Evidence map›Paper›PMID 38167916›Full record

ArticleNature chemical biology2024

DeKinomics pulse-chases kinase functions in living cells.

Yicheng Weng, Wendong Chen, Qian Kong, Ruixiang Wang, Ruxin Zeng, An He, Yanjun Liu, Yiheng Mao, Yunqiu Qin, William Shu Ching Ngai and 5 more

Abstract read
PubMed Publisher
In one paragraph

Article in Nature chemical biology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

7 citing papers in PubMed.

  1. Review
  2. Review
  3. Article
  4. Article
  5. Article
  6. Oncotarget · 2024
    Review
  7. Lighting up kinase contacts in situ.Nature chemical biology · 2024
    Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

15 authors.

Yicheng Weng *New Cornerstone Science Laboratory, Synthetic and Functional Biomolecules Center, Beijing National Laboratory for Molecular Sciences, New Cornerstone Science Laboratory, College of Chemistry and Molecular Engineering, Peking University, Beijing, China.ORCID http://orcid.org/0000-0002-4192-0917
Wendong Chen *Department of Chemistry and Research Center for Chemical Biology and Omics Analysis, School of Science, Southern University of Science and Technology, Shenzhen, China.
Qian Kong *Department of Chemistry and Research Center for Chemical Biology and Omics Analysis, School of Science, Southern University of Science and Technology, Shenzhen, China.
Ruixiang WangNew Cornerstone Science Laboratory, Synthetic and Functional Biomolecules Center, Beijing National Laboratory for Molecular Sciences, New Cornerstone Science Laboratory, College of Chemistry and Molecular Engineering, Peking University, Beijing, China.
Ruxin ZengNew Cornerstone Science Laboratory, Synthetic and Functional Biomolecules Center, Beijing National Laboratory for Molecular Sciences, New Cornerstone Science Laboratory, College of Chemistry and Molecular Engineering, Peking University, Beijing, China.ORCID http://orcid.org/0000-0002-3615-2490
An HeDepartment of Chemistry and Research Center for Chemical Biology and Omics Analysis, School of Science, Southern University of Science and Technology, Shenzhen, China.
Yanjun LiuNew Cornerstone Science Laboratory, Synthetic and Functional Biomolecules Center, Beijing National Laboratory for Molecular Sciences, New Cornerstone Science Laboratory, College of Chemistry and Molecular Engineering, Peking University, Beijing, China.
Yiheng MaoDepartment of Chemistry and Research Center for Chemical Biology and Omics Analysis, School of Science, Southern University of Science and Technology, Shenzhen, China.ORCID http://orcid.org/0000-0001-8314-7929
Yunqiu QinDepartment of Chemistry and Research Center for Chemical Biology and Omics Analysis, School of Science, Southern University of Science and Technology, Shenzhen, China.
William Shu Ching NgaiShenzhen Bay Laboratory, Shenzhen, China.
Heng ZhangShenzhen Bay Laboratory, Shenzhen, China.
Mi KeDepartment of Chemistry and Research Center for Chemical Biology and Omics Analysis, School of Science, Southern University of Science and Technology, Shenzhen, China.
Jie WangDepartment of Chemistry and Research Center for Chemical Biology and Omics Analysis, School of Science, Southern University of Science and Technology, Shenzhen, China.
Ruijun TianDepartment of Chemistry and Research Center for Chemical Biology and Omics Analysis, School of Science, Southern University of Science and Technology, Shenzhen, China. tianrj@sustech.edu.cn.ORCID http://orcid.org/0000-0001-9521-5124
Peng R ChenNew Cornerstone Science Laboratory, Synthetic and Functional Biomolecules Center, Beijing National Laboratory for Molecular Sciences, New Cornerstone Science Laboratory, College of Chemistry and Molecular Engineering, Peking University, Beijing, China. pengchen@pku.edu.cn.ORCID http://orcid.org/0000-0002-0402-7417

Funding

Ministry of Science and Technology of the People's Republic of China (Chinese Ministry of Science and Technology) 2020YFE0202200Ministry of Science and Technology of the People's Republic of China (Chinese Ministry of Science and Technology) 2021YFA1301601Ministry of Science and Technology of the People's Republic of China (Chinese Ministry of Science and Technology) 2021YFA1301602Ministry of Science and Technology of the People's Republic of China (Chinese Ministry of Science and Technology) 2021YFA1302603Ministry of Science and Technology of the People's Republic of China (Chinese Ministry of Science and Technology) 2022YFC3401104National Natural Science Foundation of China (National Science Foundation of China) 21937001National Natural Science Foundation of China (National Science Foundation of China) 22125403National Natural Science Foundation of China (National Science Foundation of China) 22137001National Natural Science Foundation of China (National Science Foundation of China) 91753000National Natural Science Foundation of China (National Science Foundation of China) 92253304
6 · The paper itself

Abstract

Cellular context is crucial for understanding the complex and dynamic kinase functions in health and disease. Systematic dissection of kinase-mediated cellular processes requires rapid and precise stimulation ('pulse') of a kinase of interest, as well as global and in-depth characterization ('chase') of the perturbed proteome under living conditions. Here we developed an optogenetic 'pulse-chase' strategy, termed decaging kinase coupled proteomics (DeKinomics), for proteome-wide profiling of kinase-driven phosphorylation at second-timescale in living cells. We took advantage of the 'gain-of-function' feature of DeKinomics to identify direct kinase substrates and further portrayed the global phosphorylation of understudied receptor tyrosine kinases under native cellular settings. DeKinomics offered a general activation-based strategy to study kinase functions with high specificity and temporal resolution under living conditions.

Indexed as

ProteomicsHEK293 CellsHumansOptogeneticsPhosphorylationProteomeProteome

Identifiers

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.