Engineering DNA Backbone Interactions Results in TALE Scaffolds with Enhanced 5-Methylcytosine Selectivity

scientific article published on 8 November 2017

Engineering DNA Backbone Interactions Results in TALE Scaffolds with Enhanced 5-Methylcytosine Selectivity is …
instance of (P31):
scholarly articleQ13442814

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P356DOI10.1038/S41598-017-15361-1
P932PMC publication ID5678105
P698PubMed publication ID29118409

P2093author name stringDaniel Summerer
Anna Witte
Preeti Rathi
P2860cites workTALE proteins search DNA using a rotationally decoupled mechanism.Q51200001
Isolation of Human Genomic DNA Sequences with Expanded Nucleobase Selectivity.Q51244291
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A genomic sequencing protocol that yields a positive display of 5-methylcytosine residues in individual DNA strandsQ24562877
Efficient construction of sequence-specific TAL effectors for modulating mammalian transcriptionQ24605428
Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosineQ24614582
Establishing, maintaining and modifying DNA methylation patterns in plants and animalsQ24630397
Tet-mediated formation of 5-carboxylcytosine and its excision by TDG in mammalian DNAQ24632387
Single-nucleotide discrimination in immobilized DNA oligonucleotides with a biological nanoporeQ24642095
Mechanism and function of oxidative reversal of DNA and RNA methylationQ27002361
Chemical methods for decoding cytosine modifications in DNAQ27003288
Crystal structure of a TALE protein reveals an extended N-terminal DNA binding regionQ27675101
The Crystal Structure of TAL Effector PthXo1 Bound to Its DNA TargetQ27676609
Structural Basis for Sequence-Specific Recognition of DNA by TAL EffectorsQ27676611
Xanthomonas AvrBs3 family-type III effectors: discovery and functionQ28243062
Quantitative sequencing of 5-methylcytosine and 5-hydroxymethylcytosine at single-base resolutionQ28265420
A simple cipher governs DNA recognition by TAL effectorsQ28265506
Breaking the code of DNA binding specificity of TAL-type III effectorsQ28265515
A TALE nuclease architecture for efficient genome editingQ28301656
Efficient design and assembly of custom TALEN and other TAL effector-based constructs for DNA targetingQ29616145
Refined requirements for protein regions important for activity of the TALE AvrBs3.Q30316710
Repeat 1 of TAL effectors affects target specificity for the base at position zeroQ30317456
Combinatorial alanine-scanningQ30695340
Broad specificity profiling of TALENs results in engineered nucleases with improved DNA-cleavage specificityQ33566358
High‐Throughput DNA Sequencing Beyond the Four‐Letter Code: Epigenetic Modifications Revealed by Single‐Molecule Bypass KineticsQ33755051
Direct detection of DNA methylation during single-molecule, real-time sequencingQ33888756
The discovery of 5-formylcytosine in embryonic stem cell DNA.Q34027511
A novel TALE nuclease scaffold enables high genome editing activity in combination with low toxicity.Q34205743
Comprehensive interrogation of natural TALE DNA-binding modules and transcriptional repressor domainsQ34290068
Overcoming transcription activator-like effector (TALE) DNA binding domain sensitivity to cytosine methylation.Q34302406
Quantitative sequencing of 5-formylcytosine in DNA at single-base resolutionQ34416525
Nanopores discriminate among five C5-cytosine variants in DNAQ34778264
Processive replication of single DNA molecules in a nanopore catalyzed by phi29 DNA polymeraseQ34789206
Differential stabilities and sequence-dependent base pair opening dynamics of Watson-Crick base pairs with 5-hydroxymethylcytosine, 5-formylcytosine, or 5-carboxylcytosineQ35076369
TALEored Epigenetics: A DNA-Binding Scaffold for Programmable Epigenome Editing and AnalysisQ35955504
Base-resolution analysis of 5-hydroxymethylcytosine in the mammalian genome.Q36659158
Quantitative analysis of TALE-DNA interactions suggests polarity effects.Q36769443
Genome-wide profiling of 5-formylcytosine reveals its roles in epigenetic primingQ36853522
Editing the epigenome: technologies for programmable transcription and epigenetic modulationQ37042113
Chemical modification-assisted bisulfite sequencing (CAB-Seq) for 5-carboxylcytosine detection in DNA.Q37055345
Reversing DNA methylation: mechanisms, genomics, and biological functionsQ37609689
TAL effectors: customizable proteins for DNA targetingQ37940951
Achieving single-nucleotide resolution of 5-methylcytosine detection with TALEs.Q38302128
Deciphering Epigenetic Cytosine Modifications by Direct Molecular Recognition.Q38432724
Epigenome Editing: State of the Art, Concepts, and PerspectivesQ38687451
Imaging Specific Genomic DNA in Living CellsQ38825672
TET-mediated active DNA demethylation: mechanism, function and beyondQ39337480
Direct sensing of 5-methylcytosine by polymerase chain reactionQ41125239
Targeted transcriptional activation of silent oct4 pluripotency gene by combining designer TALEs and inhibition of epigenetic modifiers.Q42216522
Deciphering TAL effectors for 5-methylcytosine and 5-hydroxymethylcytosine recognitionQ42376151
Complete decoding of TAL effectors for DNA recognitionQ42556340
Improved specificity of TALE-based genome editing using an expanded RVD repertoireQ46333905
Interrogating Key Positions of Size-Reduced TALE Repeats Reveals a Programmable Sensor of 5-CarboxylcytosineQ47250709
P275copyright licenseCreative Commons Attribution 4.0 InternationalQ20007257
P6216copyright statuscopyrightedQ50423863
P433issue1
P407language of work or nameEnglishQ1860
P304page(s)15067
P577publication date2017-11-08
P1433published inScientific ReportsQ2261792
P1476titleEngineering DNA Backbone Interactions Results in TALE Scaffolds with Enhanced 5-Methylcytosine Selectivity
P478volume7

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cites work (P2860)
Q49917892Harnessing natural DNA modifying activities for editing of the genome and epigenome.
Q47282173Recognition of Oxidized 5-Methylcytosine Derivatives in DNA by Natural and Engineered Protein Scaffolds