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April 2025, Volume 21, Issue 4
- 1-19 Probing the limits of cis-acting gene regulation using a model of allelic imbalance quantitative trait loci
by Cathal Seoighe & Seán Connaire & Mehak Chopra - 1-33 Probabilistic classification of gene-by-treatment interactions on molecular count phenotypes
by Yuriko Harigaya & Nana Matoba & Brandon D Le & Jordan M Valone & Jason L Stein & Michael I Love & William Valdar
March 2025, Volume 21, Issue 3
- 1-16 Local genetic covariance analysis with lipid traits identifies novel loci for early-onset Alzheimer’s Disease
by Nicholas R Ray & Joseph Bradley & Elanur Yilmaz & Caghan Kizil & Jiji T Kurup & Eden R Martin & Hans-Ulrich Klein & Brian W Kunkle & David A Bennett & Philip L De Jager & Alzheimer’s Disease Genetics Consortium & Gary W Beecham & Carlos Cruchaga & Christiane Reitz - 1-18 RatXcan: A framework for cross-species integration of genome-wide association and gene expression data
by Natasha Santhanam & Sandra Sanchez-Roige & Sabrina Mi & Yanyu Liang & Apurva S Chitre & Daniel Munro & Denghui Chen & Jianjun Gao & Angel Garcia-Martinez & Anthony M George & Alexander F Gileta & Wenyan Han & Katie Holl & Alesa Hughson & Christopher P King & Alexander C Lamparelli & Connor D Martin & Festus Nyasimi & Celine L St. Pierre & Sarah Sumner & Jordan Tripi & Tengfei Wang & Hao Chen & Shelly Flagel & Keita Ishiwari & Paul Meyer & Oksana Polesskaya & Laura Saba & Leah C Solberg Woods & Abraham A Palmer & Hae Kyung Im - 1-33 Haplotype-based analysis distinguishes maternal-fetal genetic contribution to pregnancy-related outcomes
by Amit K Srivastava & Julius Juodakis & Pol Sole-Navais & Jing Chen & Jonas Bacelis & Kari Teramo & Mikko Hallman & Pal R Njølstad & David M Evans & Bo Jacobsson & Louis J Muglia & Ge Zhang
February 2025, Volume 21, Issue 2
- 1-20 Two transmembrane transcriptional regulators coordinate to activate chitin-induced natural transformation in Vibrio cholerae
by Allison C Hullinger & Virginia E Green & Catherine A Klancher & Triana N Dalia & Ankur B Dalia
January 2025, Volume 21, Issue 1
- 1-16 Estimating evolutionary and demographic parameters via ARG-derived IBD
by Zhendong Huang & Jerome Kelleher & Yao-ban Chan & David Balding - 1-21 Refining fine-mapping: Effect sizes and regional heritability
by Christian Benner & Anubha Mahajan & Matti Pirinen - 1-22 ADELLE: A global testing method for trans-eQTL mapping
by Takintayo Akinbiyi & Mary Sara McPeek & Mark Abney - 1-26 metaGE: Investigating genotype x environment interactions through GWAS meta-analysis
by Annaïg De Walsche & Alexis Vergne & Renaud Rincent & Fabrice Roux & Stéphane Nicolas & Claude Welcker & Sofiane Mezmouk & Alain Charcosset & Tristan Mary-Huard
December 2024, Volume 20, Issue 12
- 1-20 Disentangling the consequences of type 2 diabetes on targeted metabolite profiles using causal inference and interaction QTL analyses
by Ozvan Bocher & Archit Singh & Yue Huang & Urmo Võsa & Ene Reimann & Ana Arruda & Andrei Barysenska & Anastassia Kolde & Nigel W Rayner & Estonian Biobank research team & Tõnu Esko & Reedik Mägi & Eleftheria Zeggini - 1-26 FABIO: TWAS fine-mapping to prioritize causal genes for binary traits
by Haihan Zhang & Kevin He & Zheng Li & Lam C Tsoi & Xiang Zhou - 1-29 Adjusting for principal components can induce collider bias in genome-wide association studies
by Kelsey E Grinde & Brian L Browning & Alexander P Reiner & Timothy A Thornton & Sharon R Browning - 1-30 Integrin adhesome axis inhibits the RPM-1 ubiquitin ligase signaling hub to regulate growth cone and axon development
by Jonathan Amezquita & Muriel Desbois & Karla J Opperman & Joseph S Pak & Elyse L Christensen & Nikki T Nguyen & Karen Diaz-Garcia & Melissa A Borgen & Brock Grill
November 2024, Volume 20, Issue 11
- 1-23 A novel statistical framework for meta-analysis of total mediation effect with high-dimensional omics mediators in large-scale genomic consortia
by Zhichao Xu & Peng Wei - 1-29 Prediction of causal genes at GWAS loci with pleiotropic gene regulatory effects using sets of correlated instrumental variables
by Mariyam Khan & Adriaan-Alexander Ludl & Sean Bankier & Johan L M Björkegren & Tom Michoel
October 2024, Volume 20, Issue 10
- 1-19 STAREG: Statistical replicability analysis of high throughput experiments with applications to spatial transcriptomic studies
by Yan Li & Xiang Zhou & Rui Chen & Xianyang Zhang & Hongyuan Cao - 1-25 Dual role for Headcase in hemocyte progenitor fate determination in Drosophila melanogaster
by Bayan Kharrat & Erika Gábor & Nikolett Virág & Rita Sinka & Ferenc Jankovics & Ildikó Kristó & Péter Vilmos & Gábor Csordás & Viktor Honti
September 2024, Volume 20, Issue 9
- 1-16 Prioritizing disease-related rare variants by integrating gene expression data
by Hanmin Guo & Alexander Eckehart Urban & Wing Hung Wong - 1-18 Upstream open reading frames repress the translation from the iab-8 RNA
by Yohan Frei & Clément Immarigeon & Maxime Revel & François Karch & Robert K Maeda - 1-23 MR-SPLIT: A novel method to address selection and weak instrument bias in one-sample Mendelian randomization studies
by Ruxin Shi & Ling Wang & Stephen Burgess & Yuehua Cui - 1-25 Constraining models of dominance for nonsynonymous mutations in the human genome
by Christopher C Kyriazis & Kirk E Lohmueller
August 2024, Volume 20, Issue 8
- 1-18 Enhancing portability of trans-ancestral polygenic risk scores through tissue-specific functional genomic data integration
by Bradley Crone & Alan P Boyle - 1-21 Finemap-MiXeR: A variational Bayesian approach for genetic finemapping
by Bayram Cevdet Akdeniz & Oleksandr Frei & Alexey Shadrin & Dmitry Vetrov & Dmitry Kropotov & Eivind Hovig & Ole A Andreassen & Anders M Dale
July 2024, Volume 20, Issue 7
- 1-22 Improving population scale statistical phasing with whole-genome sequencing data
by Rick Wertenbroek & Robin J Hofmeister & Ioannis Xenarios & Yann Thoma & Olivier Delaneau
June 2024, Volume 20, Issue 6
- 1-20 TGF-β ligand cross-subfamily interactions in the response of Caenorhabditis elegans to a bacterial pathogen
by Emma Jo Ciccarelli & Zachary Wing & Moshe Bendelstein & Ramandeep Kaur Johal & Gurjot Singh & Ayelet Monas & Cathy Savage-Dunn
May 2024, Volume 20, Issue 5
- 1-18 Simultaneous estimation of genotype error and uncalled deletion rates in whole genome sequence data
by Nobuaki Masaki & Sharon R Browning & Brian L Browning - 1-27 Transcription decouples estrogen-dependent changes in enhancer-promoter contact frequencies and spatial proximity
by Luciana I Gómez Acuña & Ilya Flyamer & Shelagh Boyle & Elias T Friman & Wendy A Bickmore
April 2024, Volume 20, Issue 4
- 1-17 Correlation-based tests for the formal comparison of polygenic scores in multiple populations
by Sophia Gunn & Kathryn L Lunetta - 1-23 Better together against genetic heterogeneity: A sex-combined joint main and interaction analysis of 290 quantitative traits in the UK Biobank
by Boxi Lin & Andrew D Paterson & Lei Sun - 1-27 Collider bias correction for multiple covariates in GWAS using robust multivariable Mendelian randomization
by Peiyao Wang & Zhaotong Lin & Haoran Xue & Wei Pan
