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Sample GSM47343 Query DataSets for GSM47343
Status Public on Apr 04, 2005
Title Small intestine, Male (MoSI.Male)
Sample type MPSS
Source name Small intestine, Male total RNA
Organism Mus musculus
Extracted molecule total RNA
Description Strain: C57BL6
Small intestine, Male total RNA (MoSI.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.
Library MoSI.Male.sig22
Cell type Small intestine, Male
Source NHGRI
RNA isolation LYNX mRNA QC passed
cDNA library:
Library DpnII restriction - (signature cloning using MmeI)
Sequence length 20 bp
MoSI.Male_sig22.5413W.a-20 2/28/2005 456974 9137 QC Passed
MoSI.Male_sig22.5244W.a-20 11/8/2004 602854 13552 QC Passed
MoSI.Male_sig22.5244F.a-20 11/3/2004 500990 10812 QC Passed
MoSI.Male_sig22.5184F.a-20 9/24/2004 308144 7577 QC Passed
MoSI.Male_sig22.5184F.b-20 9/21/2004 357465 9065 QC Passed
Run group:
Total Beads successfully sequenced - 2226427
Processed Signatures - 17866
Submission date Apr 04, 2005
Last update date Dec 14, 2005
Contact name Daixing Zhou
Phone 510-670-9441
Fax 510-670-9302
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: 10833

Table truncated, full table size 319 Kbytes.

Supplementary file Size Download File type/resource
GSM47343.raw.txt.gz 218.8 Kb (ftp)(http) TXT

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