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Volumn 14, Issue 3, 2018, Pages 419-436

Exploring autophagy with Gene Ontology

Author keywords

annotation; autophagy; biocuration; curation; enrichment analysis; Gene Ontology; network analysis; Parkinson disease

Indexed keywords

PROTEIN;

EID: 85042224828     PISSN: 15548627     EISSN: 15548635     Source Type: Journal    
DOI: 10.1080/15548627.2017.1415189     Document Type: Article
Times cited : (70)

References (106)
  • 1
    • 0034069495 scopus 로고    scopus 로고
    • Gene ontology: tool for the unification of biology
    • The gene ontology consortium, PubMed PMID: 10802651
    • Ashburner M, Ball CA, Blake JA, et al. Gene ontology: tool for the unification of biology. The gene ontology consortium. Nat Genet. 2000;25(1):25–29. doi:10.1038/75556. PubMed PMID: 10802651.
    • (2000) Nat Genet , vol.25 , Issue.1 , pp. 25-29
    • Ashburner, M.1    Ball, C.A.2    Blake, J.A.3
  • 2
    • 84892683484 scopus 로고    scopus 로고
    • A guide to best practices for Gene Ontology (GO) manual annotation
    • PubMed PMID: 23842463; PubMed Central PMCID: PMC3706743
    • Balakrishnan R, Harris MA, Huntley R, et al. A guide to best practices for Gene Ontology (GO) manual annotation. Database (Oxford). 2013;2013:bat054. doi:10.1093/database/bat054. PubMed PMID: 23842463; PubMed Central PMCID: PMC3706743.
    • (2013) Database (Oxford) , vol.2013 , pp. bat054
    • Balakrishnan, R.1    Harris, M.A.2    Huntley, R.3
  • 3
    • 84959903228 scopus 로고    scopus 로고
    • Mouse genome database 2016
    • PubMed PMID: 26578600; PubMed Central PMCID: PMCPMC4702860
    • Bult CJ, Eppig JT, Blake JA, et al. Mouse genome database 2016. Nucleic Acids Res. 2016;44(D1):D840–D847. doi:10.1093/nar/gkv1211. PubMed PMID: 26578600; PubMed Central PMCID: PMCPMC4702860.
    • (2016) Nucleic Acids Res , vol.44 , Issue.D1 , pp. D840-D847
    • Bult, C.J.1    Eppig, J.T.2    Blake, J.A.3
  • 4
    • 84945581797 scopus 로고    scopus 로고
    • Blood transcriptomics of drug-naive sporadic Parkinson's disease patients
    • PubMed PMID: 26510930; PubMed Central PMCID: PMCPMC4625854
    • Calligaris R, Banica M, Roncaglia P, et al. Blood transcriptomics of drug-naive sporadic Parkinson's disease patients. BMC Genomics. 2015;16:876. doi:10.1186/s12864-015-2058-3. PubMed PMID: 26510930; PubMed Central PMCID: PMCPMC4625854.
    • (2015) BMC Genomics , vol.16 , pp. 876
    • Calligaris, R.1    Banica, M.2    Roncaglia, P.3
  • 5
    • 84959930214 scopus 로고    scopus 로고
    • An overview of macroautophagy in yeast
    • PubMed PMID: 26908221; PubMed Central PMCID: PMCPMC4846508
    • Wen X, Klionsky DJ. An overview of macroautophagy in yeast. J Mol Biol. 2016;428(9 Pt A):1681–1699. doi:10.1016/j.jmb.2016.02.021. PubMed PMID: 26908221; PubMed Central PMCID: PMCPMC4846508.
    • (2016) J Mol Biol , vol.428 , Issue.9 , pp. 1681-1699
    • Wen, X.1    Klionsky, D.J.2
  • 6
    • 1642329712 scopus 로고    scopus 로고
    • Determination of four sequential stages during microautophagy in vitro
    • PubMed PMID: 14679207
    • Kunz JB, Schwarz H, Mayer A. Determination of four sequential stages during microautophagy in vitro. J Biol Chem. 2004;279(11):9987–9996. doi:10.1074/jbc.M307905200. PubMed PMID: 14679207.
    • (2004) J Biol Chem , vol.279 , Issue.11 , pp. 9987-9996
    • Kunz, J.B.1    Schwarz, H.2    Mayer, A.3
  • 7
    • 78651423598 scopus 로고    scopus 로고
    • Microautophagy of cytosolic proteins by late endosomes
    • PubMed PMID: 21238931; PubMed Central PMCID: PMCPMC3025279
    • Sahu R, Kaushik S, Clement CC, et al. Microautophagy of cytosolic proteins by late endosomes. Dev Cell. 2011;20(1):131–139. doi:10.1016/j.devcel.2010.12.003. PubMed PMID: 21238931; PubMed Central PMCID: PMCPMC3025279.
    • (2011) Dev Cell , vol.20 , Issue.1 , pp. 131-139
    • Sahu, R.1    Kaushik, S.2    Clement, C.C.3
  • 8
    • 77956178939 scopus 로고    scopus 로고
    • Chaperone-mediated autophagy: molecular mechanisms and physiological relevance
    • PubMed PMID: 20176123; PubMed Central PMCID: PMCPMC2914824
    • Orenstein SJ, Cuervo AM. Chaperone-mediated autophagy: molecular mechanisms and physiological relevance. Semin Cell Dev Biol. 2010;21(7):719–726. doi:10.1016/j.semcdb.2010.02.005. PubMed PMID: 20176123; PubMed Central PMCID: PMCPMC2914824.
    • (2010) Semin Cell Dev Biol , vol.21 , Issue.7 , pp. 719-726
    • Orenstein, S.J.1    Cuervo, A.M.2
  • 9
    • 84878943669 scopus 로고    scopus 로고
    • The mechanism and physiological function of macroautophagy
    • PubMed PMID: 23774579
    • Klionsky DJ, Codogno P. The mechanism and physiological function of macroautophagy. J Innate Immun. 2013;5(5):427–433. doi:10.1159/000351979. PubMed PMID: 23774579.
    • (2013) J Innate Immun , vol.5 , Issue.5 , pp. 427-433
    • Klionsky, D.J.1    Codogno, P.2
  • 10
    • 84992734380 scopus 로고    scopus 로고
    • Dysregulation of autophagy and mitochondrial function in Parkinson's disease
    • PubMed PMID: 27822367; PubMed Central PMCID: PMCPMC5087125
    • Wang B, Abraham N, Gao G, et al. Dysregulation of autophagy and mitochondrial function in Parkinson's disease. Transl Neurodegener. 2016;5:19. doi:10.1186/s40035-016-0065-1. PubMed PMID: 27822367; PubMed Central PMCID: PMCPMC5087125.
    • (2016) Transl Neurodegener , vol.5 , pp. 19
    • Wang, B.1    Abraham, N.2    Gao, G.3
  • 11
    • 84881025556 scopus 로고    scopus 로고
    • Impaired autophagy and APP processing in Alzheimer's disease: the potential role of Beclin 1 interactome
    • PubMed PMID: 23827971
    • Salminen A, Kaarniranta K, Kauppinen A, et al. Impaired autophagy and APP processing in Alzheimer's disease: the potential role of Beclin 1 interactome. Prog Neurobiol. 2013;106–107:33–54. doi:10.1016/j.pneurobio.2013.06.002. PubMed PMID: 23827971.
