Jonathan Nye - Related publications

Affiliations: 
2014-2018 National Institute for Allergy and Infectious Diseases 
NOTE: We are testing a new system for identifying relevant work based on semantic analysis that identifies similarities between recently published papers and the current author's publications. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches.
50 most relevant papers in past 60 days:
Year Citation  Score
2021 Reddy D, Bhattacharya S, Shah S, Rashid M, Gupta S. DNA methylation mediated downregulation of histone H3 variant H3.3 affects cell proliferation contributing to the development of HCC. Biochimica Et Biophysica Acta. Molecular Basis of Disease. 1868: 166284. PMID 34626773 DOI: 10.1016/j.bbadis.2021.166284   
2021 Zaib S, Rana N, Khan I. Histone modifications and their role in epigenetics of cancer. Current Medicinal Chemistry. PMID 34749606 DOI: 10.2174/0929867328666211108105214   
2021 Hogan AK, Sathyan KM, Willis AB, Khurana S, Srivastava S, Zasadzińska E, Lee AS, Bailey AO, Gaynes MN, Huang J, Bodner J, Rosencrance CD, Wong KA, Morgan MA, Eagen KP, et al. UBR7 acts as a histone chaperone for post-nucleosomal histone H3. The Embo Journal. e108307. PMID 34786730 DOI: 10.15252/embj.2021108307   
2021 Bhagwat M, Nagar S, Kaur P, Mehta R, Vancurova I, Vancura A. Replication stress inhibits synthesis of histone mRNAs in yeast by removing Spt10p and Spt21p from the histone promoters. The Journal of Biological Chemistry. 101246. PMID 34582893 DOI: 10.1016/j.jbc.2021.101246   
2021 Kumar VC, Pai R. Genes of the month: H3.3 histone genes: H3F3A and H3F3B. Journal of Clinical Pathology. PMID 34667098 DOI: 10.1136/jclinpath-2021-207857   
2021 Gautam P, Sharma A, Bhatnagar A. Global histone modification analysis reveals hypoacetylated H3 and H4 histones in B Cells from systemic lupus erythematosus patients. Immunology Letters. 240: 41-45. PMID 34614442 DOI: 10.1016/j.imlet.2021.09.007   
2021 Van Rechem C, Ji F, Chakraborty D, Black JC, Sadreyev RI, Whetstine JR. Collective regulation of chromatin modifications predicts replication timing during cell cycle. Cell Reports. 37: 109799. PMID 34610305 DOI: 10.1016/j.celrep.2021.109799   
2021 Shen CH, Allan J. MNase Digestion Protection Patterns of the Linker DNA in Chromatosomes. Cells. 10. PMID 34571888 DOI: 10.3390/cells10092239   
2021 Leonen CJA, Shimada M, Weller CE, Nakadai T, Hsu PL, Tyson EL, Mishra A, Shelton PMM, Sadilek M, Hawkins RD, Zheng N, Roeder RG, Chatterjee C. Sumoylation of the human histone H4 tail inhibits p300-mediated transcription by RNA polymerase II in cellular extracts. Elife. 10. PMID 34747692 DOI: 10.7554/eLife.67952   
2021 Swygert SG, Lin D, Portillo-Ledesma S, Lin PY, Hunt DR, Kao CF, Schlick T, Noble WS, Tsukiyama T. Local chromatin fiber folding represses transcription and loop extrusion in quiescent cells. Elife. 10. PMID 34734806 DOI: 10.7554/eLife.72062   
2021 Galloy M, Lachance C, Cheng X, Distéfano-Gagné F, Côté J, Fradet-Turcotte A. Approaches to Study Native Chromatin-Modifying Complex Activities and Functions. Frontiers in Cell and Developmental Biology. 9: 729338. PMID 34604228 DOI: 10.3389/fcell.2021.729338   
2021 Liu CP, Jin W, Hu J, Wang M, Chen J, Li G, Xu RM. Distinct histone H3-H4 binding modes of sNASP reveal the basis for cooperation and competition of histone chaperones. Genes & Development. PMID 34819355 DOI: 10.1101/gad.349100.121   
