Technologies to probe functions and mechanisms of long noncoding RNAs
暂无分享,去创建一个
[1] Harold G. Craighead,et al. High-throughput binding characterization of RNA aptamer selections using a microplate-based multiplex microcolumn device , 2014, Analytical and Bioanalytical Chemistry.
[2] N. Brockdorff,et al. The matrix protein hnRNP U is required for chromosomal localization of Xist RNA. , 2010, Developmental cell.
[3] Michael Y Tolstorukov,et al. The long noncoding RNAs NEAT1 and MALAT1 bind active chromatin sites. , 2014, Molecular cell.
[4] Richard Bonneau,et al. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. , 2012, Molecular cell.
[5] Howard Y. Chang,et al. Control of somatic tissue differentiation by the long non-coding RNA TINCR , 2012, Nature.
[6] E. Lander,et al. The Xist lncRNA Exploits Three-Dimensional Genome Architecture to Spread Across the X Chromosome , 2013, Science.
[7] C. Zurla,et al. Quantifying RNA–protein interactions in situ using modified-MTRIPs and proximity ligation , 2012, Nucleic acids research.
[8] H. Le Hir,et al. Transcriptome-wide identification of RNA binding sites by CLIP-seq. , 2013, Methods.
[9] Cole Trapnell,et al. Multiplexed RNA structure characterization with selective 2′-hydroxyl acylation analyzed by primer extension sequencing (SHAPE-Seq) , 2011, Proceedings of the National Academy of Sciences.
[10] Y. Zhang,et al. In vivo genome-wide profiling of RNA secondary structure reveals novel regulatory features , 2013, Nature.
[11] Zhonghan Li,et al. The long noncoding RNA THRIL regulates TNFα expression through its interaction with hnRNPL , 2013, Proceedings of the National Academy of Sciences.
[12] L. Stanton,et al. The long noncoding RNA RMST interacts with SOX2 to regulate neurogenesis. , 2013, Molecular cell.
[13] Lin Yang,et al. Long noncoding RNAs: fresh perspectives into the RNA world. , 2014, Trends in biochemical sciences.
[14] Howard Y. Chang,et al. Long Noncoding RNAs: Cellular Address Codes in Development and Disease , 2013, Cell.
[15] K. Weeks,et al. Exploring RNA structural codes with SHAPE chemistry. , 2011, Accounts of chemical research.
[16] Manolis Kellis,et al. Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo , 2013, Nature.
[17] J. Mcneil,et al. XIST RNA paints the inactive X chromosome at interphase: evidence for a novel RNA involved in nuclear/chromosome structure , 1996, The Journal of cell biology.
[18] P. Trang,et al. Nuclease footprint analyses of the interactions between RNase P ribozyme and a model mRNA substrate. , 1999, Nucleic acids research.
[19] D. Tollervey,et al. Mapping the miRNA interactome by cross-linking ligation and sequencing of hybrids (CLASH) , 2014, Nature Protocols.
[20] B. S. Baker,et al. The rox1 and rox2 RNAs are essential components of the compensasome, which mediates dosage compensation in Drosophila. , 1999, Molecular cell.
[21] Howard Y. Chang,et al. Revealing long noncoding RNA architecture and functions using domain-specific chromatin isolation by RNA purification , 2014, Nature Biotechnology.
[22] Edith Heard,et al. Fifty years of X-inactivation research , 2011, Development.
[23] M. Rosenfeld,et al. Brd4 and JMJD6-Associated Anti-Pause Enhancers in Regulation of Transcriptional Pause Release , 2013, Cell.
[24] A. Spence,et al. Epigenetic Licensing of Germline Gene Expression by Maternal RNA in C. elegans , 2011, Science.
[25] F. Regnier,et al. Quantification in proteomics through stable isotope coding: a review. , 2004, Journal of proteome research.
[26] Howard Y. Chang,et al. Systematic reconstruction of RNA functional motifs with high-throughput microfluidics , 2012, Nature Methods.
[27] Robert C. Wolpert,et al. A Review of the , 1985 .
[28] P. Brown,et al. The Yeast Rab GTPase Ypt1 Modulates Unfolded Protein Response Dynamics by Regulating the Stability of HAC1 RNA , 2012, PLoS genetics.
[29] Julius B. Lucks,et al. A modular strategy for engineering orthogonal chimeric RNA transcription regulators , 2013, Nucleic acids research.
[30] Howard Y. Chang,et al. Genome regulation by long noncoding RNAs. , 2012, Annual review of biochemistry.
[31] B Lucks Julius,et al. プライマー伸長塩基配列決定法(SHAPE‐Seq)を用いて分析した選択的2′‐ヒドロキシルアシル化による多重RNA構造の特徴化 , 2011 .
[32] T. Cech,et al. Defining the inside and outside of a catalytic RNA molecule. , 1989, Science.
[33] D. S. Gross,et al. Chromatin , 2020, Definitions.
[34] Phillip D Zamore,et al. Sequence-Specific Inhibition of Small RNA Function , 2004, PLoS biology.
[35] Norman E. Davey,et al. Insights into RNA Biology from an Atlas of Mammalian mRNA-Binding Proteins , 2012, Cell.
[36] P. Sharp,et al. Affinity chromatography of splicing complexes: U2, U5, and U4 + U6 small nuclear ribonucleoprotein particles in the spliceosome. , 1986, Science.
[37] Qiangfeng Cliff Zhang,et al. Landscape and variation of RNA secondary structure across the human transcriptome , 2014, Nature.
[38] O. Uhlenbeck,et al. Sequence-specific interaction of R17 coat protein with its ribonucleic acid binding site. , 1983, Biochemistry.
