Peggy J. Farnham
Peggy J. Farnham
WIlliam M Keck Professor of Biochemistry, University of Southern California
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An integrated encyclopedia of DNA elements in the human genome
BE Bernstein, E Birney, I Dunham, ED Green, C Gunter, M Snyder
Nature 489 (7414), 57-74, 2012
Integrative analysis of 111 reference human epigenomes
A Kundaje, W Meuleman, J Ernst, M Bilenky, A Yen, A Heravi-Moussavi, ...
Nature 518 (7539), 317-330, 2015
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
Management Group Liefer Laura A. 51 Wetterstrand Kris A. 51 Good Peter J. 51 ...
nature 447 (7146), 799-816, 2007
Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs
JL Rinn, M Kertesz, JK Wang, SL Squazzo, X Xu, SA Brugmann, ...
cell 129 (7), 1311-1323, 2007
The ENCODE (ENCyclopedia of DNA elements) project
EA Feingold, PJ Good, MS Guyer, S Kamholz, L Liefer, K Wetterstrand, ...
Science 306 (5696), 636-640, 2004
ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia
SG Landt, GK Marinov, A Kundaje, P Kheradpour, F Pauli, S Batzoglou, ...
Genome research 22 (9), 1813-1831, 2012
The NIH roadmap epigenomics mapping consortium
BE Bernstein, JA Stamatoyannopoulos, JF Costello, B Ren, ...
Nature biotechnology 28 (10), 1045-1048, 2010
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
Expanded encyclopaedias of DNA elements in the human and mouse genomes
JE Moore, MJ Purcaro, HE Pratt, CB Epstein, N Shoresh, J Adrian, T Kawli, ...
Nature 583 (7818), 699-710, 2020
Expression cloning of a cDNA encoding a retinoblastoma-binding protein with E2F-like properties
WG Kaelin Jr, W Krek, WR Sellers, JA DeCaprio, F Ajchenbaum, ...
Cell 70 (2), 351-364, 1992
T-bet regulates the terminal maturation and homeostasis of NK and Vα14i NKT cells
MJ Townsend, AS Weinmann, JL Matsuda, R Salomon, PJ Farnham, ...
Immunity 20 (4), 477-494, 2004
Defining functional DNA elements in the human genome
M Kellis, B Wold, MP Snyder, BE Bernstein, A Kundaje, GK Marinov, ...
Proceedings of the National Academy of Sciences 111 (17), 6131-6138, 2014
Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications
RA Harris, T Wang, C Coarfa, RP Nagarajan, C Hong, SL Downey, ...
Nature biotechnology 28 (10), 1097-1105, 2010
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), 2011
Insights from genomic profiling of transcription factors
PJ Farnham
Nature Reviews Genetics 10 (9), 605-616, 2009
Silencing of human polycomb target genes is associated with methylation of histone H3 Lys 27
A Kirmizis, SM Bartley, A Kuzmichev, R Margueron, D Reinberg, R Green, ...
Genes & development 18 (13), 1592-1605, 2004
Isolating human transcription factor targets by coupling chromatin immunoprecipitation and CpG island microarray analysis
AS Weinmann, PS Yan, MJ Oberley, THM Huang, PJ Farnham
Genes & development 16 (2), 235-244, 2002
Composition and histone substrates of polycomb repressive group complexes change during cellular differentiation
A Kuzmichev, R Margueron, A Vaquero, TS Preissner, M Scher, A Kirmizis, ...
Proceedings of the National Academy of Sciences 102 (6), 1859-1864, 2005
Use of chromatin immunoprecipitation to clone novel E2F target promoters
AS Weinmann, SM Bartley, T Zhang, MQ Zhang, PJ Farnham
Molecular and cellular biology, 2001
Identification of unknown target genes of human transcription factors using chromatin immunoprecipitation
AS Weinmann, PJ Farnham
Methods 26 (1), 37-47, 2002
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