RNA-seq Analysis of Transcriptome Profiles

RNA was extracted using the Qiagen RNeasy mRNA extraction kit and sent to the Genome Analysis Core for sequencing as previously described (17 (link); 18 (link)). Libraries were prepared using the Illumina Stranded mRNA Prep and sequenced on an Illumina HiSeq 4000. Reads were aligned using STAR RNA-seq aligner to hg38 genome build. The gene and exon counts were generated by FeatureCounts. Differential expression analysis was carried out using a negative binomial generalized log-linear model in the edgeR R package. Sequencing data are available in the Gene Expression Omnibus database (GEO number GSE185957).

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Vanderboom P., Zhang X., Hart C.R., Kunz H.E., Gries K.J., Heppelmann C.J., Liu Y., Dasari S, & Lanza I.R. (2022). Impact of obesity on the molecular response to a single bout of exercise in a preliminary human cohort. Obesity (Silver Spring, Md.), 30(5), 1091-1104.

Publication 2022

RNeasy mRNA extraction kit Stranded mRNA Prep HiSeq 4000

Exon Gene Genome Mrna Rna seq

Corresponding Organization : WinnMed

Other organizations : Shanghai Sixth People's Hospital, Wright-Patterson Air Force Base, Marian University - Indiana, Mayo Clinic in Florida

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Variable analysis

independent variables

RNA extraction using Qiagen RNeasy mRNA extraction kit
Library preparation using Illumina Stranded mRNA Prep
Sequencing on Illumina HiSeq 4000

dependent variables

Gene and exon counts generated by FeatureCounts
Differential expression analysis carried out using edgeR R package

control variables

Alignment of reads using STAR RNA-seq aligner to hg38 genome build

controls

No positive or negative controls were explicitly mentioned in the provided information.

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