百晓学者学者目录

林承棋

副教授、副研究员、博士生导师、教授、研究员，东南大学

精选作品

期刊论文

2026

Correction to “Single‐Cell Mitochondrial Lineage Tracing Decodes Fate Decision and Spatial Clonal Architecture in Human Hematopoietic Organoids”

Yan Xue, Junhao Su, Yiming Chao, Lu Liu, Xinyi Lin, Yang Xiang, Mun Kay Ho, Zezhuo Su, Junyi Chen, Zhuojuan Luo, Chengqi Lin, Ruibang Luo, Theo Aurich, JT Wu, Kelvin Sin Chi Cheung, Yuanhua Huang, Joshua WK Ho, Ryohichi Sugimura

Advanced Science

DOI

2026

Single‐Cell Mitochondrial Lineage Tracing Decodes Fate Decision and Spatial Clonal Architecture in Human Hematopoietic Organoids

Yan Xue, Junhao Su, Yiming Chao, Lu Liu, Xinyi Lin, Yang Xiang, Mun Kay Ho, Zezhuo Su, Junyi Chen, Zhuojuan Luo, Chengqi Lin, Ruibang Luo, Theo Aurich, JT Wu, Kelvin Sin Chi Cheung, Yuanhua Huang, Joshua W. K. Ho, Ryohichi Sugimura

Advanced Science

DOI

2026

DNA-contact mutant p53 displaces BRCA2 from chromatin and drives R-loop-associated genome instability

Fanfan Li, Ke Fang, Shuhan Si, Quanyong Zhang, Menghan Fan, Chenghao Guo, Jie Sun, Zhuoying Xie, Kai Chen, Zhiyong Chen, Zheng Ge, Chengqi Lin, Zhuojuan Luo

Genome biology

DOI

2025

Digital reconstruction of full embryos during early mouse organogenesis

Peng Xie, Juan Shen, Yi Yang, Xinrui Wang, Wei Liu, Hailong Cao, Hailong Cao, Yanying Zheng, Chen Wu, Guangyao Mao, Jingjing He, Jingjing He, Weiheng Zheng, Zepu Yang, Xu Jiang, Xu Jiang, Xianfa Yang, Ke Fang, Zhao Zhang, Xin Xue, Xueting Chen, Chaoyi Wang, Ling Liu, Ling Liu, Xuebiao Yao, Naihe Jing, Wei Xie, Jin Liu, Hua Cao, Hua Cao, Zhuojuan Luo, Xiaodong Fang, Chengqi Lin

Cell

DOI

2025

RNF219 RING Finger Domain Mutants Drive Phase Separation to Encapsulate CCR4 ‐ NOT and Promote Cell Proliferation

Chen Chen, Chenghao Guo, Ke Fang, Chengqi Lin, Zhuojuan Luo

Cell Proliferation

DOI

2025

Pcf11/Spt5 condensates stall RNA polymerase II to facilitate termination and piRNA-guided heterochromatin formation

Weiwei Liu, Lijun Deng, Ming Wang, Xiaojun Liu, Xuan Ouyang, Yuan Wang, Na Miao, Xiu Luo, Xueming Wu, Xiaohua Lu, Xiangjin Xv, Tianyu Zhang, Yu Li, Jinyao Ji, Zhenghao Qiao, Sheng Wang, Li Guan, Dong Li, Yunkun Dang, Chao Liu, Wei Li, Yadi Zhang, Zhenning Wang, Fei Chen, Chunlai Chen, Chengqi Lin, W.S. Sho Goh, Wenhao Zhou, Zhuojuan Luo, Pu Gao, Pilong Li, Yang Yu

Molecular Cell

DOI

2025

LEDGF/p75 promotes transcriptional pausing through preventing SPT5 phosphorylation

Chenghao Guo, Shuhan Si, Haitong Fang, Shimin Shuai, Yadi Zhang, Xiaoyu Du, Bo Duan, Jiawei Wu, Honghong Yao, Zheng Ge, Chengqi Lin, Zhuojuan Luo

Science Advances

DOI

2025

Maternal ELL3 loss-of-function leads to oocyte aneuploidy and early miscarriage

Shiqi Zhu, Peng Xie, Yi Yang, Yan Wang, Chuanxin Zhang, Yu Zhang, Shuhan Si, Jin Zhang, Jingjing He, Hao Si, Ke Fang, Bin Ma, Xu Jiang, Lindi Huang, Jiamin Li, Tian Min, Beihong Zheng, Lincui Da, Dianliang Lin, Kun Gao, Yuanyuan Li, Mingtao Huang, Fengchang Qiao, Hai-Qin Huo, Haoyang Feng, Han Zhao, Zi‐Jiang Chen, Zhengfeng Xu, Jing Xie, Hua Cao, Jin Liu, Xuebiao Yao, Wei Xie, Yan Lin Sun, Keliang Wu, Bo Xiong, Ping Hu, Zhuojuan Luo, Chengqi Lin

