Benedict Paten
TitleCited byYear
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
49322007
A user’s guide to the encyclopedia of DNA elements (ENCODE)
ENCODE Project Consortium
PLoS Biol 9 (4), e1001046, 2011
11102011
The UCSC genome browser database: 2015 update
KR Rosenbloom, J Armstrong, GP Barber, J Casper, H Clawson, ...
Nucleic acids research 43 (D1), D670-D681, 2014
7752014
Genetic effects on gene expression across human tissues
GTEx Consortium
Nature 550 (7675), 204, 2017
7282017
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, 2007
6302007
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), 10, 2013
5422013
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, 2018
5202018
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
4972011
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, 2015
4382015
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
4002016
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, 2015
3312015
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
2982008
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
2332007
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
2222015
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, 2014
2142014
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, 2013
2062013
Long-read sequence assembly of the gorilla genome
D Gordon, J Huddleston, MJP Chaisson, CM Hill, ZN Kronenberg, ...
Science 352 (6281), aae0344, 2016
1992016
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), 1254449, 2014
1942014
MinION Analysis and Reference Consortium: Phase 1 data release and analysis
CLC Ip, M Loose, JR Tyson, M de Cesare, BL Brown, M Jain, RM Leggett, ...
F1000Research 4, 2015
1862015
Genome-wide nucleotide-level mammalian ancestor reconstruction
B Paten, J Herrero, S Fitzgerald, K Beal, P Flicek, I Holmes, E Birney
Genome research 18 (11), 1829-1843, 2008
1742008
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Articles 1–20