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Series GSE128169 Query DataSets for GSE128169
Status Public on Aug 14, 2019
Title Single-cell analysis reveals fibroblast heterogeneity and myofibroblasts in systemic sclerosis-associated interstitial lung disease
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Myofibroblasts are key effector cells in the extracellular matrix remodeling of systemic sclerosis-associated interstitial lung disease (SSc-ILD), however the diversity of fibroblast populations present in the healthy and SSc-ILD lung is unknown, and has prevented the specific study of the myofibroblast transcriptome. We sought to identify and define the transcriptomes of myofibroblasts and other mesenchymal cell populations in human healthy and SSc-ILD lungs to understand how alterations in fibroblast phenotypes lead to SSc-ILD fibrosis.
Overall design We performed droplet-based single-cell RNA-sequencing with integrated canonical correlation analysis of 13 explanted lung tissue specimens (56,196 cells) from 4 healthy control and 4 SSc-ILD patients, with findings confirmed by cellular indexing of transcriptomes and epitopes by sequencing (CITE-seq) in additional samples.

Please note that the control samples (GSM3660644-GSM3660648 in GSE128033) were re-used in the current study (as indicated in the GSM3666096-GSM3666100 sample titles).

***The GEO records contain only processed data (raw counts in sparse matrix format) as raw data is unavailable due to patient privacy concerns.
Contributor(s) Valenzi E, Bulik M, Tabib T, Morse C, Sembrat J, Trejo Bittar HE, Rojas M, Lafyatis R
Citation(s) 31405848
Submission date Mar 12, 2019
Last update date Aug 16, 2019
Contact name Tracy Tabib
Organization name University of Pittsburgh
Department Department of Medicine
Lab Laboratory of Robert Lafyatis
Street address 200 Lothrop Street
City Pittsburgh
State/province PA
ZIP/Postal code 15213
Country USA
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (16)
GSM3666096 SC45NOR [re-used]
GSM3666097 SC56NOR [re-used]
GSM3666098 SC59NOR [re-used]
BioProject PRJNA526667

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
GSE128169_RAW.tar 1.1 Gb (http)(custom) TAR (of H5, MTX, TSV)
Processed data provided as supplementary file
Raw data not provided for this record

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