Patrick M. Lombardi, Ph.D. - Related publications

Johns Hopkins University School of Medicine, Baltimore, MD, United States 
structure-mechanism of hydrolytic metalloenzymes
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50 most relevant papers in past 60 days:
Year Citation  Score
2021 Zhang J, Lu X, MoghaddamKohi S, Shi L, Xu X, Zhu WG. Histone lysine modifying enzymes and their critical roles in DNA double-strand break repair. Dna Repair. 107: 103206. PMID 34411909 DOI: 10.1016/j.dnarep.2021.103206   
2021 Chanou A, Hamperl S. Single-Molecule Techniques to Study Chromatin. Frontiers in Cell and Developmental Biology. 9: 699771. PMID 34291054 DOI: 10.3389/fcell.2021.699771   
2021 Arimura Y, Shih RM, Froom R, Funabiki H. Structural features of nucleosomes in interphase and metaphase chromosomes. Molecular Cell. PMID 34478647 DOI: 10.1016/j.molcel.2021.08.010   
2021 Peng Y, Li S, Onufriev A, Landsman D, Panchenko AR. Binding of regulatory proteins to nucleosomes is modulated by dynamic histone tails. Nature Communications. 12: 5280. PMID 34489435 DOI: 10.1038/s41467-021-25568-6   
2021 Stirpe A, Guidotti N, Northall SJ, Kilic S, Hainard A, Vadas O, Fierz B, Schalch T. SUV39 SET domains mediate crosstalk of heterochromatic histone marks. Elife. 10. PMID 34524082 DOI: 10.7554/eLife.62682   
2021 Sears TK, Horbinski CM, Woolard KD. IDH1 mutant glioma is preferentially sensitive to the HDAC inhibitor panobinostat. Journal of Neuro-Oncology. PMID 34424450 DOI: 10.1007/s11060-021-03829-0   
2021 Fu I, Geacintov NE, Broyde S. Molecular dynamics simulations reveal how H3K56 acetylation impacts nucleosome structure to promote DNA exposure for lesion sensing. Dna Repair. 107: 103201. PMID 34399316 DOI: 10.1016/j.dnarep.2021.103201   
2021 Du W, Pan D, Xiang P, Xiong C, Zhang M, Zhang Q, Tian Y, Zhang Z, Chen B, Luo K, Gong Q, Tian X. Terpyridine Zn(II) Complexes with Azide Units for Visualization of Histone Deacetylation in Living Cells under STED Nanoscopy. Acs Sensors. PMID 34498846 DOI: 10.1021/acssensors.1c01287   
2021 McGinty RK, Tan S. Principles of nucleosome recognition by chromatin factors and enzymes. Current Opinion in Structural Biology. 71: 16-26. PMID 34198054 DOI: 10.1016/   
2021 McGinty RK, Tan S. Principles of nucleosome recognition by chromatin factors and enzymes. Current Opinion in Structural Biology. 71: 16-26. PMID 34198054 DOI: 10.1016/   
2021 Sinha S, Molla S, Kundu CN. PARP1-modulated chromatin remodeling is a new target for cancer treatment. Medical Oncology (Northwood, London, England). 38: 118. PMID 34432161 DOI: 10.1007/s12032-021-01570-2   
2021 Mohan C, Das C, Tyler J. Histone and Chromatin Dynamics Facilitating DNA repair. Dna Repair. 107: 103183. PMID 34419698 DOI: 10.1016/j.dnarep.2021.103183   
2021 Jing Y, Tian G, Qin X, Liu Z, Li XD. Lysine succinylation on non-histone chromosomal protein HMG-17 (HMGN2) regulates nucleosomal DNA accessibility by disrupting the HMGN2-nucleosome association. Rsc Chemical Biology. 2: 1257-1262. PMID 34458839 DOI: 10.1039/d1cb00070e   
