PLOS Genetics

2005 - 2022

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Volume 14, issue 12, 2018

On the unfounded enthusiasm for soft selective sweeps II: Examining recent evidence from humans, flies, and viruses pp. 1-21

Rebecca B Harris, Andrew Sackman and Jeffrey D Jensen

Correction: Within-patient mutation frequencies reveal fitness costs of CpG dinucleotides and drastic amino acid changes in HIV pp. 1-1

Kristof Theys, Alison F Feder, Maoz Gelbart, Marion Hartl, Adi Stern and Pleuni S Pennings

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

Doubling down on forensic twin studies pp. 1-2

Gregory P Copenhaver, Bruce Weir, Mark Rothstein, Hua Tang, Scott M Williams and Gregory S Barsh

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

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

Saikat Banerjee, Lingyao Zeng, Heribert Schunkert and Johannes Söding

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

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

Mikkel M Andersen and David J Balding

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

Association analysis using somatic mutations pp. 1-18

Yang Liu, Qianchan He and Wei Sun

Volume 14, issue 10, 2018

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

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

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

Guanghao Qi and Nilanjan Chatterjee

A novel framework for inferring parameters of transmission from viral sequence data pp. 1-37

Casper K Lumby, Nuno R Nene and Christopher J R Illingworth

Deleterious variation shapes the genomic landscape of introgression pp. 1-30

Bernard Y Kim, Christian D Huber and Kirk E Lohmueller

A systems biology approach uncovers the core gene regulatory network governing iridophore fate choice from the neural crest pp. 1-32

Kleio Petratou, Tatiana Subkhankulova, James A Lister, Andrea Rocco, Hartmut Schwetlick and Robert N Kelsh

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

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

Genome-wide association studies and CRISPR/Cas9-mediated gene editing identify regulatory variants influencing eyebrow thickness in humans pp. 1-22

Sijie Wu, Manfei Zhang, Xinzhou Yang, Fuduan Peng, Juan Zhang, Jingze Tan, Yajun Yang, Lina Wang, Yanan Hu, Qianqian Peng, Jinxi Li, Yu Liu, Yaqun Guan, Chen Chen, Merel A Hamer, Tamar Nijsten, Changqing Zeng, Kaustubh Adhikari, Carla Gallo, Giovanni Poletti, Lavinia Schuler-Faccini, Maria-Cátira Bortolini, Samuel Canizales-Quinteros, Francisco Rothhammer, Gabriel Bedoya, Rolando González-José, Hui Li, Jean Krutmann, Fan Liu, Manfred Kayser, Andres Ruiz-Linares, Kun Tang, Shuhua Xu, Liang Zhang, Li Jin and Sijia Wang

Mutation load dynamics during environmentally-driven range shifts pp. 1-18

Kimberly J Gilbert, Stephan Peischl and Laurent Excoffier

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

Steffen Nørgaard, Shuer Deng, Wei Cao and Roger Pocock

Correction: Whole exome sequencing reveals HSPA1L as a genetic risk factor for spontaneous preterm birth pp. 1-1

Johanna M Huusko, Minna K Karjalainen, Britney E Graham, Ge Zhang, Emily G Farrow, Neil A Miller, Bo Jacobsson, Haley R Eidem, Jeffrey C Murray, Bruce Bedell, Patrick Breheny, Noah W Brown, Frans L Bødker, Nadia K Litterman, Pan-Pan Jiang, Laura Russell, David A Hinds, Youna Hu, the 23andMe Research Team, Antonis Rokas, Kari Teramo, Kaare Christensen, Scott M Williams, Mika Rämet, Stephen F Kingsmore, Kelli K Ryckman, Mikko Hallman and Louis J Muglia

Volume 14, issue 8, 2018

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

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

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

UBTOR/KIAA1024 regulates neurite outgrowth and neoplasia through mTOR signaling pp. 1-21

Hefei Zhang, Quan Zhang, Ge Gao, Xinjian Wang, Tiantian Wang, Zhitao Kong, Guoxiang Wang, Cuizhen Zhang, Yun Wang and Gang Peng

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

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

Correction: Competing for Iron: Duplication and Amplification of the isd Locus in Staphylococcus lugdunensis HKU09-01 Provides a Competitive Advantage to Overcome Nutritional Limitation pp. 1-1

Simon Heilbronner, Ian R Monk, Jeremy R Brozyna, David E Heinrichs, Eric P Skaar, Andreas Peschel and Timothy J Foster

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

High-resolution transcriptional dissection of in vivo Atoh1-mediated hair cell conversion in mature cochleae identifies Isl1 as a co-reprogramming factor pp. 1-25

Tetsuji Yamashita, Fei Zheng, David Finkelstein, Zoe Kellard, Robert Carter, Celeste D Rosencrance, Ken Sugino, John Easton, Charles Gawad and Jian Zuo

Volume 14, issue 6, 2018

Colorectal cancer mutational profiles correlate with defined microbial communities in the tumor microenvironment pp. 1-24

Michael B Burns, Emmanuel Montassier, Juan Abrahante, Sambhawa Priya, David E Niccum, Alexander Khoruts, Timothy K Starr, Dan Knights and Ran Blekhman

Human demographic history has amplified the effects of background selection across the genome pp. 1-27

