scholarly journals A genome-wide long noncoding RNA CRISPRi screen identifies PRANCR as a novel regulator of epidermal homeostasis

2019 ◽  
Vol 30 (1) ◽  
pp. 22-34 ◽  
Author(s):  
Pengfei Cai ◽  
Auke B.C. Otten ◽  
Binbin Cheng ◽  
Mitsuhiro A. Ishii ◽  
Wen Zhang ◽  
...  
Keyword(s):  
Long Noncoding Rna ◽  
Noncoding Rna ◽  
Genome Wide ◽  
A Genome ◽  
Epidermal Homeostasis

scholarly journals A genome-wide comprehensively analyses of long noncoding RNA profiling and metastasis associated lncRNAs in renal cell carcinoma

Oncotarget ◽  
2017 ◽  
Vol 8 (50) ◽  
pp. 87773-87781 ◽  
Author(s):  
Xue Xu ◽  
Yongcan Xu ◽  
Chuanqin Shi ◽  
Baoyu Wang ◽  
Xiang Yu ◽  
...  
Keyword(s):  
Renal Cell Carcinoma ◽  
Cell Carcinoma ◽  
Long Noncoding Rna ◽  
Renal Cell ◽  
Noncoding Rna ◽  
Rna Profiling ◽  
Genome Wide ◽  
A Genome

scholarly journals A genome-wide analysis of long noncoding RNA profile identifies differentially expressed lncRNAs associated with Esophageal cancer

2018 ◽  
Vol 7 (8) ◽  
pp. 4181-4189 ◽  
Author(s):  
Wenjia Liu ◽  
Yiyang Zhang ◽  
Min Chen ◽  
Liangliang Shi ◽  
Lei Xu ◽  
...  
Keyword(s):  
Esophageal Cancer ◽  
Long Noncoding Rna ◽  
Noncoding Rna ◽  
Differentially Expressed ◽  
Genome Wide Analysis ◽  
Genome Wide ◽  
A Genome

scholarly journals Transcriptional Gene Silencing of the Autism-Associated Long Noncoding RNA MSNP1AS in Human Neural Progenitor Cells

2016 ◽  
Vol 38 (5) ◽  
pp. 375-383 ◽  
Author(s):  
Jessica J. DeWitt ◽  
Patrick M. Hecht ◽  
Nicole Grepo ◽  
Brent Wilkinson ◽  
Oleg V. Evgrafov ◽  
...  
Keyword(s):  
Immune Response ◽  
Chromatin Remodeling ◽  
Long Noncoding Rna ◽  
Noncoding Rna ◽  
Multiple Comparisons ◽  
Neural Progenitor ◽  
Autism Spectrum ◽  
Biological Processes ◽  
Altered Expression ◽  
Genome Wide

The long noncoding RNA MSNP1AS (moesin pseudogene 1, antisense) is a functional element that was previously associated with autism spectrum disorder (ASD) with genome-wide significance. Expression of MSNP1AS was increased 12-fold in the cerebral cortex of individuals with ASD and 22-fold in individuals with a genome-wide significantly associated ASD genetic marker on chromosome 5p14.1. Overexpression of MSNP1AS in human neuronal cells caused decreased expression of moesin protein, which is involved in neuronal process stability. In this study, we hypothesize that MSNP1AS knockdown impacts global transcriptome levels. We transfected the human neural progenitor cell line SK- N-SH with constructs that caused a 50% suppression of MSNP1AS expression. After 24 h, cells were harvested for total RNA isolation. Strand-specific RNA sequencing analysis indicated altered expression of 1,352 genes, including altered expression of 318 genes following correction for multiple comparisons. Expression of the OAS2 gene was increased >150-fold, a result that was validated by quantitative PCR. Gene ontology analysis of the 318 genes with altered expression following correction for multiple comparisons indicated that upregulated genes were significantly enriched for genes involved in immune response, and downregulated genes were significantly enriched for genes involved in chromatin remodeling. These data indicate multiple transcriptional and translational functions of MSNP1AS that impact ASD-relevant biological processes. Chromatin remodeling and immune response are biological processes implicated by genes with rare mutations associated with ASD. Our data suggest that the functional elements implicated by association of common genetic variants impact the same biological processes, suggesting a possible shared common molecular pathway of ASD.

