DATABASES ON MEDICINE AND MOLECULAR BIOLOGY
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BacTregulators
 

Database about transcriptional regulators of AraC and TetR families.
http://www.bactregulators.org/

Transcription Factor Prediction Database"  info
 

DBD is a database of predicted transcription factors in genomes based on domain assignments from the SUPERFAMILY and PFAM hidden Markov model libraries. The predicted transcription factors all contain assignments to sequence specific DNA-binding domain families.
http://www.transcriptionfactor.org/

Database of Transcriptional Start Sites
 

Based on 400,225 and 580,209 human and mouse full-length cDNA sequences, DBTSS contains exact information of the genomic positions of the transcriptional start sites and the adjacent promoters for 8,793 and 6,875 human and mouse genes, respectively. Of these, 3,324 could be paired as mutually homologous genes between human and mouse and their promoters could be compared with each other.
http://dbtss.hgc.jp

The Eukaryotic Promoter Database
 

The Eukaryotic Promoter Database is an annotated non-redundant collection of eukaryotic POL II promoters, for which the transcription start site has been determined experimentally.
http://www.epd.isb-sib.ch

Hematopoiesis Promoter Database (HemoPDB)"  info
 

The Hematopoiesis Promoter Database (HemoPDB) has been developed as a information resource focused on transcriptional regulation in hematopoiesis. HemoPDB is composed of integral, experimentally defined regulatory information, including TFs, cis-regulatory elements, their target gene promoters and corresponding annotations, with links to supporting published references. Accordingly, the database may be searched by Gene Symbol, GenBank Accession Number, UniGene ID, TF (binding site) Name and lineage or cell type within which a gene is expressed.
http://bioinformatics.wistar.upenn.edu/HemoPDB/

Transcription Factor Binding Profile Database (JASPAR)"  info
 

JASPAR is a collection of transcription factor DNA-binding preferences, modelled as position-specific weight matrices (PSSMs).
http://jaspar.cgb.ki.se/cgi-bin/jaspar_db.pl

DeRisi Lab Malaria Transcriptome Database"  info
 

Database about the Malaria Transcriptome, provided by the University of California San Francisco.
http://malaria.ucsf.edu/

Multi-genome Analysis of Positions and Patterns of Elements of Regulation
 

MAPPER is a platform for the computational identification of transcription factor binding sites (TFBSs) in multiple genomes.
http://bio.chip.org/mapper

Myc Cancer Gene"  info
 

Diese Website enthält Links zu folgenden Datenbanken:

  • Myc Target Gene Database
  • Myc and Human Cancer Database
  • Myc Protein - Protein Interaction Database
    http://www.myc-cancer-gene.org/

  • PROkaryotIC Database Of Gene Regulation And Regulatory NETworks
     

    The database PRODORIC aims to systematically organize information on prokaryotic gene expression, and to integrate this information into regulatory networks.
    http://prodoric.tu-bs.de/

    PROkaryotIC Database Of Gene Regulation And Regulatory NETworks"  info
     

    The database PRODORIC aims to systematically organize information on prokaryotic gene expression, and to integrate this information into regulatory networks.
    http://prodoric.tu-bs.de

    Database of E. coli mRNA Promoters"  info
     

    PromEC is a database of E. coli mRNA promoters with experimentally identified transcriptional start sites.
    http://bioinfo.md.huji.ac.il/marg/promec/

    Transcription Element Search System"  info
     

    TESS is a web tool for predicting transcription factor binding sites in DNA sequences.
    http://www.cbil.upenn.edu/tess/

    TFExplorer"  info
     

    TFExplorer is a database for predicted regulatory elements in human, mouse, and rat. It shows predicted binding sites of transcription factors in the promoter regions, along with their phylogenetic footprinting information. In addition, TFExplorer can search for genes that have a given sequence pattern in their promoter regions using the motif-searching method.
    http://mars.kribb.re.kr:8080/tfExplorer/

    TRANSCompel
     

    TRANSCompel is a database on composite regulatory elements affecting gene transcription in eukaryotes. Composite regulatory elements consist of two closely situated binding sites for distinct transcription factors, and provide cross-coupling of different signalling pathways.
    http://www.gene-regulation.com/pub/databases.html#transcompel

    TRANSCompel® 6.0"  info
     

    The TRANSCompel database emphasizes the key role of specific interactions between transcription factors binding to their target sites providing specific features of gene regulation in a particular cellular content.
    http://www.gene-regulation.com/pub/databases.html#transcompel

    Transcription Factor Database
     

    TRANSFAC is the database on eukaryotic transcription factors, their genomic binding sites and DNA-binding profiles.
    http://www.gene-regulation.com/pub/databases.html#transfac

    Transcriptional Regulatory Element Database"  info
     

    Transcriptional Regulatory Element Database (TRED) is a repository for both cis- and trans- regulatory elements in mammals.
    http://rulai.cshl.edu/tred

    Transcription Regulatory Regions Database
     

    TRRD is a unique information resource, accumulating information on structural and functional organization of transcription regulatory regions of eukaryotic genes. Only experimental information is included into TRRD.
    http://wwwmgs.bionet.nsc.ru/mgs/gnw/trrd/

    Transcription Factor Database"  info
     

    TrSDB-TranScout Database-(http://ibb.uab.es/trsdb) is a proteome database of eukaryotic transcription factors based upon predicted motifs by TranScout and data sources such as InterPro and Gene Ontology Annotation.
    http://bioinf.uab.es/cgi-bin/trsdb/trsdb.pl