March 2024, Volume 20, Issue 3
- 1-25 Canadian COVID-19 host genetics cohort replicates known severity associations
by Elika Garg & Paola Arguello-Pascualli & Olga Vishnyakova & Anat R Halevy & Samantha Yoo & Jennifer D Brooks & Shelley B Bull & France Gagnon & Celia M T Greenwood & Rayjean J Hung & Jerald F Lawless & Jordan Lerner-Ellis & Jessica K Dennis & Rohan J S Abraham & Jean-Michel Garant & Bhooma Thiruvahindrapuram & Steven J M Jones & CGEn HostSeq Initiative & Lisa J Strug & Andrew D Paterson & Lei Sun & Lloyd T Elliott
February 2024, Volume 20, Issue 2
- 1-21 TRAILS: Tree reconstruction of ancestry using incomplete lineage sorting
by Iker Rivas-González & Mikkel H Schierup & John Wakeley & Asger Hobolth - 1-28 Maintenance of proteostasis by Drosophila Rer1 is essential for competitive cell survival and Myc-driven overgrowth
by Pranab Kumar Paul & Shruti Umarvaish & Shivani Bajaj & Rishana Farin S. & Hrudya Mohan & Wim Annaert & Varun Chaudhary
December 2023, Volume 19, Issue 12
- 1-20 FiMAP: A fast identity-by-descent mapping test for biobank-scale cohorts
by Han Chen & Ardalan Naseri & Degui Zhi - 1-21 cLD: Rare-variant linkage disequilibrium between genomic regions identifies novel genomic interactions
by Dinghao Wang & Deshan Perera & Jingni He & Chen Cao & Pathum Kossinna & Qing Li & William Zhang & Xingyi Guo & Alexander Platt & Jingjing Wu & Qingrun Zhang - 1-28 Uncovering associations between pre-existing conditions and COVID-19 Severity: A polygenic risk score approach across three large biobanks
by Lars G Fritsche & Kisung Nam & Jiacong Du & Ritoban Kundu & Maxwell Salvatore & Xu Shi & Seunggeun Lee & Stephen Burgess & Bhramar Mukherjee
November 2023, Volume 19, Issue 11
- 1-17 Transfer learning with false negative control improves polygenic risk prediction
by Xinge Jessie Jeng & Yifei Hu & Vaishnavi Venkat & Tzu-Pin Lu & Jung-Ying Tzeng - 1-21 BRASS: Permutation methods for binary traits in genetic association studies with structured samples
by Joelle Mbatchou & Mark Abney & Mary Sara McPeek - 1-26 Methods for mediation analysis with high-dimensional DNA methylation data: Possible choices and comparisons
by Dylan Clark-Boucher & Xiang Zhou & Jiacong Du & Yongmei Liu & Belinda L Needham & Jennifer A Smith & Bhramar Mukherjee - 1-27 Inferring multi-locus selection in admixed populations
by Nicolas M Ayala & Maximilian Genetti & Russell Corbett-Detig - 1-27 Phosphorylation of AHR by PLK1 promotes metastasis of LUAD via DIO2-TH signaling
by Chaohao Li & Derek B Allison & Daheng He & Fengyi Mao & Xinyi Wang & Piotr Rychahou & Ibrahim A Imam & Yifan Kong & Qiongsi Zhang & Yanquan Zhang & Jinghui Liu & Ruixin Wang & Xiongjian Rao & Sai Wu & B Mark Evers & Qing Shao & Chi Wang & Zhiguo Li & Xiaoqi Liu
October 2023, Volume 19, Issue 10
- 1-19 Meta-analysis of genome-wide association studies of gestational duration and spontaneous preterm birth identifies new maternal risk loci
by Anu Pasanen & Minna K Karjalainen & FinnGen & Ge Zhang & Heli Tiensuu & Antti M Haapalainen & Marja Ojaniemi & Bjarke Feenstra & Bo Jacobsson & Aarno Palotie & Hannele Laivuori & Louis J Muglia & Mika Rämet & Mikko Hallman - 1-25 SMASH: Scalable Method for Analyzing Spatial Heterogeneity of genes in spatial transcriptomics data
by Souvik Seal & Benjamin G Bitler & Debashis Ghosh
September 2023, Volume 19, Issue 9
- 1-13 Large-scale whole exome sequencing studies identify two genes,CTSL and APOE, associated with lung cancer
by Jingxiong Xu & Wei Xu & Jiyeon Choi & Yonathan Brhane & David C Christiani & Jui Kothari & James McKay & John K Field & Michael P A Davies & Geoffrey Liu & Christopher I Amos & Rayjean J Hung & Laurent Briollais - 1-23 On the interpretation of transcriptome-wide association studies
by Christiaan de Leeuw & Josefin Werme & Jeanne E Savage & Wouter J Peyrot & Danielle Posthuma - 1-28 Inferring gene regulatory network from single-cell transcriptomes with graph autoencoder model
by Jiacheng Wang & Yaojia Chen & Quan Zou - 1-28 Saturation genome editing of 11 codons and exon 13 of BRCA2 coupled with chemotherapeutic drug response accurately determines pathogenicity of variants
by Sounak Sahu & Teresa L Sullivan & Alexander Y Mitrophanov & Mélissa Galloux & Darryl Nousome & Eileen Southon & Dylan Caylor & Arun Prakash Mishra & Christine N Evans & Michelle E Clapp & Sandra Burkett & Tyler Malys & Raj Chari & Kajal Biswas & Shyam K Sharan - 1-29 Review and further developments in statistical corrections for Winner’s Curse in genetic association studies
by Amanda Forde & Gibran Hemani & John Ferguson - 1-32 Evolutionary conserved circular MEF2A RNAs regulate myogenic differentiation and skeletal muscle development
by Xiaoxu Shen & Xiyu Zhao & Haorong He & Jing Zhao & Yuanhang Wei & Yuqi Chen & Shunshun Han & Yifeng Zhu & Yao Zhang & Qing Zhu & Huadong Yin
August 2023, Volume 19, Issue 8
- 1-19 Accurate detection of shared genetic architecture from GWAS summary statistics in the small-sample context
by Thomas W Willis & Chris Wallace
July 2023, Volume 19, Issue 7
- 1-21 A flexible empirical Bayes approach to multivariate multiple regression, and its improved accuracy in predicting multi-tissue gene expression from genotypes
by Fabio Morgante & Peter Carbonetto & Gao Wang & Yuxin Zou & Abhishek Sarkar & Matthew Stephens - 1-22 Regularized sequence-context mutational trees capture variation in mutation rates across the human genome
by Christopher J Adams & Mitchell Conery & Benjamin J Auerbach & Shane T Jensen & Iain Mathieson & Benjamin F Voight - 1-26 A Van Gogh/Vangl tyrosine phosphorylation switch regulates its interaction with core Planar Cell Polarity factors Prickle and Dishevelled
by Ashley C Humphries & Claudia Molina-Pelayo & Parijat Sil & C Clayton Hazelett & Danelle Devenport & Marek Mlodzik - 1-27 Organization and replicon interactions within the highly segmented genome of Borrelia burgdorferi
by Zhongqing Ren & Constantin N Takacs & Hugo B Brandão & Christine Jacobs-Wagner & Xindan Wang - 1-29 A genetic tradeoff for tolerance to moderate and severe heat stress in US hybrid maize
by Aaron Kusmec & Lakshmi Attigala & Xiongtao Dai & Srikant Srinivasan & Cheng-Ting “Eddy” Yeh & Patrick S Schnable
June 2023, Volume 19, Issue 6
- 1-20 Combinations of genes at the 16p11.2 and 22q11.2 CNVs contribute to neurobehavioral traits
by Mikhail Vysotskiy & Autism Working Group of the Psychiatric Genomics Consortium & Bipolar Disorder Working Group of the Psychiatric Genomics Consortium & Schizophrenia Working Group of the Psychiatric Genomics Consortium & Lauren A Weiss - 1-22 Relaxing parametric assumptions for non-linear Mendelian randomization using a doubly-ranked stratification method
by Haodong Tian & Amy M Mason & Cunhao Liu & Stephen Burgess
May 2023, Volume 19, Issue 5
- 1-26 The molecular mechanism for carbon catabolite repression of the chitin response in Vibrio cholerae
by Virginia E Green & Catherine A Klancher & Shouji Yamamoto & Ankur B Dalia - 1-32 Transcriptome-wide gene-gene interaction associations elucidate pathways and functional enrichment of complex traits
by Luke M Evans & Christopher H Arehart & Andrew D Grotzinger & Travis J Mize & Maizy S Brasher & Jerry A Stitzel & Marissa A Ehringer & Charles A Hoeffer
