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Sample GSM1080762 Query DataSets for GSM1080762
Status Public on Mar 14, 2013
Title RNA_WT_36C
Sample type RNA
Source name Total RNA, WT, 36C
Organism Schizosaccharomyces pombe
Characteristics strain: Hu303
genotype/variation: WT
temperature: 36C
Growth protocol Liquid cultures were grown in YES media shaking at 180 rpm. The temperature sensitive top3-105 mutant and wild type controls were grown at the permissive temperature (25 °C) over night and then for 8 hours at the nonpermissive temperature (36°C) before harvesting. All other strains were grown at 30 °C.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from mid-logarithmic phase cells after 8 hours at 36C using the hot-phenol method. Briefly, cells were harvested by centrifugation at RT, resuspended in TES (10 mM TrisHCl pH7.5, 10 mM EDTA and 0.5% SDS) and transferred to preheated acid phenol (65 °C). After 60 min shaking incubation at 65 °C, RNA was isolated by phenol-chloroform extraction.
Label biotin
Label protocol RNA was treated according to the Affymetrix total RNA labelling protocol (
Hybridization protocol Hybridised to Affymetrix GeneChip S. pombe Tiling 1.0FR Affymetrix core facility at Novum ( according to standard Affymetrix protocols.
Scan protocol Scanned at the Affymetrix core facility at Novum ( according to standard Affymetrix protocols.
Description Total RNA from WT cells after 8 hours at 36C
Data processing CEL.files were analysed using Affymetrix Tiling Analysis Software (TAS) v1.1. One sample analysis of replicates A+B and linear scaling to 100 was applied. Linear probe signals were generated using a bandwidth of 100 and assigned to S. pombe genome coordinates (Sanger 2007) and reported in BAR files (Fwd and Rev strands).
Submission date Feb 08, 2013
Last update date Mar 14, 2013
Contact name Karl Ekwall
Phone +46 8 6089133
Organization name Karolinska Inst
Street address Alfred Nobels Alle 7
City Stockholm
ZIP/Postal code S-141 89
Country Sweden
Platform ID GPL7715
Series (1)
GSE44206 DNA topoisomerase III localizes to centromeres and affects centromeric CENP-A levels in fission yeast

Supplementary file Size Download File type/resource 3.0 Mb (ftp)(http) BAR
GSM1080762_2007_Transcription_Hu303_A+B_one_sample_PM_MM_Fwd_linear_signal.txt.gz 3.6 Mb (ftp)(http) TXT 3.0 Mb (ftp)(http) BAR
GSM1080762_2007_Transcription_Hu303_A+B_one_sample_PM_MM_Rev_linear_signal.txt.gz 3.6 Mb (ftp)(http) TXT
GSM1080762_UN1_Hu303A_Sp20b_M_v04_.CEL.gz 11.4 Mb (ftp)(http) CEL
GSM1080762_UN3_Hu303B_Sp20b_M_v04_.CEL.gz 11.0 Mb (ftp)(http) CEL
Processed data provided as supplementary file

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