Raul Torres, Zachary A Szpiech and Ryan D Hernandez

The importance of using public data to validate reported associations pp. 1-2

Georgia Chenevix-Trench, Jonathan Beesley, Paul D P Pharoah and Andrew Berchuck

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

Ancestry-specific recent effective population size in the Americas pp. 1-22

Sharon R Browning, Brian L Browning, Martha L Daviglus, Ramon A Durazo-Arvizu, Neil Schneiderman, Robert C Kaplan and Cathy C Laurie

A homozygous KAT2B variant modulates the clinical phenotype of ADD3 deficiency in humans and flies pp. 1-26

Sara Gonçalves, Julie Patat, Maria Clara Guida, Noelle Lachaussée, Christelle Arrondel, Martin Helmstädter, Olivia Boyer, Olivier Gribouval, Marie-Claire Gubler, Geraldine Mollet, Marlène Rio, Marina Charbit, Christine Bole-Feysot, Patrick Nitschke, Tobias B Huber, Patricia G Wheeler, Devon Haynes, Jane Juusola, Thierry Billette de Villemeur, Caroline Nava, Alexandra Afenjar, Boris Keren, Rolf Bodmer, Corinne Antignac and Matias Simons

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

Evaluation and application of summary statistic imputation to discover new height-associated loci pp. 1-32

Sina Rüeger, Aaron McDaid and Zoltán Kutalik

Correction: Single-trait and multi-trait genome-wide association analyses identify novel loci for blood pressure in African-ancestry populations pp. 1-1

Jingjing Liang, Thu H Le, Digna R Velez Edwards, Bamidele O Tayo, Kyle J Gaulton, Jennifer A Smith, Yingchang Lu, Richard A Jensen, Guanjie Chen, Lisa R Yanek, Karen Schwander, Salman M Tajuddin, Tamar Sofer, Wonji Kim, James Kayima, Colin A McKenzie, Ervin Fox, Michael A Nalls, J Hunter Young, Yan V Sun, Jacqueline M Lane, Sylvia Cechova, Jie Zhou, Hua Tang, Myriam Fornage, Solomon K Musani, Heming Wang, Juyoung Lee, Adebowale Adeyemo, Albert W Dreisbach, Terrence Forrester, Pei-Lun Chu, Anne Cappola, Michele K Evans, Alanna C Morrison, Lisa W Martin, Kerri L Wiggins, Qin Hui, Wei Zhao, Rebecca D Jackson, Erin B Ware, Jessica D Faul, Alex P Reiner, Michael Bray, Joshua C Denny, Thomas H Mosley, Walter Palmas, Xiuqing Guo, George J Papanicolaou, Alan D Penman, Joseph F Polak, Kenneth Rice, Ken D Taylor, Eric Boerwinkle, Erwin P Bottinger, Kiang Liu, Neil Risch, Steven C Hunt, Charles Kooperberg, Alan B Zonderman, Cathy C Laurie, Diane M Becker, Jianwen Cai, Ruth J F Loos, Bruce M Psaty, David R Weir, Sharon L R Kardia, Donna K Arnett, Sungho Won, Todd L Edwards, Susan Redline, Richard S Cooper, D C Rao, Jerome I Rotter, Charles Rotimi, Daniel Levy, Aravinda Chakravarti, Xiaofeng Zhu and Nora Franceschini

Correction: Background sequence characteristics influence the occurrence and severity of disease-causing mtDNA mutations pp. 1-1

Wei Wei, Aurora Gomez-Duran, Gavin Hudson and Patrick F Chinnery

Volume 14, issue 3, 2018

Hereditary cancer genes are highly susceptible to splicing mutations pp. 1-18

Christy L Rhine, Kamil J Cygan, Rachel Soemedi, Samantha Maguire, Michael F Murray, Sean F Monaghan and William G Fairbrother

Correction: Defining the genetic susceptibility to cervical neoplasia—A genome-wide association study pp. 1-1

Paul J Leo, Margaret M Madeleine, Sophia Wang, Stephen M Schwartz, Felicity Newell, Ulrika Pettersson-Kymmer, Kari Hemminki, Goran Hallmans, Sven Tiews, Winfried Steinberg, Janet S Rader, Felipe Castro, Mahboobeh Safaeian, Eduardo L Franco, François Coutlée, Claes Ohlsson, Adrian Cortes, Mhairi Marshall, Pamela Mukhopadhyay, Katie Cremin, Lisa G Johnson, Cornelia L Trimble, Suzanne Garland, Sepehr N Tabrizi, Nicolas Wentzensen, Freddy Sitas, Julian Little, Maggie Cruickshank, Ian H Frazer, Allan Hildesheim and Matthew A Brown

Volume 14, issue 2, 2018

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

Megan Roytman, Gleb Kichaev, Alexander Gusev and Bogdan Pasaniuc

Correction: Phenome-wide heritability analysis of the UK Biobank pp. 1-1

Tian Ge, Chia-Yen Chen, Benjamin M Neale, Mert R Sabuncu and Jordan W Smoller

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

An efficient Bayesian meta-analysis approach for studying cross-phenotype genetic associations pp. 1-32

Arunabha Majumdar, Tanushree Haldar, Sourabh Bhattacharya and John S Witte

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