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The Transcription Factor Encyclopedia

Dimas Yusuf, Stefanie L Butland, Magdalena I Swanson, Eugene Bolotin, Amy Ticoll, Warren A Cheung, Xiao Yu Cindy Zhang, Christopher TD Dickman, Debra L Fulton, Jonathan S Lim, Jake M Schnabl, Oscar HP Ramos, Mireille Vasseur-Cognet, Charles N de Leeuw, Elizabeth M Simpson, Gerhart U Ryffel, Eric W-F Lam, Ralf Kist, Miranda SC Wilson, Raquel Marco-Ferreres, Jan J Brosens, Leonardo L Beccari, Paola Bovolenta, Bérénice A Benayoun, Lara J Monteiro, Helma DC Schwenen, Lars Grontved, Elizabeth Wederell, Susanne Mandrup, Reiner A Veitia, Harini Chakravarthy, Pamela A Hoodless, M Michela Mancarelli, Bruce E Torbett, Alison H Banham, Sekhar P Reddy, Rebecca L Cullum, Michaela Liedtke, Mario P Tschan, Michelle Vaz, Angie Rizzino, Mariastella Zannini, Seth Frietze, Peggy J Farnham, Astrid Eijkelenboom, Philip J Brown, David Laperrière, Dominique Leprince, Tiziana de Cristofaro, Kelly L Prince, Marrit Putker, Luis del Peso, Gieri Camenisch, Roland H Wenger, Michal Mikula, Marieke Rozendaal, Sylvie Mader, Jerzy Ostrowski, Simon J Rhodes, Capucine Van Rechem, Gaylor Boulay, Sam WZ Olechnowicz, Mary B Breslin, Michael S Lan, Kyster K Nanan, Michael Wegner, Juan Hou, Rachel D Mullen, Stephanie C Colvin, Peter John Noy, Carol F Webb, Matthew E Witek, Scott Ferrell, Juliet M Daniel, Jason Park, Scott A Waldman, Daniel J Peet, Michael Taggart, Padma-Sheela Jayaraman, Julien J Karrich, Bianca Blom, Farhad Vesuna, Henriette O'Geen, Yunfu Sun, Richard M Gronostajski, Mark W Woodcroft, Margaret R Hough, Edwin Chen, G Nicholas Europe-Finner, Magdalena Karolczak-Bayatti, Jarrod Bailey, Oliver Hankinson, Venu Raman, David P LeBrun, Shyam Biswal, Christopher J Harvey, Jason P DeBruyne, John B Hogenesch, Robert F Hevner, Christophe Héligon, Xin M Luo, Marissa Cathleen Blank, Kathleen Joyce Millen, David S Sharlin, Douglas Forrest, Karin Dahlman-Wright, Chunyan Zhao, Yuriko Mishima, Satrajit Sinha, Rumela Chakrabarti, Elodie Portales-Casamar, Frances M Sladek, Philip H Bradley and Wyeth W Wasserman*

Genome Biology 2012, 13:R24  doi:10.1186/gb-2012-13-3-r24

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Wikipedia or database?

Peter Uetz   (2012-09-25 16:38)  Virginia Commonwealth University

Just a spontaneous thought: I wonder whether this project could or should be split up into a Wikipedia part (with all its advantages and disadvantages, but probably more advantages) and a database part. Wikipedia could fulfil the encyclopedic goal with images and human-readable text, essentially like mini-reviews. Everything else could go into various databases such as Uniprot, Intact, GEO etc. in order to provide a searchable dataset with links to all kinds of additional sources (PDB, PubMed etc.).

Maybe more functionality is coming, but right now the search function seems to be quite limited (e.g. no search for tissue-specific transcription factors).

An overview article of all TFs would be nice too (similar to Vaquerizas et al. 2009, Nat Rev Genet 10: 253), especially if it were kept up-to-date. On the other hand, printed peer-reviewed mini-reviews are nice, but they are out of days after a few years and then need to be rewritten. Why not just keep your database up to date, or make it more widely available through Wikipedia?

Competing interests



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