on 2016-03-28

498 Mixed Effects Models for Resampled Network Statistics Improves Statistical Power to Find Differences in Multi-Subject Functional Connectivity

Manjari Narayan;Genevera I Allen;

10.1101/027516 — Neuroscience — Posted on 2016-03-14

499 Task learning reveals neural signatures of internal models in rodent prefrontal cortex

Abhinav Singh;Adrien Peyrache;Mark Humphries;

10.1101/027102 — Neuroscience — Posted on 2016-03-24

500 In silico assessment of primers for eDNA studies using PrimerTree and application to characterize the biodiversity surrounding the Cuyahoga River

Matthew Cannon;James Hester;Amanda Shalkhauser;Ernest R Chan;Kyle Logue;Scott T Small;David Serre;

10.1101/027235 — Ecology — Posted on 2016-03-09

501 Standard melanoma-associated markers do not identify the MM127 metastatic melanoma cell line

Parvathi Haridas;Jacqui McGovern;Ahishek Kashyap;Sean McElwain;Matthew Simpson;

10.1101/026633 — Cancer Biology — Posted on 2016-03-03

502 Efficient Integrative Multi-SNP Association Analysis using Deterministic Approximation of Posteriors

Xiaoquan Wen;Yeji Lee;Francesca Luca;Roger Pique-Regi;

10.1101/026450 — Genetics — Posted on 2016-03-26

503 Limits to adaptation in partially selfing species

Matthew Hartfield;Sylvain Glemin;

10.1101/026146 — Evolutionary Biology — Posted on 2016-03-02

504 Social inheritance can explain the structure of animal social networks

Amiyaal Ilany;Erol Akcay;

10.1101/026120 — Animal Behavior and Cognition — Posted on 2016-03-03

505 Social inheritance can explain the structure of animal social networks

Amiyaal Ilany;Erol Akcay;

10.1101/026120 — Animal Behavior and Cognition — Posted on 2016-03-02

506 The genetics of Bene Israel from India reveals both substantial Jewish and Indian ancestry

Yedael Y. Waldman;Arjun Biddanda;Natalie R. Davidson;Paul Billing-Ross;Maya Dubrovsky;Christopher L. Campbell;Carole Oddoux;Eitan Friedman;Gil Atzmon;Eran Halperin;Harry Ostrer;Alon Keinan;

10.1101/025809 — Genetics — Posted on 2016-03-06

507 Hybridization capture using RAD probes (hyRAD), a new tool for performing genomic analyses on museum collection specimens.

Tomasz Suchan;Camille Pitteloud;Nadezhda Gerasimova;Anna Kostikova;Sarah Schmid;Nils Arrigo;Mila Pajkovic;Michał Ronikier;Nadir Alvarez;

10.1101/025551 — Genomics — Posted on 2016-03-22

508 A genomic region containing RNF212 and CPLX1 is associated with sexually-dimorphic recombination rate variation in wild Soay sheep (Ovis aries).

Susan E Johnston;Camillo Bérénos;Jon Slate;Josephine M Pemberton;

10.1101/024869 — Genomics — Posted on 2016-03-03

509 Local population structure and patterns of Western Hemisphere dispersal for Coccidioides spp., the fungal cause of Valley Fever

David M Engelthaler;Chandler C Roe;Crystal M Hepp;Marcus Teixeira;Elizabeth M Driebe;James M Schupp;Lalitha Gade;Victor Waddell;Kenneth Komatsu;Eduardo Arathoon;Heidi Logemann;George R Thompson;Tom Chiller;Bridget Barker;Paul Keim;Anastastia P Litvintseva;

10.1101/024778 — Genomics — Posted on 2016-03-30

510 Formation of Chromosomal Domains by Loop Extrusion

Geoffrey Fudenberg;Maxim Imakaev;Carolyn Lu;Anton Goloborodko;Nezar Abdennur;Leonid A Mirny;

10.1101/024620 — Genomics — Posted on 2016-03-15

511 Robust Estimates of Overall Immune-Repertoire Diversity from High-Throughput Measurements on Samples

Joseph Kaplinsky;Ramy Arnaout;

10.1101/024612 — Systems Biology — Posted on 2016-03-02

512 Transcriptomes of plant gametophytes have a higher proportion of rapidly evolving and young genes than sporophytes

Toni I Gossmann;Dounia Saleh;Marc W Schmid;Michael A Spence;Karl J Schmid;

10.1101/022939 — Evolutionary Biology — Posted on 2016-03-12

513 Tools and techniques for computational reproducibility

Stephen R Piccolo;Michael B Frampton;

10.1101/022707 — Bioinformatics — Posted on 2016-03-24

514 Tools and techniques for computational reproducibility

Stephen R Piccolo;Michael B Frampton;

10.1101/022707 — Bioinformatics — Posted on 2016-03-17

515 Learning from heterogeneous data sources: an application in spatial proteomics

Lisa M Breckels;Sean Holden;David Wojnar;Claire M Mulvey;Andy Christoforou;Arnoud J Groen;Matthew WB Trotter;Oliver Kohlbacher;Kathryn S Lilley;Laurent Gatto;

10.1101/022152 — Bioinformatics — Posted on 2016-03-04

516 Concordance and incongruence in preclinical anxiety models: systematic review and meta-analyses

Farhan Mohammad;Joses Ho;Chun Lei Lim;Jia Hern Woo;Dennis Jun Jie Poon;Bhumika Lamba;Adam Claridge-Chang;

10.1101/020701 — Animal Behavior and Cognition — Posted on 2016-03-21

517 OPERA-LG: Efficient and exact scaffolding of large, repeat-rich eukaryotic genomes with performance guarantees

Song Gao;Denis Bertrand;Burton KH Chia;Niranjan Nagarajan;

10.1101/020230 — Bioinformatics — Posted on 2016-03-22

518 A Two-State Epistasis Model Reduces Missing Heritability of Complex Traits

Kerry L Bubb;Christine Queitsch;

10.1101/017491 — Genetics — Posted on 2016-03-15

519 Improving effect size estimation and statistical power with multi-echo fMRI and its impact on understanding the neural systems supporting mentalizing

Michael V. Lombardo;Bonnie Auyeung;Rosemary J Holt;Jack Waldman;Amber N. V. Ruigrok;Natasha Mooney;Edward T Bullmore;Simon Baron-Cohen;Prantik Kundu;

10.1101/017350 — Neuroscience — Posted on 2016-03-23

520 When is selection effective?

Simon Gravel;

10.1101/010934 — Genetics — Posted on 2016-03-11

Archive, 2016-03