Neil Clarke
Neil Clarke
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Integration of external signaling pathways with the core transcriptional network in embryonic stem cells
X Chen, H Xu, P Yuan, F Fang, M Huss, VB Vega, E Wong, YL Orlov, ...
Cell 133 (6), 1106-1117, 2008
Resolution of cell fate decisions revealed by single-cell gene expression analysis from zygote to blastocyst
G Guo, M Huss, GQ Tong, C Wang, LL Sun, ND Clarke, P Robson
Developmental cell 18 (4), 675-685, 2010
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
A genome-wide RNAi screen reveals determinants of human embryonic stem cell identity
NY Chia, YS Chan, B Feng, X Lu, YL Orlov, D Moreau, P Kumar, L Yang, ...
Nature 468 (7321), 316-320, 2010
A library of yeast transcription factor motifs reveals a widespread function for Rsc3 in targeting nucleosome exclusion at promoters
G Badis, ET Chan, H van Bakel, L Pena-Castillo, D Tillo, K Tsui, ...
Molecular cell 32 (6), 878-887, 2008
Towards a rigorous assessment of systems biology models: the DREAM3 challenges
RJ Prill, D Marbach, J Saez-Rodriguez, PK Sorger, LG Alexopoulos, ...
PloS one 5 (2), e9202, 2010
DNA binding and nucleotide flipping by the human DNA repair protein AGT
DS Daniels, TT Woo, KX Luu, DM Noll, ND Clarke, AE Pegg, JA Tainer
Nature structural & molecular biology 11 (8), 714-720, 2004
Identification of the uvrA gene product
A Sancar, RP Wharton, S Seltzer, BM Kacinski, ND Clarke, WD Rupp
Journal of molecular biology 148 (1), 45-62, 1981
Zinc fingers in Caenorhabditis elegans: finding families and probing pathways
ND Clarke, JM Berg
Science 282 (5396), 2018-2022, 1998
A tetrahedral zinc (II)-binding site introduced into a designed protein
L Regan, ND Clarke
Biochemistry 29 (49), 10878-10883, 1990
Evaluating methods for isolating total RNA and predicting the success of sequencing phylogenetically diverse plant transcriptomes
MTJ Johnson, EJ Carpenter, Z Tian, R Bruskiewich, JN Burris, ...
PloS one 7 (11), e50226, 2012
Integrative model of genomic factors for determining binding site selection by estrogen receptor‐α
R Joseph, YL Orlov, M Huss, W Sun, S Li Kong, L Ukil, Y Fu Pan, G Li, ...
Molecular systems biology 6 (1), 456, 2010
Identification of cis elements directing termination of yeast nonpolyadenylated snoRNA transcripts
KL Carroll, DA Pradhan, JA Granek, ND Clarke, JL Corden
Molecular and cellular biology 24 (14), 6241-6252, 2004
Structural studies of the engrailed homeodomain
ND Clarke, CR Kissinger, J Desjarlais, GL Gilliland, CO Pabo
Protein Science 3 (10), 1779-1787, 1994
Whole-genome comparison of Leu3 binding in vitro and in vivo reveals the importance of nucleosome occupancy in target site selection
X Liu, CK Lee, JA Granek, ND Clarke, JD Lieb
Genome research 16 (12), 1517-1528, 2006
Assessment of CASP7 structure predictions for template free targets
R Jauch, HC Yeo, PR Kolatkar, ND Clarke
Proteins: Structure, Function, and Bioinformatics 69 (S8), 57-67, 2007
Covariation of residues in the homeodomain sequence family
ND Clarke
Protein Science 4 (11), 2269-2278, 1995
Automated server predictions in CASP7
JND Battey, J Kopp, L Bordoli, RJ Read, ND Clarke, T Schwede
Proteins: Structure, Function, and Bioinformatics 69 (S8), 68-82, 2007
Novel metal-binding proteins by design
M Klemba, KH Gardner, S Marino, ND Clarke, L Regan
Nature structural biology 2 (5), 368-373, 1995
Explicit equilibrium modeling of transcription-factor binding and gene regulation
JA Granek, ND Clarke
Genome biology 6 (10), R87, 2005
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