April 2023, Volume 19, Issue 4
- 1-25 Imputed genomes and haplotype-based analyses of the Picts of early medieval Scotland reveal fine-scale relatedness between Iron Age, early medieval and the modern people of the UK
by Adeline Morez & Kate Britton & Gordon Noble & Torsten Günther & Anders Götherström & Ricardo Rodríguez-Varela & Natalija Kashuba & Rui Martiniano & Sahra Talamo & Nicholas J Evans & Joel D Irish & Christina Donald & Linus Girdland-Flink
March 2023, Volume 19, Issue 3
- 1-25 Tuberculosis severity associates with variants and eQTLs related to vascular biology and infection-induced inflammation
by Michael L McHenry & Jason Simmons & Hyejeong Hong & LaShaunda L Malone & Harriet Mayanja-Kizza & William S Bush & W Henry Boom & Thomas R Hawn & Scott M Williams & Catherine M Stein
February 2023, Volume 19, Issue 2
- 1-17 The identification of mediating effects using genome-based restricted maximum likelihood estimation
by Cornelius A Rietveld & Ronald de Vlaming & Eric A W Slob - 1-22 Bayesian inference of admixture graphs on Native American and Arctic populations
by Svend V Nielsen & Andrew H Vaughn & Kalle Leppälä & Michael J Landis & Thomas Mailund & Rasmus Nielsen
January 2023, Volume 19, Issue 1
- 1-17 Decomposing heritability and genetic covariance by direct and indirect effect paths
by Jie Song & Yiqing Zou & Yuchang Wu & Jiacheng Miao & Ze Yu & Jason M Fletcher & Qiongshi Lu - 1-19 Historic samples reveal loss of wild genotype through domestic chicken introgression during the Anthropocene
by Meng Yue Wu & Giovanni Forcina & Gabriel Weijie Low & Keren R Sadanandan & Chyi Yin Gwee & Hein van Grouw & Shaoyuan Wu & Scott V Edwards & Maude W Baldwin & Frank E Rheindt
December 2022, Volume 18, Issue 12
- 1-34 Leveraging pleiotropy to discover and interpret GWAS results for sleep-associated traits
by Sung Chun & Sebastian Akle & Athanasios Teodosiadis & Brian E Cade & Heming Wang & Tamar Sofer & Daniel S Evans & Katie L Stone & Sina A Gharib & Sutapa Mukherjee & Lyle J Palmer & David Hillman & Jerome I Rotter & Craig L Hanis & John A Stamatoyannopoulos & Susan Redline & Chris Cotsapas & Shamil R Sunyaev
November 2022, Volume 18, Issue 11
- 1-19 A robust and adaptive framework for interaction testing in quantitative traits between multiple genetic loci and exposure variables
by Julian Hecker & Dmitry Prokopenko & Matthew Moll & Sanghun Lee & Wonji Kim & Dandi Qiao & Kirsten Voorhies & Woori Kim & Stijn Vansteelandt & Brian D Hobbs & Michael H Cho & Edwin K Silverman & Sharon M Lutz & Dawn L DeMeo & Scott T Weiss & Christoph Lange - 1-19 COVID-19 and systemic lupus erythematosus genetics: A balance between autoimmune disease risk and protection against infection
by Yuxuan Wang & Suri Guga & Kejia Wu & Zoe Khaw & Konstantinos Tzoumkas & Phil Tombleson & Mary E Comeau & Carl D Langefeld & Deborah S Cunninghame Graham & David L Morris & Timothy J Vyse - 1-20 Education interacts with genetic variants near GJD2, RBFOX1, LAMA2, KCNQ5 and LRRC4C to confer susceptibility to myopia
by Rosie Clark & Alfred Pozarickij & Pirro G Hysi & Kyoko Ohno-Matsui & Cathy Williams & Jeremy A Guggenheim & UK Biobank Eye and Vision Consortium - 1-24 Leveraging pleiotropy for joint analysis of genome-wide association studies with per trait interpretations
by Kodi Taraszka & Noah Zaitlen & Eleazar Eskin - 1-26 Exome-wide association study to identify rare variants influencing COVID-19 outcomes: Results from the Host Genetics Initiative
by Guillaume Butler-Laporte & Gundula Povysil & Jack A Kosmicki & Elizabeth T Cirulli & Theodore Drivas & Simone Furini & Chadi Saad & Axel Schmidt & Pawel Olszewski & Urszula Korotko & Mathieu Quinodoz & Elifnaz Çelik & Kousik Kundu & Klaudia Walter & Junghyun Jung & Amy D Stockwell & Laura G Sloofman & Daniel M Jordan & Ryan C Thompson & Diane Del Valle & Nicole Simons & Esther Cheng & Robert Sebra & Eric E Schadt & Seunghee Kim-Schulze & Sacha Gnjatic & Miriam Merad & Joseph D Buxbaum & Noam D Beckmann & Alexander W Charney & Bartlomiej Przychodzen & Timothy Chang & Tess D Pottinger & Ning Shang & Fabian Brand & Francesca Fava & Francesca Mari & Karolina Chwialkowska & Magdalena Niemira & Szymon Pula & J Kenneth Baillie & Alex Stuckey & Antonio Salas & Xabier Bello & Jacobo Pardo-Seco & Alberto Gómez-Carballa & Irene Rivero-Calle & Federico Martinón-Torres & Andrea Ganna & Konrad J Karczewski & Kumar Veerapen & Mathieu Bourgey & Guillaume Bourque & Robert JM Eveleigh & Vincenzo Forgetta & David Morrison & David Langlais & Mark Lathrop & Vincent Mooser & Tomoko Nakanishi & Robert Frithiof & Michael Hultström & Miklos Lipcsey & Yanara Marincevic-Zuniga & Jessica Nordlund & Kelly M Schiabor Barrett & William Lee & Alexandre Bolze & Simon White & Stephen Riffle & Francisco Tanudjaja & Efren Sandoval & Iva Neveux & Shaun Dabe & Nicolas Casadei & Susanne Motameny & Manal Alaamery & Salam Massadeh & Nora Aljawini & Mansour S Almutairi & Yaseen M Arabi & Saleh A Alqahtani & Fawz S Al Harthi & Amal Almutairi & Fatima Alqubaishi & Sarah Alotaibi & Albandari Binowayn & Ebtehal A Alsolm & Hadeel El Bardisy & Mohammad Fawzy & Fang Cai & Nicole Soranzo & Adam Butterworth & COVID-19 Host Genetics Initiative & DeCOI Host Genetics Group & GEN-COVID Multicenter Study (Italy) & Mount Sinai Clinical Intelligence Center & GEN-COVID consortium (Spain) & GenOMICC Consortium & Japan COVID-19 Task Force & Regeneron Genetics Center & Daniel H Geschwind & Stephanie Arteaga & Alexis Stephens & Manish J Butte & Paul C Boutros & Takafumi N Yamaguchi & Shu Tao & Stefan Eng & Timothy Sanders & Paul J Tung & Michael E Broudy & Yu Pan & Alfredo Gonzalez & Nikhil Chavan & Ruth Johnson & Bogdan Pasaniuc & Brian Yaspan & Sandra Smieszek & Carlo Rivolta & Stephanie Bibert & Pierre-Yves Bochud & Maciej Dabrowski & Pawel Zawadzki & Mateusz Sypniewski & Elżbieta Kaja & Pajaree Chariyavilaskul & Voraphoj Nilaratanakul & Nattiya Hirankarn & Vorasuk Shotelersuk & Monnat Pongpanich & Chureerat Phokaew & Wanna Chetruengchai & Katsushi Tokunaga & Masaya Sugiyama & Yosuke Kawai & Takanori Hasegawa & Tatsuhiko Naito & Ho Namkoong & Ryuya Edahiro & Akinori Kimura & Seishi Ogawa & Takanori Kanai & Koichi Fukunaga & Yukinori Okada & Seiya Imoto & Satoru Miyano & Serghei Mangul & Malak S Abedalthagafi & Hugo Zeberg & Joseph J Grzymski & Nicole L Washington & Stephan Ossowski & Kerstin U Ludwig & Eva C Schulte & Olaf Riess & Marcin Moniuszko & Miroslaw Kwasniewski & Hamdi Mbarek & Said I Ismail & Anurag Verma & David B Goldstein & Krzysztof Kiryluk & Alessandra Renieri & Manuel A R Ferreira & J Brent Richards
October 2022, Volume 18, Issue 10
- 1-16 A Prism Vote method for individualized risk prediction of traits in genotype data of Multi-population
by Xiaoxuan Xia & Yexian Zhang & Rui Sun & Yingying Wei & Qi Li & Marc Ka Chun Chong & William Ka Kei Wu & Benny Chung-Ying Zee & Hua Tang & Maggie Haitian Wang - 1-25 Prioritized candidate causal haplotype blocks in plant genome-wide association studies
by Xing Wu & Wei Jiang & Christopher Fragoso & Jing Huang & Geyu Zhou & Hongyu Zhao & Stephen Dellaporta
September 2022, Volume 18, Issue 9
