My Bibliography

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Welsh JA, Goberdhan DCI, O'Driscoll L, Buzas EI, Blenkiron C, Bussolati B, Cai H, Di Vizio D, Driedonks TAP, Erdbrügger U, Falcon-Perez JM, Fu QL, Hill AF, Lenassi M, Lim SK, Mahoney MG, Mohanty S, Möller A, Nieuwland R, Ochiya T, Sahoo S, Torrecilhas AC, Zheng L, Zijlstra A, Abuelreich S, Bagabas R, Bergese P, Bridges EM, Brucale M, Burger D, Carney RP, Cocucci E, Crescitelli R, Hanser E, Harris AL, Haughey NJ, Hendrix A, Ivanov AR, Jovanovic-Talisman T, Kruh-Garcia NA, Ku'ulei-Lyn Faustino V, Kyburz D, Lässer C, Lennon KM, Lötvall J, Maddox AL, Martens-Uzunova ES, Mizenko RR, Newman LA, Ridolfi A, Rohde E, Rojalin T, Rowland A, Saftics A, Sandau US, Saugstad JA, Shekari F, Swift S, Ter-Ovanesyan D, Tosar JP, Useckaite Z, Valle F, Varga Z, van der Pol E, van Herwijnen MJC, Wauben MHM, Wehman AM, Williams S, Zendrini A, Zimmerman AJ, Théry C, Witwer KW. Minimal information for studies of extracellular vesicles (MISEV2023): From basic to advanced approaches. J Extracell Vesicles. 2024 Feb;13(2):e12404. doi: 10.1002/jev2.12404. PubMed PMID: 38326288; PubMed Central PMCID: PMC10850029.

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Emerson LE, Mosby CA, Enslow S, Hui WW, Jones MK, Ferraro MJ. Changes in lipid composition of host-derived extracellular vesicles following Salmonella infection. Microbiol Spectr. 2024 Jan 11;12(1):e0279623. doi: 10.1128/spectrum.02796-23. Epub 2023 Dec 11. PubMed PMID: 38078720; PubMed Central PMCID: PMC10783105.

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Hauserman MR, Ferraro MJ, Carroll RK, Rice KC. Altered quorum sensing and physiology of Staphylococcus aureus during spaceflight detected by multi-omics data analysis. NPJ Microgravity. 2024 Jan 8;10(1):2. doi: 10.1038/s41526-023-00343-7. PubMed PMID: 38191486; PubMed Central PMCID: PMC10774393.

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Nanduri B, Shack LA, Santelices J, Edelmann MJ. Using Activity-Based Proteomics for the Quantification of Deubiquitinases in Animal Tissue. Methods Mol Biol. 2023;2591:45-57. doi: 10.1007/978-1-0716-2803-4_4. PubMed PMID: 36350542.

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Rainey A, Emerson LE, Edelmann MJ, Maurelli AT. Erratum: A CTS Team Approach to Wastewater-Based Epidemiology of Non-Typhoidal Salmonella in Gainesville, FL - ERRATUM. J Clin Transl Sci. 2022;6(1):e103. doi: 10.1017/cts.2022.416. eCollection 2022. PubMed PMID: 36129420; PubMed Central PMCID: PMC9453574.

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Emerson LE, Barker H, Tran T, Barker S, Enslow S, Ou M, Hoffman C, Jones M, Pascual DW, Edelmann MJ. Extracellular vesicles elicit protective immune responses against Salmonella infection. J Extracell Vesicles. 2022 Sep;11(9):e12267. doi: 10.1002/jev2.12267. PubMed PMID: 36134734; PubMed Central PMCID: PMC9494607.

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Emerson LE, Gioseffi A, Barker H, Sheppe A, Morrill JK, Edelmann MJ, Kima PE. Leishmania infection-derived extracellular vesicles drive transcription of genes involved in M2 polarization. Front Cell Infect Microbiol. 2022;12:934611. doi: 10.3389/fcimb.2022.934611. eCollection 2022. PubMed PMID: 36093197; PubMed Central PMCID: PMC9455154.

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Bhar S, Zhao G, Bartel JD, Sterchele H, Del Mazo A, Emerson LE, Edelmann MJ, Jones MK. Bacterial extracellular vesicles control murine norovirus infection through modulation of antiviral immune responses. Front Immunol. 2022;13:909949. doi: 10.3389/fimmu.2022.909949. eCollection 2022. PubMed PMID: 35990695; PubMed Central PMCID: PMC9386532.

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Santelices J, Ou M, Hui WW, Maegawa GHB, Edelmann MJ. Fluorescent Labeling of Small Extracellular Vesicles (EVs) Isolated from Conditioned Media. Bio Protoc. 2022 Jun 20;12(12). doi: 10.21769/BioProtoc.4447. eCollection 2022 Jun 20. PubMed PMID: 35864901; PubMed Central PMCID: PMC9257841.

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Edelmann MJ, Kima PE. Current understanding of extracellular vesicle homing/tropism. Zoonoses (Burlingt). 2022;2. doi: 10.15212/zoonoses-2022-0004. Epub 2022 May 12. PubMed PMID: 35601996; PubMed Central PMCID: PMC9121623.

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Mosby CA, Bhar S, Phillips MB, Edelmann MJ, Jones MK. Interaction with mammalian enteric viruses alters outer membrane vesicle production and content by commensal bacteria. J Extracell Vesicles. 2022 Jan;11(1):e12172. doi: 10.1002/jev2.12172. PubMed PMID: 34981901; PubMed Central PMCID: PMC8725172.

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Nanduri B, Gresham CR, Jones G, Bailey RH, Edelmann MJ. Identification of active deubiquitinases in the chicken tissues. Proteomics. 2022 Jan;22(1-2):e2100122. doi: 10.1002/pmic.202100122. Epub 2021 Oct 23. PubMed PMID: 34643985.

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Hui WW, Emerson LE, Clapp B, Sheppe AE, Sharma J, Del Castillo J, Ou M, Maegawa GHB, Hoffman C, Larkin Iii J, Pascual DW, Ferraro MJ. Antigen-encapsulating host extracellular vesicles derived from Salmonella-infected cells stimulate pathogen-specific Th1-type responses in vivo. PLoS Pathog. 2021 May;17(5):e1009465. doi: 10.1371/journal.ppat.1009465. eCollection 2021 May. PubMed PMID: 33956909; PubMed Central PMCID: PMC8101724.

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Gioseffi A, Edelmann MJ, Kima PE. Intravacuolar Pathogens Hijack Host Extracellular Vesicle Biogenesis to Secrete Virulence Factors. Front Immunol. 2021;12:662944. doi: 10.3389/fimmu.2021.662944. eCollection 2021. Review. PubMed PMID: 33959131; PubMed Central PMCID: PMC8093443.

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Edelmann MJ, Maegawa GHB. CNS-Targeting Therapies for Lysosomal Storage Diseases: Current Advances and Challenges. Front Mol Biosci. 2020;7:559804. doi: 10.3389/fmolb.2020.559804. eCollection 2020. Review. PubMed PMID: 33304924; PubMed Central PMCID: PMC7693645.

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Berglund J, Gjondrekaj R, Verney E, Maupin-Furlow JA, Edelmann MJ. Modification of the host ubiquitome by bacterial enzymes. Microbiol Res. 2020 May;235:126429. doi: 10.1016/j.micres.2020.126429. Epub 2020 Feb 11. Review. PubMed PMID: 32109687; PubMed Central PMCID: PMC7369425.

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Sen K, Sheppe AEF, Singh I, Hui WW, Edelmann MJ, Rinaldi C. Exosomes released by breast cancer cells under mild hyperthermic stress possess immunogenic potential and modulate polarization in vitro in macrophages. Int J Hyperthermia. 2020;37(1):696-710. doi: 10.1080/02656736.2020.1778800. PubMed PMID: 32568583; PubMed Central PMCID: PMC8694666.

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Alugubelly N, Mohammad AN, Edelmann MJ, Nanduri B, Sayed M, Park JW, Carr RL. Proteomic and transcriptional profiling of rat amygdala following social play. Behav Brain Res. 2019 Dec 30;376:112210. doi: 10.1016/j.bbr.2019.112210. Epub 2019 Sep 4. PubMed PMID: 31493430; PubMed Central PMCID: PMC6783381.

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Alugubelly N, Mohammed AN, Edelmann MJ, Nanduri B, Sayed M, Park JW, Carr RL. Adolescent rat social play: Amygdalar proteomic and transcriptomic data. Data Brief. 2019 Dec;27:104589. doi: 10.1016/j.dib.2019.104589. eCollection 2019 Dec. PubMed PMID: 31673590; PubMed Central PMCID: PMC6817652.

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Cho JJ, Xu Z, Parthasarathy U, Drashansky TT, Helm EY, Zuniga AN, Lorentsen KJ, Mansouri S, Cho JY, Edelmann MJ, Duong DM, Gehring T, Seeholzer T, Krappmann D, Uddin MN, Califano D, Wang RL, Jin L, Li H, Lv D, Zhou D, Zhou L, Avram D. Hectd3 promotes pathogenic Th17 lineage through Stat3 activation and Malt1 signaling in neuroinflammation. Nat Commun. 2019 Feb 11;10(1):701. doi: 10.1038/s41467-019-08605-3. PubMed PMID: 30741923; PubMed Central PMCID: PMC6370850.

