GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM40115 Query DataSets for GSM40115
Status Public on Jan 28, 2005
Title Heart: atria, Female (MoHe.FeAt)
Sample type MPSS
Source name Heart: atria, Female total RNA
Organism Mus musculus
Extracted molecule total RNA
Description Strain: C57BL6
Heart: atria, Female total RNA (MoHe.FeAt) 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 MoHe.FeAt.sig21
Cell type Heart: atria, Female
Source NHGRI
RNA isolation LYNX mRNA QC passed
cDNA library:
Library DpnII restriction - (signature cloning using MmeI)
Sequence length 20 bp
MoHe.FeAt_sig21.5311W.b-20 1/18/2005 405582 2242 QC Passed
MoHe.FeAt_sig21.5311F.b-20 1/18/2005 229484 3445 QC Passed
MoHe.FeAt_sig21.5311W.d-20 1/17/2005 458621 3982 QC Passed
MoHe.FeAt_sig21.5311F.c-20 1/15/2005 367322 4596 QC Passed
MoHe.FeAt_sig21.5311F.a-20 12/17/2004 297373 3404 QC Passed
MoHe.FeAt_sig21.5141F.c-20 10/18/2004 293934 3339 QC Passed
MoHe.FeAt_sig21.5141W.b-20 8/18/2004 492639 3144 QC Passed
Run group:
Total Beads successfully sequenced - 2544955
Processed Signatures - 6970
Submission date Jan 28, 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: 4105

Table truncated, full table size 121 Kbytes.

Supplementary file Size Download File type/resource
GSM40115.raw.txt.gz 115.7 Kb (ftp)(http) TXT

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap