Searching journal content for articles similar to Krick et al. 35 (6): 1301.

Displaying results 1-10 of 42

For checked items

view abstracts
download to citation manager

Select this article
Resource: Quantitative RNA-seq meta-analysis of alternative exon usage in C. elegans
- Nicolas J. Tourasse,
- Jonathan R.M. Millet,
- and Denis Dupuy
Genome Res. December 2017 27: 2120-2128; Published in Advance October 31, 2017, doi:10.1101/gr.224626.117
...will not be trivial as they are not detected in most RNA-seq experiments.Our compendium-based meta-analysis provides a widely expanded dynamic range of detection with genes having between zero and 107 reads per junction. If we considered every splice junction detected by any RNA-seq experiment in our compendium, we...
Select this article
Research: Global regulatory features of alternative splicing across tissues and within the nervous system of C. elegans
- Bina Koterniak,
- Pallavi P. Pilaka,
- Xicotencatl Gracida,
- Lisa-Marie Schneider,
- Iva Pritišanac,
- Yun Zhang,
- and John A. Calarco
Genome Res. December 2020 30: 1766-1780; Published in Advance October 30, 2020, doi:10.1101/gr.267328.120
...plasticity, and ion channel kinetics, and contributes to the diversity needed to fine-tune the exact activity of neurons (Ule and Darnell 2006; Norris and Calarco 2012; Raj and Blencowe 2015; Vuong et al. 2016). Alternative splicing must be tightly regulated, especially in coding sequences, to give rise...
OPEN ACCESS ARTICLE
Select this article
Resource: The C. elegans embryonic transcriptome with tissue, time, and alternative splicing resolution
- Adam D. Warner,
- Louis Gevirtzman,
- LaDeana W. Hillier,
- Brent Ewing,
- and Robert H. Waterston
Genome Res. June 2019 29: 1036-1045; Published in Advance May 23, 2019, doi:10.1101/gr.243394.118
...-cell RNA-seq methods also rely on the end sequencing of cDNA molecules and thus largely fail to capture alternative splicing events.To address the need for a more comprehensive mRNA data set that captures the transcripts in specific tissues during embryonic development, we have used fluorescence-activated...
OPEN ACCESS ARTICLE
Select this article
Resource: A mosquito small RNA genomics resource reveals dynamic evolution and host responses to viruses and transposons
- Qicheng Ma,
- Satyam P. Srivastav,
- Stephanie Gamez,
- Gargi Dayama,
- Fabiana Feitosa-Suntheimer,
- Edward I. Patterson,
- Rebecca M. Johnson,
- Erik M. Matson,
- Alexander S. Gold,
- Douglas E. Brackney,
- John H. Connor,
- Tonya M. Colpitts,
- Grant L. Hughes,
- Jason L. Rasgon,
- Tony Nolan,
- Omar S. Akbari,
- and Nelson C. Lau
Genome Res. March 2021 31: 512-528; Published in Advance January 8, 2021, doi:10.1101/gr.265157.120
...RNA libraries. We then implemented our small RNA analysis pipeline to enable cross-species comparisons. Our analysis provides the first comprehensive view of small RNA transcriptomes across mosquito phylogeny, reveals novel evolutionary and host dynamics in viral and somatic piRNA production...
OPEN ACCESS ARTICLE
Select this article
Research: Genetic control of the dynamic transcriptional response to immune stimuli and glucocorticoids at single-cell resolution
- Justyna A. Resztak,
- Julong Wei,
- Samuele Zilioli,
- Edward Sendler,
- Adnan Alazizi,
- Henriette E. Mair-Meijers,
- Peijun Wu,
- Xiaoquan Wen,
- Richard B. Slatcher,
- Xiang Zhou,
- Francesca Luca,
- and Roger Pique-Regi
Genome Res. June 2023 33: 839-856; Published in Advance July 13, 2023, doi:10.1101/gr.276765.122
...variability and dynamics to gain a better understanding of the molecular underpinnings of inter-individual variation in drug response. Here, we used single-cell RNA-seq to study the dynamics of the transcriptional response to glucocorticoids in activated peripheral blood mononuclear cells from 96 African...
