Difference between revisions of "Medically Relevant Genomes in CoGe"
From CoGepedia
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− | == List of Genomes == | + | == List of Medical Model Genomes == |
{| class="wikitable" | {| class="wikitable" | ||
+ | !|Phylum | ||
+ | !|Class | ||
!|Species | !|Species | ||
!|CoGe Genome Link | !|CoGe Genome Link | ||
Line 7: | Line 9: | ||
!|Research Interest Examples | !|Research Interest Examples | ||
|- | |- | ||
+ | |rowspan="20"|Chordata (Vertebrates) | ||
+ | |- | ||
+ | |rowspan="6"|Mammals | ||
|Human | |Human | ||
|[https://genomevolution.org/coge/GenomeInfo.pl?gid=25747 Homo sapiens v 38 (NCBI)] | |[https://genomevolution.org/coge/GenomeInfo.pl?gid=25747 Homo sapiens v 38 (NCBI)] | ||
|[https://genomevolution.org/coge/OrganismView.pl?org_name=homo%20sapiens Homo subspecies] | |[https://genomevolution.org/coge/OrganismView.pl?org_name=homo%20sapiens Homo subspecies] | ||
+ | |Disease modeling, ecology, genetic variation | ||
|- | |- | ||
|Mouse | |Mouse | ||
|[https://genomevolution.org/coge/GenomeInfo.pl?gid=7073 Mus musculus C57BL/6J v GRCm28.p3 (NCBI)] | |[https://genomevolution.org/coge/GenomeInfo.pl?gid=7073 Mus musculus C57BL/6J v GRCm28.p3 (NCBI)] | ||
|[https://genomevolution.org/coge/OrganismView.pl?org_name=mus%20musculus Mus subspecies] | |[https://genomevolution.org/coge/OrganismView.pl?org_name=mus%20musculus Mus subspecies] | ||
+ | |Disease modeling, gene function | ||
|- | |- | ||
|Rat | |Rat | ||
− | |[ Rattus norvegicus v 6.0 (Ensembl)] | + | |[https://genomevolution.org/coge/GenomeInfo.pl?embed=&gid=26049 Rattus norvegicus v 6.0 (Ensembl)] |
|[https://genomevolution.org/coge/OrganismView.pl?org_name=rattus Rattus species] | |[https://genomevolution.org/coge/OrganismView.pl?org_name=rattus Rattus species] | ||
+ | |Disease modeling, gene function | ||
|- | |- | ||
− | | | + | |Rabbit |
− | |[https://genomevolution.org/coge/GenomeInfo.pl?gid= | + | |[https://genomevolution.org/coge/GenomeInfo.pl?embed=&gid=26055 Oryctolagus cuniculus v 2.0 (Ensembl)] |
− | |[https://genomevolution.org/coge/OrganismView.pl?org_name= | + | |[https://genomevolution.org/coge/OrganismView.pl?org_name=oryctolagus Rabbit versions] |
+ | |Pharmaceutical testing, immune response | ||
+ | |- | ||
+ | |Guinea pig | ||
+ | |[https://genomevolution.org/coge/GenomeInfo.pl?embed=&gid=26056 Cavia porcellus inbred line 2N v 3.0 (Ensembl)] | ||
+ | |[https://genomevolution.org/coge/OrganismView.pl?org_name=cavia%20porcellus Guinea pig versions] | ||
+ | |Human disease, human immune response, toxicology | ||
+ | |- | ||
+ | |Pig | ||
+ | |[https://genomevolution.org/coge/GenomeInfo.pl?embed=&gid=26057 Sus scrofa v 10.2 (Ensembl)] | ||
+ | |[https://genomevolution.org/coge/OrganismView.pl?org_name=sus%20scrofa Sus scrofa versions] | ||
+ | |Allergen model species, organ model species | ||
|- | |- | ||
+ | |rowspan="3"|Birds | ||
|Chicken | |Chicken | ||
|[https://genomevolution.org/coge/GenomeInfo.pl?gid=22736 Gallus gallus v 4.74 (Ensembl)] | |[https://genomevolution.org/coge/GenomeInfo.pl?gid=22736 Gallus gallus v 4.74 (Ensembl)] | ||
