N
Nicholas A Sinnott-Armstrong
Researcher at Stanford University
Publications - 18
Citations - 12112
Nicholas A Sinnott-Armstrong is an academic researcher from Stanford University. The author has contributed to research in topics: Cancer & Genome-wide association study. The author has an hindex of 12, co-authored 18 publications receiving 9545 citations. Previous affiliations of Nicholas A Sinnott-Armstrong include Massachusetts Institute of Technology & Broad Institute.
Papers
More filters
Journal ArticleDOI
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
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.
Journal ArticleDOI
An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues
M. Ryan Corces,Alexandro E. Trevino,Emily G. Hamilton,Peyton Greenside,Nicholas A Sinnott-Armstrong,Sam Vesuna,Ansuman T. Satpathy,Adam J. Rubin,Kathleen S. Montine,Beijing Wu,Arwa Kathiria,Seung Woo Cho,Maxwell R. Mumbach,Ava C. Carter,Maya Kasowski,Lisa A. Orloff,Viviana I. Risca,Anshul Kundaje,Paul A. Khavari,Thomas J. Montine,William J. Greenleaf,Howard Y. Chang +21 more
TL;DR: The Omni-ATAC protocol generates chromatin accessibility profiles from archival frozen tissue samples and 50-μm sections, revealing the activities of disease-associated DNA elements in distinct human brain structures.
Journal ArticleDOI
Super-resolution chromatin tracing reveals domains and cooperative interactions in single cells
Bogdan Bintu,Leslie J. Mateo,Jun-Han Su,Nicholas A Sinnott-Armstrong,Mirae Parker,Seon Kinrot,Kei Yamaya,Alistair N. Boettiger,Xiaowei Zhuang +8 more
TL;DR: A super-resolution chromatin tracing method that allows determination of both the structural features and their genomic coordinates with high resolution in single cells is reported, suggesting that cohesin is not required for the formation or maintenance of single-cell domain structures, but that their preferential boundary positions are influenced by cohes in-CTCF interaction.
Journal ArticleDOI
Breast cancer risk variants at 6q25 display different phenotype associations and regulate ESR1, RMND1 and CCDC170
Alison M. Dunning,Kyriaki Michailidou,Karoline Kuchenbaecker,Deborah J. Thompson,Juliet D. French,Jonathan Beesley,Catherine S. Healey,Siddhartha Kar,Karen A. Pooley,Elena Lopez-Knowles,Elena Lopez-Knowles,Ed Dicks,Daniel Barrowdale,Nicholas A Sinnott-Armstrong,Richard C Sallari,Kristine M. Hillman,Susanne Kaufmann,Haran Sivakumaran,Mahdi Moradi Marjaneh,Jason Sang Hun Lee,Margaret Hills,Monika Jarosz,Monika Jarosz,S. Drury,S. Drury,Sander Canisius,Manjeet K. Bolla,Joe Dennis,Qin Wang,John L. Hopper,Melissa C. Southey,Annegien Broeks,Marjanka K. Schmidt,Artitaya Lophatananon,Kenneth Muir,Kenneth Muir,Matthias W. Beckmann,Peter A. Fasching,Peter A. Fasching,Isabel dos-Santos-Silva,Julian Peto,Elinor J. Sawyer,Ian Tomlinson,Ian Tomlinson,Barbara Burwinkel,Frederik Marmé,Pascal Guénel,Thérèse Truong,Stig E. Bojesen,Stig E. Bojesen,Henrik Flyger,Anna González-Neira,Jose Ignacio Arias Perez,Hoda Anton-Culver,Lee Eunjung,Volker Arndt,Hermann Brenner,Alfons Meindl,Rita K. Schmutzler,Hiltrud Brauch,Hiltrud Brauch,Hiltrud Brauch,Ute Hamann,Kristiina Aittomäki,Carl Blomqvist,Hidemi Ito,Keitaro Matsuo,Natasha Bogdanova,Thilo Dörk,Annika Lindblom,Sara Margolin,Veli-Matti Kosma,Arto Mannermaa,Chiu-Chen Tseng,Anna H. Wu,Diether Lambrechts,Hans Wildiers,Jenny Chang-Claude,Jenny Chang-Claude,Anja Rudolph,Paolo Peterlongo,Paolo Radice,Janet