Guidelines for the use and interpretation of assays for monitoring autophagy

Klionsky, Daniel J., Abdalla, Fabio C., Abeliovich, Hagai, Abraham, Robert T., Acevedo-Arozena, Abraham, Adeli, Khosrow, Agholme, Lotta, Agnello, Maria +1262 more·2012·Autophagy

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  1. Cav-1 (Caveolin-1) Deficiency Increases Autophagy in the Endothelium and Attenuates Vascular Inflammation and Atherosclerosis
    Xinbo Zhang, Cristina M. Ramírez, Binod Aryal, Julio Madrigal‐Matute, Xinran Liu, Antonio Díaz, Marta Torrecilla-Parra, Yajaira Suárez, Ana María Cuervo, William C. Sessa et al. · 2020 · Arteriosclerosis Thrombosis and Vascular Biology
  2. Dendrogenin A drives LXR to trigger lethal autophagy in cancers
    Segala, Gregory, David, Marion, de Medina, Philippe, Poirot, Mathias C., Serhan, Nizar, Vergez, François, Mougel, Aurelie, Saland, Estelle, Carayon, Kevin, Leignadier, Julie et al. · 2017 · Nature Communications
  3. Mycobacterium tuberculosis Inhibits RAB7 Recruitment to Selectively Modulate Autophagy Flux in Macrophages
    Pallavi Chandra, Swapnil Ghanwat, Sumit Kumar Matta, Swati Seth Yadav, Mansi Mehta, Zaved Siddiqui, Amit Singh, Dhiraj Kumar · 2015 · Scientific Reports
  4. Mitophagy acts as a safeguard mechanism against human vascular smooth muscle cell apoptosis induced by atherogenic lipids
    Audrey Swiader, Hripsimé Nahapetyan, Julien Faccini, Romina D’Angelo, Elodie Mucher, Meyer Elbaz, Patricia Boya, Cécile Vindis · 2016 · Oncotarget
  5. Ubiquitination of UVRAG by SMURF1 promotes autophagosome maturation and inhibits hepatocellular carcinoma growth
    Xing Feng, Yanyan Jia, Yuyu Zhang et al. · 2019 · Autophagy
  6. Impaired Autophagy Contributes to Adverse Cardiac Remodeling in Acute Myocardial Infarction
    Xiaoqian Wu, Lishan He, Fajiang Chen, Xiaoen He, Yi Cai, Guiping Zhang, Yi Quan, Meixiang He, Jiandong Luo · 2014 · PLoS ONE
  7. Autophagy Benefits the Replication of Newcastle Disease Virus in Chicken Cells and Tissues
    Yingjie Sun, Shengqing Yu, Na Ding, Chunchun Meng, Songshu Meng, Shilei Zhang, Yuan Zhan, Xusheng Qiu, Lei Tan, Hongjun Chen et al. · 2013 · Journal of Virology
  8. Kill one bird with two stones: potential efficacy of BCR-ABL and autophagy inhibition in CML
    G. Vignir Helgason, Maria Karvela, Tessa L. Holyoake · 2011 · Blood
  9. mTOR hyperactivation in Down Syndrome underlies deficits in autophagy induction, autophagosome formation, and mitophagy
    Bordi, Matteo, Darji, Sandipkumar, Sato, Yutaka, Mellén, Marian, Berg, Martin J., Kumar, Asok, Jiang, Ying, Nixon, Ralph A. · 2019 · Cell Death & Disease
  10. Exosomes From Induced Pluripotent Stem Cell–Derived Cardiomyocytes Promote Autophagy for Myocardial Repair
    Michelle Rai Santoso, Gentaro Ikeda, Yuko Tada et al. · 2020 · Journal of the American Heart Association
  11. Francisella tularensis Harvests Nutrients Derived via ATG5-Independent Autophagy to Support Intracellular Growth
    Steele, Shaun, Brunton, Jason, Ziehr, Benjamin, Taft-Benz, Sharon, Moorman, Nathaniel, Kawula, Thomas · 2013 · PLoS Pathogens
  12. Skeletal Muscle-derived Myonectin Activates the Mammalian Target of Rapamycin (mTOR) Pathway to Suppress Autophagy in Liver
    Marcus Michael Seldin, Xia Lei, Stefanie Y. Tan, Kevin P. Stanson, Zhikui Wei, Guang William Wong · 2013 · Journal of Biological Chemistry
  13. Platycodin-D Induced Autophagy in Non-Small Cell Lung Cancer Cells via PI3K/Akt/mTOR and MAPK Signaling Pathways
    Ruolin Zhao, Meijuan Chen, Zequn Jiang, Fengming Zhao, Beili Xi, Xu Zhang, Haian Fu, Kun-fu Zhou · 2015 · Journal of Cancer
  14. Involvement of mitochondrial dynamics in the segregation of mitochondrial matrix proteins during stationary phase mitophagy
    Hagai Abeliovich, Mostafa Zarei, Kristoffer T. G. Rigbolt, Richard J. Youle, Jörn Dengjel · 2013 · Nature Communications
  15. Induction of oxiapoptophagy on 158N murine oligodendrocytes treated by 7-ketocholesterol-, 7β-hydroxycholesterol-, or 24(S)-hydroxycholesterol: Protective effects of α-tocopherol and docosahexaenoic acid (DHA; C22:6 n-3)
