qDRIP: a method to quantitatively assess RNA–DNA hybrid formation genome-wide
Published 2020 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
qDRIP: a method to quantitatively assess RNA–DNA hybrid formation genome-wide
Authors
Keywords
-
Journal
NUCLEIC ACIDS RESEARCH
Volume -, Issue -, Pages -
Publisher
Oxford University Press (OUP)
Online
2020-06-04
DOI
10.1093/nar/gkaa500
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- Ultra-Deep Coverage Single-Molecule R-loop Footprinting Reveals Principles of R-loop Formation
- (2020) Maika Malig et al. JOURNAL OF MOLECULAR BIOLOGY
- SNP-ChIP: a versatile and tag-free method to quantify changes in protein binding across the genome
- (2019) Luis A. Vale-Silva et al. BMC GENOMICS
- R-Loops as Cellular Regulators and Genomic Threats
- (2019) Madzia P. Crossley et al. MOLECULAR CELL
- High-resolution, strand-specific R-loop mapping via S9.6-based DNA–RNA immunoprecipitation and high-throughput sequencing
- (2019) Lionel A. Sanz et al. Nature Protocols
- R-Loops Promote Antisense Transcription across the Mammalian Genome
- (2019) Sue Mei Tan-Wong et al. MOLECULAR CELL
- Mapping Native R-Loops Genome-wide Using a Targeted Nuclease Approach
- (2019) Qingqing Yan et al. Cell Reports
- The Affinity of the S9.6 Antibody for Double-Stranded RNAs Impacts the Accurate Mapping of R-Loops in Fission Yeast
- (2018) Stella R. Hartono et al. JOURNAL OF MOLECULAR BIOLOGY
- The Augmented R-Loop Is a Unifying Mechanism for Myelodysplastic Syndromes Induced by High-Risk Splicing Factor Mutations
- (2018) Liang Chen et al. MOLECULAR CELL
- Parallel factor ChIP provides essential internal control for quantitative differential ChIP-seq
- (2018) Michael J Guertin et al. NUCLEIC ACIDS RESEARCH
- Genome-wide Map of R-Loop-Induced Damage Reveals How a Subset of R-Loops Contributes to Genomic Instability
- (2018) Lorenzo Costantino et al. MOLECULAR CELL
- EWS–FLI1 increases transcription to cause R-loops and block BRCA1 repair in Ewing sarcoma
- (2018) Aparna Gorthi et al. NATURE
- R‐loop formation during S phase is restricted by PrimPol‐mediated repriming
- (2018) Saša Šviković et al. EMBO JOURNAL
- RNA-DNA hybrid (R-loop) immunoprecipitation mapping: an analytical workflow to evaluate inherent biases
- (2017) László Halász et al. GENOME RESEARCH
- Canonical DNA Repair Pathways Influence R-Loop-Driven Genome Instability
- (2017) Peter C. Stirling et al. JOURNAL OF MOLECULAR BIOLOGY
- R-ChIP Using Inactive RNase H Reveals Dynamic Coupling of R-loops with Transcriptional Pausing at Gene Promoters
- (2017) Liang Chen et al. MOLECULAR CELL
- Histone Mutants Separate R Loop Formation from Genome Instability Induction
- (2017) Desiré García-Pichardo et al. MOLECULAR CELL
- Introns Protect Eukaryotic Genomes from Transcription-Associated Genetic Instability
- (2017) Amandine Bonnet et al. MOLECULAR CELL
- The monoclonal S9.6 antibody exhibits highly variable binding affinities towards different R-loop sequences
- (2017) Fabian König et al. PLoS One
- Attenuation of RNA polymerase II pausing mitigates BRCA1-associated R-loop accumulation and tumorigenesis
- (2017) Xiaowen Zhang et al. Nature Communications
- Defining the location of promoter-associated R-loops at near-nucleotide resolution using bisDRIP-seq
- (2017) Jason G Dumelie et al. eLife
- The Role of Replication-Associated Repair Factors on R-Loops
- (2017) et al. Genes
- S1-DRIP-seq identifies high expression and polyA tracts as major contributors to R-loop formation
- (2016) Lamia Wahba et al. GENES & DEVELOPMENT
- Prevalent, Dynamic, and Conserved R-Loop Structures Associate with Specific Epigenomic Signatures in Mammals
- (2016) Lionel A. Sanz et al. MOLECULAR CELL
- Identification of G-quadruplexes in long functional RNAs using 7-deazaguanine RNA
- (2016) Carika Weldon et al. Nature Chemical Biology
- Nascent Connections: R-Loops and Chromatin Patterning
- (2016) Frédéric Chédin TRENDS IN GENETICS
