CARD Publications

Publications 2022

Chroma K et al. A drug repurposing strategy for overcoming human multiple myeloma resistance to standard-of-care treatment. Cell Death Dis. 2022;13: 203. DOI:10.1038/s41419-022-04651-w

Degn K et al. Cancer-related Mutations with Local or Long-range Effects on an Allosteric Loop of p53. J Mol Biol. 2022;434: 167663. DOI:10.1016/j.jmb.2022.167663

Faienza F et al. Nitric oxide-based regulation of metabolism: Hints from TRAP1 and SIRT3 crosstalk. Front Mol Biosci. 2022;9: 942729. DOI:10.3389/fmolb.2022.942729

Fogde DL et al. Ursolic Acid Impairs Cellular Lipid Homeostasis and Lysosomal Membrane Integrity in Breast Carcinoma Cells. Cells. 2022;11. DOI:10.3390/cells11244079

Gómez-Cabello D et al. CtIP-dependent nascent RNA expression flanking DNA breaks guides the choice of DNA repair pathway. Nat Commun. 2022;13: 5303. DOI:10.1038/s41467-022-33027-z

Larsen BD et al. Cancer cells use self-inflicted DNA breaks to evade growth limits imposed by genotoxic stress. Science. 2022;376: 476-483. DOI:10.1126/science.abi6378

Lima TS et al. Itraconazole Reverts ABCB1-Mediated Docetaxel Resistance in Prostate Cancer. Front Pharmacol. 2022;13: 869461. DOI:10.3389/fphar.2022.869461

Lindström MS et al. p53 at the crossroad of DNA replication and ribosome biogenesis stress pathways. Cell Death Differ. 2022;29: 972-982. DOI:10.1038/s41418-022-00999-w

Maynard S et al. Lamin A/C impairments cause mitochondrial dysfunction by attenuating PGC1α and the NAMPT-NAD+ pathway. Nucleic Acids Res. 2022;50: 9948-9965. DOI:10.1093/nar/gkac741

Merchut-Maya JM et al. Human cytomegalovirus hijacks host stress response fueling replication stress and genome instability. Cell Death Differ. 2022;29: 1639-1653. DOI:10.1038/s41418-022-00953-w

Nazerai L et al. Thiopurine 6TG treatment increases tumor immunogenicity and response to immune checkpoint blockade. Oncoimmunology. 2023;12: 2158610. DOI:10.1080/2162402x.2022.2158610

Pagliuca C et al. New Insights into the Phenotype Switching of Melanoma. Cancers (Basel). 2022;14. DOI:10.3390/cancers14246118

Radulovic M et al. Cholesterol transfer via endoplasmic reticulum contacts mediates lysosome damage repair. Embo j. 2022;41: e112677. DOI:10.15252/embj.2022112677

Rolver MG et al. Chronic acidosis rewires cancer cell metabolism through PPARα signaling. Int J Cancer. 2022. DOI:10.1002/ijc.34404

Saez-Jimenez V et al. Directed Evolution of (R)-2-Hydroxyglutarate Dehydrogenase Improves 2-Oxoadipate Reduction by 2 Orders of Magnitude. ACS Synth Biol. 2022;11: 2779-2790. DOI:10.1021/acssynbio.2c00162

Scrima S et al. Unraveling membrane properties at the organelle-level with LipidDyn. Comput Struct Biotechnol J. 2022;20: 3604-3614. DOI:10.1016/j.csbj.2022.06.054

Sokoya T et al. Pathogenic variants of sphingomyelin synthase SMS2 disrupt lipid landscapes in the secretory pathway. Elife. 2022;11. DOI:10.7554/eLife.79278

Sora V et al. RosettaDDGPrediction for high-throughput mutational scans: from stability to binding. Protein Sci. 2022: e4527. DOI:10.1002/pro.4527

Sora V et al. Structural Details of BH3 Motifs and BH3-Mediated Interactions: an Updated Perspective. Front Mol Biosci. 2022;9: 864874. DOI:10.3389/fmolb.2022.864874

Stahl-Meyer J et al. Lysosomal Changes in Mitosis. Cells. 2022;11. DOI:10.3390/cells11050875

Stahl-Meyer K et al. Galactosyl- and glucosylsphingosine induce lysosomal membrane permeabilization and cell death in cancer cells. PLoS One. 2022;17: e0277058. DOI:10.1371/journal.pone.0277058

Tiberti M et al. The Cancermuts software package for the prioritization of missense cancer variants: a case study of AMBRA1 in melanoma. Cell Death Dis. 2022;13: 872. DOI:10.1038/s41419-022-05318-2

Tiberti M et al. MutateX: an automated pipeline for in silico saturation mutagenesis of protein structures and structural ensembles. Brief Bioinform. 2022;23. DOI:10.1093/bib/bbac074

Vit G et al. Chemogenetic profiling reveals PP2A-independent cytotoxicity of proposed PP2A activators iHAP1 and DT-061. Embo j. 2022;41: e110611. DOI:10.15252/embj.2022110611

Publications 2021

Buchtova T et al. Cannabidiol-induced activation of the metallothionein pathway impedes anticancer effects of disulfiram and its metabolite CuET. Mol Oncol. 2021. DOI:10.1002/1878-0261.13114

Carinci M et al. TFG binds LC3C to regulate ULK1 localization and autophagosome formation. Embo j. 2021;40: e103563. DOI:10.15252/embj.2019103563