    Thomas Nury, Amira Zarrouk, John James Mackrill, Mohammad Hadi Samadi, Philippe Durand, Jean‐Marc Riedinger, Margaux Doria, Anne Véjux, Emeric Limagne, Dominique Delmas et al. · 2015 · Steroids
  16. Identification of secreted proteins that reflect autophagy dynamics within tumor cells
    Adam Kraya, Shengfu Piao, Xiaowei Xu, Gao Zhang, Meenhard Herlyn, Phyllis A. Gimotty, Beth Levine, Ravi K. Amaravadi, David W. Speicher · 2014 · Autophagy
  17. Tuning Cell Autophagy by Diversifying Carbon Nanotube Surface Chemistry
    Ling Wu, Yi Zhang, Chengke Zhang, Xuehui Cui, Shumei Zhai, Yin Liu, Changlong Li, Hao Zhu, Guangbo Qu, Guibin Jiang et al. · 2014 · ACS Nano
  18. Tunicamycin induced endoplasmic reticulum stress promotes apoptosis of prostate cancer cells by activating mTORC1
    Prasun Guha, Engin Kaptan, Padmaja Gade, Dhananjaya V. Kalvakolanu, Hafiz Ahmed · 2017 · Oncotarget
  19. HCV Induces the Expression of Rubicon and UVRAG to Temporally Regulate the Maturation of Autophagosomes and Viral Replication
    Linya Wang, Yongjun Tian, Jing‐hsiung James Ou · 2015 · PLoS Pathogens
  20. Neutrophil extracellular traps regulate IL-1β-mediated inflammation in familial Mediterranean fever
    Eirini Apostolidou, Panagiotis Skendros, Konstantinos Kambas, Ioannis Mitroulis, Theocharis G. Konstantinidis, Akrivi Chrysanthopoulou, Κωνσταντίνος Νάκος, Victoria Tsironidou, Maria D. Koffa, Dimitrios T. Boumpas et al. · 2014 · Annals of the Rheumatic Diseases
  21. Bergamot polyphenol fraction prevents nonalcoholic fatty liver disease via stimulation of lipophagy in cafeteria diet-induced rat model of metabolic syndrome
    Maddalena Parafati, Antonella Lascala, Valeria Maria Morittu, Francesca Trimboli, Antonia Rizzuto, Elvira Brunelli, Francesca Coscarelli, Nicola Costa, Domenico Britti, James Ehrlich et al. · 2015 · The Journal of Nutritional Biochemistry
  22. Trilayer Tunnel Selectors for Memristor Memory Cells
    Byung Joon Choi, Jiaming Zhang, Kate J. Norris, Gary A. Gibson, Kyung Min Kim, Warren B. Jackson, Min‐Xian Max Zhang, Zhiyong Li, J. Joshua Yang, Richard Stanley Williams · 2015 · Advanced Materials
  23. Flow Cytometry-Based Assessment of Mitophagy Using MitoTracker
    Bin Xiao, Xiao Deng, Wei Zhou, Eng-King Tan · 2016 · Frontiers in Cellular Neuroscience
  24. Schwann cell autophagy counteracts the onset and chronification of neuropathic pain
    Marinelli, Sara, Nazio, Francesca, Tinari, Antonella, Ciarlo, Laura, D'Amelio, Marcello, Pieroni, Luisa, Vacca, Valentina, Urbani, Andrea, Cecconi, Francesco, Malorni, Walter et al. · 2014 · Pain
  25. The protein Compromised Hydrolysis of Triacylglycerols 7 (CHT7) acts as a repressor of cellular quiescence in Chlamydomonas
    Chia‐Hong Tsai, Jaruswan Warakanont, Tomomi Takeuchi, Barbara B. Sears, Eric R. Moellering, Christoph Benning · 2014 · Proceedings of the National Academy of Sciences
  26. Calcium-permeable ion channels in control of autophagy and cancer
    Artem Kondratskyi · 2013 · Frontiers in Physiology
  27. The role of autophagy in doxorubicin-induced cardiotoxicity
    Amie Jeanette Dirks‐Naylor · 2013 · Life Sciences
  28. ATM mediates spermidine-induced mitophagy via PINK1 and Parkin regulation in human fibroblasts
    Yongmei Qi, Qian Qiu, Xueyan Gu, Yihong Tian, Yingmei Zhang · 2016 · Scientific Reports
  29. Photodynamic N-TiO2 Nanoparticle Treatment Induces Controlled ROS-mediated Autophagy and Terminal Differentiation of Leukemia Cells
    Mohammad Amin Moosavi, Maryam Sharifi, Soroush Moasses Ghafary, Zahra Mohammadalipour, Alireza Khataee, Marveh Rahmati, Sadaf Hajjaran, Marek Łoś, Thomas C. Klonisch, Saeid Ghavami · 2016 · Scientific Reports
  30. The unfolded protein response as a target for anticancer therapeutics
    Mengxiong Wang, Mary E. Law, Ronald K. Castellano, Brian Keith Law · 2018 · Critical Reviews in Oncology/Hematology
