Chuong D. Pham, Ph.D. - Related publications

2010 Biochemistry Sackler School of Graduate Biomedical Sciences (Tufts University) 
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50 most relevant papers in past 60 days:
Year Citation  Score
2020 Formosa T, Winston F. The role of FACT in managing chromatin: disruption, assembly, or repair? Nucleic Acids Research. PMID 33104782 DOI: 10.1093/nar/gkaa912   
2020 Papin C, Le Gras S, Ibrahim A, Salem H, Karimi MM, Stoll I, Ugrinova I, Schröder M, Fontaine-Pelletier E, Omran Z, Bronner C, Dimitrov S, Hamiche A. CpG Islands Shape the Epigenome Landscape. Journal of Molecular Biology. PMID 33010306 DOI: 10.1016/j.jmb.2020.09.018   
2020 Cusack M, King HW, Spingardi P, Kessler BM, Klose RJ, Kriaucionis S. Distinct contributions of DNA methylation and histone acetylation to the genomic occupancy of transcription factors. Genome Research. 30: 1393-1406. PMID 32963030 DOI: 10.1101/gr.257576.119   
2020 Navarro C, Lyu J, Katsori AM, Caridha R, Elsässer SJ. An embryonic stem cell-specific heterochromatin state promotes core histone exchange in the absence of DNA accessibility. Nature Communications. 11: 5095. PMID 33037201 DOI: 10.1038/s41467-020-18863-1   
2020 Li G, Tian Y, Zhu WG. The Roles of Histone Deacetylases and Their Inhibitors in Cancer Therapy. Frontiers in Cell and Developmental Biology. 8: 576946. PMID 33117804 DOI: 10.3389/fcell.2020.576946   
2020 Zaret KS. Pioneer Transcription Factors Initiating Gene Network Changes. Annual Review of Genetics. PMID 32886547 DOI: 10.1146/annurev-genet-030220-015007   
2020 Francis NJ, Sihou D. Inheritance of Histone (H3/H4): A Binary Choice? Trends in Biochemical Sciences. PMID 32917507 DOI: 10.1016/j.tibs.2020.08.009   
2020 Sato H, Singer RH, Greally JM. Quantitative Kinetic Analyses of Histone Turnover Using Imaging and Flow Cytometry. Bio-Protocol. 10. PMID 33043098 DOI: 10.21769/bioprotoc.3738   
2020 Abshiru NA, Sikora JW, Camarillo JM, Morris JA, Compton PD, Lee T, Neelamraju Y, Haddox S, Sheridan C, Carroll M, Cripe LD, Tallman MS, Paietta EM, Melnick AM, Thomas PM, et al. Targeted detection and quantitation of histone modifications from 1,000 cells. Plos One. 15: e0240829. PMID 33104722 DOI: 10.1371/journal.pone.0240829   
2020 Khadka J, Pesok A, Grafi G. Plant Histone HTB (H2B) Variants in Regulating Chromatin Structure and Function. Plants (Basel, Switzerland). 9. PMID 33113795 DOI: 10.3390/plants9111435   
2020 Greenfield G, McPherson S, Smith J, Mead A, Harrison C, Mills K, McMullin MF. Modification of the Histone Landscape with JAK Inhibition in Myeloproliferative Neoplasms. Cancers. 12. PMID 32962027 DOI: 10.3390/cancers12092669   
2020 Lee YH, Kim MS, Jeong H, Hagiwara A, Lee JS. Genome-wide identification and transcriptional modulation of histone variants and modification related genes in the low pH-exposed marine rotifer Brachionus koreanus. Comparative Biochemistry and Physiology. Part D, Genomics & Proteomics. 36: 100748. PMID 33032078 DOI: 10.1016/j.cbd.2020.100748   