Di Leo L et al. Loss of Ambra1 promotes melanoma growth and invasion. Nat Commun. 2021;12: 2550. DOI:10.1038/s41467-021-22772-2

Dias C et al. Plasma membrane integrity in health and disease: significance and therapeutic potential. Cell Discov. 2021;7: 4. DOI:10.1038/s41421-020-00233-2

Ellegaard AM et al. Targeting Cancer Lysosomes with Good Old Cationic Amphiphilic Drugs. Rev Physiol Biochem Pharmacol. 2021. DOI:10.1007/112_2020_56

Esperante SA et al. Disease-associated mutations impacting BC-loop flexibility trigger long-range transthyretin tetramer destabilization and aggregation. J Biol Chem. 2021;297: 101039. DOI:10.1016/j.jbc.2021.101039

Finetti F et al. The Intraflagellar Transport Protein IFT20 Recruits ATG16L1 to Early Endosomes to Promote Autophagosome Formation in T Cells. Front Cell Dev Biol. 2021;9: 634003. DOI:10.3389/fcell.2021.634003

Häger SC et al. Short-term transcriptomic response to plasma membrane injury. Sci Rep. 2021;11: 19141. DOI:10.1038/s41598-021-98420-y

Hämälistö S et al. They Might Cut It-Lysosomes and Autophagy in Mitotic Progression. Front Cell Dev Biol. 2021;9: 727538. DOI:10.3389/fcell.2021.727538

Hansen MB et al. Identification of lysosome-targeting drugs with anti-inflammatory activity as potential invasion inhibitors of treatment resistant HER2 positive cancers. Cell Oncol (Dordr). 2021;44: 805-820. DOI:10.1007/s13402-021-00603-2

Klionsky DJ et al. Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition)(1). Autophagy. 2021;17: 1-382. DOI:10.1080/15548627.2020.1797280

Klionsky DJ et al. Autophagy in major human diseases. Embo j. 2021;40: e108863. DOI:10.15252/embj.2021108863

Kosar M et al. The human nucleoporin Tpr protects cells from RNA-mediated replication stress. Nat Commun. 2021;12: 3937. DOI:10.1038/s41467-021-24224-3

Kudlova N et al. An efficient, non-invasive approach for in-vivo sampling of hair follicles: design and applications in monitoring DNA damage and aging. Aging (Albany NY). 2021;13. DOI:10.18632/aging.203744

Lambrughi M et al. Ubiquitin Interacting Motifs: Duality Between Structured and Disordered Motifs. Front Mol Biosci. 2021;8: 676235. DOI:10.3389/fmolb.2021.676235

Maertens JM et al. Molecular-dynamics-simulation-guided membrane engineering allows the increase of membrane fatty acid chain length in Saccharomyces cerevisiae. Sci Rep. 2021;11: 17333. DOI:10.1038/s41598-021-96757-y

Maiani E et al. The pro-autophagic protein AMBRA1 coordinates cell cycle progression by regulating CCND (cyclin D) stability. Autophagy. 2021: 1-3. DOI:10.1080/15548627.2021.1985917

Maiani E et al. AMBRA1 regulates cyclin D to guard S-phase entry and genomic integrity. Nature. 2021;592: 799-803. DOI:10.1038/s41586-021-03422-5

Manuelli V et al. Regulation of redox signaling in HIF-1-dependent tumor angiogenesis. Febs j. 2021. DOI:10.1111/febs.16110

Merchut-Maya JM et al. The Contribution of Lysosomes to DNA Replication. Cells. 2021;10. DOI:10.3390/cells10051068

Mistrik M et al. Microthermal-induced subcellular-targeted protein damage in cells on plasmonic nanosilver-modified surfaces evokes a two-phase HSP-p97/VCP response. Nat Commun. 2021;12: 713. DOI:10.1038/s41467-021-20989-9

Nazio F et al. Targeting cancer stem cells in medulloblastoma by inhibiting AMBRA1 dual function in autophagy and STAT3 signalling. Acta Neuropathol. 2021;142: 537-564. DOI:10.1007/s00401-021-02347-7

Sakellariou D et al. eIF4A3 regulates the TFEB-mediated transcriptional response via GSK3B to control autophagy. Cell Death Differ. 2021;28: 3344-3356. DOI:10.1038/s41418-021-00822-y

Sønder SL et al. Restructuring of the plasma membrane upon damage by LC3-associated macropinocytosis. Sci Adv. 2021;7. DOI:10.1126/sciadv.abg1969

Stahl-Meyer J et al. Control of mitosis, inflammation, and cell motility by limited leakage of lysosomes. Curr Opin Cell Biol. 2021;71: 29-37. DOI:10.1016/j.ceb.2021.02.003

Zheng T et al. Systematical analysis reveals a strong cancer relevance of CREB1-regulated genes. Cancer Cell Int. 2021;21: 530. DOI:10.1186/s12935-021-02224-z

Publications 2020

Bartek J, Jr. et al. Cancer cell stemness, responses to experimental genotoxic treatments, cytomegalovirus protein expression and DNA replication stress in pediatric medulloblastomas. Cell Cycle. 2020;19: 727-741. DOI:10.1080/15384101.2020.1728025

Bendix PM et al. Interdisciplinary Synergy to Reveal Mechanisms of Annexin-Mediated Plasma Membrane Shaping and Repair. Cells. 2020;9. DOI:10.3390/cells9041029

