bioRxiv directory

Michal Komorowski;Jorg Schumacher;Volker Behrends;Tomasz Jetka;Mark H Bennett;Angelique Ale;Sarah Filippi;John W Pinney;Jake G Bundy;Martin Buck;Michael PH Stumpf;

10.1101/015792 — Systems Biology — Posted on 2015-02-27

3 A high performing brain-machine interface driven by low-frequency local field potentials alone and together with spikes

Sergey D Stavisky;Jonathan C Kao;Paul Nuyujukian;Stephen I Ryu;Krishna V Shenoy;

10.1101/015750 — Neuroscience — Posted on 2015-02-27

4 Tandem repeat variation in human and great ape populations and its impact on gene expression divergence

Tugce Bilgin Sonay;Tiago Carvalho;Mark Robinson;Maja Greminger;Michael Krützen;David Comas;Gareth Highnam;David Mittelman;Andrew Sharp;Tomas Marques-Bonet;Andreas Wagner;

10.1101/015784 — Evolutionary Biology — Posted on 2015-02-27

5 Phen-Gen: Combining Phenotype and Genotype to Analyze Rare Disorders

Asif Javed;Saloni Agrawal;Pauline Ng;

10.1101/015727 — Genetics — Posted on 2015-02-26

6 Association mapping reveals the role of mutation-selection balance in the maintenance of genomic variation for gene expression.

Emily B. Josephs;Young Wha Lee;John R. Stinchcombe;Stephen I. Wright;

10.1101/015743 — Evolutionary Biology — Posted on 2015-02-26

7 Restoration of Sp4 in forebrain GABAergic neurons rescues hypersensitivity to ketamine in Sp4 hypomorphic mice

Kerin K Higa;Baohu Ji;Mahalah R Buell;Risbrough B Victoria;Susan B Powell;Jared W Young;Mark A Geyer;Xianjin Zhou;

10.1101/015677 — Neuroscience — Posted on 2015-02-26

8 Extensive de novo mutation rate variation between individuals and across the genome of Chlamydomonas reinhardtii

Rob W Ness;Andrew D Morgan;Radhakrishnan B Vasanthakrishnan;Nick Colegrave;Peter D Keightley;

10.1101/015693 — Genomics — Posted on 2015-02-26

9 Exome Sequencing and Prediction of Long-Term Kidney Allograft Function

Laurent Mesnard;Thangamani Muthukumar;Maren Burbach;Carol Li;Huimin Shang;Darshana Dadhania;John R Lee;Vijay K Sharma;Jenny Xiang;Caroline Suberbielle;Maryvonnick Carmagnat;Nacera Ouali;Eric Rondeau;John Friedewald;Michael Abecassis;Manikkam Suthanthiran;Fabien Campagne;

10.1101/015651 — Genomics — Posted on 2015-02-26

10 Protein Domain Hotspots Reveal Functional Mutations across Genes in Cancer

Martin L Miller;Ed Reznik;Nicholas P Gauthier;Bülent Arman Aksoy;Anil Korkut;Jianjion Gao;Giovanni Ciriello;Nikolaus Schultz;Chris Sander;

10.1101/015719 — Genomics — Posted on 2015-02-26

11 Catch me if you can: Adaptation from standing genetic variation to a moving phenotypic optimum

Sebastian Matuszewski;Joachim Hermisson;Michael Kopp;

10.1101/015685 — Evolutionary Biology — Posted on 2015-02-26

12 Risks inherent to mitochondrial replacement

Edward H Morrow;Klaus Reinhardt;Jonci N Wolff;Damian K Dowling;

10.1101/015628 — Evolutionary Biology — Posted on 2015-02-24

13 Quality assessment for different haplotyping methods and GWAS sensitivity to phasing errors

Giovanni Busonera;Marco Cogoni;Gianluigi Zanetti;

10.1101/015669 — Bioinformatics — Posted on 2015-02-24

14 Genomic Diversity and Climate Adaptation in Brachypodium

Pip B Wilson;Jared Streich;Justin Borevitz;

10.1101/015495 — Plant Biology — Posted on 2015-02-23

15 The brain of the beholder: honouring individual representational idiosyncrasies

Ian Charest;Nikolaus Kriegeskorte;

10.1101/015594 — Neuroscience — Posted on 2015-02-23

16 Multiple hypothesis correction is vital and undermines reported mtDNA links to diseases including AIDS, cancer, and Huntingdon’s

Iain G Johnston;

10.1101/015602 — Genetics — Posted on 2015-02-23

17 Fecundity selection theory: concepts and evidence

Daniel Pincheira-Donoso;John Hunt;