2021 Swift ML, Beishline K, Azizkhan-Clifford J. Sp1-dependent recruitment of the histone acetylase p300 to DSBs facilitates chromatin remodeling and recruitment of the NHEJ repair factor Ku70. Dna Repair. 105: 103171. PMID 34252870 DOI: 10.1016/j.dnarep.2021.103171   
2021 Mashtalir N, Dao HT, Sankar A, Liu H, Corin AJ, Bagert JD, Ge EJ, D'Avino AR, Filipovski M, Michel BC, Dann GP, Muir TW, Kadoch C. Chromatin landscape signals differentially dictate the activities of mSWI/SNF family complexes. Science (New York, N.Y.). 373: 306-315. PMID 34437148 DOI: 10.1126/science.abf8705   
2021 Thakre PK, Sahu RK, Tomar RS. Substitution of histone H3 arginine 72 to alanine leads to deregulation of isoleucine biosynthesis in budding yeast Saccharomyces cerevisiae. Biochemistry and Cell Biology = Biochimie Et Biologie Cellulaire. PMID 33843274 DOI: 10.1139/bcb-2020-0651   
2021 Staneva DP, Carloni R, Auchynnikava T, Tong P, Arulanandam JA, Rappsilber J, Matthews KR, Allshire RC. A systematic analysis of chromatin factors identifies novel protein interaction networks associated with sites of transcription initiation and termination. Genome Research. PMID 34407985 DOI: 10.1101/gr.275368.121   
2021 Enríquez P, Krajewski K, Strahl BD, Rothbart SB, Dowen RH, Rose RB. Binding specificity and function of the SWI/SNF subunit SMARCA4 bromodomain interaction with acetylated histone H3K14. The Journal of Biological Chemistry. 101145. PMID 34473995 DOI: 10.1016/j.jbc.2021.101145   
2021 Sato S, Takizawa Y, Hoshikawa F, Dacher M, Tanaka H, Tachiwana H, Kujirai T, Iikura Y, Ho CH, Adachi N, Patwal I, Flaus A, Kurumizaka H. Cryo-EM structure of the nucleosome core particle containing Giardia lamblia histones. Nucleic Acids Research. PMID 34352093 DOI: 10.1093/nar/gkab644   
2021 Ortega P, Gómez-González B, Aguilera A. Heterogeneity of DNA damage incidence and repair in different chromatin contexts. Dna Repair. 107: 103210. PMID 34416542 DOI: 10.1016/j.dnarep.2021.103210   
2021 Fulton MD, Cao M, Ho MC, Zhao X, Zheng YG. The Macromolecular Complexes of Histones Affect Protein Arginine Methyltransferase Activities. The Journal of Biological Chemistry. 101123. PMID 34492270 DOI: 10.1016/j.jbc.2021.101123   
2021 Kim JM, Visanpattanasin P, Jou V, Liu S, Tang X, Zheng Q, Li KY, Snedeker J, Lavis LD, Lionnet T, Wu C. Single-molecule imaging of chromatin remodelers reveals role of ATPase in promoting fast kinetics of target search and dissociation from chromatin. Elife. 10. PMID 34313223 DOI: 10.7554/eLife.69387   
2021 Roberts GA, Ozkan B, Gachulincová I, O'Dwyer MR, Hall-Ponsele E, Saxena M, Robinson PJ, Soufi A. Dissecting OCT4 defines the role of nucleosome binding in pluripotency. Nature Cell Biology. 23: 834-845. PMID 34354236 DOI: 10.1038/s41556-021-00727-5   
2021 Becker JR, Clifford G, Bonnet C, Groth A, Wilson MD, Chapman JR. BARD1 reads H2A lysine 15 ubiquitination to direct homologous recombination. Nature. PMID 34321663 DOI: 10.1038/s41586-021-03776-w   
2021 Sun H, Wang Y, Wang Y, Ji F, Wang A, Yang M, He X, Li L. Bivalent Regulation and Related Mechanisms of H3K4/27/9me3 in Stem Cells. Stem Cell Reviews and Reports. PMID 34417934 DOI: 10.1007/s12015-021-10234-7   