    • (2013) Prog Neurobiol , vol.106-107 , pp. 33-54
    • Salminen, A.1    Kaarniranta, K.2    Kauppinen, A.3
  • 12
    • 84975295233 scopus 로고    scopus 로고
    • Subcellular clearance and accumulation of Huntington disease protein: a mini-review
    • PubMed PMID: 27147961; PubMed Central PMCID: PMCPMC4838617
    • Zhao T, Hong Y, Li XJ, et al. Subcellular clearance and accumulation of Huntington disease protein: a mini-review. Front Mol Neurosci. 2016;9:27. doi:10.3389/fnmol.2016.00027. PubMed PMID: 27147961; PubMed Central PMCID: PMCPMC4838617.
    • (2016) Front Mol Neurosci , vol.9 , pp. 27
    • Zhao, T.1    Hong, Y.2    Li, X.J.3
  • 13
    • 84969257272 scopus 로고    scopus 로고
    • Stress granules at the intersection of autophagy and ALS
    • PubMed PMID: 27181519; PubMed Central PMCID: PMCPMC5055418
    • Monahan Z, Shewmaker F, Pandey UB. Stress granules at the intersection of autophagy and ALS. Brain Res. 2016;1649(Pt B):189–200. doi:10.1016/j.brainres.2016.05.022. PubMed PMID: 27181519; PubMed Central PMCID: PMCPMC5055418.
    • (2016) Brain Res , vol.1649 , pp. 189-200
    • Monahan, Z.1    Shewmaker, F.2    Pandey, U.B.3
  • 14
    • 85014799386 scopus 로고    scopus 로고
    • Autophagy and neurodegeneration: pathogenic mechanisms and therapeutic opportunities
    • PubMed PMID: 28279350
    • Menzies FM, Fleming A, Caricasole A, et al. Autophagy and neurodegeneration: pathogenic mechanisms and therapeutic opportunities. Neuron. 2017;93(5):1015–1034. doi:10.1016/j.neuron.2017.01.022. PubMed PMID: 28279350.
    • (2017) Neuron , vol.93 , Issue.5 , pp. 1015-1034
    • Menzies, F.M.1    Fleming, A.2    Caricasole, A.3
  • 15
    • 84916635066 scopus 로고    scopus 로고
    • Molecular mechanisms mediating mitochondrial dynamics and mitophagy and their functional roles in the cardiovascular system
    • PubMed PMID: 25305175; PubMed Central PMCID: PMCPMC4268018
    • Ikeda Y, Shirakabe A, Brady C, et al. Molecular mechanisms mediating mitochondrial dynamics and mitophagy and their functional roles in the cardiovascular system. J Mol Cell Cardiol. 2015;78:116–122. doi:10.1016/j.yjmcc.2014.09.019. PubMed PMID: 25305175; PubMed Central PMCID: PMCPMC4268018.
    • (2015) J Mol Cell Cardiol , vol.78 , pp. 116-122
    • Ikeda, Y.1    Shirakabe, A.2    Brady, C.3
  • 16
    • 84991036037 scopus 로고    scopus 로고
    • Autophagy in cancer metastasis
    • PubMed PMID: 27593926
    • Mowers EE, Sharifi MN, Macleod KF, et al. Autophagy in cancer metastasis. Oncogene. 2017;36(12):1619–1630. doi:10.1038/onc.2016.333. PubMed PMID: 27593926.
    • (2017) Oncogene , vol.36 , Issue.12 , pp. 1619-1630
    • Mowers, E.E.1    Sharifi, M.N.2    Macleod, K.F.3
  • 17
    • 84876685141 scopus 로고    scopus 로고
    • Receptor interacting protein kinase 2-mediated mitophagy regulates inflammasome activation during virus infection
    • PubMed PMID: 23525089; PubMed Central PMCID: PMCPMC3631456
    • Lupfer C, Thomas PG, Anand PK, et al. Receptor interacting protein kinase 2-mediated mitophagy regulates inflammasome activation during virus infection. Nat Immunol. 2013;14(5):480–488. doi:10.1038/ni.2563. PubMed PMID: 23525089; PubMed Central PMCID: PMCPMC3631456.
    • (2013) Nat Immunol , vol.14 , Issue.5 , pp. 480-488
    • Lupfer, C.1    Thomas, P.G.2    Anand, P.K.3
  • 18
    • 84994615789 scopus 로고    scopus 로고
    • Defective autophagy, mitochondrial clearance and lipophagy in niemann-pick type B lymphocytes
    • PubMed PMID: 27798705; PubMed Central PMCID: PMCPMC5087958
    • Canonico B, Cesarini E, Salucci S, et al. Defective autophagy, mitochondrial clearance and lipophagy in niemann-pick type B lymphocytes. PLoS One. 2016;11(10):e0165780. doi:10.1371/journal.pone.0165780. PubMed PMID: 27798705; PubMed Central PMCID: PMCPMC5087958.
    • (2016) PLoS One , vol.11 , Issue.10
    • Canonico, B.1    Cesarini, E.2    Salucci, S.3
  • 19
    • 85045786293 scopus 로고    scopus 로고
    • Gene Ontology Consortium. Gene ontology relations documentation [2017 May 10]. Available from: http://geneontology.org/page/ontology-relations
    • (2017) Gene ontology relations documentation
  • 20
    • 79952016835 scopus 로고    scopus 로고
    • Cross-product extensions of the Gene Ontology
    • PubMed PMID: 20152934; PubMed Central PMCID: PMCPMC2910209
    • Mungall CJ, Bada M, Berardini TZ, et al. Cross-product extensions of the Gene Ontology. J Biomed Inform. 2011;44(1):80–86. doi:10.1016/j.jbi.2010.02.002. PubMed PMID: 20152934; PubMed Central PMCID: PMCPMC2910209.
    • (2011) J Biomed Inform , vol.44 , Issue.1 , pp. 80-86
    • Mungall, C.J.1    Bada, M.2    Berardini, T.Z.3
  • 21
    • 84922586184 scopus 로고    scopus 로고
    • TermGenie–a web-application for pattern-based ontology class generation
    • PubMed PMID: 25937883; PubMed Central PMCID: PMCPMC4417543
    • Dietze H, Berardini TZ, Foulger RE, et al. TermGenie–a web-application for pattern-based ontology class generation. J Biomed Semantics. 2014;5:48. doi:10.1186/2041-1480-5-48. PubMed PMID: 25937883; PubMed Central PMCID: PMCPMC4417543.
    • (2014) J Biomed Semantics , vol.5 , pp. 48
    • Dietze, H.1    Berardini, T.Z.2    Foulger, R.E.3
  • 22
    • 84946735654 scopus 로고    scopus 로고
    • Gene ontology consortium: going forward
    • Gene Ontology Consortium. Gene ontology consortium: going forward. Nucleic Acids Res. 2015;43(Database issue):D1049–D1056.
    • (2015) Nucleic Acids Res , vol.43 , Issue.Database issue , pp. D1049-D1056
  • 25
    • 80054025654 scopus 로고    scopus 로고
    • The role of Atg proteins in autophagosome formation
    • PubMed PMID: 21801009
    • Mizushima N, Yoshimori T, Ohsumi Y. The role of Atg proteins in autophagosome formation. Annu Rev Cell Dev Biol. 2011;27:107–132. doi:10.1146/annurev-cellbio-092910-154005. PubMed PMID: 21801009.
    • (2011) Annu Rev Cell Dev Biol , vol.27 , pp. 107-132
    • Mizushima, N.1    Yoshimori, T.2    Ohsumi, Y.3
  • 26
    • 85013763791 scopus 로고    scopus 로고
    • Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition)
    • PubMed PMID: 26799652; PubMed Central PMCID: PMCPMC4835977
    • Klionsky DJ, Abdelmohsen K, Abe A, et al. Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition). Autophagy. 2016;12(1):1–222. doi:10.1080/15548627.2015.1100356. PubMed PMID: 26799652; PubMed Central PMCID: PMCPMC4835977.
    • (2016) Autophagy , vol.12 , Issue.1 , pp. 1-222
    • Klionsky, D.J.1    Abdelmohsen, K.2    Abe, A.3
  • 27
    • 85035217436 scopus 로고    scopus 로고
    • Modeling biochemical pathways in the gene ontology
    • PubMed PMID: 27589964; PubMed Central PMCID: PMCPMC5009323
    • Hill DP, D'Eustachio P, Berardini TZ, et al. Modeling biochemical pathways in the gene ontology. Database (Oxford). 2016;. doi:10.1093/database/baw126. PubMed PMID: 27589964; PubMed Central PMCID: PMCPMC5009323.
    • (2016) Database
    • Hill, D.P.1    D'Eustachio, P.2    Berardini, T.Z.3
  • 28
    • 84938413423 scopus 로고    scopus 로고
    • Representing virus-host interactions and other multi-organism processes in the Gene Ontology
    • PubMed PMID: 26215368; PubMed Central PMCID: PMCPMC4517558
    • Foulger RE, Osumi-Sutherland D, McIntosh BK, et al. Representing virus-host interactions and other multi-organism processes in the Gene Ontology. BMC Microbiol. 2015;15:146. doi:10.1186/s12866-015-0481-x. PubMed PMID: 26215368; PubMed Central PMCID: PMCPMC4517558.
    • (2015) BMC Microbiol , vol.15 , pp. 146
    • Foulger, R.E.1    Osumi-Sutherland, D.2    McIntosh, B.K.3
  • 29
    • 84924423819 scopus 로고    scopus 로고
    • Selective autophagy: xenophagy
    • PubMed PMID: 25497060; PubMed Central PMCID: PMCPMC4355331
    • Bauckman KA, Owusu-Boaitey N, Mysorekar IU. Selective autophagy: xenophagy. Methods. 2015;75:120–127. doi:10.1016/j.ymeth.2014.12.005. PubMed PMID: 25497060; PubMed Central PMCID: PMCPMC4355331.
    • (2015) Methods , vol.75 , pp. 120-127
    • Bauckman, K.A.1    Owusu-Boaitey, N.2    Mysorekar, I.U.3
  • 30
    • 16344365254 scopus 로고    scopus 로고
    • Atg11 links cargo to the vesicle-forming machinery in the cytoplasm to vacuole targeting pathway
    • PubMed PMID: 15659643; PubMed Central PMCID: PMCPMC1073644
    • Yorimitsu T, Klionsky DJ. Atg11 links cargo to the vesicle-forming machinery in the cytoplasm to vacuole targeting pathway. Mol Biol Cell. 2005;16(4):1593–1605. doi:10.1091/mbc.E04-11-1035. PubMed PMID: 15659643; PubMed Central PMCID: PMCPMC1073644.
    • (2005) Mol Biol Cell , vol.16 , Issue.4 , pp. 1593-1605
    • Yorimitsu, T.1    Klionsky, D.J.2
  • 31
    • 85020297927 scopus 로고    scopus 로고
    • Molecular definitions of autophagy and related processes
    • PubMed PMID: 28596378; PubMed Central PMCID: PMCPMC5494474
    • Galluzzi L, Baehrecke EH, Ballabio A, et al. Molecular definitions of autophagy and related processes. EMBO J. 2017;36(13):1811–1836. doi:10.15252/embj.201796697. PubMed PMID: 28596378; PubMed Central PMCID: PMCPMC5494474.
    • (2017) EMBO J , vol.36 , Issue.13 , pp. 1811-1836
    • Galluzzi, L.1    Baehrecke, E.H.2    Ballabio, A.3
  • 32
    • 85016120238 scopus 로고    scopus 로고
    • Large-scale inference of gene function through phylogenetic annotation of Gene Ontology terms: case study of the apoptosis and autophagy cellular processes
    • PubMed PMID: 28025345; PubMed Central PMCID: PMCPMC5199145
    • Feuermann M, Gaudet P, Mi H, et al. Large-scale inference of gene function through phylogenetic annotation of Gene Ontology terms: case study of the apoptosis and autophagy cellular processes. Database (Oxford). 2016; doi:10.1093/database/baw155. PubMed PMID: 28025345; PubMed Central PMCID: PMCPMC5199145.
    • (2016) Database (Oxford)
    • Feuermann, M.1    Gaudet, P.2    Mi, H.3
  • 34
    • 41949101594 scopus 로고    scopus 로고
    • Toll-like receptors control autophagy
    • PubMed PMID: 18337753; PubMed Central PMCID: PMCPMC2323261
    • Delgado MA, Elmaoued RA, Davis AS, et al. Toll-like receptors control autophagy. EMBO J. 2008;27(7):1110–1121. doi:10.1038/emboj.2008.31. PubMed PMID: 18337753; PubMed Central PMCID: PMCPMC2323261.
    • (2008) EMBO J , vol.27 , Issue.7 , pp. 1110-1121
    • Delgado, M.A.1    Elmaoued, R.A.2    Davis, A.S.3
  • 35
    • 32044465506 scopus 로고    scopus 로고
    • TOR signaling in growth and metabolism
    • PubMed PMID: 16469695
    • Wullschleger S, Loewith R, Hall MN. TOR signaling in growth and metabolism. Cell. 2006;124(3):471–484. doi:10.1016/j.cell.2006.01.016. PubMed PMID: 16469695.
    • (2006) Cell , vol.124 , Issue.3 , pp. 471-484
    • Wullschleger, S.1    Loewith, R.2    Hall, M.N.3
  • 36
    • 84942552963 scopus 로고    scopus 로고
    • Regulation of autophagy by amino acids and MTOR-dependent signal transduction
    • PubMed PMID: 24880909; PubMed Central PMCID: PMCPMC4580722
    • Meijer AJ, Lorin S, Blommaart EF, et al. Regulation of autophagy by amino acids and MTOR-dependent signal transduction. Amino Acids. 2015;47(10):2037–2063. doi:10.1007/s00726-014-1765-4. PubMed PMID: 24880909; PubMed Central PMCID: PMCPMC4580722.
    • (2015) Amino Acids , vol.47 , Issue.10 , pp. 2037-2063
    • Meijer, A.J.1    Lorin, S.2    Blommaart, E.F.3
  • 37
    • 34447643958 scopus 로고    scopus 로고
    • Toll-like receptor 4 is a sensor for autophagy associated with innate immunity
    • PubMed PMID: 17658277; PubMed Central PMCID: PMCPMC2680670
    • Xu Y, Jagannath C, Liu XD, et al. Toll-like receptor 4 is a sensor for autophagy associated with innate immunity. Immunity. 2007;27(1):135–144. doi:10.1016/j.immuni.2007.05.022. PubMed PMID: 17658277; PubMed Central PMCID: PMCPMC2680670.
    • (2007) Immunity , vol.27 , Issue.1 , pp. 135-144
    • Xu, Y.1    Jagannath, C.2    Liu, X.D.3
  • 38
    • 57749100267 scopus 로고    scopus 로고
    • MyD88 and Trif target Beclin 1 to trigger autophagy in macrophages
    • PubMed PMID: 18772134; PubMed Central PMCID: PMCPMC2586260
    • Shi CS, Kehrl JH. MyD88 and Trif target Beclin 1 to trigger autophagy in macrophages. J Biol Chem. 2008;283(48):33175–33182. doi:10.1074/jbc.M804478200. PubMed PMID: 18772134; PubMed Central PMCID: PMCPMC2586260.
