4.6 Review

Proximity Labeling Techniques to Study Chromatin

Related references

Note: Only part of the references are listed.
Article Biochemistry & Molecular Biology

APEX2-mediated proximity labeling resolves protein networks in Saccharomyces cerevisiae cells

Birgit Singer-Krueger et al.

FEBS JOURNAL (2020)

Article Biochemical Research Methods

Combining Proximity Labeling and Cross-Linking Mass Spectrometry for Proteomic Dissection of Nuclear Envelope Interactome

Cheng-Hao Liu et al.

JOURNAL OF PROTEOME RESEARCH (2020)

Article Multidisciplinary Sciences

Nucleolar localization of RAG1 modulates V(D)J recombination activity

Ryan M. Brecht et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2020)

Article Biochemistry & Molecular Biology

A multi-layered structure of the interphase chromocenter revealed by proximity-based biotinylation

Natalia Y. Kochanova et al.

NUCLEIC ACIDS RESEARCH (2020)

Article Cell Biology

In vitro BioID: mapping the CENP-A microenvironment with high temporal and spatial resolution

Lucy Remnant et al.

MOLECULAR BIOLOGY OF THE CELL (2019)

Article Biochemistry & Molecular Biology

Determination of local chromatin interactions using a combined CRISPR and peroxidase APEX2 system

Wenqing Qiu et al.

NUCLEIC ACIDS RESEARCH (2019)

Article Chemistry, Multidisciplinary

Expanding APEX2 Substrates for Proximity-Dependent Labeling of Nucleic Acids and Proteins in Living Cells

Ying Zhou et al.

ANGEWANDTE CHEMIE-INTERNATIONAL EDITION (2019)

Article Biochemistry & Molecular Biology

Atlas of Subcellular RNA Localization Revealed by APEX-Seq

Furqan M. Fazal et al.

Article Biochemistry & Molecular Biology

Defining the NSD2 interactome: PARP1 PARylation reduces NSD2 histone methyltransferase activity and impedes chromatin binding

Xiaoxiao Huang et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2019)

Article Biochemistry & Molecular Biology

STK38 kinase acts as XPO1 gatekeeper regulating the nuclear export of autophagy proteins and other cargoes

Alexandre P. J. Martin et al.

EMBO REPORTS (2019)

Article Biochemistry & Molecular Biology

The human Shu complex functions with PDS5B and SPIDR to promote homologous recombination

Julieta Martino et al.

NUCLEIC ACIDS RESEARCH (2019)

Article Genetics & Heredity

PAX5 is part of a functional transcription factor network targeted in lymphoid leukemia

Kazuki Okuyama et al.

PLOS GENETICS (2019)

Article Biochemistry & Molecular Biology

Uncovering the In Vivo Proxisome Using Proximity-Tagging Methods

Yoann G. Santin

BIOESSAYS (2019)

Article Biochemistry & Molecular Biology

Proteomic mapping by rapamycin-dependent targeting of APEX2 identifies binding partners of VAPB at the inner nuclear membrane

Christina James et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2019)

Article Multidisciplinary Sciences

ZEB1/NuRD complex suppresses TBC1D2b to stimulate E-cadherin internalization and promote metastasis in lung cancer

Roxsan Manshouri et al.

NATURE COMMUNICATIONS (2019)

Article Biochemical Research Methods

Mapping the Ku Interactome Using Proximity-Dependent Biotin Identification in Human Cells

Sanna Abbasi et al.

JOURNAL OF PROTEOME RESEARCH (2019)

Article Biochemistry & Molecular Biology

Interactome Rewiring Following Pharmacological Targeting of BET Bromodomains

Jean-Philippe Lambert et al.

MOLECULAR CELL (2019)

Article Biochemistry & Molecular Biology

Directed Evolution of Split APEX2 Peroxidase

Yisu Han et al.

ACS CHEMICAL BIOLOGY (2019)

Article Biochemistry & Molecular Biology

Nuclear localization of Desmoplakin and its involvement in telomere maintenance

Peipei Li et al.

INTERNATIONAL JOURNAL OF BIOLOGICAL SCIENCES (2019)

Article Biochemical Research Methods

BioSITe: A Method for Direct Detection and Quantitation of Site-Specific Biotinylation

Dae In Kim et al.

JOURNAL OF PROTEOME RESEARCH (2018)

Article Biochemistry & Molecular Biology

High-Density Proximity Mapping Reveals the Subcellular Organization of mRNA-Associated Granules and Bodies

Ji-Young Youn et al.

MOLECULAR CELL (2018)

Article Biochemical Research Methods

C-BERST: defining subnuclear proteomic landscapes at genomic elements with dCas9-APEX2

Xin D. Gao et al.

