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Cited by 46Autophagy in Disease and TherapyUbiquitin and proteasome pathwaysBioinformatics and Genomic Networks

THANATOS: an integrative data resource of proteins and post-translational modifications in the regulation of autophagy

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Deng, Wankun, Ma, Lili, Zhang, Ying, Zhou, Jiaqi, Wang, Yongbo, Liu, Zexian, Xue, Yu·2018·Autophagy
DOI 10.1080/15548627.2017.1402990PMC PMC5902229
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Abstract

Macroautophagy/autophagy is a highly conserved process for degrading cytoplasmic contents, determines cell survival or death, and regulates the cellular homeostasis. Besides ATG proteins, numerous regulators together with various post-translational modifications (PTMs) are also involved in autophagy. In this work, we collected 4,237 experimentally identified proteins regulated in autophagy and cell death pathways from the literature. Then we computationally identified potential orthologs of known proteins, and developed a comprehensive database of The Autophagy, Necrosis, ApopTosis OrchestratorS (THANATOS, http://thanatos.biocuckoo.org ), containing 191,543 proteins potentially associated with autophagy and cell death pathways in 164 eukaryotes. We performed an evolutionary analysis of ATG genes, and observed that ATGs required for the autophagosome formation are highly conserved across eukaryotes. Further analyses revealed that known cancer genes and drug targets were overrepresented in human autophagy proteins, which were significantly associated in a number of signaling pathways and human diseases. By reconstructing a human kinase-substrate phosphorylation network for ATG proteins, our results confirmed that phosphorylation play a critical role in regulating autophagy. In total, we mapped 65,015 known sites of 11 types of PTMs to collected proteins, and revealed that all types of PTM substrates were enriched in human autophagy. In addition, we observed multiple types of PTM regulators such as protein kinases and ubiquitin E3 ligases or adaptors were significantly associated with human autophagy, and again the results emphasized the importance of PTM regulations in autophagy. We anticipated THANATOS can be a useful resource for further studies.

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  • A handful of autophagy-related online resources have already been created collecting functional, structural and biological information: THANATOS, HADb, and HAMdb.

    “Indeed, a handful of autophagy-related resources, available on-line, have been already created collecting diverse data type including functional, structural and biological information: Autophagy, Necrosis, ApopTosis OrchestratorS (THANATOS, http://thanatos.biocuckoo.org) [16], Human Autophagy Database (HADb, http://www.autophagy.lu/), and Human Autophagy Modulator Database (HAMdb, http://hamdb.scb”

    From A gene toolbox for monitoring autophagy transcription (2021) · cites this paper as [16]

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Cited by

Sorted by citations

Authors
Deng, W., Ma, L., Zhang, Y., Zhou, J., Wang, Y., Liu, Z., & Xue, Y.
Affiliations
  • Huazhong University of Science and Technology (CN)
  • Sun Yat-sen University Cancer Center (CN)
Corresponding author
Xue, Yu
ORCID
Venue
Autophagy
Publisher
Informa UK Limited
Published
2018-02-01
Volume
14
Issue
2
Pages
296-310
ISSN
  • 1554-8627 (ISSN-L)
  • 1554-8635
DOI
10.1080/15548627.2017.1402990
PMC
PMC5902229
OpenAlex
W2769700967
Cited by
46
References
3
Citations by year
2026: 2 · 2025: 5 · 2024: 2 · 2023: 7 · 2022: 4 · 2021: 8 · 2020: 9 · 2019: 4 · 2018: 4 · 2016: 1
FWCI
3.64
Type
journal article
Language
en
Open access
Locations
  • Autophagy (publishedVersion)
  • Europe PMC (PubMed Central) (publishedVersion)
  • PubMed Central (publishedVersion)
  • PubMed (publishedVersion)
Funders
  • National Key R&D Program (2017YFC0906600)
  • National Basic Research Program (2013CB933900)
  • Natural Science Foundation of China (31671360)
  • International Science & Technology Cooperation Program of China (2014DFB30020)
Topics
  • Health Sciences › Medicine › Epidemiology › Autophagy in Disease and Therapy
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Ubiquitin and proteasome pathways
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Bioinformatics and Genomic Networks
Keywords
post-translational modification, autophagy-related proteins, cell death pathways, necrosis, apoptosis, autophagosome formation, E3 ubiquitin ligase, protein kinases, cancer genes, therapeutic target
MeSH terms
Autophagy-Related Proteins, Animals, Autophagy, Humans, Phosphorylation, Protein Kinases, Protein Processing, Post-Translational, Ubiquitins, Signal Transduction, Databases, Protein, Datasets as Topic

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