Searching journal content for articles similar to Petrić Howe et al. 32 (10): 1808.

Displaying results 1-10 of 5256

For checked items

view abstracts
download to citation manager

Select this article
Research: Widespread specific intron retention events in nuclear RNA complexes identified by sedimentation analysis of pluripotent cellular extracts
- Isabela T. Pereira,
- Izabela Mamede,
- Paulo P. Amaral,
- Gloria R. Franco,
- and John L. Rinn
Genome Res. October 2025 35: 2189-2198; Published in Advance August 26, 2025, doi:10.1101/gr.280431.125
..., this intron is signaled to be spliced out, and the mature transcript is translated in the cytoplasm (Dumbović et al. 2021).The common theme to these few known cases is that specific intron(s) are retained for a considerable time and then, upon some signal, they are spliced, resulting in the mRNA being...
Select this article
Research: Systematic identification and characterization of exon–intron circRNAs
- Yinchun Zhong,
- Yan Yang,
- Xiaolin Wang,
- Bingbing Ren,
- Xueren Wang,
- Ge Shan,
- and Liang Chen
Genome Res. March 2024 34: 376-393; Published in Advance April 12, 2024, doi:10.1101/gr.278590.123
...and physiological roles of IR in linear transcripts (or linear IR [LIR]) are known, and much of the knowledge about LIRs has come from the HTS of poly(A)-plus RNA samples (Braunschweig et al. 2014; Middleton et al. 2017; Yeom et al. 2021). For instance, the introns retained in LIRs have distinct features from those...
OPEN ACCESS ARTICLE
Select this article
Method: Exon Nomenclature And Classification of Transcripts (ENACT) provides a systematic framework to annotate exon attributes
- Paras Verma,
- Deeksha Thakur,
- Deepanshi Awasthi,
- and Shashi Bhushan Pandit
Genome Res. June 2025 35: 1440-1455; Published in Advance May 7, 2025, doi:10.1101/gr.279878.124
...for human Chr 21 (Deveson et al. 2018).Considering the multifaceted roles of eukaryotic gene architecture in influencing transcriptional and translational processes, previous studies unveiled several attributes concerning the evolution of introns and exons, in which, specifically, a reduction in exon length...
Select this article
Research: Chimeric mitochondrial RNA transcripts predict mitochondrial genome deletion mutations in mitochondrial genetic diseases and aging
- Amy R. Vandiver,
- Allen Herbst,
- Paul Stothard,
- and Jonathan Wanagat
Genome Res. January 2025 35: 55-65; Published in Advance November 27, 2024, doi:10.1101/gr.279072.124
...-mRNA processing, or impair mt-mRNA degradation/turnover pathways. Effects of chimeric mtRNAs on protein translation could include the sequestration of ribosomes and tRNAs on these aberrant transcripts. Chimeric mtRNAs could also bind other mtRNA transcripts or even leak into the cytoplasm (Kim et al. 2017...
Select this article
Research: Long-read RNA sequencing of archival tissues reveals novel genes and transcripts associated with clear cell renal cell carcinoma recurrence and immune evasion
- Joshua Lee,
- Elizabeth A. Snell,
- Joanne Brown,
- Charlotte E. Booth,
- Rosamonde E. Banks,
- Daniel J. Turner,
- Naveen S. Vasudev,
- and Dimitris Lagos
Genome Res. November 2024 34: 1849-1864; Published in Advance September 16, 2024, doi:10.1101/gr.278801.123
...transcripts comprise full splice match (FSM) and incomplete splice match (ISM), whereas novel in catalog (NIC), novel not in catalog (NNC), antisense, fusion, genic, genic intron, and intergenic isoforms are classified as novel transcripts (Fig. 4A; Supplemental Table S10). Similarly, GffCompare assigns each...
OPEN ACCESS ARTICLE
Select this article
Research: GC content, but not nucleosome positioning, directly contributes to intron splicing efficiency in Paramecium
- Stefano Gnan,
- Mélody Matelot,
- Marion Weiman,
- Olivier Arnaiz,
- Frédéric Guérin,
- Linda Sperling,
- Mireille Bétermier,
- Claude Thermes,
- Chun-Long Chen,
- and Sandra Duharcourt
Genome Res. April 2022 32: 699-709; Published in Advance March 9, 2022, doi:10.1101/gr.276125.121
...positioning per se, is important for intron splicing (Amit et al. 2012; Gelfman et al. 2013). Yet, the contribution of nucleosome positioning to intron splicing efficiency has not been investigated thoroughly. The nonsense-mediated decay (NMD) machinery recognizes and degrades transcripts containing premature...
Select this article
Method: Using long-read CAGE sequencing to profile cryptic-promoter-derived transcripts and their contribution to the immunopeptidome
- Ju Heon Maeng,
- H. Josh Jang,
- Alan Y. Du,
- Shin-Cheng Tzeng,
- and Ting Wang
Genome Res. December 2023 33: 2143-2155; Published in Advance December 8, 2023, doi:10.1101/gr.277061.122
...coding proteins compared with others (Supplemental Fig. S15A). For example, TALONG000051076_NP_1 was encoded by a cryptic TSS-derived transcript located within an L1HS element in the intron of the EMBP1 gene (Supplemental Fig. S15B). Using H1299 whole-cell lysate LC-MS/MS data, we identified 10 peptides...
OPEN ACCESS ARTICLE
Select this article
Research: Acute depletion of METTL3 implicates N⁶-methyladenosine in alternative intron/exon inclusion in the nascent transcriptome
- Guifeng Wei,
- Mafalda Almeida,
- Greta Pintacuda,
- Heather Coker,
- Joseph S. Bowness,
- Jernej Ule,
- and Neil Brockdorff
Genome Res. August 2021 31: 1395-1408; Published in Advance June 15, 2021, doi:10.1101/gr.271635.120
...and intron-of-origin.Most exonic methylations are enriched around stop-codon regions, as previously noted (Dominissini et al. 2012; Meyer et al. 2012), but intronic methylation sites are fairly evenly distributed relative to host transcripts (Supplemental Fig. S3E). Therefore, we queried in particular...
OPEN ACCESS ARTICLE
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
...in cytoplasmic mRNA (Boutz et al. 2015; Braun et al. 2017). A similar pool of incompletely spliced transcripts affecting synaptic function is found in neurons, where cell stimulation induces their processing to allow transcription-independent changes in mRNA pools (Mauger et al. 2016). The term “retained intron...
Select this article
Research: Widespread intron retention impairs protein homeostasis in C9orf72 ALS brains
- Qingqing Wang,
- Erin G. Conlon,
- James L. Manley,
- and Donald C. Rio
Genome Res. December 2020 30: 1705-1715; Published in Advance October 14, 2020, doi:10.1101/gr.265298.120
..., insoluble hnRNPH. These intron retention events appear not to alter overall expression levels of the affected transcripts but rather the protein-coding regions. These retained introns affect transcripts in multiple cellular pathways predicted to be involved in C9 as well as sporadic ALS/FTD etiology...

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Petrić Howe et al. 32 (10): 1808.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: