Genetic basis of transcriptome differences between the founder strains of the rat HXB/BXH recombinant inbred panel

0380089 - FGÚ 2013 RIV GB eng J - Článek v odborném periodiku
Simonis, M. - Atanur, S. S. - Linsen, S. - Guryev, V. - Ruzius, F.-P. - Game, L. - Lansu, N. - de Bruijn, E. - van Heesch, S. - Jones, S. J. M. - Pravenec, Michal - Aitman, T. J. - Cuppen, E.
Genetic basis of transcriptome differences between the founder strains of the rat HXB/BXH recombinant inbred panel.
Genome Biology. Roč. 13, č. 4 (2012), r31. ISSN 1474-7596
Grant CEP: GA ČR(CZ) GAP301/10/0290; GA MŠMT(CZ) 7E10067
Institucionální podpora: RVO:67985823
Klíčová slova: genome sequence * BN-Lx rat strain * genetic * transcriptome * HXB/BXH recombinant inbred strains
Kód oboru RIV: EB - Genetika a molekulární biologie
Impakt faktor: 10.288, rok: 2012

Using next generation sequencing, we generated a comprehensive inventory of genomic differences between the two founder strains of the rat HXB/BXH recombinant inbred panel: SHR/OlaIpcv and BN-Lx/Cub. We identified 3.2 million single nucleotide variants, 425,924 small insertions and deletions, 907 copy number changes and 1,094 large structural genetic variants. RNA-sequencing analyses on liver tissue of the two strains identified 532 differentially expressed genes and 40 alterations in transcript structure. We identified both coding and non-coding variants that correlate with differential expression and alternative splicing. Furthermore, structural variants, in particular gene duplications, show a strong correlation with transcriptome alterations
Trvalý link: http://hdl.handle.net/11104/0210899