Björkman A et al. Human RTEL1 associates with Poldip3 to facilitate responses to replication stress and R-loop resolution. Genes Dev. 2020;34: 1065-1074. DOI:10.1101/gad.330050.119

Brix DM et al. Zinc Finger Transcription Factor MZF1-A Specific Regulator of Cancer Invasion. Cells. 2020;9. DOI:10.3390/cells9010223

Bursać S et al. Dysregulated Ribosome Biogenesis Reveals Therapeutic Liabilities in Cancer. Trends Cancer. 2020. DOI:10.1016/j.trecan.2020.08.003

Cecconi F. Autophagy, replication stress and DNA synthesis, an intricate relationship. Cell Death Differ. 2020;27: 829-830. DOI:10.1038/s41418-019-0479-2

Chen R et al. Lysosome as a Central Hub for Rewiring PH Homeostasis in Tumors. Cancers (Basel). 2020;12. DOI:10.3390/cancers12092437

Cianfanelli V et al. Doryphagy: when selective autophagy safeguards centrosome integrity. Mol Cell Oncol. 2020;7: 1719021. DOI:10.1080/23723556.2020.1719021

Cirotti C et al. Redox activation of ATM enhances GSNOR translation to sustain mitophagy and tolerance to oxidative stress. EMBO Rep. 2020: e50500. DOI:10.15252/embr.202050500

Colaprico A et al. Interpreting pathways to discover cancer driver genes with Moonlight. Nat Commun. 2020;11: 69. DOI:10.1038/s41467-019-13803-0

Di Leo L et al. The Complex Role of Autophagy in Melanoma Evolution: New Perspectives From Mouse Models. Front Oncol. 2020;9: 1506. DOI:10.3389/fonc.2019.01506

Ellegaard AM et al. Detection of Lysosomal Membrane Permeabilization, 2020:177-198.

Faienza F et al. S-nitrosylation affects TRAP1 structure and ATPase activity and modulates cell response to apoptotic stimuli. Biochem Pharmacol. 2020;176: 113869. DOI:10.1016/j.bcp.2020.113869

Faienza F et al. TRAP1: A Metabolic Hub Linking Aging Pathophysiology to Mitochondrial S-Nitrosylation. Front Physiol. 2020;11: 340. DOI:10.3389/fphys.2020.00340

Fas BA et al. The conformational and mutational landscape of the ubiquitin-like marker for autophagosome formation in cancer. Autophagy. 2020: 1-24. DOI:10.1080/15548627.2020.1847443

Hämälistö S et al. Spatially and temporally defined lysosomal leakage facilitates mitotic chromosome segregation. Nat Commun. 2020;11: 229. DOI:10.1038/s41467-019-14009-0

Hatos A et al. DisProt: intrinsic protein disorder annotation in 2020. Nucleic Acids Res. 2020;48: D269-d276. DOI:10.1093/nar/gkz975

Holdgaard SG et al. Cloud hunting: doryphagy, a form of selective autophagy that degrades centriolar satellites. Autophagy. 2020;16: 379-381. DOI:10.1080/15548627.2019.1703356

Holland LKK et al. SnapShot: Lysosomal Functions. Cell. 2020;181: 748-748.e741. DOI:10.1016/j.cell.2020.03.043

Kallunki T. Seeking and Exploring Efficient Ways to Target Cancer. Cells. 2020;9. DOI:10.3390/cells9092117

Kumar M et al. A pan-cancer assessment of alterations of the kinase domain of ULK1, an upstream regulator of autophagy. Sci Rep. 2020;10: 14874. DOI:10.1038/s41598-020-71527-4

Lambrughi M et al. Conformational gating in ammonia lyases. Biochim Biophys Acta Gen Subj. 2020;1864: 129605. DOI:10.1016/j.bbagen.2020.129605

Lambrughi M et al. The PyInteraph Workflow for the Study of Interaction Networks From Protein Structural Ensembles. Methods Mol Biol. 2021;2253: 153-174. DOI:10.1007/978-1-0716-1154-8_10

Maier AD et al. Expression of the stem cell marker CD133 in malignant meningioma. Clin Neuropathol. 2020. DOI:10.5414/np301327

Majera D et al. Targeting the NPL4 Adaptor of p97/VCP Segregase by Disulfiram as an Emerging Cancer Vulnerability Evokes Replication Stress and DNA Damage while Silencing the ATR Pathway. Cells. 2020;9. DOI:10.3390/cells9020469

Mandatori S et al. Altered Tregs Differentiation and Impaired Autophagy Correlate to Atherosclerotic Disease. Front Immunol. 2020;11: 350. DOI:10.3389/fimmu.2020.00350

Maya-Mendoza A et al. Super-sonic speed of DNA synthesis in medulloblastoma. Nature Cancer. 2020;1: 758-760. DOI:10.1038/s43018-020-0105-8

Müller I et al. Cancer Cells Employ Nuclear Caspase-8 to Overcome the p53-Dependent G2/M Checkpoint through Cleavage of USP28. Mol Cell. 2020;77: 970-984.e977. DOI:10.1016/j.molcel.2019.12.023

Nielsen IØ et al. Cationic amphiphilic drugs induce elevation in lysoglycerophospholipid levels and cell death in leukemia cells. Metabolomics. 2020;16: 91. DOI:10.1007/s11306-020-01710-1

