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Xiangchao Gan
Researcher at Max Planck Society
Publications - 58
Citations - 6009
Xiangchao Gan is an academic researcher from Max Planck Society. The author has contributed to research in topics: Genome & Population. The author has an hindex of 20, co-authored 55 publications receiving 5101 citations. Previous affiliations of Xiangchao Gan include King's College London & University of Oxford.
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Journal ArticleDOI
Mouse genomic variation and its effect on phenotypes and gene regulation
Thomas M. Keane,Leo Goodstadt,Petr Danecek,Michael A. White,Kim Wong,Binnaz Yalcin,Andreas Heger,Avigail Agam,Avigail Agam,Guy Slater,Martin Goodson,Nick Furlotte,Eleazar Eskin,Christoffer Nellåker,Helen Whitley,James Cleak,Deborah Janowitz,Deborah Janowitz,Polinka Hernandez-Pliego,Andrew Edwards,T G Belgard,Peter L. Oliver,Rebecca E. McIntyre,Amarjit Bhomra,Jérôme Nicod,Xiangchao Gan,Wei Yuan,L van der Weyden,Charles A. Steward,Sendu Bala,Jim Stalker,Richard Mott,Richard Durbin,Ian J. Jackson,Anne Czechanski,José Afonso Guerra-Assunção,Leah Rae Donahue,Laura G. Reinholdt,Bret A. Payseur,Chris P. Ponting,Ewan Birney,Jonathan Flint,David J. Adams +42 more
TL;DR: These sequences provide a starting point for a new era in the functional analysis of a key model organism and show that the molecular nature of functional variants and their position relative to genes vary according to the effect size of the locus.
Journal ArticleDOI
1,135 Genomes Reveal the Global Pattern of Polymorphism in Arabidopsis thaliana
Carlos Alonso-Blanco,Jorge Andrade,Claude Becker,Felix Bemm,Joy Bergelson,Karsten M. Borgwardt,Jun Cao,Eunyoung Chae,Todd M. Dezwaan,Wei Ding,Joseph R. Ecker,Moises Exposito-Alonso,Ashley Farlow,Joffrey Fitz,Xiangchao Gan,Dominik G. Grimm,Angela M. Hancock,Stefan R. Henz,Svante Holm,Matthew W. Horton,Mike Jarsulic,Randall A. Kerstetter,Arthur Korte,Pamela Korte,Christa Lanz,Cheng-Ruei Lee,Dazhe Meng,Todd P. Michael,Richard Mott,Ni Wayan Muliyati,Thomas Nägele,Matthias Nagler,Viktoria Nizhynska,Magnus Nordborg,Polina Yu. Novikova,F. Xavier Picó,Alexander Platzer,Fernando A. Rabanal,Alex Rodriguez,Beth A. Rowan,Patrice A. Salomé,Karl Schmid,Robert J. Schmitz,Ümit Seren,Felice Gianluca Sperone,Mitchell Sudkamp,Hannes Svardal,Matt M. Tanzer,Donald Todd,Samuel L. Volchenboum,Congmao Wang,George Wang,Xi Wang,Wolfram Weckwerth,Detlef Weigel,Xuefeng Zhou +55 more
TL;DR: Insights into the history of the species and the fine-scale distribution of genetic diversity provide the basis for full exploitation of A. thaliana natural variation through integration of genomes and epigenomes with molecular and non-molecular phenotypes.
Journal ArticleDOI
Sparse whole-genome sequencing identifies two loci for major depressive disorder
Na Cai,Tim B. Bigdeli,Warren W. Kretzschmar,Yihan Li,Jieqin Liang,Li Song,Jingchu Hu,Qibin Li,Wei Jin,Zhenfei Hu,Guangbiao Wang,Linmao Wang,Puyi Qian,Yuan Liu,Tao Jiang,Yao Lu,Xiuqing Zhang,Ye Yin,Yingrui Li,Xun Xu,Jingfang Gao,Mark Reimers,Todd Webb,Brien P. Riley,Silviu Alin Bacanu,Roseann E. Peterson,Yiping Chen,Hui Zhong,Zhengrong Liu,Gang Wang,Sun Jing,Hong Sang,Guoqing Jiang,Xiaoyan Zhou,Yi Li,Wei Zhang,Xueyi Wang,Xiang Fang,Runde Pan,Guodong Miao,Qiwen Zhang,Jian Hu,Fengyu Yu,Bo Du,Wenhua Sang,Keqing Li,Guibing Chen,Min Cai,Lijun Yang,Donglin Yang,Baowei Ha,Xiaohong Hong,Hong Deng,Gongying Li,Kan Li,Yan Song,Shugui Gao,Jinbei Zhang,Zhaoyu Gan,Huaqing Meng,Jiyang Pan,Chengge Gao,Kerang Zhang,Ning Sun,Youhui Li,Qihui Niu,Yutang Zhang,Tieqiao Liu,Chunmei Hu,Zhen Zhang,L Lv,Jicheng Dong,Xiaoping Wang,Ming Tao,Xumei Wang,Jing Xia,Han Rong,Qiang He,Tiebang Liu,Guoping Huang,Qiyi Mei,Zhenming Shen,Liu Ying,Jianhua Shen,Tian Tian,Xiaojuan Liu,Wenyuan Wu,Danhua Gu,Guangyi Fu,Jianguo Shi,Yunchun Chen,Xiangchao Gan,Lanfen Liu,Lina Wang,Fuzhong Yang,Enzhao Cong,Jonathan Marchini,Huanming Yang,Jian Wang,Shenxun Shi,Shenxun Shi,Richard Mott,Qi Xu,Jun Wang,Jun Wang,Jun Wang,Kenneth S. Kendler,Jonathan Flint,Jonathan Flint +108 more
TL;DR: Using low-coverage whole-genome sequencing of 5,303 Chinese women with recurrent MDD selected to reduce phenotypic heterogeneity, and 5,337 controls screened to exclude MDD, two loci contributing to risk of MDD on chromosome 10 are identified: one near the SIRT1 gene and the other in an intron of the LHPP gene.
Journal ArticleDOI
Multiple reference genomes and transcriptomes for Arabidopsis thaliana
Xiangchao Gan,Oliver Stegle,Jonas Behr,Joshua G. Steffen,Philipp Drewe,Katie L. Hildebrand,Rune Lyngsoe,Sebastian J. Schultheiss,Edward J. Osborne,Vipin T. Sreedharan,André Kahles,Regina Bohnert,Géraldine Jean,Paul S. Derwent,Paul J. Kersey,Eric J. Belfield,Nicholas P. Harberd,Eric Kemen,Christopher Toomajian,Paula X. Kover,Richard M. Clark,Gunnar Rätsch,Richard Mott +22 more
TL;DR: Genetic differences between Arabidopsis thaliana accessions underlie the plant’s extensive phenotypic variation, and until now these have been interpreted largely in the context of the annotated reference accession Col-0.
Journal ArticleDOI
Sequence-based characterization of structural variation in the mouse genome.
Binnaz Yalcin,Kim Wong,Avigail Agam,Avigail Agam,Martin Goodson,Thomas M. Keane,Xiangchao Gan,Christoffer Nellåker,Leo Goodstadt,Jérôme Nicod,Amarjit Bhomra,Polinka Hernandez-Pliego,Helen Whitley,James Cleak,Rebekah Dutton,Deborah Janowitz,Deborah Janowitz,Richard Mott,David J. Adams,Jonathan Flint +19 more
TL;DR: It is inferred that insertion of retrotransposons causes more than half of SVs, and 24 SVs are identified that disrupt coding exons, acting as rare variants of large effect on gene function.