- 1-13 Localized variation in ancestral admixture identifies pilocytic astrocytoma risk loci among Latino children
by Shaobo Li & Charleston W K Chiang & Swe Swe Myint & Katti Arroyo & Tsz Fung Chan & Libby Morimoto & Catherine Metayer & Adam J de Smith & Kyle M Walsh & Joseph L Wiemels - 1-20 Neurocognitive trajectory and proteomic signature of inherited risk for Alzheimer’s disease
by Manish D Paranjpe & Mark Chaffin & Sohail Zahid & Scott Ritchie & Jerome I Rotter & Stephen S Rich & Robert Gerszten & Xiuqing Guo & Susan Heckbert & Russ Tracy & John Danesh & Eric S Lander & Michael Inouye & Sekar Kathiresan & Adam S Butterworth & Amit V Khera - 1-21 Oocyte mitophagy is critical for extended reproductive longevity
by Vanessa Cota & Salman Sohrabi & Rachel Kaletsky & Coleen T Murphy
July 2022, Volume 18, Issue 7
- 1-16 Evaluating indirect genetic effects of siblings using singletons
by Laurence J Howe & David M Evans & Gibran Hemani & George Davey Smith & Neil M Davies - 1-17 Estimating the timing of multiple admixture events using 3-locus linkage disequilibrium
by Mason Liang & Mikhail Shishkin & Anastasia Mikhailova & Vladimir Shchur & Rasmus Nielsen - 1-24 Fine-mapping from summary data with the “Sum of Single Effects” model
by Yuxin Zou & Peter Carbonetto & Gao Wang & Matthew Stephens
June 2022, Volume 18, Issue 6
- 1-22 EPIC: Inferring relevant cell types for complex traits by integrating genome-wide association studies and single-cell RNA sequencing
by Rujin Wang & Dan-Yu Lin & Yuchao Jiang - 1-23 A multi-population phenome-wide association study of genetically-predicted height in the Million Veteran Program
by Sridharan Raghavan & Jie Huang & Catherine Tcheandjieu & Jennifer E Huffman & Elizabeth Litkowski & Chang Liu & Yuk-Lam A Ho & Haley Hunter-Zinck & Hongyu Zhao & Eirini Marouli & Kari E North & the VA Million Veteran Program & Ethan Lange & Leslie A Lange & Benjamin F Voight & J Michael Gaziano & Saiju Pyarajan & Elizabeth R Hauser & Philip S Tsao & Peter W F Wilson & Kyong-Mi Chang & Kelly Cho & Christopher J O’Donnell & Yan V Sun & Themistocles L Assimes - 1-28 Integrated analysis of direct and proxy genome wide association studies highlights polygenicity of Alzheimer’s disease outside of the APOE region
by Javier de la Fuente & Andrew D Grotzinger & Riccardo E Marioni & Michel G Nivard & Elliot M Tucker-Drob
May 2022, Volume 18, Issue 5
- 1-18 Sex-heterogeneous SNPs disproportionately influence gene expression and health
by Michela Traglia & Margaux Bout & Lauren A Weiss - 1-19 A practical problem with Egger regression in Mendelian randomization
by Zhaotong Lin & Isaac Pan & Wei Pan - 1-28 Robust inference of bi-directional causal relationships in presence of correlated pleiotropy with GWAS summary data
by Haoran Xue & Wei Pan - 1-29 Genetic characterization of outbred Sprague Dawley rats and utility for genome-wide association studies
by Alexander F Gileta & Christopher J Fitzpatrick & Apurva S Chitre & Celine L St. Pierre & Elizabeth V Joyce & Rachael J Maguire & Africa M McLeod & Natalia M Gonzales & April E Williams & Jonathan D Morrow & Terry E Robinson & Shelly B Flagel & Abraham A Palmer - 1-33 A Bayesian model selection approach to mediation analysis
by Wesley L Crouse & Gregory R Keele & Madeleine S Gastonguay & Gary A Churchill & William Valdar - 1-35 Major sex differences in allele frequencies for X chromosomal variants in both the 1000 Genomes Project and gnomAD
by Zhong Wang & Lei Sun & Andrew D Paterson
April 2022, Volume 18, Issue 4
- 1-13 Analyzing human knockouts to validate GPR151 as a therapeutic target for reduction of body mass index
by Allan Gurtan & John Dominy & Shareef Khalid & Linh Vong & Shari Caplan & Treeve Currie & Sean Richards & Lindsey Lamarche & Daniel Denning & Diana Shpektor & Anastasia Gurinovich & Asif Rasheed & Shahid Hameed & Subhan Saeed & Imran Saleem & Anjum Jalal & Shahid Abbas & Raffat Sultana & Syed Zahed Rasheed & Fazal-ur-Rehman Memon & Nabi Shah & Mohammad Ishaq & Amit V Khera & John Danesh & Philippe Frossard & Danish Saleheen - 1-19 Efficient estimation of SNP heritability using Gaussian predictive process in large scale cohort studies
by Souvik Seal & Abhirup Datta & Saonli Basu - 1-33 MiR172-APETALA2-like genes integrate vernalization and plant age to control flowering time in wheat
by Juan M Debernardi & Daniel P Woods & Kun Li & Chengxia Li & Jorge Dubcovsky - 1-37 A spatially aware likelihood test to detect sweeps from haplotype distributions
by Michael DeGiorgio & Zachary A Szpiech
March 2022, Volume 18, Issue 3
- 1-18 THUNDER: A reference-free deconvolution method to infer cell type proportions from bulk Hi-C data
by Bryce Rowland & Ruth Huh & Zoey Hou & Cheynna Crowley & Jia Wen & Yin Shen & Ming Hu & Paola Giusti-Rodríguez & Patrick F Sullivan & Yun Li - 1-20 BmPMFBP1 regulates the development of eupyrene sperm in the silkworm, Bombyx mori
by Dehong Yang & Jun Xu & Kai Chen & Yujia Liu & Xu Yang & Linmeng Tang & Xingyu Luo & Zulian Liu & Muwang Li & James R Walters & Yongping Huang - 1-21 Significant sparse polygenic risk scores across 813 traits in UK Biobank
by Yosuke Tanigawa & Junyang Qian & Guhan Venkataraman & Johanne Marie Justesen & Ruilin Li & Robert Tibshirani & Trevor Hastie & Manuel A Rivas - 1-21 Impact of nonrandom selection mechanisms on the causal effect estimation for two-sample Mendelian randomization methods
by Yuanyuan Yu & Lei Hou & Xu Shi & Xiaoru Sun & Xinhui Liu & Yifan Yu & Zhongshang Yuan & Hongkai Li & Fuzhong Xue
February 2022, Volume 18, Issue 2
- 1-12 Soft selective sweeps: Addressing new definitions, evaluating competing models, and interpreting empirical outliers
by Parul Johri & Wolfgang Stephan & Jeffrey D Jensen - 1-25 Genomic legacy of migration in endangered caribou
by Maria Cavedon & Bridgett vonHoldt & Mark Hebblewhite & Troy Hegel & Elizabeth Heppenheimer & Dave Hervieux & Stefano Mariani & Helen Schwantje & Robin Steenweg & Jessica Theoret & Megan Watters & Marco Musiani - 1-27 From musk to body odor: Decoding olfaction through genetic variation
by Bingjie Li & Marissa L Kamarck & Qianqian Peng & Fei-Ling Lim & Andreas Keller & Monique A M Smeets & Joel D Mainland & Sijia Wang
January 2022, Volume 18, Issue 1
- 1-23 Comprehensive patient-level classification and quantification of driver events in TCGA PanCanAtlas cohorts
by Alexey D Vyatkin & Danila V Otnyukov & Sergey V Leonov & Aleksey V Belikov - 1-24 Noise-augmented directional clustering of genetic association data identifies distinct mechanisms underlying obesity
by Andrew J Grant & Dipender Gill & Paul D W Kirk & Stephen Burgess - 1-26 Redundant neural circuits regulate olfactory integration
by Wenxing Yang & Taihong Wu & Shasha Tu & Yuang Qin & Chengchen Shen & Jiangyun Li & Myung-Kyu Choi & Fengyun Duan & Yun Zhang - 1-27 Bacterial recognition by PGRP-SA and downstream signalling by Toll/DIF sustain commensal gut bacteria in Drosophila
by Shivohum Bahuguna & Magda Atilano & Marcus Glittenberg & Dohun Lee & Srishti Arora & Lihui Wang & Jun Zhou & Siamak Redhai & Michael Boutros & Petros Ligoxygakis
November 2021, Volume 17, Issue 11