Nielsen IØ et al. Comprehensive Evaluation of a Quantitative Shotgun Lipidomics Platform for Mammalian Sample Analysis on a High-Resolution Mass Spectrometer. J Am Soc Mass Spectrom. 2020;31: 894-907. DOI:10.1021/jasms.9b00136

Obara EAA et al. SPT6-driven error-free DNA repair safeguards genomic stability of glioblastoma cancer stem-like cells. Nat Commun. 2020;11: 4709. DOI:10.1038/s41467-020-18549-8

Oršolić I et al. Cancer-associated mutations in the ribosomal protein L5 gene dysregulate the HDM2/p53-mediated ribosome biogenesis checkpoint. Oncogene. 2020;39: 3443-3457. DOI:10.1038/s41388-020-1231-6

Puustinen P et al. DNA-dependent protein kinase regulates lysosomal AMP-dependent protein kinase activation and autophagy. Autophagy. 2020;16: 1871-1888. DOI:10.1080/15548627.2019.1710430

Rizza S et al. Mitophagy contributes to alpha-tocopheryl succinate toxicity in GSNOR-deficient hepatocellular carcinoma. Biochem Pharmacol. 2020;176: 113885. DOI:10.1016/j.bcp.2020.113885

Rizza S et al. Exploiting S-nitrosylation for cancer therapy: facts and perspectives. Biochem J. 2020;477: 3649-3672. DOI:10.1042/bcj20200064

Saez-Jimenez V et al. Structure-function investigation of 3-methylaspartate ammonia lyase reveals substrate molecular determinants for the deamination reaction. PLoS One. 2020;15: e0233467. DOI:10.1371/journal.pone.0233467

Simonsen AC et al. Annexins Bend Wound Edges during Plasma Membrane Repair. Curr Med Chem. 2020;27: 3600-3610. DOI:10.2174/0929867326666190121121143

Sora V et al. Structure and Dynamics in the ATG8 Family From Experimental to Computational Techniques. Front Cell Dev Biol. 2020;8: 420. DOI:10.3389/fcell.2020.00420

Stragliotto G et al. Valganciclovir as Add-on to Standard Therapy in Glioblastoma Patients. Clin Cancer Res. 2020;26: 4031-4039. DOI:10.1158/1078-0432.Ccr-20-0369

Strappazzon F et al. HUWE1 controls MCL1 stability to unleash AMBRA1-induced mitophagy. Cell Death Differ. 2020;27: 1155-1168. DOI:10.1038/s41418-019-0404-8

Terkelsen T et al. CAncer bioMarker Prediction Pipeline (CAMPP)-A standardized framework for the analysis of quantitative biological data. PLoS Comput Biol. 2020;16: e1007665. DOI:10.1371/journal.pcbi.1007665

Terkelsen T et al. High throughput proteomics of breast cancer interstitial fluid: identification of tumor subtype-specific serologically relevant biomarkers. Mol Oncol. 2020;15: 429-461. DOI:10.1002/1878-0261.12850

Terkelsen T et al. Secreted breast tumor interstitial fluid microRNAs and their target genes are associated with triple-negative breast cancer, tumor grade, and immune infiltration. Breast Cancer Res. 2020;22: 73. DOI:10.1186/s13058-020-01295-6

van der Horst G et al. Cationic amphiphilic drugs as potential anti-cancer therapy for bladder cancer. Mol Oncol. 2020. DOI:10.1002/1878-0261.12793

Vanzo R et al. Autophagy role(s) in response to oncogenes and DNA replication stress. Cell Death Differ. 2020;27: 1134-1153. DOI:10.1038/s41418-019-0403-9

Verdoodt F et al. Antihistamines and Ovarian Cancer Survival: Nationwide Cohort Study and in Vitro Cell Viability Assay. J Natl Cancer Inst. 2020;112: 964-967. DOI:10.1093/jnci/djz217

Yao J et al. Cancer Cell Acid Adaptation Gene Expression Response Is Correlated to Tumor-Specific Tissue Expression Profiles and Patient Survival. Cancers (Basel). 2020;12. DOI:10.3390/cancers12082183

Zheng T et al. pH gradient reversal fuels cancer progression. Int J Biochem Cell Biol. 2020;125: 105796. DOI:10.1016/j.biocel.2020.105796

Publications 2019

Anand A et al. Cell Death Induced by Cationic Amphiphilic Drugs Depends on Lysosomal Ca(2+) Release and Cyclic AMP. Mol Cancer Ther. 2019;18: 1602-1614. http://dx.doi.org/10.1158/1535-7163.Mct-18-1406

Balogi Z et al. Hsp70 interactions with membrane lipids regulate cellular functions in health and disease. Prog Lipid Res. 2019;74: 18-30. http://dx.doi.org/10.1016/j.plipres.2019.01.004

Bignon E et al. Use of Computational Biochemistry for Elucidating Molecular Mechanisms of Nitric Oxide Synthase. Comput Struct Biotechnol J. 2019;17: 415-429. http://dx.doi.org/10.1016/j.csbj.2019.03.011

Brix DM et al. Release of transcriptional repression via ErbB2-induced, SUMO-directed phosphorylation of myeloid zinc finger-1 serine 27 activates lysosome redistribution and invasion. Oncogene. 2019;38: 3170-3184. http://dx.doi.org/10.1038/s41388-018-0653-x

D'Acunzo P et al. Reversible induction of mitophagy by an optogenetic bimodular system. Nat Commun. 2019;10: 1533. http://dx.doi.org/10.1038/s41467-019-09487-1

