A SILAC-based DNA protein interaction screen that identifies candidate binding proteins to functional DNA elements (Q37119633)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19015324 AND SRC:MED&resulttype=core&format=json

17 January 2020

title

A SILAC-based DNA protein interaction screen that identifies candidate binding proteins to functional DNA elements (English)

1 reference

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17 January 2020

2

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17 January 2020

author name string

Gerhard Mittler

series ordinal

1

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19015324 AND SRC:MED&resulttype=core&format=json

17 January 2020

Matthias Mann

series ordinal

3

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17 January 2020

publication date

17 November 2008

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17 January 2020

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17 January 2020

volume

19

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17 January 2020

issue

2

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17 January 2020

page(s)

284-293

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MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification

17 January 2020

cites work

1 reference

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The biological impact of mass-spectrometry-based proteomics

14 September 2017

1 reference

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The SRA protein Np95 mediates epigenetic inheritance by recruiting Dnmt1 to methylated DNA

14 September 2017

1 reference

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Is proteomics the new genomics?

14 September 2017

1 reference

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Quantification of the synaptosomal proteome of the rat cerebellum during post-natal development

14 September 2017

1 reference

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UHRF1 plays a role in maintaining DNA methylation in mammalian cells

14 September 2017

1 reference

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Direct interaction between DNMT1 and G9a coordinates DNA and histone methylation during replication

14 September 2017

1 reference

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Status of complete proteome analysis by mass spectrometry: SILAC labeled yeast as a model system

14 September 2017

1 reference

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Phosphotyrosine interactome of the ErbB-receptor kinase family

14 September 2017

1 reference

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Defining the sequence-recognition profile of DNA-binding molecules

14 September 2017

1 reference

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A global map of p53 transcription-factor binding sites in the human genome

14 September 2017

1 reference

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Transcription factor target practice

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Mass spectrometry-based proteomics turns quantitative

14 September 2017

1 reference

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Genomic DNA methylation: the mark and its mediators

14 September 2017

1 reference

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Trapping DNA-protein binding reactions with neutral osmolytes for the analysis by gel mobility shift and self-cleavage assays

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

DNA methylation and human disease

14 September 2017

1 reference

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In vivo transcriptional regulation of N-Myc target genes is controlled by E-box methylation

14 September 2017

1 reference

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Proof of concept for microarray-based detection of DNA-binding oncogenes in cell extracts

14 September 2017

1 reference

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Identifying and quantifying in vivo methylation sites by heavy methyl SILAC

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Mechanism of DNA binding and localized strand separation by Pur alpha and comparison with Pur family member, Pur beta

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Systematic discovery of regulatory motifs in human promoters and 3' UTRs by comparison of several mammals

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Assessing computational tools for the discovery of transcription factor binding sites

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Rapid analysis of the DNA-binding specificities of transcription factors with DNA microarrays.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Regulation of gene expression by a metabolic enzyme

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

ICBP90, an E2F-1 target, recruits HDAC1 and binds to methyl-CpG through its SRA domain

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Transcriptional regulatory code of a eukaryotic genome

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Combinatorial control of gene expression.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

From sequence to structure and back again: approaches for predicting protein-DNA binding

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Applied bioinformatics for the identification of regulatory elements

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Ultraconserved Elements in the Human Genome

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Erralpha and Gabpa/b specify PGC-1alpha-dependent oxidative phosphorylation gene expression that is altered in diabetic muscle

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Unbiased mapping of transcription factor binding sites along human chromosomes 21 and 22 points to widespread regulation of noncoding RNAs

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Quantitative proteomic identification of six4 as the trex-binding factor in the muscle creatine kinase enhancer

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Regulation of RNA polymerase II transcription by sequence-specific DNA binding factors

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Computational prediction of transcription-factor binding site locations

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

A novel proteomic screen for peptide-protein interactions

14 September 2017

1 reference

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A correlation algorithm for the automated quantitative analysis of shotgun proteomics data

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Affinity capture of specific DNA-binding proteins for mass spectrometric identification

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Molecular cloning and characterization of AP-2 epsilon, a fifth member of the AP-2 family

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Methyl-CpG binding proteins identify novel sites of epigenetic inactivation in human cancer.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

N-CoR mediates DNA methylation-dependent repression through a methyl CpG binding protein Kaiso

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Properties of 13C-Substituted Arginine in Stable Isotope Labeling by Amino Acids in Cell Culture (SILAC)

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Identification of a nuclear orphan receptor (Ear2) as a negative regulator of renin gene transcription

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

The affinity of different MBD proteins for a specific methylated locus depends on their intrinsic binding properties

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

The p120(ctn)-binding partner Kaiso is a bi-modal DNA-binding protein that recognizes both a sequence-specific consensus and methylated CpG dinucleotides

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Quantitative prediction of NF-kappa B DNA-protein interactions

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

New twists on the epigenetics of CpG islands

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

GATA-1 binding sites mapped in the beta-globin locus by using mammalian chIp-chip analysis

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

The TRANSFAC system on gene expression regulation.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

The puzzle of PCNA's many partners

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Nuclear orphan receptors regulate transcription of the gene for the human luteinizing hormone receptor

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Quantitative analysis of complex protein mixtures using isotope-coded affinity tags

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

MBD2 is a transcriptional repressor belonging to the MeCP1 histone deacetylase complex

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

SELEX and missing phosphate contact analyses reveal flexibility within the AP-2[alpha] protein: DNA binding complex

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Purification of early-B-cell factor and characterization of its DNA-binding specificity

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

The orphan receptors NGFI-B and steroidogenic factor 1 establish monomer binding as a third paradigm of nuclear receptor-DNA interaction

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Determinants of target gene specificity for ROR alpha 1: monomeric DNA binding by an orphan nuclear receptor

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Accurate transcription initiation by RNA polymerase II in a soluble extract from isolated mammalian nuclei

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Sequence of cDNA comprising the human pur gene and sequence-specific single-stranded-DNA-binding properties of the encoded protein

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

DNA binding selectivity of MeCP2 due to a requirement for A/T sequences adjacent to methyl-CpG.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Interaction of HTLV-1 Tax and methyl-CpG-binding domain 2 positively regulates the gene expression from the hypermethylated LTR.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Kaiso-deficient mice show resistance to intestinal cancer

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

MBD2/NuRD and MBD3/NuRD, two distinct complexes with different biochemical and functional properties.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Stable isotope labeling by amino acids in cell culture (SILAC) and proteome quantitation of mouse embryonic stem cells to a depth of 5,111 proteins

27 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Modulation of NF-kappaB activity by exchange of dimers.

3 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2652210

Nucleoprotein interactions governing cell type-dependent repression of the mouse smooth muscle alpha-actin promoter by single-stranded DNA-binding proteins Pur alpha and Pur beta

3 September 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19015324

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19015324

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

DNA methylation inhibits transcription indirectly via a methyl-CpG binding protein

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19015324

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1101/GR.081711.108

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19015324 AND SRC:MED&resulttype=core&format=json

17 January 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19015324 AND SRC:MED&resulttype=core&format=json

17 January 2020

PubMed publication ID

19015324

1 reference