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The Transcription Factor Encyclopedia

Dimas Yusuf1, Stefanie L Butland1, Magdalena I Swanson2, Eugene Bolotin3, Amy Ticoll4, Warren A Cheung5, Xiao Yu Cindy Zhang1, Christopher TD Dickman6, Debra L Fulton7, Jonathan S Lim1, Jake M Schnabl8, Oscar HP Ramos9, Mireille Vasseur-Cognet10, Charles N de Leeuw1, Elizabeth M Simpson1, Gerhart U Ryffel11, Eric W-F Lam12, Ralf Kist13, Miranda SC Wilson12, Raquel Marco-Ferreres14, Jan J Brosens15, Leonardo L Beccari16, Paola Bovolenta14, Bérénice A Benayoun17, Lara J Monteiro12, Helma DC Schwenen12, Lars Grontved18, Elizabeth Wederell19, Susanne Mandrup18, Reiner A Veitia20, Harini Chakravarthy21, Pamela A Hoodless19, M Michela Mancarelli22, Bruce E Torbett23, Alison H Banham24, Sekhar P Reddy25, Rebecca L Cullum19, Michaela Liedtke26, Mario P Tschan27, Michelle Vaz28, Angie Rizzino29, Mariastella Zannini30, Seth Frietze31, Peggy J Farnham31, Astrid Eijkelenboom32, Philip J Brown33, David Laperrière34, Dominique Leprince35, Tiziana de Cristofaro30, Kelly L Prince36, Marrit Putker37, Luis del Peso38, Gieri Camenisch39, Roland H Wenger39, Michal Mikula40, Marieke Rozendaal41, Sylvie Mader42, Jerzy Ostrowski40, Simon J Rhodes43, Capucine Van Rechem44, Gaylor Boulay35, Sam WZ Olechnowicz45, Mary B Breslin46, Michael S Lan47, Kyster K Nanan48, Michael Wegner49, Juan Hou19, Rachel D Mullen50, Stephanie C Colvin36, Peter John Noy51, Carol F Webb52, Matthew E Witek53, Scott Ferrell54, Juliet M Daniel55, Jason Park56, Scott A Waldman57, Daniel J Peet58, Michael Taggart59, Padma-Sheela Jayaraman60, Julien J Karrich61, Bianca Blom61, Farhad Vesuna62, Henriette O'Geen63, Yunfu Sun64, Richard M Gronostajski65, Mark W Woodcroft66, Margaret R Hough67, Edwin Chen68, G Nicholas Europe-Finner59, Magdalena Karolczak-Bayatti69, Jarrod Bailey70, Oliver Hankinson71, Venu Raman72, David P LeBrun48, Shyam Biswal73, Christopher J Harvey73, Jason P DeBruyne74, John B Hogenesch75, Robert F Hevner76, Christophe Héligon77, Xin M Luo78, Marissa Cathleen Blank79, Kathleen Joyce Millen80, David S Sharlin81, Douglas Forrest81, Karin Dahlman-Wright82, Chunyan Zhao82, Yuriko Mishima80, Satrajit Sinha83, Rumela Chakrabarti83, Elodie Portales-Casamar1, Frances M Sladek8, Philip H Bradley4 and Wyeth W Wasserman1*

Author affiliations

1 Department of Medical Genetics, Faculty of Medicine, Centre for Molecular Medicine and Therapeutics, Child and Family Research Institute, University of British Columbia, 950 West 28th Avenue, Vancouver, British Columbia V5Z 4H4, Canada

2 Evaluation and Research Services, Fraser Health Authority, 300 - 10334 152A Street, Surrey, British Columbia V3R 7P8, Canada

3 Children's Hospital Oakland Research Institute, 5700 Martin Luther King Junior Way, Oakland, CA 94609-1809, USA

4 Computational Biology Program, Public Health Sciences Division, Fred Hutchinson Cancer Research Center, 1100 Fairview Avenue North, Seattle, WA 98109, USA

5 Department of Bioinformatics, Centre for Molecular Medicine and Therapeutics, Child and Family Research Institute, University of British Columbia, 950 West 28th Avenue, Vancouver, British Columbia V5Z 4H4, Canada

6 Department of Biology, University of Western Ontario, 1151 Richmond Street, London, Ontario N6A5B7, Canada

7 Genetics Program, Centre for Molecular Medicine and Therapeutics, Child and Family Research Institute, University of British Columbia, 950 West 28th Avenue, Vancouver, British Columbia V5Z 4H4, Canada

8 Cell Biology and Neuroscience, Institute of Integrated Genome Biology, University of California at Riverside, 2115 Biological Sciences Building, Riverside, CA 92521, USA

