Searching journal content for articles similar to Ragle et al. 25 (7): 982.

Displaying results 1-10 of 42

For checked items

view abstracts
download to citation manager

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
...24 and Rbm38), which have both been implicated in alternative splicing regulation in C. elegans (Kuroyanagi et al. 2007). We also identified enriched cis elements recognized by UNC-75/CELF and EXC-7 (an ortholog of Elavl4/HuD), both known to regulate tissue-specific alternative splicing within...
OPEN ACCESS ARTICLE
Select this article
Research: Systematic transcriptome analysis associated with physiological and chronological aging in Caenorhabditis elegans
- Seokjin Ham,
- Sieun S. Kim,
- Sangsoon Park,
- Eun Ji E. Kim,
- Sujeong Kwon,
- Hae-Eun H. Park,
- Yoonji Jung,
- and Seung-Jae V. Lee
Genome Res. November/December 2022 32: 2003-2014; Published in Advance November 9, 2022, doi:10.1101/gr.276515.121
...of trimethylation of histone H3 lysine 4 are prone to changes during aging in Caenorhabditis elegans somatic cells. PLoS Genet 14: e1007466. doi:10.1371/journal.pgen.1007466 ↵Ragle JM, Katzman S, Akers TF, Barberan-Soler S, Zahler AM. 2015. Coordinated tissue-specific regulation of adjacent alternative 3′ splice...
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
...Foundation for Statistical Computing, Vienna, Austria. http://www.R-project.org/. ↵Ragle JM, Katzman S, Akers TF, Barberan-Soler S, Zahler AM. 2015. Coordinated tissue-specific regulation of adjacent alternative 3′ splice sites in C. elegans. Genome Res 25: 982–994. ↵Ramani AK, Nelson AC, Kapranov P, Bell I...
Select this article
Resource: Direct full-length RNA sequencing reveals unexpected transcriptome complexity during Caenorhabditis elegans development
- Runsheng Li,
- Xiaoliang Ren,
- Qiutao Ding,
- Yu Bi,
- Dongying Xie,
- and Zhongying Zhao
Genome Res. February 2020 30: 287-298; Published in Advance February 5, 2020, doi:10.1101/gr.251512.119
...These authors contributed equally to this work. Corresponding author: zyzhao@hkbu.edu.hkAbstractMassively parallel sequencing of the polyadenylated RNAs has played a key role in delineating transcriptome complexity, including alternative use of an exon, promoter, 5′ or 3′ splice site or polyadenylation site...
Select this article
Resource: The full-length transcriptome of C. elegans using direct RNA sequencing
- Nathan P. Roach,
- Norah Sadowski,
- Amelia F. Alessi,
- Winston Timp,
- James Taylor,
- and John K. Kim
Genome Res. February 2020 30: 299-312; Published in Advance February 5, 2020, doi:10.1101/gr.251314.119
...hypothesis testing correction (Supplemental Table 4). This is possibly due to lack of coverage but more likely reflects an overall lack of coordination between splicing and polyadenylation site choice in C. elegans.Quantifying genes and splice isoforms captured with full-length supportLess than half...
OPEN ACCESS ARTICLE
Select this article
Research: Transcription factor redundancy and tissue-specific regulation: Evidence from functional and physical network connectivity
- Steven G. Kuntz,
- Brian A. Williams,
- Paul W. Sternberg,
- and Barbara J. Wold
Genome Res. October 2012 22: 1907-1919; Published in Advance June 22, 2012, doi:10.1101/gr.133306.111
...Transcription factor redundancy and tissue-specific regulation: Evidence from functional and physical network connectivity Steven G. Kuntz 1 , Brian A. Williams 1 , Paul W. Sternberg 1 , 2 , 3 and Barbara J. Wold 1 , 3 1 Division...
Select this article
Resource: The C. elegans 3′ UTRome v2 resource for studying mRNA cleavage and polyadenylation, 3′-UTR biology, and miRNA targeting
- Hannah S. Steber,
- Christina Gallante,
- Shannon O'Brien,
- Po-Lin Chiu,
- and Marco Mangone
Genome Res. December 2019 29: 2104-2116; Published in Advance November 19, 2019, doi:10.1101/gr.254839.119
...(RBPs) can bind, substantially impacting gene expression (Matlin et al. 2005; Bartel 2009). Although its function in eukaryotes is still not fully understood, a recent study revealed that APA may occur in a tissue-specific manner and, at least in the nematode Caenorhabditis elegans, is used in specific...
OPEN ACCESS ARTICLE
Select this article
Resource: Genome-wide analysis of alternative splicing in Caenorhabditis elegans
- Arun K. Ramani,
- John A. Calarco,
- Qun Pan,
- Sepand Mavandadi,
- Ying Wang,
- Andrew C. Nelson,
- Leo J. Lee,
- Quaid Morris,
- Benjamin J. Blencowe,
- Mei Zhen,
- and Andrew G. Fraser
Genome Res. February 2011 21: 342-348; Published in Advance December 22, 2010, doi:10.1101/gr.114645.110
...-1 family and SUP-12 coordinately regulate tissue-specific alternative splicing in vivo. Mol Cell Biol 27: 8612–8621. Licatalosi DD, Darnell RB. 2010. RNA processing and its regulation: global insights into biological networks. Nat Rev Genet 11: 75–87. Lopez AJ. 1998. Alternative splicing of pre...
OPEN ACCESS ARTICLE
Select this article
Research: RBFOX and PTBP1 proteins regulate the alternative splicing of micro-exons in human brain transcripts
- Yang I. Li,
- Luis Sanchez-Pulido,
- Wilfried Haerty,
- and Chris P. Ponting
Genome Res. January 2015 25: 1-13; Published in Advance December 18, 2014, doi:10.1101/gr.181990.114
...and previously annotated micro-exons across all 901 RNA-seq samples (Methods).Micro-exons possess tissue-specific inclusion patternsWe quantified the splicing inclusion ratios of micro-exons across all RNA-seq samples assigning PSI (percent spliced-in) values for each micro-exon and sample. Given our initial...
OPEN ACCESS ARTICLE
Select this article
Research: Unmasking alternative splicing inside protein-coding exons defines exitrons and their role in proteome plasticity
- Yamile Marquez,
- Markus Höpfler,
- Zahra Ayatollahi,
- Andrea Barta,
- and Maria Kalyna
Genome Res. July 2015 25: 995-1007; Published in Advance May 1, 2015, doi:10.1101/gr.186585.114
...of other types of AS events. Usage of A5SS and A3SS is themost prominent in liver, and ES events are themost frequent in brain and testis; this was attributed to tissue-specific combinations and levels of splicing factors regulating particular events (Yeo et al. 2004). It has been suggested that the high...
OPEN ACCESS ARTICLE

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Ragle et al. 25 (7): 982.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: