Results 1 to 10 of about 15,227,895 (323)

Transcription factor is not just a transcription factor.

Trends in Plant Science, 2022
Plant transcription factors (TFs) play important roles in diverse biological processes, including immunity. A recent study by Zhang et al. reported that the rice TF APIP5 regulates immunity through its roles on transcription and mRNA turnover, advancing our conceptual understanding that plant TF may not only function as a TF.
Linhua Song, Weitao Li, Xuewei Chen
semanticscholar   +3 more sources

Transforming a transcription factor

eLife, 2018
A transcription factor that regulates skeleton formation in sea urchin embryos has evolved a new domain that is essential for this process.
Robert D Burke
doaj   +3 more sources

Dynamics of gene expression and the regulatory inference problem [PDF]

, 2007
From the response to external stimuli to cell division and death, the dynamics of living cells is based on the expression of specific genes at specific times. The decision when to express a gene is implemented by the binding and unbinding of transcription factor molecules to regulatory DNA.
, Alon U., Chen W. England J. Shakhnovich E., Hertz J., Honerkamp J., J. Berg, Lèbre S., Michaelis L., Spellman P. T., Stokic D. Hanel R. Thurner S., van Kampen N.   +10 more
arxiv   +3 more sources

Coding limits on the number of transcription factors [PDF]

BMC Genomics 2006, 7:239, 2010
Transcription factor proteins bind specific DNA sequences to control the expression of genes. They contain DNA binding domains which belong to several super-families, each with a specific mechanism of DNA binding. The total number of transcription factors encoded in a genome increases with the number of genes in the genome. Here, we examined the number
Alon, Uri, Itzkovitz, Shalev, Tlusty, Tsvi   +2 more
arxiv   +6 more sources

Non-equilibrium dynamics of gene expression and the Jarzynski equality [PDF]

, 2007
In order to express specific genes at the right time, the transcription of genes is regulated by the presence and absence of transcription factor molecules. With transcription factor concentrations undergoing constant changes, gene transcription takes place out of equilibrium.
E. Davidson, Johannes Berg, L. Michaelis, N. van Kampen, P. T. Spellman, U. Alon   +5 more
arxiv   +3 more sources

Genome-wide discovery of modulators of transcriptional interactions in human B lymphocytes [PDF]

RECOMB'06 Proceedings, LNCS 3909, Springer, 2006, 2005
Transcriptional interactions in a cell are modulated by a variety of mechanisms that prevent their representation as pure pairwise interactions between a transcription factor and its target(s). These include, among others, transcription factor activation by phosphorylation and acetylation, formation of active complexes with one or more co-factors, and ...
Banerjee, Nilanjana, Califano, Andrea, Margolin, Adam, Nemenman, Ilya, Wang, Kai   +4 more
arxiv   +3 more sources

TF Profiler: a transcription factor inference method that broadly measures transcription factor activity and identifies mechanistically distinct networks [PDF]

Genome Biology
TF Profiler is a method of inferring transcription factor (TF) regulatory activity, i.e., when a TF is present and actively participating in the regulation of transcription, directly from nascent sequencing assays such as PRO-seq and GRO-seq.
Taylor Jones, Rutendo F. Sigauke, Lynn Sanford, Dylan J. Taatjes, Mary A. Allen, Robin D. Dowell   +5 more
doaj   +2 more sources

Transcription factor condensates and signaling driven transcription

Nucleus, 2023
Transcription Factor (TF) condensates are a heterogenous mix of RNA, DNA, and multiple co-factor proteins capable of modulating the transcriptional response of the cell.
Rajat Mann, Dimple Notani
doaj   +1 more source

The Transcription Factor Encyclopedia [PDF]

Genome Biology, 2012
AbstractHere we present the Transcription Factor Encyclopedia (TFe), a new web-based compendium of mini review articles on transcription factors (TFs) that is founded on the principles of open access and collaboration. Our consortium of over 100 researchers has collectively contributed over 130 mini review articles on pertinent human, mouse and rat TFs.
Yusuf, Dimas, Butland, Stefanie L., Swanson, Magdalena I., Bolotin, Eugene, Ticoll, Amy, Cheung, Warren A., Zhang, Xiao Yu Cindy, Dickman, Christopher T. D., Fulton, Debra L., Lim, Jonathan S., Schnabl, Jake M., Ramos, Oscar H. P., Vasseur-Cognet, Mireille, de Leeuw, Charles N., Simpson, Elizabeth M., Ryffel, Gerhart U., Lam, Eric W.-F., Kist, Ralf, Wilson, Miranda S. C., Marco-Ferreres, Raquel, Brosens, Jan J., Beccari, Leonardo L., Bovolenta, Paola, Benayoun, Bérénice A., Monteiro, Lara J, Schwenen, Helma D C, Grontved, Lars, Wederell, Elizabeth, Mandrup, Susanne, Veitia, Reiner A, Chakravarthy, Harini, Hoodless, Pamela A., Mancarelli, M Michela, Torbett, Bruce E, Banham, Alison H, Reddy, Sekhar P, Cullum, Rebecca L, Liedtke, Michaela, Tschan, Mario P, Vaz, Michelle, Rizzino, Angie, Zannini, Mariastella, Frietze, Seth, Farnham, Peggy J, Eijkelenboom, Astrid, Brown, Philip J, Laperrière, David, Leprince, Dominique, de Cristofaro, Tiziana, Prince, Kelly L, Putker, Marrit, del Peso, Luis, Camenisch, Gieri, Wenger, Roland H, Mikula, Michal, Rozendaal, Marieke, Mader, Sylvie, Ostrowski, Jerzy, Rhodes, Simon J, Van Rechem, Capucine, Boulay, Gaylor, Olechnowicz, Sam W Z, Breslin, Mary B, Lan, Michael S, Nanan, Kyster K, Wegner, Michael, Hou, Juan, Mullen, Rachel D, Colvin, Stephanie C, Noy, Peter John, Webb, Carol F, Witek, Matthew E, Ferrell, Scott, Daniel, Juliet M, Park, Jason, Waldman, Scott A, Peet, Daniel J, Taggart, Michael, Jayaraman, Padma-Sheela, Karrich, Julien J, Blom, Bianca, Vesuna, Farhad, O'Geen, Henriette, Sun, Yunfu, Gronostajski, Richard M, Woodcroft, Mark W, Hough, Margaret R, Chen, Edwin, Europe-Finner, G Nicholas, Karolczak-Bayatti, Magdalena, Bailey, Jarrod, Hankinson, Oliver, Raman, Venu, LeBrun, David P, Biswal, Shyam, Harvey, Christopher J, DeBruyne, Jason P, Hogenesch, John B, Hevner, Robert F, Héligon, Christophe, Luo, Xin M, Blank, Marissa Cathleen, Millen, Kathleen Joyce, Sharlin, David S, Forrest, Douglas, Dahlman-Wright, Karin, Zhao, Chunyan, Mishima, Yuriko, Sinha, Satrajit, Chakrabarti, Rumela, Portales-Casamar, Elodie, Sladek, Frances M, Bradley, Philip H, Wasserman, Wyeth W, Cindy Zhang, Xiao   +114 more
openaire   +16 more sources

Dynamics of transcription factor binding site evolution [PDF]

, 2015
Evolution of gene regulation is crucial for our understanding of the phenotypic differences between species, populations and individuals. Sequence-specific binding of transcription factors to the regulatory regions on the DNA is a key regulatory ...
Barton, Nicholas H., Paixão, Tiago, Tkačik, Gašper, Tuğrul, Murat   +3 more
core   +13 more sources