10.1101/015586 — Evolutionary Biology — Posted on 2015-02-23

18 Ff-nano, Short Functionalized Nanorods Derived from Ff (f1, fd or M13) Filamentous Bacteriophage

Sadia Sattar;Nicholas J Bennett;Wesley Wen;Jenness M Guthrie;Len F Blackwell;James F Conway;Jasna Rakonjac;

10.1101/015511 — Bioengineering — Posted on 2015-02-22

19 The In Silico Genotyper (ISG): an open-source pipeline to rapidly identify and annotate nucleotide variants for comparative genomics applications

Jason W Sahl;Stephen M Beckstrom-Sternberg;James Babic-Sternberg;John D Gillece;Crystal M Hepp;Raymond K Auerbach;Waibhav Tembe;David M Wagner;Paul S Keim;Talima Pearson;

10.1101/015578 — Bioinformatics — Posted on 2015-02-20

20 ExoRNAi exposes contrasting roles for sugar exudation in host-finding by plant pathogens

Neil D Warnock;Leonie Wilson;Juan V Canet-Perez;Thomas Fleming;Colin C Fleming;Aaron G Maule;Johnathan J Dalzell;

10.1101/015545 — Plant Biology — Posted on 2015-02-20

21 Calibrating the Human Mutation Rate via Ancestral Recombination Density in Diploid Genomes

Mark Lipson;Po-Ru Loh;Sriram Sankararaman;Nick Patterson;Bonnie Berger;David Reich;

10.1101/015560 — Genetics — Posted on 2015-02-20

22 A complete bacterial genome assembled de novo using only nanopore sequencing data

Nicholas James Loman;Joshua Quick;Jared T Simpson;

10.1101/015552 — Bioinformatics — Posted on 2015-02-20

23 The Use of Distributions in SBML Models

Herbert M Sauro;Lucian Smith;

10.1101/015503 — Bioinformatics — Posted on 2015-02-20

24 Directional variation in evolution: consequences for the fitness landscape metaphor

Philip Gerlee;

10.1101/015529 — Evolutionary Biology — Posted on 2015-02-20

25 SHAPE directed RNA folding

Dominik Luntzer;Ronny Lorenz;Ivo L Hofacker;Peter F Stadler;Michael T. Wolfinger;

10.1101/015537 — Bioinformatics — Posted on 2015-02-20

26 Engineering Transcriptional Regulator Effector Specificity using Computational Design and In Vitro Rapid Prototyping: Developing a Vanillin Sensor

Emmanuel Lorenzo Cornejo de los Santos;Joseph T Meyerowitz;Stephen L Mayo;Richard M Murray;

10.1101/015438 — Synthetic Biology — Posted on 2015-02-19

27 The NLR helper protein NRC3 but not NRC1 is required for Pto-mediated cell death in Nicotiana benthamiana

Chih-Hang Wu;Khaoula Belhaj;Tolga O. Bozkurt;Sophien Kamoun;

10.1101/015479 — Plant Biology — Posted on 2015-02-19

28 Where the elements go when it rains: carbon and nutrient stocks of soil amended with stabilised organic matter.

Ee Ling Ng;Cassandra R Schefe;Timothy R Cavagnaro;Antonio F Patti;

10.1101/015453 — Ecology — Posted on 2015-02-19

29 Flexible expressed region analysis for RNA-seq with derfinder

Leonardo Collado Torres;Abhinav Nellore;Alyssa C Frazee;Christopher Wilks;Michael I Love;Ben Langmead;Rafael A Irizarry;Jeffrey Leek;Andrew E Jaffe;

10.1101/015370 — Bioinformatics — Posted on 2015-02-19

30 Differential Evolution Approach to Detect Recent Admixture

Konstantin Kozlov;Dmitry Chebotarov;Mehedi Hassan;Petr Triska;Martin Triska;Pavel Flegontov;Tatiana V Tatarinova;

10.1101/015446 — Bioinformatics — Posted on 2015-02-19

31 Systematic discovery and classification of human cell line essential genes

Traver Hart;Megha Chandrashekhar;Michael Aregger;Zachary Steinhart;Kevin R Brown;Stephane Angers;Jason Moffat;

10.1101/015412 — Genomics — Posted on 2015-02-18

32 FGF/MAPK signaling sets the switching threshold of a bistable circuit controlling cell fate decisions in ES cells

Christian Schröter;Pau Rué;Jonathan P Mackenzie;Alfonso Martinez Arias;

