M
Manolis Kellis
Researcher at Massachusetts Institute of Technology
Publications - 448
Citations - 132627
Manolis Kellis is an academic researcher from Massachusetts Institute of Technology. The author has contributed to research in topics: Gene & Genome. The author has an hindex of 128, co-authored 405 publications receiving 112181 citations. Previous affiliations of Manolis Kellis include Broad Institute & Epigenomics AG.
Papers
More filters
Journal ArticleDOI
HaploReg v4: systematic mining of putative causal variants, cell types, regulators and target genes for human complex traits and disease.
TL;DR: A use case of HaploReg is illustrated for attention deficit hyperactivity disorder (ADHD)-associated SNPs with putative brain regulatory mechanisms, and the number of chromatin state maps to 127 reference epigenomes is greatly expanded.
Journal ArticleDOI
An endogenous small interfering RNA pathway in Drosophila
Benjamin Czech,Colin D. Malone,Rui Zhou,Alexander Stark,Alexander Stark,Catherine Schlingeheyde,Monica Dus,Norbert Perrimon,Manolis Kellis,James A. Wohlschlegel,Ravi Sachidanandam,Gregory J. Hannon,Julius Brennecke +12 more
TL;DR: It is shown that Drosophila generates a third small RNA class, endogenous small interfering RNAs, in both gonadal and somatic tissues, adding a class that blurs distinctions based on known biogenesis mechanisms and functional roles.
Journal ArticleDOI
Defining functional DNA elements in the human genome
Manolis Kellis,Barbara J. Wold,Michael Snyder,Bradley E. Bernstein,Anshul Kundaje,Georgi K. Marinov,Lucas D. Ward,Ewan Birney,Gregory E. Crawford,Job Dekker,Ian Dunham,Laura Elnitski,Peggy J. Farnham,Elise A. Feingold,Mark Gerstein,Morgan C. Giddings,David M. Gilbert,Thomas R. Gingeras,Eric D. Green,Roderic Guigó,Tim Hubbard,Jim Kent,Jason D. Lieb,Richard M. Myers,Michael J. Pazin,Bing Ren,John A. Stamatoyannopoulos,Zhiping Weng,Kevin P. White,Ross C. Hardison +29 more
TL;DR: The strengths and limitations of biochemical, evolutionary, and genetic approaches for defining functional DNA segments, potential sources for the observed differences in estimated genomic coverage, and the biological implications of these discrepancies are reviewed.
Journal ArticleDOI
Exploring the phenotypic consequences of tissue specific gene expression variation inferred from GWAS summary statistics.
Alvaro N. Barbeira,Scott P. Dickinson,Rodrigo Bonazzola,Jiamao Zheng,Heather E. Wheeler,Jason M. Torres,Eric S. Torstenson,Kaanan P. Shah,Tzintzuni Garcia,Todd L. Edwards,Eli A. Stahl,Laura M. Huckins,François Aguet,Kristin G. Ardlie,Beryl B. Cummings,Ellen Gelfand,Gad Getz,Kane Hadley,Robert E. Handsaker,Katherine H. Huang,Seva Kashin,Konrad J. Karczewski,Monkol Lek,Xiao Li,Xiao Li,Daniel G. MacArthur,Jared L. Nedzel,Duyen T. Nguyen,Michael S. Noble,Ayellet V. Segrè,Casandra A. Trowbridge,Taru Tukiainen,Nathan S. Abell,Brunilda Balliu,Ruth Barshir,Omer Basha,Alexis Battle,Gireesh K. Bogu,Andrew A. Brown,Andrew A. Brown,Christopher D. Brown,Stephane E. Castel,Lin Chen,Colby Chiang,Donald F. Conrad,Farhan N. Damani,Joe R. Davis,Olivier Delaneau,Olivier Delaneau,Emmanouil T. Dermitzakis,Emmanouil T. Dermitzakis,Barbara E. Engelhardt,Eleazar Eskin,Pedro G. Ferreira,Laure Fresard,Eric R. Gamazon,Eric R. Gamazon,Diego Garrido-Martín,Ariel D. H. Gewirtz,Genna