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Showing 1–8 of 8 results

Advanced filters: Author: Liangqi Xie Clear advanced filters

BRD2 compartmentalizes the accessible genome

BRD2 facilitates mixing and compartmentalization of active chromatin upon cohesin depletion. BRD2’s function is counteracted by cohesin and BRD4.

Liangqi Xie
Peng Dong
Zhe Liu
Research11 Apr 2022
Nature Genetics

Volume: 54, P: 481-491
ecDNA hubs drive cooperative intermolecular oncogene expression

Extrachromosomal DNA (ecDNA) congregates in clusters called ecDNA hubs that promote intermolecular interactions between gene-regulatory regions and thereby amplify the expression of oncogenes such as MYC in cancer cell lines.

King L. Hung
Kathryn E. Yost
Howard Y. Chang
Research24 Nov 2021
Nature

Volume: 600, P: 731-736
3D ATAC-PALM: super-resolution imaging of the accessible genome

3D ATAC-PALM integrates ATAC with super-resolution imaging for nanoscale views of the accessible genome. When combined with FISH, protein fluorescence and genetic perturbation, the method enables investigation of accessible chromatin in situ.

Liangqi Xie
Peng Dong
Zhe Liu
Research16 Mar 2020
Nature Methods

Volume: 17, P: 430-436
Cohesin prevents cross-domain gene coactivation

Single-cell analyses in RAD21-depleted mouse embryonic stem cells show that cohesin limits the coexpression of genes located in different accessible chromatin domains on the same chromosome by preventing co-bursting and blocking spatial mixing of different transcriptional hubs.

Peng Dong
Shu Zhang
Zhe J. Liu
ResearchOpen Access24 Jul 2024
Nature Genetics

Volume: 56, P: 1654-1664
SnapFISH: a computational pipeline to identify chromatin loops from multiplexed DNA FISH data

Multiplexed DNA FISH technologies are powerful tools to reveal chromatin spatial organisation. Here, the authors developed SnapFISH, a computational pipeline to identify chromatin loops from multiplexed DNA FISH data.

Lindsay Lee
Hongyu Yu
Ming Hu
ResearchOpen Access12 Aug 2023
Nature Communications

Volume: 14, P: 1-7
A general method to optimize and functionalize red-shifted rhodamine dyes

A general tuning strategy is introduced for improving the utility of rhodamines for biological imaging applications. The strategy yielded bright, versatile and bioavailable far-red and near-infrared ‘Janelia Fluor’ dyes.

Jonathan B. Grimm
Ariana N. Tkachuk
Luke D. Lavis
Research27 Jul 2020
Nature Methods

Volume: 17, P: 815-821
The evolutionary dynamics of extrachromosomal DNA in human cancers

Random segregation of extrachromosomal DNA contributes to intratumoral heterogeneity and facilitates the rapid adaptation of human tumor cells to anticancer drugs.

Joshua T. Lange
John C. Rose
Paul S. Mischel
ResearchOpen Access19 Sept 2022
Nature Genetics

Volume: 54, P: 1527-1533
Building community resilience and calling for collective actions: how corporations and publics communicate disaster aid on social media

Xin Ma
Shilin Xia
Liangqi Ding
ResearchOpen Access27 May 2025
Humanities and Social Sciences Communications

Volume: 12, P: 1-13