Results 21 to 30 of about 15,248,084 (403)

Global reference mapping of human transcription factor footprints

Nature, 2020
Combinatorial binding of transcription factors to regulatory DNA underpins gene regulation in all organisms. Genetic variation in regulatory regions has been connected with diseases and diverse phenotypic traits1, but it remains challenging to ...
J. Vierstra, John T Lazar, R. Sandstrom, J. Halow, Kristen Lee, Daniel Bates, Morgan Diegel, D. Dunn, Fidencio J. Neri, E. Haugen, Eric Rynes, Alex P. Reynolds, Jemma Nelson, Audra K. Johnson, M. Frerker, Michael Buckley, R. Kaul, W. Meuleman, J. Stamatoyannopoulos   +18 more
semanticscholar   +1 more source

JASPAR 2020: update of the open-access database of transcription factor binding profiles

Nucleic Acids Res., 2019
JASPAR (http://jaspar.genereg.net) is an open-access database of curated, non-redundant transcription factor (TF)-binding profiles stored as position frequency matrices (PFMs) for TFs across multiple species in six taxonomic groups.
O. Fornes, J. Castro-Mondragón, Aziz Khan, Robin van der Lee, Xi Zhang, Phillip A. Richmond, B. Modi, S. Correard, Marius Gheorghe, Damir Baranasic, Walter Santana-Garcia, Ge Tan, Jeanne Chèneby, B. Ballester, F. Parcy, A. Sandelin, B. Lenhard, W. Wasserman, Anthony Mathelier   +18 more
semanticscholar   +1 more source

The databases of transcription factors [PDF]

Hereditas (Beijing), 2011
The control of gene transcription is a critical level of gene expression regulation. The interactions between transcription factors (TF) and their DNA binding sites (TFBS) play a key role at this level. In order to decipher the molecular mechanism of the interactions of TFs with TFBSs and construct transcription regulatory network, it is necessary to ...
Jin-Ke Wang, Hong-Fei Chen
openaire   +3 more sources

Adaptive evolution of transcription factor binding sites [PDF]

, 2004
The regulation of a gene depends on the binding of transcription factors to specific sites located in the regulatory region of the gene. The generation of these binding sites and of cooperativity between them are essential building blocks in the ...
Berg, Johannes, Lässig, Michael, Willmann, Stana   +2 more
core   +4 more sources

Protein Evolution in Yeast Transcription Factor Subnetworks [PDF]

, 2010
When averaged over the full yeast protein–protein interaction and transcriptional regulatory networks, protein hubs with many interaction partners or regulators tend to evolve significantly more slowly due to increased negative selection. However, genome-
Franzosa, Eric A., Wang, Yong, Xia, Yu, Zhang, Xiang-Sun   +3 more
core   +3 more sources

Targeted Degradation of Transcription Factors by TRAFTACs: Transcription Factor Targeting Chimeras

bioRxiv, 2020
Many diseases, including cancer, stem from aberrant activation and overexpression of oncoproteins that are associated with multiple signaling pathways. Although proteins with catalytic activity are able to be successfully drugged, the majority of other ...
Kusal T. G. Samarasinghe, S. Jaime-Figueroa, Katherine Dai, Zhenyi Hu, C. Crews   +4 more
semanticscholar   +1 more source

Using temporal correlation in factor analysis for reconstructing transcription factor activities [PDF]

, 2008
Two-level gene regulatory networks consist of the transcription factors (TFs) in the top level and their regulated genes in the second level. The expression profiles of the regulated genes are the observed high-throughput data given by experiments such ...
Pournara, Iosifina, Wernisch, Lorenz
core   +5 more sources

A preliminary computational outputs versus experimental results: Application of sTRAP, a biophysical tool for the analysis of SNPs of transcription factor‐binding sites

Molecular Genetics & Genomic Medicine, 2020
Background In the human genome, the transcription factors (TFs) and transcription factor‐binding sites (TFBSs) network has a great regulatory function in the biological pathways.
Shirin Moradifard, Reza Saghiri, Parastoo Ehsani, Fatemeh Mirkhani, Mina Ebrahimi‐Rad   +4 more
doaj   +1 more source

Predicting Combinatorial Binding of Transcription Factors to Regulatory Elements in the Human Genome by Association Rule Mining [PDF]

, 2007
Cis-acting transcriptional regulatory elements in mammalian genomes typically contain specific combinations of binding sites for various transcription factors. Although some cisregulatory elements have been well studied, the combinations of transcription
Iyer, Vishwanath R., Miranker, Daniel P., Morgan, Xochitl C., Ni, Sshulin   +3 more
core   +2 more sources

Sequence Dependence of Transcription Factor-Mediated DNA Looping [PDF]

, 2012
DNA is subject to large deformations in a wide range of biological processes. Two key examples illustrate how such deformations influence the readout of the genetic information: the sequestering of eukaryotic genes by nucleosomes, and DNA looping in ...
Barry, Bellomy, Bellomy, Brenowitz, Butler, Chen, Chen, Cloutier, Cloutier, Drew, Du, Echols, Edelman, Finzi, Frank, Garcia, Geggier, Han, Hirsh, Hogan, Hsieh, Jacobson, Krämer, Lewis, Lowary, Luger, Luijsterburg, Martin Lindén, Matthews, Mehta, Milstein, Morgan, Müller, Newman, Normanno, Oehler, Olson, Peters, Plischke, Ptashne, Rippe, Rob Phillips, Rutkauskas, Saiz, Schafer, Schleif, Segall, Shimada, Stephanie Johnson, Swigon, Tolhuis, Towles, Vanzi, Villa, Watson, Whitson, Whitson, Widom, Wong, Xu, Yin, Zhan, Zhang   +62 more
core   +3 more sources