Nature Structural & Molecular Biology

DOI

2025

The transcriptional repressor HEY2 regulates mitochondrial oxidative respiration to maintain cardiac homeostasis

Peilu She, Bangjun Gao, Dongliang Li, Chen Wu, Xuejiao Zhu, Yuan He, Fei Mo, Yao Qi, Daqing Jin, Yewei Chen, Xin Zhao, Jinzhong Lin, Hairong Hu, Jia Li, Bing Zhang, Peng Xie, Chengqi Lin, Vincent M. Christoffels, Yueheng Wu, Ping Zhu, Tao P. Zhong

Nature Communications

DOI

2025

Integration of single-cell and spatial transcriptomics by SEU-TCA reveals the spatial origin of early cardiac progenitors

Jingjing He, Yi Yang, Rui Jiang, Yanying Zheng, Xianfa Yang, Xu Jiang, Xin Xue, Zhongzhou Yang, Naihe Jing, Hailong Cao, Zhuojuan Luo, Ke Wei, Peng Xie, Chengqi Lin

Genome biology

DOI

2024

Multivariate stochastic modeling for transcriptional dynamics with cell-specific latent time using SDEvelo

Xu Liao, Lican Kang, Yihao Peng, Xiaoran Chai, Peng Xie, Chengqi Lin, Hongkai Ji, Yuling Jiao, Jin Liu

Nature Communications

DOI

2024

4D live tracing reveals distinct movement trajectories of meiotic chromosomes

Peng Xie, Shiqi Zhu, Jin Zhang, Xinrui Wang, Xu Jiang, Feng Xiong, Linjin Chen, Ke Fang, Yuanhui Ji, Beihong Zheng, Lincui Da, Hua Cao, Yan Sun, Zhuojuan Luo, Chengqi Lin

Life Medicine

DOI

2024

SpatialQC: automated quality control for spatial transcriptome data

Guangyao Mao, Yi Yang, Zhuojuan Luo, Chengqi Lin, Peng Xie

Bioinformatics

DOI

2023

ELL3结合的LINE-1作为增强子调控小鼠胚胎干细胞原始多能性

方海同，罗卓娟，林承棋

《中国细胞生物学学报》

2023

Young LINE-1 transposon 5′ UTRs marked by elongation factor ELL3 function as enhancers to regulate naïve pluripotency in embryonic stem cells

Siyan Meng, Xiaoxu Liu, Shiqi Zhu, Peng Xie, Haitong Fang, Qingyun Pan, Ke Fang, Fanfan Li, Jin Zhang, Zhuanzhuan Che, Quanyong Zhang, Guangyao Mao, Yan Wang, Ping Hu, Kai Chen, Fei Sun, Wei Xie, Zhuojuan Luo, Chengqi Lin

Nature Cell Biology

DOI

2023

Distinct roles of two SEC scaffold proteins, AFF1 and AFF4, in regulating RNA polymerase II transcription elongation

Zhuanzhuan Che, Xiaoxu Liu, Qian Dai, Ke Fang, Chenghao Guo, Junjie Yue, Haitong Fang, Peng Xie, Zhuojuan Luo, Chengqi Lin

Journal of Molecular Cell Biology

DOI

2023

Abstract 12259: Gas6 Binding With Sav1 to Restore Yap Transcriptional Activity in a Specialized Cardiomyocytes Population Contributes to Heart Regeneration

Fan Yi, Yu Liu, Zehao Zhang, Wenfeng Zhou, Chengqi Lin, Wei Xie, Genshan Ma

Circulation

DOI

2023

The super elongation complex (SEC) mediates phase transition of SPT5 during transcriptional pause release

Chenghao Guo, Yadi Zhang, Shimin Shuai, Abire Sigbessia, Shaohua Hao, Peng Xie, Xu Jiang, Zhuojuan Luo, Chengqi Lin

EMBO Reports

DOI

2022

QSER1 preserves the suppressive status of the pro-apoptotic genes to prevent apoptosis

Xiru Zhao, Ke Fang, Xiaoxu Liu, Ruihuan Yao, Min Wang, Fanfan Li, Shaohua Hao, Jingjing He, Yan Wang, Menghan Fan, Wei Huang, Yiping Li, Chun Gao, Chengqi Lin, Zhuojuan Luo

