Decryption of sequence, structure, and functional features of SINE repeat elements in SINEUP non-coding RNA-mediated post-transcriptional gene regulation
Author
Abstract
Suggested Citation
DOI: 10.1038/s41467-024-45517-3
Download full text from publisher
References listed on IDEAS
- Robert C. Spitale & Ryan A. Flynn & Qiangfeng Cliff Zhang & Pete Crisalli & Byron Lee & Jong-Wha Jung & Hannes Y. Kuchelmeister & Pedro J. Batista & Eduardo A. Torre & Eric T. Kool & Howard Y. Chang, 2015. "Erratum: Structural imprints in vivo decode RNA regulatory mechanisms," Nature, Nature, vol. 527(7577), pages 264-264, November.
- Kourosh Zarringhalam & Michelle M Meyer & Ivan Dotu & Jeffrey H Chuang & Peter Clote, 2012. "Integrating Chemical Footprinting Data into RNA Secondary Structure Prediction," PLOS ONE, Public Library of Science, vol. 7(10), pages 1-13, October.
- Robert C. Spitale & Ryan A. Flynn & Qiangfeng Cliff Zhang & Pete Crisalli & Byron Lee & Jong-Wha Jung & Hannes Y. Kuchelmeister & Pedro J. Batista & Eduardo A. Torre & Eric T. Kool & Howard Y. Chang, 2015. "Structural imprints in vivo decode RNA regulatory mechanisms," Nature, Nature, vol. 519(7544), pages 486-490, March.
- Claudia Carrieri & Laura Cimatti & Marta Biagioli & Anne Beugnet & Silvia Zucchelli & Stefania Fedele & Elisa Pesce & Isidre Ferrer & Licio Collavin & Claudio Santoro & Alistair R. R. Forrest & Piero , 2012. "Long non-coding antisense RNA controls Uchl1 translation through an embedded SINEB2 repeat," Nature, Nature, vol. 491(7424), pages 454-457, November.
- Mitchell Guttman & John L. Rinn, 2012. "Modular regulatory principles of large non-coding RNAs," Nature, Nature, vol. 482(7385), pages 339-346, February.
- Minjie Zhang & Kongpan Li & Jianhui Bai & Willem A. Velema & Chengqing Yu & Ryan van Damme & Wilson H. Lee & Maia L. Corpuz & Jian-Fu Chen & Zhipeng Lu, 2021. "Optimized photochemistry enables efficient analysis of dynamic RNA structuromes and interactomes in genetic and infectious diseases," Nature Communications, Nature, vol. 12(1), pages 1-14, December.
Most related items
These are the items that most often cite the same works as this one and are cited by the same works as this one.- Ryan Damme & Kongpan Li & Minjie Zhang & Jianhui Bai & Wilson H. Lee & Joseph D. Yesselman & Zhipeng Lu & Willem A. Velema, 2022. "Chemical reversible crosslinking enables measurement of RNA 3D distances and alternative conformations in cells," Nature Communications, Nature, vol. 13(1), pages 1-13, December.
- Ainara González-Iglesias & Aida Arcas & Ana Domingo-Muelas & Estefania Mancini & Joan Galcerán & Juan Valcárcel & Isabel Fariñas & M. Angela Nieto, 2024. "Intron detention tightly regulates the stemness/differentiation switch in the adult neurogenic niche," Nature Communications, Nature, vol. 15(1), pages 1-18, December.
- Yuwei Zhang & Jieyu Zhao & Xiaona Chen & Yulong Qiao & Jinjin Kang & Xiaofan Guo & Feng Yang & Kaixin Lyu & Yiliang Ding & Yu Zhao & Hao Sun & Chun-Kit Kwok & Huating Wang, 2024. "DHX36 binding induces RNA structurome remodeling and regulates RNA abundance via m6A reader YTHDF1," Nature Communications, Nature, vol. 15(1), pages 1-19, December.
- Haoran Zhu & Yuning Yang & Yunhe Wang & Fuzhou Wang & Yujian Huang & Yi Chang & Ka-chun Wong & Xiangtao Li, 2023. "Dynamic characterization and interpretation for protein-RNA interactions across diverse cellular conditions using HDRNet," Nature Communications, Nature, vol. 14(1), pages 1-22, December.
- Bo Yu & Pan Li & Qiangfeng Cliff Zhang & Lin Hou, 2022. "Differential analysis of RNA structure probing experiments at nucleotide resolution: uncovering regulatory functions of RNA structure," Nature Communications, Nature, vol. 13(1), pages 1-10, December.
- Shurong Liu & Junhong Huang & Jie Zhou & Siyan Chen & Wujian Zheng & Chang Liu & Qiao Lin & Ping Zhang & Di Wu & Simeng He & Jiayi Ye & Shun Liu & Keren Zhou & Bin Li & Lianghu Qu & Jianhua Yang, 2024. "NAP-seq reveals multiple classes of structured noncoding RNAs with regulatory functions," Nature Communications, Nature, vol. 15(1), pages 1-21, December.