scholarly journals Genome-wide polygenic analysis of multiple sclerosis markers

2021 ◽  
Vol 13 (1S) ◽  
pp. 31-38
Author(s):  
Ya. R. Timasheva ◽  
T. R. Nasibullin ◽  
I. A. Tuktarova ◽  
V. V. Erdman ◽  
T. R. Galiullin ◽  
...  
Keyword(s):  
Multiple Sclerosis ◽  
Ethnic Groups ◽  
Noncoding Rna ◽  
Polymorphism Analysis ◽  
Polymorphic Loci ◽  
Lectin Domain ◽  
Genome Wide ◽  
A Genome ◽  
Disease Associations ◽  
Polygenic Analysis

Objective: to perform a genome-wide polygenic analysis of multiple sclerosis (MS) markers in the ethnic groups of Bashkirs, Russians, and Tatars living in the Republic of Bashkortostan (Russian Federation).Patients and methods. Genotyping was performed using allele-specific polymerase chain reaction (PCR) and PCR-restriction fragment length polymorphism analysis of genes of the human leukocyte differentiation antigens CD6 (rs17824933), CD40 (rs6074022), CD58 (rs2300747), CD86 (rs9282641), transcription factors SOX8 (rs2744148) and ZBTB46 (rs6062314), beta-mannosidase MANBA (rs228614), C-type lectin domain CLEC16A (rs12708716), ribosomal protein S6 kinase B1 RPS6KB1 (rs180515), and long noncoding RNA gene PVT1 (rs759648) in 644 patients with MS and 1408 controls. Multilocus analysis of the disease associations with combinations of genotypes and alleles of the studied polymorphic loci was performed using the APSampler algorithm.Results and discussion. We determined the distribution of genotype and allele frequencies of the studied polymorphic loci in the ethnic groups of Bashkirs, Russians, and Tatars. We also observed disease associations with CD58 (rs2300747) and RPS6KB1 (rs180515) polymorphic loci in Russian men, CD86 (rs9282641) in Russian, PVT1 (rs759648) in Tatar women, CD40 (rs6074022) in Bashkir men, and identified 19 combinations of genotypes and/or alleles significantly associated with MS.Conclusion. Based on the genome-wide polygenic analysis of MS markers, we identified ethno- and gender-specific combined markers of the disease susceptibility.

scholarly journals Genome-wide analysis of long noncoding RNA and mRNA profiles in PRRSV-infected porcine alveolar macrophages

Genomics ◽  
2020 ◽  
Vol 112 (2) ◽  
pp. 1879-1888
Author(s):  
Junjing Wu ◽  
Xianwen Peng ◽  
Mu Qiao ◽  
Haizhong Zhao ◽  
Mingbo Li ◽  
...  
Keyword(s):  
Alveolar Macrophages ◽  
Long Noncoding Rna ◽  
Noncoding Rna ◽  
Genome Wide Analysis ◽  
Genome Wide

Genome-wide analysis of long noncoding RNA signature in human colorectal cancer

Gene ◽  
2015 ◽  
Vol 556 (2) ◽  
pp. 227-234 ◽  
Author(s):  
Yao Xue ◽  
Gaoxiang Ma ◽  
Dongying Gu ◽  
Lingjun Zhu ◽  
Qiuhan Hua ◽  
...  
Keyword(s):  
Colorectal Cancer ◽  
Long Noncoding Rna ◽  
Noncoding Rna ◽  
Human Colorectal Cancer ◽  
Genome Wide Analysis ◽  
Genome Wide ◽  
Rna Signature

scholarly journals Genome-wide analysis of long noncoding RNA stability

2012 ◽  
Vol 22 (5) ◽  
pp. 885-898 ◽  
Author(s):  
M. B. Clark ◽  
R. L. Johnston ◽  
M. Inostroza-Ponta ◽  
A. H. Fox ◽  
E. Fortini ◽  
...  
Keyword(s):  
Long Noncoding Rna ◽  
Noncoding Rna ◽  
Rna Stability ◽  
Genome Wide Analysis ◽  
Genome Wide
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