Mousegenomes tk-wtsi (1)
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This document contains information about genome assemblies and annotations for multiple mouse strains. It lists the strains and key details about their genome assemblies such as length, N50 size, and largest scaffold. It also lists the organizations and researchers involved in generating the assemblies and annotations over multiple years from 2014 to 2018. Manual curation and integration of gene sets and annotations is described.
Mousegenomes tk-wtsi (1)
- 2. ➢ ➢ ➢ ○○○ ➢ ○ ➢ Anthony Doran
- 9. Genome Assembly UCSC Gene Transmap Augustus Geneset Integration Manual Annotation Genome Alignments UCSC/Sanger UCSC University Greifswald Genome browsers HAVANA/ Gencode
- 10. Strain PE>40x 3kb 6kb 10kb 40kb 205kb Optical map PacBio WGS RNA-Seq PacBio cDNA 129S1/SvImJ A/J AKR/J BALB/cJ C3H/HeJ C57BL/6NJ CAST/EiJ CBA/2J DBA/2J FVB/NJ LP/J NOD/ShiLtJ NZO/HlLtJ PWK/PhJ SPRET/EiJ WSB/EiJ
- 11. ➢ ➢ ○ ➢ ○○ ➢ ○○ ➢
- 12. Strain Length N50 Largest 129S1/SvImJ 2,665,724,978 499,579 4,191,204 A/J 2,575,552,050 841,310 5,154,006 AKR/J 2,655,151,486 699,281 4,946,368 BALB/cJ 2,564,864,798 719,223 6,377,193 C3H/HeJ 2,652,482,740 830,262 5,460,279 C57BL/6NJ 2,767,519,225 1,376,403 10,647,821 CAST/EiJ 2,692,265,825 644,585 4,753,688 CBA/J 2,869,046,919 1,001,488 6,693,851 DBA/2J 2,535,344,396 497,937 5,792,774 FVB/NJ 2,489,840,365 231,286 2,492,086 LP/J 2,700,733,552 1,501,450 7,674,081 NOD/ShiLtJ 2,916,136,958 833,100 7,603,243 NZO/HlLtJ 2,629,894,720 455,398 3,441,695 PWK/PhJ 2,536,513,388 390,965 4,057,411 SPRET/EiJ 2,665,852,857 361,121 2,821,169 WSB/EiJ 2,667,768,295 783,034 5,847,529
- 13. Genome Assembly UCSC Gene Transmap Augustus Geneset Integration Manual Annotation Genome Alignments UCSC/Sanger UCSC University Greifswald UCSC Ensembl HAVANA/ Gencode
- 14. ➢ ○ ➢ ○ Benedict Paten, Mark Diekhans, Dent Earl, Joel Armstrong
- 15. Genome Assembly UCSC Gene TransMap Augustus Geneset Integration Manual Annotation Genome Alignments UCSC/Sanger UCSC University Greifswald UCSC Ensembl HAVANA/ Gencode
- 16. ➢ ➢ ➢ ➢ ➢ Benedict Paten, Mark Diekhans, Dent Earl, Joel Armstrong
- 17. Benedict Paten, Mark Diekhans, Dent Earl, Joel Armstrong
- 18. Benedict Paten, Mark Diekhans, Dent Earl, Joel Armstrong
- 19. Genome Assembly UCSC Gene TransMap Augustus Geneset Integration Manual Annotation Genome Alignments UCSC/Sanger UCSC University Greifswald UCSC Ensembl HAVANA/ Gencode RNA-Seq
- 20. ➢ ○ ➢ ○○ ➢ ○○ ➢ ○ ○ Mario Stanke Stefanie König
- 21. Mario Stanke Stefanie König
- 22. Genome Assembly UCSC Gene TransMap Augustus Geneset Integration Manual Annotation Genome Alignments UCSC/Sanger UCSC University Greifswald UCSC Ensembl HAVANA/ Gencode RNA-Seq
- 23. Genome Assembly UCSC Gene TransMap Augustus Geneset Integration Manual Annotation Genome Alignments UCSC/Sanger UCSC University Greifswald UCSC Ensembl HAVANA/ Gencode RNA-Seq
- 24. Genome Assembly UCSC Gene TransMap Augustus Geneset Integration Manual Annotation Genome Alignments UCSC/Sanger UCSC University Greifswald Genome browsers HAVANA/ Gencode RNA-Seq
- 25. Genome Assembly UCSC Gene TransMap Augustus Geneset Integration Manual Annotation Genome Alignments UCSC/Sanger UCSC University Greifswald Genome browsers HAVANA/ Gencode Ensembl/UCSC RNA-Seq
- 26. ➢ ○ ○ ➢ ○ ➢ ○ ➢ ○ ➢ ○ ➢ ○ ➢ ➢ 2014-2017 2015-2018