[39] Adam P Arkin,et al. Versatile RNA-sensing transcriptional regulators for engineering genetic networks , 2011, Proceedings of the National Academy of Sciences.
[40] Timur Zhiyentayev,et al. Single-cell in situ RNA profiling by sequential hybridization , 2014, Nature Methods.
[41] C. Glass,et al. Functional roles of enhancer RNAs for oestrogen-dependent transcriptional activation , 2013, Nature.
[42] S. Blackshaw,et al. Profiling the Human Protein-DNA Interactome Reveals ERK2 as a Transcriptional Repressor of Interferon Signaling , 2009, Cell.
[43] M. Disney,et al. Promoter-Bound Trinucleotide Repeat mRNA Drives Epigenetic Silencing in Fragile X Syndrome , 2014, Science.
[44] Grzegorz Kudla,et al. A pre-ribosomal RNA interaction network involving snoRNAs and the Rok1 helicase , 2014, RNA.
[45] Michael P Snyder,et al. SeqFold: Genome-scale reconstruction of RNA secondary structure integrating high-throughput sequencing data , 2013, Genome research.
[46] P. Becker,et al. ATP-dependent roX RNA remodeling by the helicase maleless enables specific association of MSL proteins. , 2013, Molecular cell.
[47] T. Pan. Probing RNA Structure by Lead Cleavage , 2000, Current protocols in nucleic acid chemistry.
[48] Howard Y. Chang,et al. Genomic maps of long noncoding RNA occupancy reveal principles of RNA-chromatin interactions. , 2011, Molecular cell.
[49] Robert Tibshirani,et al. Genome-wide measurement of RNA folding energies. , 2012, Molecular cell.
[50] P. Sharp,et al. RNA Bind-n-Seq: quantitative assessment of the sequence and structural binding specificity of RNA binding proteins. , 2014, Molecular cell.
[51] Howard Y. Chang,et al. Genome-wide mapping of RNA structure using nuclease digestion and high-throughput sequencing , 2013, Nature Protocols.
[52] David Tollervey,et al. Cross-linking, ligation, and sequencing of hybrids reveals RNA–RNA interactions in yeast , 2011, Proceedings of the National Academy of Sciences.
[53] Michael F. Lin,et al. Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals , 2009, Nature.
[54] Brad A Chapman,et al. The genomic binding sites of a noncoding RNA , 2011, Proceedings of the National Academy of Sciences.
[55] E. Lander,et al. Development and Applications of CRISPR-Cas9 for Genome Engineering , 2014, Cell.
[56] Steven Busan,et al. RNA motif discovery by SHAPE and mutational profiling (SHAPE-MaP) , 2014, Nature Methods.
[57] Howard Y. Chang,et al. Quantitative analysis of RNA-protein interactions on a massively parallel array for mapping biophysical and evolutionary landscapes , 2014, Nature Biotechnology.
[58] Philip D. Gregory,et al. Translating Dosage Compensation to Trisomy 21 , 2013, Nature.
[59] Karissa Y. Sanbonmatsu,et al. Structural architecture of the human long non-coding RNA, steroid receptor RNA activator , 2012, Nucleic acids research.
[60] Robert E. Kingston,et al. Purification of Proteins Associated with Specific Genomic Loci , 2009, Cell.
[61] J. Steitz,et al. Association of Argonaute proteins and microRNAs can occur after cell lysis. , 2012, RNA.
[62] R. Kurokawa,et al. Long Noncoding RNAs , 2015, Springer Japan.
[63] David R. Kelley,et al. Topological organization of multichromosomal regions by the long intergenic noncoding RNA Firre , 2014, Nature Structural &Molecular Biology.
[64] Howard Y. Chang,et al. RNA SHAPE analysis in living cells. , 2013, Nature chemical biology.
[65] S. Blackshaw,et al. The long noncoding RNA Six3OS acts in trans to regulate retinal development by modulating Six3 activity , 2011, Neural Development.
[66] Sarah K. Bowman,et al. High-resolution Xist binding maps reveal 2-step spreading during X-inactivation , 2013, Nature.
[67] Rolf Backofen,et al. Tandem stem-loops in roX RNAs act together to mediate X chromosome dosage compensation in Drosophila. , 2013, Molecular cell.
[68] Gisela Schnapp,et al. One-step affinity purification protocol for human telomerase , 1998, Nucleic Acids Res..
[69] R. Russell,et al. DMS footprinting of structured RNAs and RNA–protein complexes , 2007, Nature Protocols.
[70] P. Tsang,et al. A Prader–Willi locus lncRNA cloud modulates diurnal genes and energy expenditure , 2013, Human molecular genetics.
[71] Keith W. Vance,et al. The long non-coding RNA Paupar regulates the expression of both local and distal genes , 2014, The EMBO journal.
[72] Howard Y. Chang,et al. Genome-wide measurement of RNA secondary structure in yeast , 2010, Nature.
[73] Howard Y. Chang,et al. Long Noncoding RNA as Modular Scaffold of Histone Modification Complexes , 2010, Science.
[74] Scott A. Rifkin,et al. Imaging individual mRNA molecules using multiple singly labeled probes , 2008, Nature Methods.
[75] C. Rossetto,et al. KSHV PAN RNA Associates with Demethylases UTX and JMJD3 to Activate Lytic Replication through a Physical Interaction with the Virus Genome , 2012, PLoS pathogens.
[76] K. Collins,et al. RNA-based affinity purification reveals 7SK RNPs with distinct composition and regulation. , 2007, RNA.