PLOS Genetics

2005 - 2025

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Volume 15, issue 12, 2019

Common gardens in teosintes reveal the establishment of a syndrome of adaptation to altitude pp. 1-34

Margaux-Alison Fustier, Natalia E Martínez-Ainsworth, Jonás A Aguirre-Liguori, Anthony Venon, Hélène Corti, Agnès Rousselet, Fabrice Dumas, Hannes Dittberner, María G Camarena, Daniel Grimanelli, Otso Ovaskainen, Matthieu Falque, Laurence Moreau, Juliette de Meaux, Salvador Montes-Hernández, Luis E Eguiarte, Yves Vigouroux, Domenica Manicacci and Maud I Tenaillon

Leveraging allelic imbalance to refine fine-mapping for eQTL studies pp. 1-24

Jennifer Zou, Farhad Hormozdiari, Brandon Jew, Stephane E Castel, Tuuli Lappalainen, Jason Ernst, Jae Hoon Sul and Eleazar Eskin

Volume 15, issue 11, 2019

Microbial phenotypic heterogeneity in response to a metabolic toxin: Continuous, dynamically shifting distribution of formaldehyde tolerance in Methylobacterium extorquens populations pp. 1-38

Jessica A Lee, Siavash Riazi, Shahla Nemati, Jannell V Bazurto, Andreas E Vasdekis, Benjamin J Ridenhour, Christopher H Remien and Christopher J Marx

Inference of recombination maps from a single pair of genomes and its application to ancient samples pp. 1-21

Gustavo V. Barroso, Nataša Puzović and Julien Y Dutheil

A meta-analysis of genome-wide association studies of epigenetic age acceleration pp. 1-30

Jude Gibson, Tom C Russ, Toni-Kim Clarke, David M Howard, Robert F Hillary, Kathryn L Evans, Rosie M Walker, Mairead L Bermingham, Stewart W Morris, Archie Campbell, Caroline Hayward, Alison D Murray, David J Porteous, Steve Horvath, Ake T Lu, Andrew M McIntosh, Heather C Whalley and Riccardo E Marioni

Contribution of Common Genetic Variants to Familial Aggregation of Disease and Implications for Sequencing Studies pp. 1-15

Andrew Schlafly, Ruth M Pfeiffer, Eduardo Nagore, Susana Puig, Donato Calista, Paola Ghiorzo, Chiara Menin, Maria Concetta Fargnoli, Ketty Peris, Lei Song, Tongwu Zhang, Jianxin Shi, Maria Teresa Landi and Joshua Neil Sampson

UMAP reveals cryptic population structure and phenotype heterogeneity in large genomic cohorts pp. 1-24

Alex Diaz-Papkovich, Luke Anderson-Trocmé, Chief Ben-Eghan and Simon Gravel

Volume 15, issue 10, 2019

Differential Requirements for the RAD51 Paralogs in Genome Repair and Maintenance in Human Cells pp. 1-29

Edwige B Garcin, Stéphanie Gon, Meghan R Sullivan, Gregory J Brunette, Anne De Cian, Jean-Paul Concordet, Carine Giovannangeli, Wilhelm G Dirks, Sonja Eberth, Kara A Bernstein, Rohit Prakash, Maria Jasin and Mauro Modesti

Bayesian multivariate reanalysis of large genetic studies identifies many new associations pp. 1-18

Michael C Turchin and Matthew Stephens

Volume 15, issue 9, 2019

An approximate full-likelihood method for inferring selection and allele frequency trajectories from DNA sequence data pp. 1-32

Aaron J Stern, Peter R Wilton and Rasmus Nielsen

The inference of sex-biased human demography from whole-genome data pp. 1-25

Shaila Musharoff, Suyash Shringarpure, Carlos D Bustamante and Sohini Ramachandran