Cell Death and Differentiation

DOI

2022

ZFP281-BRCA2 prevents R-loop accumulation during DNA replication

Yan Wang, Bin Ma, Xiaoxu Liu, Ge Gao, Zhuanzhuan Che, Menghan Fan, Siyan Meng, Xiru Zhao, Ryohichi Sugimura, Hua Cao, Zhongjun Zhou, Jing Xie, Chengqi Lin, Zhuojuan Luo

Nature Communications

DOI

2022

Phase Separation Properties in Transcriptional Organization

Chenghao Guo, Zhuojuan Luo, Chengqi Lin

Biochemistry

DOI

2022

Epigenetic reorganization during early embryonic lineage specification

Haitong Fang, Zhuojuan Luo, Chengqi Lin

Genes & Genomics

DOI

2021

解析基因组如何编码脑的挑战

谢维，林承棋，李健，李默怡

《遗传》

DOI

2021

Phase separation, transcriptional elongation control, and human diseases

Chenghao Guo, Zhuojuan Luo, Chengqi Lin

Journal of Molecular Cell Biology

DOI

2021

Kssd: sequence dimensionality reduction by k-mer substring space sampling enables real-time large-scale datasets analysis

Huiguang Yi, Yanling Lin, Chengqi Lin, Wenfei Jin

Genome biology

DOI

2021

Suppression of the NTS-CPS1 regulatory axis by AFF1 in lung adenocarcinoma cells

Junjie Yue, Qian Dai, Shaohua Hao, Shiqi Zhu, Xiaoxu Liu, Zhiqun Tang, Meng Li, Haitong Fang, Chengqi Lin, Zhuojuan Luo

Journal of Biological Chemistry

DOI

2020

RNF219 interacts with CCR4–NOT in regulating stem cell differentiation

Hao Du, Chen Chen, Yan Wang, Yang Yang, Zhuanzhuan Che, Xiaoxu Liu, Siyan Meng, Chenghao Guo, Manman Xu, Haitong Fang, Fengchao Wang, Chengqi Lin, Zhuojuan Luo

Journal of Molecular Cell Biology

DOI

2020

ENL initiates multivalent phase separation of the super elongation complex (SEC) in controlling rapid transcriptional activation

Chenghao Guo, Zhuanzhuan Che, Junjie Yue, Peng Xie, Shaohua Hao, Wei Xie, Zhuojuan Luo, Chengqi Lin

Science Advances

DOI

2020

Dynamic regulation of promoter-proximal RNA polymerase II pausing

Cheng-Hao Guo, Zhuo-Juan Luo, Chengqi Lin

Chinese Science Bulletin

DOI

2019

ZFP281 Recruits MYC to Active Promoters in Regulating Transcriptional Initiation and Elongation

Zhuojuan Luo, Xiaoxu Liu, Hao Xie, Yan Wang, Chengqi Lin

Molecular and Cellular Biology

DOI

2018

AFF3-DNA methylation interplay in maintaining the mono-allelic expression pattern of XIST in terminally differentiated cells

Yue Zhang, Chao Wang, Xiaoxu Liu, Qian Yang, Hongliang Ji, Mengjun Yang, Manman Xu, Yunyan Zhou, Wei Xie, Zhuojuan Luo, Chengqi Lin

Journal of Molecular Cell Biology

DOI

2018

Corepressor SMRT is required to maintain Hox transcriptional memory during somitogenesis

Suk-Hyun Hong, Sungsoon Fang, Benson C. Lu, Russell R. Nofsinger, Yasuhiko Kawakami, Glenda L. Castro, Yunqiang Yin, Chengqi Lin, Ruth T. Yu, Michael Downes, Juan Carlos Izpisúa Belmonte, Ali Shilatifard, Ronald M. Evans

Proceedings of the National Academy of Sciences

DOI

2017

Striking a balance: regulation of transposable elements by Zfp281 and Mll2 in mouse embryonic stem cells

Qian Dai, Yang Shen, Yan Wang, Xin Wang, Joel Celio Francisco, Zhuojuan Luo, Chengqi Lin

Nucleic Acids Research

DOI

2017

Transcriptional Elongation Control of Hepatitis B Virus Covalently Closed Circular DNA Transcription by Super Elongation Complex and BRD4

Joel Celio Francisco, Qian Dai, Zhuojuan Luo, Yan Wang, Roxanne Hui‐Heng Chong, Yee‐Joo Tan, Wei Xie, Guan Huei Lee, Chengqi Lin

