Question: Q-Pcr For Rna-Seq Data
2
gravatar for Steffi
8.0 years ago by
Steffi570
Germany
Steffi570 wrote:

Hey,

I know about the MAQC project which provides q-PCR data for approx. 1000 genes for human data. I wondered if there is also a similar data set around but for yeast instead of human? Additionally, I would be also interested in any other data set where qt-PCR data is available for a subset of the RNA-Seq data.

Thanks a lot for any suggestions, Stefanie

rna • 2.8k views
ADD COMMENTlink modified 8.0 years ago by Malachi Griffith18k • written 8.0 years ago by Steffi570
1
gravatar for Ahill
8.0 years ago by
Ahill1.8k
United States
Ahill1.8k wrote:

Good question. Do you need raw RT-PCR amplification curves? This publication is human (not yeast) but it appears to include RNA-Seq data for two cell lines, plus corresponding RT-PCR relative quantitation for a subset of 27 transcripts:

Publication: http://nar.oxfordjournals.org/content/39/2/e9.full

Raw RNA-seq reads for the cell lines MKN28, MKN45 at this site: http://neuma.kobic.re.kr/

RT-PCR results for 27 selected transcripts in the same 2 cell lines are in Supplemental Table 1: http://nar.oxfordjournals.org/content/suppl/2010/10/13/gkq1015.DC1/nar-01921-met-g-2010-File009.pdf

ADD COMMENTlink modified 5 months ago by RamRS25k • written 8.0 years ago by Ahill1.8k
1
gravatar for Malachi Griffith
8.0 years ago by
Washington University School of Medicine, St. Louis, USA
Malachi Griffith18k wrote:

Another set of q-PCR data used for validation of human RNA-seq results is described in: Griffith et al.. Exon specific qPCRs were designed for ~200 genes. These exons were found to be differentially or alternatively expressed between a pair of cell lines.

The RNA-seq data was generated for a single replicate from each cell line. The qPCR data was generated for biological triplicates (and each of these had technical triplicates).

The raw data can be downloaded here: ValidationResultsPackage.zip

ADD COMMENTlink written 8.0 years ago by Malachi Griffith18k
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