My Bibliography

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Becker L, Gabel BR, Spencer CA, Marcovina SM, Koschinsky ML. Effect of low-density lipoprotein buoyant density and cholesterol content on the formation of lipoprotein(a) particles. Clin Exp Med. 2001 Jun;1(2):121-5. doi: 10.1007/s10238-001-8022-3. PubMed PMID: 11699729.

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Becker L, McLeod RS, Marcovina SM, Yao Z, Koschinsky ML. Identification of a critical lysine residue in apolipoprotein B-100 that mediates noncovalent interaction with apolipoprotein(a). J Biol Chem. 2001 Sep 28;276(39):36155-62. doi: 10.1074/jbc.M104789200. Epub 2001 Jul 25. PubMed PMID: 11473115.

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Rahman MN, Becker L, Petrounevitch V, Hill BC, Jia Z, Koschinsky ML. Comparative analyses of the lysine binding site properties of apolipoprotein(a) kringle IV types 7 and 10. Biochemistry. 2002 Jan 29;41(4):1149-55. doi: 10.1021/bi010964i. PubMed PMID: 11802713.

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Toh CH, Samis J, Downey C, Walker J, Becker L, Brufatto N, Tejidor L, Jones G, Houdijk W, Giles A, Koschinsky M, Ticknor LO, Paton R, Wenstone R, Nesheim M. Biphasic transmittance waveform in the APTT coagulation assay is due to the formation of a Ca(++)-dependent complex of C-reactive protein with very-low-density lipoprotein and is a novel marker of impending disseminated intravascular coagulation. Blood. 2002 Oct 1;100(7):2522-9. doi: 10.1182/blood.V100.7.2522. PubMed PMID: 12239165.

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Nesheim M, Samis J, Walker J, Becker L, Brufatto N, Fischer T, Tejidor L, Jones G, Houdijk W, Giles A, Koschinsky M, Wenstone R, Downey C, Toh CH. Lipoprotein-complexed C-reactive protein and the biphasic transmittance waveform in critically ill patients. Blood Rev. 2002 Dec;16 Suppl 1:S15-22. PubMed PMID: 12918783.

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Becker L, Webb BA, Chitayat S, Nesheim ME, Koschinsky ML. A ligand-induced conformational change in apolipoprotein(a) enhances covalent Lp(a) formation. J Biol Chem. 2003 Apr 18;278(16):14074-81. doi: 10.1074/jbc.M212855200. Epub 2003 Feb 3. PubMed PMID: 12566443.

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Hill BC, Becker L, Anand V, Kusmierczyk A, Marcovina SM, Rahman MN, Gabel BR, Jia Z, Boffa MB, Koschinsky ML. A role for apolipoprotein(a) in protection of the low-density lipoprotein component of lipoprotein(a) from copper-mediated oxidation. Arch Biochem Biophys. 2003 Apr 15;412(2):186-95. doi: 10.1016/s0003-9861(03)00032-8. PubMed PMID: 12667482.

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Becker L, Cook PM, Wright TG, Koschinsky ML. Quantitative evaluation of the contribution of weak lysine-binding sites present within apolipoprotein(a) kringle IV types 6-8 to lipoprotein(a) assembly. J Biol Chem. 2004 Jan 23;279(4):2679-88. doi: 10.1074/jbc.M309414200. Epub 2003 Oct 26. PubMed PMID: 14581473.

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Becker L, Cook PM, Koschinsky ML. Identification of sequences in apolipoprotein(a) that maintain its closed conformation: a novel role for apo(a) isoform size in determining the efficiency of covalent Lp(a) formation. Biochemistry. 2004 Aug 10;43(31):9978-88. doi: 10.1021/bi049536d. PubMed PMID: 15287725.

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Devlin CM, Lee SJ, Kuriakose G, Spencer C, Becker L, Grosskopf I, Ko C, Huang LS, Koschinsky ML, Cooper AD, Tabas I. An apolipoprotein(a) peptide delays chylomicron remnant clearance and increases plasma remnant lipoproteins and atherosclerosis in vivo. Arterioscler Thromb Vasc Biol. 2005 Aug;25(8):1704-10. doi: 10.1161/01.ATV.0000170819.57945.03. Epub 2005 May 19. PubMed PMID: 15905467.

