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Hosted Genomes

The IGV genome server hosts several genomes. See the section on loading genomes for instructions on how to select and load a hosted genome into IGV.

Hosted assemblies

As of July 15, 2021. See acknowldegments below.

  1. A. gambia (Pest AgamP3)
  2. A. nidulans (4.1)
  3. A. thaliana (TAIR 10)
  4. Autographa californica MNPV
  5. Bacillus Subtilis str. 168
  6. Banana (M. Balbisiana PKWv1)
  7. Banana (Musa acuminata)
  8. C. alibcans (SC5314 A21)
  9. C. elegans (ce10)
  10. C. elegans (ce11)
  11. C. elegans (WS235)
  12. C. elegans (WS241)
  13. C. elegans (WS245)
  14. C. reinhardtii (CC-503 v5.5)
  15. C. reinhardtii (CC-503 v5.6)
  16. C. reinhardtii (CC-503 v5.6 Cp+Mt v4.4)
  17. Cat (felCat5)
  18. Chicken (galGal4)
  19. Chicken (galGal5)
  20. Chicken (GRCg6a / galGal6)
  21. Chimp (panTro3)
  22. Chimp (panTro4)
  23. Chimp (panTro5)
  24. Chimp (panTro6)
  25. Cow (bosTau7)
  26. Cow (bosTau8)
  27. D. melanogaster (dm3)
  28. D. melanogaster (dm6)
  29. D. melanogaster (r5.9)
  30. Dog (canFam3)
  31. Dog (canFam5)
  32. E. coli K-12 MG1655 (NC_000913.2)
  33. E. coli K-12 (NC_000913.3)
  34. Ferret (MusPutFur1.0)
  35. Francisella tularensis (NC_008601)
  36. Glycine max (v8.0)
  37. Glycine max (Wm82.a2.v1)
  38. Helicobacter hepaticus
  39. HIV-1
  40. HIV-2
  41. Human (1kg, b37+decoy)
  42. Human (b37)
  43. Human hg18
  44. Human hg19
  45. Human hg38
  46. Human hg38 (1kg/GATK)
  47. Human Mito (NC_012920)
  48. Human Adenovirus C
  49. Human Herpesvirus 4, Type 1
  50. Human Herpesvirus 4, Type 2
  51. Human respiratory synctial virus
  52. Ixodes scapularis JCVI_ISG_i3_1.0 (GCA_000208615.1)
  53. Ixodes scapularis ISE6_asm2.2_deduplicated (GCA_002892825.2)
  54. Macaca fascicularis (CE_1.0)
  55. Macaca fascicularis (5.0)
  56. Mouse (129S1/SvImJ)
  57. Mouse mm8
  58. Mouse mm9
  59. Mouse mm10
  60. Mouse mm39
  61. Mycobacterium TB (CD1551)
  62. N. Meningitidis (FAM18)
  63. N. Meningitidis (MC58)
  64. N. Meningitidis (Z2491)
  65. N. crassa OR74A (NC10)
  66. Neurospora crassa (v3)
  67. P. falciparum 3D7 (V9.0)
  68. Plasmodium (3D7 V24)
  69. Rabbit (oryCun2.0)
  70. Rat (rn5)
  71. Rat (rn6)
  72. Rat (rn7)
  73. Rhesus (rheMac3)
  74. Rhesus (rheMac8)
  75. Rhesus (Mmul_10/rheMac10)
  76. S. cerevisiae (sacCer3)
  77. S. cerevisiae (Y55)
  78. S. pombe (ASM294v2)
  79. S. sclerotiorum (sclerotiorum)
  80. S.purpuratus (2.1+)
  81. Salmo salar (ICSASG_v2)
  82. Salmonella enterica str. 14028S
  83. SARS-CoV-2 (ASM985889v3)
  84. Sheep (Ovis Aries v3.1)
  85. Sus Scrofa (Sscrofa10.2/susScr3)
  86. T. brucei (427 v4.2)
  87. T. brucei (927 v5.0)
  88. T. brucei gambiense
  89. Tomato (2.31)
  90. Tomato (2.40)
  91. Trout (CCAF000000000)
  92. V. vitifera
  93. X. laevis (7.1)
  94. X. tropicalis v9.0
  95. Zea mays (AGPv3.31
  96. Zebrafish (GRCz10/danRer10)
  97. Zebrafish (GRCz11/danRer11)

Acknowledgements

The IGV hosted assemblies came from the following sources.

  1. 1000 Genomes www.1000genomes.org
  2. Arabidopsis Information Resource, www.arabidopsis.org
  3. Banana Genome Hub banana-genome-hub.southgreen.fr
  4. Broad Institute, Aplysia Genome Project, www.broadinstitute.org/aplysia/aplysia-genome-project
  5. Broad Institute, Magnaporthe Comparative Genomics Project  www.broadinstitute.org/scientific-community/science/projects/fungal-genome-initiative/magnaporthe-comparative-genomics-proj
  6. Broad Institute, Neurospora Crass Genome Project, www.broadinstitute.org/fungal-genome-initiative/neurospora-crassa-genome-project
  7. Broad Institute, Aspergillus Comparative Sequencing Project, www.broadinstitute.org/fungal-genome-initiative/aspergillus-genome-projects
  8. Candida Genome Database, www.candidagenome.org
  9. Comprehensive Library for Modern Biotechnology (CLiMB), climb.genomics.cn/Macaca_fascicularis
  10. Dept of Energy Joint Genome Institute, genome.jgi-psf.org/Xentr4
  11. dictyBase, dictybase.org
  12. Ensembl, www.ensembl.org
  13. GiardiaDB, giardiadb.org/
  14. Human Sequencing Genome Center at Baylor University, www.hgsc.bcm.tmc.edu
  15. International Consortium for the Sequencing of Anopheles Genome, www.ncbi.nlm.nih.gov/assembly/305108/
  16. International Tomato Sequencing Project, http://solgenomics.net/organism/Solanum_lycopersicum/genome
  17. Maize Genome Sequencing Project, www.maizesequence.org
  18. NCBI, www.ncbi.nlm.nih.gov/genome
  19. Physcome Project, www.cosmoss.org
  20. Phytozome, www.phytozome.net
  21. PlasmoDB, plasmodb.org/plasmo
  22. Rice Genome Annotation Project, rice.plantbiology.msu.edu
  23. Saccharomyces Genome Database, www.yeastgenome.org
  24. Sidow Lab, Stanford, sidowlab.org
  25. SpBase, www.spbase.org
  26. Toxoplasma Genomics Resource (ToxoDB), toxodb.org/toxo
  27. TriTrypDB Kinetoplastid Genomics Resource, tritrypdb.org
  28. UC Santa Cruz Genome Bioinformatics, genome.ucsc.edu
  29. University of Maryland, www.cbcb.umd.edu/research/bos_taurus_assembly.shtml
  30. Wellcome Trust Sanger Institute, www.sanger.ac.uk/Projects
  31. WormBase, www.wormbase.org
  32. Plant Metabolism Group, University of Cambridge, https://data.plantsci.cam.ac.uk/PlantMet/index.php/genomes/
  33. Pellegrini and Merchant labs, UCLA, http://genomes.mcdb.ucla.edu/CreOrganelles/download.html