Volume 15, issue 7, 2019

Novel protective and risk loci in hip dysplasia in German Shepherds pp. 1-30

Lea I Mikkola, Saila Holopainen, Anu K Lappalainen, Tiina Pessa-Morikawa, Thomas J P Augustine, Meharji Arumilli, Marjo K Hytönen, Osmo Hakosalo, Hannes Lohi and Antti Iivanainen

Volume 15, issue 6, 2019

Host-dependent nitrogen recycling as a mechanism of symbiont control in Aiptasia pp. 1-19

Guoxin Cui, Yi Jin Liew, Yong Li, Najeh Kharbatia, Noura I Zahran, Abdul-Hamid Emwas, Victor M Eguiluz and Manuel Aranda

Volume 15, issue 5, 2019

Estimating variance components in population scale family trees pp. 1-22

Tal Shor, Iris Kalka, Dan Geiger, Yaniv Erlich and Omer Weissbrod

Volume 15, issue 4, 2019

FunSPU: A versatile and adaptive multiple functional annotation-based association test of whole-genome sequencing data pp. 1-21

Yiding Ma and Peng Wei

Discovery and characterization of variance QTLs in human induced pluripotent stem cells pp. 1-16

Abhishek K Sarkar, Po-Yuan Tung, John D Blischak, Jonathan E Burnett, Yang I Li, Matthew Stephens and Yoav Gilad

Genome-wide association study reveals sex-specific genetic architecture of facial attractiveness pp. 1-18

Bowen Hu, Ning Shen, James J Li, Hyunseung Kang, Jinkuk Hong, Jason Fletcher, Jan Greenberg, Marsha R Mailick and Qiongshi Lu

Genome-wide association study in Turkish and Iranian populations identify rare familial Mediterranean fever gene (MEFV) polymorphisms associated with ankylosing spondylitis pp. 1-18

Zhixiu Li, Servet Akar, Handan Yarkan, Sau Kuen Lee, Pınar Çetin, Gerçek Can, Gökce Kenar, Fernur Çapa, Omer Nuri Pamuk, Yavuz Pehlivan, Katie Cremin, Erika De Guzman, Jessica Harris, Lawrie Wheeler, Ahmadreza Jamshidi, Mahdi Vojdanian, Elham Farhadi, Nooshin Ahmadzadeh, Zeynep Yüce, Ediz Dalkılıç, Dilek Solmaz, Berrin Akın, Salim Dönmez, İsmail Sarı, Paul J Leo, Tony J Kenna, Fatos Önen, Mahdi Mahmoudi, Matthew A Brown and Nurullah Akkoc

Associations of variants In the hexokinase 1 and interleukin 18 receptor regions with oxyhemoglobin saturation during sleep pp. 1-31

Brian E Cade, Han Chen, Adrienne M Stilp, Tin Louie, Sonia Ancoli-Israel, Raanan Arens, Richard Barfield, Jennifer E Below, Jianwen Cai, Matthew P Conomos, Daniel S Evans, Alexis C Frazier-Wood, Sina A Gharib, Kevin J Gleason, Daniel J Gottlieb, David R Hillman, W Craig Johnson, David J Lederer, Jiwon Lee, Jose S Loredo, Hao Mei, Sutapa Mukherjee, Sanjay R Patel, Wendy S Post, Shaun M Purcell, Alberto R Ramos, Kathryn J Reid, Ken Rice, Neomi A Shah, Tamar Sofer, Kent D Taylor, Timothy A Thornton, Heming Wang, Kristine Yaffe, Phyllis C Zee, Craig L Hanis, Lyle J Palmer, Jerome I Rotter, Katie L Stone, Gregory J Tranah, James G Wilson, Shamil R Sunyaev, Cathy C Laurie, Xiaofeng Zhu, Richa Saxena, Xihong Lin and Susan Redline

Volume 15, issue 3, 2019

Powerful gene set analysis in GWAS with the Generalized Berk-Jones statistic pp. 1-27

Ryan Sun, Shirley Hui, Gary D Bader, Xihong Lin and Peter Kraft

Volume 15, issue 2, 2019

Spatial soft sweeps: Patterns of adaptation in populations with long-range dispersal pp. 1-29

Jayson Paulose, Joachim Hermisson and Oskar Hallatschek

Searching for the causal effects of body mass index in over 300 000 participants in UK Biobank, using Mendelian randomization pp. 1-20

Louise A C Millard, Neil M Davies, Kate Tilling, Tom R Gaunt and George Davey Smith

Stress response, behavior, and development are shaped by transposable element-induced mutations in Drosophila pp. 1-33

Gabriel E Rech, María Bogaerts-Márquez, Maite G Barrón, Miriam Merenciano, José Luis Villanueva-Cañas, Vivien Horváth, Anna-Sophie Fiston-Lavier, Isabelle Luyten, Sandeep Venkataram, Hadi Quesneville, Dmitri A Petrov and Josefa González

Transcription-dependent spreading of the Dal80 yeast GATA factor across the body of highly expressed genes pp. 1-31

Aria Ronsmans, Maxime Wery, Ugo Szachnowski, Camille Gautier, Marc Descrimes, Evelyne Dubois, Antonin Morillon and Isabelle Georis

Fast and flexible linear mixed models for genome-wide genetics pp. 1-24

Daniel E Runcie and Lorin Crawford

Volume 15, issue 1, 2019

Integrating predicted transcriptome from multiple tissues improves association detection pp. 1-20

Alvaro N Barbeira, Milton Pividori, Jiamao Zheng, Heather E Wheeler, Dan L Nicolae and Hae Kyung Im

Volume 14, issue 12, 2018

Conserved mRNA-granule component Scd6 targets Dhh1 to repress translation initiation and activates Dcp2-mediated mRNA decay in vivo pp. 1-42

Quira Zeidan, Feng He, Fan Zhang, Hongen Zhang, Allan Jacobson and Alan G Hinnebusch

Bayesian multiple logistic regression for case-control GWAS pp. 1-27

Saikat Banerjee, Lingyao Zeng, Heribert Schunkert and Johannes Söding

Genetic regulation of the placental transcriptome underlies birth weight and risk of childhood obesity pp. 1-15

Shouneng Peng, Maya A Deyssenroth, Antonio F Di Narzo, Haoxiang Cheng, Zhongyang Zhang, Luca Lambertini, Arno Ruusalepp, Jason C Kovacic, Johan L M Bjorkegren, Carmen J Marsit, Jia Chen and Ke Hao

Expression reflects population structure pp. 1-15

Brielin C Brown, Nicolas L Bray and Lior Pachter

Large-scale genome-wide meta-analysis of polycystic ovary syndrome suggests shared genetic architecture for different diagnosis criteria pp. 1-20

Felix Day, Tugce Karaderi, Michelle R Jones, Cindy Meun, Chunyan He, Alex Drong, Peter Kraft, Nan Lin, Hongyan Huang, Linda Broer, Reedik Magi, Richa Saxena, Triin Laisk, Margrit Urbanek, M Geoffrey Hayes, Gudmar Thorleifsson, Juan Fernandez-Tajes, Anubha Mahajan, Benjamin H Mullin, Bronwyn G A Stuckey, Timothy D Spector, Scott G Wilson, Mark O Goodarzi, Lea Davis, Barbara Obermayer-Pietsch, André G Uitterlinden, Verneri Anttila, Benjamin M Neale, Marjo-Riitta Jarvelin, Bart Fauser, Irina Kowalska, Jenny A Visser, Marianne Andersen, Ken Ong, Elisabet Stener-Victorin, David Ehrmann, Richard S Legro, Andres Salumets, Mark I McCarthy, Laure Morin-Papunen, Unnur Thorsteinsdottir, Kari Stefansson, the 23andMe Research Team, Unnur Styrkarsdottir, John R B Perry, Andrea Dunaif, Joop Laven, Steve Franks, Cecilia M Lindgren and Corrine K Welt

Volume 14, issue 11, 2018

Single-cell RNA-sequencing reveals transcriptional dynamics of estrogen-induced dysplasia in the ovarian surface epithelium pp. 1-22

Nhung H Vuong, David P Cook, Laura A Forrest, Lauren E Carter, Pascale Robineau-Charette, Joshua M Kofsky, Kendra M Hodgkinson and Barbara C Vanderhyden

How many individuals share a mitochondrial genome? pp. 1-11

Mikkel M Andersen and David J Balding

Volume 14, issue 10, 2018

Heritability informed power optimization (HIPO) leads to enhanced detection of genetic associations across multiple traits pp. 1-21

Guanghao Qi and Nilanjan Chatterjee

A central role for PBP2 in the activation of peptidoglycan polymerization by the bacterial cell elongation machinery pp. 1-25

Patricia D A Rohs, Jackson Buss, Sue I Sim, Georgia R Squyres, Veerasak Srisuknimit, Mandy Smith, Hongbaek Cho, Megan Sjodt, Andrew C Kruse, Ethan C Garner, Suzanne Walker, Daniel E Kahne and Thomas G Bernhardt

Metabolic adaptations underlying genome flexibility in prokaryotes pp. 1-15

Akshit Goyal

Human genetic variation in GLS2 is associated with development of complicated Staphylococcus aureus bacteremia pp. 1-22

William K Scott, Felix Mba Medie, Felicia Ruffin, Batu K Sharma-Kuinkel, Derek D Cyr, Shengru Guo, Derek M Dykxhoorn, Robert L Skov, Niels E Bruun, Anders Dahl, Christian J Lerche, Andreas Petersen, Anders Rhod Larsen, Trine Kiilerich Lauridsen, Helle Krogh Johansen, Henrik Ullum, Erik Sørensen, Christian Hassager, Henning Bundgaard, Henrik C Schønheyder, Christian Torp-Pedersen, Louise Bruun Østergaard, Magnus Arpi, Flemming Rosenvinge, Lise T Erikstrup, Mahtab Chehri, Peter Søgaard, Paal S Andersen and Vance G Fowler

ProxECAT: Proxy External Controls Association Test. A new case-control gene region association test using allele frequencies from public controls pp. 1-14

Audrey E Hendricks, Stephen C Billups, Hamish N C Pike, I Sadaf Farooqi, Eleftheria Zeggini, Stephanie A Santorico, Inês Barroso and Josée Dupuis

Volume 14, issue 9, 2018

Distinct CED-10/Rac1 domains confer context-specific functions in development pp. 1-24

Steffen Nørgaard, Shuer Deng, Wei Cao and Roger Pocock

Detecting archaic introgression using an unadmixed outgroup pp. 1-15

Laurits Skov, Ruoyun Hui, Vladimir Shchur, Asger Hobolth, Aylwyn Scally, Mikkel Heide Schierup and Richard Durbin

Genome-wide meta-analysis of 158,000 individuals of European ancestry identifies three loci associated with chronic back pain pp. 1-23

Pradeep Suri, Melody R Palmer, Yakov A Tsepilov, Maxim B Freidin, Cindy G Boer, Michelle S Yau, Daniel S Evans, Andrea Gelemanovic, Traci M Bartz, Maria Nethander, Liubov Arbeeva, Lennart Karssen, Tuhina Neogi, Archie Campbell, Dan Mellstrom, Claes Ohlsson, Lynn M Marshall, Eric Orwoll, Andre Uitterlinden, Jerome I Rotter, Gordan Lauc, Bruce M Psaty, Magnus K Karlsson, Nancy E Lane, Gail P Jarvik, Ozren Polasek, Marc Hochberg, Joanne M Jordan, Joyce B J Van Meurs, Rebecca Jackson, Carrie M Nielson, Braxton D Mitchell, Blair H Smith, Caroline Hayward, Nicholas L Smith, Yurii S Aulchenko and Frances M K Williams

