Results 31 to 40 of about 4,240,750 (265)

RAID: a comprehensive resource for human RNA-associated (RNA–RNA/RNA–protein) interaction [PDF]

RNA, 2014
Transcriptomic analyses have revealed an unexpected complexity in the eukaryote transcriptome, which includes not only protein-coding transcripts but also an expanding catalog of noncoding RNAs (ncRNAs). Diverse coding and noncoding RNAs (ncRNAs) perform functions through interaction with each other in various cellular processes.
Zhang, Xiaomeng, Wu, Deng, Chen, Liqun, Li, Xiang, Yang, Jinxurong, Fan, Dandan, Dong, Tingting, Liu, Mingyue, Tan, Puwen, Xu, Jintian, Yi, Ying, Wang, Yuting, Zou, Hua, Hu, Yongfei, Fan, Kaili, Kang, Juanjuan, Huang, Yan, Miao, Zhengqiang, Bi, Miaoman, Jin, Nana, Li, Kongning, Li, Xia, Xu, Jianzhen, Wang, Dong   +23 more
openaire   +2 more sources

Investigating RNA–RNA interactions through computational and biophysical analysis [PDF]

Nucleic Acids Research, 2022
Abstract Numerous viruses utilize essential long-range RNA–RNA genome interactions, specifically flaviviruses. Using Japanese encephalitis virus (JEV) as a model system, we computationally predicted and then biophysically validated and characterized its long-range RNA–RNA genomic interaction.
Mrozowich, Tyler, Park, Sean M, Waldl, Maria, Henrickson, Amy, Tersteeg, Scott, Nelson, Corey R, De Klerk, Anneke, Demeler, Borries, Hofacker, Ivo L, Wolfinger, Michael T, Patel, Trushar R   +10 more
openaire   +4 more sources

Virus-derived DNA drives mosquito vector tolerance to arboviral infection

Nature Communications, 2016
Mosquitoes tolerate long-lasting viral infections, which makes them efficient vectors for human viral diseases. Here, the authors show that the tolerance of Aedesmosquitoes to infection with dengue or chikungunya viruses depends on the production of ...
Bertsy Goic, Kenneth A. Stapleford, Lionel Frangeul, Aurélien J. Doucet, Valérie Gausson, Hervé Blanc, Nidia Schemmel-Jofre, Gael Cristofari, Louis Lambrechts, Marco Vignuzzi, Maria-Carla Saleh   +10 more
doaj   +1 more source

A splicing-dependent transcriptional checkpoint associated with prespliceosome formation [PDF]

, 2014
There is good evidence for functional interactions between splicing and transcription in eukaryotes, but how and why these processes are coupled remain unknown.
Chathoth, Keerthi T, Webb, Shaun, Barrass, J David, Beggs, Jean D   +3 more
core   +1 more source

CRISPR-Guided Proximity Labeling of RNA–Protein Interactions

, 2022
Proximity labeling employs modified biotin ligases or peroxidases that produce reactive radicals to covalently label proximate proteins with biotin in living cells. The resulting biotinylated proteins can then be isolated and identified. A combination of
Zuowei Wang, Ren, Bingbing, Mingxing Lu, Yixiu Wang, Bingbing Ren, Wang, Zuowei, Lu, Mingxing, Wang, Yixiu   +7 more
core   +1 more source

RNAplex: a fast tool for RNA–RNA interaction search [PDF]

Bioinformatics, 2008
Abstract Motivation: Regulatory RNAs often unfold their action via RNA-RNA interaction. Transcriptional gene silencing by means of siRNAs and miRNA as well as snoRNA directed RNA editing rely on this mechanism. Additionally ncRNA regulation in bacteria is mainly based upon RNA duplex formation.
Hakim Tafer, Ivo L. Hofacker
openaire   +3 more sources

Structural insights into the dynamics and function of the C-terminus of the E. coli RNA chaperone Hfq [PDF]

, 2011
The hexameric Escherichia coli RNA chaperone Hfq (Hfq(Ec)) is involved in riboregulation of target mRNAs by small trans-encoded RNAs. Hfq proteins of different bacteria comprise an evolutionarily conserved core, whereas the C-terminus is variable in ...
Blasi, U., Rajkowitsch, L., Miles, Andrew J., Svergun, D.I., Kloiber, K., Kristina Djinović-Carugo, Vecerek, B., Karin Kloiber, Konarev, P.V., Lukas Rajkowitsch, Georg Kontaxis, Djinovic-Carugo, K., Robert Konrat, Branislav Večerek, Andrew J. Miles, Udo Bläsi, Wallace, Bonnie A., Svergun, D. I., Petr V. Konarev, Björn Sjöblom, Hammerle, H., Mads Beich-Frandsen, Wallace, B. A., Sjoblom, B., Miles, A. J., Dimitri I. Svergun, B. A. Wallace, Beich Frandsen, M., Djinovic Carugo, K., Konarev, P. V., Beich-Frandsen, M., Konrat, R., Hermann Hämmerle, Kontaxis, G.   +33 more
core   +1 more source

Fast accessibility-based prediction of RNA–RNA interactions [PDF]

Bioinformatics, 2011
Abstract Motivation: Currently, the best RNA–RNA interaction prediction tools are based on approaches that consider both the inter- and intramolecular interactions of hybridizing RNAs. While accurate, these methods are too slow and memory-hungry to be employed in genome-wide RNA target scans. Alternative methods neglecting intramolecular
Hakim Tafer, Fabian Amman, Florian Eggenhofer, Peter F. Stadler, Ivo L. Hofacker   +4 more
openaire   +4 more sources

An improved in vivo tethering assay with single molecule FISH reveals that a nematode Nanos enhances reporter expression and mRNA stability

, 2021
Robust methods are critical for testing the in vivo regulatory mechanism of RNA binding proteins. Here we report improvement of a protein–mRNA tethering assay to probe the function of an RNA binding protein in its natural context within the C.
Kimble, Judith, Lynch, Tina R., Aoki, Scott T., Doenier, Jonathan, Scott T. Aoki, Jonathan Doenier, Judith Kimble, Tina R. Lynch   +7 more
core   +1 more source

Annotation and evolutionary relationships of a small regulatory RNA gene micF and its target ompF in Yersinia species

BMC Microbiology, 2003
Background micF RNA, a small regulatory RNA found in bacteria, post-transcriptionally regulates expression of outer membrane protein F (OmpF) by interaction with the ompF mRNA 5'UTR.
Delihas Nicholas
doaj   +1 more source