scholarly journals Construction and Integrated Analysis of Competitive Endogenous Long Non-Coding RNA Network in Thoracic Aortic Dissection

2021 ◽  
Vol Volume 14 ◽  
pp. 6863-6873
Author(s):  
Yue Shao ◽  
Jun Luo ◽  
Liu Ye ◽  
Hao-Yu Ran ◽  
Hao-Ming Shi ◽  
...  
Keyword(s):  
Aortic Dissection ◽  
Integrated Analysis ◽  
Thoracic Aortic Dissection ◽  
Non Coding Rna ◽  
Long Non Coding Rna

scholarly journals Integrated Analysis of Long Non-Coding RNA and mRNA Expression Profiles in Testes of Calves and Sexually Mature Wandong Bulls (Bos taurus)

Animals ◽  
2021 ◽  
Vol 11 (7) ◽  
pp. 2006
Author(s):  
Hongyu Liu ◽  
Ibrar Muhammad Khan ◽  
Huiqun Yin ◽  
Xinqi Zhou ◽  
Muhammad Rizwan ◽  
...  
Keyword(s):  
Target Genes ◽  
Expression Profiles ◽  
Age Groups ◽  
Adherens Junction ◽  
Integrated Analysis ◽  
Sequencing Data ◽  
Non Coding Rna ◽  
Non Coding Rnas ◽  
Rna Interaction ◽  
Long Non Coding Rna

The mRNAs and long non-coding RNAs axes are playing a vital role in the regulating of post-transcriptional gene expression. Thereby, elucidating the expression pattern of mRNAs and long non-coding RNAs underlying testis development is crucial. In this study, mRNA and long non-coding RNAs expression profiles were investigated in 3-month-old calves and 3-year-old mature bulls’ testes by total RNA sequencing. Additionally, during the gene level analysis, 21,250 mRNAs and 20,533 long non-coding RNAs were identified. As a result, 7908 long non-coding RNAs (p-adjust < 0.05) and 5122 mRNAs (p-adjust < 0.05) were significantly differentially expressed between the distinct age groups. In addition, gene ontology and biological pathway analyses revealed that the predicted target genes are enriched in the lysine degradation, cell cycle, propanoate metabolism, adherens junction and cell adhesion molecules pathways. Correspondingly, the RT-qPCR validation results showed a strong consistency with the sequencing data. The source genes for the mRNAs (CCDC83, DMRTC2, HSPA2, IQCG, PACRG, SPO11, EHHADH, SPP1, NSD2 and ACTN4) and the long non-coding RNAs (COX7A2, COX6B2, TRIM37, PRM2, INHBA, ERBB4, SDHA, ATP6VOA2, FGF9 and TCF21) were found to be actively associated with bull sexual maturity and spermatogenesis. This study provided a comprehensive catalog of long non-coding RNAs in the bovine testes and also offered useful resources for understanding the differences in sexual development caused by the changes in the mRNA and long non-coding RNA interaction expressions between the immature and mature stages.

scholarly journals Integrated analysis of long non-coding RNA and mRNA expression in different colored skin of koi carp

BMC Genomics ◽  
2019 ◽  
Vol 20 (1) ◽  
Author(s):  
Mingkun Luo ◽  
Lanmei Wang ◽  
Haoran Yin ◽  
Wenbin Zhu ◽  
Jianjun Fu ◽  
...  
Keyword(s):  
Mrna Expression ◽  
Integrated Analysis ◽  
Koi Carp ◽  
Non Coding Rna ◽  
Long Non Coding Rna

scholarly journals Integrated analysis of lncRNA–mRNA networks associated with an SLA titanium surface reveals the potential role of HIF1A-AS1 in bone remodeling

RSC Advances ◽  
2020 ◽  
Vol 10 (35) ◽  
pp. 20972-20990
Author(s):  
Yan Zheng ◽  
Yunfei Zheng ◽  
Lingfei Jia ◽  
Yu Zhang ◽  
Ye Lin
Keyword(s):  
Osteogenic Differentiation ◽  
Bone Remodeling ◽  
P38 Mapk ◽  
Titanium Surface ◽  
Potential Role ◽  
Integrated Analysis ◽  
Non Coding Rna ◽  
Long Non Coding Rna

Long non-coding RNA HIF1A-AS1 plays a role in SLA titanium surface-induced osteogenic differentiation of hBMSCs by regulating p38 MAPK.

scholarly journals Contiguous Erosion of the Inactive X in Human Pluripotency Concludes With Global DNA Hypomethylation

2020 ◽  
Author(s):  
Prakhar Bansal ◽  
Stefan F. Pinter
Keyword(s):  
X Chromosome ◽  
Pluripotent Stem Cells ◽  
Regulatory Element ◽  
Chromatin Accessibility ◽  
Integrated Analysis ◽  
Epigenetic Landscape ◽  
Dna Hypomethylation ◽  
Non Coding Rna ◽  
Genome Wide ◽  
Long Non Coding Rna

SUMMARYFemale human pluripotent stem cells (hPSCs) are prone to undergoing X chromosome erosion (XCE), a progressive loss of key epigenetic features on the inactive X that initiates with repression of XIST, the long non-coding RNA required for X inactivation. As a result, previously silenced genes on the eroding X (Xe) reactivate, some of which are thought to provide selective advantages. To-date, the sporadic and progressive nature of XCE has largely obscured its scale, dynamics, and key transition events.To address this knowledge gap, we performed an integrated analysis of DNA methylation (DNAme), chromatin accessibility, and gene expression across hundreds of hPSC samples. Differential methylation across the Xe enables ordering female hPSCs across a trajectory of XCE from initiation to terminal stages. Our results identify a crucial cis-regulatory element for XIST expression, trace contiguously growing domains of reactivation to a few euchromatic origins on the Xi, and indicate that the late-stage Xe impairs DNAme genome-wide. Surprisingly, from this altered epigenetic landscape emerge select features of naïve pluripotency, suggesting its link to X chromosome dosage may be partially conserved in human embryonic development.

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