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Sample GSM2457394 Query DataSets for GSM2457394
Status Public on Aug 31, 2017
Title FFPE_X117741745 [X65_768_FFPE_Plate8]
Sample type RNA
 
Source name breast tissue
Organism Homo sapiens
Characteristics tissue: breast tumor-adjacent normal
age at diagnosis: 73
year of diagnosis: 1999
estrogen receptor status: Positive
alcohol intake: >10 g/day
microarray batch: 8
patient id: X117741745
nhs_cohort: NHS1
bmi_2yrs_bef_dx: 23.38251059
avg_bodysize_age1020: 1
Treatment protocol Formalin-fixed paraffin-embedded tissue blocks.
Extracted molecule total RNA
Extraction protocol Qiagen AllPrep RNA isolation kit was used to isolate total RNA.
Label biotin
Label protocol Labeling was performed according to standard Affymetrix protocols.
 
Hybridization protocol Hybridization was performed according to standard protocols.
Scan protocol Scanning was performed according to standard protocols.
Data processing Gene expression data were normalized and summarized using Robust Multiarray Average (RMA; Affymetrix Power Tools [APT] v1.18.0). Differential expression was determined using Limma with multiple hypothesis testing (Benjamini and Hochberg); Bioconductor, R.
GSE93601_ER*_tumor_*_alcohol.xlsx: Limma analyses outputs.
 
Submission date Jan 13, 2017
Last update date Aug 20, 2020
Contact name Rulla M Tamimi
E-mail(s) [email protected]
Phone 617-525-0862
Organization name Brigham and Women's Hospital
Department Medicine
Lab Channing Division of Network Medicine
Street address 181 Longwood Avenue
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
 
Platform ID GPL22920
Series (1)
GSE93601 Alcohol Consumption and Breast Tumor Gene Expression
Relations
Reanalyzed by GSM3183362

Data table header descriptions
ID_REF
VALUE Log2 RMA signal

Data table
ID_REF VALUE
TC0100001 3.25918
TC0100002 6.14789
TC0100003 6.21123
TC0100004 3.01572
TC0100005 1.23599
TC0100006 4.47947
TC0100011 6.00294
TC0100012 8.42784
TC0100013 2.13885
TC0100014 1.13429
TC0100015 3.46472
TC0100016 2.05943
TC0100017 3.38465
TC0100019 4.03673
TC0100020 3.46534
TC0100021 3.687
TC0100022 4.10952
TC0100023 3.53375
TC0100024 3.6351
TC0100025 3.8827

Total number of rows: 25979

Table truncated, full table size 454 Kbytes.




Supplementary file Size Download File type/resource
GSM2457394_X65_768_FFPE_Plate8.CEL.gz 17.9 Mb (ftp)(http) CEL
Processed data included within Sample table
Processed data are available on Series record

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