Molecular and Cellular Biology

DOI

2017

Proteolytic maturation of Drosophila Neuroligin 3 by tumor necrosis factor α-converting enzyme in the nervous system

Jun Wu, Nana Tao, Yao Tian, Guanglin Xing, Huihui Lv, Junhai Han, Chengqi Lin, Wei Xie

Biochimica et Biophysica Acta (BBA) - General Subjects

DOI

2016

A permissive chromatin state regulated by ZFP281-AFF3 in controlling the imprinted Meg3 polycistron

Yan Wang, Yang Shen, Qian Dai, Qian Yang, Yue Zhang, Xin Wang, Wei Xie, Zhuojuan Luo, Chengqi Lin

Nucleic Acids Research

DOI

2016

Enhancer, epigenetics, and human disease

Zhuojuan Luo, Chengqi Lin

Current Opinion in Genetics & Development

DOI

2016

Regulation of the imprinted Dlk1-Dio3 locus by allele-specific enhancer activity

Zhuo-Juan Luo, Chengqi Lin, Ashley R Woodfin, E. Bartom, Xin Gao, Edwin R. Smith, A. Shilatifard

Genes & Development

DOI

2015

Zic2 is an enhancer-binding factor required for embryonic stem cell specification

Zhuo-Juan Luo, Xin Gao, Chengqi Lin, Edwin R. Smith, Stacy A. Marshall, S. Swanson, L. Florens, M. Washburn, A. Shilatifard

Molecules and Cells

DOI

2015

Analysis of dynamic changes in retinoid-induced transcription and epigenetic profiles of murine Hox clusters in ES cells

Bony De Kumar, M. Parrish, Brian D. Slaughter, J. Unruh, M. Gogol, C. Seidel, A. Paulson, Hua Li, K. Gaudenz, Allison Peak, W. McDowell, Brian Fleharty, Y. Ahn, Chengqi Lin, Edwin R. Smith, A. Shilatifard, R. Krumlauf

Genome Research

DOI

2013

The Little Elongation Complex functions at initiation and elongation phases of snRNA gene transcription

D. Hu, Edwin R. Smith, Alexander S. Garruss, Nima Mohaghegh, J. Varberg, Chengqi Lin, Jessica Jackson, Xin Gao, A. Saraf, L. Florens, M. Washburn, J. Eissenberg, A. Shilatifard

Molecules and Cells

DOI

2012

The Super Elongation Complex Family of RNA Polymerase II Elongation Factors: Gene Target Specificity and Transcriptional Output

Zhuo-Juan Luo, Chengqi Lin, Erin M. Guest, Alexander S. Garrett, Nima Mohaghegh, S. Swanson, Stacy A. Marshall, L. Florens, M. Washburn, A. Shilatifard

Molecular and Cellular Biology

DOI

2012

The RNA Pol II elongation factor Ell3 marks enhancers in ES cells and primes future gene activation

Chengqi Lin, Alexander S. Garruss, Zhuo-Juan Luo, Feng-Li Guo, A. Shilatifard

Cell

DOI

2012

The super elongation complex (SEC) family in transcriptional control

Zhuo-Juan Luo, Chengqi Lin, A. Shilatifard

Nature reviews. Molecular cell biology

DOI

2011

The little elongation complex (LEC) regulates small nuclear RNA transcription

Edwin R. Smith, Chengqi Lin, Alexander S. Garrett, J. Thornton, Nima Mohaghegh, D. Hu, Jessica Jackson, A. Saraf, S. Swanson, C. Seidel, L. Florens, M. Washburn, J. Eissenberg, A. Shilatifard

Molecules and Cells

DOI

2011

Human Mediator Subunit Med26 Functions As A Docking Site For Transcription Elongation Factors

Hidehisa Takahashi, T. Parmely, S. Sato, C. Tomomori-Sato, C. A. Banks, Stephanie E. Kong, Henrietta Szutorisz, S. Swanson, S. Martin-Brown, M. Washburn, L. Florens, C. Seidel, Chengqi Lin, Edwin R. Smith, A. Shilatifard, R. Conaway, J. Conaway

Cell

DOI

2011

Dynamic transcriptional events in embryonic stem cells mediated by the super elongation complex (SEC).

Chengqi Lin, Alexander S. Garrett, Bony De Kumar, Edwin R. Smith, M. Gogol, C. Seidel, R. Krumlauf, A. Shilatifard

Genes & Development

DOI

2011

The super elongation complex (SEC) and MLL in development and disease.

