James Taylor
James Taylor
Professor of Biology and Computer Science, Johns Hopkins University
Verified email at jhu.edu - Homepage
Title
Cited by
Cited by
Year
An integrated encyclopedia of DNA elements in the human genome
ENCODE Project Consortium
Nature 489 (7414), 57-74, 2012
88022012
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
E Birney, JA Stamatoyannopoulos, A Dutta, R Guigó, TR Gingeras, ...
Nature 447 (7146), 799-816, 2007
51032007
Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences
J Goecks, A Nekrutenko, J Taylor
Genome Biol 11 (8), R86, 2010
35412010
Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution
LDW Hillier, W Miller, E Birney, W Warren, RC Hardison, CP Ponting, ...
Nature 432 (7018), 695-716, 2004
23262004
Genome sequence of the Brown Norway rat yields insights into mammalian evolution
RA Gibbs, GM Weinstock, ML Metzker, DM Muzny, EJ Sodergren, ...
Nature 428 (6982), 493-521, 2004
21342004
Galaxy: a platform for interactive large-scale genome analysis
B Giardine, C Riemer, RC Hardison, R Burhans, L Elnitski, P Shah, ...
Genome research 15 (10), 1451-1455, 2005
20932005
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update
E Afgan, D Baker, B Batut, M van den Beek, D Bouvier, M Čech, J Chilton, ...
Nucleic acids research 46 (W1), W537-W544, 2018
19062018
Initial sequence of the chimpanzee genome and comparison with the human genome
TC Sequencing, Analysis Consortium
Nature 437 (7055), 69-87, 2005
1875*2005
Galaxy: a web‐based genome analysis tool for experimentalists
D Blankenberg, GV Kuster, N Coraor, G Ananda, R Lazarus, M Mangan, ...
Current protocols in molecular biology 89 (1), 19.10. 1-19.10. 21, 2010
15602010
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update
E Afgan, D Baker, M Van den Beek, D Blankenberg, D Bouvier, M Čech, ...
Nucleic acids research 44 (W1), W3-W10, 2016
12282016
A comparative encyclopedia of DNA elements in the mouse genome
F Yue, Y Cheng, A Breschi, J Vierstra, W Wu, T Ryba, R Sandstrom, Z Ma, ...
Nature 515 (7527), 355-364, 2014
11452014
Architectural protein subclasses shape 3D organization of genomes during lineage commitment
JE Phillips-Cremins, MEG Sauria, A Sanyal, TI Gerasimova, BR Lajoie, ...
Cell 153 (6), 1281-1295, 2013
8872013
Genome analysis of the platypus reveals unique signatures of evolution
WC Warren, LDW Hillier, JAM Graves, E Birney, CP Ponting, F Grützner, ...
Nature 453 (7192), 175-183, 2008
6832008
Topologically associating domains are stable units of replication-timing regulation
BD Pope, T Ryba, V Dileep, F Yue, W Wu, O Denas, DL Vera, Y Wang, ...
Nature 515 (7527), 402-405, 2014
5832014
Manipulation of FASTQ data with Galaxy
D Blankenberg, A Gordon, G Von Kuster, N Coraor, J Taylor, ...
Bioinformatics 26 (14), 1783-1785, 2010
5462010
Ten Simple Rules for Reproducible Computational Research
GK Sandve, A Nekrutenko, J Taylor, E Hovig
PLOS Computational Biology 9 (10), e1003285, 2013
4782013
An encyclopedia of mouse DNA elements (Mouse ENCODE)
JA Stamatoyannopoulos, M Snyder, R Hardison, B Ren, T Gingeras, ...
Genome biology 13 (8), 418, 2012
2772012
Next-generation sequencing data interpretation: enhancing reproducibility and accessibility
A Nekrutenko, J Taylor
Nature Reviews Genetics 13 (9), 667-672, 2012
2742012
28-way vertebrate alignment and conservation track in the UCSC Genome Browser
W Miller, K Rosenbloom, RC Hardison, M Hou, J Taylor, B Raney, ...
Genome research 17 (12), 1797-1808, 2007
2742007
Evaluation of regulatory potential and conservation scores for detecting cis-regulatory modules in aligned mammalian genome sequences
DC King, J Taylor, L Elnitski, F Chiaromonte, W Miller, RC Hardison
Genome research 15 (8), 1051-1060, 2005
2402005
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