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Status |
Public on Mar 23, 2016 |
Title |
Genome wide mapping of long noncoding (lnc) RNAs in hepatic stellate cells |
Organism |
Homo sapiens |
Experiment type |
Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Non-coding RNA profiling by high throughput sequencing
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Summary |
Hepatic stellate cells are the primary cell type responsible for development of fibrosis in chronic liver disease. We used directional RNA sequencing (RNA-seq) and chromatin immunoprecipitation and sequencing (ChIP-seq) to identify the lncRNAs expressed in human HSCs. We also identified the lncRNAs that change in expression with differentiation of nonfibrotic quiescent HSCs into fibrotic HSC myofibroblasts and those that are regulated by TGF-beta signaling. ChIP-seq was also performed to identify DNA regions occupied by H3K27ac to define super-enhancers in HSC myofibroblasts. This study identified lncRNAs expressed HSCs that may regulate fibrosis.
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Overall design |
Analysis of genome-wide lncRNA expression using RNA-seq and ChiP-seq in human HSCs under four different conditions
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Contributor(s) |
Zhou C, York SR, Mullen AC |
Citation(s) |
27007663 |
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Submission date |
Apr 21, 2015 |
Last update date |
May 15, 2019 |
Contact name |
Chan Zhou |
E-mail(s) |
zhou.chan@mgh.harvard.edu
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Phone |
7062543741
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Organization name |
Mass General Hospital, Harvard Medical School
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Department |
gastroenterology
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Lab |
Alan Mullen
|
Street address |
55 Fruit Street
|
City |
Boston |
State/province |
Massachusetts |
ZIP/Postal code |
02114 |
Country |
USA |
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Platforms (2) |
GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
GPL20301 |
Illumina HiSeq 4000 (Homo sapiens) |
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Samples (22)
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Relations |
BioProject |
PRJNA281757 |
SRA |
SRP057513 |