9 SIMOPRO, Laboratory of Life Sciences (Laboratoire de Sciences du Vivant), CEA (Commissariat à l'Énergie Atomique), Gif-sur-Yvette, Saclay, Île-de-France 91191, France

10 Department Endocrinology, Metabolism and Cancer, INSERM (Unité 1016), Institut Cochin, 24 Rue du Faubourg Saint Jacques, Paris, Île-de-France 75014, France

11 Institut für Zellbiologie, Universitätsklinikum Essen, Universität Duisburg-Essen, Hufelandstrasse 55, Essen, Nordrhein-Westfalen 45122, Germany

12 Department of Surgery and Cancer, Division of Cancer, Imperial College London, Du Cane Road, London, London W12 0NN, UK

13 Centre for Oral Health Research, School of Dental Sciences, Newcastle University, Medical School, Framlington Place, Newcastle upon Tyne, Tyne and Wear NE2 4BW, UK

14 Department of Development and Differentiation, Centro de Biologia Molecular Severo Ochoa (CBMSO), Consejo Superior de Investigaciones Científicas (CSIC) and CIBER de Enfermedades Raras (CIBERER), Nicolas Cabrera 1, Cantoblanco, Madrid, Madrid 28049, Spain

15 Division of Reproductive Health, Warwick Medical School, University of Warwick, Clifford Bridge Road, Coventry, West Midlands CV2 2DX, UK

16 Neurobiologia Molecular Celular y del desarrollo, Centro de Biologia Molecular Severo Ochoa (CBMSO), Centro de Biologia Molecular Severo Ochoa and CIBER de Enfermedades Raras (CIBERER), Nicolas Cabrera 1, Cantoblanco, Madrid, Madrid 28049, Spain

17 Department of Molecular and Cellular Pathology, Institut Jacques Monod, Université Paris Diderot (Paris 7), 15 rue Hélène Brion, Paris, Île-de-France 75013, France

18 Department of Biochemistry and Molecular Biology, University of Southern Denmark, Campusvej 55, Odense, Region Syddanmark 5230, Denmark

19 Terry Fox Laboratory, BC Cancer Agency, Provincial Health Services Authority, 675 West 10th Avenue, Vancouver, British Columbia V5Z 1L3, Canada

20 Molecular and Cellular Pathology Program, Institut Jacques Monod, Université Paris Diderot (Paris 7), 15 rue Hélène Brion, Paris, Île-de-France 75013, France

21 Eppley Institute for Research in Cancer and Allied Diseases, University of Nebraska Medical Center, University of Nebraska, 985950 Nebraska Medical Center, Omaha, NE 68198-5950, USA

22 Department of Molecular Experimental Medicine, Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA

23 Departments of Molecular and Experimental Medicine and Immunology and Microbial Sciences (MEM 131), Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA

24 Nuffield Department of Clinical Laboratory Sciences, John Radcliffe Hospital, Oxford NIHR Biomedical Research Centre, University of Oxford, Level 4 Academic Block, John Radcliffe Hospital, Headington, Oxford, Oxfordshire OX3 9DU, UK

25 Department of Pediatrics, College of Medicine, University of Illinois at Chicago, 840 South Wood Street (M/C 856), Chicago, IL 60612, USA

26 Department of Medicine/Hematology, Stanford University School of Medicine, Stanford University, 875 Blake Wilbur Drive, Stanford, CA 94305, USA

27 Department of Medicine, University of Bern, Hochschulstrasse 4, Bern, Bern-Mittelland CH-3012, Switzerland

28 Department of Oncology, Sidney Kimmel Comprehensive Cancer Center at Johns Hopkins, Johns Hopkins University School of Medicine, 1650 Orleans Street Room 530, Baltimore, MD 21237, USA

29 Eppley Institute for Research in Cancer and Allied Diseases, University of Nebraska Medical Center, University of Nebraska, 986805 Nebraska Medical Center, Omaha, NE 68198-6805, USA

30 Institute of Experimental Endocrinology and Oncology (IEOS), CNR - National Research Council, via Pansini 5, Naples, Naples 80131, Italy

31 Department of Biochemistry and Molecular Biology, Norris Comprehensive Cancer Center, University of Southern California, 1450 Biggy Street, Los Angeles, CA 90089, USA

32 Department of Molecular Cancer Research, University Medical Center Utrecht, Utrecht University, Universiteitsweg 100, Utrecht, Utrecht 3584 CG, The Netherlands

33 Nuffield Department of Clinical Laboratory Sciences, Medical Sciences Division, University of Oxford, Level 4 Academic Block, John Radcliffe Hospital, Headington, Oxford, Oxfordshire OX3 9DU, UK

34 Molecular Targeting in Breast Cancer research unit, Institute for Research in Immunology and Cancer, Université de Montréal, 2950 Chemin de Polytechnique, Montréal, Québec H3T 1J4, Canada

35 Institut de Biologie de Lille, Institut Pasteur de Lille, Centre National de la Recherche Scientifique (CNRS) UMR 8161, 1 Rue du Pr Calmette, Lille, Nord-Pas-de-Calais 59021, France

36 Department of Cellular and Integrative Physiology, Indiana University School of Medicine, Indiana University-Purdue University Indianapolis, 635 Barnhill Drive, Indianapolis, IN 46202, USA

37 Department of Physiological Chemistry, University Medical Centre Utrecht, Utrecht University, Universiteitsweg 100, Utrecht, Utrecht 3584 CG, The Netherlands

38 Department of Biochemistry, School of Medicine, Universidad Autonoma de Madrid, Arzobispo Morcillo, 4, Madrid, Madrid 28029, Spain

39 Institute of Physiology, Zurich Center for Integrative Human Physiology, University of Zurich, Winterthurerstrasse 190, Zurich, Zurich CH-8057, Switzerland

40 Department of Oncological Genetics, Medical Center of Postgraduate Education, Maria Sklodowska-Curie Memorial Cancer Center and Institute of Oncology, Roentgena 5, Warsaw, Mazovia 02-781, Poland

41 Department of Biochemistry, Institute for Research in Immunology and Cancer, Université de Montréal, PO Box 6128, Station Centre-Ville, Montréal, Québec H3C 3J7, Canada

42 Department of Biochemistry, Institute for Research in Immunology and Cancer, Université de Montréal, 2950 Chemin de Polytechnique, Montréal, Québec H3T 1J4, Canada

43 Department of Biology, School of Science, Indiana University-Purdue University Indianapolis, LD222, 402 North Blackford Street, Indianapolis, IN 46202, USA

44 Department of Medicine, Cancer Center, Massachusetts General Hospital, Harvard Medical School, 13th Street, Building 149, Room 7.103, Charlestown, MA 02129, USA

45 Department of Biochemistry, School of Molecular and Biomedical Science, University of Adelaide, North Terrace, Adelaide, South Australia 5005, Australia

46 Department of Pediatrics and Biochemistry and Molecular Biology, Research Institute for Children, Children's Hospital at New Orleans, Louisiana State University Health Sciences Center, 200 Henry Clay Avenue, New Orleans, LA 70118, USA

47 Departments of Pediatrics and Genetics, Research Institute for Children, Children's Hospital at New Orleans, Louisiana State University Health Sciences Center, 200 Henry Clay Avenue, New Orleans, LA 70118, USA

48 Department of Pathology and Molecular Medicine, Queen's Cancer Research Institute, Queen's University, 18 Stuart Street, Botterell Hall, Kingston, Ontario K7L 3N6, Canada

49 School of Medicine, Institut fuer Biochemie, Emil-Fischer-Zentrum, Friedrich-Alexander Universitaet Erlangen-Nuernberg, Fahrstrasse 17, Erlangen, Bavaria 91096, Germany

50 Department of Molecular Biology and Biochemistry, Indiana University School of Medicine, Indiana University-Purdue University Indianapolis, 635 Barnhill Drive, Indianapolis, IN 46202, USA

51 Department of Immunity and Infection, School of Medical and Dental Sciences, University of Birmingham, Wolfson Drive, Edgbaston, Birmingham, West Midlands B15 2TT, UK

52 Immunobiology and Cancer Program, Oklahoma Medical Research Foundation, 825 NE 13th Street, Oklahoma City, Oklahoma 73104, USA

53 Radiation Oncology, Department of Pharmacology and Experimental Therapeutics, Jefferson University Hospital, 1020 Locust Street, Philadelphia, PA 19107, USA

54 Department of Microbiology and Immunology, University of Oklahoma Health Sciences Center, University of Oklahoma, 100 North Lindsay Avenue, Oklahoma City, OK 73104, USA

55 Department of Biology, McMaster University, LSB-331, 1280 Main Street West, Hamilton, Ontario L8S4K1, Canada

56 School of Medicine, Johns Hopkins University, 720 Rutland Avenue, Baltimore, MD 21205, USA

57 Department of Pharmacology and Experimental Therapeutics, Jefferson Medical College, Thomas Jefferson University, 132 South 10th Street, 1170 Main, Philadelphia, PA 19107, USA

58 Discipline of Biochemistry, School of Molecular and Biomedical Science, University of Adelaide, North Terrace, Adelaide, South Australia 5005, Australia

59 Institute of Cellular Medicine, Faculty of Medicine, Newcastle University, Medical School, Framlington Place, Newcastle upon Tyne, Tyne and Wear NE1 7RU, UK

