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Series GSE57968 Query DataSets for GSE57968
Status Public on Dec 01, 2014
Title Methylome remodeling in regional breast cancer metastasis [expression]
Organism Homo sapiens
Experiment type Expression profiling by array
Summary We sought to characterize methylome remodeling during regional metastasis. We profiled the DNA methylome (n=44) and transcriptome (n=36) of matched primary breast tumors and regional metastases.
Overall design All paired samples (n = 88) were obtained following surgical resection at the MSKCC as part of routine clinical care, and snap frozen. Tumors were obtained in accordance with Institutional Review Board policies at the MSKCC. Each sample was examined histologically by a breast pathologist and microdissected to achieve >70% tumor cell content. Genomic DNA or RNA was extracted using the DNeasy kit (Qiagen) or RNeasy Kit (Qiagen) as per the manufacturer’s instructions. Expression analysis of tumors was performed using the Affymetrics U133 2.0 microarray (Affymetrix). Affymetrix CEL files were imported into the Partek Genomics Suite 6.1 (Partek), using RMA normalization.
Citation(s) 28813674, 25083786
Submission date May 27, 2014
Last update date Jun 14, 2020
Contact name Marsha Reyngold
Organization name Memorial Sloan-Kettering Cancer Center
Department Radiation Oncology
Lab Timothy Chan
Street address 1275 York Ave
City New York
State/province NY
ZIP/Postal code 10065
Country USA
Platforms (1)
GPL571 [HG-U133A_2] Affymetrix Human Genome U133A 2.0 Array
Samples (72)
GSM1398806 1
GSM1398807 2
GSM1398808 9
This SubSeries is part of SuperSeries:
GSE59000 Methylome remodeling in regional breast cancer metastasis
BioProject PRJNA248618

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
GSE57968_RAW.tar 129.5 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table

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