  31. Berberine suppresses influenza virus‐triggered NLRP3 inflammasome activation in macrophages by inducing mitophagy and decreasing mitochondrial ROS
    Hui Liu, Lei-Ming You, Jun Wu, Mengfan Zhao, Rui Guo, Haili Zhang, Rina Su, Qin Mao, Di Deng, Yu Hao · 2020 · Journal of Leukocyte Biology
  32. BAX inhibitor‐1 regulates autophagy by controlling the IRE1α branch of the unfolded protein response
    Karen Castillo, Diego Rojas‐Rivera, Fernanda Lisbona, Benjamín Caballero, Melissa Nassif, Felipe A. Court, Sebastian Schuck, Consuelo Ibar, Peter Walter, Jimena A. Sierralta et al. · 2011 · The EMBO Journal
  33. Cardiomyocyte apoptosis in the failing heart — A critical review from definition and classification of cell death
    Genzou Takemura, Motoo Kanoh, Shinya Minatoguchi, Hisayoshi Fujiwara · 2013 · International Journal of Cardiology
  34. Intestinal Epithelium and Autophagy: Partners in Gut Homeostasis
    Sarron Randall‐Demllo, Marcello Chieppa, Rajaraman D. Eri · 2013 · Frontiers in Immunology
  35. The Essential Autophagy Gene ATG7 Modulates Organ Fibrosis via Regulation of Endothelial-to-Mesenchymal Transition
    Krishna Kumar Singh, Fina Lovren, Yi Pan, Adrian Quan, Azza Ramadan, Pratiek N. Matkar, Mehroz Ehsan, Paul Sandhu, Laura E. Mantella, Nandini Gupta et al. · 2014 · Journal of Biological Chemistry
  36. TMEM59 defines a novel ATG16L1‐binding motif that promotes local activation of LC3
    Emilio Boada-Romero, Michal Letek, Aarne Fleischer, Kathrin Pallauf, Cristina Ramón-Barros, Felipe X. Pimentel‐Muiños · 2013 · The EMBO Journal
  37. Salidroside induces apoptosis and autophagy in human colorectal cancer cells through inhibition of PI3K/Akt/mTOR pathway
    Xiangjun Fan, Yao Wang, Lei Wang, Mingyan Zhu · 2016 · Oncology Reports
  38. SLC2A8 (GLUT8) is a mammalian trehalose transporter required for trehalose-induced autophagy
    Allyson L. Mayer, Cassandra B. Higgins, Monique R. Heitmeier, Thomas E. Kraft, Xia Qian, Jan R. Crowley, Krzysztof L. Hyrc, Wandy L. Beatty, Kevin E. Yarasheski, Paul W. Hruz et al. · 2016 · Scientific Reports
  39. Dysregulated autophagy increased melanocyte sensitivity to H2O2-induced oxidative stress in vitiligo
    Yuanmin He, Shuli Li, Weigang Zhang, Wei Dai, Tingting Cui, Gang Wang, Tianwen Gao, Chunying Li · 2017 · Scientific Reports
  40. Toxicity Effects of Functionalized Quantum Dots, Gold and Polystyrene Nanoparticles on Target Aquatic Biological Models: A Review
    Giovanni Libralato, Emilia Galdiero, Annarita Falanga, Rosa Carotenuto, Elisabetta de Alteriis, Marco Guida · 2017 · Molecules
  41. Physical Exercise: A Novel Tool to Protect Mitochondrial Health
    Sorriento, Daniela, Di Vaia, Eugenio, Iaccarino, Guido · 2021 · Frontiers in Physiology
  42. Myostatin Gene Inactivation Prevents Skeletal Muscle Wasting in Cancer
    Yann Simon Gallot, Anne‐Cécile Durieux, Josiane Castells, Marine Maud Desgeorges, Barbara Vernus, Léa Plantureux, Didier Rémond, Vanessa E. Jahnke, Étienne Lefai, Dominique P. Dardevet et al. · 2014 · Cancer Research
  43. Autophagy inhibits oxidative stress and tumor suppressors to exert its dual effect on hepatocarcinogenesis
    Y Tian, C-f Kuo, Donna Sir, L Wang, Sugantha Govindarajan, Lidija M. Petrovic, J-H J Ou · 2014 · Cell Death and Differentiation
  44. Suppression of MAPK/JNK-MTORC1 signaling leads to premature loss of organelles and nuclei by autophagy during terminal differentiation of lens fiber cells
    Subhasree Basu, Suren Rajakaruna, Beverly A.S. Reyes, Elisabeth Van Bockstaele, A. Sue Menko · 2014 · Autophagy
  45. Methods for the Detection of Autophagy in Mammalian Cells
    Ziyan Zhang, Rajat Singh, Michael Aschner · 2016 · Current Protocols in Toxicology
  46. Voluntary resistance wheel exercise from mid-life prevents sarcopenia and increases markers of mitochondrial function and autophagy in muscles of old male and female C57BL/6J mice
    Zoe Rene White, Jessica R. Terrill, Robert B. White, Christopher McMahon, Phillip Sheard, Miranda D. Grounds, Tea Shavlakadze · 2016 · Skeletal Muscle