- Tammy C. T. Lan & Matty F. Allan & Lauren E. Malsick & Jia Z. Woo & Chi Zhu & Fengrui Zhang & Stuti Khandwala & Sherry S. Y. Nyeo & Yu Sun & Junjie U. Guo & Mark Bathe & Anders Näär & Anthony Griffith, 2022. "Secondary structural ensembles of the SARS-CoV-2 RNA genome in infected cells," Nature Communications, Nature, vol. 13(1), pages 1-14, December.
- Sepideh Tavakoli & Mohammad Nabizadeh & Amr Makhamreh & Howard Gamper & Caroline A. McCormick & Neda K. Rezapour & Ya-Ming Hou & Meni Wanunu & Sara H. Rouhanifard, 2023. "Semi-quantitative detection of pseudouridine modifications and type I/II hypermodifications in human mRNAs using direct long-read sequencing," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
- Debjit Khan & Iyappan Ramachandiran & Kommireddy Vasu & Arnab China & Krishnendu Khan & Fabio Cumbo & Dalia Halawani & Fulvia Terenzi & Isaac Zin & Briana Long & Gregory Costain & Susan Blaser & Amand, 2024. "Homozygous EPRS1 missense variant causing hypomyelinating leukodystrophy-15 alters variant-distal mRNA m6A site accessibility," Nature Communications, Nature, vol. 15(1), pages 1-24, December.
- Gongwang Yu & Yao Liu & Zizhang Li & Shuyun Deng & Zhuoxing Wu & Xiaoyu Zhang & Wenbo Chen & Junnan Yang & Xiaoshu Chen & Jian-Rong Yang, 2023. "Genome-wide probing of eukaryotic nascent RNA structure elucidates cotranscriptional folding and its antimutagenic effect," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
- Shivali Patel & Alec N. Sexton & Madison S. Strine & Craig B. Wilen & Matthew D. Simon & Anna Marie Pyle, 2023. "Systematic detection of tertiary structural modules in large RNAs and RNP interfaces by Tb-seq," Nature Communications, Nature, vol. 14(1), pages 1-11, December.
- Tian Tian & Chunjian Li & Jing Xiao & Yi Shen & Yihua Lu & Liying Jiang & Xun Zhuang & Minjie Chu, 2016. "Quantitative Assessment of the Polymorphisms in the HOTAIR lncRNA and Cancer Risk: A Meta-Analysis of 8 Case-Control Studies," PLOS ONE, Public Library of Science, vol. 11(3), pages 1-11, March.
- Isabel Espadas & Jenna L. Wingfield & Yoshihisa Nakahata & Kaushik Chanda & Eddie Grinman & Ilika Ghosh & Karl E. Bauer & Bindu Raveendra & Michael A. Kiebler & Ryohei Yasuda & Vidhya Rangaraju & Sath, 2024. "Synaptically-targeted long non-coding RNA SLAMR promotes structural plasticity by increasing translation and CaMKII activity," Nature Communications, Nature, vol. 15(1), pages 1-24, December.
- Lihui Liu & Ziyang Liu & Qinghua Liu & Wei Wu & Peng Lin & Xing Liu & Yuechuan Zhang & Dongpeng Wang & Briana C. Prager & Ryan C. Gimple & Jichuan Yu & Weixi Zhao & Qiulian Wu & Wei Zhang & Erzhong Wu, 2023. "LncRNA INHEG promotes glioma stem cell maintenance and tumorigenicity through regulating rRNA 2’-O-methylation," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
- Yixiao Zhu & Chengmei Huang & Chao Zhang & Yi Zhou & Enen Zhao & Yaxin Zhang & Xingyan Pan & Huilin Huang & Wenting Liao & Xin Wang, 2023. "LncRNA MIR200CHG inhibits EMT in gastric cancer by stabilizing miR-200c from target-directed miRNA degradation," Nature Communications, Nature, vol. 14(1), pages 1-19, December.
- Roberta Esposito & Andrés Lanzós & Tina Uroda & Sunandini Ramnarayanan & Isabel Büchi & Taisia Polidori & Hugo Guillen-Ramirez & Ante Mihaljevic & Bernard Mefi Merlin & Lia Mela & Eugenio Zoni & Lusin, 2023. "Tumour mutations in long noncoding RNAs enhance cell fitness," Nature Communications, Nature, vol. 14(1), pages 1-21, December.
- Weiwei Han & Zhenyu Zhang & Bangshun He & Yijun Xu & Jun Zhang & Weijun Cao, 2017. "Integrated analysis of long non-coding RNAs in human gastric cancer: An in silico study," PLOS ONE, Public Library of Science, vol. 12(8), pages 1-12, August.
- Christian Much & Erika L. Lasda & Isabela T. Pereira & Tenaya K. Vallery & Daniel Ramirez & Jordan P. Lewandowski & Robin D. Dowell & Michael J. Smallegan & John L. Rinn, 2024. "The temporal dynamics of lncRNA Firre-mediated epigenetic and transcriptional regulation," Nature Communications, Nature, vol. 15(1), pages 1-13, December.
Corrections
All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-024-45517-3. See general information about how to correct material in RePEc.
If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.
If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .
If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.
For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Sonal Shukla or Springer Nature Abstracting and Indexing (email available below). General contact details of provider: http://www.nature.com .
Please note that corrections may take a couple of weeks to filter through the various RePEc services.