10.1101/015404 — Developmental Biology — Posted on 2015-02-18

33 Genetic evidence for an origin of the Armenians from Bronze Age mixing of multiple populations

Marc Haber;Massimo Mezzavilla;Yali Xue;David Comas;Paolo Gasparini;Pierre Zalloua;Chris Tyler-Smith;

10.1101/015396 — Genetics — Posted on 2015-02-18

34 Natural Variants of ELF3 Affect Thermomorphogenesis by Transcriptionally Modulating PIF4-Dependent Auxin Response Genes

Anja Raschke;Carla Ibañez;Kristian Karsten Ullrich;Muhammad Usman Anwer;Sebastian Becker;Annemarie Glöckner;Jana Trenner;Kathrin Denk;Bernhard Saal;Xiaodong Sun;Min Ni;Seth Jon Davis;Carolin Delker;Marcel Quint;

10.1101/015305 — Plant Biology — Posted on 2015-02-17

35 Different DNA repair pathways are required following excision and integration of the DNA cut & paste transposon piggyBat in Saccharomyces cerevisiae.

Weifeng She;Courtney Busch Cambouris;Nancy L. Craig;

10.1101/015289 — Genetics — Posted on 2015-02-17

36 Non-adaptive evolution of the m. palmaris longus in the Homininae.

Zach Throckmorton;Nicole Forth;Nathanial Thomas;

10.1101/015321 — Evolutionary Biology — Posted on 2015-02-17

37 Flaw or discovery? Calculating exact p-values for genome-wide association studies in inbred populations

Xia Shen;

10.1101/015339 — Bioinformatics — Posted on 2015-02-17

38 Peptide sequencing in an electrolytic cell with two nanopores in tandem and exopeptidase

G Sampath;

10.1101/015297 — Bioengineering — Posted on 2015-02-27

39 Peptide sequencing in an electrolytic cell with two nanopores in tandem and exopeptidase

G Sampath;

10.1101/015297 — Bioengineering — Posted on 2015-02-17

40 Spike sorting for large, dense electrode arrays

Cyrille Rossant;Shabnam N Kadir;Dan F. M. Goodman;John Schulman;Mariano Belluscio;Gyorgy Buzsaki;Kenneth D. Harris;

10.1101/015198 — Neuroscience — Posted on 2015-02-16

41 Minimum Information for Reporting Next Generation Sequence Genotyping (MIRING): Guidelines for Reporting HLA and KIR Genotyping via Next Generation Sequencing

Steven J. Mack;Robert P Milius;Benjamin D Gifford;Jürgen Sauter;Jan Hofmann;Kazutoyo Osoegawa;James Robinson;Mathjis Groeneweg;Gregory S Turenchalk;Alex Adai;Cherie Holcomb;Erik H Rozemuller;Maarten T Penning;Michael L Heuer;Chunlin Wang;Marc L Salit;Alexander H Schmidt;Peter R Parham;Carlheinz Müller;Tim Hague;Gottfried Fischer;Marcelo Fernandez-Viňa;Jill A Hollenbach;Paul J Norman;Martin Maiers;

10.1101/015230 — Bioinformatics — Posted on 2015-02-16

42 A multi-method approach for proteomic network inference in 11 human cancers

Yasin Şenbabaoğlu;Selçuk Onur Sümer;Giovanni Ciriello;Nikolaus Schultz;Chris Sander;

10.1101/015214 — Bioinformatics — Posted on 2015-02-20

43 A multi-method approach for proteomic network inference in 11 human cancers

Yasin Şenbabaoğlu;Selçuk Onur Sümer;Giovanni Ciriello;Nikolaus Schultz;Chris Sander;

10.1101/015214 — Bioinformatics — Posted on 2015-02-16

44 A GENE FEATURE ENUMERATION APPROACH FOR DESCRIBING HLA ALLELE POLYMORPHISM

Steven J. Mack;

10.1101/015222 — Bioinformatics — Posted on 2015-02-15

45 A minimalistic resource allocation model to explain ubiquitous increase in protein expression with growth rate

Uri Barenholz;Leeat Keren;Eran Segal;Ron Milo;

10.1101/015180 — Systems Biology — Posted on 2015-02-13

46 Dissection of a complex disease susceptibility region using a Bayesian stochastic search approach to fine mapping

Chris Wallace;Antony J Cutler;Nikolas Pontikos;Marcin L Pekalski;Oliver S Burren;Jason D Cooper;Arcadio Rubio Garcia;Ricardo C Ferreira;Hui Guo;Neil M Walker;Deborah J Smyth;Stephen S Rich;Suna Onengut-Gumuscu;Stephen S Sawcer;Maria Ban;Sylvia Richardson;John Todd;Linda Wicker;

10.1101/015164 — Genetics — Posted on 2015-02-12

47 Selection constrains phenotypic evolution in a functionally important plant trait

Christopher D Muir;

10.1101/015172 — Evolutionary Biology — Posted on 2015-02-13

48 Discovery of large genomic inversions using pooled clone sequencing

Marzieh Eslami Rasekh;Giorgia Chiatante;Mattia Miroballo;Joyce Tang;Mario Ventura;Chris T Amemiya;Evan E. Eichler;Francesca Antonacci;Can Alkan;

10.1101/015156 — Bioinformatics — Posted on 2015-02-11

49 Inferring processes underlying B-cell repertoire diversity.

Yuval Elhanati;Zachary Sethna;Quentin Marcou;Curtis G Callan;Thierry Mora;Aleksandra M Walczak;

10.1101/015115 — Immunology — Posted on 2015-02-11

50 Uncovering Long Palindromic Sequences in Rice (Oryza sativa subsp. indica) Genome

Asadollah Ahmadikhah;Elmira Katanchi Kheiavi;Ali Mohammadian Mosammam;

10.1101/015099 — Genomics — Posted on 2015-02-10

51 A pan-cancer signature of neutral tumor evolution

Andrea Sottoriva;Trevor Graham;

10.1101/014894 — Genomics — Posted on 2015-02-11

52 Novel bioinformatics approach to investigate quantitative phenotype-genotype associations in neuroimaging studies

Sejal Patel;Min Tae M Park;Mallar M Chakravarty;Jo Knight;

10.1101/015065 — Genetics — Posted on 2015-02-10

53 Massive migration from the steppe is a source for Indo-European languages in Europe

Wolfgang Haak;Iosif Lazaridis;Nick Patterson;Nadin Rohland;Swapan Mallick;Bastien Llamas;Guido Brandt;Susanne Nordenfelt;Eadaoin Harney;Kristin Stewardson;Qiaomei Fu;Alissa Mittnik;Eszter Bánffy;Christos Economou;Michael Francken;Susanne Friederich;Rafael Garrido Pena;Fredrik Hallgren;Valery Khartanovich;Aleksandr Khokhlov;Michael Kunst;Pavel Kuznetsov;Harald Meller;Oleg Mochalov;Vayacheslav Moiseyev;Nicole Nicklisch;Sandra L. Pichler;Roberto Risch;Manuel A. Rojo Guerra;Christina Roth;Anna Szécsényi-Nagy;Joachim Wahl;Matthias Meyer;Johannes Krause;Dorcas Brown;David Anthony;Alan Cooper;Kurt We

10.1101/013433 — Genetics — Posted on 2015-02-10

54 Effect of E-Cadherin (CDH1) -160C/A polymorphism on prostate cancer risk: a meta-analysis

Bo Yang;Yi He;Xiaofei Wen;Hui Liu;Guoqiang Liao;Feng Liu;Weifeng Wang;Jidong Hao;Jun Ouyang;

10.1101/015123 — Genetics — Posted on 2015-02-11

55 Learning Immune-Defectives Graph through Group Tests

Abhinav Ganesan;Sidharth Jaggi;Venkatesh Saligrama;

10.1101/015149 — Bioinformatics — Posted on 2015-02-11

56 Using Mixtures of Biological Samples as Process Controls for RNA-sequencing experiments

Jerod Parsons;Sarah Munro;P. Scott Pine;Jennifer McDaniel;Michele Mehaffey;Marc Salit;

10.1101/015107 — Bioinformatics — Posted on 2015-02-11

57 The experimental determination of redox-potential of mutated cytochrome c with eight charge changing substitutions

Vasily Ptushenko;Rita V Chertkova;

10.1101/015131 — Biochemistry — Posted on 2015-02-11

58 Can rodents conceive hyperbolic spaces?

Eugenio Urdapilleta;Francesca Troiani;Federico Stella;Alessandro Treves;

10.1101/015057 — Neuroscience — Posted on 2015-02-09

59 Decoding of human hand actions to handle missing limbs in Neuroprosthetics

Jovana Belic;Aldo Faisal;

10.1101/015040 — Neuroscience — Posted on 2015-02-09

60 Optimal Haplotype Assembly from High-Throughput Mate-Pair Reads

Govinda M Kamath;Eren Şaşoğlu;David Tse;

10.1101/014993 — Genomics — Posted on 2015-02-07

61 Transdermal neuromodulation of noradrenergic activity suppresses psychophysiological and biochemical stress responses in humans

