The DOI matches its Crossref record; 1 of the 1 references it cites were found in a registry or an index.
The TRANSFAC system on gene expression regulation
Open accessAbstract
The TRANSFAC database on transcription factors and their DNA-binding sites and profiles (http://www.gene-regulation.de/) has been quantitatively extended and supplemented by a number of modules. These modules give information about pathologically relevant mutations in regulatory regions and transcription factor genes (PathoDB), scaffold/matrix attached regions (S/MARt DB), signal transduction (TRANSPATH) and gene expression sources (CYTOMER). Altogether, these distinct database modules constitute the TRANSFAC system. They are accompanied by a number of program routines for identifying potential transcription factor binding sites or for localizing individual components in the regulatory network of a cell.
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Cites
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
Altschul, S. (1997) · Nucleic Acids Research · doi:10.1093/nar/25.17.3389 · Cited by 73,302
Cited by
Cytoscape: A software Environment for integrated models of biomolecular interaction networks
Shannon, P., Markiel, A., Ozier, O., Baliga, N. S., Wang, J. T., Ramage, D., Amin, N., Schwikowski, B., & Ideker, T. (2003) · Genome Research · doi:10.1101/gr.1239303 · Cited by 51,888
PROMO: detection of known transcription regulatory elements using species-tailored searches
Messeguer, X., Escudero, R., Farré, D., Núñez, O., Martı́nez, J., & Albà, M. M. (2002) · Bioinformatics · doi:10.1093/bioinformatics/18.2.333 · Cited by 1,369
Discovering regulatory and signalling circuits in molecular interaction networks
Ideker, T., Ozier, O., Schwikowski, B., & Siegel, A. F. (2002) · Bioinformatics · doi:10.1093/bioinformatics/18.suppl_1.s233 · Cited by 1,197
Yu, H., Kim, P. M., Sprecher, E., Trifonov, V., & Gerstein, M. (2007) · PLoS Computational Biology · doi:10.1371/journal.pcbi.0030059 · Cited by 1,014
iRegulon: From a Gene List to a Gene Regulatory Network Using Large Motif and Track Collections
Janky, R., Verfaillie, A., Imrichová, H., Van de Sande, B., Standaert, L., Christiaens, V., Hulselmans, G., Herten, K., Naval Sanchez, M., Potier, D., et al. (2014) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1003731 · Cited by 900
“A further limiting factor is that many methods are restricted to using human annotated PWMs (e.g. TRANSFAC [20], JASPAR [21] or UNIPROBE [22]), limiting the number of TFs that can be identified as candidate network regulators based on motif enrichment.”
Method
Metadata
- Authors
- Wingender, E.
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 2001-01-01
- Volume
- 29
- Issue
- 1
- Pages
- 281-283
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- OpenAlex
- W2140115103
- Cited by
- 662
- References
- 1
- FWCI
- 24.54
- Type
- journal article
- Language
- en
- Open access
- green
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