2021 Roopa, Priya B, Bhalla V, Kumar M, Kumar N. Fluorescent molecular probe-based activity and inhibition monitoring of histone deacetylases. Chemical Communications (Cambridge, England). 57: 11153-11164. PMID 34613324 DOI: 10.1039/d1cc04034k   
2021 Popova LV, Nagarajan P, Lovejoy CM, Sunkel BD, Gardner ML, Wang M, Freitas MA, Stanton BZ, Parthun MR. Epigenetic regulation of nuclear lamina-associated heterochromatin by HAT1 and the acetylation of newly synthesized histones. Nucleic Acids Research. PMID 34788845 DOI: 10.1093/nar/gkab1044   
2021 Choi J, Ryoo ZY, Cho DH, Lee HS, Ryu HY. Trans-tail regulation-mediated suppression of cryptic transcription. Experimental & Molecular Medicine. PMID 34845331 DOI: 10.1038/s12276-021-00711-x   
2021 Poulet A, Mishra LN, Téletchéa S, Hayes JJ, Jacob Y, Thiriet C, Duc C. Identification and characterization of histones in evidence a phylogenetic vicinity of Mycetozoans to the animal kingdom. Nar Genomics and Bioinformatics. 3: lqab107. PMID 34805990 DOI: 10.1093/nargab/lqab107   
2021 Chen B, Ali S, Zhang X, Zhang Y, Wang M, Zhang Q, Xie L. Genome-wide identification, classification, and expression analysis of the JmjC domain-containing histone demethylase gene family in birch. Bmc Genomics. 22: 772. PMID 34711171 DOI: 10.1186/s12864-021-08063-6   
2021 Xiao C, Fan T, Tian H, Zheng Y, Zhou Z, Li S, Li C, He J. H3K36 trimethylation-mediated biological functions in cancer. Clinical Epigenetics. 13: 199. PMID 34715919 DOI: 10.1186/s13148-021-01187-2   
2021 Fletcher A, Zhao R, Enciso G. Non-cooperative mechanism for bounded and ultrasensitive chromatin remodeling. Journal of Theoretical Biology. 110946. PMID 34717936 DOI: 10.1016/j.jtbi.2021.110946   
2021 Palli SR. Epigenetic regulation of post-embryonic development. Current Opinion in Insect Science. 43: 63-69. PMID 33068783 DOI: 10.1016/j.cois.2020.09.011   
2021 Matsui H, Iriyama T, Sayama S, Inaoka N, Suzuki K, Yoshikawa M, Ichinose M, Sone K, Kumasawa K, Nagamatsu T, Fujisawa T, Naguro I, Ichijo H, Fujii T, Osuga Y. Elevated placental histone H3K4 methylation via upregulated histone methyltransferases SETD1A and SMYD3 in preeclampsia and its possible involvement in hypoxia-induced pathophysiological process. Placenta. 115: 60-69. PMID 34560329 DOI: 10.1016/j.placenta.2021.09.009   
2021 Shirra MK, Kocik RA, Ellison MA, Arndt KM. Opposing functions of the Hda1 complex and histone H2B mono-ubiquitylation in regulating cryptic transcription in Saccharomyces cerevisiae. G3 (Bethesda, Md.). PMID 34499735 DOI: 10.1093/g3journal/jkab298   
2021 Morgunova E, Taipale J. Structural insights into the interaction between transcription factors and the nucleosome. Current Opinion in Structural Biology. 71: 171-179. PMID 34364091 DOI: 10.1016/j.sbi.2021.06.016   
2021 Min S, Lee HS, Ji JH, Heo Y, Kim Y, Chae S, Choi YW, Kang HC, Nakanishi M, Cho H. The chromatin remodeler RSF1 coordinates epigenetic marks for transcriptional repression and DSB repair. Nucleic Acids Research. PMID 34850117 DOI: 10.1093/nar/gkab1093   
2021 Chakraborty U, Shen ZJ, Tyler J. Chaperoning histones at the DNA repair dance. Dna Repair. 108: 103240. PMID 34687987 DOI: 10.1016/j.dnarep.2021.103240   
2021 Lewis TS, Sokolova V, Jung H, Ng H, Tan D. Structural basis of chromatin regulation by histone variant H2A.Z. Nucleic Acids Research. PMID 34643712 DOI: 10.1093/nar/gkab907   
2021 Zhao F, Zhang H, Zhao T, Li Z, Jiang D. The histone variant H3.3 promotes the active chromatin state to repress flowering in Arabidopsis. Plant Physiology. 186: 2051-2063. PMID 34618105 DOI: 10.1093/plphys/kiab224   
2021 Murawska M, Greenstein RA, Schauer T, Olsen KCF, Ng H, Ladurner AG, Al-Sady B, Braun S. The histone chaperone FACT facilitates heterochromatin spreading by regulating histone turnover and H3K9 methylation states. Cell Reports. 37: 109944. PMID 34731638 DOI: 10.1016/j.celrep.2021.109944   
2021 Tian H, Yang J, Guo AD, Ran Y, Yang YZ, Yang B, Huang R, Liu H, Chen XH. Genetically Encoded Benzoyllysines Serve as Versatile Probes for Interrogating Histone Benzoylation and Interactions in Living Cells. Acs Chemical Biology. PMID 34618427 DOI: 10.1021/acschembio.1c00614   
2021 Zhao H, Guo M, Zhang F, Shao X, Liu G, Xing Y, Zhao X, Luo L, Cai L. Nucleosome Assembly and Disassembly Are Governed by Chemical Kinetic Principles. Frontiers in Cell and Developmental Biology. 9: 762571. PMID 34692710 DOI: 10.3389/fcell.2021.762571   
2021 Ding Q, Edwards MM, Wang N, Zhu X, Bracci AN, Hulke ML, Hu Y, Tong Y, Hsiao J, Charvet CJ, Ghosh S, Handsaker RE, Eggan K, Merkle FT, Gerhardt J, et al. The genetic architecture of DNA replication timing in human pluripotent stem cells. Nature Communications. 12: 6746. PMID 34799581 DOI: 10.1038/s41467-021-27115-9   
2021 Nakabayashi Y, Seki M. Transcription destabilizes centromere function. Biochemical and Biophysical Research Communications. 586: 150-156. PMID 34844121 DOI: 10.1016/j.bbrc.2021.11.077   
2021 Aldera AP, Govender D. Gene of the month: H3F3A and H3F3B. Journal of Clinical Pathology. PMID 34782425 DOI: 10.1136/jclinpath-2021-207751   
2021 Bajbouj K, Al-Ali A, Ramakrishnan RK, Saber-Ayad M, Hamid Q. Histone Modification in NSCLC: Molecular Mechanisms and Therapeutic Targets. International Journal of Molecular Sciences. 22. PMID 34769131 DOI: 10.3390/ijms222111701   
2021 Huckriede J, de Vries F, Hultström M, Wichapong K, Reutelingsperger C, Lipcsey M, Garcia de Frutos P, Frithiof R, Nicolaes GAF. Histone H3 Cleavage in Severe COVID-19 ICU Patients. Frontiers in Cellular and Infection Microbiology. 11: 694186. PMID 34568088 DOI: 10.3389/fcimb.2021.694186   
2021 Lai D, Huang X, Wang C, Ow DW. Arabidopsis OXIDATIVE STRESS 3 enhances stress tolerance in Schizosaccharomyces pombe by promoting histone subunit replacement that upregulates drug-resistant genes. Genetics. 219. PMID 34740252 DOI: 10.1093/genetics/iyab149   
2021 Marcel SS, Quimby AL, Noel MP, Jaimes OC, Mehrab-Mohseni M, Ashur SA, Velasco B, Tsuruta JK, Kasoji SK, Santos CM, Dayton PA, Parker JS, Davis IJ, Pattenden SG. Genome-wide cancer-specific chromatin accessibility patterns derived from archival processed xenograft tumors. Genome Research. PMID 34815311 DOI: 10.1101/gr.275219.121   
2021 Wu DY, Li X, Sun QR, Dou CL, Xu T, He H, Luo H, Fu H, Bu GW, Luo B, Zhang X, Ma BG, Peng C, Miao YL. Defective chromatin architectures in embryonic stem cells derived from somatic cell nuclear transfer impair their differentiation potentials. Cell Death & Disease. 12: 1085. PMID 34785659 DOI: 10.1038/s41419-021-04384-2   