William J. Tyler;Alyssa M. Boasso;Hailey M. Mortimore;Rhonda S. Silva;Jonathan D. Charlesworth;Michelle A. Marlin;Kirsten Aebersold;Linh Aven;Daniel Z. Wetmore;Sumon K. Pal;

10.1101/015032 — Neuroscience — Posted on 2015-02-20

62 Transdermal neuromodulation of noradrenergic activity suppresses psychophysiological and biochemical stress responses in humans

William J. Tyler;Alyssa M. Boasso;Hailey M. Mortimore;Rhonda S. Silva;Jonathan D. Charlesworth;Michelle A. Marlin;Kirsten Aebersold;Linh Aven;Daniel Z. Wetmore;Sumon K. Pal;

10.1101/015032 — Neuroscience — Posted on 2015-02-08

63 Histoimmunogenetics Markup Language 1.0: Reporting Next Generation Sequencing-based HLA and KIR Genotyping

Robert P Milius;Michael Heuer;Daniel Valiga;Kathryn J Doroschak;Caleb J. Kennedy;Yung-Tsi Bolon;Joel Schneider;Jane Pollack;Hwa Ran Kim;Nezih Cereb;Jill A Hollenbach;Steven J Mack;Martin Maiers;

10.1101/014951 — Bioinformatics — Posted on 2015-02-06

64 iCAGES: integrated CAncer GEnome Score for comprehensively prioritizing cancer driver genes in personal genomes

Chengliang Dong;Hui Yang;Zeyu He;Xiaoming Liu;Kai Wang;

10.1101/015008 — Genomics — Posted on 2015-02-07

65 Mitochondrial Genomes of Giant Deers Suggest their Late Survival in Central Europe

Alexander Immel;Dorothée G. Drucker;Tina K. Jahnke;Susanne C. Münzel;Verena J. Schuenemann;Marion Bonazzi;Alexander Herbig;Claus-Joachim Kind;Johannes Krause;

10.1101/014944 — Evolutionary Biology — Posted on 2015-02-06

66 Relationship between tumor grade and geometrical complexity in prostate cancer

José Llanos Pérez;Eduardo Tejera Puente;Elena Izquierdo Kulich;Juvencio A Betancourt MAr;Manuel Nistal;Pilar Gonzalez Peramato;Mar Royuela García;José Manuel Nieto Villar;María De Miguel;

10.1101/015016 — Bioinformatics — Posted on 2015-02-08

67 Transcriptional profiling of macrophages derived from monocytes and iPS cells identifies a conserved response to LPS and novel alternative transcription

Kaur Alasoo;Fernando Martinez Estrada;Christine Hale;Siamon Gordon;Fiona Powrie;Gordon Dougan;Subhankar Mukhopadhyay;Daniel Gaffney;

10.1101/014209 — Immunology — Posted on 2015-02-06

68 Evolution of selenophosphate synthetases: emergence and relocation of function through independent duplications and recurrent subfunctionalization

Marco Mariotti;Didac Santesmasses;Salvador Capella-Gutierrez;Andrea Mateo;Carme Arnan;Rory Johnson;Salvatore D'Aniello;Sun Hee Yim;Vadim N Gladyshev;Florenci Serras;Montserrat Corominas;Toni Gabaldon;Roderic Guigo;

10.1101/014928 — Genomics — Posted on 2015-02-05

69 Discovery and characterization of Alu repeat sequences via precise local read assembly

Julia H Wildschutte;Alayna A Baron;Nicolette M Diroff;Jeffrey M Kidd;

10.1101/014977 — Genomics — Posted on 2015-02-06

70 Improving access to endogenous DNA in ancient bones and teeth

Peter de Barros Damgaard;Ashot Margaryan;Hannes Schroeder;Ludovic Orlando;Eske Willerslev;Morten E Allentoft;

10.1101/014985 — Genomics — Posted on 2015-02-06

71 Linkage Disequilibrium and Inversion-Typing of the Drosophila melanogaster Genome Reference Panel

David Houle;Eladio J. Márquez;

10.1101/014936 — Genetics — Posted on 2015-02-05

72 Key role of amino acid repeat expansions in the functional diversification of duplicated transcription factors

Núria Radó-Trilla;Krisztina Arató;Cinta Pegueroles;Alicia Raya;Susana de la Luna;M.Mar Albà;

10.1101/014910 — Evolutionary Biology — Posted on 2015-02-23

73 Key role of amino acid repeat expansions in the functional diversification of duplicated transcription factors

Núria Radó-Trilla;Krisztina Arató;Cinta Pegueroles;Alicia Raya;Susana de la Luna;M.Mar Albà;

