Results 1 to 10 of about 6,900,738 (371)

Deep Survey of GABAergic Interneurons: Emerging Insights From Gene-Isoform Transcriptomics. [PDF]

Front Mol Neurosci, 2019
GABAergic interneuron diversity is a key feature in the brain that helps to create different brain activity patterns and behavioral states. Cell type classification schemes—based on anatomical, physiological and molecular features—have provided us with a
Que L, Winterer J, Földy C.
europepmc   +2 more sources

Splice Expression Variation Analysis (SEVA) for inter-tumor heterogeneity of gene isoform usage in cancer. [PDF]

Bioinformatics, 2018
Motivation Alternative splicing events (ASE) cause expression of a variable repertoire of potential protein products that are critical to carcinogenesis. Current methods to detect ASEs in tumor samples compare mean expression of gene isoforms relative to
Afsari B, Guo T, Considine M, Florea L, Kagohara LT, Stein-O'Brien GL, Kelley D, Flam E, Zambo KD, Ha PK, Geman D, Ochs MF, Califano JA, Gaykalova DA, Favorov AV, Fertig EJ.   +15 more
europepmc   +2 more sources

IDP-ASE: haplotyping and quantifying allele-specific expression at the gene and gene isoform level by hybrid sequencing. [PDF]

Nucleic Acids Res, 2017
Allele-specific expression (ASE) is a fundamental problem in studying gene regulation and diploid transcriptome profiles, with two key challenges: (i) haplotyping and (ii) estimation of ASE at the gene isoform level.
Deonovic B, Wang Y, Weirather J, Wang XJ, Au KF.   +4 more
europepmc   +2 more sources

Cross-ancestry atlas of gene, isoform, and splicing regulation in the developing human brain. [PDF]

Science
Neuropsychiatric genome-wide association studies (GWASs), including those for autism spectrum disorder and schizophrenia, show strong enrichment for regulatory elements in the developing brain.
Wen C, Margolis M, Dai R, Zhang P, Przytycki PF, Vo DD, Bhattacharya A, Matoba N, Tang M, Jiao C, Kim M, Tsai E, Hoh C, Aygün N, Walker RL, Chatzinakos C, Clarke D, Pratt H, PsychENCODE Consortium†, Peters MA, Gerstein M, Daskalakis NP, Weng Z, Jaffe AE, Kleinman JE, Hyde TM, Weinberger DR, Bray NJ, Sestan N, Geschwind DH, Roeder K, Gusev A, Pasaniuc B, Stein JL, Love MI, Pollard KS, Liu C, Gandal MJ, PsychENCODE Consortium.   +38 more
europepmc   +2 more sources

Gene isoform specificity through enhancer-associated antisense transcription. [PDF]

PLoS ONE, 2012
Enhancers and antisense RNAs play key roles in transcriptional regulation through differing mechanisms. Recent studies have demonstrated that enhancers are often associated with non-coding RNAs (ncRNAs), yet the functional role of these enhancer:ncRNA ...
Courtney S Onodera, Jason G Underwood, Sol Katzman, Frank Jacobs, David Greenberg, Sofie R Salama, David Haussler   +6 more
doaj   +2 more sources

Oleoyl-CoA Is the Major de NovoProduct of Stearoyl-CoA Desaturase 1 Gene Isoform and Substrate for the Biosynthesis of the Harderian Gland 1-Alkyl-2,3-diacylglycerol [PDF]

Journal of Biological Chemistry, 2001
1-Alkyl-2,3-diacylglycerol (ADG) is a unique neutral lipid found in the eyeball-associated Harderian gland (HG) of the mouse and acts as a lubricant to facilitate eyelid movement.
Makoto Miyazaki, Hyoun-Ju Kim, Weng Chi Man, James M. Ntambi   +3 more
openalex   +2 more sources

Transcription of a 5’ extended mRNA isoform directs dynamic chromatin changes and interference of a downstream promoter [PDF]

eLife, 2017
Cell differentiation programs require dynamic regulation of gene expression. During meiotic prophase in Saccharomyces cerevisiae, expression of the kinetochore complex subunit Ndc80 is downregulated by a 5’ extended long undecoded NDC80 transcript ...
Minghao Chia, Amy Tresenrider, Jingxun Chen, Gianpiero Spedale, Victoria Jorgensen, Elçin Ünal, Folkert Jacobus van Werven   +6 more
doaj   +4 more sources

Long-read sequencing reveals novel isoform-specific eQTLs and regulatory mechanisms of isoform expression in human B cells [PDF]

Genome Biology
Background Genetic variations linked to changes in gene expression are known as expression quantitative loci (eQTLs). The identification of eQTLs helps to understand the mechanisms governing gene expression. However, prior studies have primarily utilized
Yuya Nagura, Mihoko Shimada, Ryoji Kuribayashi, Ko Ikemoto, Hiroki Kiyose, Arisa Igarashi, Tadashi Kaname, Motoko Unoki, Akihiro Fujimoto   +8 more
doaj   +2 more sources

Cross-ancestry, cell-type-informed atlas of gene, isoform, and splicing regulation in the developing human brain

medRxiv, 2023
Genomic regulatory elements active in the developing human brain are notably enriched in genetic risk for neuropsychiatric disorders, including autism spectrum disorder (ASD), schizophrenia, and bipolar disorder.
C. Wen, M. Margolis, R. Dai, P. Zhang, P. Przytycki, D. Vo, A. Bhattacharya, M. Kim, N. Matoba, E. Tsai, C. Hoh, C. Jiao, N. Aygun, R. Walker, C. Chatzinakos, D. Clarke, H. Pratt, PsychENCODE Consortium, M. Peters, M. Gerstein, N. Daskalakis, Z. Weng, A. Jaffe, J. Kleinman, T. Hyde, D. Weinberger, N. Bray, N. Šestan, D. Geschwind, K. Roeder, A. Gusev, B. Pasaniuc, J. Stein, M. Love, K. Pollard, C. Liu, M. Gandal   +36 more
semanticscholar   +1 more source

TAGET: a toolkit for analyzing full-length transcripts from long-read sequencing

Nature Communications, 2023
Single-molecule Real-time Isoform Sequencing (Iso-seq) of transcriptomes by PacBio can generate very long and accurate reads, thus providing an ideal platform for full-length transcriptome analysis.
Yuchao Xia, Zijie Jin, Chengsheng Zhang, Linkun Ouyang, Yuhao Dong, Juan Li, Lvze Guo, Biyang Jing, Yang Shi, Susheng Miao, Ruibin Xi   +10 more
doaj   +1 more source