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Becker L, Nesheim ME, Koschinsky ML. Catalysis of covalent Lp(a) assembly: evidence for an extracellular enzyme activity that enhances disulfide bond formation. Biochemistry. 2006 Aug 15;45(32):9919-28. doi: 10.1021/bi060283t. PubMed PMID: 16893192.

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Becker L, Gharib SA, Irwin AD, Wijsman E, Vaisar T, Oram JF, Heinecke JW. A macrophage sterol-responsive network linked to atherogenesis. Cell Metab. 2010 Feb 3;11(2):125-35. doi: 10.1016/j.cmet.2010.01.003. PubMed PMID: 20142100; PubMed Central PMCID: PMC2893224.

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Heinecke NL, Pratt BS, Vaisar T, Becker L. PepC: proteomics software for identifying differentially expressed proteins based on spectral counting. Bioinformatics. 2010 Jun 15;26(12):1574-5. doi: 10.1093/bioinformatics/btq171. Epub 2010 Apr 22. PubMed PMID: 20413636; PubMed Central PMCID: PMC2881356.

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Suzuki M, Pritchard DK, Becker L, Hoofnagle AN, Tanimura N, Bammler TK, Beyer RP, Bumgarner R, Vaisar T, de Beer MC, de Beer FC, Miyake K, Oram JF, Heinecke JW. High-density lipoprotein suppresses the type I interferon response, a family of potent antiviral immunoregulators, in macrophages challenged with lipopolysaccharide. Circulation. 2010 Nov 9;122(19):1919-27. doi: 10.1161/CIRCULATIONAHA.110.961193. Epub 2010 Oct 25. PubMed PMID: 20974999; PubMed Central PMCID: PMC2988582.

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Averill MM, Barnhart S, Becker L, Li X, Heinecke JW, Leboeuf RC, Hamerman JA, Sorg C, Kerkhoff C, Bornfeldt KE. S100A9 differentially modifies phenotypic states of neutrophils, macrophages, and dendritic cells: implications for atherosclerosis and adipose tissue inflammation. Circulation. 2011 Mar 22;123(11):1216-26. doi: 10.1161/CIRCULATIONAHA.110.985523. Epub 2011 Mar 7. PubMed PMID: 21382888; PubMed Central PMCID: PMC3072335.

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Kanter JE, Kramer F, Barnhart S, Averill MM, Vivekanandan-Giri A, Vickery T, Li LO, Becker L, Yuan W, Chait A, Braun KR, Potter-Perigo S, Sanda S, Wight TN, Pennathur S, Serhan CN, Heinecke JW, Coleman RA, Bornfeldt KE. Diabetes promotes an inflammatory macrophage phenotype and atherosclerosis through acyl-CoA synthetase 1. Proc Natl Acad Sci U S A. 2012 Mar 20;109(12):E715-24. doi: 10.1073/pnas.1111600109. Epub 2012 Jan 17. PubMed PMID: 22308341; PubMed Central PMCID: PMC3311324.

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Becker L, Liu NC, Averill MM, Yuan W, Pamir N, Peng Y, Irwin AD, Fu X, Bornfeldt KE, Heinecke JW. Unique proteomic signatures distinguish macrophages and dendritic cells. PLoS One. 2012;7(3):e33297. doi: 10.1371/journal.pone.0033297. Epub 2012 Mar 12. PubMed PMID: 22428014; PubMed Central PMCID: PMC3299764.

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Suzuki M, Becker L, Pritchard DK, Gharib SA, Wijsman EM, Bammler TK, Beyer RP, Vaisar T, Oram JF, Heinecke JW. Cholesterol accumulation regulates expression of macrophage proteins implicated in proteolysis and complement activation. Arterioscler Thromb Vasc Biol. 2012 Dec;32(12):2910-8. doi: 10.1161/ATVBAHA.112.300383. Epub 2012 Oct 4. PubMed PMID: 23042816; PubMed Central PMCID: PMC3501207.

