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Joel Armstrong
Joel Armstrong
UC Santa Cruz Genomics Institute
Verified email at ucsc.edu
Title
Cited by
Cited by
Year
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
25392019
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
10782015
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
9752017
GENCODE 2021
A Frankish, M Diekhans, I Jungreis, J Lagarde, JE Loveland, JM Mudge, ...
Nucleic acids research 49 (D1), D916-D923, 2021
6882021
Telomere-to-telomere assembly of a complete human X chromosome
KH Miga, S Koren, A Rhie, MR Vollger, A Gershman, A Bzikadze, ...
Nature 585 (7823), 79-84, 2020
6712020
The UCSC genome browser database: 2018 update
J Casper, AS Zweig, C Villarreal, C Tyner, ML Speir, KR Rosenbloom, ...
Nucleic acids research 46 (D1), D762-D769, 2018
4992018
Nanopore sequencing and the Shasta toolkit enable efficient de novo assembly of eleven human genomes
K Shafin, T Pesout, R Lorig-Roach, M Haukness, HE Olsen, C Bosworth, ...
Nature biotechnology 38 (9), 1044-1053, 2020
3732020
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
3642014
High-resolution comparative analysis of great ape genomes
ZN Kronenberg, IT Fiddes, D Gordon, S Murali, S Cantsilieris, ...
Science 360 (6393), eaar6343, 2018
3612018
Long-read sequence assembly of the gorilla genome
D Gordon, J Huddleston, MJP Chaisson, CM Hill, ZN Kronenberg, ...
Science 352 (6281), aae0344, 2016
3442016
Dense sampling of bird diversity increases power of comparative genomics
S Feng, J Stiller, Y Deng, J Armstrong, QI Fang, AH Reeve, D Xie, G Chen, ...
Nature 587 (7833), 252-257, 2020
2942020
Progressive Cactus is a multiple-genome aligner for the thousand-genome era
J Armstrong, G Hickey, M Diekhans, IT Fiddes, AM Novak, A Deran, ...
Nature 587 (7833), 246-251, 2020
2682020
Whole-genome sequencing reveals host factors underlying critical COVID-19
A Kousathanas, E Pairo-Castineira, K Rawlik, A Stuckey, CA Odhams, ...
Nature 607 (7917), 97-103, 2022
2142022
A comparative genomics multitool for scientific discovery and conservation
Nature 587 (7833), 240-245, 2020
2142020
Sixteen diverse laboratory mouse reference genomes define strain-specific haplotypes and novel functional loci
J Lilue, AG Doran, IT Fiddes, M Abrudan, J Armstrong, R Bennett, ...
Nature genetics 50 (11), 1574-1583, 2018
1832018
Sequence diversity analyses of an improved rhesus macaque genome enhance its biomedical utility
WC Warren, RA Harris, M Haukness, IT Fiddes, SC Murali, J Fernandes, ...
Science 370 (6523), eabc6617, 2020
1062020
Chromosome assembly of large and complex genomes using multiple references
M Kolmogorov, J Armstrong, BJ Raney, I Streeter, M Dunn, F Yang, ...
Genome research 28 (11), 1720-1732, 2018
1022018
Whole-genome alignment and comparative annotation
J Armstrong, IT Fiddes, M Diekhans, B Paten
Annual review of animal biosciences 7, 41-64, 2019
972019
Comparative Annotation Toolkit (CAT)—simultaneous clade and personal genome annotation
IT Fiddes, J Armstrong, M Diekhans, S Nachtweide, ZN Kronenberg, ...
Genome research 28 (7), 1029-1038, 2018
942018
Evolutionary constraint and innovation across hundreds of placental mammals
MJ Christmas, IM Kaplow, DP Genereux, MX Dong, GM Hughes, X Li, ...
Science 380 (6643), eabn3943, 2023
632023
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