Edwin R. Smith, Chengqi Lin, A. Shilatifard

Genes & Development

DOI

2010

Linking H3K79 trimethylation to Wnt signaling through a novel Dot1-containing complex (DotCom).

Mo-Han Man, Hans-Martin Herz, Yoh-hei Takahashi, Chengqi Lin, Ka-Chun Lai, Ying Zhang, M. Washburn, L. Florens, A. Shilatifard

Genes & Development

DOI

2010

AFF4, a component of the ELL/p-TEFb elongation complex and a shared subunit of MLL chimeras can link transcription elongation to leukemia

Chengqi Lin, Edwin R. Smith, Hidehisa Takahashi, Ka-Chun Lai, S. Martin-Brown, L. Florens, M. Washburn, J. Conaway, R. Conaway, A. Shilatifard

Molecules and Cells

DOI

2010

Licensed to elongate: a molecular mechanism for MLL-based leukaemogenesis

Mo-Han Man, Chengqi Lin, Erin M. Guest, A. Shilatifard

Nature Reviews. Cancer

DOI

2009

Global Analysis of H3K4 Methylation Defines MLL Family Member Targets and Points to a Role for MLL1-Mediated H3K4 Methylation in the Regulation of Transcriptional Initiation by RNA Polymerase II

Peng-Fei Wang, Chengqi Lin, Edwin R. Smith, Hong Guo, Brian W. Sanderson, Min Wu, M. Gogol, Tara B. Alexander, C. Seidel, L. Wiedemann, K. Ge, R. Krumlauf, A. Shilatifard

Molecular and Cellular Biology

DOI

2006

DmMAGE、Dmp53与一种新的果蝇蛋白CG13142相互作用研究

林承棋

《东南大学》

会议论文

2020

A Biophysical Basis of Super Elongation Complex(SEC) in Transcriptional Activation

林承棋

《中国生物化学与分子生物学会2020全国学术在线会议》

DOI

2008

果蝇NSE4与P53和CBP的相互作用研究

侯晓菲，林承棋，方明，谢维

《华东六省一市生物化学与分子生物学会2008年学术交流会论文摘要汇编》

预印本

2026

HistAgent: an evidence-grounded agent for spatial molecular reasoning from routine histology

Jin Liu, Wenlin Li, Hengrui Liu, Yan Lu, Xu Liao, Xiaobo Sun, Weiwei Zhai, Chengqi Lin

Research Square

DOI

2024

Epigenetic delineation of the earliest cardiac lineage segregation by single-cell multi-omics

Peng Xie, Xu Jiang, Jingjing He, Qingyun Pan, Xianfa Yang, Yanying Zheng, Zhuanzhuan Che, Wenli Fan, Chen Wu, Weiheng Zheng, Shuhan Si, Kun Gao, Shiqi Zhu, Ke Fang, Haitong Fang, Yi Yang, Tao P. Zhong, Zhongzhou Yang, Ke Wei, Wei Xie, Naihe Jing, Zhuojuan Luo, Chengqi Lin

bioRxiv (Cold Spring Harbor Laboratory)

DOI

2024

Functional Imaging of Developing Brain in Mice and Non-Human Primates

Jiejun Zhu, Dongming He, Mengzhu Sun, Hanming Zheng, Zihao Chen, Jin Yang, Chengqi Lin, Qiwen Yuan, Yun Stone Shi, Lei Sun, Zhihai Qiu

bioRxiv (Cold Spring Harbor Laboratory)

DOI

2020

Diploid genome architecture revealed by multi-omic data of hybrid mice

Zhijun Han, Kairong Cui, Katarzyna Placek, Ni Hong, Chengqi Lin, Wei Chen, Keji Zhao, Wenfei Jin

Genome Research

DOI

2019

Principles of 3D Nucleus Organization and Epigenetic Regulation in Diploid Genome Revealed by Multi-omic Data from Hybrid Mouse

Zhijun Han, Cui Kairong, Katarzyna Placek, Ni Hong, Chengqi Lin, Wei Chen, Keji Zhao, Wenfei Jin

bioRxiv (Cold Spring Harbor Laboratory)

DOI

书籍章节

2019

Linking Enhancer to Epigenetics: New Way to Think About Human Diseases

Zhuojuan Luo, Chengqi Lin

Springer eBooks

DOI

2017

Linking Enhancer to Epigenetics: New Way to Think About Human Diseases

Zhuojuan Luo, Chengqi Lin

Springer eBooks

DOI

研究方向

基因表达调控细胞命运决定与早期胚胎发育

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