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Yurkovetskiy L, Burrows M, Khan AA, Graham L, Volchkov P, Becker L, Antonopoulos D, Umesaki Y, Chervonsky AV. Gender bias in autoimmunity is influenced by microbiota. Immunity. 2013 Aug 22;39(2):400-12. doi: 10.1016/j.immuni.2013.08.013. PubMed PMID: 23973225; PubMed Central PMCID: PMC3822899.

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Becker L, Kheirandish-Gozal L, Peris E, Schoenfelt KQ, Gozal D. Contextualised urinary biomarker analysis facilitates diagnosis of paediatric obstructive sleep apnoea. Sleep Med. 2014 May;15(5):541-9. doi: 10.1016/j.sleep.2014.01.010. Epub 2014 Feb 7. PubMed PMID: 24726570; PubMed Central PMCID: PMC4247538.

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Almendros I, Wang Y, Becker L, Lennon FE, Zheng J, Coats BR, Schoenfelt KS, Carreras A, Hakim F, Zhang SX, Farré R, Gozal D. Intermittent hypoxia-induced changes in tumor-associated macrophages and tumor malignancy in a mouse model of sleep apnea. Am J Respir Crit Care Med. 2014 Mar 1;189(5):593-601. doi: 10.1164/rccm.201310-1830OC. PubMed PMID: 24471484; PubMed Central PMCID: PMC3977714.

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Lee JT, Pamir N, Liu NC, Kirk EA, Averill MM, Becker L, Larson I, Hagman DK, Foster-Schubert KE, van Yserloo B, Bornfeldt KE, LeBoeuf RC, Kratz M, Heinecke JW. Macrophage metalloelastase (MMP12) regulates adipose tissue expansion, insulin sensitivity, and expression of inducible nitric oxide synthase. Endocrinology. 2014 Sep;155(9):3409-20. doi: 10.1210/en.2014-1037. Epub 2014 Jun 10. PubMed PMID: 24914938; PubMed Central PMCID: PMC4138576.

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Kratz M, Coats BR, Hisert KB, Hagman D, Mutskov V, Peris E, Schoenfelt KQ, Kuzma JN, Larson I, Billing PS, Landerholm RW, Crouthamel M, Gozal D, Hwang S, Singh PK, Becker L. Metabolic dysfunction drives a mechanistically distinct proinflammatory phenotype in adipose tissue macrophages. Cell Metab. 2014 Oct 7;20(4):614-25. doi: 10.1016/j.cmet.2014.08.010. Epub 2014 Sep 18. PubMed PMID: 25242226; PubMed Central PMCID: PMC4192131.

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Pamir N, Liu NC, Irwin A, Becker L, Peng Y, Ronsein GE, Bornfeldt KE, Duffield JS, Heinecke JW. Granulocyte/Macrophage Colony-stimulating Factor-dependent Dendritic Cells Restrain Lean Adipose Tissue Expansion. J Biol Chem. 2015 Jun 5;290(23):14656-67. doi: 10.1074/jbc.M115.645820. Epub 2015 Apr 30. PubMed PMID: 25931125; PubMed Central PMCID: PMC4505532.

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Frankenberger C, Rabe D, Bainer R, Sankarasharma D, Chada K, Krausz T, Gilad Y, Becker L, Rosner MR. Metastasis Suppressors Regulate the Tumor Microenvironment by Blocking Recruitment of Prometastatic Tumor-Associated Macrophages. Cancer Res. 2015 Oct 1;75(19):4063-73. doi: 10.1158/0008-5472.CAN-14-3394. Epub 2015 Aug 3. PubMed PMID: 26238785; PubMed Central PMCID: PMC4592465.

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Hisert KB, Schoenfelt KQ, Cooke G, Grogan B, Launspach JL, Gallagher CG, Donnelly SC, Welsh MJ, Singh PK, McKone EF, Becker L. Ivacaftor-Induced Proteomic Changes Suggest Monocyte Defects May Contribute to the Pathogenesis of Cystic Fibrosis. Am J Respir Cell Mol Biol. 2016 Apr;54(4):594-7. doi: 10.1165/rcmb.2015-0322LE. PubMed PMID: 27035067; PubMed Central PMCID: PMC4821059.

