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Long noncoding RNAs expressed in human hepatic stellate cells form networks with extracellular matrix proteins

Overview of attention for article published in Genome Medicine, March 2016
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  • In the top 25% of all research outputs scored by Altmetric
  • Good Attention Score compared to outputs of the same age (78th percentile)

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9 X users
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1 patent

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59 Mendeley
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Title
Long noncoding RNAs expressed in human hepatic stellate cells form networks with extracellular matrix proteins
Published in
Genome Medicine, March 2016
DOI 10.1186/s13073-016-0285-0
Pubmed ID
Authors

Chan Zhou, Samuel R. York, Jennifer Y. Chen, Joshua V. Pondick, Daniel L. Motola, Raymond T. Chung, Alan C. Mullen

Abstract

Hepatic fibrosis is the underlying cause of cirrhosis and liver failure in nearly every form of chronic liver disease, and hepatic stellate cells (HSCs) are the primary cell type responsible for fibrosis. Long noncoding RNAs (lncRNAs) are increasingly recognized as regulators of development and disease; however, little is known about their expression in human HSCs and their function in hepatic fibrosis. We performed RNA sequencing and ab initio assembly of RNA transcripts to define the lncRNAs expressed in human HSC myofibroblasts. We analyzed chromatin immunoprecipitation data and expression data to identify lncRNAs that were regulated by transforming growth factor beta (TGF-β) signaling, associated with super-enhancers and restricted in expression to HSCs compared with 43 human tissues and cell types. Co-expression network analyses were performed to discover functional modules of lncRNAs, and principle component analysis and K-mean clustering were used to compare lncRNA expression in HSCs with other myofibroblast cell types. We identified over 3600 lncRNAs that are expressed in human HSC myofibroblasts. Many are regulated by TGF-β, a major fibrotic signal, and form networks with genes encoding key components of the extracellular matrix (ECM), which is the substrate of the fibrotic scar. The lncRNAs directly regulated by TGF-β signaling are also enriched at super-enhancers. More than 400 of the lncRNAs identified in HSCs are uniquely expressed in HSCs compared with 43 other human tissues and cell types and HSC myofibroblasts demonstrate different patterns of lncRNA expression compared with myofibroblasts originating from other tissues. Co-expression analyses identified a subset of lncRNAs that are tightly linked to collagen genes and numerous proteins that regulate the ECM during formation of the fibrotic scar. Finally, we identified lncRNAs that are induced during progression of human liver disease. lncRNAs are likely key contributors to the formation and progression of fibrosis in human liver disease.

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Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 59 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Japan 1 2%
United States 1 2%
China 1 2%
France 1 2%
Unknown 55 93%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 14 24%
Researcher 14 24%
Student > Bachelor 5 8%
Student > Master 5 8%
Student > Doctoral Student 3 5%
Other 7 12%
Unknown 11 19%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 18 31%
Medicine and Dentistry 9 15%
Agricultural and Biological Sciences 7 12%
Pharmacology, Toxicology and Pharmaceutical Science 2 3%
Computer Science 2 3%
Other 8 14%
Unknown 13 22%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 8. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 04 January 2024.
All research outputs
#4,519,269
of 25,223,158 outputs
Outputs from Genome Medicine
#891
of 1,560 outputs
Outputs of similar age
#64,921
of 306,981 outputs
Outputs of similar age from Genome Medicine
#26
of 35 outputs
Altmetric has tracked 25,223,158 research outputs across all sources so far. Compared to these this one has done well and is in the 82nd percentile: it's in the top 25% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 1,560 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 27.1. This one is in the 42nd percentile – i.e., 42% of its peers scored the same or lower than it.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 306,981 tracked outputs that were published within six weeks on either side of this one in any source. This one has done well, scoring higher than 78% of its contemporaries.
We're also able to compare this research output to 35 others from the same source and published within six weeks on either side of this one. This one is in the 28th percentile – i.e., 28% of its contemporaries scored the same or lower than it.