E. Olson,Graham G. Giles,Graham G. Giles,Roger L. Milne,Roger L. Milne,Christopher A. Haiman,Brian E. Henderson,Mark S. Goldberg,Soo Hwang Teo,Cheng Har Yip,Silje Nord,Anne Lise Børresen-Dale,Anne Lise Børresen-Dale,Vessela N. Kristensen,Vessela N. Kristensen,Jirong Long,Wei Zheng,Katri Pylkäs,Robert Winqvist,Irene L. Andrulis,Irene L. Andrulis,Julia A. Knight,Julia A. Knight,Peter Devilee,Caroline Seynaeve,Jonine D. Figueroa,Mark E. Sherman,Kamila Czene,Hatef Darabi,Antoinette Hollestelle,Ans M.W. van den Ouweland,Keith Humphreys,Yu-Tang Gao,Xiao-Ou Shu,Angela Cox,Simon S. Cross,William Blot,Qiuyin Cai,Maya Ghoussaini,Barbara Perkins,Mitul Shah,Ji Yeob Choi,Daehee Kang,Soo-Chin Lee,Soo-Chin Lee,Mikael Hartman,Mikael Hartman,Maria Kabisch,Diana Torres,Diana Torres,Anna Jakubowska,Jan Lubinski,Paul Brennan,Suleeporn Sangrajrang,Christine B. Ambrosone,Amanda E. Toland,Chen-Yang Shen,Chen-Yang Shen,Pei-Ei Wu,Nick Orr,Anthony J. Swerdlow,Anthony J. Swerdlow,Lesley McGuffog,Sue Healey,Andrew Lee,Miroslav Kapuscinski,Esther M. John,Mary Beth Terry,Mary B. Daly,David E. Goldgar,Saundra S. Buys,Ramunas Janavicius,Laima Tihomirova,Nadine Tung,Cecilia M. Dorfling,Elizabeth J. van Rensburg,Susan L. Neuhausen,Bent Ejlertsen,Thomas Hansen,Ana Osorio,Javier Benitez,Rachel Rando,Jeffrey N. Weitzel,Bernardo Bonanni,Bernard Peissel,Siranoush Manoukian,Laura Papi,Laura Ottini,Irene Konstantopoulou,Paraskevi Apostolou,Judy Garber,Muhammad Usman Rashid,Debra Frost,Louise Izatt,Steve Ellis,Andrew K. Godwin,Norbert Arnold,Dieter Niederacher,Kerstin Rhiem,Nadja Bogdanova-Markov,Charlotte Sagne,Dominique Stoppa-Lyonnet,Dominique Stoppa-Lyonnet,Francesca Damiola,Olga M. Sinilnikova,Sylvie Mazoyer,Claudine Isaacs,Kathleen Claes,Kim De Leeneer,Miguel de la Hoya,Trinidad Caldés,Heli Nevanlinna,Sofia Khan,Arjen R. Mensenkamp,Maartje J. Hooning,Matti A. Rookus,Ava Kwong,Edith Olah,Orland Diez,Joan Brunet,Miquel Angel Pujana,Jacek Gronwald,Tomasz Huzarski,Rosa B. Barkardottir,Rachel Laframboise,Penny Soucy,Marco Montagna,Simona Agata,Manuel R. Teixeira,Sue K. Park,Noralane M. Lindor,Fergus J. Couch,Marc Tischkowitz,Lenka Foretova,Joseph Vijai,Kenneth Offit,Christian F. Singer,Christine Rappaport,Catherine M. Phelan,Mark H. Greene,Phuong L. Mai,Gad Rennert,Evgeny N. Imyanitov,Peter J. Hulick,Kelly-Anne Phillips,Marion Piedmonte,Anna Marie Mulligan,Anna Marie Mulligan,Gord Glendon,Anders Bojesen,Mads Thomassen,Maria A. Caligo,Sook-Yee Yoon,Eitan Friedman,Yael Laitman,Åke Borg,Anna von Wachenfeldt,Hans Ehrencrona,Hans Ehrencrona,Johanna Rantala,Olufunmilayo I. Olopade,Patricia A. Ganz,Robert L. Nussbaum,Simon A. Gayther,Katherine L. Nathanson,Susan M. Domchek,Banu Arun,Gillian Mitchell,Gillian Mitchell,Beth Y. Karlan,Jenny Lester,Gertraud Maskarinec,Christy G. Woolcott,Christopher G. Scott,Jennifer Stone,Carmel Apicella,Rulla M. Tamimi,Rulla M. Tamimi,Robert Luben,Kay-Tee Khaw,Åslaug Helland,Vilde Drageset Haakensen,Mitch Dowsett,Mitch Dowsett,Paul D.P. Pharoah,Jacques Simard,Per Hall,Montserrat Garcia-Closas,Montserrat Garcia-Closas,Celine M. Vachon,Georgia Chenevix-Trench,Antonis C. Antoniou,Douglas F. Easton,Stacey L. Edwards +275 more
TL;DR: The best candidate causal variants for ER− tumors lie in four separate enhancer elements, and the risk alleles of the strongest candidates for the remaining independent causal variant disrupt a silencer element and putatively increase ESR1 and RMND1 expression.