60 Department of Immunity and Immunology, School of Medical and Dental Sciences, University of Birmingham, Wolfson Drive, Edgbaston, Birmingham, West Midlands B15 2TT, UK

61 Department of Cell Biology and Histology, Center for Immunology Amsterdam, Academic Medical Center, University of Amsterdam, Meibergdreef 15, Amsterdam, Noord Holland 1105 AZ, The Netherlands

62 Division of Cancer Imaging Research, Department of Radiology, School of Medicine, Johns Hopkins University, 720 Rutland Avenue, Baltimore, MD 21205, USA

63 Genome Center, University of California at Davis, 1 Shields Avenue, Davis, CA 95616, USA

64 University of California at San Diego, 9500 Gilman Drive, San Diego, CA 92093, USA

65 Department of Biochemistry and Developmental Genomics Group, Center of Excellence in Bioinformatics and Life Sciences, State University of New York at Buffalo, 701 Ellicott Street B3-303, Buffalo, New York 14203, USA

66 Department of Pathology and Molecular Medicine, Queen's Cancer Research Institute, Queen's University, 18 Stuart Street, Botterell Hall, Kingston, Ontario K7K 4G4, Canada

67 Department of Molecular and Cellular Biology, Department of Laboratory Medicine and Pathobiology, Sunnybrook Health Sciences Centre, University of Toronto, 2075 Bayview Avenue, Toronto, Ontario M4N 3M5, Canada

68 Department of Molecular and Cellular Biology, Sunnybrook Health Sciences Centre, University of Toronto, 2075 Bayview Avenue, Toronto, Ontario M4N 3M5, Canada

69 Institute of Cellular Medicine, Newcastle University, Medical School, Framlington Place, Newcastle upon Tyne, Tyne and Wear NE2 4HH, UK

70 Faculty of Medical Sciences, Institute of Cellular Medicine, Newcastle University, Medical School, Framlington Place, Newcastle upon Tyne, Tyne and Wear NE2 4AA, UK

71 Department of Pathology and Laboratory Medicine, David Geffen School of Medicine, University of California at Los Angeles, 10833 Le Conte Avenue, Los Angeles, CA 90095-1732, USA

72 Radiology and Oncology, School of Medicine, Johns Hopkins University, 720 Rutland Avenue, Baltimore, MD 21205, USA

73 Department of Environmental Health Sciences, Johns Hopkins Bloomberg School of Public Health, Johns Hopkins University, 615 North Wolfe Street, Baltimore, MD 21205, USA

74 Department of Pharmacology and Toxicology, Neuroscience Institute, Morehouse School of Medicine, 720 Westview Drive Southwest, Atlanta, GA 30310, USA

75 Department of Pharmacology, Perelman School of Medicine, University of Pennsylvania, 10-124 Translational Research Center, 3400 Civic Center Boulevard Building 421, Philadelphia, PA 19104-5158, USA

76 Department of Neurological Surgery, Seattle Children's Research Institute, University of Washington, 1900 Ninth Avenue, Seattle, WA 98101, USA

77 Faculty of Biology and Medicine, Center for Integrated Genomics, University of Lausanne, CH-1015 Lausanne, Lausanne, Vaud CH-1015, Switzerland

78 Department of Biomedical Sciences and Pathobiology, VA-MD Regional College of Veterinary Medicine, Virginia Polytechnic Institute and State University, Duck Pond Drive, Blacksburg, VA 24061, USA

79 Department of Molecular Genetics and Cell Biology, University of Illinois at Chicago, 920 East 58th Street, Chicago, IL 60637, USA

80 Center for Integrative Brain Research, Seattle Children's Research Institute, University of Washington, 1900 Ninth Avenue, Seattle, WA 98101, USA

81 Clinical Endocrinology Branch, National Institute of Diabetes, Digestive, and Kidney Disorders, National Institutes of Health, 10 Center Drive, Bethesda, MD 20892-1772, USA

82 Department of Biosciences and Nutrition, Novum, Karolinska Institutet, Hälsovägen 7-9, Huddinge, Stockholm SE-141 83, Sweden

83 Department of Biochemistry, University of Buffalo School of Medicine and Biomedical Sciences, State University of New York at Buffalo, 701 Ellicott Street, Buffalo, NY 14203, USA

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Citation and License

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

Published: 29 March 2012

Abstract

Here 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. Notable features of the TFe website include a high-quality PDF generator and web API for programmatic data retrieval. TFe aims to rapidly educate scientists about the TFs they encounter through the delivery of succinct summaries written and vetted by experts in the field. TFe is available at http://www.cisreg.ca/tfe webcite.