2021 Jeronimo C, Angel A, Nguyen VQ, Kim JM, Poitras C, Lambert E, Collin P, Mellor J, Wu C, Robert F. FACT is recruited to the +1 nucleosome of transcribed genes and spreads in a Chd1-dependent manner. Molecular Cell. PMID 34380014 DOI: 10.1016/j.molcel.2021.07.010   
2021 Hananya N, Daley SK, Bagert JD, Muir TW. Synthesis of ADP-Ribosylated Histones Reveals Site-Specific Impacts on Chromatin Structure and Function. Journal of the American Chemical Society. 143: 10847-10852. PMID 34264659 DOI: 10.1021/jacs.1c05429   
2021 Tamburri S, Conway E, Pasini D. Polycomb-dependent histone H2A ubiquitination links developmental disorders with cancer. Trends in Genetics : Tig. PMID 34426021 DOI: 10.1016/j.tig.2021.07.011   
2021 Casari E, Gobbini E, Gnugnoli M, Mangiagalli M, Clerici M, Longhese MP. Dpb4 promotes resection of DNA double-strand breaks and checkpoint activation by acting in two different protein complexes. Nature Communications. 12: 4750. PMID 34362907 DOI: 10.1038/s41467-021-25090-9   
2021 Zhang Y, Brown K, Yu Y, Ibrahim Z, Zandian M, Xuan H, Ingersoll S, Lee T, Ebmeier CC, Liu J, Panne D, Shi X, Ren X, Kutateladze TG. Nuclear condensates of p300 formed though the structured catalytic core can act as a storage pool of p300 with reduced HAT activity. Nature Communications. 12: 4618. PMID 34326347 DOI: 10.1038/s41467-021-24950-8   
2021 Höllmüller E, Greiner K, Kienle SM, Scheffner M, Marx A, Stengel F. Interactome of Site-Specifically Acetylated Linker Histone H1. Journal of Proteome Research. PMID 34351766 DOI: 10.1021/acs.jproteome.1c00396   
2021 Boyson SP, Gao C, Quinn K, Boyd J, Paculova H, Frietze S, Glass KC. Functional Roles of Bromodomain Proteins in Cancer. Cancers. 13. PMID 34298819 DOI: 10.3390/cancers13143606   
2021 Sudhamalla B, Barman S, Roy A, Bardhan I, Kandasamy T, Shivani S. Insights into the Molecular Mechanisms of Histone Code Recognition by the BRPF3 Bromodomain. Chemistry, An Asian Journal. PMID 34448544 DOI: 10.1002/asia.202100793   
2021 Cheung KL, Kim C, Zhou MM. The Functions of BET Proteins in Gene Transcription of Biology and Diseases. Frontiers in Molecular Biosciences. 8: 728777. PMID 34540900 DOI: 10.3389/fmolb.2021.728777   
2021 Hu Q, Botuyan MV, Zhao D, Cui G, Mer E, Mer G. Mechanisms of BRCA1-BARD1 nucleosome recognition and ubiquitylation. Nature. PMID 34321665 DOI: 10.1038/s41586-021-03716-8   
2021 Brandani GB, Tan C, Takada S. The kinetic landscape of nucleosome assembly: A coarse-grained molecular dynamics study. Plos Computational Biology. 17: e1009253. PMID 34314440 DOI: 10.1371/journal.pcbi.1009253   
2021 Yu Y, Wen H, Shi X. Histone mimics: more tales to read. The Biochemical Journal. 478: 2789-2791. PMID 34297041 DOI: 10.1042/BCJ20210357   
2021 Chen Z, Zhang Y, Guan Q, Zhang H, Luo J, Li J, Wei W, Xu X, Liao L, Wong J, Li J. Linking nuclear matrix-localized PIAS1 to chromatin SUMOylation via direct binding of histones H3 and H2A.Z. The Journal of Biological Chemistry. 101200. PMID 34537242 DOI: 10.1016/j.jbc.2021.101200   
