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. 2018 Aug 17;6:92. doi: 10.3389/fcell.2018.00092

Table 1.

Currently available autophagy-related resources.

Database URL Description References
Autophagy Regulation Network http://autophagyregulation.org/ Autophagy core proteins and their regulators with experimentally verified and predicted interactions in human. Türei et al., 2015
The Human Autophagy Database http://autophagy.lu/ Manually curation of autophagy proteins and their regulators.
The Autophagy Database http://www.tanpaku.org/autophagy/ Provides information about proteins related to autophagy, including protein structure data in 41 species. Homma et al., 2011
The Autophagy Ontology http://atgo.ucsd.edu/ Ontology of functions related to autophagy, explains and presents the hierarchy of functions in autophagy in yeast and human. Kramer et al., 2017
ELM http://elm.eu.org Annotation and detection of eukaryotic linear motifs (ELMs). Gouw et al., 2017
Gerontology-Autophagic-MicroRNA Database http://gamdb.liu-lab.com/index.php Experimentally validated interactions between miRNA and genes or proteins in gerontology-related disorders manually curated from the literature focusing on autophagy. Zhang et al., 2016
hfAIM http://bioinformatics.psb.ugent.be/hfAIM/ Identification of LIR/AIM motifs in protein sequences Xie et al., 2016
iLIR http://repeat.biol.ucy.ac.cy/iLIR Identification of LIR/AIM motifs in protein sequences and providing a PSSM score indicating the significance of the hits. Kalvari et al., 2014
iLIR database http://ilir.uk/model A database listing all the putative LIR-containing proteins from 8 model organisms; GO analysis. Jacomin et al., 2016
iLIR@viral http://ilir.uk/virus/ Database of all the putative LIR-containing proteins in viruses. Jacomin et al., 2017
ncRDeathDB http://www.rna-society.org/ncrdeathdb Collection of programmed cell death associated non-coding RNAs (including microRNA, long noncoding RNA/lncRNA and small nucleolar RNA/snoRNA). Wu et al., 2015
SLiMSearch http://slim.ucd.ie/ slimsearch/ Search function in given protein(s) for a specific consensus motif for the discovery of novel motif instances. Krystkowiak and Davey, 2017
THANATOS http://thanatos.biocuckoo.org/ Manually curated collection of experimentally verified regulators during programmed cell death in eukaryotes. Deng et al., 2018