Abhishek Sarkar
University of Chicago
53 Papers
416 Citations
Abhishek Sarkar is an academic researcher from University of Chicago. The author has contributed to research in topics: Expression quantitative trait loci & Medicine. The author has an hindex of 15, co-authored 30 publications. Previous affiliations of Abhishek Sarkar include Broad Institute & Massachusetts Institute of Technology.
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Papers
Integrative analysis of 111 reference human epigenomes
Anshul Kundaje,Wouter Meuleman,Wouter Meuleman,Jason Ernst,Misha Bilenky,Angela Yen,Angela Yen,Alireza Heravi-Moussavi,Pouya Kheradpour,Pouya Kheradpour,Zhizhuo Zhang,Zhizhuo Zhang,Jianrong Wang,Jianrong Wang,Michael J. Ziller,Viren Amin,John W. Whitaker,Matthew D. Schultz,Lucas D. Ward,Lucas D. Ward,Abhishek Sarkar,Abhishek Sarkar,Gerald Quon,Gerald Quon,Richard Sandstrom,Matthew L. Eaton,Matthew L. Eaton,Yi-Chieh Wu,Yi-Chieh Wu,Andreas R. Pfenning,Andreas R. Pfenning,Xinchen Wang,Xinchen Wang,Melina Claussnitzer,Melina Claussnitzer,Yaping Liu,Yaping Liu,Cristian Coarfa,R. Alan Harris,Noam Shoresh,Charles B. Epstein,Elizabeta Gjoneska,Elizabeta Gjoneska,Danny Leung,Wei Xie,R. David Hawkins,Ryan Lister,Chibo Hong,Philippe Gascard,Andrew J. Mungall,Richard A. Moore,Eric Chuah,Angela Tam,Theresa K. Canfield,R. Scott Hansen,Rajinder Kaul,Peter J. Sabo,Mukul S. Bansal,Mukul S. Bansal,Mukul S. Bansal,Annaick Carles,Jesse R. Dixon,Kai How Farh,Soheil Feizi,Soheil Feizi,Rosa Karlic,Ah Ram Kim,Ah Ram Kim,Ashwinikumar Kulkarni,Daofeng Li,Rebecca F. Lowdon,Ginell Elliott,Tim R. Mercer,Shane Neph,Vitor Onuchic,Paz Polak,Paz Polak,Nisha Rajagopal,Pradipta R. Ray,Richard C Sallari,Richard C Sallari,Kyle Siebenthall,Nicholas A Sinnott-Armstrong,Nicholas A Sinnott-Armstrong,Michael Stevens,Robert E. Thurman,Jie Wu,Bo Zhang,Xin Zhou,Arthur E. Beaudet,Laurie A. Boyer,Philip L. De Jager,Philip L. De Jager,Peggy J. Farnham,Susan J. Fisher,David Haussler,Steven J.M. Jones,Steven J.M. Jones,Wei Li,Marco A. Marra,Michael T. McManus,Shamil R. Sunyaev,Shamil R. Sunyaev,James A. Thomson,Thea D. Tlsty,Li-Huei Tsai,Li-Huei Tsai,Wei Wang,Robert A. Waterland,Michael Q. Zhang,Lisa Helbling Chadwick,Bradley E. Bernstein,Bradley E. Bernstein,Bradley E. Bernstein,Joseph F. Costello,Joseph R. Ecker,Martin Hirst,Alexander Meissner,Aleksandar Milosavljevic,Bing Ren,John A. Stamatoyannopoulos,Ting Wang,Manolis Kellis,Manolis Kellis +123 more
TL;DR: It is shown that disease- and trait-associated genetic variants are enriched in tissue-specific epigenomic marks, revealing biologically relevant cell types for diverse human traits, and providing a resource for interpreting the molecular basis of human disease.
Integrative analysis of 111 reference human epigenomes
Anshul Kundaje,Wouter Meuleman,Jason Ernst,Angela Yen,Pouya Kheradpour,Zhizhuo Zhang,Jianrong Wang,Lucas D. Ward,Abhishek Sarkar,Gerald Quon,Matthew L. Eaton,Yi-Chieh Wu,Andreas R. Pfenning,Xinchen Wang,Melina Claussnitzer,Yaping Liu,Mukul S. Bansal,Soheil Feizi-Khankandi,Ah Ram Kim,Richard C Sallari,Nicholas A Sinnott-Armstrong,Laurie A. Boyer,Elizabeta Gjoneska,Li-Huei Tsai,Manolis Kellis +24 more
- 01 Feb 2015
TL;DR: In this article, the authors describe the integrative analysis of 111 reference human epigenomes generated as part of the NIH Roadmap Epigenomics Consortium, profiled for histone modification patterns, DNA accessibility, DNA methylation and RNA expression.