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Coats BR, Schoenfelt KQ, Barbosa-Lorenzi VC, Peris E, Cui C, Hoffman A, Zhou G, Fernandez S, Zhai L, Hall BA, Haka AS, Shah AM, Reardon CA, Brady MJ, Rhodes CJ, Maxfield FR, Becker L. Metabolically Activated Adipose Tissue Macrophages Perform Detrimental and Beneficial Functions during Diet-Induced Obesity. Cell Rep. 2017 Sep 26;20(13):3149-3161. doi: 10.1016/j.celrep.2017.08.096. PubMed PMID: 28954231; PubMed Central PMCID: PMC5646237.

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Singhal H, Greene ME, Zarnke AL, Laine M, Al Abosy R, Chang YF, Dembo AG, Schoenfelt K, Vadhi R, Qiu X, Rao P, Santhamma B, Nair HB, Nickisch KJ, Long HW, Becker L, Brown M, Greene GL. Progesterone receptor isoforms, agonists and antagonists differentially reprogram estrogen signaling. Oncotarget. 2018 Jan 12;9(4):4282-4300. doi: 10.18632/oncotarget.21378. eCollection 2018 Jan 12. PubMed PMID: 29435103; PubMed Central PMCID: PMC5796974.

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Reardon CA, Lingaraju A, Schoenfelt KQ, Zhou G, Cui C, Jacobs-El H, Babenko I, Hoofnagle A, Czyz D, Shuman H, Vaisar T, Becker L. Obesity and Insulin Resistance Promote Atherosclerosis through an IFNγ-Regulated Macrophage Protein Network. Cell Rep. 2018 Jun 5;23(10):3021-3030. doi: 10.1016/j.celrep.2018.05.010. PubMed PMID: 29874587; PubMed Central PMCID: PMC6082182.

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Goss CH, Kaneko Y, Khuu L, Anderson GD, Ravishankar S, Aitken ML, Lechtzin N, Zhou G, Czyz DM, McLean K, Olakanmi O, Shuman HA, Teresi M, Wilhelm E, Caldwell E, Salipante SJ, Hornick DB, Siehnel RJ, Becker L, Britigan BE, Singh PK. Gallium disrupts bacterial iron metabolism and has therapeutic effects in mice and humans with lung infections. Sci Transl Med. 2018 Sep 26;10(460). doi: 10.1126/scitranslmed.aat7520. PubMed PMID: 30257953; PubMed Central PMCID: PMC6637966.

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Thekkan S, Jani MS, Cui C, Dan K, Zhou G, Becker L, Krishnan Y. A DNA-based fluorescent reporter maps HOCl production in the maturing phagosome. Nat Chem Biol. 2019 Dec;15(12):1165-1172. doi: 10.1038/s41589-018-0176-3. Epub 2018 Dec 10. PubMed PMID: 30531966; PubMed Central PMCID: PMC7034416.

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Burhans MS, Hagman DK, Kuzma JN, Schmidt KA, Kratz M. Contribution of Adipose Tissue Inflammation to the Development of Type 2 Diabetes Mellitus. Compr Physiol. 2018 Dec 13;9(1):1-58. doi: 10.1002/cphy.c170040. Review. PubMed PMID: 30549014; PubMed Central PMCID: PMC6557583.

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Tiwari P, Blank A, Cui C, Schoenfelt KQ, Zhou G, Xu Y, Khramtsova G, Olopade F, Shah AM, Khan SA, Rosner MR, Becker L. Metabolically activated adipose tissue macrophages link obesity to triple-negative breast cancer. J Exp Med. 2019 Jun 3;216(6):1345-1358. doi: 10.1084/jem.20181616. Epub 2019 May 3. PubMed PMID: 31053611; PubMed Central PMCID: PMC6547867.