- 1-19 Network-based protein-protein interaction prediction method maps perturbations of cancer interactome
by Jiajun Qiu & Kui Chen & Chunlong Zhong & Sihao Zhu & Xiao Ma - 1-20 The effects of introgression across thousands of quantitative traits revealed by gene expression in wild tomatoes
by Mark S Hibbins & Matthew W Hahn - 1-22 Prediction of heterosis in the recent rapeseed (Brassica napus) polyploid by pairing parental nucleotide sequences
by Qian Wang & Tao Yan & Zhengbiao Long & Luna Yue Huang & Yang Zhu & Ying Xu & Xiaoyang Chen & Haksong Pak & Jiqiang Li & Dezhi Wu & Yang Xu & Shuijin Hua & Lixi Jiang - 1-24 Evolution of ColE1-like plasmids across γ-Proteobacteria: From bacteriocin production to antimicrobial resistance
by Manuel Ares-Arroyo & Eduardo P C Rocha & Bruno Gonzalez-Zorn - 1-25 Combining the strengths of inverse-variance weighting and Egger regression in Mendelian randomization using a mixture of regressions model
by Zhaotong Lin & Yangqing Deng & Wei Pan
October 2021, Volume 17, Issue 10
- 1-17 Machine learning to predict the source of campylobacteriosis using whole genome data
by Nicolas Arning & Samuel K Sheppard & Sion Bayliss & David A Clifton & Daniel J Wilson - 1-24 Haplotype associated RNA expression (HARE) improves prediction of complex traits in maize
by Anju Giri & Merritt Khaipho-Burch & Edward S Buckler & Guillaume P Ramstein - 1-27 Metabolic flux from the Krebs cycle to glutamate transmission tunes a neural brake on seizure onset
by Jiwon Jeong & Jongbin Lee & Ji-hyung Kim & Chunghun Lim - 1-37 Leveraging auxiliary data from arbitrary distributions to boost GWAS discovery with Flexible cFDR
by Anna Hutchinson & Guillermo Reales & Thomas Willis & Chris Wallace
September 2021, Volume 17, Issue 9
- 1-11 A more accurate method for colocalisation analysis allowing for multiple causal variants
by Chris Wallace - 1-19 Identifying causal variants by fine mapping across multiple studies
by Nathan LaPierre & Kodi Taraszka & Helen Huang & Rosemary He & Farhad Hormozdiari & Eleazar Eskin - 1-19 Genome-wide methylation data improves dissection of the effect of smoking on body mass index
by Carmen Amador & Yanni Zeng & Michael Barber & Rosie M Walker & Archie Campbell & Andrew M McIntosh & Kathryn L Evans & David J Porteous & Caroline Hayward & James F Wilson & Pau Navarro & Chris S Haley - 1-25 Dynamic neurogenomic responses to social interactions and dominance outcomes in female paper wasps
by Floria M K Uy & Christopher M Jernigan & Natalie C Zaba & Eshan Mehrotra & Sara E Miller & Michael J Sheehan - 1-28 A scalable Drosophila assay for clinical interpretation of human PTEN variants in suppression of PI3K/AKT induced cellular proliferation
by Payel Ganguly & Landiso Madonsela & Jesse T Chao & Christopher J R Loewen & Timothy P O’Connor & Esther M Verheyen & Douglas W Allan - 1-28 A Bayesian network approach incorporating imputation of missing data enables exploratory analysis of complex causal biological relationships
by Richard Howey & Alexander D Clark & Najib Naamane & Louise N Reynard & Arthur G Pratt & Heather J Cordell - 1-38 Rare variants in the endocytic pathway are associated with Alzheimer’s disease, its related phenotypes, and functional consequences
by Lingyu Zhan & Jiajin Li & Brandon Jew & Jae Hoon Sul
August 2021, Volume 17, Issue 8
- 1-24 Forecasting of phenotypic and genetic outcomes of experimental evolution in Pseudomonas protegens
by Jennifer T Pentz & Peter A Lind - 1-26 Exploiting collider bias to apply two-sample summary data Mendelian randomization methods to one-sample individual level data
by Ciarrah Barry & Junxi Liu & Rebecca Richmond & Martin K Rutter & Deborah A Lawlor & Frank Dudbridge & Jack Bowden - 1-27 Average semivariance yields accurate estimates of the fraction of marker-associated genetic variance and heritability in complex trait analyses
by Mitchell J Feldmann & Hans-Peter Piepho & William C Bridges & Steven J Knapp - 1-36 Multitrait GWAS to connect disease variants and biological mechanisms
by Hanna Julienne & Vincent Laville & Zachary R McCaw & Zihuai He & Vincent Guillemot & Carla Lasry & Andrey Ziyatdinov & Cyril Nerin & Amaury Vaysse & Pierre Lechat & Hervé Ménager & Wilfried Le Goff & Marie-Pierre Dube & Peter Kraft & Iuliana Ionita-Laza & Bjarni J Vilhjálmsson & Hugues Aschard
July 2021, Volume 17, Issue 7
- 1-11 Meiosis in Quarantine discussions lead to an action plan to increase diversity and inclusion within the genetics community
by Katherine K Billmyre & María Angélica Bravo Núñez & Douglas K Bishop & Francesca Cole - 1-17 A fast and robust Bayesian nonparametric method for prediction of complex traits using summary statistics
by Geyu Zhou & Hongyu Zhao - 1-24 A spectral theory for Wright’s inbreeding coefficients and related quantities
by Olivier François & Clément Gain - 1-28 Pleiotropy method reveals genetic overlap between orofacial clefts at multiple novel loci from GWAS of multi-ethnic trios
by Debashree Ray & Sowmya Venkataraghavan & Wanying Zhang & Elizabeth J Leslie & Jacqueline B Hetmanski & Seth M Weinberg & Jeffrey C Murray & Mary L Marazita & Ingo Ruczinski & Margaret A Taub & Terri H Beaty
June 2021, Volume 17, Issue 6
- 1-13 A genome-wide association study identifies 5 loci associated with frozen shoulder and implicates diabetes as a causal risk factor
by Harry D Green & Alistair Jones & Jonathan P Evans & Andrew R Wood & Robin N Beaumont & Jessica Tyrrell & Timothy M Frayling & Christopher Smith & Michael N Weedon - 1-21 An autoregulatory negative feedback loop controls thermomorphogenesis in Arabidopsis
by Sanghwa Lee & Ling Zhu & Enamul Huq - 1-23 Predicting population genetic change in an autocorrelated random environment: Insights from a large automated experiment
by Marie Rescan & Daphné Grulois & Enrique Ortega Aboud & Pierre de Villemereuil & Luis-Miguel Chevin
May 2021, Volume 17, Issue 5
- 1-9 Gene action, genetic variation, and GWAS: A user-friendly web tool
by Valentin Hivert & Naomi R Wray & Peter M Visscher - 1-22 Evaluation of polygenic prediction methodology within a reference-standardized framework
by Oliver Pain & Kylie P Glanville & Saskia P Hagenaars & Saskia Selzam & Anna E Fürtjes & Héléna A Gaspar & Jonathan R I Coleman & Kaili Rimfeld & Gerome Breen & Robert Plomin & Lasse Folkersen & Cathryn M Lewis - 1-25 Evolution of plasticity in production and transgenerational inheritance of small RNAs under dynamic environmental conditions
by Willian T A F Silva & Sarah P Otto & Simone Immler - 1-27 Genetic variation affects morphological retinal phenotypes extracted from UK Biobank optical coherence tomography images
by Hannah Currant & Pirro Hysi & Tomas W Fitzgerald & Puya Gharahkhani & Pieter W M Bonnemaijer & Anne Senabouth & Alex W Hewitt & UK Biobank Eye and Vision Consortium & International Glaucoma Genetics Consortium & Denize Atan & Tin Aung & Jason Charng & Hélène Choquet & Jamie Craig & Peng T Khaw & Caroline C W Klaver & Michiaki Kubo & Jue-Sheng Ong & Louis R Pasquale & Charles A Reisman & Maciej Daniszewski & Joseph E Powell & Alice Pébay & Mark J Simcoe & Alberta A H J Thiadens & Cornelia M van Duijn & Seyhan Yazar & Eric Jorgenson & Stuart MacGregor & Chris J Hammond & David A Mackey & Janey L Wiggs & Paul J Foster & Praveen J Patel & Ewan Birney & Anthony P Khawaja