2020 Akone SH, Ntie-Kang F, Stuhldreier F, Ewonkem MB, Noah AM, Mouelle SEM, Müller R. Natural Products Impacting DNA Methyltransferases and Histone Deacetylases. Frontiers in Pharmacology. 11: 992. PMID 32903500 DOI: 10.3389/fphar.2020.00992   
2020 Bhakat KK, Sengupta S, Mitra S. Fine-tuning of DNA base excision/strand break repair via acetylation. Dna Repair. 93: 102931. PMID 33087268 DOI: 10.1016/j.dnarep.2020.102931   
2020 Neve B, Jonckheere N, Vincent A, Van Seuningen I. Long non-coding RNAs: the tentacles of chromatin remodeler complexes. Cellular and Molecular Life Sciences : Cmls. PMID 33001247 DOI: 10.1007/s00018-020-03646-0   
2020 Kurup JT, Han Z, Jin W, Kidder BL. H4K20me3 methyltransferase SUV420H2 shapes the chromatin landscape of pluripotent embryonic stem cells. Development (Cambridge, England). PMID 33144397 DOI: 10.1242/dev.188516   
2020 Peng Y, Markov Y, Goncearenco A, Landsman D, Panchenko AR. Human histone interaction networks: an old concept, new trends. Journal of Molecular Biology. PMID 33098859 DOI: 10.1016/j.jmb.2020.10.018   
2020 Liu WH, Zheng J, Feldman JL, Klein MA, Kuznetsov VI, Peterson CL, Griffin PR, Denu JM. Multivalent interactions drive nucleosome binding and efficient chromatin deacetylation by SIRT6. Nature Communications. 11: 5244. PMID 33067423 DOI: 10.1038/s41467-020-19018-y   
2020 Kumagai A, Dunphy WG. Binding of the Treslin-MTBP Complex to Specific Regions of the Human Genome Promotes the Initiation of DNA Replication. Cell Reports. 32: 108178. PMID 32966791 DOI: 10.1016/j.celrep.2020.108178   
2020 Guzman F, Fazeli Y, Khuu M, Salcido K, Singh S, Benavente CA. Retinoblastoma Tumor Suppressor Protein Roles in Epigenetic Regulation. Cancers. 12. PMID 33003565 DOI: 10.3390/cancers12102807   
2020 Alvarez-Astudillo F, Garrido D, Varas-Godoy M, Gutiérrez JL, Villanueva RA, Loyola A. The histone variant H3.3 regulates the transcription of the hepatitis B virus. Annals of Hepatology. PMID 33007428 DOI: 10.1016/j.aohep.2020.09.005   
2020 Mossanen-Parsi A, Parisi D, Browne-Marke N, Bharudin I, Connell SR, Mayans O, Fucini P, Morozov IY, Caddick MX. Histone mRNA is subject to 3´ uridylation and re-adenylation in Aspergillus nidulans. Molecular Microbiology. PMID 33047379 DOI: 10.1111/mmi.14613   
2020 Mossanen-Parsi A, Parisi D, Browne-Marke N, Bharudin I, Connell SR, Mayans O, Fucini P, Morozov IY, Caddick MX. Histone mRNA is subject to 3´ uridylation and re-adenylation in Aspergillus nidulans. Molecular Microbiology. PMID 33047379 DOI: 10.1111/mmi.14613   
2020 Lutsik P, Baude A, Mancarella D, Öz S, Kühn A, Toth R, Hey J, Toprak UH, Lim J, Nguyen VH, Jiang C, Mayakonda A, Hartmann M, Rosemann F, Breuer K, et al. Globally altered epigenetic landscape and delayed osteogenic differentiation in H3.3-G34W-mutant giant cell tumor of bone. Nature Communications. 11: 5414. PMID 33110075 DOI: 10.1038/s41467-020-18955-y   
2020 Perreault AA, Brown JD, Venters BJ. Erythropoietin Regulates Transcription and YY1 Dynamics in a Pre-established Chromatin Architecture. Iscience. 23: 101583. PMID 33089097 DOI: 10.1016/j.isci.2020.101583   
2020 Lee HT, Oh S, Ro DH, Yoo H, Kwon YW. The Key Role of DNA Methylation and Histone Acetylation in Epigenetics of Atherosclerosis. Journal of Lipid and Atherosclerosis. 9: 419-434. PMID 33024734 DOI: 10.12997/jla.2020.9.3.419   
2020 Torné J, Ray-Gallet D, Boyarchuk E, Garnier M, Le Baccon P, Coulon A, Orsi GA, Almouzni G. Two HIRA-dependent pathways mediate H3.3 de novo deposition and recycling during transcription. Nature Structural & Molecular Biology. PMID 32895554 DOI: 10.1038/s41594-020-0492-7   
2020 Zhang Y, Jiang C, Trudeau SJ, Narita Y, Zhao B, Teng M, Guo R, Gewurz BE. Histone Loaders CAF1 and HIRA Restrict Epstein-Barr Virus B-Cell Lytic Reactivation. Mbio. 11. PMID 33109754 DOI: 10.1128/mBio.01063-20   
2020 Hao F, Murphy KJ, Kujirai T, Kamo N, Kato J, Koyama M, Okamato A, Hayashi G, Kurumizaka H, Hayes JJ. Acetylation-modulated communication between the H3 N-terminal tail domain and the intrinsically disordered H1 C-terminal domain. Nucleic Acids Research. PMID 33125082 DOI: 10.1093/nar/gkaa949   
2020 Storck WK, Bicocca VT, Rountree MR, Honda S, Ormsby T, Selker EU. LSD1 prevents aberrant heterochromatin formation in Neurospora crassa. Nucleic Acids Research. PMID 32946564 DOI: 10.1093/nar/gkaa724   
2020 Pathare GR, Decout A, Glück S, Cavadini S, Makasheva K, Hovius R, Kempf G, Weiss J, Kozicka Z, Guey B, Melenec P, Fierz B, Thomä NH, Ablasser A. Structural mechanism of cGAS inhibition by the nucleosome. Nature. PMID 32911482 DOI: 10.1038/s41586-020-2750-6   
2020 Jiang Q, Ang JYJ, Lee AY, Cao Q, Li KY, Yip KY, Leung DCY. G9a Plays Distinct Roles in Maintaining DNA Methylation, Retrotransposon Silencing, and Chromatin Looping. Cell Reports. 33: 108315. PMID 33113380 DOI: 10.1016/j.celrep.2020.108315   
2020 Agarwal G, Kudapa H, Ramalingam A, Choudhary D, Sinha P, Garg V, Singh VK, Patil GB, Pandey MK, Nguyen HT, Guo B, Sunkar R, Niederhuth CE, Varshney RK. Epigenetics and epigenomics: underlying mechanisms, relevance, and implications in crop improvement. Functional & Integrative Genomics. PMID 33089419 DOI: 10.1007/s10142-020-00756-7   
2020 Lei B, Capella M, Montgomery SA, Borg M, Osakabe A, Goiser M, Muhammad A, Braun S, Berger F. A Synthetic Approach to Reconstruct the Evolutionary and Functional Innovations of the Plant Histone Variant H2A.W. Current Biology : Cb. PMID 33096036 DOI: 10.1016/j.cub.2020.09.080   
2020 Liang Y, Su Y, Xu C, Zhang N, Liu D, Li G, Tong T, Chen J. Protein kinase D1 phosphorylation of KAT7 enhances its protein stability and promotes replication licensing and cell proliferation. Cell Death Discovery. 6: 89. PMID 33014433 DOI: 10.1038/s41420-020-00323-w   
2020 Yuan ZD, Zhu WN, Liu KZ, Huang ZP, Han YC. Small Molecule Epigenetic Modulators in Pure Chemical Cell Fate Conversion. Stem Cells International. 2020: 8890917. PMID 33144865 DOI: 10.1155/2020/8890917   
2020 Mishra PK, Chakraborty A, Yeh E, Feng W, Bloom KS, Basrai MA. R-loops at centromeric chromatin contribute to defects in kinetochore integrity and chromosomal instability in budding yeast. Molecular Biology of the Cell. mbcE20060379. PMID 33147102 DOI: 10.1091/mbc.E20-06-0379   
2020 Janna A, Davarinejad H, Joshi M, Couture JF. Structural Paradigms in the Recognition of the Nucleosome Core Particle by Histone Lysine Methyltransferases. Frontiers in Cell and Developmental Biology. 8: 600. PMID 32850785 DOI: 10.3389/fcell.2020.00600   
2020 Yan W, Guo Y, Xu F, Saxena D, Li X. Identification of Differentially Methylated Regions Associated with a Knockout of SUV39H1 in Prostate Cancer Cells. Genes. 11. PMID 33066102 DOI: 10.3390/genes11101188   
2020 Li L, Li N, Liu N, Huo F, Zheng J. MBD2 Correlates with a Poor Prognosis and Tumor Progression in Renal Cell Carcinoma. Oncotargets and Therapy. 13: 10001-10012. PMID 33116585 DOI: 10.2147/OTT.S256226   
2020 Basak R, Rosencrans W, Yadav I, Yan P, Berezhnoy NV, Chen Q, van Kan JA, Nordenskiöld L, Zinchenko A, van der Maarel JRC. Internal Motion of Chromatin Fibers Is Governed by Dynamics of Uncompressed Linker Strands. Biophysical Journal. PMID 33121944 DOI: 10.1016/j.bpj.2020.10.018   
2020 Li Z, Rasmussen LJ. TIP60 in Aging and Neurodegeneration. Ageing Research Reviews. 101195. PMID 33091598 DOI: 10.1016/j.arr.2020.101195   
2020 Haas J, Bloesel D, Bacher S, Kracht M, Schmitz ML. Chromatin Targeting of HIPK2 Leads to Acetylation-Dependent Chromatin Decondensation. Frontiers in Cell and Developmental Biology. 8: 852. PMID 32984337 DOI: 10.3389/fcell.2020.00852   
2020 Antunez-Sanchez J, Naish M, Ramirez-Prado JS, Ohno S, Huang Y, Dawson A, Opassathian K, Manza-Mianza D, Ariel F, Raynaud C, Wibowo A, Daron J, Ueda M, Latrasse D, Slotkin RK, et al. A new role for histone demethylases in the maintenance of plant genome integrity. Elife. 9. PMID 33107825 DOI: 10.7554/eLife.58533   
2020 Vaughan RM, Kupai A, Foley CA, Sagum CA, Tibben BM, Eden HE, Tiedemann RL, Berryhill CA, Patel V, Shaw KM, Krajewski K, Strahl BD, Bedford MT, Frye SV, Dickson BM, et al. The histone and non-histone methyllysine reader activities of the UHRF1 tandem Tudor domain are dispensable for the propagation of aberrant DNA methylation patterning in cancer cells. Epigenetics & Chromatin. 13: 44. PMID 33097091 DOI: 10.1186/s13072-020-00366-4   
2020 Valiulienė G, Vitkevičienė A, Navakauskienė R. The epigenetic treatment remodel genome-wide histone H4 hyper-acetylation patterns and affect signaling pathways in acute promyelocytic leukemia cells. European Journal of Pharmacology. 889: 173641. PMID 33045196 DOI: 10.1016/j.ejphar.2020.173641   
2020 Jabre I, Chaudhary S, Guo W, Kalyna M, Reddy ASN, Chen W, Zhang R, Wilson C, Syed NH. Differential nucleosome occupancy modulates alternative splicing in Arabidopsis thaliana. The New Phytologist. PMID 33135169 DOI: 10.1111/nph.17062   
2020 Jiang P, Gan M, Dickson DW. Apoptotic Neuron-Derived Histone Amyloid Fibrils Induce α-Synuclein Aggregation. Molecular Neurobiology. PMID 33048264 DOI: 10.1007/s12035-020-02167-y   
2020 Ambrosini S, Mohammed SA, Costantino S, Paneni F. Disentangling the epigenetic landscape in cardiovascular patients: a path toward personalized medicine. Minerva Cardioangiologica. PMID 32996305 DOI: 10.23736/S0026-4725.20.05326-8   
2020 Liu YX, Li QZ, Cao YN, Zhang LQ. Identification of key genes and important histone modifications in hepatocellular carcinoma. Computational and Structural Biotechnology Journal. 18: 2657-2669. PMID 33033585 DOI: 10.1016/j.csbj.2020.09.013