TRANSFAC swMATH ID: 17201 Software Authors: E. Wingender, X. Chen, R. Hehl, H. Karas, I. Liebich, V. Matys, T. Meinhardt, M. Prüß, I. Reuter, F. Schacherer Description: TRANSFAC: an integrated system for gene expression regulation. TRANSFAC is a database on transcription factors, their genomic binding sites and DNA-binding profiles (http://transfac.gbf.de/TRANSFAC/ ). Its content has been enhanced, in particular by information about training sequences used for the construction of nucleotide matrices as well as by data on plant sites and factors. Moreover, TRANSFAC has been extended by two new modules: PathoDB provides data on pathologically relevant mutations in regulatory regions and transcription factor genes, whereas S/MARt DB compiles features of scaffold/matrix attached regions (S/MARs) and the proteins binding to them. Additionally, the databases TRANSPATH, about signal transduction, and CYTOMER, about organs and cell types, have been extended and are increasingly integrated with the TRANSFAC data sources. Homepage: http://nar.oxfordjournals.org/content/28/1/316.short Related Software: JASPAR; KEGG; BioProspector; WebLogo; Cytoscape; UniProt; LIBSVM; R; Biopython; ARACNE; PSI-BLAST; BLAST; MatInspector; MATCH; ClustalW; Pfam; IntAct; PhyME; PHYLIP; RegulonDB Cited in: 34 Publications all top 5 Cited by 88 Authors 2 Ukkonen, Esko 1 Abbass, Mostafa M. 1 Adão, Pedro 1 Aizawa, Masahiro 1 Amari, Shinji 1 Bader, Joel S. 1 Bahig, Hazem M. 1 Bajić, Ivan V. 1 Bannai, Hideo 1 Bar-Joseph, Ziv 1 Beißbarth, Tim 1 Benos, Panayiotis V. 1 Binder, Harald 1 Bíyíkoğlu, Türker 1 Bulyk, Martha L. 1 Cardelli, Luca 1 Carvalho, Alexandra M. 1 Chen, Gong 1 Church, George M. 1 Craig, Bruce A. 1 d’Alché-Buc, Florence 1 Ferkingstad, Egil 1 Fröhler, Sebastian 1 Golden, Aaron 1 Holden, Lars 1 Huang, Haiyan 1 Inouchi, Atsushi 1 Inoue, Hiroshi 1 Itakura, Mitsuo 1 Iwasawa, Yoshio 1 Jiao, Licheng 1 Johannes, Marc 1 Kasabov, Nikola K. 1 Keith, Jonathan M. 1 Kharabian, Ardashir 1 Kim, Jan T. 1 Kita, Kenji 1 Kuhara, Satoru 1 Lee, Mei-Ling Ting 1 Li, Huimin 1 Li, Wentian 1 Liu, L. Angela 1 Liu, Lifang 1 Mahdevar, Ghasem 1 Mahony, Shaun 1 Martinetz, Thomas 1 Maruyama, Osamu 1 Mateus, Paulo C. 1 May, Patrick J. C. 1 Michailidis, George C. 1 Miyano, Satoru 1 Mosig, Axel 1 Murugan, Rajamanickam 1 Nakano, Tatsuya 1 Nakata, Kotoko 1 Nikoloski, Zoran 1 Nowzari-Dalini, Abbas 1 Panina, Ekaterina M. 1 Pesch, Robert 1 Pizzi, Cinzia 1 Polani, Daniel 1 Porzelius, Christine 1 Prohaska, Sonja J. 1 Raftery, Adrian E. 1 Regev, Aviv 1 Sadeghi, Mehdi 1 Sandve, Geir Kjetil 1 Selbig, Joachim 1 Shapiro, Ehud Y. 1 Shinohara, Shuichi 1 Silverman, William 1 Smith, Terry J. 1 Stadler, Peter F. 1 Su, Xiaoping 1 Taipale, Jussi 1 Tamada, Yoshinori 1 Toivonen, Jarkko 1 Wallenstein, Sylvan R. 1 Wang, Chuancai 1 Wang, Ying Xiang Rachel 1 Whitmore, G. Alex 1 Xie, Jun 1 Yeung, Ka Yee 1 Young, William Chad 1 Yuan, Ye 1 Zhang, Jing 1 Zhang, Junwei 1 Zhou, Qing all top 5 Cited in 21 Serials 6 Journal of Theoretical Biology 3 Biometrics 3 Computational Biology and Chemistry 2 Theoretical Computer Science 1 Computers & Mathematics with Applications 1 Discrete Applied Mathematics 1 Mathematical Biosciences 1 Biometrical Journal 1 Information Sciences 1 Physica D 1 Statistical Science 1 Neural Networks 1 Machine Learning 1 IEEE Transactions on Signal Processing 1 Pattern Recognition 1 Proceedings of the National Academy of Sciences of the United States of America 1 Journal of Statistical Mechanics: Theory and Experiment 1 Mathematical Biosciences and Engineering 1 Statistical Methodology 1 Mathematics in Computer Science 1 Methods in Molecular Biology all top 5 Cited in 10 Fields 30 Biology and other natural sciences (92-XX) 11 Computer science (68-XX) 8 Statistics (62-XX) 3 Probability theory and stochastic processes (60-XX) 2 General and overarching topics; collections (00-XX) 2 Combinatorics (05-XX) 2 Operations research, mathematical programming (90-XX) 1 Numerical analysis (65-XX) 1 Statistical mechanics, structure of matter (82-XX) 1 Information and communication theory, circuits (94-XX) Citations by Year