Mouse protein reference database software

The mouse gene expression database developed by mouse genome informatics mgi is a community resource for gene expression information from the laboratory mouse. Open source protein interaction database at the european institute of bioinformatics ebi. A comprehensive, integrated, nonredundant, wellannotated set of reference sequences including genomic, transcript, and protein. The reference proteome of mus musculus is derived from the genome sequence. The mips mammalian proteinprotein interaction database is a collection of manually curated highquality. Comprehensive databases of ppi in saccharomyces cerevisiae have proved to be invaluable resources for. If you would like to use your own genome fasta or gene gtf annotations, cell. Batch search with uniprot ids or convert them to another type of database id or vice. In particular, the reference sequence refseq database provides.

The human protein reference database hprd is a protein database accessible through the internet. Mgi is the international database resource for the laboratory mouse, providing integrated genetic, genomic, and biological data to facilitate the study of human health and disease. A comprehensive, integrated, nonredundant, well annotated set of reference sequences including genomic, transcript, and protein. It is designed as a database to collect and integrate raw expression data from a wide range of sources, such as rna in situ hybridization, immunohistochemistry, western blots, northern blots and rtpcr. Cell ranger provides prebuilt human and mouse reference packages for use with. Blast basic local alignment search tool blast standalone blast link blink conserved domain search service cd search genome protmap. Biogrid database of protein, chemical, and genetic interactions. Gxd collects and integrates the gene expression information in mgi. Ncbi reference sequence database a comprehensive, integrated, nonredundant, wellannotated set of reference sequences including genomic, transcript, and protein. All, gene name, protein class, uniprot keyword, chromosome, external id, reliability score tissue ihc, reliability score mouse brain, reliability score cells. We took great care to include only data from individually performed experiments since they usually provide the most reliable evidence for physical interactions.

Development of human protein reference database as an initial. Reference support software single cell immune profiling official. The mips mammalian protein protein interaction database is a collection of manually curated highquality ppi data collected from the scientific literature by expert curators. Gxd has developed an rnaseq and microarray experiment search to quickly and reliably find specific mouse expression studies in arrayexpress and geo. First, a large body of data on proteinprotein interactions exists in humans, and yet, none of the databases covers this adequately. Mgimouse genome informaticsthe international database. The hprd is a result of an international collaborative effort between the. Its primary emphasis is on endogenous gene expression during mouse development. Biogrid is an online interaction respository with data compiled through comprehensive curation efforts.