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Sheppe AEF, Kummari E, Walker A, Richards A, Hui WW, Lee JH, Mangum L, Borazjani A, Ross MK, Edelmann MJ. PGE2 Augments Inflammasome Activation and M1 Polarization in Macrophages Infected With Salmonella Typhimurium and Yersinia enterocolitica. Front Microbiol. 2018;9:2447. doi: 10.3389/fmicb.2018.02447. eCollection 2018. PubMed PMID: 30429830; PubMed Central PMCID: PMC6220063.

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Tardaguila M, de la Fuente L, Marti C, Pereira C, Pardo-Palacios FJ, Del Risco H, Ferrell M, Mellado M, Macchietto M, Verheggen K, Edelmann M, Ezkurdia I, Vazquez J, Tress M, Mortazavi A, Martens L, Rodriguez-Navarro S, Moreno-Manzano V, Conesa A. Corrigendum: SQANTI: extensive characterization of long-read transcript sequences for quality control in full-length transcriptome identification and quantification. Genome Res. 2018 Jul;28(7):1096. doi: 10.1101/gr.239137.118. PubMed PMID: 29967126; PubMed Central PMCID: PMC6028133.

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Lee JH, Hou X, Kummari E, Borazjani A, Edelmann MJ, Ross MK. Endocannabinoid hydrolases in avian HD11 macrophages identified by chemoproteomics: inactivation by small-molecule inhibitors and pathogen-induced downregulation of their activity. Mol Cell Biochem. 2018 Jul;444(1-2):125-141. doi: 10.1007/s11010-017-3237-0. Epub 2017 Dec 1. PubMed PMID: 29196970.

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Meng X, Lv Y, Mujahid H, Edelmann MJ, Zhao H, Peng X, Peng Z. Proteome-wide lysine acetylation identification in developing rice (Oryza sativa) seeds and protein co-modification by acetylation, succinylation, ubiquitination, and phosphorylation. Biochim Biophys Acta Proteins Proteom. 2018 Mar;1866(3):451-463. doi: 10.1016/j.bbapap.2017.12.001. Epub 2017 Dec 5. PubMed PMID: 29313810.

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Tardaguila M, de la Fuente L, Marti C, Pereira C, Pardo-Palacios FJ, Del Risco H, Ferrell M, Mellado M, Macchietto M, Verheggen K, Edelmann M, Ezkurdia I, Vazquez J, Tress M, Mortazavi A, Martens L, Rodriguez-Navarro S, Moreno-Manzano V, Conesa A. SQANTI: extensive characterization of long-read transcript sequences for quality control in full-length transcriptome identification and quantification. Genome Res. 2018 Feb 9;28(3):396-411. doi: 10.1101/gr.222976.117. [Epub ahead of print] PubMed PMID: 29440222; PubMed Central PMCID: PMC5848618.

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Hui WW, Hercik K, Belsare S, Alugubelly N, Clapp B, Rinaldi C, Edelmann MJ. Salmonella enterica Serovar Typhimurium Alters the Extracellular Proteome of Macrophages and Leads to the Production of Proinflammatory Exosomes. Infect Immun. 2018 Feb;86(2). doi: 10.1128/IAI.00386-17. Print 2018 Feb. PubMed PMID: 29158431; PubMed Central PMCID: PMC5778363.

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Shields-Menard S, AmirSadeghi M, Green M, Womack E, Sparks D, Blake J, Edelmann MJ, Ding X, Sukhbaatar B, Hernandez R, Donaldson JR, French T. The effects of model aromatic lignin compounds on growth and lipid accumulation of Rhodococcus rhodochrous. International Biodeterioration & Biodegradation. 2017 July; 121:79-90.

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Nanduri B, Shack LA, Rai AN, Epperson WB, Baumgartner W, Schmidt TB, Edelmann MJ. Use of focused ultrasonication in activity-based profiling of deubiquitinating enzymes in tissue. Anal Biochem. 2016 Dec 15;515:9-13. doi: 10.1016/j.ab.2016.09.016. Epub 2016 Sep 20. PubMed PMID: 27663132; PubMed Central PMCID: PMC5094370.

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Lopez-Castejon G, Edelmann MJ. Deubiquitinases: Novel Therapeutic Targets in Immune Surveillance?. Mediators Inflamm. 2016;2016:3481371. doi: 10.1155/2016/3481371. Epub 2016 Aug 14. Review. PubMed PMID: 27597804; PubMed Central PMCID: PMC5002299.

