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Legume Information System (LIS): genomic database for the legume family [11] Personal Genome Project: human genomes of 100,000 volunteers from around the world; RGD (Rat Genome Database): genomic and phenotype data for Rattus norvegicus; Saccharomyces Genome Database: [12] genome of the yeast model organism; SNPedia
The GenBank sequence database is an open access, annotated collection of all publicly available nucleotide sequences and their protein translations. It is produced and maintained by the National Center for Biotechnology Information (NCBI; a part of the National Institutes of Health in the United States) as part of the International Nucleotide Sequence Database Collaboration (INSDC).
KEGG (Kyoto Encyclopedia of Genes and Genomes) is a collection of databases dealing with genomes, biological pathways, diseases, drugs, and chemical substances.KEGG is utilized for bioinformatics research and education, including data analysis in genomics, metagenomics, metabolomics and other omics studies, modeling and simulation in systems biology, and translational research in drug development.
GMODTools: extracts data from a Chado database into common genome bulk formats (GFF, Fasta, etc.) [5] MOD website Tripal: a web front end based on Drupal. [6] Genome Editing and Visualization Apollo: a Java application for viewing and editing genome annotations [7] [8] GBrowse: a CGI application for displaying genome annotations [9] [10]
This list of sequenced animal genomes contains animal species for which complete genome sequences have been assembled, annotated and published. Substantially complete draft genomes are included, but not partial genome sequences or organelle-only sequences. For all kingdoms, see the list of sequenced genomes.
However the genome alone is of little use, unless the locations and relationships of individual genes can be identified. One option is manual annotation, whereby a team of scientists tries to locate genes using experimental data from scientific journals and public databases. However this is a slow, painstaking task.
A variety of software tools have been developed that allow scientists to view and share genome annotations, such as MAKER. Genome annotation is an active area of investigation and involves a number of different organizations in the life science community which publish the results of their efforts in publicly available biological databases ...
MANE (Matched Annotation from the NCBI and EMBL-EBI): It is a collaborative project between NCBI and EMBL-EBI whose main goal is to define a set of transcripts and their proteins for all the protein-coding genes in the human genome. By doing that, the differences in transcripts annotation between RefSeq and Ensembl/GENCODE annotation systems ...