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  1. Research: Evolution of gene regulation in ruminants differs between evolutionary breakpoint regions and homologous synteny blocks
    • Marta Farré,
    • Jaebum Kim,
    • Anastasia A. Proskuryakova,
    • Yang Zhang,
    • Anastasia I. Kulemzina,
    • Qiye Li,
    • Yang Zhou,
    • Yingqi Xiong,
    • Jennifer L. Johnson,
    • Polina L. Perelman,
    • Warren E. Johnson,
    • Wesley C. Warren,
    • Anna V. Kukekova,
    • Guojie Zhang,
    • Stephen J. O'Brien,
    • Oliver A. Ryder,
    • Alexander S. Graphodatsky,
    • Jian Ma,
    • Harris A. Lewin,
    • and Denis M. Larkin
    Genome Res. April 2019 29: 576-589; Published in Advance February 13, 2019, doi:10.1101/gr.239863.118
    ...The assemblies of 19 mammalian species were used in this study. Human (Homo sapiens, hg19), chimp (Pan troglodytes, panTro4), Rhesus macaque (Macaca mulatta, rheMac3), mouse (Mus musculus, mm9), rat (Rattus norvegicus, rno4), dog (Canis familiaris, canFam3), horse (Equus caballus, equCab2), pig (Sus scrofa, sus...
  2. RESOURCE: Integration of the Rat Recombination and EST Maps in the Rat Genomic Sequence and Comparative Mapping Analysis With the Mouse Genome
    • Steven P. Wilder,
    • Marie-Thérèse Bihoreau,
    • Karène Argoud,
    • Takeshi K. Watanabe,
    • Mark Lathrop,
    • and Dominique Gauguier
    Genome Res. April 2004 14: 758-765; doi:10.1101/gr.2001604
    ...-PCR method ( left -side panels). Lengths are in cM (Kosambi) in the linkage map and Mb in the genomic sequence. Chromosomal synteny conservation was defined by BLAT query of rat EST sequences ( right -side panels). The orientation of the rat chromosomes is as established by Szpirer et al. ( 1998 ). Graphs...
  3. Methods: Identification of Rat Genes by TWINSCAN Gene Prediction, RT–PCR, and Direct Sequencing
    • Jia Qian Wu,
    • David Shteynberg,
    • Manimozhiyan Arumugam,
    • Richard A. Gibbs,
    • and Michael R. Brent
    Genome Res. April 2004 14: 665-671; doi:10.1101/gr.1959604
    ...to a human disease gene from the HGMD database and lack of similarity to an Ensembl prediction on rat. We expected that Ensembl and its protein mapping engine GeneWise would map known human genes to all locations on the rat that could produce highly similar proteins. Therefore, we expected that the TWINSCAN...
  4. PERSPECTIVE: Impact of genomics on research in the rat
    • Jozef Lazar,
    • Carol Moreno,
    • Howard J. Jacob,
    • and Anne E. Kwitek
    Genome Res. December 2005 15: 1717-1728; doi:10.1101/gr.3744005
    ...1989 ). This new class of genetic markers was also deployed in the rat. Since then, the rat project has yielded a tremendous wealth of genomic resources including genetic maps; radiation hybrid (RH) cell lines and the associated RH maps (>5000 genetic markers and 19,500 genes and ESTs mapped); c...
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