Array- and sequence-based data are accepted and tools are provided to help users query and download experiments and curated gene expression profiles. Gene Expression Omnibus (GEO) DatabaseĪ public functional genomics data repository supporting MIAME-compliant data submissions. Information includes nomenclature, chromosomal localization, gene products and their attributes (e.g., protein interactions), associated markers, phenotypes, interactions, and links to citations, sequences, variation details, maps, expression reports, homologs, protein domain content, and external databases. GeneĪ searchable database of genes, focusing on genomes that have been completely sequenced and that have an active research community to contribute gene-specific data. The exceptions are the EST and GSS divisions, which are accessed through the Nucleotide EST and Nucleotide GSS databases, respectively. GenBank consists of several divisions, most of which can be accessed through the Nucleotide database. These three organizations exchange data on a daily basis. GenBank is part of the International Nucleotide Sequence Database Collaboration, which comprises the DNA DataBank of Japan (DDBJ), the European Molecular Biology Laboratory (EMBL), and GenBank at NCBI. The NIH genetic sequence database, an annotated collection of all publicly available DNA sequences. dbSNP contains population-specific frequency and genotype data, experimental conditions, molecular context, and mapping information for both neutral variations and clinical mutations. Includes single nucleotide variations, microsatellites, and small-scale insertions and deletions. Database of Short Genetic Variations (dbSNP) These studies include genome-wide association (GWAS), medical resequencing, molecular diagnostic assays, as well as association between genotype and non-clinical traits.
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Database of Genotypes and Phenotypes (dbGaP)Īn archive and distribution center for the description and results of studies which investigate the interaction of genotype and phenotype.
In addition to archiving variation discovery, dbVar also stores associations of defined variants with phenotype information. The dbVar database has been developed to archive information associated with large scale genomic variation, including large insertions, deletions, translocations and inversions. Database of Genomic Structural Variation (dbVar) It also includes alignments of the domains to known 3-dimensional protein structures in the MMDB database. Conserved Domain Database (CDD)Ī collection of sequence alignments and profiles representing protein domains conserved in molecular evolution. Consensus CDS (CCDS)Ī collaborative effort to identify a core set of human and mouse protein coding regions that are consistently annotated and of high quality.
These resources cover databases and tools to help in the study of macromolecular structures, conserved domains and protein classification, small molecules and their biological activity, and biological pathways and systems. Computational Resources from NCBI's Structure GroupĪ centralized page providing access and links to resources developed by the Structure Group of the NCBI Computational Biology Branch (CBB). Ī registry and results database of publicly- and privately-supported clinical studies of human participants conducted around the world. Related information in the NIH Genetic Testing Registry (GTR), MedGen, Gene, OMIM, PubMed and other sources is accessible through hyperlinks on the records. ClinVarĪ resource to provide a public, tracked record of reported relationships between human variation and observed health status with supporting evidence. The collection includes biomedical textbooks, other scientific titles, genetic resources such as GeneReviews, and NCBI help manuals. BookshelfĪ collection of biomedical books that can be searched directly or from linked data in other NCBI databases. The BioSample database contains descriptions of biological source materials used in experimental assays. This resource describes project scope, material, and objectives and provides a mechanism to retrieve datasets that are often difficult to find due to inconsistent annotation, multiple independent submissions, and the varied nature of diverse data types which are often stored in different databases. BioProject (formerly Genome Project)Ī collection of genomics, functional genomics, and genetics studies and links to their resulting datasets.
The records display collection codes, information about the collections' home institutions, and links to relevant data at NCBI. BioCollectionsĪ curated set of metadata for culture collections, museums, herbaria and other natural history collections. A database providing information on the structure of assembled genomes, assembly names and other meta-data, statistical reports, and links to genomic sequence data.
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