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Alugubelly N, Hercik K, Kibler P, Nanduri B, Edelmann MJ. Analysis of differentially expressed proteins in Yersinia enterocolitica-infected HeLa cells. Biochim Biophys Acta. 2016 May;1864(5):562-9. doi: 10.1016/j.bbapap.2016.02.004. Epub 2016 Feb 5. PubMed PMID: 26854600; PubMed Central PMCID: PMC5505629.

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Wright ML, Pendarvis K, Nanduri B, Edelmann MJ, Jenkins HN, Reddy JS, Wilson JG, Ding X, Broadway PR, Ammari MG, Paul O, Roberts B, Donaldson JR. The Effect of Oxygen on Bile Resistance in Listeria monocytogenes. J Proteomics Bioinform. 2016 Apr;9(4):107-119. doi: 10.4172/jpb.1000396. Epub 2016 Apr 5. PubMed PMID: 27274623; PubMed Central PMCID: PMC4888900.

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Kummari E, Alugubelly N, Hsu CY, Dong B, Nanduri B, Edelmann MJ. Correction: Activity-Based Proteomic Profiling of Deubiquitinating Enzymes in Salmonella-Infected Macrophages Leads to Identification of Putative Function of UCH-L5 in Inflammasome Regulation. PLoS One. 2015;10(9):e0138635. doi: 10.1371/journal.pone.0138635. eCollection 2015. PubMed PMID: 26372463; PubMed Central PMCID: PMC4570779.

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Kummari E, Alugubelly N, Hsu CY, Dong B, Nanduri B, Edelmann MJ. Activity-Based Proteomic Profiling of Deubiquitinating Enzymes in Salmonella-Infected Macrophages Leads to Identification of Putative Function of UCH-L5 in Inflammasome Regulation. PLoS One. 2015;10(8):e0135531. doi: 10.1371/journal.pone.0135531. eCollection 2015. PubMed PMID: 26267804; PubMed Central PMCID: PMC4534353.

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Edelmann MJ, Shack LA, Naske CD, Walters KB, Nanduri B. SILAC-based quantitative proteomic analysis of human lung cell response to copper oxide nanoparticles. PLoS One. 2014;9(12):e114390. doi: 10.1371/journal.pone.0114390. eCollection 2014. PubMed PMID: 25470785; PubMed Central PMCID: PMC4255034.

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Narayanan LA, Edelmann MJ. Ubiquitination as an efficient molecular strategy employed in salmonella infection. Front Immunol. 2014;5:558. doi: 10.3389/fimmu.2014.00558. eCollection 2014. Review. PubMed PMID: 25505465; PubMed Central PMCID: PMC4243690.

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Nallamilli BR, Edelmann MJ, Zhong X, Tan F, Mujahid H, Zhang J, Nanduri B, Peng Z. Global analysis of lysine acetylation suggests the involvement of protein acetylation in diverse biological processes in rice (Oryza sativa). PLoS One. 2014;9(2):e89283. doi: 10.1371/journal.pone.0089283. eCollection 2014. PubMed PMID: 24586658; PubMed Central PMCID: PMC3930695.

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Glinka T, Alter J, Braunstein I, Tzach L, Wei Sheng C, Geifman S, Edelmann MJ, Kessler BM, Stanhill A. Signal-peptide-mediated translocation is regulated by a p97-AIRAPL complex. Biochem J. 2014 Jan 15;457(2):253-61. doi: 10.1042/BJ20130710. PubMed PMID: 24160817.

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Wang R, Borazjani A, Matthews AT, Mangum LC, Edelmann MJ, Ross MK. Identification of palmitoyl protein thioesterase 1 in human THP1 monocytes and macrophages and characterization of unique biochemical activities for this enzyme. Biochemistry. 2013 Oct 29;52(43):7559-74. doi: 10.1021/bi401138s. Epub 2013 Oct 18. PubMed PMID: 24083319; PubMed Central PMCID: PMC4102699.

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Hipp MM, Shepherd D, Gileadi U, Aichinger MC, Kessler BM, Edelmann MJ, Essalmani R, Seidah NG, Reis e Sousa C, Cerundolo V. Processing of human toll-like receptor 7 by furin-like proprotein convertases is required for its accumulation and activity in endosomes. Immunity. 2013 Oct 17;39(4):711-21. doi: 10.1016/j.immuni.2013.09.004. PubMed PMID: 24138882; PubMed Central PMCID: PMC4839496.