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Zhang D, Tang Z, Huang H, Zhou G, Cui C, Weng Y, Liu W, Kim S, Lee S, Perez-Neut M, Ding J, Czyz D, Hu R, Ye Z, He M, Zheng YG, Shuman HA, Dai L, Ren B, Roeder RG, Becker L, Zhao Y. Metabolic regulation of gene expression by histone lactylation. Nature. 2019 Oct;574(7779):575-580. doi: 10.1038/s41586-019-1678-1. Epub 2019 Oct 23. PubMed PMID: 31645732; PubMed Central PMCID: PMC6818755.

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Dick BP, McMahan R, Knowles T, Becker L, Gharib SA, Vaisar T, Wietecha T, O'Brien KD, Bornfeldt KE, Chait A, Kim F. Hematopoietic Cell-Expressed Endothelial Nitric Oxide Protects the Liver From Insulin Resistance. Arterioscler Thromb Vasc Biol. 2020 Mar;40(3):670-681. doi: 10.1161/ATVBAHA.119.313648. Epub 2020 Jan 30. PubMed PMID: 31996027; PubMed Central PMCID: PMC7047596.

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Hisert KB, Birkland TP, Schoenfelt KQ, Long ME, Grogan B, Carter S, Liles WC, McKone EF, Becker L, Manicone AM. Ivacaftor decreases monocyte sensitivity to interferon-γ in people with cystic fibrosis. ERJ Open Res. 2020 Apr;6(2). doi: 10.1183/23120541.00318-2019. eCollection 2020 Apr. PubMed PMID: 32337217; PubMed Central PMCID: PMC7167213.

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Hisert KB, Birkland TP, Schoenfelt KQ, Long ME, Grogan B, Carter S, Liles WC, McKone EF, Becker L, Manicone AM, Gharib SA. CFTR Modulator Therapy Enhances Peripheral Blood Monocyte Contributions to Immune Responses in People With Cystic Fibrosis. Front Pharmacol. 2020;11:1219. doi: 10.3389/fphar.2020.01219. eCollection 2020. PubMed PMID: 33013356; PubMed Central PMCID: PMC7461946.

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Kahn JH, Goddi A, Sharma A, Heiman J, Carmona A, Li Y, Hoffman A, Schoenfelt K, Ye H, Bobe AM, Becker L, Hollenberg AN, Cohen RN. SMRT Regulates Metabolic Homeostasis and Adipose Tissue Macrophage Phenotypes in Tandem. Endocrinology. 2020 Oct 1;161(10). doi: 10.1210/endocr/bqaa132. PubMed PMID: 32770234; PubMed Central PMCID: PMC7478322.

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Gebhardt MJ, Czyz DM, Singh S, Zurawski DV, Becker L, Shuman HA. GigC, a LysR Family Transcription Regulator, Is Required for Cysteine Metabolism and Virulence in Acinetobacter baumannii. Infect Immun. 2020 Dec 15;89(1). doi: 10.1128/IAI.00180-20. Print 2020 Dec 15. PubMed PMID: 33077621; PubMed Central PMCID: PMC7927930.

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Cui C, Chakraborty K, Tang XA, Zhou G, Schoenfelt KQ, Becker KM, Hoffman A, Chang YF, Blank A, Reardon CA, Kenny HA, Vaisar T, Lengyel E, Greene G, Becker L. Neutrophil elastase selectively kills cancer cells and attenuates tumorigenesis. Cell. 2021 Jun 10;184(12):3163-3177.e21. doi: 10.1016/j.cell.2021.04.016. Epub 2021 May 7. PubMed PMID: 33964209; PubMed Central PMCID: PMC10712736.

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Webster KL, Becker L. Surplus Ceramides: An Added Twist in the Tale of TREM2 and Insulin Resistance. Diabetes. 2021 Sep;70(9):1926-1928. doi: 10.2337/dbi21-0017. Epub 2021 Aug 20. PubMed PMID: 34417267; PubMed Central PMCID: PMC10515693.

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Cui C, Schoenfelt KQ, Becker KM, Becker L. Isolation of polymorphonuclear neutrophils and monocytes from a single sample of human peripheral blood. STAR Protoc. 2021 Dec 17;2(4):100845. doi: 10.1016/j.xpro.2021.100845. eCollection 2021 Dec 17. PubMed PMID: 34604813; PubMed Central PMCID: PMC8473578.

