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Series GSE47994 Query DataSets for GSE47994
Status Public on Jul 16, 2022
Title Tumor-infiltrating lymphocytes, prognosis and trastuzumab benefit in early-stage breast cancer patients from the FinHER trial
Organism Homo sapiens
Experiment type Expression profiling by array
Summary The clinical relevance of tumor infiltrating lymphocytes (TILs) in breast cancer (BC) is not firmly established. We aimed to validate previous prognostic findings in triple negative breast cancer (TNBC) and investigate predictive associations with trastuzumab benefit in HER2 overexpressing disease (HER2+).
 
Overall design The Finland Herceptin (FinHER) trial (doi.org/10.1186/ISRCTN76560285) was an adjuvant, phase III study enrolling 1010 early-stage BC patients. Those with HER2+ disease (n=232) were randomized to 9 weeks of trastuzumab or no trastuzumab in addition to chemotherapy. Two pathologists independently quantified TILs from the 935 (92.6%) available slides. Distant disease-free survival (DDFS), overall survival (OS), and interactions with trastuzumab were studied. During the FinHER trial, primary breast cancer specimens were collected from women who had undergone mastectomy or breast-conserving surgery and preserved as formalin-fixed paraffin-embedded (FFPE) tissue blocks. RNA extracted from FFPE specimens with Qiagen's miRNeasy FFPE Kit was processed with SensationPlusTM FFPE Amplification and 3'IVT Labeling Kit. Gene expression profiles were derived from the processed RNA using the PrimeView Human Genome U219 Array Plate on the GeneTitanTM instrument.
 
Contributor(s) Loi S, Michiels S, Salgado R, Sirtaine N, Jose V, Fumagalli D, Brown D, Kellokumpu-Lehtinen P, Bono P, Kataja V, Desmedt C, Piccart M, Loibl S, Untch M, Denkert C, Smyth M, Joensuu H, Sotiriou C
Citation(s) 24608200, 19884557, 16495393
https://doi.org/10.31219/osf.io/qvzxr
Submission date Jun 16, 2013
Last update date Mar 10, 2024
Contact name Christos Sotiriou
E-mail(s) christos.sotiriou@hubruxelles.be
Phone +32 2 541 34 57
Organization name Institut Jules Bordet – Université Libre de Bruxelles (ULB)
Lab Breast Cancer Translational Research Laboratory J.C. Heuson (ULB 290)
Street address Rue Meylemeersch 90
City Brussels
ZIP/Postal code 1070
Country Belgium
 
Platforms (1)
GPL13667 [HG-U219] Affymetrix Human Genome U219 Array
Samples (337)
GSM1164295 Breast Cancer 3
GSM1164296 Breast Cancer 4
GSM1164297 Breast Cancer 6
Relations
BioProject PRJNA208626

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE47994_RAW.tar 658.6 Mb (http)(custom) TAR (of CEL)
GSE47994_README.txt 1.6 Kb (ftp)(http) TXT
GSE47994_reprocessed_all_samples.zip 77.5 Mb (ftp)(http) ZIP
GSE47994_reprocessed_sample_filtered.zip 69.3 Mb (ftp)(http) ZIP
Processed data included within Sample table

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