    • (2008) J Biol Chem , vol.283 , Issue.48 , pp. 33175-33182
    • Shi, C.S.1    Kehrl, J.H.2
  • 39
    • 85005769276 scopus 로고    scopus 로고
    • Emerging mechanisms in initiating and terminating autophagy
    • PubMed PMID: 27765496
    • Antonioli M, Di Rienzo M, Piacentini M, et al. Emerging mechanisms in initiating and terminating autophagy. Trends Biochem Sci. 2017;42(1):28–41. doi:10.1016/j.tibs.2016.09.008. PubMed PMID: 27765496.
    • (2017) Trends Biochem Sci , vol.42 , Issue.1 , pp. 28-41
    • Antonioli, M.1    Di Rienzo, M.2    Piacentini, M.3
  • 40
    • 79953153833 scopus 로고    scopus 로고
    • The late stage of autophagy: cellular events and molecular regulation
    • PubMed PMID: 21204017; PubMed Central PMCID: PMCPMC4875124
    • Tong J, Yan X, Yu L. The late stage of autophagy: cellular events and molecular regulation. Protein Cell. 2010;1(10):907–915. doi:10.1007/s13238-010-0121-z. PubMed PMID: 21204017; PubMed Central PMCID: PMCPMC4875124.
    • (2010) Protein Cell , vol.1 , Issue.10 , pp. 907-915
    • Tong, J.1    Yan, X.2    Yu, L.3
  • 41
    • 85016166168 scopus 로고    scopus 로고
    • Expansion of the Gene Ontology knowledgebase and resources
    • PubMed PMID: 27899567; PubMed Central PMCID: PMCPMC5210579
    • The Gene Ontology Consortium. Expansion of the Gene Ontology knowledgebase and resources. Nucleic Acids Res. 2017;45(D1):D331–D338. doi:10.1093/nar/gkw1108. PubMed PMID: 27899567; PubMed Central PMCID: PMCPMC5210579.
    • (2017) Nucleic Acids Res , vol.45 , Issue.D1 , pp. D331-D338
  • 43
    • 80053180122 scopus 로고    scopus 로고
    • Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium
    • PubMed PMID: 21873635; PubMed Central PMCID: PMCPMC3178059
    • Gaudet P, Livstone MS, Lewis SE, et al. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Brief Bioinform. 2011;12(5):449–462. doi:10.1093/bib/bbr042. PubMed PMID: 21873635; PubMed Central PMCID: PMCPMC3178059.
    • (2011) Brief Bioinform , vol.12 , Issue.5 , pp. 449-462
    • Gaudet, P.1    Livstone, M.S.2    Lewis, S.E.3
  • 44
    • 79959999581 scopus 로고    scopus 로고
    • Microautophagy in mammalian cells: revisiting a 40-year-old conundrum
    • PubMed PMID: 21646866
    • Mijaljica D, Prescott M, Devenish RJ. Microautophagy in mammalian cells: revisiting a 40-year-old conundrum. Autophagy. 2011;7(7):673–682. PubMed PMID: 21646866.
    • (2011) Autophagy , vol.7 , Issue.7 , pp. 673-682
    • Mijaljica, D.1    Prescott, M.2    Devenish, R.J.3
  • 45
    • 84976870113 scopus 로고    scopus 로고
    • The reactome pathway knowledgebase
    • PubMed PMID: 26656494; PubMed Central PMCID: PMCPMC4702931
    • Fabregat A, Sidiropoulos K, Garapati P, et al. The reactome pathway knowledgebase. Nucleic Acids Res. 2016;44(D1):D481–D487. doi:10.1093/nar/gkv1351. PubMed PMID: 26656494; PubMed Central PMCID: PMCPMC4702931.
    • (2016) Nucleic Acids Res , vol.44 , Issue.D1 , pp. D481-D487
    • Fabregat, A.1    Sidiropoulos, K.2    Garapati, P.3
  • 46
    • 84894315212 scopus 로고    scopus 로고
    • Integrating pathways of Parkinson's disease in a molecular interaction map
    • PubMed PMID: 23832570; PubMed Central PMCID: PMCPMC4153395
    • Fujita KA, Ostaszewski M, Matsuoka Y, et al. Integrating pathways of Parkinson's disease in a molecular interaction map. Mol Neurobiol. 2014;49(1):88–102. doi:10.1007/s12035-013-8489-4. PubMed PMID: 23832570; PubMed Central PMCID: PMCPMC4153395.
    • (2014) Mol Neurobiol , vol.49 , Issue.1 , pp. 88-102
    • Fujita, K.A.1    Ostaszewski, M.2    Matsuoka, Y.3
  • 47
    • 84923379949 scopus 로고    scopus 로고
    • Autophagy regulatory network–a systems-level bioinformatics resource for studying the mechanism and regulation of autophagy
    • PubMed PMID: 25635527; PubMed Central PMCID: PMCPMC4502651
    • Turei D, Foldvari-Nagy L, Fazekas D, et al. Autophagy regulatory network–a systems-level bioinformatics resource for studying the mechanism and regulation of autophagy. Autophagy. 2015;11(1):155–165. doi:10.4161/15548627.2014.994346. PubMed PMID: 25635527; PubMed Central PMCID: PMCPMC4502651.
    • (2015) Autophagy , vol.11 , Issue.1 , pp. 155-165
    • Turei, D.1    Foldvari-Nagy, L.2    Fazekas, D.3
  • 48
    • 84982282667 scopus 로고    scopus 로고
    • iLIR database: a web resource for LIR motif-containing proteins in eukaryotes
    • PubMed PMID: 27484196; PubMed Central PMCID: PMCPMC5079668
    • Jacomin AC, Samavedam S, Promponas V, et al. iLIR database: a web resource for LIR motif-containing proteins in eukaryotes. Autophagy. 2016;12(10):1945–1953. doi:10.1080/15548627.2016.1207016. PubMed PMID: 27484196; PubMed Central PMCID: PMCPMC5079668.
    • (2016) Autophagy , vol.12 , Issue.10 , pp. 1945-1953
    • Jacomin, A.C.1    Samavedam, S.2    Promponas, V.3
  • 49
    • 78651336755 scopus 로고    scopus 로고
    • ViralZone: a knowledge resource to understand virus diversity
    • PubMed PMID: 20947564; PubMed Central PMCID: PMCPMC3013774
    • Hulo C, de Castro E, Masson P, et al. ViralZone: a knowledge resource to understand virus diversity. Nucleic Acids Res. 2011;39(Database issue):D576–D582. doi:10.1093/nar/gkq901. PubMed PMID: 20947564; PubMed Central PMCID: PMCPMC3013774.
    • (2011) Nucleic Acids Res , vol.39 , Issue.Database issue , pp. D576-D582
    • Hulo, C.1    de Castro, E.2    Masson, P.3
  • 50
    • 79960008323 scopus 로고    scopus 로고
    • The acquisition of resistance to TNFalpha in breast cancer cells is associated with constitutive activation of autophagy as revealed by a transcriptome analysis using a custom microarray
    • PubMed PMID: 21490427
    • Moussay E, Kaoma T, Baginska J, et al. The acquisition of resistance to TNFalpha in breast cancer cells is associated with constitutive activation of autophagy as revealed by a transcriptome analysis using a custom microarray. Autophagy. 2011;7(7):760–770. PubMed PMID: 21490427.
