NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM35329 Query DataSets for GSM35329
Status Public on Nov 15, 2004
Title Uterus:Pregnant E18, Female (MoUt.FP18)
Sample type MPSS
 
Source name Uterus:Pregnant E18, Female total RNA
Organism Mus musculus
Extracted molecule total RNA
 
Description Strain: C57BL6
Uterus:Pregnant E18, Female total RNA (MoUt.FP18) 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 MoUt.FP18.sig21
Cell type Uterus:Pregnant E18, Female
Source NHGRI
RNA isolation LYNX mRNA QC passed
cDNA library:
Library DpnII restriction - (signature cloning using MmeI)
Sequence length 20 bp
MPSS:
runs
MoUt.FP18_sig21.5223F.c-20 11/3/2004 596625 10187 QC Passed
MoUt.FP18_sig21.5223W.b-20 10/24/2004 676917 14646 QC Passed
MoUt.FP18_sig21.5223W.a-20 10/21/2004 593076 12000 QC Passed
MoUt.FP18_sig21.5223F.a-20 10/19/2004 445622 9573 QC Passed
Run group:
Total Beads successfully sequenced - 2312240
Processed Signatures - 17084
 
Submission date Nov 15, 2004
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: 10805

Table truncated, full table size 318 Kbytes.




Supplementary file Size Download File type/resource
GSM35329.raw.txt.gz 204.1 Kb (ftp)(http) TXT

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