Davey NE et al. An intrinsically disordered proteins community for ELIXIR. F1000Res. 2019;8. http://dx.doi.org/10.12688/f1000research.20136.1

Hall A et al. Perturbation of mitochondrial bioenergetics by polycations counteracts resistance to BRAF(E600) inhibition in melanoma cells. J Control Release. 2019;309: 158-172. http://dx.doi.org/10.1016/j.jconrel.2019.07.032

Hoejholt KL et al. Calcium electroporation and electrochemotherapy for cancer treatment: Importance of cell membrane composition investigated by lipidomics, calorimetry and in vitro efficacy. Sci Rep. 2019;9: 4758. http://dx.doi.org/10.1038/s41598-019-41188-z

Holdgaard SG et al. Selective autophagy maintains centrosome integrity and accurate mitosis by turnover of centriolar satellites. Nat Commun. 2019;10: 4176. http://dx.doi.org/10.1038/s41467-019-12094-9

Hubackova S et al. Interferon-regulated suprabasin is essential for stress-induced stem-like cell conversion and therapy resistance of human malignancies. Mol Oncol. 2019;13: 1467-1489. http://dx.doi.org/10.1002/1878-0261.12480

Kallunki T et al. How to Choose the Right Inducible Gene Expression System for Mammalian Studies? Cells. 2019;8. http://dx.doi.org/10.3390/cells8080796

Koerver L et al. The ubiquitin-conjugating enzyme UBE2QL1 coordinates lysophagy in response to endolysosomal damage. EMBO Rep. 2019;20: e48014. http://dx.doi.org/10.15252/embr.201948014

Kønig SM et al. Alterations of the interactome of Bcl-2 proteins in breast cancer at the transcriptional, mutational and structural level. PLoS Comput Biol. 2019;15: e1007485. http://dx.doi.org/10.1371/journal.pcbi.1007485

Korsholm LM et al. Double-strand breaks in ribosomal RNA genes activate a distinct signaling and chromatin response to facilitate nucleolar restructuring and repair. Nucleic Acids Res. 2019;47: 8019-8035. http://dx.doi.org/10.1093/nar/gkz518

Lambrughi M et al. Analyzing Biomolecular Ensembles. Methods Mol Biol. 2019;2022: 415-451. http://dx.doi.org/10.1007/978-1-4939-9608-7_18

Lucchetta M et al. Distinct signatures of lung cancer types: aberrant mucin O-glycosylation and compromised immune response. BMC Cancer. 2019;19: 824. http://dx.doi.org/10.1186/s12885-019-5965-x

Merchut-Maya JM et al. Regulation of replication fork speed: Mechanisms and impact on genomic stability. DNA Repair (Amst). 2019;81: 102654. http://dx.doi.org/10.1016/j.dnarep.2019.102654

Montagna C et al. nNOS/GSNOR interaction contributes to skeletal muscle differentiation and homeostasis. Cell Death Dis. 2019;10: 354. http://dx.doi.org/10.1038/s41419-019-1584-3

Mounir M et al. New functionalities in the TCGAbiolinks package for the study and integration of cancer data from GDC and GTEx. PLoS Comput Biol. 2019;15: e1006701. http://dx.doi.org/10.1371/journal.pcbi.1006701

Skrott Z et al. Disulfiram's anti-cancer activity reflects targeting NPL4, not inhibition of aldehyde dehydrogenase. Oncogene. 2019;38: 6711-6722. http://dx.doi.org/10.1038/s41388-019-0915-2

Sønder SL et al. Annexin A7 is required for ESCRT III-mediated plasma membrane repair. Sci Rep. 2019;9: 6726. http://dx.doi.org/10.1038/s41598-019-43143-4

Verdoodt F et al. Antihistamine use and risk of ovarian cancer: A population-based case-control study. Maturitas. 2019;120: 47-52. http://dx.doi.org/10.1016/j.maturitas.2018.11.014

Publications 2018

Becher J et al. AMBRA1 Controls Regulatory T-Cell Differentiation and Homeostasis Upstream of the FOXO3-FOXP3 Axis. Dev Cell. 2018;47: 592-607.e596. DOI:10.1016/j.devcel.2018.11.010

Bignon E et al. Computational Structural Biology of S-nitrosylation of Cancer Targets. Front Oncol. 2018;8: 272. DOI:10.3389/fonc.2018.00272

Boye TL et al. Annexins induce curvature on free-edge membranes displaying distinct morphologies. Sci Rep. 2018;8: 10309. DOI:10.1038/s41598-018-28481-z

Deretic V et al. Autophagy, Inflammation, and Metabolism (AIM) Center of Biomedical Research Excellence: supporting the next generation of autophagy researchers and fostering international collaborations. Autophagy. 2018;14: 925-929. DOI:10.1080/15548627.2018.1465784

Di Rita A et al. HUWE1 E3 ligase promotes PINK1/PARKIN-independent mitophagy by regulating AMBRA1 activation via IKKα. Nat Commun. 2018;9: 3755. DOI:10.1038/s41467-018-05722-3

Dreisig K et al. Human P2Y(11) Expression Level Affects Human P2X7 Receptor-Mediated Cell Death. Front Immunol. 2018;9: 1159. DOI:10.3389/fimmu.2018.01159

Frislev HS et al. Using Liprotides to Deliver Cholesterol to the Plasma Membrane. J Membr Biol. 2018;251: 581-592. DOI:10.1007/s00232-018-0034-y

Galluzzi L et al. Molecular mechanisms of cell death: recommendations of the Nomenclature Committee on Cell Death 2018. Cell Death Differ. 2018;25: 486-541. DOI:10.1038/s41418-017-0012-4

Gogola E et al. Selective Loss of PARG Restores PARylation and Counteracts PARP Inhibitor-Mediated Synthetic Lethality. Cancer Cell. 2018;33: 1078-1093.e1012. DOI:10.1016/j.ccell.2018.05.008

Holm LJ et al. L-serine supplementation lowers diabetes incidence and improves blood glucose homeostasis in NOD mice. PLoS One. 2018;13: e0194414. DOI:10.1371/journal.pone.0194414

Liu B et al. STAT3 associates with vacuolar H(+)-ATPase and regulates cytosolic and lysosomal pH. Cell Res. 2018;28: 996-1012. DOI:10.1038/s41422-018-0080-0

Marinelli P et al. A single cysteine post-translational oxidation suffices to compromise globular proteins kinetic stability and promote amyloid formation. Redox Biol. 2018;14: 566-575. DOI:10.1016/j.redox.2017.10.022

Maya-Mendoza A et al. High speed of fork progression induces DNA replication stress and genomic instability. Nature. 2018;559: 279-284. DOI:10.1038/s41586-018-0261-5

Rizza S et al. S-nitrosylation drives cell senescence and aging in mammals by controlling mitochondrial dynamics and mitophagy. Proc Natl Acad Sci U S A. 2018;115: E3388-e3397. DOI:10.1073/pnas.1722452115

Terkelsen T et al. N-glycan signatures identified in tumor interstitial fluid and serum of breast cancer patients: association with tumor biology and clinical outcome. Mol Oncol. 2018;12: 972-990. DOI:10.1002/1878-0261.12312

Tvingsholm SA et al. Proton pump inhibitor use and cancer mortality. Int J Cancer. 2018;143: 1315-1326. DOI:10.1002/ijc.31529

Tvingsholm SA et al. Let-7 microRNA controls invasion-promoting lysosomal changes via the oncogenic transcription factor myeloid zinc finger-1. Oncogenesis. 2018;7: 14. DOI:10.1038/s41389-017-0014-6

Publications 2017

Bartek J, Jr. et al. Replication stress, DNA damage signalling, and cytomegalovirus infection in human medulloblastomas. Mol Oncol. 2017;11: 945-964. 10.1002/1878-0261.12061

Bilgin M et al. Quantitative Profiling of Lysosomal Lipidome by Shotgun Lipidomics. Methods Mol Biol. 2017;1594: 19-34. DOI:10.1007/978-1-4939-6934-0_2

Boye TL et al. Annexin A4 and A6 induce membrane curvature and constriction during cell membrane repair. Nat Commun. 2017;8: 1623. DOI:10.1038/s41467-017-01743-6

Capizzi M et al. MIR7-3HG, a MYC-dependent modulator of cell proliferation, inhibits autophagy by a regulatory loop involving AMBRA1. Autophagy. 2017;13: 554-566. DOI:10.1080/15548627.2016.1269989

Chroma K et al. Tumors overexpressing RNF168 show altered DNA repair and responses to genotoxic treatments, genomic instability and resistance to proteotoxic stress. Oncogene. 2017;36: 2405-2422. DOI:10.1038/onc.2016.392

Colaço A et al. Ragulator-a multifaceted regulator of lysosomal signaling and trafficking. J Cell Biol. 2017;216: 3895-3898. DOI:10.1083/jcb.201710039

Evangelou K et al. Robust, universal biomarker assay to detect senescent cells in biological specimens. Aging Cell. 2017;16: 192-197. DOI:10.1111/acel.12545

Farkas T et al. Renilla Luciferase-LC3 Based Reporter Assay for Measuring Autophagic Flux. Methods Enzymol. 2017;588: 1-13. DOI:10.1016/bs.mie.2016.09.072

Frislev HS et al. Liprotides kill cancer cells by disrupting the plasma membrane. Sci Rep. 2017;7: 15129. DOI:10.1038/s41598-017-15003-6

Galluzzi L et al. Molecular definitions of autophagy and related processes. Embo j. 2017;36: 1811-1836. DOI:10.15252/embj.201796697

Gromova I et al. Identification of BLCAP as a novel STAT3 interaction partner in bladder cancer. PLoS One. 2017;12: e0188827. DOI:10.1371/journal.pone.0188827

Hall A et al. Polyplex Evolution: Understanding Biology, Optimizing Performance. Mol Ther. 2017;25: 1476-1490. DOI:10.1016/j.ymthe.2017.01.024

Halvorsen AR et al. Profiling of microRNAs in tumor interstitial fluid of breast tumors - a novel resource to identify biomarkers for prognostic classification and detection of cancer. Mol Oncol. 2017;11: 220-234. DOI:10.1002/1878-0261.12025

Kostopoulou ON et al. Human cytomegalovirus and Herpes Simplex type I virus can engage RNA polymerase I for transcription of immediate early genes. Oncotarget. 2017;8: 96536-96552. DOI:10.18632/oncotarget.22106

Mathiassen SG et al. Autophagy and the Cell Cycle: A Complex Landscape. Front Oncol. 2017;7: 51. DOI:10.3389/fonc.2017.00051