    • (2011) Autophagy , vol.7 , Issue.7 , pp. 760-770
    • Moussay, E.1    Kaoma, T.2    Baginska, J.3
  • 51
    • 78651298893 scopus 로고    scopus 로고
    • The autophagy database: an all-inclusive information resource on autophagy that provides nourishment for research
    • PubMed PMID: 20972215; PubMed Central PMCID: PMCPMC3013813
    • Homma K, Suzuki K, Sugawara H. The autophagy database: an all-inclusive information resource on autophagy that provides nourishment for research. Nucleic Acids Res. 2011;39(Database issue):D986–D990. doi:10.1093/nar/gkq995. PubMed PMID: 20972215; PubMed Central PMCID: PMCPMC3013813.
    • (2011) Nucleic Acids Res , vol.39 , Issue.Database issue , pp. D986-D990
    • Homma, K.1    Suzuki, K.2    Sugawara, H.3
  • 52
    • 85045792136 scopus 로고    scopus 로고
    • Reactome. Human macroautophagy description 2016 [2017 May 10]. Available from: http://www.reactome.org/content/detail/R-HSA-1632852
    • (2017) Human macroautophagy description 2016
  • 54
    • 84943753597 scopus 로고    scopus 로고
    • Thyroid hormone induction of mitochondrial activity is coupled to mitophagy via ROS-AMPK-ULK1 signaling
    • PubMed PMID: 26103054; PubMed Central PMCID: PMCPMC4590606
    • Sinha RA, Singh BK, Zhou J, et al. Thyroid hormone induction of mitochondrial activity is coupled to mitophagy via ROS-AMPK-ULK1 signaling. Autophagy. 2015;11(8):1341–1357. doi:10.1080/15548627.2015.1061849. PubMed PMID: 26103054; PubMed Central PMCID: PMCPMC4590606.
    • (2015) Autophagy , vol.11 , Issue.8 , pp. 1341-1357
    • Sinha, R.A.1    Singh, B.K.2    Zhou, J.3
  • 56
    • 84907190238 scopus 로고    scopus 로고
    • An integrated ontology resource to explore and study host-virus relationships
    • PubMed PMID: 25233094; PubMed Central PMCID: PMCPMC4169452
    • Masson P, Hulo C, de Castro E, et al. An integrated ontology resource to explore and study host-virus relationships. PLoS One. 2014;9(9):e108075. doi:10.1371/journal.pone.0108075. PubMed PMID: 25233094; PubMed Central PMCID: PMCPMC4169452.
    • (2014) PLoS One , vol.9 , Issue.9
    • Masson, P.1    Hulo, C.2    de Castro, E.3
  • 57
    • 0025363276 scopus 로고
    • Studies on the mechanisms of autophagy: formation of the autophagic vacuole
    • PubMed PMID: 2351689; PubMed Central PMCID: PMCPMC2116114
    • Dunn WA, Jr. Studies on the mechanisms of autophagy: formation of the autophagic vacuole. J Cell Biol. 1990;110(6):1923–1933. doi:10.1083/jcb.110.6.1923. PubMed PMID: 2351689; PubMed Central PMCID: PMCPMC2116114.
    • (1990) J Cell Biol , vol.110 , Issue.6 , pp. 1923-1933
    • Dunn, W.A.1
  • 58
    • 79551587720 scopus 로고    scopus 로고
    • Cytoscape 2.8: new features for data integration and network visualization
    • PubMed PMID: 21149340; PubMed Central PMCID: PMCPMC3031041
    • Smoot ME, Ono K, Ruscheinski J, et al. Cytoscape 2.8: new features for data integration and network visualization. Bioinformatics. 2011;27(3):431–432. doi:10.1093/bioinformatics/btq675. PubMed PMID: 21149340; PubMed Central PMCID: PMCPMC3031041.
    • (2011) Bioinformatics , vol.27 , Issue.3 , pp. 431-432
    • Smoot, M.E.1    Ono, K.2    Ruscheinski, J.3
  • 59
    • 33847274309 scopus 로고    scopus 로고
    • GOlorize: a Cytoscape plug-in for network visualization with Gene Ontology-based layout and coloring
    • PubMed PMID: 17127678; eng
    • Garcia O, Saveanu C, Cline M, et al. GOlorize: a Cytoscape plug-in for network visualization with Gene Ontology-based layout and coloring. Bioinformatics. 2007;23(3):394–396. doi:10.1093/bioinformatics/btl605. PubMed PMID: 17127678; eng.
    • (2007) Bioinformatics , vol.23 , Issue.3 , pp. 394-396
    • Garcia, O.1    Saveanu, C.2    Cline, M.3
  • 60
    • 24044440971 scopus 로고    scopus 로고
    • BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks
    • PubMed PMID: 15972284
    • Maere S, Heymans K, Kuiper M, et al. BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks. Bioinformatics. 2005;21(16):3448–3449. doi:10.1093/bioinformatics/bti551. PubMed PMID: 15972284.
    • (2005) Bioinformatics , vol.21 , Issue.16 , pp. 3448-3449
    • Maere, S.1    Heymans, K.2    Kuiper, M.3
  • 61
    • 84855500993 scopus 로고    scopus 로고
    • Autophagy: for better or for worse
    • PubMed PMID: 21912435; PubMed Central PMCID: PMCPMC3351915
    • Wirawan E, Vanden Berghe T, Lippens S, et al. Autophagy: for better or for worse. Cell Res. 2012;22(1):43–61. doi:10.1038/cr.2011.152. PubMed PMID: 21912435; PubMed Central PMCID: PMCPMC3351915.
    • (2012) Cell Res , vol.22 , Issue.1 , pp. 43-61
    • Wirawan, E.1    Vanden Berghe, T.2    Lippens, S.3
  • 62
    • 84943750048 scopus 로고    scopus 로고
    • An essential role for chaperone-mediated autophagy in cell cycle progression
    • PubMed PMID: 25945892; PubMed Central PMCID: PMCPMC4509436
    • Hubbi ME, Semenza GL. An essential role for chaperone-mediated autophagy in cell cycle progression. Autophagy. 2015;11(5):850–851. doi:10.1080/15548627.2015.1037063. PubMed PMID: 25945892; PubMed Central PMCID: PMCPMC4509436.
    • (2015) Autophagy , vol.11 , Issue.5 , pp. 850-851
    • Hubbi, M.E.1    Semenza, G.L.2
  • 63
    • 85015644654 scopus 로고    scopus 로고
    • Neuronal mitophagy in neurodegenerative diseases
    • PubMed PMID: 28337125; PubMed Central PMCID: PMCPMC5340781
    • Martinez-Vicente M. Neuronal mitophagy in neurodegenerative diseases. Front Mol Neurosci. 2017;10:64. doi:10.3389/fnmol.2017.00064. PubMed PMID: 28337125; PubMed Central PMCID: PMCPMC5340781.
    • (2017) Front Mol Neurosci , vol.10 , pp. 64
    • Martinez-Vicente, M.1
  • 64
    • 85014939253 scopus 로고    scopus 로고
    • The LRRK2-macroautophagy axis and its relevance to Parkinson's disease
    • PubMed PMID: 28202669; PubMed Central PMCID: PMCPMC5310720
    • Manzoni C. The LRRK2-macroautophagy axis and its relevance to Parkinson's disease. Biochem Soc Trans. 2017;45(1):155–162. doi:10.1042/BST20160265. PubMed PMID: 28202669; PubMed Central PMCID: PMCPMC5310720.
