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Sample GSM17228 Query DataSets for GSM17228
Status Public on Oct 26, 2004
Title BLK.CL4 (MoBC.29xx)
Sample type MPSS
Source name BLK.CL4 total RNA
Organism Mus musculus
Extracted molecule total RNA
Description Strain: C57BL6
BLK.CL4 total RNA (MoBC.29xx) 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 MoBC.29xx.sig21
Cell type BLK.CL4
Source NHGRI
RNA isolation LYNX mRNA QC passed
cDNA library:
Library DpnII restriction - (signature cloning using MmeI)
Sequence length 20 bp
MoBC.29xx_sig21.4788W.a-20 12/17/2003 588761 13368
MoBC.29xx_sig21.4788T.b-20 12/9/2003 451422 11263
MoBC.29xx_sig21.4788T.a-20 12/9/2003 429623 11932
MoBC.29xx_sig21.4788W.b-20 12/9/2003 531391 11722
Run group:
Total Beads successfully sequenced - 2001197
Processed Signatures - 15689
Transcripts 3'-most (Canonical) Signatures - 10081
Lot batch =
Submission date Feb 25, 2004
Last update date May 28, 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)
GSE1067 MPSS analysis of mouse BLK CL.4 and liver cells

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: 10081

Table truncated, full table size 297 Kbytes.

Supplementary file Size Download File type/resource
GSM17228.raw.txt.gz 174.7 Kb (ftp)(http) TXT

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