Identification of critical autophagy-related proteins in diabetic retinopathy: A multi-dimensional computational study

Sarmah, Dipanka Tanu; Gujjar, Sunil; Mathapati, Santosh; Bairagi, Nandadulal; Chatterjee, Samrat

doi:10.1016/j.gene.2023.147339

Cited by 3 publications

(1 citation statement)

References 60 publications

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“…Therefore, autophagy is associated with cell/tissue injuries due to systematic disorders, hypoxia, starvation, infection, etc. It is speculated that correct autophagy control could improve DM-related systemic problems [63]. DM is disposed to cellular alterations accelerated by autophagy [64].…”

Section: Autophagymentioning

confidence: 99%

Autophagy and diabetes

Obradovic,

Zafirovic,

Gluvic

et al. 2023

Exploration of Medicine

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The current literature findings on autophagy’s beneficial and detrimental roles in diabetes mellitus (DM) and diabetes-related comorbidities were reviewed. The effects of oral hypoglycaemic medicines and autophagy in DM. Autophagy plays an important function in cellular homeostasis by promoting cell survival or initiating cell death in physiological settings was also assessed. Although autophagy protects insulin-target tissues, organelle failure caused by autophagy malfunction influences DM and other metabolic diseases. Endoplasmic reticulum and oxidative stress enhance autophagy levels, making it easier to regulate stress-induced intracellular changes. Evidence suggests that autophagy-caused cell death can occur when autophagy is overstimulated and constitutively activated, which might prevent or develop DM. Even though the precise role of autophagy in DM complications is uncertain, deregulation of the autophagic machinery is strongly linked to beta cell destruction and the aetiology of DM. Thus, improving autophagy dysfunction is a possible therapeutic objective in treating DM and other metabolic disorders.

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Section: Autophagymentioning

confidence: 99%

Autophagy and diabetes

Obradovic,

Zafirovic,

Gluvic

et al. 2023

Exploration of Medicine

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Exploration of functional relations among differentially co-expressed genes identifies regulators in glioblastoma

Kumar,

Sarmah,

Paul

et al. 2024

Computational Biology and Chemistry

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Identifying Autophagy-Associated Proteins and Chemicals with a Random Walk-Based Method within Heterogeneous Interaction Network

Huang,

Guo,

Chen

et al. 2024

Front. Biosci. (Landmark Ed)

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Background: Autophagy is instrumental in various health conditions, including cancer, aging, and infections. Therefore, examining proteins and compounds associated with autophagy is paramount to understanding cellular biology and the origins of diseases, paving the way for potential therapeutic and disease prediction strategies. However, the complexity of autophagy, its intersection with other cellular pathways, and the challenges in monitoring autophagic activity make the experimental identification of these elements arduous. Methods: In this study, autophagy-related proteins and chemicals were catalogued on the basis of Human Autophagy-dedicated Database. These entities were mapped to their respective PubChem identifications (IDs) for chemicals and Ensembl IDs for proteins, yielding 563 chemicals and 779 proteins. A network comprising protein–protein, protein–chemical, and chemical–chemical interactions was probed employing the Random-Walk-with-Restart algorithm using the aforementioned proteins and chemicals as seed nodes to unearth additional autophagy-associated proteins and chemicals. Screening tests were performed to exclude proteins and chemicals with minimal autophagy associations. Results: A total of 88 inferred proteins and 50 inferred chemicals of high autophagy relevance were identified. Certain entities, such as the chemical prostaglandin E2 (PGE2), which is recognized for modulating cell death-induced inflammatory responses during pathogen invasion, and the protein G Protein Subunit Alpha I1 (GNAI1), implicated in ether lipid metabolism influencing a range of cellular processes including autophagy, were associated with autophagy. Conclusions: The discovery of novel autophagy-associated proteins and chemicals is of vital importance because it enhances the understanding of autophagy, provides potential therapeutic targets, and fosters the development of innovative therapeutic strategies and interventions.

show abstract

Identification of critical autophagy-related proteins in diabetic retinopathy: A multi-dimensional computational study

Cited by 3 publications

References 60 publications

Autophagy and diabetes

Autophagy and diabetes

Exploration of functional relations among differentially co-expressed genes identifies regulators in glioblastoma

Identifying Autophagy-Associated Proteins and Chemicals with a Random Walk-Based Method within Heterogeneous Interaction Network

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