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Sample GSM80481 Query DataSets for GSM80481
Status Public on Oct 28, 2005
Title Mouse Brain - pons (MoPo.Male)
Sample type MPSS
 
Source name Mouse Brain - pons total RNA
Organism Mus musculus
Extracted molecule total RNA
 
Description Strain: C57BL6
Mouse Brain - pons total RNA (MoPo.Male) received from National Human Genome Research Institute was analyzed through Bioanalyzer and passed our quality control test. The mRNA was processed according to the MPSS protocol as outlined in the previous publications (Brenner, S., et al. (2000) Proc Natl Acad Sci U S A 97(4): 1665-1670 and Brenner, S. et al., Nat. Biotechnol 18(6): 630-634). Briefly, the mRNA was reverse transcribed and the cDNA was digested with Dpn II. The 20 bases adjacent to the 3? most Dpn II site was cloned into a Megaclone vector. The resulting library was amplified and loaded onto microbeads. About 1.6 million microbeads were loaded into each flow cell and the signature sequences were determined by a series of enzymatic reactions as outlined in the above publications. The abundance for each signature was converted to transcripts per million (tpm) for the purpose of comparisons between samples.
Cells/tissue:
Library MoPo.Male.sig21
Cell type Mouse Brain - pons
Source NHGRI
RNA isolation LYNX mRNA QC passed
cDNA library:
Library DpnII restriction - (signature cloning using MmeI)
Sequence length 20 bp
MPSS:
runs
MoPo.Male_sig21.5582W.b-20 10/10/2005 706082 15936 QC Passed
MoPo.Male_sig21.5582F.b-20 10/7/2005 391648 11867 QC Passed
MoPo.Male_sig21.5582F.a-20 9/30/2005 538696 13345 QC Passed
MoPo.Male_sig21.5582W.a-20 9/30/2005 526920 18266 QC Passed
MoPo.Male_sig21.5569F.d-20 9/15/2005 429492 13175 QC Passed
Run group:
Total Beads successfully sequenced - 2592838
Processed Signatures - 21628
 
Submission date Oct 27, 2005
Last update date Dec 14, 2005
Contact name Daixing Zhou
E-mail(s) dzhou@solexa.com
Phone 510-670-9441
Fax 510-670-9302
URL http://www.solexa.com
Organization name Solexa
Department Bioinformatics
Street address 25861 Industrial Blvd
City Hayward
State/province CA
ZIP/Postal code 94545
Country USA
 
Platform ID GPL1010
Series (1)
GSE1581 MPSS mouse transcriptome analysis project

Data table header descriptions
ID_REF Signature - 20 nt sequence including DpnII site (GATC)
VALUE Mean abundance for a signature derived from all MPSS runs for the sample, in transcripts per million (TPM)
ST_DEV Standard deviation of the mean abundance from multiple MPSS runs
REP Replication_global


Total number of rows: 12241

Table truncated, full table size 362 Kbytes.




Supplementary data files not provided

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