| Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project ENCODE Project Consortium nature 447 (7146), 799, 2007 | 5233 | 2007 |
| Genetic effects on gene expression across human tissues GTEx Consortium Nature 550 (7675), 204-213, 2017 | 1353 | 2017 |
| A user’s guide to the encyclopedia of DNA elements (ENCODE) ENCODE Project Consortium PLoS Biol 9 (4), e1001046, 2011 | 1195 | 2011 |
| The UCSC genome browser database: 2015 update KR Rosenbloom, J Armstrong, GP Barber, J Casper, H Clawson, ... Nucleic acids research 43 (D1), D670-D681, 2015 | 880 | 2015 |
| Nanopore sequencing and assembly of a human genome with ultra-long reads M Jain, S Koren, KH Miga, J Quick, AC Rand, TA Sasani, JR Tyson, ... Nature biotechnology 36 (4), 338-345, 2018 | 816 | 2018 |
| Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures A Stark, MF Lin, P Kheradpour, JS Pedersen, L Parts, JW Carlson, ... Nature 450 (7167), 219-232, 2007 | 661 | 2007 |
| The Oxford Nanopore MinION: delivery of nanopore sequencing to the genomics community M Jain, HE Olsen, B Paten, M Akeson Genome biology 17 (1), 239, 2016 | 622 | 2016 |
| Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species KR Bradnam, JN Fass, A Alexandrov, P Baranay, M Bechner, I Birol, ... GigaScience 2 (1), 2047-217X-2-10, 2013 | 612 | 2013 |
| GENCODE reference annotation for the human and mouse genomes A Frankish, M Diekhans, AM Ferreira, R Johnson, I Jungreis, J Loveland, ... Nucleic acids research 47 (D1), D766-D773, 2019 | 611 | 2019 |
| Assemblathon 1: a competitive assessment of de novo short read assembly methods D Earl, K Bradnam, JS John, A Darling, D Lin, J Fass, HOK Yu, V Buffalo, ... Genome research 21 (12), 2224-2241, 2011 | 524 | 2011 |
| Improved data analysis for the MinION nanopore sequencer M Jain, IT Fiddes, KH Miga, HE Olsen, B Paten, M Akeson Nature methods 12 (4), 351-356, 2015 | 521 | 2015 |
| The UCSC genome browser database: 2016 update ML Speir, AS Zweig, KR Rosenbloom, BJ Raney, B Paten, P Nejad, ... Nucleic acids research 44 (D1), D717-D725, 2016 | 363 | 2016 |
| Enredo and Pecan: genome-wide mammalian consistency-based multiple alignment with paralogs B Paten, J Herrero, K Beal, S Fitzgerald, E Birney Genome research 18 (11), 1814-1828, 2008 | 318 | 2008 |
| An evolutionary arms race between KRAB zinc-finger genes ZNF91/93 and SVA/L1 retrotransposons FMJ Jacobs, D Greenberg, N Nguyen, M Haeussler, AD Ewing, ... Nature 516 (7530), 242-245, 2014 | 283 | 2014 |
| The Matchmaker Exchange: a platform for rare disease gene discovery AA Philippakis, DR Azzariti, S Beltran, AJ Brookes, CA Brownstein, ... Human mutation 36 (10), 915-921, 2015 | 272 | 2015 |
| Track data hubs enable visualization of user-defined genome-wide annotations on the UCSC Genome Browser BJ Raney, TR Dreszer, GP Barber, H Clawson, PA Fujita, T Wang, ... Bioinformatics 30 (7), 1003-1005, 2014 | 264 | 2014 |
| Toil enables reproducible, open source, big biomedical data analyses J Vivian, AA Rao, FA Nothaft, C Ketchum, J Armstrong, A Novak, J Pfeil, ... Nature biotechnology 35 (4), 314-316, 2017 | 261 | 2017 |
| Long-read sequence assembly of the gorilla genome D Gordon, J Huddleston, MJP Chaisson, CM Hill, ZN Kronenberg, ... Science 352 (6281), aae0344, 2016 | 249 | 2016 |
| Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs RE Green, EL Braun, J Armstrong, D Earl, N Nguyen, G Hickey, ... Science 346 (6215), 2014 | 242 | 2014 |
| Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome EH Margulies, GM Cooper, G Asimenos, DJ Thomas, CN Dewey, A Siepel, ... Genome research 17 (6), 760-774, 2007 | 240 | 2007 |
David HausslerScientific Director, UC Santa Cruz Genomics Institute, University of California, Santa CruzVerified email at soe.ucsc.edu
