Ke Cheng

Dr. Ke Cheng

University of California, San Francisco, San Francisco, California, USA
orcid

Research Focus & Metrics

Academic Career Length

10Years (2017-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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28 August 2023 in iScience
Verified
Journal Article
Open access
ZFZhuming Fan
Zhuming Fan
ZLZhiyang Liu
Zhiyang Liu
NZNan Zhang
Nan Zhang
WWWenyu Wei
Wenyu Wei
Ke ChengKe Cheng
Ke Cheng
QHQuan Hao
Quan Hao
Lysine lactylation (Kla) is a novel histone post-translational modification discovered in late 2019. Later, HDAC1-3, were identified as the robust Kla erasers. While the Sirtuin family proteins showed weak eraser activities toward Kla, as reported. However, the catalytic mechanisms and physiological functions of HDACs and Sirtuins are not identical. In this study, we observed that SIRT3 exhibits a higher eraser activity against the H4K16la site than the other human Sirtuins. Crystal structures revealed the detailed binding mechanisms between lactyl-lysine peptides and SIRT3. Furthermore, a chemical probe, p-H4K16laAlk, was developed to capture potential Kla erasers from cell lysates. SIRT3 was captured by this probe and detected via proteomic analysis. And another chemical probe, p-H4K16la-NBD, was developed to detect the eraser-Kla delactylation processes directly via fluorescence indication. Our findings and chemical probes provide new directions for further investigating Kla and its roles in gene transcription regulation.

1 October 2017 in Angewandte Chemie International Edition
Verified
Journal Article
Closed access
PDF file
Ke ChengKe Cheng
Ke Cheng
JLJun‐Seok Lee
Jun‐Seok Lee
PHPiliang Hao
Piliang Hao
SYShao Q. Yao
Shao Q. Yao
Ke DingKe Ding
Ke Ding
ZLZhengqiu Li
Zhengqiu Li

30 June 2022 in Computational and Structural Biotechnology Journal
Verified
Journal Article
Open access
LMLingkuan Meng
Lingkuan Meng
WCWai-Sum Chan
Wai-Sum Chan
LHLei Huang
Lei Huang
LLLinjing Liu
Linjing Liu
XCXingjian Chen
Xingjian Chen
Ka-Chun WongKa-Chun Wong
Ka-Chun Wong
Post-translational modifications (PTMs) are closely linked to numerous diseases, playing a significant role in regulating protein structures, activities, and functions. Therefore, the identification of PTMs is crucial for understanding the mechanisms of cell biology and diseases therapy. Compared to traditional machine learning methods, the deep learning approaches for PTM prediction provide accurate and rapid screening, guiding the downstream wet experiments to leverage the screened information for focused studies. In this paper, we reviewed the recent works in deep learning to identify phosphorylation, acetylation, ubiquitination, and other PTM types. In addition, we summarized PTM databases and discussed future directions with critical insights.

9 June 2022 in Advanced Materials
Verified
Journal Article
Closed access
HLHuangxu Li
Huangxu Li
CGChaohong Guan
Chaohong Guan
JZJie Zhang
Jie Zhang
Ke ChengKe Cheng
Ke Cheng
QCQingxin Chen
Qingxin Chen
ZZZhian Zhang
Zhian Zhang

20 July 2019 in Journal of Materials Chemistry B
Verified
Journal Article
Closed access
PDF file
QDQinya Duan
Qinya Duan
GZGuansheng Zheng
Guansheng Zheng
ZLZejun Li
Zejun Li
Ke ChengKe Cheng
Ke Cheng
JZJie Zhang
Jie Zhang
HSHongyan Sun
Hongyan Sun
TR-OClexhibits ultra-high sensitivity towards HOCl with a 7000-fold enhancement in the fluorescence ratio (I589/I477) and a detection limit of 1.29 nM, which is one of the highest recorded so far.

1 October 2020 in Journal of Pharmaceutical Analysis
Verified
Journal Article
Open access
QCQingxin Chen
Qingxin Chen
Ke ChengKe Cheng
Ke Cheng
WWWanhe Wang
Wanhe Wang
LYLiu Yang
Liu Yang
YXYusheng Xie
Yusheng Xie
HSHongyan Sun
Hongyan Sun
Hydrogen peroxide (H2O2) plays a significant role in regulating a variety of biological processes. Dysregulation of H2O2 can lead to various diseases. Although numerous fluorescent imaging probes for H2O2 have been reported, the development of H2O2 ratiometric fluorescent probe with large Stokes shift remains rather limited. Such probes have shown distinct advantages, such as minimized interference from environment and improved signal-to noise ratio. In this work, we reported a new pyrene-based compound Py-VPB as H2O2 fluorescent probe in vitro. The probe demonstrated ratiometric detection behavior, large Stokes shift and large emission shift. In addition, the probe showed high sensitivity and selectivity towards H2O2 in vitro. Based on these excellent properties, we successfully applied Py-VPB to the visualization of exogenous and endogenous H2O2 in living cells. Cell imaging study also showed that our probe was localized in the mitochondria. We envision that the probe can provide a useful tool for unmasking the biological roles of mitochondrial H2O2 in living systems.