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Series GSE180139 Query DataSets for GSE180139
Status Public on Jul 15, 2022
Title single-cell RNA-seq of murine and human lungs by TAS-Seq
Organisms Homo sapiens; Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Single-cell RNA-sequencing (scRNA-seq) is valuable for analyzing cellular heterogeneity. Cell composition accuracy is critical for analyzing cell-cell interaction networks from scRNA-seq data because cell abundancy might affect to the network. We developed terminator-assisted solid-phase cDNA amplification and sequencing (TAS-Seq), a scRNA-seq method that relied on terminator, terminal transferase, and nanowell/beads-based scRNA-seq platform, that could acquire scRNA-seq data with higher correlation with flow-cytometric data, gene-detection sensitivity, and robustness than widely-used methods.
Overall design To clarify performance of TAS-Seq, we analyzed 8-week-old C57BL/6J female mouse lung and lungs from lung cancer patients with pulmonary fibrosis who underwent curative surgical resection from August 2015 to December 2019 at Nara Medical University Hospital, who was diagnosed as rheumatoid arthritic-associated interstitial lung disease by TAS-Seq.
Contributor(s) Shichino S, Hashimoto S, Kitabatake M, Nakajima T, Ouji-Sageshima N, Hontsu S, Sawabata N, Kawaguchi T, Ueha S, Matsushima K
Citation(s) 35760847
Submission date Jul 14, 2021
Last update date Jul 17, 2022
Contact name Shigeyuki Shichino
Organization name Tokyo University of Science
Department Department of Molecular regulation of Inflammatory and Immune Diseases
Street address 2641, Yamasaki, Noda-shi
City Chiba
ZIP/Postal code 278-0022
Country Japan
Platforms (2)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (3)
GSM5454348 BD Rhapsody WTA [UTlung]
GSM5454349 BD Rhapsody WTA [RAILD1-NF]
GSM5454350 BD Rhapsody WTA [RAILD1-F]
This SubSeries is part of SuperSeries:
GSE180149 single-cell RNA-seq by TAS-Seq
BioProject PRJNA746669
SRA SRP328400

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
GSE180139_RAW.tar 51.9 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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