April 2021, Volume 17, Issue 4
- 1-21 Leveraging expression from multiple tissues using sparse canonical correlation analysis and aggregate tests improves the power of transcriptome-wide association studies
by Helian Feng & Nicholas Mancuso & Alexander Gusev & Arunabha Majumdar & Megan Major & Bogdan Pasaniuc & Peter Kraft - 1-24 MRLocus: Identifying causal genes mediating a trait through Bayesian estimation of allelic heterogeneity
by Anqi Zhu & Nana Matoba & Emma P Wilson & Amanda L Tapia & Yun Li & Joseph G Ibrahim & Jason L Stein & Michael I Love - 1-27 Sex-stratified genome-wide association study of multisite chronic pain in UK Biobank
by Keira J A Johnston & Joey Ward & Pradipta R Ray & Mark J Adams & Andrew M McIntosh & Blair H Smith & Rona J Strawbridge & Theodore J Price & Daniel J Smith & Barbara I Nicholl & Mark E S Bailey
March 2021, Volume 17, Issue 3
- 1-19 Genome-wide association meta-analysis identifies pleiotropic risk loci for aerodigestive squamous cell cancers
by Corina Lesseur & Aida Ferreiro-Iglesias & James D McKay & Yohan Bossé & Mattias Johansson & Valerie Gaborieau & Maria Teresa Landi & David C Christiani & Neil C Caporaso & Stig E Bojesen & Christopher I Amos & Sanjay Shete & Geoffrey Liu & Gadi Rennert & Demetrius Albanes & Melinda C Aldrich & Adonina Tardon & Chu Chen & Liloglou Triantafillos & John K Field & Marion Dawn Teare & Lambertus A Kiemeney & Brenda Diergaarde & Robert L Ferris & Shanbeh Zienolddiny & Stephen Lam & Andrew F Olshan & Mark C Weissler & Martin Lacko & Angela Risch & Heike Bickeböller & Andy R Ness & Steve Thomas & Loic Le Marchand & Matthew B Schabath & Victor Wünsch-Filho & Eloiza H Tajara & Angeline S Andrew & Gary M Clifford & Philip Lazarus & Kjell Grankvist & Mikael Johansson & Susanne Arnold & Olle Melander & Hans Brunnström & Stefania Boccia & Gabriella Cadoni & Wim Timens & Ma’en Obeidat & Xiangjun Xiao & Richard S Houlston & Rayjean J Hung & Paul Brennan - 1-20 Genome-wide association study of fish oil supplementation on lipid traits in 81,246 individuals reveals new gene-diet interaction loci
by Michael Francis & Changwei Li & Yitang Sun & Jingqi Zhou & Xiang Li & J Thomas Brenna & Kaixiong Ye - 1-26 Changes in the fine-scale genetic structure of Finland through the 20th century
by Sini Kerminen & Nicola Cerioli & Darius Pacauskas & Aki S Havulinna & Markus Perola & Pekka Jousilahti & Veikko Salomaa & Mark J Daly & Rupesh Vyas & Samuli Ripatti & Matti Pirinen - 1-30 MOSTWAS: Multi-Omic Strategies for Transcriptome-Wide Association Studies
by Arjun Bhattacharya & Yun Li & Michael I Love
February 2021, Volume 17, Issue 2
- 1-20 Power analysis of transcriptome-wide association study: Implications for practical protocol choice
by Chen Cao & Bowei Ding & Qing Li & Devin Kwok & Jingjing Wu & Quan Long - 1-22 Hippocampal transcriptome-wide association study and neurobiological pathway analysis for Alzheimer’s disease
by Nana Liu & Jiayuan Xu & Huaigui Liu & Shijie Zhang & Miaoxin Li & Yao Zhou & Wen Qin & Mulin Jun Li & Chunshui Yu & for the Alzheimer’s disease Neuroimaging Initiative - 1-25 Transcriptome-wide transmission disequilibrium analysis identifies novel risk genes for autism spectrum disorder
by Kunling Huang & Yuchang Wu & Junha Shin & Ye Zheng & Alireza Fotuhi Siahpirani & Yupei Lin & Zheng Ni & Jiawen Chen & Jing You & Sunduz Keles & Daifeng Wang & Sushmita Roy & Qiongshi Lu - 1-28 Glucocerebrosidase reduces the spread of protein aggregation in a Drosophila melanogaster model of neurodegeneration by regulating proteins trafficked by extracellular vesicles
by Kathryn A Jewett & Ruth E Thomas & Chi Q Phan & Bernice Lin & Gillian Milstein & Selina Yu & Lisa F Bettcher & Fausto Carnevale Neto & Danijel Djukovic & Daniel Raftery & Leo J Pallanck & Marie Y Davis
January 2021, Volume 17, Issue 1
- 1-18 Population structure of indigenous inhabitants of Arabia
by Katsuhiko Mineta & Kosuke Goto & Takashi Gojobori & Fowzan S Alkuraya - 1-23 Ciona Brachyury proximal and distal enhancers have different FGF dose-response relationships
by Matthew J Harder & Julie Hix & Wendy M Reeves & Michael T Veeman - 1-25 Accurate genetic and environmental covariance estimation with composite likelihood in genome-wide association studies
by Boran Gao & Can Yang & Jin Liu & Xiang Zhou - 1-26 Identifying drug targets for neurological and psychiatric disease via genetics and the brain transcriptome
by Denis A Baird & Jimmy Z Liu & Jie Zheng & Solveig K Sieberts & Thanneer Perumal & Benjamin Elsworth & Tom G Richardson & Chia-Yen Chen & Minerva M Carrasquillo & Mariet Allen & Joseph S Reddy & Philip L De Jager & Nilufer Ertekin-Taner & Lara M Mangravite & Ben Logsdon & Karol Estrada & Philip C Haycock & Gibran Hemani & Heiko Runz & George Davey Smith & Tom R Gaunt & AMP-AD eQTL working group - 1-27 Adaptation is influenced by the complexity of environmental change during evolution in a dynamic environment
by Sébastien Boyer & Lucas Hérissant & Gavin Sherlock - 1-36 Estimating FST and kinship for arbitrary population structures
by Alejandro Ochoa & John D Storey
December 2020, Volume 16, Issue 12
- 1-15 Common maternal and fetal genetic variants show expected polygenic effects on risk of small- or large-for-gestational-age (SGA or LGA), except in the smallest 3% of babies
by Robin N Beaumont & Sarah J Kotecha & Andrew R Wood & Bridget A Knight & Sylvain Sebert & Mark I McCarthy & Andrew T Hattersley & Marjo-Riitta Järvelin & Nicholas J Timpson & Rachel M Freathy & Sailesh Kotecha - 1-23 Integrating comprehensive functional annotations to boost power and accuracy in gene-based association analysis
by Corbin Quick & Xiaoquan Wen & Gonçalo Abecasis & Michael Boehnke & Hyun Min Kang - 1-28 Super-resolution visualization of distinct stalled and broken replication fork structures
by Donna R Whelan & Wei Ting C Lee & Frances Marks & Yu Tina Kong & Yandong Yin & Eli Rothenberg
November 2020, Volume 16, Issue 11
- 1-19 Genotype imputation using the Positional Burrows Wheeler Transform
by Simone Rubinacci & Olivier Delaneau & Jonathan Marchini - 1-20 Multivariable G-E interplay in the prediction of educational achievement
by Andrea G Allegrini & Ville Karhunen & Jonathan R I Coleman & Saskia Selzam & Kaili Rimfeld & Sophie von Stumm & Jean-Baptiste Pingault & Robert Plomin - 1-23 LabWAS: Novel findings and study design recommendations from a meta-analysis of clinical labs in two independent biobanks
by Jeffery A Goldstein & Joshua S Weinstock & Lisa A Bastarache & Daniel B Larach & Lars G Fritsche & Ellen M Schmidt & Chad M Brummett & Sachin Kheterpal & Goncalo R Abecasis & Joshua C Denny & Matthew Zawistowski - 1-24 Genetic compensation prevents myopathy and heart failure in an in vivo model of Bag3 deficiency
by Federica Diofano & Karolina Weinmann & Isabelle Schneider & Kevin D Thiessen & Wolfgang Rottbauer & Steffen Just - 1-30 Inferring causal direction between two traits in the presence of horizontal pleiotropy with GWAS summary data
by Haoran Xue & Wei Pan
October 2020, Volume 16, Issue 10
- 1-2 By what name shall I call thee?