NATURE METHODS (2018)

Article Biochemical Research Methods

RNA-protein interaction detection in living cells

Muthukumar Ramanathan et al.

NATURE METHODS (2018)

Article Biotechnology & Applied Microbiology

Efficient proximity labeling in living cells and organisms with TurboID

Tess C. Branon et al.

NATURE BIOTECHNOLOGY (2018)

Article Cell Biology

Inheritance of CENP-A Nucleosomes during DNA Replication Requires HJURP

Ewelina Zasadzinska et al.

DEVELOPMENTAL CELL (2018)

Article Biochemistry & Molecular Biology

MYC Protein Interactome Profiling Reveals Functionally Distinct Regions that Cooperate to Drive Tumorigenesis

Manpreet Kalkat et al.

MOLECULAR CELL (2018)

Article Multidisciplinary Sciences

Complementary proteomics strategies capture an ataxin-1 interactome in Neuro-2a cells

Sunyuan Zhang et al.

SCIENTIFIC DATA (2018)

Article Multidisciplinary Sciences

2C-BioID: An Advanced Two Component BioID System for Precision Mapping of Protein Interactomes

Alexandre Chojnowski et al.

ISCIENCE (2018)

Article Biochemistry & Molecular Biology

Split-BioID: a proximity biotinylation assay for dimerization-dependent protein interactions

Sofie De Munter et al.

FEBS LETTERS (2017)

Article Biochemical Research Methods

Antibodies to biotin enable large-scale detection of biotinylation sites on proteins

Namrata D. Udeshi et al.

NATURE METHODS (2017)

Article Multidisciplinary Sciences

Split-BioID a conditional proteomics approach to monitor the composition of spatiotemporally defined protein complexes

Isabel Myriam Schopp et al.

NATURE COMMUNICATIONS (2017)

Article Oncology

Transcription Factor GFI1B in Health and Disease

Eduardo Anguita et al.

Frontiers in Oncology (2017)

Article Biochemistry & Molecular Biology

Identification of Microprotein-Protein Interactions via APEX Tagging

Qian Chu et al.

BIOCHEMISTRY (2017)

Article Biochemistry & Molecular Biology

An Approach to Spatiotemporally Resolve Protein Interaction Networks in Living Cells

Braden T. Lobingier et al.

Article Biochemistry & Molecular Biology

Proximity mapping of human separase by the BioID approach

Fikret Gurkan Agircan et al.

BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS (2016)

Article Biochemistry & Molecular Biology

Proximity-dependent biotin labelling in yeast using the engineered ascorbate peroxidase APEX2

Jiwon Hwang et al.

BIOCHEMICAL JOURNAL (2016)

Article Biochemistry & Molecular Biology

A-type Lamins Form Distinct Filamentous Networks with Differential Nuclear Pore Complex Associations

Wei Xie et al.

CURRENT BIOLOGY (2016)

Article Cell Biology

An improved smaller biotin ligase for BioID proximity labeling

Dae In Kim et al.

MOLECULAR BIOLOGY OF THE CELL (2016)

Article Biochemical Research Methods

Spatially resolved proteomic mapping in living cells with the engineered peroxidase APEX2

Victoria Hung et al.

NATURE PROTOCOLS (2016)

Review Cell Biology

Filling the Void: Proximity-Based Labeling of Proteins in Living Cells

Dae In Kim et al.

TRENDS IN CELL BIOLOGY (2016)

Article Cell Biology

Determination of local chromatin composition by CasID

Elisabeth Schmidtmann et al.

NUCLEUS (2016)

Article Cell Biology

Determination of local chromatin composition by CasID

Elisabeth Schmidtmann et al.

NUCLEUS (2016)

Article Biochemical Research Methods

BioID identifies novel c-MYC interacting partners in cultured cells and xenograft tumors

Dharmendra Dingar et al.

JOURNAL OF PROTEOMICS (2015)

Article Biotechnology & Applied Microbiology

In vivo formaldehyde cross-linking: it is time for black box analysis

Alexey Gavrilov et al.

BRIEFINGS IN FUNCTIONAL GENOMICS (2015)

Article Biochemical Research Methods

Directed evolution of APEX2 for electron microscopy and proximity labeling

Stephanie S. Lam et al.

NATURE METHODS (2015)

Review Biochemistry & Molecular Biology

The ets transcription factor Fli-1 in development, cancer and disease

Y. Li et al.

ONCOGENE (2015)

Article Multidisciplinary Sciences

MacroH2A1 associates with nuclear lamina and maintains chromatin architecture in mouse liver cells

Yuhua Fu et al.

