Literature DB >> 27659979

Understanding RNA-Chromatin Interactions Using Chromatin Isolation by RNA Purification (ChIRP).

Ci Chu1, Howard Y Chang2.   

Abstract

ChIRP is a novel and easy-to-use technique for studying long noncoding RNA (lncRNA)-chromatin interactions. RNA and chromatin are cross-linked in vivo using formaldehyde or glutaraldehyde, and purified using biotinylated antisense oligonucleotides that hybridize to the target RNA. Co-precipitated DNA is then purified and analyzed by quantitative PCR (qPCR) or high-throughput sequencing.

Entities:  

Keywords:  Chromatin; Cross-linking; High-throughput sequencing; lncRNA

Mesh：

Substances：

Year:  2016        PMID： 27659979     DOI： 10.1007/978-1-4939-6380-5_10

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN： 1064-3745


  24 in total

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Authors:  Zhuo Zhou; Keith E Giles; Gary Felsenfeld
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2.  Long Noncoding RNA MEG3 Is an Epigenetic Determinant of Oncogenic Signaling in Functional Pancreatic Neuroendocrine Tumor Cells.

Authors:  Sucharitha Iyer; Sita D Modali; Sunita K Agarwal
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Review 3.  Catching RNAs on chromatin using hybridization capture methods.

Authors:  Martin Machyna; Matthew D Simon
Journal:  Brief Funct Genomics       Date:  2018-03-01       Impact factor: 4.241

Review 4.  'Lnc'-ing Wnt in female reproductive cancers: therapeutic potential of long non-coding RNAs in Wnt signalling.

Authors:  Mei S Ong; Wanpei Cai; Yi Yuan; Hin C Leong; Tuan Z Tan; Asad Mohammad; Ming L You; Frank Arfuso; Boon C Goh; Sudha Warrier; Gautam Sethi; Nicholas S Tolwinski; Peter E Lobie; Celestial T Yap; Shing C Hooi; Ruby Y Huang; Alan P Kumar
Journal:  Br J Pharmacol       Date:  2017-08-23       Impact factor: 8.739

5.  Loss of Long Noncoding RNA NXTAR in Prostate Cancer Augments Androgen Receptor Expression and Enzalutamide Resistance.

Authors:  Ruchi Ghildiyal; Mithila Sawant; Arun Renganathan; Kiran Mahajan; Eric H Kim; Jingqin Luo; Ha X Dang; Christopher A Maher; Felix Y Feng; Nupam P Mahajan
Journal:  Cancer Res       Date:  2021-11-05       Impact factor: 13.312

6.  KCNQ1OT1 promotes genome-wide transposon repression by guiding RNA-DNA triplexes and HP1 binding.

Authors:  Xiaoli Zhang; Quanlong Jiang; Jiyang Li; Shiqiang Zhang; Yaqiang Cao; Xian Xia; Donghong Cai; Jiaqi Tan; Jiekai Chen; Jing-Dong J Han
Journal:  Nat Cell Biol       Date:  2022-10-20       Impact factor: 28.213

7.  Immune genes are primed for robust transcription by proximal long noncoding RNAs located in nuclear compartments.

Authors:  Stephanie Fanucchi; Ezio T Fok; Emiliano Dalla; Youtaro Shibayama; Kathleen Börner; Erin Y Chang; Stoyan Stoychev; Maxim Imakaev; Dirk Grimm; Kevin C Wang; Guoliang Li; Wing-Kin Sung; Musa M Mhlanga
Journal:  Nat Genet       Date:  2018-12-10       Impact factor: 38.330

8.  Very long intergenic non-coding (vlinc) RNAs directly regulate multiple genes in cis and trans.

Authors:  Huifen Cao; Dongyang Xu; Ye Cai; Xueer Han; Lu Tang; Fan Gao; Yao Qi; DingDing Cai; Huifang Wang; Maxim Ri; Denis Antonets; Yuri Vyatkin; Yue Chen; Xiang You; Fang Wang; Estelle Nicolas; Philipp Kapranov
Journal:  BMC Biol       Date:  2021-05-20       Impact factor: 7.431

9.  Long noncoding RNA BLACAT2 promotes bladder cancer-associated lymphangiogenesis and lymphatic metastasis.

Authors:  Wang He; Guangzheng Zhong; Ning Jiang; Bo Wang; Xinxiang Fan; Changhao Chen; Xu Chen; Jian Huang; Tianxin Lin
Journal:  J Clin Invest       Date:  2018-01-22       Impact factor: 19.456

10.  The Arabidopsis lncRNA ASCO modulates the transcriptome through interaction with splicing factors.

Authors:  Richard Rigo; Jérémie Bazin; Natali Romero-Barrios; Michaël Moison; Leandro Lucero; Aurélie Christ; Moussa Benhamed; Thomas Blein; Stéphanie Huguet; Céline Charon; Martin Crespi; Federico Ariel
Journal:  EMBO Rep       Date:  2020-04-14       Impact factor: 8.807
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