Cell Biology & Metabolism
Bioinformatics & Genomics
Cell Biology & Metabolism
Gene Expression & Information
Proteins & Other Biological Molecules
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APLYSIA Database Project
[Department of Physiology, Cornell University Medical College] The APLYSIA project is developing a networked neuroscience database to store descriptions of identified and identifiable neurons, actual datasets of neurophysiological data from both identified cells and candidates for neuronal identification, and model parameters useful for electrophysiological simulations of neurons and networks.
[University of Minnesota] “Microbial biocatalytic reactions and biodegradation pathways primarily for xenobiotic, chemical compounds.”
[ExPASy] A searchable index of biochemical pathways.
[SRI International] The BioCyc Knowledge Library is the new name for EcoCyc and MetaCyc. It is a collection of Pathway/Genome Databases. Each database in the BioCyc collection describes the genome and metabolic pathways of a single organism, with the exception of the MetaCyc database, which is a reference source on metabolic pathways from many organisms.
[Kyoto University] This database includes information on Cell Cycle Controlling Pathways and Early Development Controlling Pathways.
Carcinogenic Potency Database (CPDB)
[Lawrence Berkeley National Laboratory] Results of chronic, long-term animal cancer tests. Provides detailed information on each experiment including species, strain, and sex of test amimal; features of experimental protocol; and histopathology and tumor incidence.�
Cell Signaling Networks Database
[National Institute of Health Sciences, Japan] CSNDB “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.”
CGAP: Cancer Genome Anatomy Project
[National Cancer Institute and NCBI] Intends a comprehensive molecular characterization of normal, precancerous, and malignant cells.
CLDB: Cell Line Data Base
[Interlab Project, Italy] Contains detailed information on 3258 human and animal cell lines that are available in many Italian laboratories and in some of the most important European cell banks and cell culture collections.
Cooperative Breast Cancer Tissue Resource (CBCTR)
[National Cancer Institute] Provides researchers with access to primary breast cancer tissue with associated clinical and follow-up data.
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[Argonne National Laboratories] The EMP database contains detailed information on a very large number of enzymes from over 17,000 articles. It can be searched by name, EC number, taxon, tissue, or organelle.
[Westfalische Wilhelms-Universitat Munster, Germany] An image-based database on development and genetics, especially on expression patterns of genes (enhancer trap lines, cloned genes).
Genetic Code Viewer
[EMBL] A tool for browsing different versions of genetic code used by various taxonomic groups.
ICN: Ion Channel Network
[University of Leicester, and the Center for Neuroscientific Databases at the University of Minnesota] Information on ion channel genes and proteins.
[National Human Genome Research Institute] Database of mutation causing human X-linked severe combined immunodeficiency disorder.
[Society for Developmental Biology, Purdue University] Drosophila genes and their roles in development.
Kidney Development Database
[Department of Anatomy, University of Edinburgh, Scotland] Contains data from developmental studies of the kidney and includes relevant genes and gene expression patterns.
Kyoto Encyclopedia of Genes and Genomes
[GenomeNet] “KEGG is an effort to computerize current knowledge of molecular and cellular biology in terms of the information pathways that consist of interacting molecules or genes and to provide links from the gene
catalogs produced by genome sequencing projects.”
Links to Pathway and Other Databases
[GenomeNet] A comprehensive list of links to biological and biochemical databases. The types of databases include: metabolic pathways; enzymes, compounds, and elements; regulatory pathways; protein-protein interactions; nomenclature and classification; taxonomy; and complete genomes and analysis.
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Main Metabolic Pathways on Internet
[Peter van Santen] A non-interactive diagram of the basic metabolic pathways.
[Yale University] The metabolic component of SoyBase, a soybean genetic database, contains reaction and pathway descriptions and diagrams for a number of basic metabolic pathways.
Metabolic Pathways of Biochemistry
[Karl J. Miller] (George Washington University) This site is designed to graphically represent all major metabolic pathways, primarily those important to human biochemistry.
Metabolism & Biocompounds Resources
[University of Nebraska, Lincoln] Links to metabolism, metabolic pathway and biocompound databases and information resources.
Ortholog/Paralog Groups of Functional Units
[Institute for Chemical Research, Kyoto University] Conserved gene clusters in the KEGG metabolic and regulatory pathways.
[NCGR] PathDB is a database of biochemical pathways and metabolism, and is able to store rich information about pathways, enzymes, reactions, transport steps, and biochemical compounds.
Protein Disease Database
[NIMH-NCI] Database for correlating diseases with proteins observable in serum, CSF, urine and other common human body fluids.
Salivary Gland Development Database
[Department of Anatomy, University of Edinburgh, Scotland] Contains data from developmental studies of the human salivary gland including cell and molecular data, immune information, and gene expression data.
[Cornell and Iowa State University] This database contains genomic and metabolic information for soybeans.
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TelDB: Telomere Literature Database
[Washington Univ.] TelDB includes over 1600 telomere related citations from 240 journals, convering over 100 species, and other TelDB sections feature web pages built for organisms. TelDB’s Telomere Forus is a place for users to post telomere-related notices, questions, and replies.
TransTerm: Translational Signal Database
[University of Otago] TransTerm is a database of sequence contexts about the stop and start codons of many species found in GenBank. TransTerm also contains codon usage data for these same species and summary statistics for the sequences analysed.
[Argonne National Laboratories] “WIT is a www-based system to support the curation of function assignments made to genes and the development of metabolic models.”
Xenopus Molecular Marker Resource
[Vize Lab, University of Texas, Austin] A collection of Xenopus whole mount staining patterns using both antibody and nucleic acid probes. The resource also contains links to additional information about Xenopus.
The Yeast Genome
[Minich Information Center for Protein Sequences] Database for protein sequences, homology data and yeast genome information. Includes information on metabolic pathways.