− | |[ | + | |[https://genomevolution.org/coge/OrganismView.pl?org_name=gallus Gallus versions] |
+ | |Agriculture, developmental biology | ||
|- | |- | ||
|Zebra Finch | |Zebra Finch | ||
|[https://genomevolution.org/coge/GenomeInfo.pl?gid=19545 Taeniopygia guttata v 3.2.4 (BGI/Ensembl)] | |[https://genomevolution.org/coge/GenomeInfo.pl?gid=19545 Taeniopygia guttata v 3.2.4 (BGI/Ensembl)] | ||
− | |[ | + | |[https://genomevolution.org/coge/OrganismView.pl?org_name=Taeniopygia Taeniopygia versions] |
+ | |Learning, neural biology | ||
|- | |- | ||
|Japanese Quail | |Japanese Quail | ||
|[https://genomevolution.org/coge/GenomeInfo.pl?gid=26048 Coturnix japonica v 1.0 (NCBI)] | |[https://genomevolution.org/coge/GenomeInfo.pl?gid=26048 Coturnix japonica v 1.0 (NCBI)] | ||
| | | | ||
+ | |Agriculture, developmental biology | ||
+ | |- | ||
+ | |rowspan="1"|Amphibians & Reptiles | ||
+ | |Western Clawed Frog (Xenopus) | ||
+ | |[https://genomevolution.org/coge/GenomeInfo.pl?gid=12392 Xenopus tropicalis v 4.2.64 (Ensembl)] | ||
+ | |[https://genomevolution.org/coge/OrganismView.pl?org_name=xenopus Xenopus species] | ||
+ | |Vertebrate developmental biology | ||
+ | |- | ||
+ | |rowspan="9"|Fish | ||
+ | |Zebrafish | ||
+ | |[https://genomevolution.org/coge/GenomeInfo.pl?gid=25001 Danio rerio (NCBI)] | ||
+ | |[https://genomevolution.org/coge/OrganismView.pl?org_name=danio%20rerio Danio versions] | ||
+ | |Vertebrate developmental biology, transgenics | ||
+ | |- | ||
+ | |Medaka | ||
+ | |[https://genomevolution.org/coge/GenomeInfo.pl?gid=25001 Oryzias latipes v 1.0 (NCBI)] | ||
+ | |[https://genomevolution.org/coge/OrganismView.pl?org_name=oryzias%20latipes Oryzias versions] | ||
+ | |Vertebrate developmental biology, transgenics | ||
+ | |- | ||
+ | |Cichlids | ||
+ | |[https://genomevolution.org/coge/GenomeInfo.pl?gid=25004 Maylandia zebra v 1.1 (NCBI)] | ||
+ | |[https://genomevolution.org/coge/OrganismView.pl?org_name=cichlid Cichlid species] | ||
+ | |Craniofacial development disorders | ||
+ | |- | ||
+ | |Mexican tetra (cave fish) | ||
+ | |[https://genomevolution.org/coge/GenomeInfo.pl?gid=25004 Astyanax mexicanus v 1.0.2 (NCBI)] | ||
+ | |[https://genomevolution.org/coge/OrganismView.pl?org_name=astyanax Astyanax versions] | ||
+ | |Eye development and degeneration | ||
+ | |- | ||
+ | |Turquoise killifish | ||
+ | |[https://genomevolution.org/coge/GenomeInfo.pl?embed=&gid=26058 Nothobranchius furzeri GRZ v 1.0 (NCBI)] | ||
+ | |[https://genomevolution.org/coge/OrganismView.pl?org_name=nothobranchius Nothobranchius species] | ||
+ | |Aging model species | ||
+ | |- | ||
+ | |Southern platyfish | ||
+ | |[https://genomevolution.org/coge/GenomeInfo.pl?gid=25014 Xiphophorus maculatus JP163A v 4.4.2] | ||
+ | |[https://genomevolution.org/coge/OrganismView.pl?org_name=xiphophorus Xiphophorus versions] | ||
+ | |Melanoma, sexual maturity disorder model species | ||
+ | |- | ||
+ | |Amazon molly | ||
+ | |[https://genomevolution.org/coge/GenomeInfo.pl?gid=25009 Poecilia formosa v 5.1.2 (NCBI)] | ||
+ | |[https://genomevolution.org/coge/OrganismView.pl?org_name=poecilia Poecilia species] | ||
+ | |Clonal model species, cancer research model | ||
+ | |- | ||
+ | |Sheepshead minnow | ||
+ | |[https://genomevolution.org/coge/GenomeInfo.pl?gid=26063 Cyprinodon variegatus v 1.0 (NCBI)] | ||
+ | |[https://genomevolution.org/coge/OrganismView.pl?org_name=cyprinodon Cyprinodon species] | ||
+ | |Environmental toxicology model | ||
+ | |- | ||
+ | |Rainbow trout | ||
+ | |[https://genomevolution.org/coge/GenomeInfo.pl?gid=25073 Oncorhynchus mykiss v 4.0 (Genoscope)] | ||
+ | |[https://genomevolution.org/coge/OrganismView.pl?org_name=oncorhynchus Oncorhynchus versions] | ||
+ | |Toxicology, liver cancer model | ||
+ | |- | ||
+ | |rowspan="4"|Ecdysozoa | ||
+ | |- | ||
+ | |rowspan="1"|Insects | ||
+ | |Fruit fly | ||
+ | |[https://genomevolution.org/coge/GenomeInfo.pl?gid=10345 Fruit fly v 6.0 (NCBI)] | ||
+ | |[https://genomevolution.org/coge/OrganismView.pl?org_name=drosophila Drosophila species] | ||
+ | |Gene function | ||
+ | |- | ||
+ | |rowspan="1"|Platyhelmenthes | ||
+ | |Schmidtea mediterranea | ||
+ | |[https://genomevolution.org/coge/GenomeInfo.pl?gid=26065 Schmidtea mediterranea v S2F2 (NCBI)] | ||
+ | | | ||
+ | |Cellular regeneration model, pluripotent stem cell model | ||
+ | |- | ||
+ | |rowspan="1"|Nematodes | ||
+ | |Caenorhabditis elegans | ||
+ | |[https://genomevolution.org/coge/GenomeInfo.pl?gid=242 Caenorhabditis elegans v 9.0 (NCBI)] | ||
+ | |[https://genomevolution.org/coge/OrganismView.pl?org_name=caenorhabditis C. elegans species] | ||
+ | |Nematode model species, nervous system development model | ||
+ | |- | ||
|} | |} | ||
+ | |||
+ | == List of Disease Organism Genomes == | ||
+ | {| class="wikitable" | ||
+ | !|Phylum | ||
+ | !|Class | ||
+ | !|Species | ||
+ | !|CoGe Genome Link | ||
+ | !|Related Genomes Available | ||
+ | !|Research Interest Examples | ||
+ | |- | ||
+ | |rowspan="20"|Chordata (Vertebrates) | ||
+ | |- | ||
+ | |rowspan="6"|Mammals | ||
+ | |Human | ||
+ | |[https://genomevolution.org/coge/GenomeInfo.pl?gid=25747 Homo sapiens v 38 (NCBI)] | ||
+ | |[https://genomevolution.org/coge/OrganismView.pl?org_name=homo%20sapiens Homo subspecies] | ||
+ | |Disease modeling, ecology, genetic variation | ||
+ | |- | ||
+ | |} | ||
+ | |||
+ | == List of Human Endosymbiont Genomes == | ||
+ | |||
+ | == Links == | ||
+ | Notebook containing all medically relevant genomes in CoGe | ||
+ | |||
+ | Notebook containing medical model genomes | ||
+ | |||
+ | Notebook containing disease-causing organism genomes | ||
+ | |||
+ | Notebook containing human endosymbionts | ||
+ | |||
+ | === Note: If you would like a genome added to this list please contact coge.genome (at) gmail.com === |
Latest revision as of 15:32, 28 July 2015
Contents
List of Medical Model Genomes
Phylum | Class | Species | CoGe Genome Link | Related Genomes Available | Research Interest Examples |
---|---|---|---|---|---|
Chordata (Vertebrates) | |||||
