Molecular Spatiomics by Proximity Labeling

Spatiotemporal profiling of cytosolic signaling complexes in living cells by selective proximity proteomics

(2021) Mi Ke et al.   Nature Communications

Small RNAs are modified with N-glycans and displayed on the surface of living cells

(2021) Ryan A. Flynn et al.   CELL

Proximity Histidine Labeling by Umpolung Strategy Using Singlet Oxygen

(2021) Keita Nakane et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Thiol-Cleavable Biotin for Chemical and Enzymatic Biotinylation and Its Application to Mitochondrial TurboID Proteomics

(2021) Haorong Li et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

Dynamic tracking and identification of tissue-specific secretory proteins in the circulation of live mice

(2021) Kwang-eun Kim et al.   Nature Communications

Cell-type and subcellular compartment-specific APEX2 proximity labeling reveals activity-dependent nuclear proteome dynamics in the striatum

(2021) V. Dumrongprechachan et al.   Nature Communications

Analysis of subcellular transcriptomes by RNA proximity labeling with Halo-seq

(2021) Krysta L Engel et al.   NUCLEIC ACIDS RESEARCH

Proximity labeling: an enzymatic tool for spatial biology

(2021) Chang-Ryul Choi et al.   TRENDS IN BIOTECHNOLOGY

A chemical tool for blue light-inducible proximity photo-crosslinking in live cells

(2021) Pratyush Kumar Mishra et al.   Chemical Science

Microenvironment mapping via Dexter energy transfer on immune cells

(2020) Jacob B. Geri et al.   SCIENCE

Identifying the Cardiac Dyad Proteome In Vivo by a BioID2 Knock-In Strategy

(2020) Wei Feng et al.   CIRCULATION

Contact-ID, a tool for profiling organelle contact sites, reveals regulatory proteins of mitochondrial-associated membrane formation

(2020) Chulhwan Kwak et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Purification of protein therapeutics via high-affinity supramolecular host–guest interactions

(2020) Jaeyeon An et al.   Nature Biomedical Engineering

Chromophore‐Assisted Proximity Labeling of DNA Reveals Chromosomal Organization in Living Cells

(2020) Tao Ding et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

In vivo proximity proteomics of nascent synapses reveals a novel regulator of cytoskeleton-mediated synaptic maturation

(2019) Erin F. Spence et al.   Nature Communications

The structure of human EXD2 reveals a chimeric 3′ to 5′ exonuclease domain that discriminates substrates via metal coordination

(2019) Jumi Park et al.   NUCLEIC ACIDS RESEARCH

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

(2019) Ying Zhou et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Atlas of Subcellular RNA Localization Revealed by APEX-Seq

(2019) Furqan M. Fazal et al.   CELL

Proximity labeling reveals novel interactomes in live Drosophila tissue

(2019) Katelynn M. Mannix et al.   DEVELOPMENT

Proximity RNA Labeling by APEX-Seq Reveals the Organization of Translation Initiation Complexes and Repressive RNA Granules

(2019) Alejandro Padrón et al.   MOLECULAR CELL

Mapping spatial transcriptome with light-activated proximity-dependent RNA labeling

(2019) Pengchong Wang et al.   Nature Chemical Biology

Context-Dependent and Disease-Specific Diversity in Protein Interactions within Stress Granules

(2018) Sebastian Markmiller et al.   CELL

EXD2 governs germ stem cell homeostasis and lifespan by promoting mitoribosome integrity and translation

(2018) Joana Silva et al.   NATURE CELL BIOLOGY

Mapping 3D genome organization relative to nuclear compartments using TSA-Seq as a cytological ruler

(2018) Yu Chen et al.   JOURNAL OF CELL BIOLOGY

Efficient proximity labeling in living cells and organisms with TurboID

(2018) Tess C Branon et al.   NATURE BIOTECHNOLOGY

Chemistry for Covalent Modification of Endogenous/Native Proteins: From Test Tubes to Complex Biological Systems

(2018) Tomonori Tamura et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Base composition is the primary factor responsible for the variation of amino acid usage in zebra finch (Taeniopygia guttata)

