Searching journal content for articles similar to Sallés and Strickland 4 (6): 317.

Displaying results 1-10 of 98

For checked items

view abstracts
download to citation manager

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
...full-length mRNA molecules, producing single-molecule descriptions of poly(A) length, splicing and isoform status, and 5′ ends and (2) the ability to avoid artifacts of short-read sequencing introduced during library preparation (e.g., fragmentation, PCR) that can skew the observed RNA populations...
Select this article
Perspective: Challenges in identifying mRNA transcript starts and ends from long-read sequencing data
- Ezequiel Calvo-Roitberg,
- Rachel F. Daniels,
- and Athma A. Pai
Genome Res. November 2024 34: 1719-1734; doi:10.1101/gr.279559.124
...and structure in mRNA isoforms (Tang et al. 2020; Chen et al. 2023; Pardo-Palacios et al. 2024b), the ability to identify and quantify the terminal ends of mRNA molecules—specifically, the transcript start and end (polyadenylation) sites (TSSs and PASs, respectively)—has been less carefully investigated...
OPEN ACCESS ARTICLE
Select this article
Research: Alternative polyadenylation drives oncogenic gene expression in pancreatic ductal adenocarcinoma
- Swati Venkat,
- Arwen A. Tisdale,
- Johann R. Schwarz,
- Abdulrahman A. Alahmari,
- H. Carlo Maurer,
- Kenneth P. Olive,
- Kevin H. Eng,
- and Michael E. Feigin
Genome Res. March 2020 30: 347-360; Published in Advance February 6, 2020, doi:10.1101/gr.257550.119
....feigin@roswellpark.orgAbstractAlternative polyadenylation (APA) is a gene regulatory process that dictates mRNA 3′-UTR length, resulting in changes in mRNA stability and localization. APA is frequently disrupted in cancer and promotes tumorigenesis through altered expression of oncogenes and tumor suppressors. Pan-cancer analyses have revealed common APA...
OPEN ACCESS ARTICLE
Select this article
Method: Systematic evaluation of the effect of polyadenylation signal variants on the expression of disease-associated genes
- Meng Chen,
- Ran Wei,
- Gang Wei,
- Mingqing Xu,
- Zhixi Su,
- Chen Zhao,
- and Ting Ni
Genome Res. May 2021 31: 890-899; Published in Advance April 19, 2021, doi:10.1101/gr.270256.120
...discovered a new risk variant for cutaneous basal cell carcinoma, where AATAAA in the TP53 gene is mutated to AATACA, resulting in impaired 3′ end processing of TP53 mRNA, as demonstrated by RT-PCR and 3′ rapid amplification of complementary DNA ends (3′ RACE) (Stacey et al. 2011). Such variants can also...
OPEN ACCESS ARTICLE
Select this article
Research: Comparative analysis of alternative polyadenylation in S. cerevisiae and S. pombe
- Xiaochuan Liu,
- Mainul Hoque,
- Marc Larochelle,
- Jean-François Lemay,
- Nathan Yurko,
- James L. Manley,
- François Bachand,
- and Bin Tian
Genome Res. October 2017 27: 1685-1695; Published in Advance September 15, 2017, doi:10.1101/gr.222331.117
...of Biochemistry, Université de Sherbrooke, Sherbrooke, Quebec J1E 4K8, Canada; 3Department of Biological Sciences, Columbia University, New York, New York 10027, USA Alternative polyadenylation (APA) is a widespread mechanism that generates mRNA isoforms with distinct properties. Here we have systematically...
Select this article
Resource: Tracking pre-mRNA maturation across subcellular compartments identifies developmental gene regulation through intron retention and nuclear anchoring
- Kyu-Hyeon Yeom,
- Zhicheng Pan,
- Chia-Ho Lin,
- Han Young Lim,
- Wen Xiao,
- Yi Xing,
- and Douglas L. Black
Genome Res. June 2021 31: 1106-1119; Published in Advance April 8, 2021, doi:10.1101/gr.273904.120
...regulation of Gabbr1 over development. For this and other genes, polyadenylated RNA abundance does not indicate functional gene expression. Our data sets provide a rich resource for analyzing many other aspects of mRNA maturation in subcellular locations and across development.After transcription initiation...
Select this article
Resource: A quantitative atlas of polyadenylation in five mammals
- Adnan Derti,
- Philip Garrett-Engele,
- Kenzie D. MacIsaac,
- Richard C. Stevens,
- Shreedharan Sriram,
- Ronghua Chen,
- Carol A. Rohl,
- Jason M. Johnson,
- and Tomas Babak
Genome Res. June 2012 22: 1173-1183; Published in Advance March 27, 2012, doi:10.1101/gr.132563.111
...maps of polyA usage in evolutionarily and functionally related samples constitute a resource for understanding the regulatory mechanisms underlying alternative polyadenylation. [Supplemental material is available for this article.] Sequencing of mRNA and noncoding RNA has made important contributions...
OPEN ACCESS ARTICLE
Select this article
Research: Roles for transcript leaders in translation and mRNA decay revealed by transcript leader sequencing
- Joshua A. Arribere and
- Wendy V. Gilbert
Genome Res. June 2013 23: 977-987; Published in Advance April 11, 2013, doi:10.1101/gr.150342.112
...-of-frame (Fig. 3B). We confirmed the microarray results by quantitative RT-PCR (qRT-PCR): Eight of nine genes behaved as expected (Supplemental Fig. S5). Increased mRNA levels for short TL genes were observed in all examined NMD-deficient strains (Supplemental Fig. S5; data not shown) and also for short TL...
Select this article
LETTER: A genomic analysis of RNA polymerase II modification and chromatin architecture related to 3′ end RNA polyadenylation
- Zheng Lian,
- Alexander Karpikov,
- Jin Lian,
- Milind C. Mahajan,
- Stephen Hartman,
- Mark Gerstein,
- Michael Snyder,
- and Sherman M. Weissman
Genome Res. August 2008 18: 1224-1237; Published in Advance May 16, 2008, doi:10.1101/gr.075804.107
...transcription. The enzyme initially binds to promoters in an unphosphorylated state, then becomes phosphorylated first on serine 5 of the YSPTSPS repeat motif, then subsequently on serine 2. To more directly study the relationship between the ends of PolII binding regions and mRNA polyadenylation sites, we...
Select this article
Research: Nutritional control of mRNA isoform expression during developmental arrest and recovery in C. elegans
- Colin S. Maxwell,
- Igor Antoshechkin,
- Nicole Kurhanewicz,
- Jason A. Belsky,
- and L. Ryan Baugh
Genome Res. October 2012 22: 1920-1929; Published in Advance April 26, 2012, doi:10.1101/gr.133587.111
...polymerase II (Pol II) binding revealed that starved animals alter their pattern of transcription in response to feeding within 1 h of recovery (Baugh et al. 2009). This work revealed rapid recovery dynamics, but there has been no temporal analysis of mRNA levels during transition between arrest and full...

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Sallés and Strickland 4 (6): 317.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: