Adam Siepel
Adam Siepel
Simons Center for Quantitative Biology, Cold Spring Harbor Laboratory
Verified email at cshl.edu - Homepage
Title
Cited by
Cited by
Year
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
54082007
Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
A Siepel, G Bejerano, JS Pedersen, AS Hinrichs, M Hou, K Rosenbloom, ...
Genome research 15 (8), 1034-1050, 2005
38312005
Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution.
International Chicken Genome Sequencing Consortium
Nature 432 (7018), 695-716, 2004
24642004
Detection of nonneutral substitution rates on mammalian phylogenies
KS Pollard, MJ Hubisz, KR Rosenbloom, A Siepel
Genome research 20 (1), 110-121, 2010
19182010
Phylogenetic hidden Markov models
A Siepel, D Haussler
Statistical methods in molecular evolution, 325-351, 2005
15862005
Combining phylogenetic and hidden Markov models in biosequence analysis
A Siepel, D Haussler
Journal of Computational Biology 11 (2-3), 413-428, 2004
14972004
Evolutionary and biomedical insights from the rhesus macaque genome
RA Gibbs, J Rogers, MG Katze, R Bumgarner, GM Weinstock, ER Mardis, ...
science 316 (5822), 222-234, 2007
12862007
A high-resolution map of human evolutionary constraint using 29 mammals
K Lindblad-Toh, M Garber, O Zuk, MF Lin, BJ Parker, S Washietl, ...
Nature 478 (7370), 476-482, 2011
10472011
An RNA gene expressed during cortical development evolved rapidly in humans
KS Pollard, SR Salama, N Lambert, MA Lambot, S Coppens, JS Pedersen, ...
Nature 443 (7108), 167-172, 2006
10102006
The UCSC genome browser database: update 2006
AS Hinrichs, D Karolchik, R Baertsch, GP Barber, G Bejerano, H Clawson, ...
Nucleic acids research 34 (suppl_1), D590-D598, 2006
9902006
Comparative analyses of multi-species sequences from targeted genomic regions
JW Thomas, JW Touchman, RW Blakesley, GG Bouffard, ...
Nature 424 (6950), 788-793, 2003
7492003
Identification and classification of conserved RNA secondary structures in the human genome
JS Pedersen, G Bejerano, A Siepel, K Rosenbloom, K Lindblad-Toh, ...
PLoS computational biology 2 (4), e33, 2006
6102006
Comparative and demographic analysis of orang-utan genomes
DP Locke, LDW Hillier, WC Warren, KC Worley, LV Nazareth, DM Muzny, ...
Nature 469 (7331), 529-533, 2011
5872011
Patterns of positive selection in six mammalian genomes
C Kosiol, T Vinař, RR da Fonseca, MJ Hubisz, CD Bustamante, R Nielsen, ...
PLoS genetics 4 (8), e1000144, 2008
5322008
A distal enhancer and an ultraconserved exon are derived from a novel retroposon
G Bejerano, CB Lowe, N Ahituv, B King, A Siepel, SR Salama, EM Rubin, ...
Nature 441 (7089), 87-90, 2006
5282006
Genome sequencing highlights the dynamic early history of dogs
AH Freedman, I Gronau, RM Schweizer, D Ortega-Del Vecchyo, E Han, ...
PLoS genetics 10 (1), e1004016, 2014
5202014
Bayesian inference of ancient human demography from individual genome sequences
I Gronau, MJ Hubisz, B Gulko, CG Danko, A Siepel
Nature genetics 43 (10), 1031-1034, 2011
5082011
Analysis of nascent RNA identifies a unified architecture of initiation regions at mammalian promoters and enhancers
LJ Core, AL Martins, CG Danko, CT Waters, A Siepel, JT Lis
Nature genetics 46 (12), 1311-1320, 2014
4822014
A rapid, extensive, and transient transcriptional response to estrogen signaling in breast cancer cells
N Hah, CG Danko, L Core, JJ Waterfall, A Siepel, JT Lis, WL Kraus
Cell 145 (4), 622-634, 2011
4632011
Forces shaping the fastest evolving regions in the human genome
KS Pollard, SR Salama, B King, AD Kern, T Dreszer, S Katzman, A Siepel, ...
PLoS genetics 2 (10), e168, 2006
4592006
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Articles 1–20