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A simple new approach to variable selection in regression, with application to genetic fine mapping
TL;DR: A simple new approach to variable selection in linear regression, with a particular focus on quantifying uncertainty in which variables should be selected, is introduced, based on a new model based on the ‘sum of single effects’ model, called ‘SuSiE’.
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Genomic analyses identify hundreds of variants associated with age at menarche and support a role for puberty timing in cancer risk
Felix R. Day,Deborah J. Thompson,Hannes Helgason,Hannes Helgason,Daniel I. Chasman,Hilary K. Finucane,Hilary K. Finucane,Patrick Sulem,Katherine S. Ruth,Sean Whalen,Abhishek Sarkar,Abhishek Sarkar,Eva Albrecht,Elisabeth Altmaier,Marzyeh Amini,Caterina Barbieri,Thibaud Boutin,Archie Campbell,Ellen W. Demerath,Ayush Giri,Chunyan He,Jouke J. Hottenga,Robert Karlsson,Ivana Kolcic,Po-Ru Loh,Po-Ru Loh,Kathryn L. Lunetta,Kathryn L. Lunetta,Massimo Mangino,Massimo Mangino,Brumat Marco,George McMahon,Sarah E. Medland,Ilja M. Nolte,Raymond Noordam,Teresa Nutile,Lavinia Paternoster,Natalia Perjakova,Eleonora Porcu,Lynda M. Rose,Katharina E. Schraut,Ayellet V. Segrè,Albert V. Smith,Lisette Stolk,Alexander Teumer,Irene L. Andrulis,Stefania Bandinelli,Matthias W. Beckmann,Javier Benitez,Sven Bergmann,Sven Bergmann,Murielle Bochud,Eric Boerwinkle,Stig E. Bojesen,Manjeet K. Bolla,Judith S. Brand,Hiltrud Brauch,Hiltrud Brauch,Hiltrud Brauch,Hermann Brenner,Linda Broer,Thomas Brüning,Julie E. Buring,Harry Campbell,Eulalia Catamo,Stephen J. Chanock,Georgia Chenevix-Trench,Tanguy Corre,Tanguy Corre,Fergus J. Couch,Diana L. Cousminer,Angela Cox,Laura Crisponi,Kamila Czene,George Davey Smith,Eco J. C. de Geus,Renée de Mutsert,Immaculata De Vivo,Joe Dennis,Peter Devilee,Isabel dos-Santos-Silva,Alison M. Dunning,Johan G. Eriksson,Peter A. Fasching,Peter A. Fasching,Lindsay Fernández-Rhodes,Luigi Ferrucci,Dieter Flesch-Janys,Lude Franke,Marike Gabrielson,Ilaria Gandin,Graham G. Giles,Graham G. Giles,Harald Grallert,Daniel F. Gudbjartsson,Daniel F. Gudbjartsson,Pascal Guénel,Per Hall,Emily Hallberg,Ute Hamann,Tamara B. Harris,Catharina A. Hartman,Gerardo Heiss,Maartje J. Hooning,John L. Hopper,Frank B. Hu,David J. Hunter,M. Arfan Ikram,Hae Kyung Im,Marjo-Riitta Järvelin,Marjo-Riitta Järvelin,Marjo-Riitta Järvelin,Peter K. Joshi,David Karasik,Manolis Kellis,Manolis Kellis,Zoltán Kutalik,Zoltán Kutalik,Genevieve Lachance,Diether Lambrechts,Claudia Langenberg,Lenore J. Launer,Joop S.E. Laven,Stefania Lenarduzzi,Jingmei Li,Penelope A. Lind,Sara Lindström,Yongmei Liu,Jian'an Luan,Reedik Mägi,Arto Mannermaa,Hamdi Mbarek,Mark I. McCarthy,Christa Meisinger,Thomas Meitinger,Cristina Menni,Andres Metspalu,Kyriaki Michailidou,Kyriaki Michailidou,Lili Milani,Roger L. Milne,Roger L. Milne,Grant W. Montgomery,Anna Marie Mulligan,Mike A. Nalls,Pau