Deciphering molecular interactions by proximity labeling

W Qin, KF Cho, PE Cavanagh, AY Ting - Nature methods, 2021 - nature.com
Many biological processes are executed and regulated through the molecular interactions of
proteins and nucleic acids. Proximity labeling (PL) is a technology for tagging the …

Understanding 3D genome organization by multidisciplinary methods

I Jerkovic, G Cavalli - Nature Reviews Molecular Cell Biology, 2021 - nature.com
Understanding how chromatin is folded in the nucleus is fundamental to understanding its
function. Although 3D genome organization has been historically difficult to study owing to a …

CRISPR technologies for precise epigenome editing

M Nakamura, Y Gao, AA Dominguez, LS Qi - Nature Cell Biology, 2021 - nature.com
The epigenome involves a complex set of cellular processes governing genomic activity.
Dissecting this complexity necessitates the development of tools capable of specifically …

Proximity labeling in mammalian cells with TurboID and split-TurboID

KF Cho, TC Branon, ND Udeshi, SA Myers, SA Carr… - Nature …, 2020 - nature.com
This protocol describes the use of TurboID and split-TurboID in proximity labeling
applications for mapping protein–protein interactions and subcellular proteomes in live …

The next generation of CRISPR–Cas technologies and applications

A Pickar-Oliver, CA Gersbach - Nature reviews Molecular cell biology, 2019 - nature.com
The prokaryote-derived CRISPR–Cas genome editing systems have transformed our ability
to manipulate, detect, image and annotate specific DNA and RNA sequences in living cells …

Probing and engineering liquid-phase organelles

D Bracha, MT Walls, CP Brangwynne - Nature biotechnology, 2019 - nature.com
Cells compartmentalize their intracellular environment to orchestrate countless
simultaneous biochemical processes. Many intracellular tasks rely on membrane-less …

Split-TurboID enables contact-dependent proximity labeling in cells

KF Cho, TC Branon, S Rajeev… - Proceedings of the …, 2020 - National Acad Sciences
Proximity labeling catalyzed by promiscuous enzymes, such as TurboID, have enabled the
proteomic analysis of subcellular regions difficult or impossible to access by conventional …

Proximity dependent biotinylation: key enzymes and adaptation to proteomics approaches

P Samavarchi-Tehrani, R Samson… - Molecular & Cellular …, 2020 - ASBMB
The study of protein subcellular distribution, their assembly into complexes and the set of
proteins with which they interact with is essential to our understanding of fundamental …

[HTML][HTML] Mechanisms of interplay between transcription factors and the 3D genome

S Kim, J Shendure - Molecular cell, 2019 - cell.com
Transcription factors (TFs) bind DNA in a sequence-specific manner and thereby serve as
the protein anchors and determinants of 3D genome organization. Conversely, chromatin …

[HTML][HTML] Recent advances in proximity-based labeling methods for interactome mapping

L Trinkle-Mulcahy - F1000Research, 2019 - ncbi.nlm.nih.gov
Proximity-based labeling has emerged as a powerful complementary approach to classic
affinity purification of multiprotein complexes in the mapping of protein–protein interactions …