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Sample GSM3417974 Query DataSets for GSM3417974
Status Public on Oct 05, 2021
Title P_54
Sample type RNA
 
Source name HEMB
Organism Homo sapiens
Characteristics condition: DCM with LV systolic dysfunction (LVEF < 45 percent) and symptoms of HF
Extracted molecule total RNA
Extraction protocol Column based RNA extraction (Qiagen) was performed following the manufacturers instructions for total RNA isolation from fibrous tissues, including purifications step using Charge Switch Total RNA Cell Kit. RNA integrity was checked using RNA 6000 Pico LabChip on a Bioanalyzer 2100 (Agilent)
Label biotin
Label protocol Two round T7 RNA polymerase mediated linear amplification was performed with 14-25ng RNA starting amount according to the Affymetrix manufacturers Two Cycle Target Labelling protocol
 
Hybridization protocol Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the GeneChip System Confocal Scanner 3000.
Description patient
Data processing Expression raw data were transferred to Rosetta Resolver 7.2 (Rosetta Inpharmatics LLC) and Rosetta extraction algorithm was performed. For further analyses probe sets exhibiting p<0.05 were used. The pipeline calculates expression summaries using MAS5 via Affymetrix Power Tools from scans using both the perfect-match (PM) and mis-match (MM) probes. It returns only sequence-level results. The resulting P-values may be used as a guideline to decide expression presence or absence. This pipeline combines the expression values for individual profiles using an arithmetic average and computes the error of the result. P-value is the geometric mean of the profile-level P-values. Results are computed from sequence-level data using group processing. All profiles in the experiment definition are normalized together.
 
Submission date Oct 05, 2018
Last update date Oct 05, 2021
Contact name Sabine Ameling
Organization name Universitätsmedizin Greifswald
Department Interfakultäres Institut für Genetik und Funktionelle Genomforschung
Lab Funktionelle Genomforschung
Street address Jahnstraße 15a
City Greifswald
ZIP/Postal code 17487
Country Germany
 
Platform ID GPL570
Series (1)
GSE120895 Correlation of clinical parameters of heart failure with myocardial gene expression in dilated cardiomyopathy

Data table header descriptions
ID_REF
VALUE normalized signal
P-Value

Data table
ID_REF VALUE P-Value
1570571_at -5.91752 0.69532
1570572_at -16.78331 0.91546
1570574_at 2.96428 0.41022
1570575_at -25.97527 0.97762
1570578_at 6.15032 0.29008
1570579_at -11.7775 0.84526
1570584_at 6.04081 0.30872
1570585_at -3.70369 0.61113
1570587_at 8.04184 0.27
1570588_at -47.46355 0.99929
1570592_a_at -14.71374 0.84686
1570593_at -6.54045 0.68246
1570594_at -5.72501 0.69039
1570596_at 3.0553 0.39877
1570597_at 3.8358 0.37906
1570600_at -2.47709 0.5606
1570601_at -21.23685 0.92797
1570607_at -0.49693 0.51218
1570618_at -18.55584 0.92982
1570621_at -2.27112 0.57863

Total number of rows: 54675

Table truncated, full table size 1463 Kbytes.




Supplementary file Size Download File type/resource
GSM3417974_B54vorIA.CEL.gz 4.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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