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Series GSE181512 Query DataSets for GSE181512
Status Public on Aug 06, 2021
Title Next-generation sequencing facilitates quantitative analysis of rat BMSCs in soft or stiff SA hydrogel
Organism Rattus norvegicus
Experiment type Expression profiling by high throughput sequencing
Summary Purpose: To identify genes and the molecular pathways involved in the MSCs response to extracellular matrix stiffness, we performed RNA-sequencing of MSCs which cultured in soft (2 kPa) and stiff (18 kPa) SA hydrogels.
Methods: mRNA profiles of MSCs cultured in soft (2 kPa) and stiff (18 kPa) SA hydrogel for 48 h were generated by deep sequencing, in quadruplicate, using Illumina HiSeq 2000.
Results: Using an optimized data analysis workflow, we identified 33950 transcripts in MSCs with BWA workflow.
Conclusions: Our results present the detailed analysis of MSCs transcriptomes cultured in soft (2 kPa) and stiff (18 kPa) matrix, and found that matrix stiffness dominated multiple mRNA pathways in MSCs.
Overall design The mRNA profiles of MSCs in soft and stiff hydrogel were generated by deep sequencing, in quadruplicate, using Illumina HiSeq 2000.
Contributor(s) Cai K, Lin C
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Submission date Aug 05, 2021
Last update date Aug 07, 2021
Contact name chuanchuan lin
Phone +8613896191363
Organization name Chongqing University
Street address Shayang Road, Shapingba distract,
City Chongqing
State/province China
ZIP/Postal code 400044
Country China
Platforms (1)
GPL14844 Illumina HiSeq 2000 (Rattus norvegicus)
Samples (6)
GSM5504096 Soft1
GSM5504097 Soft2
GSM5504098 Soft3
BioProject PRJNA752332
SRA SRP331209

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
GSE181512_gene_fpkm.txt.gz 2.0 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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