Genomes & Chromosomes
A list of web sites containing Genome and Chromosome Sequences, Maps, and
Annotations.
Directories of Genome Projects | Genome
Projects | Eukaryotes | Vertebrates | Humans | Plants | Organelles | Microbes
Note: These web sites refer primarily to collections or groups
of organisms. For a listing of genome and sequence information for specific
organisms, or smaller groups, such as families—please go the Organisms
page.
Directories of Genome Projects
Genomes Online Database (GOLD)
http://www.genomesonline.org/
GOLD provides access to information about complete and ongoing genome projects
around the world. It is the "largest, most comprehensive, and most detailed
source for genome sequencing projects.” The site has links to more than
350 published completed genomes and over 1500 ongoing genome projects.
Entrez Genomes (NCBI): Genome Centers and Databases
http://www.ncbi.nlm.nih.gov/genomes/static/links.html
Lists Genome Centers and the databases they provide. The list can also
be viewed by organism to identify relevant sequencing centers.
A Quick Guide to Sequenced Genomes (GNN: Genome News Network)
http://www.genomenewsnetwork.org/resources/sequenced_genomes/genome_guide_p1.shtml
The Quick Guide includes descriptions and images of over 180 organisms
with links to sequencing centers and scientific abstracts (PubMed and/or
GNN). (Note: Use the Links feature from the PubMed abstract to access available
sequence and genomic data from NCBI.)
Genome Projects
Entrez Genome (NCBI: National Center for Biotechnology Information)
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=Genome
The Genome database provides access to NCBI’s collection of genome
databases. Includes views of genomes, complete chromosomes, and integrated genetic
and physical maps. The database provides access to over 800 completed genomes.
Genome-Specific Resources (NCBI)
http://www.ncbi.nlm.nih.gov/About/tools/restable_org.html
A list of major species’ genome projects with links to specific resource
pages and/or sequence data for each genome (species or organism type).
Map Viewer (NCBI)
http://www.ncbi.nlm.nih.gov/mapview/
Enables the search and display of genomic information by chromosomal position,
with the integration of genetic and physical maps, and links to sequence data,
for a subset of genomes in Entrez Genome.
Eukaryotes
ENSEMBL (EMBL-European Bioinformatics Institute, Sanger Institute)
http://www.ensembl.org/index.html
ENSEMBL provides automated genome annotation and subsequent visualisation
of eukaryotic genomes. All Ensembl gene predictions are based on experimental
evidence, which is imported via UniProt/Swiss-Prot, NCBI RefSeq, and UniProt/TrEMBL
records.
Vertebrates
UCSC Genome Browser (Genome Bioinformatics Group, UC Santa Cruz)
http://genome.ucsc.edu/cgi-bin/hgGateway
Displays genomes at any scale from chromosomes to sequences. Includes primarily
vertebrate genomes, with selected others. Genome displays include multiple
annotation tracks, such as: known genes, predicted genes, ESTs, mRNAs, and
cross-species homologies. The details pages for known genes include additional
information and links to sequence and other information.
The Vertebrate
Genome Annotation Database (VEGA)
http://vega.sanger.ac.uk/index.html
The VEGA database is a repository for complete vertebrate genome sequences.
Data is drawn from several major genome sequencing web sites, manually annotated,
and frequently updated. Species include Homo sapiens, Mus musculus, Danio
rerio, Sus scrofa, and Canis familiaris.
Humans
Human Chromosomes (HUGO: The Human Genome Organization)
http://www.gdb.org/hugo/
Maps of each human chromosome with links to multiple resources, such as maps,
sequence sites, disease loci, and other chromosome sites.
Plants
Plant Genomes Central (NCBI)
http://www.ncbi.nlm.nih.gov/genomes/PLANTS/PlantList.html
Includes a list of available plant genome maps with links to the maps; also
includes information about other plant genome projects, both completed and in
process.
Organelles
Organelle Genome Resources (NCBI)
http://www.ncbi.nlm.nih.gov/genomes/ORGANELLES/organelles.html
Genome maps and sequence data for mitochondria , plastids , plasmids
, and nucleomorphs.
Microbes
Comprehensive Microbial Resources (CMR; TIGR: The Institute for Genomic Research)
http://cmr.tigr.org/tigr-scripts/CMR/CmrHomePage.cgi
Provides
access to all completed bacterial genome sequences (approx. 300). Annotations
are provided by the originated sequencing center and by TIGR’s
automated system. Genomes can be searched by organism name, taxonomy,
and ID numbers from a variety of other data sources, including GenBank,
Swiss-Prot, Pfam, and Interpro.
Integrated Microbial Genomes (IMG; DOE JGI: Joint Genome Institute)
http://img.jgi.doe.gov/cgi-bin/pub/main.cgi
IMG provides access to 699 finished and draft genomes, primarily those of
bacteria and viruses, plus some genomes from archaea and lower eukaryotes (fungi,
yeast). Information in the database is drawn from several sources and is heavily
reviewed, annotated, and linked to other data sources for gene, protein, and
function information. Tools include a searchable genome database to access
genome sequences, a chromosome viewer, and several tools for comparative genome
analysis.
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