Navarro,Heli Nevanlinna,Dale R. Nyholt,Albertine J. Oldehinkel,Tracy A. O'Mara,Sandosh Padmanabhan,Aarno Palotie,Nancy L. Pedersen,Annette Peters,Julian Peto,Paul D.P. Pharoah,Anneli Pouta,Paolo Radice,Iffat Rahman,Susan M. Ring,Antonietta Robino,Frits R. Rosendaal,Igor Rudan,Rico Rueedi,Rico Rueedi,Daniela Ruggiero,Cinzia Sala,Marjanka K. Schmidt,Robert A. Scott,Mitul Shah,Rossella Sorice,Melissa C. Southey,Ulla Sovio,Ulla Sovio,Meir J. Stampfer,Maristella Steri,Konstantin Strauch,Toshiko Tanaka,Emmi Tikkanen,Nicholas J. Timpson,Michela Traglia,Thérèse Truong,Jonathan Tyrer,André G. Uitterlinden,Digna R. Velez Edwards,Veronique Vitart,Uwe Völker,Peter Vollenweider,Qin Wang,Elisabeth Widen,Ko Willems van Dijk,Gonneke Willemsen,Robert Winqvist,Bruce H. R. Wolffenbuttel,Jing Hua Zhao,Magdalena Zoledziewska,Marek Zygmunt,Behrooz Z. Alizadeh,Dorret I. Boomsma,Marina Ciullo,Francesco Cucca,Tõnu Esko,Tõnu Esko,Nora Franceschini,Christian Gieger,Vilmundur Gudnason,Caroline Hayward,Peter Kraft,Debbie A Lawlor,Patrik K. E. Magnusson,Nicholas G. Martin,Dennis O. Mook-Kanamori,Ellen A. Nohr,Ozren Polasek,David J. Porteous,Alkes L. Price,Alkes L. Price,Alkes L. Price,Paul M. Ridker,Harold Snieder,Tim D. Spector,Doris Stöckl,Daniela Toniolo,Sheila Ulivi,Jenny A. Visser,Henry Völzke,Nicholas J. Wareham,James F. Wilson,Amanda B. Spurdle,Unnur Thorsteindottir,Unnur Thorsteindottir,Katherine S. Pollard,Katherine S. Pollard,Douglas F. Easton,Joyce Y. Tung,Jenny Chang-Claude,Jenny Chang-Claude,David A. Hinds,Anna Murray,Joanne M. Murabito,Joanne M. Murabito,Kari Stefansson,Kari Stefansson,Ken K. Ong,John R. B. Perry +244 more
TL;DR: In this article, the authors used 1000 Genomes Project-imputed genotype data in up to ∼370,000 women to identify 389 independent signals (P < 5 × 10-8) for age at menarche, a milestone in female pubertal development.
Genomic analyses identify hundreds of variants associated with age at menarche and support a role for puberty timing in cancer risk
Felix R. Day,Deborah J. Thompson,Hannes Helgason,Daniel I. Chasman,Hilary K. Finucane,Patrick Sulem,Katherine S. Ruth,Sean Whalen,Abhishek Sarkar,Eva Albrecht,Elisabeth Altmaier,Marzyeh Amini,Caterina Barbieri,Thibaud Boutin,Archie Campbell,Ellen W. Demerath,Ayush Giri,Chunyan He,Jouke J. Hottenga,Robert Karlsson,Ivana Kolchic,Po-Ru Loh,Kathryn L. Lunetta,Massimo Mangino,Brumat Marco,George McMahon,Sarah E. Medland,Ilja M. Nolte,Raymond Noordam,Teresa Nutile,Lavinia Paternoster,Natalia Perjakova,Eleonora Porcu,Lynda M. Rose,Katharina E. Schraut,Ayellet V. Segrè,Albert V. Smith,Lisette Stolk,Alexander Teumer,Irene L. Andrulis,Stefania Bandinelli,Matthias W. Beckmann,Javier Benitez,Sven Bergmann,Murielle Bochud,Eric Boerwinkle,Stig E. Bojesen,Manjeet K. Bolla,Judith S. Brand,Hiltrud Brauch,Hermann Brenner,Linda Broer,Thomas Brüning,Julie E. Buring,Harry Campbell,Eulalia Catamo,Stephen J. Chanock,Georgia Chenevix-Trench,Tanguy