Selected article for: "gene expression and mouse human"
Author: Takako I. Jones; Guo-Liang Chew; Pamela Barraza-Flores; Spencer Schreier; Monique Ramirez; Ryan D. Wuebbles; Dean J. Burkin; Robert K. Bradley; Peter L. Jones
Title: Transgenic mice expressing tunable levels of DUX4 develop characteristic facioscapulohumeral muscular dystrophy-like pathophysiology ranging in severity
  • Document date: 2018_11_15
    • ID: 1yto01tr_29
    Snippet: Genome annotation, read mapping, and gene expression estimation. Human (hg19) and mouse (mm10) genome annotations were created by merging the UCSC knownGene [54] , Ensembl 71 [55] , and MISO v2.0 [56] annotations. Sequence reads were mapped to these annotations as previously described [57] . In brief, RSEM v1.2.4 [58] was modified to call Bowtie [59] with the option '-v 2' and then used to map all reads to the merged genome annotation. Remaining .....
    Document: Genome annotation, read mapping, and gene expression estimation. Human (hg19) and mouse (mm10) genome annotations were created by merging the UCSC knownGene [54] , Ensembl 71 [55] , and MISO v2.0 [56] annotations. Sequence reads were mapped to these annotations as previously described [57] . In brief, RSEM v1.2.4 [58] was modified to call Bowtie [59] with the option '-v 2' and then used to map all reads to the merged genome annotation. Remaining unaligned reads were then mapped to the genome and a database of potential splice junctions with TopHat v2.0.8b [60] . All gene expression estimates were normalized using the trimmed mean of M values (TMM) method [61] .

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