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Sample GSM38493 Query DataSets for GSM38493
Status Public on Jan 05, 2005
Title Eye, Female (MoEy.Feml)
Sample type MPSS
Source name Eye, Female total RNA
Organism Mus musculus
Extracted molecule total RNA
Description Strain: C57BL6
Eye, Female total RNA (MoEy.Feml) 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 MoEy.Feml.sig21
Cell type Eye, Female
Source NHGRI
RNA isolation LYNX mRNA QC passed
cDNA library:
Library DpnII restriction - (signature cloning using MmeI)
Sequence length 20 bp
MoEy.Feml_sig21.5222W.f-20 12/7/2004 513231 21516 QC Passed
MoEy.Feml_sig21.5222F.f-20 12/6/2004 395823 10839 QC Passed
MoEy.Feml_sig21.5222F.c-20 11/24/2004 338104 8177 QC Passed
MoEy.Feml_sig21.5222W.c-20 11/24/2004 537293 15712 QC Passed
MoEy.Feml_sig21.5222F.b-20 10/18/2004 269919 7823 QC Passed
Run group:
Total Beads successfully sequenced - 2054370
Processed Signatures - 24332
Submission date Jan 05, 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: 13365

Table truncated, full table size 393 Kbytes.

Supplementary file Size Download File type/resource
GSM38493.raw.txt.gz 272.3 Kb (ftp)(http) TXT

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