Corre,Fergus J. Couch,Diana L. Cousminer,Angela Cox,Laura Crisponi,Kamila Czene,George Davey-Smith,Eco J. C. de Geus,Renée de Mutsert,Immaculata De Vivo,Joe Dennis,Peter Devilee,Isabel dos-Santos-Silva,Alison M. Dunning,Johan G. Eriksson,Peter A. Fasching,Lindsay Fernández-Rhodes,Luigi Ferrucci,Dieter Flesch-Janys,Lude Franke,Marike Gabrielson,Ilaria Gandin,Graham G. Giles,Harald Grallert,Daniel F. Gudbjartsson,Pascal Guéne,Perr Hall,Emily Hallberg,Ute Hamann,Tamara B. Harris,Catharina A. Hartman,Gerardo Heiss,Maartje J. Hooning,John L. Hopper,Frank B. Hu,David J. Hunter,M. Arfan Ikram,Hae Kyung Im,Marjo-Riitta Järvelin,Peter K. Joshi,David Karasik,Zoltán Kutalik,Genevieve Lachance,Diether Lambrechts,Claudia Langenberg,Lenore J. Launer,Joop S.E. Laven,Stefania Lenarduzzi,Jingmei Li,Penelope A. Lind,Sara Lindström,Yongmei Liu,Jian'an Luan,Arto Mannermaa,Hamdi Mbarek,Mark I. McCarthy,Christa Meisinger,Thomas Meitinger,Cristina Menni,Andres Metspalu,Kyriaki Michailidou,Lili Milani,Roger L. Milne,Grant W. Montgomery,Anna Marie Mulligan,Mike A. Nalls,Pau Navarro,Heli Nevanlinna,Dale R. Nyholt,Albertine J. Oldehinkel,Tracy A. O'Mara,Sandosh Padmanabhan,Aarno Palotie,Nancy L. Pedersen,Annette Peters,Julian Peto,Paul D.P. Pharoah,Anneli Pouta,Paolo Radice,Iffat Rahman,Susan M. Ring,Antonietta Robino,Frits R. Rosendaal,Igor Rudan,Rico Rueedi,Daniela Ruggiero,Cinzia Sala,Marjanka K. Schmidt,Robert A. Scott,Mitul Shah,Rossella Sorice,Melissa C. Southey,Ulla Sovio,Meir J. Stampfer,Maristella Steri,Konstantin Strauch,Toshiko Tanaka,Emmi Tikkanen,Nicholas J. Timpson,Michela Traglia,Thérèse Truong,Jonathan Tyrer,André G. Uitterlinden,Digna R. Velez Edwards,Veronique Vitart,Uwe Völker,Peter Vollenweider,Qin Wang,Elisabeth Widen,Ko Willems van Dijk,Gonneke Willemsen,Robert Winqvist,Bruce H. R. Wolffenbuttel,Jing Hua Zhao,Magdalena Zoledziewska,Marek Zygmunt,Behrooz Z. Alizadeh,Dorret I. Boomsma,Marina Ciullo,Francesco Cucca,Tõnu Esko,Nora Franceschini,Christian Gieger,Vilmundur Gudnason,Caroline Hayward,Peter Kraft,Debbie A Lawlor,Patrik K. E. Magnusson,Nicholas G. Martin,Dennis O. Mook-Kanamori,Ellen A. Nohr,Ozren Polasek,David J. Porteous,Alkes L. Price,Paul M. Ridker,Harold Snieder,Tim D. Spector,Doris Stöckl,Daniela Toniolo,Sheila Ulivi,Jenny A. Visser,Henry Völzke,Nicholas J. Wareham,James F. Wilson,Amanda B. Spurdle,Unnur Thorsteindottir,Katherine S. Pollard,Douglas F. Easton,Joyce Y. Tung,Jenny Chang-Claude,David A. Hinds,Anna Murray,Joanne M. Murabito,Kari Stefansson,Ken K. Ong,John R. B. Perry,kConFab,Aocs Investigators +215 more
- 01 Jan 2017
TL;DR: Using 1000 Genomes Project–imputed genotype data in up to ∼370,000 women, 389 independent signals for age at menarche, a milestone in female pubertal development are identified, highlighting the complexity of the genetic regulation of puberty timing and support causal links with cancer susceptibility.
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