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Evaluation of Sequencing Approaches for High-Throughput Transcriptomics - (BOSC)
Martin, M., J. Harrill, A. Karmaus, AND R. Thomas. Evaluation of Sequencing Approaches for High-Throughput Transcriptomics - (BOSC). Presented at BOSC CSS Meeting, RTP, NC, November 16 - 18, 2016.
Whole-genome in vitro transcriptomics has shown the capability to identify mechanisms of action and estimates of potency for chemical-mediated effects in a toxicological framework, but with limited throughput and high cost. The generation of high-throughput global gene expression profiles using RNA-sequencing technologies for the evaluation of chemically-mediated effects could greatly advance the current toxicogenomics knowledgebase. We present the evaluation of three transcriptomics platforms for potential application to high-throughput screening: 1. TempO-Seq utilizing custom designed paired probes per gene; 2. Targeted sequencing utilizing Illumina’s TruSeq RNA Access Library Prep Kit containing tiled exon-specific probe sets; 3. Low coverage whole transcriptome sequencing using Illumina’s TruSeq Stranded mRNA Kit. In summary, the three transcriptomics platforms showed the ability to measure whole-genome transcript levels with good technical reproducibility and show promise for the integration of transcriptomics into high-throughput screening.
Poster presented at BOSC CSS meeting in RTP, NC
Record Details:Record Type: DOCUMENT (PRESENTATION/POSTER)
Organization:U.S. ENVIRONMENTAL PROTECTION AGENCY
OFFICE OF RESEARCH AND DEVELOPMENT
NATIONAL CENTER FOR COMPUTATIONAL TOXICOLOGY