10.1101/014910 — Evolutionary Biology — Posted on 2015-02-05

74 Coevolutionary analyses require phylogenetically deep alignments and better null models to accurately detect inter-protein contacts within and between species

Aram Avila-Herrera;Katherine Pollard;

10.1101/014902 — Evolutionary Biology — Posted on 2015-02-20

75 Coevolutionary analyses require phylogenetically deep alignments and better null models to accurately detect inter-protein contacts within and between species

Aram Avila-Herrera;Katherine Pollard;

10.1101/014902 — Evolutionary Biology — Posted on 2015-02-06

76 dbSUPER: a database of super-enhancers in mouse and human genome

Aziz Khan;Xuegong Zhang;

10.1101/014803 — Bioinformatics — Posted on 2015-02-05

77 A literature-based meta-analysis of brain-wide electrophysiological diversity

Shreejoy J Tripathy;Shawn D Burton;Matthew Geramita;Richard C Gerkin;Nathaniel N Urban;

10.1101/014720 — Neuroscience — Posted on 2015-02-04

78 A Pleiotropy-Informed Bayesian False Discovery Rate adapted to a Shared Control Design Finds New Disease Associations From GWAS Summary Statistics

James Liley;Chris Wallace;

10.1101/014886 — Genomics — Posted on 2015-02-04

79 Harsh environments and "fast" human life histories: What does the theory say?

Ryan Baldini;

10.1101/014647 — Evolutionary Biology — Posted on 2015-02-17

80 Harsh environments and "fast" human life histories: What does the theory say?

Ryan Baldini;

10.1101/014647 — Evolutionary Biology — Posted on 2015-02-04

81 Natural Selection Shapes the Mosaic Ancestry of the Drosophila Genetic Reference Panel and the D. melanogaster Reference Genome

John E Pool;

10.1101/014837 — Evolutionary Biology — Posted on 2015-02-04

82 Epistasis and Entropy

Kristina Crona;

10.1101/014829 — Evolutionary Biology — Posted on 2015-02-04

83 Epistasis and Entropy

Kristina Crona;

10.1101/014829 — Evolutionary Biology — Posted on 2015-02-04

84 After the games are over: life-history trade-offs drive dispersal attenuation following range expansion

Alex Perkins;Carl Boettiger;Ben Phillips;

10.1101/014852 — Ecology — Posted on 2015-02-04

85 A mechanistic link between cellular trade-offs, gene expression and growth

Andrea Y. Weisse;Diego A. Oyarzun;Vincent Danos;Peter S. Swain;

10.1101/014787 — Systems Biology — Posted on 2015-02-03

86 Global determinants of mRNA degradation rates in Saccharomyces cerevisiae

Benjamin Neymotin;Victoria Ettorre;David Gresham;

10.1101/014845 — Genomics — Posted on 2015-02-04

87 Molecular evolutionary consequences of island colonisation

Jennifer James;Robert Lanfear;Adam Eyre-Walker;

10.1101/014811 — Evolutionary Biology — Posted on 2015-02-03

88 Long-term field experiment on the impacts of the neonicotinoid dinotefuran and the organophosphate fenitrothion on a honeybee colony

Toshiro Yamada;Yasuhiro Yamada;Kazuko Yamada;

10.1101/014795 — Ecology — Posted on 2015-02-03

89 Difference in the impacts of the neonicotinoid dinotefuran administered through sugar syrup from that through pollen paste on a honeybee colony in the long-term field experiment

Toshiro Yamada;Yasuhiro Yamada;Kazuko Yamada;

10.1101/014779 — Ecology — Posted on 2015-02-03

90 A Hydrodynamic Approach To Cancer

Alexander Pinkowski;Walter Lilienblum;

10.1101/014696 — Cancer Biology — Posted on 2015-02-03

91 Side-chain-directed model and map validation for 3D Electron Cryomicroscopy

Benjamin A Barad;Nathaniel Echols;Ray Yu-Ruei Wang;Yifan Cheng;Frank DiMaio;Paul D Adams;James S Fraser;

10.1101/014738 — Biophysics — Posted on 2015-02-03

92 Transition densities and sample frequency spectra of diffusion processes with selection and variable population size

Daniel Zivkovic;Matthias Steinrücken;Yun S. Song;Wolfgang Stephan;

10.1101/014639 — Genetics — Posted on 2015-02-02

93 Community stability and selective extinction during Earth’s greatest mass extinction

Peter D Roopnarine;Kenneth D Angielczyk;