Mammals | Human | Homo sapiens v 38 (NCBI) | Homo subspecies | Disease modeling, ecology, genetic variation | |
Mouse | Mus musculus C57BL/6J v GRCm28.p3 (NCBI) | Mus subspecies | Disease modeling, gene function | ||
Rat | Rattus norvegicus v 6.0 (Ensembl) | Rattus species | Disease modeling, gene function | ||
Rabbit | Oryctolagus cuniculus v 2.0 (Ensembl) | Rabbit versions | Pharmaceutical testing, immune response | ||
Guinea pig | Cavia porcellus inbred line 2N v 3.0 (Ensembl) | Guinea pig versions | Human disease, human immune response, toxicology | ||
Pig | Sus scrofa v 10.2 (Ensembl) | Sus scrofa versions | Allergen model species, organ model species | ||
Birds | Chicken | Gallus gallus v 4.74 (Ensembl) | Gallus versions | Agriculture, developmental biology | |
Zebra Finch | Taeniopygia guttata v 3.2.4 (BGI/Ensembl) | Taeniopygia versions | Learning, neural biology | ||
Japanese Quail | Coturnix japonica v 1.0 (NCBI) | Agriculture, developmental biology | |||
Amphibians & Reptiles | Western Clawed Frog (Xenopus) | Xenopus tropicalis v 4.2.64 (Ensembl) | Xenopus species | Vertebrate developmental biology | |
Fish | Zebrafish | Danio rerio (NCBI) | Danio versions | Vertebrate developmental biology, transgenics | |
Medaka | Oryzias latipes v 1.0 (NCBI) | Oryzias versions | Vertebrate developmental biology, transgenics | ||
Cichlids | Maylandia zebra v 1.1 (NCBI) | Cichlid species | Craniofacial development disorders | ||
Mexican tetra (cave fish) | Astyanax mexicanus v 1.0.2 (NCBI) | Astyanax versions | Eye development and degeneration | ||
Turquoise killifish | Nothobranchius furzeri GRZ v 1.0 (NCBI) | Nothobranchius species | Aging model species | ||
Southern platyfish | Xiphophorus maculatus JP163A v 4.4.2 | Xiphophorus versions | Melanoma, sexual maturity disorder model species | ||
Amazon molly | Poecilia formosa v 5.1.2 (NCBI) | Poecilia species | Clonal model species, cancer research model | ||
Sheepshead minnow | Cyprinodon variegatus v 1.0 (NCBI) | Cyprinodon species | Environmental toxicology model | ||
Rainbow trout | Oncorhynchus mykiss v 4.0 (Genoscope) | Oncorhynchus versions | Toxicology, liver cancer model | ||
Ecdysozoa | |||||
Insects | Fruit fly | Fruit fly v 6.0 (NCBI) | Drosophila species | Gene function | |
Platyhelmenthes | Schmidtea mediterranea | Schmidtea mediterranea v S2F2 (NCBI) | Cellular regeneration model, pluripotent stem cell model | ||
Nematodes | Caenorhabditis elegans | Caenorhabditis elegans v 9.0 (NCBI) | C. elegans species | Nematode model species, nervous system development model |
List of Disease Organism Genomes
Phylum | Class | Species | CoGe Genome Link | Related Genomes Available | Research Interest Examples |
---|---|---|---|---|---|
Chordata (Vertebrates) | |||||
Mammals | Human | Homo sapiens v 38 (NCBI) | Homo subspecies | Disease modeling, ecology, genetic variation |
List of Human Endosymbiont Genomes
Links
Notebook containing all medically relevant genomes in CoGe
Notebook containing medical model genomes
Notebook containing disease-causing organism genomes
Notebook containing human endosymbionts