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Cell Biology & Metabolism

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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.

[more info][12553]

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Biocatalysis/Biodegradation Database
[University of Minnesota] “Microbial biocatalytic reactions and biodegradation pathways primarily for xenobiotic, chemical compounds.”

[more info][12098]

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Biochemical Pathways
[ExPASy] A searchable index of biochemical pathways.

[more info][12593]

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[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.

[more info][12090]

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[Kyoto University] This database includes information on Cell Cycle Controlling Pathways and Early Development Controlling Pathways.

[more info][12594]

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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.�

[more info][12556]

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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.”

[more info][12096]

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CGAP: Cancer Genome Anatomy Project
[National Cancer Institute and NCBI] Intends a comprehensive molecular characterization of normal, precancerous, and malignant cells.

[more info][12557]

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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.

[more info][12558]

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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.

[more info][12559]

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Enzymology Database
[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.

[more info][12113]

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[Westfalische Wilhelms-Universitat Munster, Germany] An image-based database on development and genetics, especially on expression patterns of genes (enhancer trap lines, cloned genes).

[more info][12561]

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Genetic Code Viewer
[EMBL] A tool for browsing different versions of genetic code used by various taxonomic groups.

[more info][10394]

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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.

[more info][12567]

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[National Human Genome Research Institute] Database of mutation causing human X-linked severe combined immunodeficiency disorder.

[more info][11002]

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Interactive Fly
[Society for Developmental Biology, Purdue University] Drosophila genes and their roles in development.

[more info][12615]

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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.

[more info][12568]

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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.”

[more info][12009]

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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.

[more info][12086]

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Links to Pathway Databases
[Kyoto University] A list of links to databases of pathways of reactions & compounds in living cells.

[more info][12087]

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Main Metabolic Pathways on Internet
[Peter van Santen] A non-interactive diagram of the basic metabolic pathways.

[more info][12092]

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Metabolic Databases
[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.

[more info][12600]

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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.

[more info][12601]

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Metabolism & Biocompounds Resources
[University of Nebraska, Lincoln] Links to metabolism, metabolic pathway and biocompound databases and information resources.

[more info][12097]

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Ortholog/Paralog Groups of Functional Units
[Institute for Chemical Research, Kyoto University] Conserved gene clusters in the KEGG metabolic and regulatory pathways.

[more info][12602]

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[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.

[more info][12099]

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Protein Disease Database
[NIMH-NCI] Database for correlating diseases with proteins observable in serum, CSF, urine and other common human body fluids.

[more info][12569]

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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.

[more info][12571]

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[Cornell and Iowa State University] This database contains genomic and metabolic information for soybeans.

[more info][12088]

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SPAD: Signaling PAthway Database
[Kyushu University] An integrated database for genetic information and signal transduction systems.

[more info][12572]

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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.

[more info][11027]

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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.

[more info][12575]

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[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.”

[more info][12093]

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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.

[more info][12576]

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The Yeast Genome
[Minich Information Center for Protein Sequences] Database for protein sequences, homology data and yeast genome information. Includes information on metabolic pathways.

[more info][12617]