What We Learned From Big Data for Autophagy Research.

Frontiers in Cell and Developmental Biology
Anne-Claire JacominIoannis P Nezis

Abstract

Autophagy is the process by which cytoplasmic components are engulfed in double-membraned vesicles before being delivered to the lysosome to be degraded. Defective autophagy has been linked to a vast array of human pathologies. The molecular mechanism of the autophagic machinery is well-described and has been extensively investigated. However, understanding the global organization of the autophagy system and its integration with other cellular processes remains a challenge. To this end, various bioinformatics and network biology approaches have been developed by researchers in the last few years. Recently, large-scale multi-omics approaches (like genomics, transcriptomics, proteomics, lipidomics, and metabolomics) have been developed and carried out specifically focusing on autophagy, and generating multi-scale data on the related components. In this review, we outline recent applications of in silico investigations and big data analyses of the autophagy process in various biological systems.

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Citations

Jun 25, 2020·Autophagy·Dalibor Mijaljica, Daniel J Klionsky
Jun 30, 2021·Planta·Natalia WojciechowskaAgnieszka Bagniewska-Zadworna
Jul 3, 2021·International Journal of Molecular Sciences·Marcelo T MouraFabíola F Paula-Lopes

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Methods Mentioned

BETA
nuclear magnetic resonance
xenografts
Assay
single-cell sequencing
biopsies

Software Mentioned

AutomiRDB
HMMER3
hfAIM
ANCHOR
iLIR
AtgO
Cytoscape
ELM
BLAST
THANATOS OrchestratorS

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Autophagy is a cellular process that allows degradation by the lysosome of cytoplasmic components such as proteins or organelles. Here is the latest research on autophagy & model organisms