Beyond mRNA: The role of non-coding RNAs in normal and aberrant hematopoiesis

Wilkes, Mark C.; Repellin, Claire E.; Sakamoto, Kathleen M.

doi:10.1016/j.ymgme.2017.07.008

Cited by 16 publications

(13 citation statements)

References 135 publications

(167 reference statements)

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“…lncRNAs are a type of ncRNAs that are more than 200 bps in length (Wilkes et al, 2017). LncRNAs were observed to be dysregulated in multiple human diseases, such as diabetes, cardiovascular diseases and cancers (Yang et al, 2017).…”

Section: Introductionmentioning

confidence: 99%

WGCNA Co-Expression Network Analysis Reveals ILF3-AS1 Functions as a CeRNA to Regulate PTBP1 Expression by Sponging miR-29a in Gastric Cancer

Ren

Shang

et al. 2020

Front. Genet.

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Gastric cancer (GC) is one of the most common types of human cancers worldwide. However, the detail mechanisms underlying GC progression remained to be investigated. The present study identified 2823 differently expressed mRNAs and 441 differently expressed lncRNAs in GC. WGCNA was conducted to identify highly correlated lncRNAs and mRNAs. Bioinformatics analysis observed that these dysregulated lncRNAs were significantly associated with the regulation of angiogenesis, cell division, cell-cell adhesion, blood vessel development, adaptive immune response, gastric acid secretion, immune response. Co-expression analysis identified ILF3-AS1 was a key lncRNA involved in regulating GC progression. Loss of function assays showed that knockdown of ILF3-AS1 significantly suppressed GC cell proliferation and metastasis. Mechanically, the results indicate that ILF3-AS1 could enhance PTBP3 expression as an miR-29a sponge, thereby promoting the proliferation and metastasis of GC cells. Our work suggests that the ILF3-AS1/miR-29a/PTBP3 axis may be a potential target for the clinical diagnosis and treatment of GC.

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Section: Introductionmentioning

confidence: 99%

WGCNA Co-Expression Network Analysis Reveals ILF3-AS1 Functions as a CeRNA to Regulate PTBP1 Expression by Sponging miR-29a in Gastric Cancer

Ren

Shang

et al. 2020

Front. Genet.

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“…More recent researches indicate that due to their extended lengths, lncRNAs could regulate protein expression by binding and sequestering their mRNAs. That is why some lncRNAs are also known as miRNA sponges 24 . It has been suggested that both miRNAs and lncRNAs are involved in the regulation of myeloid cell lifespan 14,15 .…”

Section: Discussionmentioning

confidence: 99%

Identification of key protein-coding genes and lncRNAs in spontaneous neutrophil apoptosis

Jiang

Zhang

et al. 2019

Sci Rep

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Polymorphonuclear leukocytes (PMNs) are the most abundant cells of the innate immune system in humans, and spontaneous PMN apoptosis plays crucial roles in maintaining neutrophil homeostasis and resolving inflammation. However, the detailed mechanisms of spontaneous PMN apoptosis remain to be elucidated. By analysis of the public microarray dataset GSE37416, we identified a total of 3050 mRNAs and 220 long non-coding RNAs (lncRNAs) specifically expressed during PMN apoptosis in a time-dependent manner. By short time-series expression miner (STEM) analysis, Gene Ontology analysis, and lncRNA-mRNA co-expression network analyses, we identified some key molecules specifically related to PMN apoptosis. STEM analysis identified 12 gene profiles with statistically significance, including 2 associated with apoptosis. Protein-protein interaction (PPI) network analysis of the genes from 2 profiles and lncRNA-mRNA co-expression network analysis identified a 12-gene hub (including NFκB1 and BIRC3) associated with apoptosis, as well as 2 highly correlated lncRNAs (THAP9-AS1, and AL021707.6). We experimentally examined the expression profiles of two mRNA (NFκB1 and BIRC3) and two lncRNAs (THAP9-AS1 andAL021707.6) by quantitative real-time polymerase chain reaction to confirm their time-dependent expressions. These data altogether demonstrated that these genes are involved in the regulation of spontaneous neutrophil apoptosis and the corresponding gene products could also serve as potential key regulatory molecules for PMN apoptosis and/or therapeutic targets for over-reactive inflammatory response caused by the abnormality in PMN apoptosis.

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“…Data indicate that miRNAs are expressed in a temporally and spatially controlled manner within the brain and are also well‐known contributors to synaptic plasticity, neuronal differentiation, and development . MicroRNAs also play a major role in immune functioning, hematopoiesis, proliferation, neurodegenerative disorders, embryonic development, and in‐born errors of metabolism . miRNAs have been utilized as therapeutic targets, as they are reported to act as biomarkers for several diseases .…”

Section: Types Of Ncrnasmentioning

confidence: 99%

Noncoding RNAs in ischemic stroke: time to translate

Kaur

Sarmah

Saraf

et al. 2018

Annals of the New York Academy of Sciences

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Stroke is devastating and a major cause of morbidity and mortality around globe. Current interventions for ischemic stroke include thrombolytics, clot retrieval devices and/or intravenous tissue plasminogen activators (tPA), the latter two becoming the first line of treatment. Owing to the limitations of tPA to elicit therapeutic benefits in a narrow time window, new pharmacological interventions are needed. Exploring noncoding RNAs (ncRNAs) may be a promising option for stroke treatment. ncRNAs are endogenous molecules that play key roles in the pathophysiology of many functions and diseases, including during ischemic stroke. Small ncRNAs such as microRNAs, Piwi-interacting RNAs, and long ncRNAs affect the genetic machinery at molecular levels. These small ncRNAs, along with their target genes and RNA transcripts, are involved in repair and recovery mechanisms after stroke. The potential of ncRNAs to regulate physiological processes highlights their potential therapeutic importance. Here, we enumerate the details and roles of different types of ncRNAs as biomarkers and targets for future stroke intervention.

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Beyond mRNA: The role of non-coding RNAs in normal and aberrant hematopoiesis

Cited by 16 publications

References 135 publications

WGCNA Co-Expression Network Analysis Reveals ILF3-AS1 Functions as a CeRNA to Regulate PTBP1 Expression by Sponging miR-29a in Gastric Cancer

WGCNA Co-Expression Network Analysis Reveals ILF3-AS1 Functions as a CeRNA to Regulate PTBP1 Expression by Sponging miR-29a in Gastric Cancer

Identification of key protein-coding genes and lncRNAs in spontaneous neutrophil apoptosis

Noncoding RNAs in ischemic stroke: time to translate

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