Volume 14, issue 8, 2018

A genome-wide association study identifies a susceptibility locus for biliary atresia on 2p16.1 within the gene EFEMP1 pp. 1-19

Ying Chen, Melissa A Gilbert, Christopher M Grochowski, Deborah McEldrew, Jessica Llewellyn, Orith Waisbourd-Zinman, Hakon Hakonarson, Joan E Bailey-Wilson, Pierre Russo, Rebecca G Wells, Kathleen M Loomes, Nancy B Spinner and Marcella Devoto

Identification of expression quantitative trait loci associated with schizophrenia and affective disorders in normal brain tissue pp. 1-25

Oneil G Bhalala, Artika P Nath, Brain Expression Consortium Uk, Michael Inouye and Christopher R Sibley

Genetic architecture of gene expression traits across diverse populations pp. 1-21

Lauren S Mogil, Angela Andaleon, Alexa Badalamenti, Scott P Dickinson, Xiuqing Guo, Jerome I Rotter, W Craig Johnson, Hae Kyung Im, Yongmei Liu and Heather E Wheeler

Investigating the shared genetics of non-syndromic cleft lip/palate and facial morphology pp. 1-18

Laurence J Howe, Myoung Keun Lee, Gemma C Sharp, George Davey Smith, Beate St Pourcain, John R Shaffer, Kerstin U Ludwig, Elisabeth Mangold, Mary L Marazita, Eleanor Feingold, Alexei Zhurov, Evie Stergiakouli, Jonathan Sandy, Stephen Richmond, Seth M Weinberg, Gibran Hemani and Sarah J Lewis

Volume 14, issue 7, 2018

Rad51 recruitment and exclusion of non-homologous end joining during homologous recombination at a Tus/Ter mammalian replication fork barrier pp. 1-28

Nicholas A Willis, Arvind Panday, Erin E Duffey and Ralph Scully

Proper conditional analysis in the presence of missing data: Application to large scale meta-analysis of tobacco use phenotypes pp. 1-19

Yu Jiang, Sai Chen, Daniel McGuire, Fang Chen, Mengzhen Liu, William G Iacono, John K Hewitt, John E Hokanson, Kenneth Krauter, Markku Laakso, Kevin W Li, Sharon M Lutz, Matthew McGue, Anita Pandit, Gregory J M Zajac, Michael Boehnke, Goncalo R Abecasis, Scott I Vrieze, Xiaowei Zhan, Bibo Jiang and Dajiang J Liu

Volume 14, issue 6, 2018

Calcium and cAMP directly modulate the speed of the Drosophila circadian clock pp. 1-21

Angelina Palacios-Muñoz and John Ewer

Volume 14, issue 5, 2018

Machine learning identifies signatures of host adaptation in the bacterial pathogen Salmonella enterica pp. 1-20

Nicole E Wheeler, Paul P Gardner and Lars Barquist

Volume 14, issue 2, 2018

Deep sequencing of HBV pre-S region reveals high heterogeneity of HBV genotypes and associations of word pattern frequencies with HCC pp. 1-20

Xin Bai, Jian-an Jia, Meng Fang, Shipeng Chen, Xiaotao Liang, Shanfeng Zhu, Shuqin Zhang, Jianfeng Feng, Fengzhu Sun and Chunfang Gao

Methods for fine-mapping with chromatin and expression data pp. 1-25

Megan Roytman, Gleb Kichaev, Alexander Gusev and Bogdan Pasaniuc

Volume 14, issue 1, 2018

Identifying and exploiting trait-relevant tissues with multiple functional annotations in genome-wide association studies pp. 1-32

Xingjie Hao, Ping Zeng, Shujun Zhang and Xiang Zhou

Insular Celtic population structure and genomic footprints of migration pp. 1-22

Ross P Byrne, Rui Martiniano, Lara M Cassidy, Matthew Carrigan, Garrett Hellenthal, Orla Hardiman, Daniel G Bradley and Russell L McLaughlin