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Suresh B, Saminathan A, Chakraborty K, Zajac M, Cui C, Becker L, Krishnan Y. Tubular lysosomes harbor active ion gradients and poise macrophages for phagocytosis. Proc Natl Acad Sci U S A. 2021 Oct 12;118(41). doi: 10.1073/pnas.2113174118. PubMed PMID: 34607961; PubMed Central PMCID: PMC8522270.

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Cui C, Chakraborty K, Tang XA, Schoenfelt KQ, Hoffman A, Blank A, McBeth B, Pulliam N, Reardon CA, Kulkarni SA, Vaisar T, Ballabio A, Krishnan Y, Becker L. A lysosome-targeted DNA nanodevice selectively targets macrophages to attenuate tumours. Nat Nanotechnol. 2021 Dec;16(12):1394-1402. doi: 10.1038/s41565-021-00988-z. Epub 2021 Nov 11. PubMed PMID: 34764452.

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Moreno-Yruela C, Zhang D, Wei W, Bæk M, Liu W, Gao J, Danková D, Nielsen AL, Bolding JE, Yang L, Jameson ST, Wong J, Olsen CA, Zhao Y. Class I histone deacetylases (HDAC1-3) are histone lysine delactylases. Sci Adv. 2022 Jan 21;8(3):eabi6696. doi: 10.1126/sciadv.abi6696. Epub 2022 Jan 19. PubMed PMID: 35044827; PubMed Central PMCID: PMC8769552.

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Ameka MK, Beavers WN, Shaver CM, Ware LB, Kerchberger VE, Schoenfelt KQ, Sun L, Koyama T, Skaar EP, Becker L, Hasty AH. An Iron Refractory Phenotype in Obese Adipose Tissue Macrophages Leads to Adipocyte Iron Overload. Int J Mol Sci. 2022 Jul 3;23(13). doi: 10.3390/ijms23137417. PubMed PMID: 35806422; PubMed Central PMCID: PMC9267114.

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Gao J, Sheng X, Du J, Zhang D, Han C, Chen Y, Wang C, Zhao Y. Identification of 113 new histone marks by CHiMA, a tailored database search strategy. Sci Adv. 2023 Apr 5;9(14):eadf1416. doi: 10.1126/sciadv.adf1416. Epub 2023 Apr 5. PubMed PMID: 37018393; PubMed Central PMCID: PMC10075957.

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Yuan H, Wu X, Wu Q, Chatoff A, Megill E, Gao J, Huang T, Duan T, Yang K, Jin C, Yuan F, Wang S, Zhao L, Zinn PO, Abdullah KG, Zhao Y, Snyder NW, Rich JN. Lysine catabolism reprograms tumour immunity through histone crotonylation. Nature. 2023 May;617(7962):818-826. doi: 10.1038/s41586-023-06061-0. Epub 2023 May 17. PubMed PMID: 37198486; PubMed Central PMCID: PMC11089809.

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Gao Y, Sheng X, Tan D, Kim S, Choi S, Paudel S, Lee T, Yan C, Tan M, Kim KM, Cho SS, Ki SH, Huang H, Zhao Y, Lee S. Identification of Histone Lysine Acetoacetylation as a Dynamic Post-Translational Modification Regulated by HBO1. Adv Sci (Weinh). 2023 Sep;10(25):e2300032. doi: 10.1002/advs.202300032. Epub 2023 Jun 29. PubMed PMID: 37382194; PubMed Central PMCID: PMC10477889.

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Zhang D, Gao J, Zhu Z, Mao Q, Xu Z, Singh PK, Rimayi CC, Moreno-Yruela C, Xu S, Li G, Sin YC, Chen Y, Olsen CA, Snyder NW, Dai L, Li L, Zhao Y. Lysine L-lactylation is the dominant lactylation isomer induced by glycolysis. Nat Chem Biol. 2025 Jan;21(1):91-99. doi: 10.1038/s41589-024-01680-8. Epub 2024 Jul 19. PubMed PMID: 39030363; PubMed Central PMCID: PMC11666458.