SIGNAL
TRANSDUCTION PATHWAYS
-
Databases:
-
STKE Signal Transduction
Knowledge Environment
-
TRANSPATH
is an information system on gene-regulatory pathways. It focuses on
pathways involved in the regulation of transcription factors. Elements
of the relevant signal transduction pathways like hormones, enzymes, complexes
and transcription factors are stored together with information about their
interaction. All data is extracted by experts from the scientific literature.
-
CSNDB
Cell Signaling Networks Database is a data- and knowledge- base for signaling
pathways of human cells. It compiles the information on biological
molecules, sequences, structures, functions, and biological reactions which
transfer the cellular signals. Signaling pathways are compiled as binary
relationships of biomolecules and represented by graphs drawn automatically.
-
KEGG
Regulatory Pathways Graphical pathway maps, ortholog group tables,
and molecular catalogs
-
BRITE: Biomolecular Relations
in Information Transmission and Expression. BRITE is a database of binary
relations for computation and comparison of graphs. It contains diverse
sets of binary relations, including the generalized protein-protein
interactions that underlie the KEGG pathway diagrams, systematic
experimental data on protein-protein interactions by yeast two-hybrid systems,
sequence similarity relations by SSEARCH, expression similarity relations
by microarray gene expression profiles, and the cross-reference links between
database entries. This is a preliminary version of BRITE for simple retrieval
of partners.
-
SPAD
The Signaling PAthway Database is an integrated database for genetic information
and signal transduction systems.
-
Pathways
from BioCarta, an interactive web-based resource for life scientists.
-
BBID, The
Biological Biochemical Image Database is a searchable database of images
of putative biological pathways, macromolecular structures, gene families,
and cellular relationships. It is of use to those who are working with
large sets of genes or proteins using cDNA arrays, functional genomics,
or proteomics.
-
BIND, Biomolecular
Interaction Network Database is a database designed to store full descriptions
of interactions, molecular complexes and pathways. Development of the BIND
2.0 data model has led to the incorporation of virtually all components
of molecular mechanisms including interactions between any two molecules
composed of proteins, nucleic acids and small molecules.
-
RegulonDB
is a database on transcription regulation and operon organization for different
organisms. It describes regulatory signals of transcription initiation,
promoters, regulatory binding sites of specific regulators, ribosome binding
sites and terminators, as well as information on genes clustered in operons.
-
Genetic
Network Maps from the GeNet, Genes Network Database
-
Boehringer
Mannheim "Biochemical Pathways": Cellular and Molecular Processes part
of the wall chart
-
WIT
(What Is There?) is a www-based system to support the curation of function
assignments made to genes and the development of metabolic models. Database
currently covers 39 genomes.
-
ERGO
is a curated database of public + proprietary genomic DNA, with connected
similarities, functions, pathways, functional models, clusters and
more. The system presents these data interconnected with WWW hyperlinks
but also allows searches and comparisons. Users may annotate and comment
genes and pathways, but cannot currently edit sequences. It is being actively
developed by Integrated Genomics Inc. (NB: an integrated version of
WIT, a.k.a. IGwit; covers 80 genomes)
|
|
