Genome-wide mapping of embedded ribonucleotides and other noncanonical nucleotides using emRiboSeq and EndoSeq. (Q41819956)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26313479 AND SRC:MED&resulttype=core&format=json

23 February 2020

title

Genome-wide mapping of embedded ribonucleotides and other noncanonical nucleotides using emRiboSeq and EndoSeq (English)

1 reference

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23 February 2020

2

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23 February 2020

James Ding

1

1 reference

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23 February 2020

Andrew Jackson

3

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23 February 2020

Martin A.M. Reijns

4

1 reference

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23 February 2020

author name string

Martin A M Reijns

4

1 reference

12 October 2017

27 August 2015

1 reference

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23 February 2020

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23 February 2020

volume

10

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23 February 2020

issue

9

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23 February 2020

page(s)

1433-1444

1 reference

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Redundancy in ribonucleotide excision repair: Competition, compensation, and cooperation

23 February 2020

cites work

1 reference

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Evidence that processing of ribonucleotides in DNA by topoisomerase 1 is leading-strand specific.

6 June 2018

1 reference

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Ribonucleotide triggered DNA damage and RNA-DNA damage responses

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

A global profile of replicative polymerase usage

6 June 2018

1 reference

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Molecular underpinnings of Aprataxin RNA/DNA deadenylase function and dysfunction in neurological disease

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Lagging-strand replication shapes the mutational landscape of the genome

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Tracking replication enzymology in vivo by genome-wide mapping of ribonucleotide incorporation.

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Ribose-seq: global mapping of ribonucleotides embedded in genomic DNA.

6 June 2018

1 reference

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Defective removal of ribonucleotides from DNA promotes systemic autoimmunity.

6 June 2018

1 reference

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Reduction of hRNase H2 activity in Aicardi-Goutières syndrome cells leads to replication stress and genome instability

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

How the misincorporation of ribonucleotides into genomic DNA can be both harmful and helpful to cells

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Ribonuclease H2 in health and disease.

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Avoidance of ribonucleotide-induced mutations by RNase H2 and Srs2-Exo1 mechanisms

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Ribonucleotides in DNA: Origins, repair and consequences

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

A saccharomyces cerevisiae RNase H2 interaction network functions to suppress genome instability

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Aprataxin resolves adenylated RNA–DNA junctions to maintain genome integrity

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Removal of misincorporated ribonucleotides from prokaryotic genomes: an unexpected role for nucleotide excision repair

6 June 2018

1 reference

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Cost of rNTP/dNTP pool imbalance at the replication fork

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Ribonucleotides are signals for mismatch repair of leading-strand replication errors

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Ribonucleotides misincorporated into DNA act as strand-discrimination signals in eukaryotic mismatch repair

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Topoisomerase 1-mediated removal of ribonucleotides from nascent leading-strand DNA

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Two distinct mechanisms of Topoisomerase 1-dependent mutagenesis in yeast

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Ribonucleotide incorporation, proofreading and bypass by human DNA polymerase δ

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Human DNA polymerase ε is able to efficiently extend from multiple consecutive ribonucleotides

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Causes and consequences of ribonucleotide incorporation into nuclear DNA.

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

RNase H2-initiated ribonucleotide excision repair.

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Mammalian RNase H2 removes ribonucleotides from DNA to maintain genome integrity

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

The catalytic cycle for ribonucleotide incorporation by human DNA Pol

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Enzymatic removal of ribonucleotides from DNA is essential for mammalian genome integrity and development.

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

RNase H and postreplication repair protect cells from ribonucleotides incorporated in DNA

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Ribonucleotide discrimination and reverse transcription by the human mitochondrial DNA polymerase.

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Mutagenic Processing of Ribonucleotides in DNA by Yeast Topoisomerase I

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Mismatch repair-independent tandem repeat sequence instability resulting from ribonucleotide incorporation by DNA polymerase ε.

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

The Structure of the Human RNase H2 Complex Defines Key Interaction Interfaces Relevant to Enzyme Function and Human Disease

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Genome instability due to ribonucleotide incorporation into DNA.

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Abundant ribonucleotide incorporation into DNA by yeast replicative polymerases

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Mutations in genes encoding ribonuclease H2 subunits cause Aicardi-Goutières syndrome and mimic congenital viral brain infection

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

A genomewide screen in Saccharomyces cerevisiae for genes that suppress the accumulation of mutations

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Polymerase mu is a DNA-directed DNA/RNA polymerase

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Delta-elimination in the repair of AP (apurinic/apyrimidinic) sites in DNA.

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Ribonucleotides in DNA: hidden in plain sight.

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Arabidopsis thaliana RNase H2 deficiency counteracts the needs for the WEE1 checkpoint kinase but triggers genome instability.

18 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

High resolution mapping of modified DNA nucleobases using excision repair enzymes.

18 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Ribonucleotides and manganese ions improve non-homologous end joining by human Polμ.

18 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4876909

Molecular biology. Ribose--an internal threat to DNA

18 August 2018

1 reference

Crossref

https://api.crossref.org/works/10.1038/NPROT.2015.099

31 March 2020

Identifiers

DOI

10.1038/NPROT.2015.099

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26313479 AND SRC:MED&resulttype=core&format=json

23 February 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26313479 AND SRC:MED&resulttype=core&format=json

23 February 2020

PubMed publication ID

26313479

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26313479 AND SRC:MED&resulttype=core&format=json