    • (2017) Biochem Soc Trans , vol.45 , Issue.1 , pp. 155-162
    • Manzoni, C.1
  • 65
    • 85015157838 scopus 로고    scopus 로고
    • Autophagy and microglia: novel partners in neurodegeneration and aging
    • PubMed PMID: 28282924; PubMed Central PMCID: PMCPMC5372614
    • Plaza-Zabala A, Sierra-Torre V, Sierra A. Autophagy and microglia: novel partners in neurodegeneration and aging. Int J Mol Sci. 2017;18(3:)598. doi:10.3390/ijms18030598. PubMed PMID: 28282924; PubMed Central PMCID: PMCPMC5372614.
    • (2017) Int J Mol Sci , vol.18 , Issue.3 , pp. 598
    • Plaza-Zabala, A.1    Sierra-Torre, V.2    Sierra, A.3
  • 66
    • 50249084987 scopus 로고    scopus 로고
    • Autophagosome formation from membrane compartments enriched in phosphatidylinositol 3-phosphate and dynamically connected to the endoplasmic reticulum
    • PubMed PMID: 18725538; PubMed Central PMCID: PMCPMC2518708
    • Axe EL, Walker SA, Manifava M, et al. Autophagosome formation from membrane compartments enriched in phosphatidylinositol 3-phosphate and dynamically connected to the endoplasmic reticulum. J Cell Biol. 2008;182(4):685–701. doi:10.1083/jcb.200803137. PubMed PMID: 18725538; PubMed Central PMCID: PMCPMC2518708.
    • (2008) J Cell Biol , vol.182 , Issue.4 , pp. 685-701
    • Axe, E.L.1    Walker, S.A.2    Manifava, M.3
  • 67
    • 85008466118 scopus 로고    scopus 로고
    • Phosphatidylinositol-3-phosphate in the regulation of autophagy membrane dynamics
    • PubMed PMID: 27973739
    • Nascimbeni AC, Codogno P, Morel E. Phosphatidylinositol-3-phosphate in the regulation of autophagy membrane dynamics. FEBS J. 2017;284(9):1267–1278. doi:10.1111/febs.13987. PubMed PMID: 27973739.
    • (2017) FEBS J , vol.284 , Issue.9 , pp. 1267-1278
    • Nascimbeni, A.C.1    Codogno, P.2    Morel, E.3
  • 68
    • 84963541664 scopus 로고    scopus 로고
    • Autophagy constitutes a protective mechanism against ethanol toxicity in mouse astrocytes and neurons
    • PubMed PMID: 27070930; PubMed Central PMCID: PMCPMC4829237
    • Pla A, Pascual M, Guerri C. Autophagy constitutes a protective mechanism against ethanol toxicity in mouse astrocytes and neurons. PLoS One. 2016;11(4):e0153097. doi:10.1371/journal.pone.0153097. PubMed PMID: 27070930; PubMed Central PMCID: PMCPMC4829237.
    • (2016) PLoS One , vol.11 , Issue.4
    • Pla, A.1    Pascual, M.2    Guerri, C.3
  • 69
    • 84939547798 scopus 로고    scopus 로고
    • Association of TLR9 polymorphisms with sporadic Parkinson's disease in Chinese Han population
    • PubMed PMID: 26000920
    • Zhu K, Teng J, Zhao J, et al. Association of TLR9 polymorphisms with sporadic Parkinson's disease in Chinese Han population. Int J Neurosci. 2016;126(7):612–616. doi:10.3109/00207454.2015.1050591. PubMed PMID: 26000920.
    • (2016) Int J Neurosci , vol.126 , Issue.7 , pp. 612-616
    • Zhu, K.1    Teng, J.2    Zhao, J.3
  • 70
    • 84979747818 scopus 로고    scopus 로고
    • Autophagy is associated with cell fate in the process of macrophage-derived foam cells formation and progress
    • PubMed PMID: 27473161; PubMed Central PMCID: PMCPMC4967324
    • Liu X, Tang Y, Cui Y, et al. Autophagy is associated with cell fate in the process of macrophage-derived foam cells formation and progress. J Biomed Sci. 2016;23(1):57. doi:10.1186/s12929-016-0274-z. PubMed PMID: 27473161; PubMed Central PMCID: PMCPMC4967324.
    • (2016) J Biomed Sci , vol.23 , Issue.1 , pp. 57
    • Liu, X.1    Tang, Y.2    Cui, Y.3
  • 71
    • 79958030075 scopus 로고    scopus 로고
    • Autophagy regulates cholesterol efflux from macrophage foam cells via lysosomal acid lipase
    • PubMed PMID: 21641547; PubMed Central PMCID: PMCPMC3257518
    • Ouimet M, Franklin V, Mak E, et al. Autophagy regulates cholesterol efflux from macrophage foam cells via lysosomal acid lipase. Cell Metab. 2011;13(6):655–667. doi:10.1016/j.cmet.2011.03.023. PubMed PMID: 21641547; PubMed Central PMCID: PMCPMC3257518.
    • (2011) Cell Metab , vol.13 , Issue.6 , pp. 655-667
    • Ouimet, M.1    Franklin, V.2    Mak, E.3
  • 72
    • 84926958759 scopus 로고    scopus 로고
    • Autophagy receptor NDP52 regulates pathogen-containing autophagosome maturation
    • PubMed PMID: 25771791
    • Verlhac P, Gregoire IP, Azocar O, et al. Autophagy receptor NDP52 regulates pathogen-containing autophagosome maturation. Cell Host Microbe. 2015;17(4):515–525. doi:10.1016/j.chom.2015.02.008. PubMed PMID: 25771791.
    • (2015) Cell Host Microbe , vol.17 , Issue.4 , pp. 515-525
    • Verlhac, P.1    Gregoire, I.P.2    Azocar, O.3
  • 73
    • 84873569898 scopus 로고    scopus 로고
    • Interaction between FIP200 and ATG16L1 distinguishes ULK1 complex-dependent and -independent autophagy
    • PubMed PMID: 23262492; PubMed Central PMCID: PMCPMC3565010
    • Gammoh N, Florey O, Overholtzer M, et al. Interaction between FIP200 and ATG16L1 distinguishes ULK1 complex-dependent and -independent autophagy. Nat Struct Mol Biol. 2013;20(2):144–149. doi:10.1038/nsmb.2475. PubMed PMID: 23262492; PubMed Central PMCID: PMCPMC3565010.
    • (2013) Nat Struct Mol Biol , vol.20 , Issue.2 , pp. 144-149
    • Gammoh, N.1    Florey, O.2    Overholtzer, M.3
  • 74
    • 77954237882 scopus 로고    scopus 로고
    • Network organization of the human autophagy system
    • PubMed PMID: 20562859; PubMed Central PMCID: PMCPMC2901998
    • Behrends C, Sowa ME, Gygi SP, et al. Network organization of the human autophagy system. Nature. 2010;466(7302):68–76. doi:10.1038/nature09204. PubMed PMID: 20562859; PubMed Central PMCID: PMCPMC2901998.
    • (2010) Nature , vol.466 , Issue.7302 , pp. 68-76
    • Behrends, C.1    Sowa, M.E.2    Gygi, S.P.3
  • 75
    • 85021717489 scopus 로고    scopus 로고
    • g:Profiler-a web server for functional interpretation of gene lists (2016 update)
    • PubMed PMID: 27098042; PubMed Central PMCID: PMCPMC4987867
    • Reimand J, Arak T, Adler P, et al. g:Profiler-a web server for functional interpretation of gene lists (2016 update). Nucleic Acids Res. 2016;44(W1):W83–W89. doi:10.1093/nar/gkw199. PubMed PMID: 27098042; PubMed Central PMCID: PMCPMC4987867.
