Alan P Boyle
Alan P Boyle
Assistant Professor, University of Michigan
Verified email at umich.edu - Homepage
Title
Cited by
Cited by
Year
An integrated encyclopedia of DNA elements in the human genome
ENCODE Project Consortium
Nature, 2012
10832*2012
Annotation of functional variation in personal genomes using RegulomeDB
AP Boyle, EL Hong, M Hariharan, Y Cheng, MA Schaub, M Kasowski, ...
Genome Research 22 (9), 1790-1797, 2012
18092012
Architecture of the human regulatory network derived from ENCODE data
MB Gerstein, A Kundaje, M Hariharan, SG Landt, KK Yan, C Cheng, ...
Nature 489 (7414), 91-100, 2012
13082012
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
12062014
High-resolution mapping and characterization of open chromatin across the genome
AP Boyle, S Davis, HP Shulha, P Meltzer, EH Margulies, Z Weng, ...
Cell 132 (2), 311-322, 2008
11942008
A user's guide to the encyclopedia of DNA elements (ENCODE)
RM Myers, J Stamatoyannopoulos, M Snyder, I Dunham, RC Hardison, ...
PLoS Biology 9 (4), e1001046, 2011
11752011
Personal Omics Profiling Reveals Dynamic Molecular and Medical Phenotypes
R Chen, GI Mias, J Li-Pook-Than, L Jiang, HYK Lam, R Chen, E Miriami, ...
Cell 148 (6), 1293-1307, 2012
10702012
Linking disease associations with regulatory information in the human genome
MA Schaub, AP Boyle, A Kundaje, S Batzoglou, M Snyder
Genome Research 22 (9), 1748-1759, 2012
6782012
Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity
L Song, Z Zhang, LL Grasfeder, AP Boyle, PG Giresi, BK Lee, ...
Genome research 21 (10), 1757-1767, 2011
5032011
F-Seq: a feature density estimator for high-throughput sequence tags
AP Boyle, J Guinney, GE Crawford, TS Furey
Bioinformatics 24 (21), 2537-2538, 2008
3772008
Heritable individual-specific and allele-specific chromatin signatures in humans
R McDaniell, BK Lee, L Song, Z Liu, AP Boyle, MR Erdos, LJ Scott, ...
Science 328 (5975), 235-239, 2010
3292010
High-resolution genome-wide in vivo footprinting of diverse transcription factors in human cells
AP Boyle, L Song, BK Lee, D London, D Keefe, E Birney, VR Iyer, ...
Genome research 21 (3), 456-464, 2011
3242011
Extensive Variation in Chromatin States Across Humans
M Kasowski, S Kyriazopoulou-Panagiotopoulou, F Grubert, JB Zaugg, ...
Science 342 (6159), 750-752, 2013
3182013
Principles of regulatory information conservation between mouse and human
Y Cheng, Z Ma, BH Kim, W Wu, P Cayting, AP Boyle, V Sundaram, X Xing, ...
Nature 515 (7527), 371-375, 2014
1972014
Global epigenomic analysis of primary human pancreatic islets provides insights into type 2 diabetes susceptibility loci
ML Stitzel, P Sethupathy, DS Pearson, PS Chines, L Song, MR Erdos, ...
Cell metabolism 12 (5), 443-455, 2010
1882010
Comparative analysis of regulatory information and circuits across distant species
AP Boyle, CL Araya, C Brdlik, P Cayting, C Cheng, Y Cheng, K Gardner, ...
Nature 512 (7515), 453-456, 2014
1732014
Dynamic trans-acting factor colocalization in human cells
D Xie, AP Boyle, L Wu, J Zhai, T Kawli, M Snyder
Cell 155 (3), 713-724, 2013
1192013
Both noncoding and protein-coding RNAs contribute to gene expression evolution in the primate brain
CC Babbitt, O Fedrigo, AD Pfefferle, AP Boyle, JE Horvath, TS Furey, ...
Genome biology and evolution 2, 67-79, 2010
1062010
The ENCODE blacklist: identification of problematic regions of the genome
HM Amemiya, A Kundaje, AP Boyle
Scientific reports 9 (1), 1-5, 2019
1042019
Sushi. R: flexible, quantitative and integrative genomic visualizations for publication-quality multi-panel figures
DH Phanstiel, AP Boyle, CL Araya, MP Snyder
Bioinformatics 30 (19), 2808-2810, 2014
1022014
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