by Gregory S Barsh & Gregory P Copenhaver - 1-21 AKH-FOXO pathway regulates starvation-induced sleep loss through remodeling of the small ventral lateral neuron dorsal projections
by Qiankun He & Juan Du & Liya Wei & Zhangwu Zhao - 1-21 Transcriptome and epigenome diversity and plasticity of muscle stem cells following transplantation
by Brendan Evano & Diljeet Gill & Irene Hernando-Herraez & Glenda Comai & Thomas M Stubbs & Pierre-Henri Commere & Wolf Reik & Shahragim Tajbakhsh - 1-22 Automated feature extraction from population wearable device data identified novel loci associated with sleep and circadian rhythms
by Xinyue Li & Hongyu Zhao - 1-23 A cautionary note on the use of unsupervised machine learning algorithms to characterise malaria parasite population structure from genetic distance matrices
by James A Watson & Aimee R Taylor & Elizabeth A Ashley & Arjen Dondorp & Caroline O Buckee & Nicholas J White & Chris C Holmes - 1-25 Selection for ancient periodic motifs that do not impart DNA bending
by Aletheia Atzinger & Jeffrey G Lawrence - 1-26 Novel loci for childhood body mass index and shared heritability with adult cardiometabolic traits
by Suzanne Vogelezang & Jonathan P Bradfield & Tarunveer S Ahluwalia & John A Curtin & Timo A Lakka & Niels Grarup & Markus Scholz & Peter J van der Most & Claire Monnereau & Evie Stergiakouli & Anni Heiskala & Momoko Horikoshi & Iryna O Fedko & Natalia Vilor-Tejedor & Diana L Cousminer & Marie Standl & Carol A Wang & Jorma Viikari & Frank Geller & Carmen Íñiguez & Niina Pitkänen & Alessandra Chesi & Jonas Bacelis & Loic Yengo & Maties Torrent & Ioanna Ntalla & Øyvind Helgeland & Saskia Selzam & Judith M Vonk & Mohammed H Zafarmand & Barbara Heude & Ismaa Sadaf Farooqi & Akram Alyass & Robin N Beaumont & Christian T Have & Peter Rzehak & Jose Ramon Bilbao & Theresia M Schnurr & Inês Barroso & Klaus Bønnelykke & Lawrence J Beilin & Lisbeth Carstensen & Marie-Aline Charles & Bo Chawes & Karine Clément & Ricardo Closa-Monasterolo & Adnan Custovic & Johan G Eriksson & Joaquin Escribano & Maria Groen-Blokhuis & Veit Grote & Dariusz Gruszfeld & Hakon Hakonarson & Torben Hansen & Andrew T Hattersley & Mette Hollensted & Jouke-Jan Hottenga & Elina Hyppönen & Stefan Johansson & Raimo Joro & Mika Kähönen & Ville Karhunen & Wieland Kiess & Bridget A Knight & Berthold Koletzko & Andreas Kühnapfel & Kathrin Landgraf & Jean-Paul Langhendries & Terho Lehtimäki & Jaakko T Leinonen & Aihuali Li & Virpi Lindi & Estelle Lowry & Mariona Bustamante & Carolina Medina-Gomez & Mads Melbye & Kim F Michaelsen & Camilla S Morgen & Trevor A Mori & Tenna R H Nielsen & Harri Niinikoski & Albertine J Oldehinkel & Katja Pahkala & Kalliope Panoutsopoulou & Oluf Pedersen & Craig E Pennell & Christine Power & Sijmen A Reijneveld & Fernando Rivadeneira & Angela Simpson & Peter D Sly & Jakob Stokholm & Kook K Teo & Elisabeth Thiering & Nicholas J Timpson & André G Uitterlinden & Catharina E M van Beijsterveldt & Barbera D C van Schaik & Marc Vaudel & Elvira Verduci & Rebecca K Vinding & Mandy Vogel & Eleftheria Zeggini & Sylvain Sebert & Mads V Lind & Christopher D Brown & Loreto Santa-Marina & Eva Reischl & Christine Frithioff-Bøjsøe & David Meyre & Eleanor Wheeler & Ken Ong & Ellen A Nohr & Tanja G M Vrijkotte & Gerard H Koppelman & Robert Plomin & Pål R Njølstad & George D Dedoussis & Philippe Froguel & Thorkild I A Sørensen & Bo Jacobsson & Rachel M Freathy & Babette S Zemel & Olli Raitakari & Martine Vrijheid & Bjarke Feenstra & Leo-Pekka Lyytikäinen & Harold Snieder & Holger Kirsten & Patrick G Holt & Joachim Heinrich & Elisabeth Widén & Jordi Sunyer & Dorret I Boomsma & Marjo-Riitta Järvelin & Antje Körner & George Davey Smith & Jens-Christian Holm & Mustafa Atalay & Clare Murray & Hans Bisgaard & Mark I McCarthy & Early Growth Genetics Consortium & Vincent W V Jaddoe & Struan F A Grant & Janine F Felix - 1-30 A fast and scalable framework for large-scale and ultrahigh-dimensional sparse regression with application to the UK Biobank
by Junyang Qian & Yosuke Tanigawa & Wenfei Du & Matthew Aguirre & Chris Chang & Robert Tibshirani & Manuel A Rivas & Trevor Hastie
September 2020, Volume 16, Issue 9
- 1-23 The causal effect of obesity on prediabetes and insulin resistance reveals the important role of adipose tissue in insulin resistance
by Zong Miao & Marcus Alvarez & Arthur Ko & Yash Bhagat & Elior Rahmani & Brandon Jew & Sini Heinonen & Linda Liliana Muñoz-Hernandez & Miguel Herrera-Hernandez & Carlos Aguilar-Salinas & Teresa Tusie-Luna & Karen L Mohlke & Markku Laakso & Kirsi H Pietiläinen & Eran Halperin & Päivi Pajukanta - 1-27 Restriction on self-renewing asymmetric division is coupled to terminal asymmetric division in the Drosophila CNS
by Ivana Gaziova & Michael Gazi & Jordan Mar & Krishna Moorthi Bhat - 1-35 Leveraging correlations between variants in polygenic risk scores to detect heterogeneity in GWAS cohorts
by Jie Yuan & Henry Xing & Alexandre Louis Lamy & The Schizophrenia Working Group of the Psychiatric Genomics Consortium & Todd Lencz & Itsik Pe’er
August 2020, Volume 16, Issue 8
- 1-19 Pan-genomic open reading frames: A potential supplement of single nucleotide polymorphisms in estimation of heritability and genomic prediction
by Zhengcao Li & Henner Simianer - 1-19 Cryptic genetic variation enhances primate L1 retrotransposon survival by enlarging the functional coiled coil sequence space of ORF1p
by Anthony V Furano & Charlie E Jones & Vipul Periwal & Kathryn E Callahan & Jean-Claude Walser & Pamela R Cook - 1-21 A general framework for functionally informed set-based analysis: Application to a large-scale colorectal cancer study
by Xinyuan Dong & Yu-Ru Su & Richard Barfield & Stephanie A Bien & Qianchuan He & Tabitha A Harrison & Jeroen R Huyghe & Temitope O Keku & Noralane M Lindor & Clemens Schafmayer & Andrew T Chan & Stephen B Gruber & Mark A Jenkins & Charles Kooperberg & Ulrike Peters & Li Hsu - 1-28 On the cross-population generalizability of gene expression prediction models
by Kevin L Keys & Angel C Y Mak & Marquitta J White & Walter L Eckalbar & Andrew W Dahl & Joel Mefford & Anna V Mikhaylova & María G Contreras & Jennifer R Elhawary & Celeste Eng & Donglei Hu & Scott Huntsman & Sam S Oh & Sandra Salazar & Michael A Lenoir & Jimmie C Ye & Timothy A Thornton & Noah Zaitlen & Esteban G Burchard & Christopher R Gignoux - 1-44 Learning the properties of adaptive regions with functional data analysis
by Mehreen R Mughal & Hillary Koch & Jinguo Huang & Francesca Chiaromonte & Michael DeGiorgio
July 2020, Volume 16, Issue 7
- 1-2 Mixed methods
by David J Balding & Gregory S Barsh & Gregory P Copenhaver & Chengqi Yi - 1-24 Unified inference of missense variant effects and gene constraints in the human genome
by Yi-Fei Huang - 1-24 Linking protein to phenotype with Mendelian Randomization detects 38 proteins with causal roles in human diseases and traits
