DATABASES ON MEDICINE AND MOLECULAR BIOLOGY
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ALlele FREquency Database (alfred)
 

ALFRED is designed to store and disseminate frequencies of alleles at human polymorphic sites for multiple populations, primarily for the population genetics and molecular anthropology communities.
http://alfred.med.yale.edu/alfred/index.asp

BayGenomics"  info
 

Database about genes relevant to cardiovascular and pulmonary disease.
The BayGenomics gene-trap resource provides researchers with access to thousands of mouse embryonic stem (ES) cell lines harboring characterized insertional mutations in both known and novel genes. Each cell line contains an insertional mutation in a specific gene.
http://baygenomics.ucsf.edu/

Cancer Chromosomes"  info
 

Three databases, the NCI/NCBI SKY/M-FISH & CGH Database, the NCI Mitelman Database of Chromosome Aberrations in Cancer, and the NCI Recurrent Aberrations in Cancer, are now integrated into NCBI's Entrez system as Cancer Chromosomes.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?CMD=Home&DB=cancerchromosomes

Calcium Sensing Receptor Databases
 

CASR mutations causing hypercalcemia and/or hyperparathyroidism.
http://www.casrdb.mcgill.ca/

Cancer Gene Expression Database
 

CGED (Cancer Gene Expression Database) is a database of gene expression profile and accompanying clinical information. The data of CGED were obtained through collaborative efforts of Nara Institute of Science and Technology and Osaka University School of Medicine to identify genes of clinical importance. This database offers graphical presentation of expression and clinical data with similarity search and sorting functions. Currently, data of breast, colorectal, and hepatocellular cancers are available. Genes in CGED can be searched by 1) gene names or identifiers, or 2) gene ontology terms or keywords in functional annotations in the SwissProt.
http://lifesciencedb.jp/cged/

Database of Human Type I and Type III Collagen Mutations
 

This database aims to record all published accounts of mutations in the genes encoding human collagen types I and III. Mutations of these collagen types result predominantly in osteogenesis imperfecta and Ehlers-Danlos syndrome type IV respectively.
http://www.le.ac.uk/genetics/collagen/

Low-Complexity Peptides of Forming Amyloid Plaques
 

Database about Peptides, which are capable of forming amyloid plaques.

GeneSeeker"  info
 

GeneSeeker is a database for the identification of genes underlying human genetic disorders. This requires the combination of data related to cytogenetic localization, phenotypes and expression patterns, to generate a list of candidate genes.
http://www.cmbi.ru.nl/GeneSeeker/

Genetics Home Reference"  info
 

The Genetics Home Reference is the National Library of Medicine's web site about genetic conditions and the genes responsible for those conditions.
http://ghr.nlm.nih.gov/

Human Gene Mutation Database at the Intitute of Medical Genetics in Cardiff"  info
 

The Human Gene Mutation Database (HGMD) represents an attempt to collate known (published) gene lesions responsible for human inherited disease. This database, whilst originally established for the study of mutational mechanisms in human genes (Cooper and Krawczak 1993), has now acquired a much broader utility in that it embodies an up-to-date and comprehensive reference source to the spectrum of inherited human gene lesions. Thus, HGMD provides information of practical diagnostic importance to (i) researchers and diagnosticians in human molecular genetics, (ii) physicians interested in a particular inherited condition in a given patient or family, and (iii) genetic counsellors.
http://www.hgmd.cf.ac.uk/

Variation Databases
 

List of human genome variation databases. This list was compiled by Rania Horaitis at the Genomic Disorders Research Centre, Melbourne.

  • Locus Specific Mutation Databases
  • Disease Centered Central Mutation Databases
  • Central Mutation & SNP Databases
  • National & Ethnic Mutation Databases
  • Mitochondrial Mutation Databases
  • Chromosomal Variation Databases
  • Clinical & Patient Aspects Databases
  • Non Human Mutation Databases
  • Artificial Mutations Only
    http://www.genomic.unimelb.edu.au/mdi/dblist/dblist.html

  • Immuno Polymorphism Database
     

    The Immuno Polymorphism Database (IPD), was developed in 2003 to provide a system for the study of polymorphism in genes of the immune system. The IPD project was established by the HLA Informatics Group of the Anthony Nolan Research Institute in close collaboration with the European Bioinformatics Institute. IPD consists of the following databases:

  • IPD-KIR Sequence Database provides sequences of human Killer-cell Immunoglobulin-like Receptors (KIR).
  • IPD-MHC Sequence Database covers sequences of the the non-human major histocompatibility complex.
  • IPD-HPA Sequence Database, provides information on human platelet antigens (HPA).
  • IPD-ESTDAB: provides a searchable database of tumour cell lines
    http://www.ebi.ac.uk/ipd/

  • Japanese SNP Database"  info
     

    JSNP is a repository of Japanese Single Nucleotide Polymorphism (SNP) data, begun in 2000 and developed through the Prime Ministerís Millennium Project. The aim of this undertaking is to identify and collate up to 150.000 SNPs from the Japanese population, located in genes or in adjacent regions that might influence the coding sequence of the genes. The project has been carried out by a collaboration between the Human Genome Center (HGC) in the Institute of Medical Science (IMS) at the University of Tokyo and the Japan Science and Technology Corporation (JST).
    http://snp.ims.u-tokyo.ac.jp/

    Mitelman Database of Chromosome Aberrations in Cancer"  info
     

    The information in the Mitelman Database of Chromosome Aberrations in Cancer relates chromosomal aberrations to tumor characteristics, based either on individual cases or associations. All the data have been manually culled from the literature by Felix Mitelman, Bertil Johansson, and Fredrik Mertens.
    http://cgap.nci.nih.gov/Chromosomes/Mitelman

    Mouse Tumor Biology Database
     

    The Mouse Tumor Biology (MTB) Database supports the use of the mouse as a model system of hereditary cancer by providing electronic access to:
    Descriptions of tumors (data are organized by strain and organ of tumor origin),
    Tumor frequency and latency data,
    Information on genetic factors associated with tumors and tumor development,
    Tumor pathology reports and images,
    References, both published and unpublished, and
    Links to related online resources including:
    http://tumor.informatics.jax.org/FMPro?-db=TumorInstance&-format=mtdp.html&-view

    PTCH1 Mutation Database
     

    Database about mutations and polymorphisms in the PTCH1 gene.
    http://www.cybergene.se/PTCH/ptchbase.html

    Retinoblastoma Gene Mutation Database
     

    Database about mutations in the RB1-gene.
    http://www.d-lohmann.de/Rb/

    Mouse Retroviral Tagged Cancer Gene Database"  info
     

    Retroviral insertional mutagenesis in mouse hematopoietic tumors provides a potent cancer gene discovery tool in the post-genome-sequence era. To manage multiple high-throughput insertional mutagenesis screening projects, the Retroviral Tagged Cancer Gene Database was developed.
    http://rtcgd.ncifcrf.gov/

    Topographic Database of Non-Synonymous SNPs"  info
     

    This database allows visualization of disease and non-disease associated non-synonymous single nucleotide polymorphisms (nsSNPs) and displays geometric and relative entropy calculations as described in Stitziel et. al. (JMB,327(5):1021-1030).
    http://gila.bioengr.uic.edu/snp/toposnp/