Maya-Mendoza A et al. Labeling DNA Replication Foci to Visualize Chromosome Territories In Vivo. Curr Protoc Cell Biol. 2017;75: 22.21.21-22.21.16. DOI:10.1002/cpcb.19

Nazio F et al. ULK1 ubiquitylation is regulated by phosphorylation on its carboxy terminus. Cell Cycle. 2017;16: 1744-1747. DOI:10.1080/15384101.2017.1361063

Nazio F et al. Autophagy up and down by outsmarting the incredible ULK. Autophagy. 2017;13: 967-968. DOI:10.1080/15548627.2017.1285473

Nielsen I et al. Global Monitoring of the Mammalian Lipidome by Quantitative Shotgun Lipidomics. Methods Mol Biol. 2017;1609: 123-139. DOI:10.1007/978-1-4939-6996-8_12

Papaleo E et al. Gaining insights into cancer biology through exploration of the cancer secretome using proteomic and bioinformatic tools. Expert Rev Proteomics. 2017;14: 1021-1035. DOI:10.1080/14789450.2017.1387053

Rizza S et al. Chronicles of a reductase: Biochemistry, genetics and physio-pathological role of GSNOR. Free Radic Biol Med. 2017;110: 19-30. DOI:10.1016/j.freeradbiomed.2017.05.014

Schoenherr C et al. Ambra1 spatially regulates Src activity and Src/FAK-mediated cancer cell invasion via trafficking networks. Elife. 2017;6. DOI:10.7554/eLife.23172

Skrott Z et al. Alcohol-abuse drug disulfiram targets cancer via p97 segregase adaptor NPL4. Nature. 2017;552: 194-199. DOI:10.1038/nature25016

Tian Q et al. RHEB1 insufficiency in aged male mice is associated with stress-induced seizures. Geroscience. 2017;39: 557-570. DOI:10.1007/s11357-017-9997-3

Turi Z et al. Perturbation of RNA Polymerase I transcription machinery by ablation of HEATR1 triggers the RPL5/RPL11-MDM2-p53 ribosome biogenesis stress checkpoint pathway in human cells. Cell Cycle. 2018;17: 92-101. DOI:10.1080/15384101.2017.1403685

Wu LP et al. Poly-(amidoamine) dendrimers with a precisely core positioned sulforhodamine B molecule for comparative biological tracing and profiling. J Control Release. 2017;246: 88-97. DOI:10.1016/j.jconrel.2016.12.016

Zarska M et al. Biological safety and tissue distribution of (16-mercaptohexadecyl)trimethylammonium bromide-modified cationic gold nanorods. Biomaterials. 2018;154: 275-290. DOI:10.1016/j.biomaterials.2017.10.044

Publications 2016

Baude A et al. Hepatoma-derived growth factor-related protein 2 promotes DNA repair by homologous recombination. Nucleic Acids Res. 2016;44: 2214-2226. DOI:10.1093/nar/gkv1526

Beresova L et al. Role of DNA Repair Factor Xeroderma Pigmentosum Protein Group C in Response to Replication Stress As Revealed by DNA Fragile Site Affinity Chromatography and Quantitative Proteomics. J Proteome Res. 2016;15: 4505-4517. DOI:10.1021/acs.jproteome.6b00622

Corcelle-Termeau E et al. Excess sphingomyelin disturbs ATG9A trafficking and autophagosome closure. Autophagy. 2016;12: 833-849. DOI:10.1080/15548627.2016.1159378

Corrado M et al. Macroautophagy inhibition maintains fragmented mitochondria to foster T cell receptor-dependent apoptosis. Embo j. 2016;35: 1793-1809. DOI:10.15252/embj.201593727

Ellegaard AM et al. Repurposing Cationic Amphiphilic Antihistamines for Cancer Treatment. EBioMedicine. 2016;9: 130-139. DOI:10.1016/j.ebiom.2016.06.013

Espinoza JA et al. Cytokine profiling of tumor interstitial fluid of the breast and its relationship with lymphocyte infiltration and clinicopathological characteristics. Oncoimmunology. 2016;5: e1248015. DOI:10.1080/2162402x.2016.1248015

Galanos P et al. Chronic p53-independent p21 expression causes genomic instability by deregulating replication licensing. Nat Cell Biol. 2016;18: 777-789. DOI:10.1038/ncb3378

Hämälistö S et al. Lysosomes in cancer-living on the edge (of the cell). Curr Opin Cell Biol. 2016;39: 69-76. DOI:10.1016/j.ceb.2016.02.009

Hernández-Tiedra S et al. Dihydroceramide accumulation mediates cytotoxic autophagy of cancer cells via autolysosome destabilization. Autophagy. 2016;12: 2213-2229. DOI:10.1080/15548627.2016.1213927

Kanu N et al. DNA replication stress mediates APOBEC3 family mutagenesis in breast cancer. Genome Biol. 2016;17: 185. DOI:10.1186/s13059-016-1042-9

Kiiski JI et al. FANCM c.5101C>T mutation associates with breast cancer survival and treatment outcome. Int J Cancer. 2016;139: 2760-2770. DOI:10.1002/ijc.30394

Kirkegaard T et al. Heat shock protein-based therapy as a potential candidate for treating the sphingolipidoses. Sci Transl Med. 2016;8: 355ra118. DOI:10.1126/scitranslmed.aad9823