  47. Cancer cachexia associates with a systemic autophagy-inducing activity mimicked by cancer cell-derived IL-6 trans-signaling
    Kristine Pettersen, Sonja Benedikte Andersen, Simone Degen, Valentina Tadini, Joël Grosjean, Shinji Hatakeyama, Almaz Nigatu Tesfahun, Siver Andreas Moestue, Jana Kim, Unni Nonstad et al. · 2017 · Scientific Reports
  48. Luteolin inhibits autophagy in allergic asthma by activating PI3K/Akt/mTOR signaling and inhibiting Beclin-1-PI3KC3 complex
    Shiyuan Wang, Tulake Wuniqiemu, Wei‐Feng Tang, Fangzhou Teng, Qin Bian, La Yi, Jingjing Qin, Xueyi Zhu, Ying Wei, Jingcheng Dong · 2021 · International Immunopharmacology
  49. Raf/MEK/ERK can regulate cellular levels of LC3B and SQSTM1/p62 at expression levels
    Jin Hwan Kim, Seung‐Keun Hong, Pui–Kei Wu, Alexsia L. Richards, William T. Jackson, Jong‐In Park · 2014 · Experimental Cell Research
  50. A conserved mechanism of TOR-dependent RCK-mediated mRNA degradation regulates autophagy
    Hu, Guowu, McQuiston, Travis, Bernard, Amélie, Park, Yoon-Dong, Qiu, Jin, Vural, Ali, Zhang, Nannan, Waterman, Scott R., Blewett, Nathan H., Myers, Timothy G. et al. · 2015 · Nature Cell Biology
  51. Defective regulation of adipose tissue autophagy in obesity
    Carla Evelyn Coimbra Nuñez, Viviane Soares Rodrigues, F.S. Gomes, Rodrigo Ferreira de Moura, Sheila Cristina da Silva Victorio, Bruna Bombassaro, Élinton Adami Chaim, José Carlos Pareja, Bruno Geloneze, Licio Augusto Velloso et al. · 2013 · International Journal of Obesity
  52. Dual inhibition of REV-ERBβ and autophagy as a novel pharmacological approach to induce cytotoxicity in cancer cells
    Claudia De Mei, Luisa Ercolani, Chiara Parodi, Marina Veronesi, C Lo Vecchio, Giovanni Bottegoni, Esther Torrente, Rita Scarpelli, Roberto Marotta, R Ruffili et al. · 2014 · Oncogene
  53. The anti-malarial chloroquine overcomes Primary resistance and restores sensitivity to Trastuzumab in HER2-positive breast cancer
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  54. How and why to study autophagy in Drosophila: It’s more than just a garbage chute
    Péter Nagy, Ágnes Varga, Attila L. Kovács, Szabolcs Takáts, Gábor Juhász · 2014 · Methods
  55. Novel Phosphoinositide 3-Kinase/mTOR Dual Inhibitor, NVP-BGT226, Displays Potent Growth-Inhibitory Activity against Human Head and Neck Cancer Cells In Vitro and In Vivo
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  56. Bafilomycin A1 induces caspase-independent cell death in hepatocellular carcinoma cells via targeting of autophagy and MAPK pathways
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  57. HY5-HDA9 Module Transcriptionally Regulates Plant Autophagy in Response to Light-to-Dark Conversion and Nitrogen Starvation
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  58. Chloroquine and bafilomycin A mimic lysosomal storage disorders and impair mTORC1 signalling
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  59. Insulin receptor substrate signaling suppresses neonatal autophagy in the heart
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  61. Porphyromonas gingivalis Evasion of Autophagy and Intracellular Killing by Human Myeloid Dendritic Cells Involves DC-SIGN-TLR2 Crosstalk
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  62. mTOR-Controlled Autophagy Requires Intracellular Ca2+ Signaling
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  63. Autophagy in the Human Placenta throughout Gestation
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  64. Inhibition of autophagosome-lysosome fusion by ginsenoside Ro via the ESR2-NCF1-ROS pathway sensitizes esophageal cancer cells to 5-fluorouracil-induced cell death via the CHEK1-mediated DNA damage checkpoint
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  65. Activation of autophagy by FOXO3 regulates redox homeostasis during osteogenic differentiation