Gliner,Michael J. Gloudemans,Roderic Guigó,Ira M. Hall,Buhm Han,Yuan He,Farhad Hormozdiari,Cédric Howald,Cédric Howald,Brian Jo,Eun Yong Kang,Yungil Kim,Sarah Kim-Hellmuth,Tuuli Lappalainen,Gen Li,Xin Li,Boxiang Liu,Serghei Mangul,Mark I. McCarthy,Ian C. McDowell,Pejman Mohammadi,Jean Monlong,Jean Monlong,Stephen B. Montgomery,Manuel Muñoz-Aguirre,Manuel Muñoz-Aguirre,Anne Ndungu,Andrew B. Nobel,Meritxell Oliva,Halit Ongen,Halit Ongen,John Palowitch,Nikolaos I Panousis,Nikolaos I Panousis,Panagiotis Papasaikas,YoSon Park,Princy Parsana,Anthony Payne,Christine B. Peterson,Jie Quan,Ferran Reverter,Ferran Reverter,Chiara Sabatti,Ashis Saha,Michael Sammeth,Alexandra J. Scott,Andrey A. Shabalin,Reza Sodaei,Matthew Stephens,Barbara E. Stranger,Benjamin J. Strober,Jae Hoon Sul,Emily K. Tsang,Sarah Urbut,Martijn van de Bunt,Gao Wang,Xiaoquan Wen,Fred A. Wright,Hualin S. Xi,Esti Yeger-Lotem,Zachary Zappala,Judith B. Zaugg,Yi-Hui Zhou,Joshua M. Akey,Daniel Bates,Joanne Chan,Melina Claussnitzer,Melina Claussnitzer,Kathryn Demanelis,Morgan Diegel,Jennifer A. Doherty,Andrew P. Feinberg,Marian S. Fernando,Jessica Halow,Kasper D. Hansen,Eric Haugen,Peter Hickey,Lei Hou,Lei Hou,Farzana Jasmine,Ruiqi Jian,Lihua Jiang,Audra K. Johnson,Rajinder Kaul,Manolis Kellis,Manolis Kellis,Muhammad G. Kibriya,Kristen Lee,Jin Billy Li,Qin Li,Jessica Lin,Jessica Lin,Shin Lin,Shin Lin,Sandra Linder,Caroline Linke,Yaping Liu,Yaping Liu,Matthew T. Maurano,Benoit Molinie,Jemma Nelson,Fidencio J. Neri,Yongjin Park,Yongjin Park,Brandon L. Pierce,Nicola J. Rinaldi,Nicola J. Rinaldi,Lindsay F. Rizzardi,Richard Sandstrom,Andrew D. Skol,Kevin S. Smith,Michael Snyder,John A. Stamatoyannopoulos,Hua Tang,Li Wang,Meng Wang,Nicholas Van Wittenberghe,Fan Wu,Rui Zhang,Concepcion R. Nierras,Philip A. Branton,Latarsha J. Carithers,Ping Guan,Helen M. Moore,Abhi Rao,Jimmie B. Vaught,Sarah E. Gould,Nicole C. Lockart,Casey Martin,Jeffery P. Struewing,Simona Volpi,Anjené M. Addington,Susan E. Koester,A. Roger Little,Lori E. Brigham,Richard Hasz,Marcus Hunter,Christopher Johns,Mark H. Johnson,Gene Kopen,William F. Leinweber,John T. Lonsdale,Alisa McDonald,Bernadette Mestichelli,Kevin Myer,Brian Roe,Michael F. Salvatore,Saboor Shad,Jeffrey A. Thomas,Gary Walters,Michael Washington,Joseph Wheeler,Jason Bridge,Barbara A. Foster,Bryan Gillard,Ellen Karasik,Rachna Kumar,Mark Miklos,Michael T. Moser,Scott D. Jewell,Robert G. Montroy,Daniel C. Rohrer,Dana R. Valley,David A. Davis,Deborah C. Mash,Anita H. Undale,Anna M. Smith,David E. Tabor,Nancy Roche,Jeffrey McLean,Negin Vatanian,Karna Robinson,Leslie H. Sobin,Mary Barcus,Kimberly M. Valentino,Liqun Qi,Steven Hunter,Pushpa Hariharan,Shilpi Singh,Ki Sung Um,Takunda Matose,Maria M. Tomaszewski,Laura Barker,Maghboeba Mosavel,Laura A. Siminoff,Heather M. Traino,Paul Flicek,Thomas Juettemann,Magali Ruffier,Dan Sheppard,Kieron Taylor,Stephen J. Trevanion,Daniel R. Zerbino,Brian Craft,Mary Goldman,Maximilian Haeussler,W. James Kent,Christopher Lee,Benedict Paten,Kate R. Rosenbloom,John Vivian,Jingchun Zhu,Dan L. Nicolae,Nancy J. Cox,Hae Kyung Im +263 more
TL;DR: A mathematical expression is derived to compute PrediXcan results using summary data, and the effects of gene expression variation on human phenotypes in 44 GTEx tissues and >100 phenotypes are investigated.
