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Genome-wide expression assay comparison across frozen and fixed postmortem brain tissue samples
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Genome-wide expression assay comparison across frozen and fixed postmortem brain tissue samples
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Genome-wide expression assay comparison across frozen and fixed postmortem brain tissue samples
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Journal Article
Genome-wide expression assay comparison across frozen and fixed postmortem brain tissue samples
2011
Overview
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.
Publisher
BioMed Central,BioMed Central Ltd,Springer Nature B.V,BMC
Subject
/ Animal Genetics and Genomics
/ Autism
/ Autistic Disorder - genetics
/ Biomedical and Life Sciences
/ Brain
/ DASL
/ Female
/ Freezing
/ Gene Expression Profiling - methods
/ Genomes
/ Genomics
/ Humans
/ IVT
/ Male
/ Medicine
/ Microbial Genetics and Genomics
/ Oligonucleotide Array Sequence Analysis - methods
/ Tissues
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