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Sample GSM1377072 Query DataSets for GSM1377072
Status Public on Mar 03, 2016
Title RNA in fft2D
Sample type RNA
 
Channel 1
Source name Fft2D RNA
Organism Schizosaccharomyces pombe
Characteristics strain: Hu1955
genotype: h- fft2D::kanMX ura4D18 leu1-32 ade6-216
Growth protocol Cultures were grown at 30°C to a density of 7e6 cells/ml.
Extracted molecule total RNA
Extraction protocol DNA was immunoprecipitated as described earlier (Durand-Dubief, 2009) using 2µg mouse anti-myc 9E10 Sigma M4439 antibody per 100µl chromatin extracts.
Label biotin
Label protocol Biotin-labeled according to standard Affymetrix protocols.
 
Channel 2
Source name wildtype RNA
Organism Schizosaccharomyces pombe
Characteristics strain: Hu303
genotype: h- 972
Growth protocol Cultures were grown at 30°C to a density of 7e6 cells/ml.
Extracted molecule total RNA
Extraction protocol DNA was immunoprecipitated as described earlier (Durand-Dubief, 2009) using 2µg mouse anti-myc 9E10 Sigma M4439 antibody per 100µl chromatin extracts.
Label biotin
Label protocol Biotin-labeled according to standard Affymetrix protocols.
 
 
Hybridization protocol Hybridised to Affymetrix GeneChip S. pombe Tiling 1.0FR Affymetrix core facility at Novum (http://apt.bea.ki.se) according to standard Affymetrix protocols.
Scan protocol Scanned at the Affymetrix core facility at Novum (http://apt.bea.ki.se) according to standard Affymetrix protocols.
Data processing CEL files were normalized using quantile normalization in TAS (Affymetrix) and visualized using Podbat (www.podbat.org).
Text files contain log2 scores for enrichment over anti-myc control (for ChIP samples) and log2 scores for enrichment over wildtype RNA levels (for RNA). Tab-delimited files contain, in order: chromosome, start, end, strand, score.
 
Submission date Apr 30, 2014
Last update date Mar 03, 2016
Contact name Babett Steglich
Organization name Universitätsklinikum Hamburg-Eppendorf
Street address Martinistrasse 52
City Hamburg
ZIP/Postal code 20246
Country Germany
 
Platform ID GPL7715
Series (2)
GSE57068 Role of Fun30 remodelers in retrotransposon regulation [ChIP-chip and expression analysis]
GSE57069 Role of Fun30 remodelers in retrotransposon regulation

Supplementary file Size Download File type/resource
GSM1377072_Fft2D_RNA.txt.gz 16.4 Mb (ftp)(http) TXT
GSM1377072_Fft2D_RNA_1.CEL.gz 9.1 Mb (ftp)(http) CEL
GSM1377072_Fft2D_RNA_2.CEL.gz 11.5 Mb (ftp)(http) CEL
GSM1377072_Fft2D_RNA_3.CEL.gz 8.8 Mb (ftp)(http) CEL
GSM1377072_WT_RNA_1.CEL.gz 11.8 Mb (ftp)(http) CEL
GSM1377072_WT_RNA_2.CEL.gz 11.4 Mb (ftp)(http) CEL
GSM1377072_WT_RNA_3.CEL.gz 9.2 Mb (ftp)(http) CEL
Processed data provided as supplementary file

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