10.1101/014688 — Paleontology — Posted on 2015-02-16

94 Community stability and selective extinction during Earth’s greatest mass extinction

Peter D Roopnarine;Kenneth D Angielczyk;

10.1101/014688 — Paleontology — Posted on 2015-02-01

95 Quantifying transport in crowded biochemical environments

Ruth E Baker;Matthew J Simpson;

10.1101/014704 — Biophysics — Posted on 2015-02-02

96 SWORD - a highly efficient protein database search

Robert Vaser;Dario Pavlović;Matija Korpar;Mile Šikić;

10.1101/014654 — Bioinformatics — Posted on 2015-02-02

97 Assembly by Reduced Complexity (ARC): a hybrid approach for targeted assembly of homologous sequences.

Samual S Hunter;Robert T Lyon;Brice A.J. Sarver;Kayla Hardwick;Larry J Forney;Matthew L Settles;

10.1101/014662 — Bioinformatics — Posted on 2015-02-07

98 Dynamics of preventive and reactive cancer control using low-impact treatments

Andrei R. R. Akhmetzhanov;Michael E. Hochberg;

10.1101/014589 — Cancer Biology — Posted on 2015-02-04

99 Dynamics of preventive and reactive cancer control using low-impact treatments

Andrei R. R. Akhmetzhanov;Michael E. Hochberg;

10.1101/014589 — Cancer Biology — Posted on 2015-02-04

100 Dynamics of preventive and reactive cancer control using low-impact treatments

Andrei R. R. Akhmetzhanov;Michael E. Hochberg;

10.1101/014589 — Cancer Biology — Posted on 2015-02-04

101 Disturbance opens recruitment sites for bacterial colonization in activated sludge

David Vuono;Junko Munakata Marr;John Spear;Jörg Drewes;

10.1101/014456 — Ecology — Posted on 2015-02-25

102 DeDaL: Cytoscape 3.0 app for producing and morphing data-driven and structure-driven network layouts

Urszula Czerwinska;Laurence Calzone;Emmanuel Barillot;Andrei Zinovyev;

10.1101/014365 — Systems Biology — Posted on 2015-02-02

103 Integrating crop growth models with whole genome prediction through approximate Bayesian computation

Frank Technow;Carlos D. Messina;L. Radu Totir;Mark Cooper;

10.1101/014100 — Genetics — Posted on 2015-02-04

104 Geometric constraints dominate the antigenic evolution of influenza H3N2 hemagglutinin

Austin G Meyer;Claus O Wilke;

10.1101/014183 — Evolutionary Biology — Posted on 2015-02-28

105 Geometric constraints dominate the antigenic evolution of influenza H3N2 hemagglutinin

Austin G Meyer;Claus O Wilke;

10.1101/014183 — Evolutionary Biology — Posted on 2015-02-28

106 PDMQ - Protein Digestion Multi Query software tool to perform in silico digestion of protein/peptide sequences

Reka Haraszi;Csongor Tasi;Angela Juhasz;Szabolcs Makai;

10.1101/014019 — Bioinformatics — Posted on 2015-02-02

107 Genetic Analysis of Substrain Divergence in NOD Mice

Petr Simecek;Gary A Churchill;Hyuna Yang;Lucy B Rowe;Lieselotte Herberg;David V Serreze;Edward H Leiter;

10.1101/013037 — Genetics — Posted on 2015-02-17

108 ViennaNGS: A toolbox for building efficient next-generation sequencing analysis pipelines

Michael T. Wolfinger;Jörg Fallmann;Florian Eggenhofer;Fabian Amman;

10.1101/013011 — Bioinformatics — Posted on 2015-02-13

109 ViennaNGS: A toolbox for building efficient next-generation sequencing analysis pipelines

Michael T. Wolfinger;Jörg Fallmann;Florian Eggenhofer;Fabian Amman;

10.1101/013011 — Bioinformatics — Posted on 2015-02-12

110 Indication of family-specific DNA methylation patterns in developing oysters

Claire E. Olson;Steven B. Roberts;

10.1101/012831 — Genetics — Posted on 2015-02-18

111 A diffusive homeostatic signal maintains neural heterogeneity and responsiveness in cortical networks

Yann Sweeney;Jeanette Hellgren Kotaleski;Matthias H Hennig;

10.1101/011957 — Neuroscience — Posted on 2015-02-19

112 A diffusive homeostatic signal maintains neural heterogeneity and responsiveness in cortical networks

Yann Sweeney;Jeanette Hellgren Kotaleski;Matthias H Hennig;

10.1101/011957 — Neuroscience — Posted on 2015-02-19

113 The developmental transcriptome of contrasting Arctic charr (Salvelinus alpinus) morphs

Jóhannes Gudbrandsson;Ehsan P Ahi;Sigridur R Franzdottir;Kalina H Kapralova;Bjarni K Kristjánsson;Sophie S Steinhaeuser;Ísak M Jóhannesson;Valerie H Maier;Sigurdur S Snorrason;Zophonías O Jónsson;Arnar Pálsson;

10.1101/011361 — Evolutionary Biology — Posted on 2015-02-23

114 Phase transitions in tumor growth: II prostate cancer cell lines

José Llanos Pérez;Juvencio A Betancourt Mar;María P De Miguel;Elena Izquierdo Kulich;Mar Royuela García;Eduardo Tejera;José M Nieto Villar;

10.1101/011189 — Biophysics — Posted on 2015-02-07

115 Inference of cell-cell interactions from population density characteristics and cell trajectories on static and growing domains

Robert Ross;Christian A Yates;Ruth E Baker;

10.1101/011080 — Systems Biology — Posted on 2015-02-03

116 The genetic architecture of local adaptation I: The genomic landscape of foxtail pine (Pinus balfouriana Grev. & Balf.) as revealed from a high-density linkage map

Christopher J Friedline;Brandon M Lind;Erin M Hobson;Douglas E Harwood;Annette Delfino Mix;Patricia E Maloney;Andrew J Eckert;

10.1101/011106 — Evolutionary Biology — Posted on 2015-02-01

117 Supervised learning sets benchmark for robust spike rate inference from calcium imaging signals

Lucas Theis;Philipp Berens;Emmanouil Froudarakis;Jacob Reimer;Miroslav Roman-Roson;Thomas Baden;Thomas Euler;Andreas S Tolias;Matthias Bethge;

10.1101/010777 — Neuroscience — Posted on 2015-02-27

118 Recent evolution of the mutation rate and spectrum in Europeans

Kelley Harris;

10.1101/010314 — Genomics — Posted on 2015-02-05

119 Selection of Pairings Reaching Evenly Across the Data (SPREAD): A simple algorithm to design maximally informative fully crossed mating experiments

Kolea Zimmerman;Daniel Levitis;Ethan Addicott;Anne Pringle;

10.1101/009720 — Genetics — Posted on 2015-02-05

120 Origins and impacts of new exons

Jason Merkin*;Ping Chen*;Maria Alexis;Sampsa Hautaniemi;Christopher Burge;

10.1101/009282 — Genomics — Posted on 2015-02-18

121 Leveraging transcript quantification for fast computation of alternative splicing profiles

Gael P Alamancos;Amadís Pagès;Juan L Trincado;Nicolás Bellora;Eduardo Eyras;

10.1101/008763 — Bioinformatics — Posted on 2015-02-26

122 NBLAST: Rapid, sensitive comparison of neuronal structure and construction of neuron family databases

Marta Costa;James D. Manton;Aaron D. Ostrovsky;Steffen Prohaska;Gregory S.X.E. Jefferis;

10.1101/006346 — Neuroscience — Posted on 2015-02-18

123 Postmating reproductive barriers contribute to the incipient sexual isolation of US and Caribbean Drosophila melanogaster

Joyce Y Kao;Seana Lymer;Sea H Hwang;Albert Sung;Sergey V Nuzhdin;

10.1101/007765 — Evolutionary Biology — Posted on 2015-02-27

124 Exploiting evolutionary non-commutativity to prevent the emergence of bacterial antibiotic resistance

Daniel Nichol;Peter Jeavons;Alexander G Fletcher;Robert A Bonomo;Philip K Maini;Jerome L Paul;Robert A Gatenby;Alexander RA Anderson;Jacob G Scott;

10.1101/007542 — Evolutionary Biology — Posted on 2015-02-10

125 Epigenetic Landscape Models: The Post-Genomic Era

Jose Davila-Velderrain;Juan Carlos Martinez-Garcia;Elena R Alvarez-Buylla;

10.1101/004192 — Systems Biology — Posted on 2015-02-28

126 mangal - making ecological network analysis simple

Timothée E Poisot;Benjamin Baiser;Jennifer A Dunne;Sonia Kéfi;Francois Massol;Nicolas Mouquet;Tamara N Romanuk;Daniel B Stouffer;Spencer A Wood;Dominique Gravel;

10.1101/002634 — Ecology — Posted on 2015-02-24

Archive, 2015-02