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Series GSE102506 Query DataSets for GSE102506
Status Public on Mar 25, 2019
Title Extracellular matrix (ECM) stiffness and collagen-1 (col-1) responsive genes in 3D cultured mammary epithelial cells
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary We report the expression profiles of MCF10A cells encapsulated in hydrogels of varying stiffness and composition. Cells were encapsulated for 7 days in either 1.) soft alginate and reconstituted basement membrane (rBM), 2.) stiff alginate and rBM, 3,) soft col-1 and rBM, or 4.) stiff col-1. We find global gene expression changes in response to enhanced ECM stiffness, independent of expression changes in response to col-1 exposure. These results provide a comprehensive study of the gene expression changes associated with increased ECM stiffness in addition to the gene expression changes associated with increased col-1 concentration in combination with, and independent of, ECM stiffness.
Overall design Expression profiling of MCF10A cells in four hydrogel conditions were sequenced in duplicate via Illumina HiSeq.
Contributor(s) Lee JY, Chaudhuri O
Citation(s) 31015465
Joanna Y. Lee, Jessica Chang, Antonia A. Dominguez, Sungmin Nam, Julie Chang, Hong-pyo Lee, Sushama Varma, Lei S. Qi, Robert B. West, Ovijit Chaudhuri. YAP-independent mechanotransduction drives breast cancer progression. bioRxiv 495499. doi:10.1101/495499
Submission date Aug 10, 2017
Last update date May 15, 2019
Contact name Jessica Kay Chang
Organization name Stanford University
Department Genetics
Lab Baker
Street address 300 Pasteur Drive, Alway Building M311
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (8)
GSM2739773 softIPN_rep1_RNAseq
GSM2739774 softIPN_rep2_RNAseq
GSM2739775 stiffIPN_rep1_RNAseq
BioProject PRJNA397902
SRA SRP115218

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE102506_JYL_Count.Data.txt.gz 296.3 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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