Klionsky DJ et al. Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition). Autophagy. 2016;12: 1-222. DOI:10.1080/15548627.2015.1100356

Kurfurstova D et al. DNA damage signalling barrier, oxidative stress and treatment-relevant DNA repair factor alterations during progression of human prostate cancer. Mol Oncol. 2016;10: 879-894. DOI:10.1016/j.molonc.2016.02.005

López-Saavedra A et al. A genome-wide screening uncovers the role of CCAR2 as an antagonist of DNA end resection. Nat Commun. 2016;7: 12364. DOI:10.1038/ncomms12364

Moudry P et al. TOPBP1 regulates RAD51 phosphorylation and chromatin loading and determines PARP inhibitor sensitivity. J Cell Biol. 2016;212: 281-288. DOI:10.1083/jcb.201507042

Nazio F et al. Fine-tuning of ULK1 mRNA and protein levels is required for autophagy oscillation. J Cell Biol. 2016;215: 841-856. DOI:10.1083/jcb.201605089

Nygaard M et al. The Mutational Landscape of the Oncogenic MZF1 SCAN Domain in Cancer. Front Mol Biosci. 2016;3: 78. DOI:10.3389/fmolb.2016.00078

Pagliero RJ et al. Discovery of Small Molecules That Induce Lysosomal Cell Death in Cancer Cell Lines Using an Image-Based Screening Platform. Assay Drug Dev Technol. 2016;14: 489-510. DOI:10.1089/adt.2016.727

Rasmussen RD et al. BRCA1-regulated RRM2 expression protects glioblastoma cells from endogenous replication stress and promotes tumorigenicity. Nat Commun. 2016;7: 13398. DOI:10.1038/ncomms13398

Rizza S et al. S-nitrosylation of the Mitochondrial Chaperone TRAP1 Sensitizes Hepatocellular Carcinoma Cells to Inhibitors of Succinate Dehydrogenase. Cancer Res. 2016;76: 4170-4182. DOI:10.1158/0008-5472.Can-15-2637

Strappazzon F et al. Prosurvival AMBRA1 turns into a proapoptotic BH3-like protein during mitochondrial apoptosis. Autophagy. 2016;12: 963-975. DOI:10.1080/15548627.2016.1164359

Publications 2015

Aits S et al. Methods for the quantification of lysosomal membrane permeabilization: a hallmark of lysosomal cell death. Methods Cell Biol. 2015;126: 261-285. DOI:10.1016/bs.mcb.2014.10.032

Aits S et al. Sensitive detection of lysosomal membrane permeabilization by lysosomal galectin puncta assay. Autophagy. 2015;11: 1408-1424. DOI:10.1080/15548627.2015.1063871

Cianfanelli V et al. AMBRA1: When autophagy meets cell proliferation. Autophagy. 2015;11: 1705-1707. DOI:10.1080/15548627.2015.1053681

Cianfanelli V et al. Ambra1 at a glance. J Cell Sci. 2015;128: 2003-2008. DOI:10.1242/jcs.168153

Cianfanelli V et al. AMBRA1 and BECLIN 1 interplay in the crosstalk between autophagy and cell proliferation. Cell Cycle. 2015;14: 959-963. DOI:10.1080/15384101.2015.1021526

Cianfanelli V et al. AMBRA1 links autophagy to cell proliferation and tumorigenesis by promoting c-Myc dephosphorylation and degradation. Nat Cell Biol. 2015;17: 20-30. DOI:10.1038/ncb3072

Cianfanelli V et al. Connecting autophagy: AMBRA1 and its network of regulation. Mol Cell Oncol. 2015;2: e970059. DOI:10.4161/23723548.2014.970059

Dietlein F et al. A Synergistic Interaction between Chk1- and MK2 Inhibitors in KRAS-Mutant Cancer. Cell. 2015;162: 146-159. DOI:10.1016/j.cell.2015.05.053

Ellegaard AM et al. Visualizing Lysosomal Membrane Permeabilization by Fluorescent Dextran Release. Cold Spring Harb Protoc. 2015;2015: 900-903. DOI:10.1101/pdb.prot086173

Filomeni G et al. Oxidative stress and autophagy: the clash between damage and metabolic needs. Cell Death Differ. 2015;22: 377-388. DOI:10.1038/cdd.2014.150

Groth-Pedersen L et al. A Method to Monitor Lysosomal Membrane Permeabilization by Immunocytochemistry. Cold Spring Harb Protoc. 2015;2015: 904-907. DOI:10.1101/pdb.prot086181

Jäättelä M et al. Methods for Probing Lysosomal Membrane Permeabilization. Cold Spring Harb Protoc. 2015;2015: 975-978. DOI:10.1101/pdb.top070367

Jäättelä M et al. Quantification of Lysosomal Membrane Permeabilization by Cytosolic Cathepsin and β-N-Acetyl-Glucosaminidase Activity Measurements. Cold Spring Harb Protoc. 2015;2015: 1017-1023. DOI:10.1101/pdb.prot086165

Pourpirali S et al. Prolonged Pseudohypoxia Targets Ambra1 mRNA to P-Bodies for Translational Repression. PLoS One. 2015;10: e0129750. DOI:10.1371/journal.pone.0129750

Strappazzon F et al. AMBRA1-induced mitophagy: A new mechanism to cope with cancer? Mol Cell Oncol. 2015;2: e975647. DOI:10.4161/23723556.2014.975647