Neil D. Clarke
Affiliations: | Johns Hopkins University, Baltimore, MD |
Area:
Molecular Biology, Computer ScienceGoogle:
"Neil Clarke"Children
Sign in to add trainee| Arhonda Gogos | grad student | 2000 | Johns Hopkins |
| Joshua A. Granek | grad student | 2006 | Johns Hopkins |
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Publications
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| Aow JS, Xue X, Run JQ, et al. (2013) Differential binding of the related transcription factors Pho4 and Cbf1 can tune the sensitivity of promoters to different levels of an induction signal. Nucleic Acids Research. 41: 4877-87 |
| Orlov Y, Xu H, Afonnikov D, et al. (2012) Computer and statistical analysis of transcription factor binding and chromatin modifications by ChIP-seq data in embryonic stem cell. Journal of Integrative Bioinformatics. 9: 211 |
| Song L, Zhang Z, Grasfeder LL, et al. (2011) Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity. Genome Research. 21: 1757-67 |
| Joseph R, Orlov YL, Huss M, et al. (2010) Integrative model of genomic factors for determining binding site selection by estrogen receptor-α. Molecular Systems Biology. 6: 456 |
| Chia NY, Chan YS, Feng B, et al. (2010) A genome-wide RNAi screen reveals determinants of human embryonic stem cell identity. Nature. 468: 316-20 |
| Goh WS, Orlov Y, Li J, et al. (2010) Blurring of high-resolution data shows that the effect of intrinsic nucleosome occupancy on transcription factor binding is mostly regional, not local. Plos Computational Biology. 6: e1000649 |
| Vega VB, Woo XY, Hamidi H, et al. (2009) Inferring direct regulatory targets of a transcription factor in the DREAM2 challenge. Annals of the New York Academy of Sciences. 1158: 215-23 |
| Yeo ZX, Yeo HC, Yeo JK, et al. (2009) Inferring transcription factor targets from gene expression changes and predicted promoter occupancy. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 16: 357-68 |
| Liu X, Clarke ND. (2009) Transcription factor binding probabilities in orthologous promoters: An alignment-free approach to the inference of functional regulatory targets Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 5817: 229-240 |
| Badis G, Chan ET, van Bakel H, et al. (2008) A library of yeast transcription factor motifs reveals a widespread function for Rsc3 in targeting nucleosome exclusion at promoters. Molecular Cell. 32: 878-87 |