by Andrew D Bretherick & Oriol Canela-Xandri & Peter K Joshi & David W Clark & Konrad Rawlik & Thibaud S Boutin & Yanni Zeng & Carmen Amador & Pau Navarro & Igor Rudan & Alan F Wright & Harry Campbell & Veronique Vitart & Caroline Hayward & James F Wilson & Albert Tenesa & Chris P Ponting & J Kenneth Baillie & Chris Haley
June 2020, Volume 16, Issue 6
- 1-16 A Bayesian method to estimate variant-induced disease penetrance
by Brett M Kroncke & Derek K Smith & Yi Zuo & Andrew M Glazer & Dan M Roden & Jeffrey D Blume - 1-30 Protein-protein interaction network controlling establishment and maintenance of switchable cell polarity
by Luís António Menezes Carreira & Filipe Tostevin & Ulrich Gerland & Lotte Søgaard-Andersen
May 2020, Volume 16, Issue 5
- 1-19 Scalable probabilistic PCA for large-scale genetic variation data
by Aman Agrawal & Alec M Chiu & Minh Le & Eran Halperin & Sriram Sankararaman - 1-20 Trans-ethnic meta-analysis of genome-wide association studies identifies maternal ITPR1 as a novel locus influencing fetal growth during sensitive periods in pregnancy
by Fasil Tekola-Ayele & Cuilin Zhang & Jing Wu & Katherine L Grantz & Mohammad L Rahman & Deepika Shrestha & Marion Ouidir & Tsegaselassie Workalemahu & Michael Y Tsai - 1-25 Simultaneous SNP selection and adjustment for population structure in high dimensional prediction models
by Sahir R Bhatnagar & Yi Yang & Tianyuan Lu & Erwin Schurr & JC Loredo-Osti & Marie Forest & Karim Oualkacha & Celia M T Greenwood - 1-28 Bidirectional crosstalk between Hypoxia-Inducible Factor and glucocorticoid signalling in zebrafish larvae
by Davide Marchi & Kirankumar Santhakumar & Eleanor Markham & Nan Li & Karl-Heinz Storbeck & Nils Krone & Vincent T Cunliffe & Fredericus J M van Eeden - 1-30 Beyond SNP heritability: Polygenicity and discoverability of phenotypes estimated with a univariate Gaussian mixture model
by Dominic Holland & Oleksandr Frei & Rahul Desikan & Chun-Chieh Fan & Alexey A Shadrin & Olav B Smeland & V S Sundar & Paul Thompson & Ole A Andreassen & Anders M Dale
April 2020, Volume 16, Issue 4
- 1-16 Technical and social issues influencing the adoption of preprints in the life sciences
by Naomi C Penfold & Jessica K Polka - 1-20 Eliciting priors and relaxing the single causal variant assumption in colocalisation analyses
by Chris Wallace - 1-30 Leveraging gene co-expression patterns to infer trait-relevant tissues in genome-wide association studies
by Lulu Shang & Jennifer A Smith & Xiang Zhou
March 2020, Volume 16, Issue 3
- 1-19 The influence of rare variants in circulating metabolic biomarkers
by Fernando Riveros-Mckay & Clare Oliver-Williams & Savita Karthikeyan & Klaudia Walter & Kousik Kundu & Willem H Ouwehand & David Roberts & Emanuele Di Angelantonio & Nicole Soranzo & John Danesh & INTERVAL Study & Eleanor Wheeler & Eleftheria Zeggini & Adam S Butterworth & Inês Barroso - 1-19 Minority-centric meta-analyses of blood lipid levels identify novel loci in the Population Architecture using Genomics and Epidemiology (PAGE) study
by Yao Hu & Mariaelisa Graff & Jeffrey Haessler & Steven Buyske & Stephanie A Bien & Ran Tao & Heather M Highland & Katherine K Nishimura & Niha Zubair & Yingchang Lu & Marie Verbanck & Austin T Hilliard & Derek Klarin & Scott M Damrauer & Yuk-Lam Ho & the VA Million Veteran Program & Peter W F Wilson & Kyong-Mi Chang & Philip S Tsao & Kelly Cho & Christopher J O’Donnell & Themistocles L Assimes & Lauren E Petty & Jennifer E Below & Ozan Dikilitas & Daniel J Schaid & Matthew L Kosel & Iftikhar J Kullo & Laura J Rasmussen-Torvik & Gail P Jarvik & Qiping Feng & Wei-Qi Wei & Eric B Larson & Frank D Mentch & Berta Almoguera & Patrick M Sleiman & Laura M Raffield & Adolfo Correa & Lisa W Martin & Martha Daviglus & Tara C Matise & Jose Luis Ambite & Christopher S Carlson & Ron Do & Ruth J F Loos & Lynne R Wilkens & Loic Le Marchand & Chris Haiman & Daniel O Stram & Lucia A Hindorff & Kari E North & Charles Kooperberg & Iona Cheng & Ulrike Peters - 1-23 Pleiotropy facilitates local adaptation to distant optima in common ragweed (Ambrosia artemisiifolia)
by Tuomas Hämälä & Amanda J Gorton & David A Moeller & Peter Tiffin - 1-26 Drosophila insulin-like peptide 2 mediates dietary regulation of sleep intensity
by Elizabeth B Brown & Kreesha D Shah & Richard Faville & Benjamin Kottler & Alex C Keene - 1-35 Bayesian network analysis incorporating genetic anchors complements conventional Mendelian randomization approaches for exploratory analysis of causal relationships in complex data
by Richard Howey & So-Youn Shin & Caroline Relton & George Davey Smith & Heather J Cordell - 1-40 A Snf1-related nutrient-responsive kinase antagonizes endocytosis in yeast
by Jessica M Tumolo & Nathaniel L Hepowit & Samika S Joshi & Jason A MacGurn
February 2020, Volume 16, Issue 2
- 1-19 A molecular barcode to inform the geographical origin and transmission dynamics of Plasmodium vivax malaria
by Ernest Diez Benavente & Monica Campos & Jody Phelan & Debbie Nolder & Jamille G Dombrowski & Claudio R F Marinho & Kanlaya Sriprawat & Aimee R Taylor & James Watson & Cally Roper & Francois Nosten & Colin J Sutherland & Susana Campino & Taane G Clark
January 2020, Volume 16, Issue 1
- 1-17 The derived allele of a novel intergenic variant at chromosome 11 associates with lower body mass index and a favorable metabolic phenotype in Greenlanders
by Mette K Andersen & Emil Jørsboe & Line Skotte & Kristian Hanghøj & Camilla H Sandholt & Ida Moltke & Niels Grarup & Timo Kern & Yuvaraj Mahendran & Bolette Søborg & Peter Bjerregaard & Christina V L Larsen & Inger K Dahl-Petersen & Hemant K Tiwari & Bjarke Feenstra & Anders Koch & Howard W Wiener & Scarlett E Hopkins & Oluf Pedersen & Mads Melbye & Bert B Boyer & Marit E Jørgensen & Anders Albrechtsen & Torben Hansen - 1-25 High-throughput discovery of genetic determinants of circadian misalignment
by Tao Zhang & Pancheng Xie & Yingying Dong & Zhiwei Liu & Fei Zhou & Dejing Pan & Zhengyun Huang & Qiaocheng Zhai & Yue Gu & Qingyu Wu & Nobuhiko Tanaka & Yuichi Obata & Allan Bradley & Christopher J Lelliott & Sanger Institute Mouse Genetics Project & Lauryl M J Nutter & Colin McKerlie & Ann M Flenniken & Marie-France Champy & Tania Sorg & Yann Herault & Martin Hrabe De Angelis & Valerie Gailus Durner & Ann-Marie Mallon & Steve D M Brown & Terry Meehan & Helen E Parkinson & Damian Smedley & K C Kent Lloyd & Jun Yan & Xiang Gao & Je Kyung Seong & Chi-Kuang Leo Wang & Radislav Sedlacek & Yi Liu & Jan Rozman & Ling Yang & Ying Xu
December 2019, Volume 15, Issue 12
- 1-24 Leveraging allelic imbalance to refine fine-mapping for eQTL studies
by Jennifer Zou & Farhad Hormozdiari & Brandon Jew & Stephane E Castel & Tuuli Lappalainen & Jason Ernst & Jae Hoon Sul & Eleazar Eskin