Journal ArticleDOI
Genome analysis of the platypus reveals unique signatures of evolution
Wesley C. Warren,LaDeana W. Hillier,Jennifer A. Marshall Graves,Ewan Birney,Chris P. Ponting,Frank Grützner,Katherine Belov,Webb Miller,Laura Clarke,Asif T. Chinwalla,Shiaw Pyng Yang,Andreas Heger,Devin P. Locke,Pat Miethke,Paul D. Waters,Frédéric Veyrunes,Frédéric Veyrunes,Lucinda Fulton,Bob Fulton,Tina Graves,John W. Wallis,Xose S. Puente,Carlos López-Otín,Gonzalo R. Ordóñez,Evan E. Eichler,Lin Chen,Ze Cheng,Janine E. Deakin,Amber E. Alsop,Katherine Thompson,Patrick J. Kirby,Anthony T. Papenfuss,Matthew Wakefield,Tsviya Olender,Doron Lancet,Gavin A. Huttley,Arian F.A. Smit,Andrew J Pask,Peter Temple-Smith,Peter Temple-Smith,Mark A. Batzer,Jerilyn A. Walker,Miriam K. Konkel,Robert S. Harris,Camilla M. Whittington,Emily S. W. Wong,Neil J. Gemmell,Emmanuel Buschiazzo,Iris M. Vargas Jentzsch,Angelika Merkel,Juergen Schmitz,Anja Zemann,Gennady Churakov,Jan Ole Kriegs,Juergen Brosius,Elizabeth P. Murchison,Ravi Sachidanandam,Carly Smith,Gregory J. Hannon,Enkhjargal Tsend-Ayush,Daniel McMillan,Rosalind Attenborough,Willem Rens,Malcolm A. Ferguson-Smith,Christophe Lefevre,Christophe Lefevre,Julie A. Sharp,Kevin R. Nicholas,David A. Ray,Michael Kube,Richard Reinhardt,Thomas H. Pringle,James Taylor,Russell C. Jones,Brett Nixon,Jean Louis Dacheux,Hitoshi Niwa,Yoko Sekita,Xiaoqiu Huang,Alexander Stark,Pouya Kheradpour,Manolis Kellis,Paul Flicek,Yuan Chen,Caleb Webber,Ross C. Hardison,Joanne O. Nelson,Kym Hallsworth-Pepin,Kim D. Delehaunty,Chris Markovic,Patrick Minx,Yucheng Feng,Colin Kremitzki,Makedonka Mitreva,Jarret Glasscock,Todd Wylie,Patricia Wohldmann,Prathapan Thiru,Michael N. Nhan,Craig Pohl,Scott M. Smith,Shunfeng Hou,Marilyn B. Renfree,Elaine R. Mardis,Richard K. Wilson +104 more
TL;DR: It is found that reptile and platypus venom proteins have been co-opted independently from the same gene families; milk protein genes are conserved despite platypuses laying eggs; and immune gene family expansions are directly related to platypUS biology.