OPEN ACCESS ARTICLE
Select this article
Research: Dynamic modulation of genomic enhancer elements in the suprachiasmatic nucleus, the site of the mammalian circadian clock
- Akanksha Bafna,
- Gareth Banks,
- Michael H. Hastings,
- and Patrick M. Nolan
Genome Res. May 2023 33: 673-688; Published in Advance May 8, 2023, doi:10.1101/gr.277581.122
..., and studied the association between dynamically changing histone acetylation and gene transcript levels. About 35% of the cycling H3K27ac sites were found adjacent to rhythmic gene transcripts, often preceding the rise in mRNA levels. We also noted that enhancers encompass noncoding, actively transcribing...
OPEN ACCESS ARTICLE
Select this article
Research: Long-read sequencing of nascent RNA reveals coupling among RNA processing events
- Lydia Herzel,
- Korinna Straube,
- and Karla M. Neugebauer
Genome Res. July 2018 28: 1008-1019; Published in Advance June 14, 2018, doi:10.1101/gr.232025.117
...and determine alternative splicing patterns (Schor et al. 2013; Dujardin et al. 2014; Fong et al. 2014; Saldi et al. 2016). The mechanisms underlying coordination between RNA processing and transcription are being intensely investigated.Recent efforts have focused on determining the in vivo dynamics of gene...
Select this article
Research: Coexpression enrichment analysis at the single-cell level reveals convergent defects in neural progenitor cells and their cell-type transitions in neurodevelopmental disorders
- Kaifang Pang,
- Li Wang,
- Wei Wang,
- Jian Zhou,
- Chao Cheng,
- Kihoon Han,
- Huda Y. Zoghbi,
- and Zhandong Liu
Genome Res. June 2020 30: 835-848; Published in Advance June 18, 2020, doi:10.1101/gr.254987.119
...transition at gestational week 10—as a key point of convergence in autism spectrum disorder (ASD) and epilepsy. Integrated Gene Ontology–based analysis further revealed that ASD genes activate neural differentiation and inhibit cell cycle during the transition, whereas epilepsy genes function as downstream...
Select this article
Research: Genetic analysis of isoform usage in the human anti-viral response reveals influenza-specific regulation of ERAP2 transcripts under balancing selection
- Chun Jimmie Ye,
- Jenny Chen,
- Alexandra-Chloé Villani,
- Rachel E. Gate,
- Meena Subramaniam,
- Tushar Bhangale,
- Mark N. Lee,
- Towfique Raj,
- Raktima Raychowdhury,
- Weibo Li,
- Noga Rogel,
- Sean Simmons,
- Selina H. Imboywa,
- Portia I. Chipendo,
- Cristin McCabe,
- Michelle H. Lee,
- Irene Y. Frohlich,
- Barbara E. Stranger,
- Philip L. De Jager,
- Aviv Regev,
- Tim Behrens,
- and Nir Hacohen
Genome Res. December 2018 28: 1812-1825; Published in Advance November 16, 2018, doi:10.1101/gr.240390.118
...isoforms. This is achieved through several mechanisms at the transcript level, including alternative promoters for transcription initiation, alternative splicing of pre-messenger RNA, alternative polyadenylation, and selective degradation of isoforms. These processes regulate the relative abundances...
OPEN ACCESS ARTICLE
Select this article
Research: Endonucleolytic cleavage is the primary mechanism of decay elicited by C. elegans nonsense-mediated mRNA decay
- Marcus J. Viscardi,
- Enisha Sehgal,
- and Joshua A. Arribere
Genome Res. June 2025 35: 1337-1348; Published in Advance May 9, 2025, doi:10.1101/gr.280046.124
...therapeutic efforts to control NMD. Here, we modify and deploy single-molecule nanopore mRNA sequencing to clarify the route by which NMD targets are attacked in an animal. We obtain single-molecule measures of splicing isoform, cleavage state, and poly(A) tail length. We observe robust endonucleolytic...

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Krick et al. 35 (6): 1301.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: