R-loopDB

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R-loopDB

metasource: Fairsharing.org
version: None

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R-LoopDB

metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

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Other names: R-LoopDB

R-loop DB is a collection of R-loop forming sequences (RLFS) predicted computationally in the human genome based on quantitative model of RLFS (QmRLFS). The database additionally includes chromosome coordinates and annotation of many hundred thousand of newly predicted RLFSs computationally defined in the genomes of eight species. Genome-wide experimentally detected RNA-DNA hybrid data were also integrated into the R-loop DB.

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Publications

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R-loopDB: a database for R-loop forming sequences (RLFS) and R-loops
PMID: 27899586

metasource: Fairsharing.org
version: None

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http://dx.doi.org/10.1093/nar/1924

metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

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• R-loopDB: a database for R-loop forming sequences (RLFS) and R-loops PubMed citations: 15.

  15 articles citing: R-loopDB: a database for R-loop forming sequences (RLFS) and R-loops

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  Quality-controlled R-loop meta-analysis reveals the characteristics of R-loop consensus regions. PMID:35758606

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  HOTTIP-dependent R-loop formation regulates CTCF boundary activity and TAD integrity in leukemia. PMID:35180428

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  R-loopBase: a knowledgebase for genome-wide R-loop formation and regulation. PMID:34792163

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  Integrator enforces the fidelity of transcriptional termination at protein-coding genes. PMID:34730992

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  A Tale of Loops and Tails: The Role of Intrinsically Disordered Protein Regions in R-Loop Recognition and Phase Separation. PMID:34179096

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  Systematics for types and effects of RNA variations. PMID:32951567

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  R-loop-forming Sequences Analysis in Thousands of Viral Genomes Identify A New Common Element in Herpesviruses. PMID:32286400

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  The SUMOylated METTL8 Induces R-loop and Tumorigenesis via m3C. PMID:32199293

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  Duplex DNA from Sites of Helicase-Polymerase Uncoupling Links Non-B DNA Structure Formation to Replicative Stress. PMID:32108033

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  Ultra-deep Coverage Single-molecule R-loop Footprinting Reveals Principles of R-loop Formation. PMID:32105733

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  A comprehensive method protocol for annotation and integrated functional understanding of lncRNAs. PMID:31578571

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  Systematics for types and effects of DNA variations. PMID:30591019

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  Divergent lncRNA GATA3-AS1 Regulates GATA3 Transcription in T-Helper 2 Cells. PMID:30420860

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  The G-rich Repeats in FMR1 and C9orf72 Loci Are Hotspots for Local Unpairing of DNA. PMID:30396881

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  Toward predictive R-loop computational biology: genome-scale prediction of R-loops reveals their association with complex promoter structures, G-quadruplexes and transcriptionally active enhancers. PMID:29945198
• http://dx.doi.org/10.1093/nar/1924

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annotation

metasource: Fairsharing.org
version: None

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chromosomal region

metasource: Fairsharing.org
version: None

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computational predictions

metasource: Fairsharing.org
version: None

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nucleic acid sequence

metasource: Fairsharing.org
version: None

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nucleotide sequence databases

metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

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coding and non-coding dna

metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

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chromosomal region computational predictions nucleic acid sequence nucleic acid sequence coding and non-coding dna