    • (2016) Nucleic Acids Res , vol.44 , Issue.W1 , pp. W83-W89
    • Reimand, J.1    Arak, T.2    Adler, P.3
  • 76
    • 84989277384 scopus 로고    scopus 로고
    • Integrative transcriptomic meta-analysis of Parkinson's disease and depression identifies NAMPT as a potential blood biomarker for de novo Parkinson's disease
    • PubMed PMID: 27680512; PubMed Central PMCID: PMCPMC5041099
    • Santiago JA, Littlefield AM, Potashkin JA. Integrative transcriptomic meta-analysis of Parkinson's disease and depression identifies NAMPT as a potential blood biomarker for de novo Parkinson's disease. Sci Rep. 2016;6:34579. doi:10.1038/srep34579. PubMed PMID: 27680512; PubMed Central PMCID: PMCPMC5041099.
    • (2016) Sci Rep , vol.6 , pp. 34579
    • Santiago, J.A.1    Littlefield, A.M.2    Potashkin, J.A.3
  • 77
    • 10744225487 scopus 로고    scopus 로고
    • A unified nomenclature for yeast autophagy-related genes
    • PubMed PMID: 14536056
    • Klionsky DJ, Cregg JM, Dunn WA, Jr, et al. A unified nomenclature for yeast autophagy-related genes. Dev Cell. 2003;5(4):539–545. doi:10.1016/S1534-5807(03)00296-X. PubMed PMID: 14536056.
    • (2003) Dev Cell , vol.5 , Issue.4 , pp. 539-545
    • Klionsky, D.J.1    Cregg, J.M.2    Dunn, W.A.3
  • 78
    • 42049094041 scopus 로고    scopus 로고
    • PpAtg30 tags peroxisomes for turnover by selective autophagy
    • PubMed PMID: 18331717; PubMed Central PMCID: PMCPMC3763908
    • Farre JC, Manjithaya R, Mathewson RD, et al. PpAtg30 tags peroxisomes for turnover by selective autophagy. Dev Cell. 2008;14(3):365–376. doi:10.1016/j.devcel.2007.12.011. PubMed PMID: 18331717; PubMed Central PMCID: PMCPMC3763908.
    • (2008) Dev Cell , vol.14 , Issue.3 , pp. 365-376
    • Farre, J.C.1    Manjithaya, R.2    Mathewson, R.D.3
  • 79
    • 84961149074 scopus 로고    scopus 로고
    • Pexophagy in yeasts
    • PubMed PMID: 26409485
    • Oku M, Sakai Y. Pexophagy in yeasts. Biochim Biophys Acta. 2016;1863(5):992–998. doi:10.1016/j.bbamcr.2015.09.023. PubMed PMID: 26409485.
    • (2016) Biochim Biophys Acta , vol.1863 , Issue.5 , pp. 992-998
    • Oku, M.1    Sakai, Y.2
  • 80
    • 84953855169 scopus 로고    scopus 로고
    • Elucidating the composition and conservation of the autophagy pathway in photosynthetic eukaryotes
    • PubMed PMID: 25915714; PubMed Central PMCID: PMCPMC4502668
    • Shemi A, Ben-Dor S, Vardi A. Elucidating the composition and conservation of the autophagy pathway in photosynthetic eukaryotes. Autophagy. 2015;11(4):701–715. doi:10.1080/15548627.2015.1034407. PubMed PMID: 25915714; PubMed Central PMCID: PMCPMC4502668.
    • (2015) Autophagy , vol.11 , Issue.4 , pp. 701-715
    • Shemi, A.1    Ben-Dor, S.2    Vardi, A.3
  • 81
    • 84892161646 scopus 로고    scopus 로고
    • The Atg8 family: multifunctional ubiquitin-like key regulators of autophagy
    • PubMed PMID: 24070471
    • Slobodkin MR, Elazar Z. The Atg8 family: multifunctional ubiquitin-like key regulators of autophagy. Essays Biochem. 2013;55:51–64. doi:10.1042/bse0550051. PubMed PMID: 24070471.
    • (2013) Essays Biochem , vol.55 , pp. 51-64
    • Slobodkin, M.R.1    Elazar, Z.2
  • 82
    • 79960878784 scopus 로고    scopus 로고
    • Atg8: an autophagy-related ubiquitin-like protein family
    • PubMed PMID: 21867568; PubMed Central PMCID: PMCPMC3218822
    • Shpilka T, Weidberg H, Pietrokovski S, et al. Atg8: an autophagy-related ubiquitin-like protein family. Genome Biol. 2011;12(7):226. doi:10.1186/gb-2011-12-7-226. PubMed PMID: 21867568; PubMed Central PMCID: PMCPMC3218822.
    • (2011) Genome Biol , vol.12 , Issue.7 , pp. 226
    • Shpilka, T.1    Weidberg, H.2    Pietrokovski, S.3
  • 83
    • 80655124407 scopus 로고    scopus 로고
    • A comprehensive glossary of autophagy-related molecules and processes (2nd edition)
    • PubMed PMID: 21997368; PubMed Central PMCID: PMCPMC3359482
    • Klionsky DJ, Baehrecke EH, Brumell JH, et al. A comprehensive glossary of autophagy-related molecules and processes (2nd edition). Autophagy. 2011;7(11):1273–1294. doi:10.4161/auto.7.11.17661. PubMed PMID: 21997368; PubMed Central PMCID: PMCPMC3359482.
    • (2011) Autophagy , vol.7 , Issue.11 , pp. 1273-1294
    • Klionsky, D.J.1    Baehrecke, E.H.2    Brumell, J.H.3
  • 85
    • 84955600275 scopus 로고    scopus 로고
    • Using the Gene Ontology to annotate key players in Parkinson's disease
    • PubMed PMID: 26825309; PubMed Central PMCID: PMCPMC4896971
    • Foulger RE, Denny P, Hardy J, et al. Using the Gene Ontology to annotate key players in Parkinson's disease. Neuroinformatics. 2016;14(3):297–304. doi:10.1007/s12021-015-9293-2. PubMed PMID: 26825309; PubMed Central PMCID: PMCPMC4896971.
    • (2016) Neuroinformatics , vol.14 , Issue.3 , pp. 297-304
    • Foulger, R.E.1    Denny, P.2    Hardy, J.3
  • 86
    • 85045787034 scopus 로고    scopus 로고
    • Exploring autophagy with Gene Ontology [Poster]
    • Denny P, Feuermann M, Hill DP, et al. Exploring autophagy with Gene Ontology [Poster]. F1000 Research (poster). 2016;5:754. doi:10.7490/f1000research.1111783.1.
    • (2016) F1000 Research (poster) , vol.5 , pp. 754
    • Denny, P.1    Feuermann, M.2    Hill, D.P.3
  • 87
    • 85045786390 scopus 로고    scopus 로고
    • GitHub. Gene Ontology term issues 2016 [2017 May 10]. Available from: https://github.com/geneontology/go-ontology/issues
    • (2017) Gene Ontology term issues 2016
  • 88
    • 34548595489 scopus 로고    scopus 로고
    • OBO-Edit–an ontology editor for biologists
    • PubMed PMID: 17545183
    • Day-Richter J, Harris MA, Haendel M, et al. OBO-Edit–an ontology editor for biologists. Bioinformatics. 2007;23(16):2198–2200. doi:10.1093/bioinformatics/btm112. PubMed PMID: 17545183.