2021 Raas MWD, Zijlmans DW, Vermeulen M, Marks H. There is another: H3K27me3-mediated genomic imprinting. Trends in Genetics : Tig. PMID 34304914 DOI: 10.1016/j.tig.2021.06.017   
2021 VonHandorf A, Zablon HA, Puga A. Hexavalent chromium disrupts chromatin architecture. Seminars in Cancer Biology. PMID 34274487 DOI: 10.1016/j.semcancer.2021.07.009   
2021 Chacin E, Bansal P, Reusswig KU, Diaz-Santin LM, Ortega P, Vizjak P, Gómez-González B, Müller-Planitz F, Aguilera A, Pfander B, Cheung ACM, Kurat CF. A CDK-regulated chromatin segregase promoting chromosome replication. Nature Communications. 12: 5224. PMID 34471130 DOI: 10.1038/s41467-021-25424-7   
2021 Gao M, Wang J, Rousseaux S, Tan M, Pan L, Peng L, Wang S, Xu W, Ren J, Liu Y, Spinck M, Barral S, Wang T, Chuffart F, Bourova-Flin E, et al. Metabolically controlled histone H4K5 acylation/acetylation ratio drives BRD4 genomic distribution. Cell Reports. 36: 109460. PMID 34320364 DOI: 10.1016/j.celrep.2021.109460   
2021 Lian Y, Hao H, Xu J, Bo T, Liang A, Wang W. The histone chaperone Nrp1 is required for chromatin stability and nuclear division in Tetrahymena thermophila. Epigenetics & Chromatin. 14: 34. PMID 34301312 DOI: 10.1186/s13072-021-00409-4   
2021 Zhou Z, Yan R, Jiang W, Irudayaraj JMK. Chromatin hierarchical branching visualized at the nanoscale by electron microscopy. Nanoscale Advances. 3: 1019-1028. PMID 34381959 DOI: 10.1039/d0na00359j   
2021 Li RG, Deng H, Liu XH, Chen ZY, Wan SS, Wang L. Histone Methyltransferase G9a Promotes the Development of Renal Cancer through Epigenetic Silencing of Tumor Suppressor Gene SPINK5. Oxidative Medicine and Cellular Longevity. 2021: 6650781. PMID 34336110 DOI: 10.1155/2021/6650781   
2021 Chapski DJ, Cabaj M, Morselli M, Mason RJ, Soehalim E, Ren S, Pellegrini M, Wang Y, Vondriska TM, Rosa-Garrido M. Early adaptive chromatin remodeling events precede pathologic phenotypes and are reinforced in the failing heart. Journal of Molecular and Cellular Cardiology. 160: 73-86. PMID 34273410 DOI: 10.1016/j.yjmcc.2021.07.002   
2021 Chen M, Foster JP, Lock IC, Leisenring NH, Daniel AR, Floyd W, Xu E, Davis IJ, Kirsch DG. Radiation-induced phosphorylation of a prion-like domain regulates transformation by FUS-CHOP. Cancer Research. PMID 34385184 DOI: 10.1158/0008-5472.CAN-20-1497   
2021 Rudolf EE, Hüther P, Forné I, Georgii E, Han Y, Hell R, Wirtz M, Imhof A, Becker C, Durner J, Lindermayr C. GSNOR Contributes to Demethylation and Expression of Transposable Elements and Stress-Responsive Genes. Antioxidants (Basel, Switzerland). 10. PMID 34356361 DOI: 10.3390/antiox10071128   
2021 Jos S, Gogoi H, Prasad TK, Hurakadli MA, Kamariah N, Padmanabhan B, Padavattan S. Molecular insights into α-synuclein interaction with individual human core histones, linker histone, and dsDNA. Protein Science : a Publication of the Protein Society. 30: 2121-2131. PMID 34382268 DOI: 10.1002/pro.4167   
2021 Rakshit S, Sunny JS, George M, Hanna LE, Sarkar K. R-loop modulated epigenetic regulation in T helper cells mechanistically associates coronary artery disease and non-small cell lung cancer. Translational Oncology. 14: 101189. PMID 34343853 DOI: 10.1016/j.tranon.2021.101189