- Replication landscape of the human genome
- (2016) Nataliya Petryk et al. Nature Communications
- Co-transcriptional R-loops are the main cause of estrogen-induced DNA damage
- (2016) Caroline Townsend Stork et al. eLife
- Mammalian NET-Seq Reveals Genome-wide Nascent Transcription Coupled to RNA Processing
- (2015) Takayuki Nojima et al. CELL
- The Yin and Yang of R-loop biology
- (2015) Lorenzo Costantino et al. CURRENT OPINION IN CELL BIOLOGY
- The Overlooked Fact: Fundamental Need for Spike-In Control for Virtually All Genome-Wide Analyses
- (2015) Kaifu Chen et al. MOLECULAR AND CELLULAR BIOLOGY
- BRCA1 Recruitment to Transcriptional Pause Sites Is Required for R-Loop-Driven DNA Damage Repair
- (2015) Elodie Hatchi et al. MOLECULAR CELL
- High-throughput sequencing of DNA G-quadruplex structures in the human genome
- (2015) Vicki S Chambers et al. NATURE BIOTECHNOLOGY
- R loops: new modulators of genome dynamics and function
- (2015) José M. Santos-Pereira et al. NATURE REVIEWS GENETICS
- CDK9 inhibitors define elongation checkpoints at both ends of RNA polymerase II–transcribed genes
- (2015) Clélia Laitem et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- RNA:DNA hybrids in the human genome have distinctive nucleotide characteristics, chromatin composition, and transcriptional relationships
- (2015) Julie Nadel et al. Epigenetics & Chromatin
- CDK9 inhibitors define elongation checkpoints at both ends of RNA polymerase II–transcribed genes
- (2015) Clélia Laitem et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Skewer: a fast and accurate adapter trimmer for next-generation sequencing paired-end reads
- (2014) Hongshan Jiang et al. BMC BIOINFORMATICS
- Nucleosome loss leads to global transcriptional up-regulation and genomic instability during yeast aging
- (2014) Z. Hu et al. GENES & DEVELOPMENT
- deepTools: a flexible platform for exploring deep-sequencing data
- (2014) Fidel Ramírez et al. NUCLEIC ACIDS RESEARCH
- Quantitative ChIP-Seq Normalization Reveals Global Modulation of the Epigenome
- (2014) David A. Orlando et al. Cell Reports
- 4sUDRB-seq: measuring genomewide transcriptional elongation rates and initiation frequencies within cells
- (2014) Gilad Fuchs et al. GENOME BIOLOGY
- The Genomic and Transcriptomic Landscape of a HeLa Cell Line
- (2013) Jonathan J. M. Landry et al. G3-Genes Genomes Genetics
- Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration
- (2012) H. Thorvaldsdottir et al. BRIEFINGS IN BIOINFORMATICS
- Revisiting Global Gene Expression Analysis
- (2012) Jakob Lovén et al. CELL
- R-Loop Formation Is a Distinctive Characteristic of Unmethylated Human CpG Island Promoters
- (2012) Paul A. Ginno et al. MOLECULAR CELL
- A hybrid G-quadruplex structure formed between RNA and DNA explains the extraordinary stability of the mitochondrial R-loop
- (2012) P. H. Wanrooij et al. NUCLEIC ACIDS RESEARCH
- A Quick, Cost-Free Method of Purification of DNA Fragments from Agarose Gel
- (2012) Yuan Sun et al. Journal of Cancer
- Synthetic spike-in standards for RNA-seq experiments
- (2011) L. Jiang et al. GENOME RESEARCH
- Human Senataxin Resolves RNA/DNA Hybrids Formed at Transcriptional Pause Sites to Promote Xrn2-Dependent Termination
- (2011) Konstantina Skourti-Stathaki et al. MOLECULAR CELL
- BEDTools: a flexible suite of utilities for comparing genomic features
- (2010) Aaron R. Quinlan et al. BIOINFORMATICS
- The Sequence Alignment/Map format and SAMtools
- (2009) H. Li et al. BIOINFORMATICS
- Fast and accurate short read alignment with Burrows-Wheeler transform
- (2009) H. Li et al. BIOINFORMATICS
- Model-based Analysis of ChIP-Seq (MACS)
- (2008) Yong Zhang et al. GENOME BIOLOGY
Discover Peeref hubs
Discuss science. Find collaborators. Network.
Join a conversationPublish scientific posters with Peeref
Peeref publishes scientific posters from all research disciplines. Our Diamond Open Access policy means free access to content and no publication fees for authors.
Learn More