    • (2007) Bioinformatics , vol.23 , Issue.16 , pp. 2198-2200
    • Day-Richter, J.1    Harris, M.A.2    Haendel, M.3
  • 89
    • 85045793630 scopus 로고    scopus 로고
    • PubMed. Journal brower 2016 [2017 May 10]. Available from: http://www.ncbi.nlm.nih.gov/pubmed
    • (2017) Journal brower 2016
  • 90
    • 84938976119 scopus 로고    scopus 로고
    • Using Gene Ontology to describe the role of the neurexin-neuroligin-SHANK complex in human, mouse and rat and its relevance to autism
    • PubMed PMID: 26047810; PubMed Central PMCID: PMCPMC4458007
    • Patel S, Roncaglia P, Lovering RC, et al. Using Gene Ontology to describe the role of the neurexin-neuroligin-SHANK complex in human, mouse and rat and its relevance to autism. BMC Bioinformatics. 2015;16:186. doi:10.1186/s12859-015-0622-0. PubMed PMID: 26047810; PubMed Central PMCID: PMCPMC4458007.
    • (2015) BMC Bioinformatics , vol.16 , pp. 186
    • Patel, S.1    Roncaglia, P.2    Lovering, R.C.3
  • 92
    • 70449356774 scopus 로고    scopus 로고
    • QuickGO: a web-based tool for Gene Ontology searching [Research Support, Non-U.S. Gov't]
    • PubMed PMID: 19744993; PubMed Central PMCID: PMC2773257. eng
    • Binns D, Dimmer E, Huntley R, et al. QuickGO: a web-based tool for Gene Ontology searching [Research Support, Non-U.S. Gov't]. Bioinformatics. 2009;25(22):3045–3046. doi:10.1093/bioinformatics/btp536. PubMed PMID: 19744993; PubMed Central PMCID: PMC2773257. eng.
    • (2009) Bioinformatics , vol.25 , Issue.22 , pp. 3045-3046
    • Binns, D.1    Dimmer, E.2    Huntley, R.3
  • 93
    • 84964765606 scopus 로고    scopus 로고
    • Ensembl comparative genomics resources
    • PubMed PMID: 26896847; PubMed Central PMCID: PMCPMC4761110
    • Herrero J, Muffato M, Beal K, et al. Ensembl comparative genomics resources. Database (Oxford). 2017. doi:10.1093/database/bav096. PubMed PMID: 26896847; PubMed Central PMCID: PMCPMC4761110.
    • (2017) Database (Oxford)
    • Herrero, J.1    Muffato, M.2    Beal, K.3
  • 94
    • 33846509104 scopus 로고    scopus 로고
    • HCOP: a searchable database of human orthology predictions [Research Support, N.I.H. Extramural Research Support, Non-U.S. Gov't]
    • PubMed PMID: 16951416; eng
    • Eyre TA, Wright MW, Lush MJ, et al. HCOP: a searchable database of human orthology predictions [Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't]. Brief Bioinform. 2007;8(1):2–5. doi:10.1093/bib/bbl030. PubMed PMID: 16951416; eng.
    • (2007) Brief Bioinform , vol.8 , Issue.1 , pp. 2-5
    • Eyre, T.A.1    Wright, M.W.2    Lush, M.J.3
  • 95
    • 84874969184 scopus 로고    scopus 로고
    • PANTHER in 2013: modeling the evolution of gene function, and other gene attributes, in the context of phylogenetic trees
    • PubMed PMID: 23193289; PubMed Central PMCID: PMCPMC3531194
    • Mi H, Muruganujan A, Thomas PD. PANTHER in 2013: modeling the evolution of gene function, and other gene attributes, in the context of phylogenetic trees. Nucleic Acids Res. 2013;41(Database issue):D377–D386. doi:10.1093/nar/gks1118. PubMed PMID: 23193289; PubMed Central PMCID: PMCPMC3531194.
    • (2013) Nucleic Acids Res , vol.41 , Issue.Database issue , pp. D377-D386
    • Mi, H.1    Muruganujan, A.2    Thomas, P.D.3
  • 96
    • 85045786377 scopus 로고    scopus 로고
    • Phylogenetic Annotation and INference Tool (PAINT). Software download available from Github 2016 [2017 May 10]. Available from: https://github.com/geneontology/paint
    • (2017) Software download from Github 2016
  • 98
    • 84946069451 scopus 로고    scopus 로고
    • UniProt: a hub for protein information
    • PubMed PMID: 25348405; PubMed Central PMCID: PMCPMC4384041
    • UniProt Consortium. UniProt: a hub for protein information. Nucleic Acids Res. 2015;43(Database issue):D204–D212. doi:10.1093/nar/gku989. PubMed PMID: 25348405; PubMed Central PMCID: PMCPMC4384041.
    • (2015) Nucleic Acids Res , vol.43 , Issue.Database issue , pp. D204-D212
  • 102
    • 27344435774 scopus 로고    scopus 로고
    • Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles
    • PubMed PMID: 16199517; PubMed Central PMCID: PMCPMC1239896
    • Subramanian A, Tamayo P, Mootha VK, et al. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci USA. 2005;102(43):15545–15550. doi:10.1073/pnas.0506580102. PubMed PMID: 16199517; PubMed Central PMCID: PMCPMC1239896.
    • (2005) Proc Natl Acad Sci USA , vol.102 , Issue.43 , pp. 15545-15550
    • Subramanian, A.1    Tamayo, P.2    Mootha, V.K.3
  • 103
    • 0038054341 scopus 로고    scopus 로고
    • PGC-1alpha-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes
    • PubMed PMID: 12808457
    • Mootha VK, Lindgren CM, Eriksson KF, et al. PGC-1alpha-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes. Nat Genet. 2003;34(3):267–273. doi:10.1038/ng1180. PubMed PMID: 12808457.
    • (2003) Nat Genet , vol.34 , Issue.3 , pp. 267-273
    • Mootha, V.K.1    Lindgren, C.M.2    Eriksson, K.F.3
  • 104
    • 85045787178 scopus 로고    scopus 로고
    • Broad Institute. Descriptions of all collections of gene sets in MSigDB 2016 [2017 May 10]. Available from: http://software.broadinstitute.org/cancer/software/gsea/wiki/index.php/MSigDB_collections-Outline_of_the_procedure
    • (2017) Descriptions of all collections of gene sets in MSigDB 2016
  • 105
    • 85045792760 scopus 로고    scopus 로고
    • Gene Ontology Consortium. GO file format guide 2017 [2017 May 10]. Available from: http://geneontology.org/page/file-format-guide
    • (2017) GO file format guide 2017
  • 106
    • 84921615639 scopus 로고    scopus 로고
    • PI(5)P regulates autophagosome biogenesis
    • PubMed PMID: 25578879; PubMed Central PMCID: PMCPMC4306530
    • Vicinanza M, Korolchuk VI, Ashkenazi A, et al. PI(5)P regulates autophagosome biogenesis. Mol Cell. 2015;57(2):219–234. doi:10.1016/j.molcel.2014.12.007. PubMed PMID: 25578879; PubMed Central PMCID: PMCPMC4306530.
    • (2015) Mol Cell , vol.57 , Issue.2 , pp. 219-234
    • Vicinanza, M.1    Korolchuk, V.I.2    Ashkenazi, A.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.