Hosted Genomes

The IGV genome server hosts several genomes. See the section on loading genomes for instructions.

Hosted assemblies

As of June 23, 2017. See acknowldegments below.

  1. A. baumannii str. ATCC
  2. A. baumannii str. AYE
  3. A. gambia (Pest AgamP3)
  4. A. nidulans (4.1)
  5. A. thaliana (TAIR 10)
  6. A. thaliana (TAIR 8)
  7. A. thaliana (TAIR 9)
  8. Aplysia
  9. Autographa californica MNPV
  10. B. pertussis (Tohama I NC_002929.2)
  11. Bacillus Subtilis str. 168
  12. Banana (M. Balbisiana PKWv1)
  13. Banana (Musa acuminata)
  14. C. albicans
  15. C. alibcans (SC5314 A21)
  16. C. elegans (WS201)
  17. C. elegans (WS220)
  18. C. elegans (ws241)
  19. C. elegans (WS245)
  20. C. elegans (ce10)
  21. C. elegans (ce11)
  22. C. elegans (ce4)
  23. C. elegans (ce6)
  24. C. savignyi (v2.1 reftigs)
  25. C. thermocellum (NC_009012)
  26. Chicken (galGal3)
  27. Chicken (galGal4)
  28. Chicken (galGal5)
  29. Chimp (panTro2)
  30. Chimp (panTro3)
  31. Chimp (panTro4)
  32. Cat (felCat5)
  33. Cow (bosTau3)
  34. Cow (bosTau4)
  35. Cow (bosTau6)
  36. Cow (bosTau7)
  37. Cow (bosTau8)
  38. D. discoideum (05-13-2009)
  39. D. melanogaster (5.9)
  40. D. melanogaster (dm2)
  41. D. melanogaster (dm3)
  42. D. melanogaster (dm6)
  43. D. melanogaster (r5.22)
  44. D. melanogaster (r5.33)
  45. Dog (canFam2)
  46. Dog (canFam3)
  47. E. coli K-12 MG1655 (NC_000913.2)
  48. E. coli K-12 MG1655 (U00096.2)
  49. E. coli K-12 (NC_000913.3)
  50. E. coli O157:H7 EDL933 (NC_002655.2)
  51. E. phage phiX174
  52. Ferret (MusPutFur1.0)
  53. Francisella tularensis (NC_008601)
  54. Foxy4287
  55. G. lamblia (2.0)
  56. Glycine max (v8.0)
  57. Glycine max (Wm82.a2.v1)
  58. Guinea Pig (cavPor3)
  59. Helicobacter hepaticus
  60. HIV-1
  61. HIV-2
  62. Horse (equCab2)
  63. Human (1kg reference, b36)
  64. Human (1kg, b37+decoy)
  65. Human (b37)
  66. Human hg16
  67. Human hg17
  68. Human hg18
  69. Human hg19
  70. Human hg38
  71. Human Mito (NC_012920)
  72. Human Adenovirus C
  73. Human Herpesvirus 4, Type 1
  74. Human Herpesvirus 4, Type 2
  75. Human respiratory synctial virus
  76. L. major Friedlin
  77. L. major Friedlin (v4.0)
  78. M. oryzae (mg8)
  79. Macaca fascicularis (CE_1.0)
  80. Maize (B73 4a.53)
  81. Maize (ZmB73 5a)
  82. Mouse (129S1/SvImJ)
  83. Mouse mm10
  84. Mouse mm7
  85. Mouse mm8
  86. Mouse mm9
  87. Mycobacterium TB (CD1551)
  88. N. Meningitidis (FAM18)
  89. N. Meningitidis (MC58)
  90. N. Meningitidis (Z2491)
  91. N. crassa OR74A (NC10)
  92. Neurospora crassa (v3)
  93. O. Sativa (release 6)
  94. O. Sativa (release 6.1)
  95. O. Sativa (release 7)
  96. Opossum (monDom5)
  97. P. falciparum 3D7 (V9.0)
  98. P. patens  (V 1.2)
  99. P. vivax (7.2)
  100. Plasmodium (3D7 V7.0)
  101. Plasmodium (3D7 V8.2)
  102. Plasmodium (3D7 v2.1)
  103. Plasmodium (3D7 v5.5)
  104. Plasmodium (6.1)
  105. Plasmodium (3D7 V24)
  106. Rabbit (oryCun2.0)
  107. Rat (rn4)
  108. Rat (rn5)
  109. Rat (rn6)
  110. Rhesus (rheMac2)
  111. Rhesus (rheMac3)
  112. Rhesus (rheMac8)
  113. S. cerevisiae (EF3 r62)
  114. S. cerevisiae (GSM552910)
  115. S. cerevisiae (Y55)
  116. S. cerevisiae (sacCer1)
  117. S. cerevisiae (sacCer2)
  118. S. cerevisiae (sacCer3)
  119. S. cerevisiae (sk1)
  120. S. pombe (7/09)
  121. S. pombe (EF 1.55)
  122. S. purpuratus (2.5)
  123. S. purpuratus (3.0)
  124. S. sclerotiorum (sclerotiorum)
  125. S.purpuratus (2.1+)
  126. Salmonella enterica str. 14028S
  127. Salmo salar (ICSASG_v2)
  128. Sheep (Ovis Aries v3.1)
  129. Stickleback (gasAcu1)
  130. Sus Scrofa (9.56)
  131. Sus Scrofa (Sscrofa10.2/susScr3)
  132. T. brucei (427 v4.2)
  133. T. brucei (927 v2.5)
  134. T. brucei (927 v4.0)
  135. T. brucei (927 v5.0)
  136. T. brucei gambiense
  137. T. brucei gambiense (v4.0)
  138. T. castaneum (2.0)
  139. T. castaneum (3.0)
  140. T. gondii (ME49)
  141. Tomato (2.31)
  142. Tomato (2.40)
  143. Tomato (ITAG2.3)
  144. Trout (CCAF000000000)
  145. V. vitifera
  146. Vibrio cholerae N16961
  147. X. tropicalis (xenTro2)
  148. X. tropicalis v9.0
  149. X. laevis (7.1)
  150. Zebra Finch (taeGut1)
  151. Zebrafish (Zv7/danRer5)
  152. Zebrafish (Zv8/danRer6)
  153. Zebrafish (Zv9/danRer7)
  154. Zebrafish (GRCz10/danRer10)
  155. Zea mays (AGPv3.31)

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