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Nanduri B, Suvarnapunya AE, Venkatesan M, Edelmann MJ. Deubiquitinating enzymes as promising drug targets for infectious diseases. Curr Pharm Des. 2013;19(18):3234-47. doi: 10.2174/1381612811319180008. Review. PubMed PMID: 23151130; PubMed Central PMCID: PMC5485257.

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Meisenberg C, Tait PS, Dianova II, Wright K, Edelmann MJ, Ternette N, Tasaki T, Kessler BM, Parsons JL, Kwon YT, Dianov GL. Ubiquitin ligase UBR3 regulates cellular levels of the essential DNA repair protein APE1 and is required for genome stability. Nucleic Acids Res. 2012 Jan;40(2):701-11. doi: 10.1093/nar/gkr744. Epub 2011 Sep 20. PubMed PMID: 21933813; PubMed Central PMCID: PMC3258136.

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David Y, Ternette N, Edelmann MJ, Ziv T, Gayer B, Sertchook R, Dadon Y, Kessler BM, Navon A. E3 ligases determine ubiquitination site and conjugate type by enforcing specificity on E2 enzymes. J Biol Chem. 2011 Dec 23;286(51):44104-44115. doi: 10.1074/jbc.M111.234559. Epub 2011 Sep 30. PubMed PMID: 21965653; PubMed Central PMCID: PMC3243545.

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Edelmann MJ, Nicholson B, Kessler BM. Pharmacological targets in the ubiquitin system offer new ways of treating cancer, neurodegenerative disorders and infectious diseases. Expert Rev Mol Med. 2011 Nov 17;13:e35. doi: 10.1017/S1462399411002031. Review. PubMed PMID: 22088887; PubMed Central PMCID: PMC3219211.

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Edelmann MJ. Strong cation exchange chromatography in analysis of posttranslational modifications: innovations and perspectives. J Biomed Biotechnol. 2011;2011:936508. doi: 10.1155/2011/936508. Epub 2011 Nov 17. Review. PubMed PMID: 22174558; PubMed Central PMCID: PMC3228578.

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Borazjani A, Edelmann MJ, Hardin KL, Herring KL, Allen Crow J, Ross MK. Catabolism of 4-hydroxy-2-trans-nonenal by THP1 monocytes/macrophages and inactivation of carboxylesterases by this lipid electrophile. Chem Biol Interact. 2011 Oct 15;194(1):1-12. doi: 10.1016/j.cbi.2011.08.007. Epub 2011 Aug 22. PubMed PMID: 21878322; PubMed Central PMCID: PMC3186858.

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Andress EJ, Holic R, Edelmann MJ, Kessler BM, Yu VP. Dia2 controls transcription by mediating assembly of the RSC complex. PLoS One. 2011;6(6):e21172. doi: 10.1371/journal.pone.0021172. Epub 2011 Jun 20. PubMed PMID: 21701592; PubMed Central PMCID: PMC3118812.

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Kessler BM, Edelmann MJ. PTMs in conversation: activity and function of deubiquitinating enzymes regulated via post-translational modifications. Cell Biochem Biophys. 2011 Jun;60(1-2):21-38. doi: 10.1007/s12013-011-9176-6. Review. PubMed PMID: 21480003; PubMed Central PMCID: PMC3094536.

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Tian YM, Yeoh KK, Lee MK, Eriksson T, Kessler BM, Kramer HB, Edelmann MJ, Willam C, Pugh CW, Schofield CJ, Ratcliffe PJ. Differential sensitivity of hypoxia inducible factor hydroxylation sites to hypoxia and hydroxylase inhibitors. J Biol Chem. 2011 Apr 15;286(15):13041-51. doi: 10.1074/jbc.M110.211110. Epub 2011 Feb 18. PubMed PMID: 21335549; PubMed Central PMCID: PMC3075650.

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Parsons JL, Dianova II, Khoronenkova SV, Edelmann MJ, Kessler BM, Dianov GL. USP47 is a deubiquitylating enzyme that regulates base excision repair by controlling steady-state levels of DNA polymerase β. Mol Cell. 2011 Mar 4;41(5):609-15. doi: 10.1016/j.molcel.2011.02.016. PubMed PMID: 21362556.

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Altun M, Besche HC, Overkleeft HS, Piccirillo R, Edelmann MJ, Kessler BM, Goldberg AL, Ulfhake B. Muscle wasting in aged, sarcopenic rats is associated with enhanced activity of the ubiquitin proteasome pathway. J Biol Chem. 2010 Dec 17;285(51):39597-608. doi: 10.1074/jbc.M110.129718. Epub 2010 Oct 12. PubMed PMID: 20940294; PubMed Central PMCID: PMC3000941.