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  66. Prognostic value of autophagy related proteins ULK1, Beclin 1, ATG3, ATG5, ATG7, ATG9, ATG10, ATG12, LC3B and p62/SQSTM1 in gastric cancer.
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  67. Autophagy induced by DAMPs facilitates the inflammation response in lungs undergoing ischemia-reperfusion injury through promoting TRAF6 ubiquitination
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  68. Oridonin induces autophagy via inhibition of glucose metabolism in p53-mutated colorectal cancer cells
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  69. The peroxisomal AAA ATPase complex prevents pexophagy and development of peroxisome biogenesis disorders
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  70. MicroRNA 17-5p regulates autophagy inMycobacterium tuberculosis-infected macrophages by targeting Mcl-1 and STAT3
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  72. A Role for Autophagic Protein Beclin 1 Early in Lymphocyte Development
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  73. Starvation Induces Proteasome Autophagy with Different Pathways for Core and Regulatory Particles
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  74. Autophagy regulates hepatocyte identity and epithelial-to-mesenchymal and mesenchymal-to-epithelial transitions promoting Snail degradation
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  78. Autophagy and cell growth – the yin and yang of nutrient responses
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  82. Mechanical Unloading Activates FoxO3 to Trigger Bnip3‐Dependent Cardiomyocyte Atrophy
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  83. N-Acetyl-Serotonin Offers Neuroprotection through Inhibiting Mitochondrial Death Pathways and Autophagic Activation in Experimental Models of Ischemic Injury
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  84. BECN1 is involved in the initiation of mitophagy
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  85. Screening in Planarians Identifies MORN2 as a Key Component in LC3-Associated Phagocytosis and Resistance to Bacterial Infection
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  86. Japanese encephalitis virus replication is negatively regulated by autophagy and occurs on LC3-I- and EDEM1-containing membranes
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  87. Role of farnesoid X receptor and bile acids in alcoholic liver disease
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  89. Mycobacterium tuberculosis EIS gene inhibits macrophage autophagy through up-regulation of IL-10 by increasing the acetylation of histone H3
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  90. Autophagy inhibition of hsa-miR-19a-3p/19b-3p by targeting TGF-β R II during TGF-β1-induced fibrogenesis in human cardiac fibroblasts
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  92. Capsaicin Induces Autophagy and Apoptosis in Human Nasopharyngeal Carcinoma Cells by Downregulating the PI3K/AKT/mTOR Pathway
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  93. Sam50 Regulates PINK1-Parkin-Mediated Mitophagy by Controlling PINK1 Stability and Mitochondrial Morphology
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  94. Targeting Autophagy to Overcome Human Diseases
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  97. Divanillyl sulfone suppresses NLRP3 inflammasome activation via inducing mitophagy to ameliorate chronic neuropathic pain in mice
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  98. Targeting autophagy in cancer management – strategies and developments
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  99. Induction of autophagy counteracts the anticancer effect of cisplatin in human esophageal cancer cells with acquired drug resistance
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  100. RETRACTED: Redox regulation of mitophagy in the lung during murine Staphylococcus aureus sepsis
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