SCIENTIFIC REPORTS (2015)

Article Biochemistry & Molecular Biology

New Insights into the DT40 B Cell Receptor Cluster Using a Proteomic Proximity Labeling Assay

Xue-Wen Li et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2014)

Article Biochemical Research Methods

Direct Detection of Biotinylated Proteins by Mass Spectrometry

Lucio Matias Schiapparelli et al.

JOURNAL OF PROTEOME RESEARCH (2014)

Article Biochemical Research Methods

Proteomic Analysis of the EWS-Fli-1 Interactome Reveals the Role of the Lysosome in EWS-Fli-1 Turnover

David J. Elzi et al.

JOURNAL OF PROTEOME RESEARCH (2014)

Article Biochemistry & Molecular Biology

Compositional and structural analysis of selected chromosomal domains from Saccharomyces cerevisiae

Stephan Hamperl et al.

NUCLEIC ACIDS RESEARCH (2014)

Article Multidisciplinary Sciences

Probing nuclear pore complex architecture with proximity-dependent biotinylation

Dae In Kim et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2014)

Review Oncology

SOX2 and cancer: current research and its implications in the clinic

Kasia Weina et al.

CLINICAL AND TRANSLATIONAL MEDICINE (2014)

Review Biochemistry & Molecular Biology

New Mechanistic and Functional Insights into DNA Topoisomerases

Stefanie Hartman Chen et al.

ANNUAL REVIEW OF BIOCHEMISTRY, VOL 82 (2013)

Article Biochemistry & Molecular Biology

PUB-NChIP-in vivo biotinylation approach to study chromatin in proximity to a protein of interest

Muhammad Shoaib et al.

GENOME RESEARCH (2013)

Article Biochemical Research Methods

The CRAPome: a contaminant repository for affinity purification-mass spectrometry data

Dattatreya Mellacheruvu et al.

NATURE METHODS (2013)

Article Biotechnology & Applied Microbiology

Engineered ascorbate peroxidase as a genetically encoded reporter for electron microscopy

Jeffrey D. Martell et al.

NATURE BIOTECHNOLOGY (2012)

Article Biochemistry & Molecular Biology

NSD2 Links Dimethylation of Histone H3 at Lysine 36 to Oncogenic Programming

Alex J. Kuo et al.

MOLECULAR CELL (2011)

Article Biochemistry & Molecular Biology

A minimal peptide substrate in biotin holoenzyme synthetase-catalyzed biotinylation

Dorothy Beckett et al.

PROTEIN SCIENCE (2010)

Article Biochemistry & Molecular Biology

Purification of Proteins Associated with Specific Genomic Loci

Jerome Dejardin et al.

Article Chemistry, Multidisciplinary

Protein-protein interaction detection in vitro and in cells by proximity biotinylation

Marta Fernandez-Suarez et al.

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2008)

Article Multidisciplinary Sciences

Biochemical visualization of cell surface molecular clustering in living cells

Norihiro Kotani et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2008)

Review Biochemistry & Molecular Biology

Hydrogen peroxide sensing and signaling

Elizabeth A. Veal et al.

MOLECULAR CELL (2007)

Article Biochemistry & Molecular Biology

Targeted and proximity-dependent promiscuous protein biotinylation by a mutant Escherichia coli biotin protein ligase

JE Cronan

JOURNAL OF NUTRITIONAL BIOCHEMISTRY (2005)

Article Biochemistry & Molecular Biology

Promiscuous protein biotinylation by Escherichia coli biotin protein ligase

E Choi-Rhee et al.

PROTEIN SCIENCE (2004)

Review Cell Biology

MCM proteins: DNA damage, mutagenesis and repair

JM Bailis et al.

CURRENT OPINION IN GENETICS & DEVELOPMENT (2004)

Article Biochemistry & Molecular Biology

Affinity purification of specific chromatin segments from chromosomal loci in yeast

J Griesenbeck et al.

MOLECULAR AND CELLULAR BIOLOGY (2003)

Article Multidisciplinary Sciences

Efficient biotinylation and single-step purification of tagged transcription factors in mammalian cells and transgenic mice

E de Boer et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2003)

Article Biochemistry & Molecular Biology

Subnuclear localization of Ku protein: Functional association with RNA polymerase II elongation sites

XM Mo et al.

MOLECULAR AND CELLULAR BIOLOGY (2002)

Article Biochemistry & Molecular Biology

Multiple disordered loops function in corepressor-induced dimerization of the biotin repressor

K Kwon et al.

JOURNAL OF MOLECULAR BIOLOGY (2000)

Article Biochemistry & Molecular Biology

Function of a conserved sequence motif in biotin holoenzyme synthetases

K Kwon et al.

PROTEIN SCIENCE (2000)