(2018) Yousheng Rao et al.   PLoS One

Architecture Mapping of the Inner Mitochondrial Membrane Proteome by Chemical Tools in Live Cells

(2017) Song-Yi Lee et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Biotinylation by antibody recognition—a method for proximity labeling

(2017) Daniel Z Bar et al.   NATURE METHODS

In vivo mapping of tissue- and subcellular-specific proteomes in Caenorhabditis elegans

(2017) Aaron W. Reinke et al.   Science Advances

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

(2016) J. Hwang et al.   BIOCHEMICAL JOURNAL

Proteomic Analysis of Unbounded Cellular Compartments: Synaptic Clefts

(2016) Ken H. Loh et al.   CELL

Direct Proximity Tagging of Small Molecule Protein Targets Using an Engineered NEDD8 Ligase

(2016) Zachary B. Hill et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Endoplasmic Reticulum-Localized Iridium(III) Complexes as Efficient Photodynamic Therapy Agents via Protein Modifications

(2016) Jung Seung Nam et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Structure of mammalian respiratory complex I

(2016) Jiapeng Zhu et al.   NATURE

EXD2 promotes homologous recombination by facilitating DNA end resection

(2016) Ronan Broderick et al.   NATURE CELL BIOLOGY

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

(2016) Victoria Hung et al.   Nature Protocols

Identification of an elaborate complex mediating postsynaptic inhibition

(2016) A. Uezu et al.   SCIENCE

Proximity-Directed Labeling Reveals a New Rapamycin-Induced Heterodimer of FKBP25 and FRB in Live Cells

(2016) Song-Yi Lee et al.   ACS Central Science

Proteomic mapping of ER–PM junctions identifies STIMATE as a regulator of Ca2+ influx

(2015) Ji Jing et al.   NATURE CELL BIOLOGY

Proteomic mapping in liveDrosophilatissues using an engineered ascorbate peroxidase

(2015) Chiao-Lin Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Tissue-based map of the human proteome

(2015) M. Uhlen et al.   SCIENCE

Proteomic Mapping of the Human Mitochondrial Intermembrane Space in Live Cells via Ratiometric APEX Tagging

(2014) Victoria Hung et al.   MOLECULAR CELL

Directed evolution of APEX2 for electron microscopy and proximity labeling

(2014) Stephanie S Lam et al.   NATURE METHODS

Visible Light Photoredox Catalysis with Transition Metal Complexes: Applications in Organic Synthesis

(2013) Christopher K. Prier et al.   CHEMICAL REVIEWS

The Genotype-Tissue Expression (GTEx) project

(2013) John Lonsdale et al.   NATURE GENETICS

Proteomic Mapping of Mitochondria in Living Cells via Spatially Restricted Enzymatic Tagging

(2013) H.-W. Rhee et al.   SCIENCE

A promiscuous biotin ligase fusion protein identifies proximal and interacting proteins in mammalian cells

(2012) Kyle J. Roux et al.   JOURNAL OF CELL BIOLOGY

Engineered ascorbate peroxidase as a genetically encoded reporter for electron microscopy

(2012) Jeffrey D Martell et al.   NATURE BIOTECHNOLOGY

A Genetically Encoded Tag for Correlated Light and Electron Microscopy of Intact Cells, Tissues, and Organisms

(2011) Xiaokun Shu et al.   PLOS BIOLOGY

Kinetics of reduction of tyrosine phenoxyl radicals by glutathione

(2010) Lisa K. Folkes et al.   ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS

Mode of action of hydrogen peroxide and other oxidizing agents: differences between liquid and gas forms

(2010) M. Finnegan et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Influence of Solvent on Carbene Intersystem Crossing Rates

(2008) Jin Wang et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Expanding the Substrate Tolerance of Biotin Ligase through Exploration of Enzymes from Diverse Species

(2008) Sarah A. Slavoff et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Biochemical visualization of cell surface molecular clustering in living cells

(2008) N. Kotani et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Promiscuous protein biotinylation by Escherichia coli biotin protein ligase

(2004) Eunjoo Choi-Rhee et al.   PROTEIN SCIENCE