期刊
BMC GENOMICS
卷 12, 期 -, 页码 -出版社
BMC
DOI: 10.1186/1471-2164-12-449
关键词
Brain; Gene Expression; DASL; IVT
资金
- Cure Autism Now
- Simons Foundation
- Peter Emch Family Foundation
- Autism Speaks
- Thursday Club Juniors
- Rady Children's Hospital of San Diego
- Allen Institute for Brain Science
- UCSD-NIH Autism Center of Excellence [P50-MH081755]
- Price Foundation
- Scripps Genomic Medicine
- Tissue Bank for Developmental Disorders (Baltimore, MD) [N01-HD-4-3368, N01-HD-4-3383]
- [U19 AG023122-05]
- [R01 MH078151-03]
- [N01 MH22005]
- [U01 DA024417-01]
- [R01 AG030474-02]
- [N01 MH022005]
- [R01 HL089655-02]
- [R01 MH080134-03]
- [U54 CA143906-01]
- [UL1 RR025774-03]
Background: Gene expression assays have been shown to yield high quality genome-wide data from partially degraded RNA samples. However, these methods have not yet been applied to postmortem human brain tissue, despite their potential to overcome poor RNA quality and other technical limitations inherent in many assays. We compared cDNA-mediated annealing, selection, and ligation (DASL)- and in vitro transcription (IVT)-based genome-wide expression profiling assays on RNA samples from artificially degraded reference pools, frozen brain tissue, and formalin-fixed brain tissue. Results: The DASL-based platform produced expression results of greater reliability than the IVT-based platform in artificially degraded reference brain RNA and RNA from frozen tissue-based samples. Although data associated with a small sample of formalin-fixed RNA samples were poor when obtained from both assays, the DASL-based platform exhibited greater reliability in a subset of probes and samples. Conclusions: Our results suggest that the DASL-based gene expression-profiling platform may confer some advantages on mRNA assays of the brain over traditional IVT-based methods. We ultimately consider the implications of these results on investigations of neuropsychiatric disorders.
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