|
| Status |
Public on Jan 27, 2011 |
| Title |
A human transcriptome array for high-throughput clinical studies (with a comparison to RNA-seq technology) [RNA-Seq] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
A new high-density oligonucleotide array of the human transcriptome (GG-H array) has been developed for high-throughput and cost-effective analyses in clinical studies. This array allows comprehensive examination of gene expression and genome-wide identification of alternative splicing, as well as detection of coding SNPs and non-coding transcripts. The GG-H array was validated using samples from multiple independent preparations of human liver and muscle, and compared with results obtained from mRNA sequencing analysis. The GG-H array is highly reproducible in estimating gene and exon abundance, and is sensitive in detecting expression changes and alternative splicing. This array has been implemented in a multi-center clinical program and has generated high quality, reproducible data. When current cost, as well as sample and time requirements for sequencing are considered in the context of a required throughput of hundreds of samples per week for a clinical trial, the array provides a high-throughput and cost effective platform for clinical genomic studies.
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| |
|
| Overall design |
Examination exon/gene expression of liver and muscle in quadraplicates using both the array technology and RNA-Seq
|
| |
|
| Contributor(s) |
Xu W, Seok J, Mindrinos M, Xiao W, Davis R, Tompkins R |
| Citation(s) |
21317363 |
| Submission date |
Dec 16, 2010 |
| Last update date |
May 15, 2019 |
| Contact name |
Weihong Xu |
| E-mail(s) |
weihongx@stanford.edu
|
| Organization name |
Stanford Genome Technology Center
|
| Department |
Department of Biochemistry
|
| Lab |
Ron W. Davis
|
| Street address |
855 California Ave
|
| City |
Palo Alto |
| State/province |
CA |
| ZIP/Postal code |
94304 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL9052 |
Illumina Genome Analyzer (Homo sapiens) |
|
| Samples (8)
|
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| This SubSeries is part of SuperSeries: |
| GSE26118 |
A human transcriptome array for high-throughput clinical studies (with a comparison to RNA-seq technology) |
|
| Relations |
| SRA |
SRP004903 |
| BioProject |
PRJNA142297 |
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