2021 Khilji S, Li Y, Chen J, Li Q. Multi-Omics Approach to Dissect the Mechanisms of Rexinoid Signaling in Myoblast Differentiation. Frontiers in Pharmacology. 12: 746513. PMID 34603059 DOI: 10.3389/fphar.2021.746513   
2021 Yun HS, Lee J, Kim JY, Sim YJ, Lee CW, Park JK, Kim JS, Ahn J, Song JY, Baek JH, Hwang SG. A novel function of HRP-3 in regulating cell cycle progression via the HDAC-E2F1-Cyclin E pathway in lung cancer. Cancer Science. PMID 34714604 DOI: 10.1111/cas.15183   
2021 Rippe K. Liquid-Liquid Phase Separation in Chromatin. Cold Spring Harbor Perspectives in Biology. PMID 34127447 DOI: 10.1101/cshperspect.a040683   
2021 Ding H, Pei Y, Li Y, Xu W, Mei L, Hou Z, Guang Y, Cao L, Li P, Cao H, Bian J, Chen K, Luo C, Zhou B, Zhang T, et al. Design, synthesis and biological evaluation of a novel spiro oxazolidinedione as potent p300/CBP HAT inhibitor for the treatment of ovarian cancer. Bioorganic & Medicinal Chemistry. 52: 116512. PMID 34801827 DOI: 10.1016/j.bmc.2021.116512   
2021 Bennett SA, Cobos SN, Mirzakandova M, Fallah M, Son E, Angelakakis G, Rana N, Hugais M, Torrente MP. Trichostatin A Relieves Growth Suppression and Restores Histone Acetylation at Specific Sites in a FUS ALS/FTD Yeast Model. Biochemistry. PMID 34788013 DOI: 10.1021/acs.biochem.1c00455   
2021 Jo H, Kim T, Chun Y, Jung I, Lee D. A compendium of chromatin contact maps reflecting regulation by chromatin remodelers in budding yeast. Nature Communications. 12: 6380. PMID 34737268 DOI: 10.1038/s41467-021-26629-6   
2021 Wang S, Xiang T, Yu L, Wen J, Liu F, Yang D, Wu W, Hu L. Novel Molecular Subtypes and Related Score Based on Histone Acetylation Modification in Renal Clear Cell Carcinoma. Frontiers in Cell and Developmental Biology. 9: 668810. PMID 34631694 DOI: 10.3389/fcell.2021.668810   
2021 Bočkaj I, Martini TEI, de Camargo Magalhães ES, Bakker PL, Meeuwsen-de Boer TGJ, Armandari I, Meuleman SL, Mondria MT, Stok C, Kok YP, Bakker B, Wardenaar R, Seiler J, Broekhuis MJC, van den Bos H, et al. The H3.3K27M oncohistone affects replication stress outcome and provokes genomic instability in pediatric glioma. Plos Genetics. 17: e1009868. PMID 34752469 DOI: 10.1371/journal.pgen.1009868   
2021 Gao S, Zeng X, Wang J, Xu Y, Yu C, Huang Y, Wang F, Wu K, Yang S. SUMO E3 Ligase SIZ1 Interacts with HDA6 and Negatively Regulates HDA6 Function during Flowering. Cells. 10. PMID 34831226 DOI: 10.3390/cells10113001   
2021 Bates DA, Bates CE, Earl AS, Skousen C, Fetbrandt AN, Ritchie J, Bodily PM, Johnson SM. Proximal-end bias from in-vitro reconstituted nucleosomes and the result on downstream data analysis. Plos One. 16: e0258737. PMID 34673804 DOI: 10.1371/journal.pone.0258737   
2021 Xiao W, Zhou Q, Wen X, Wang R, Liu R, Wang T, Shi J, Hu Y, Hou J. Small-Molecule Inhibitors Overcome Epigenetic Reprogramming for Cancer Therapy. Frontiers in Pharmacology. 12: 702360. PMID 34603017 DOI: 10.3389/fphar.2021.702360   
2021 Hervás-Corpión I, Gallardo-Orihuela A, Catalina-Fernández I, Iglesias-Lozano I, Soto-Torres O, Geribaldi-Doldán N, Domínguez-García S, Luna-García N, Romero-García R, Mora-López F, Iriarte-Gahete M, Morales JC, Campos-Caro A, Castro C, Gil-Salú JL, et al. Potential Diagnostic Value of the Differential Expression of Histone H3 Variants between Low- and High-Grade Gliomas. Cancers. 13. PMID 34771425 DOI: 10.3390/cancers13215261