Carmelata Chitikila, Ph.D. - Related publications

Affiliations: 
2001 Pennsylvania State University, State College, PA, United States 
Area:
Molecular Biology, Biochemistry, Microbiology Biology
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50 most relevant papers in past 60 days:
Year Citation  Score
2021 Chen W, Lu W, Wolynes PG, Komives EA. Single-molecule conformational dynamics of a transcription factor reveals a continuum of binding modes controlling association and dissociation. Nucleic Acids Research. PMID 34614173 DOI: 10.1093/nar/gkab874   
2021 Sielemann J, Wulf D, Schmidt R, Bräutigam A. Local DNA shape is a general principle of transcription factor binding specificity in Arabidopsis thaliana. Nature Communications. 12: 6549. PMID 34772949 DOI: 10.1038/s41467-021-26819-2   
2021 López-Vidriero I, Godoy M, Grau J, Peñuelas M, Solano R, Franco-Zorrilla JM. DNA features beyond the transcription factor binding site specify target recognition by plant MYC2-related bHLH proteins. Plant Communications. 2: 100232. PMID 34778747 DOI: 10.1016/j.xplc.2021.100232   
2021 Sarkar R, Petrushenko ZM, Dawson DS, Rybenkov VV. Ycs4 Subunit of Condensin Binds DNA and Modulates the Enzyme Turnover. Biochemistry. PMID 34723504 DOI: 10.1021/acs.biochem.1c00473   
2021 Neetu N, Katiki M, Mahto JK, Sharma M, Narayanan A, Maity S, Tomar S, Ambatipudi K, Sharma AK, Yernool D, Kumar P. Deciphering the enigma of missing DNA binding domain of LacI family transcription factors. Archives of Biochemistry and Biophysics. 713: 109060. PMID 34666048 DOI: 10.1016/j.abb.2021.109060   
2021 Baghaei Vaji F, Boroumand Nasr A, Rezvani A, Ayatollahi H, Goudarzi S, Lavasani S, Bagheri R. Prognostic significance of ATM mutations in chronic lymphocytic leukemia: A meta-analysis. Leukemia Research. 111: 106729. PMID 34735935 DOI: 10.1016/j.leukres.2021.106729   
2021 Yellajoshyula D, Rogers AE, Kim AJ, Kim S, Pappas SS, Dauer WT. A pathogenic DYT-THAP1 dystonia mutation causes hypomyelination and loss of YY1 binding. Human Molecular Genetics. PMID 34686877 DOI: 10.1093/hmg/ddab310   
2021 Singh JK, Smith R, Rother MB, de Groot AJL, Wiegant WW, Vreeken K, D'Augustin O, Kim RQ, Qian H, Krawczyk PM, González-Prieto R, Vertegaal ACO, Lamers M, Huet S, van Attikum H. Zinc finger protein ZNF384 is an adaptor of Ku to DNA during classical non-homologous end-joining. Nature Communications. 12: 6560. PMID 34772923 DOI: 10.1038/s41467-021-26691-0   
2021 Byrd AK, Malone EG, Hazeslip L, Zafar MK, Harrison DK, Thompson MD, Gao J, Perumal SK, Marecki JC, Raney KD. A structural feature of Dda helicase which enhances displacement of streptavidin and trp repressor from DNA. Protein Science : a Publication of the Protein Society. PMID 34761452 DOI: 10.1002/pro.4232   
2021 Yen CY, Lin MG, Chen BW, Ng IW, Read N, Kabli AF, Wu CT, Shen YY, Chen CH, Barillà D, Sun YJ, Hsiao CD. Chromosome segregation in Archaea: SegA- and SegB-DNA complex structures provide insights into segrosome assembly. Nucleic Acids Research. PMID 34850144 DOI: 10.1093/nar/gkab1155   
2021 DebRoy S, Shropshire WC, Tran CN, Hao H, Gohel M, Galloway-Peña J, Hanson B, Flores AR, Shelburne SA. Characterization of the Type I Restriction Modification System Broadly Conserved among Group A Streptococci. Msphere. e0079921. PMID 34787444 DOI: 10.1128/mSphere.00799-21   
2021 Zhang X, Zheng Q. How DNA affects the hyperthermophilic protein Ape10b2 for oligomerization: an investigation using multiple short molecular dynamics simulations. Physical Chemistry Chemical Physics : Pccp. 23: 25841-25849. PMID 34763347 DOI: 10.1039/d1cp04341b   
2021 Ge J, Qiu X. Expression, purification, characterization of DNA binding activity and crystallization of a putative type II DNA Cytosine-5-methyltransferase from Microcystis aeruginosa. Protein Expression and Purification. 189: 105988. PMID 34634480 DOI: 10.1016/j.pep.2021.105988   
2021 Hoffmann T, Mrusek D, Bedrunka P, Burchert F, Mais CN, Kearns DB, Altegoer F, Bremer E, Bange G. Structural and functional characterization of the bacterial biofilm activator RemA. Nature Communications. 12: 5707. PMID 34588455 DOI: 10.1038/s41467-021-26005-4   
2021 Gan C, Cheng R, Cai K, Wang X, Xie C, Xu T, Yuan C. Interaction of calf thymus DNA and glucose-based gemini cationic surfactants with different spacer length: A spectroscopy and DLS study. Spectrochimica Acta. Part a, Molecular and Biomolecular Spectroscopy. 120606. PMID 34802935 DOI: 10.1016/j.saa.2021.120606   
2021 Boucher D, Kariawasam R, Burgess J, Gimenez A, Ocampo TE, Ferguson B, Naqi A, Walker GJ, Bolderson E, Gamsjaeger R, O'Byrne KJ, Cubeddu L, Khanna KK, Richard DJ. hSSB2 (NABP1) is required for the recruitment of RPA during the cellular response to DNA UV damage. Scientific Reports. 11: 20256. PMID 34642383 DOI: 10.1038/s41598-021-99355-0   
2021 Mondal A, Mishra SK, Bhattacherjee A. Kinetic Origin of Nucleosome Invasion by Pioneer Transcription Factors. Biophysical Journal. PMID 34757077 DOI: 10.1016/j.bpj.2021.10.039   
2021 Austin CA, Cowell IG, Khazeem MM, Lok D, Ng HT. TOP2B's contributions to transcription. Biochemical Society Transactions. PMID 34747992 DOI: 10.1042/BST20200454   
2021 Li J, Sun C, Lin Y, Zhi H, Fu Y, Liu Z. The interaction of proanthocyanidins with DNA molecules studied by atomic force microscopy and spectroscopic method. Ultramicroscopy. 230: 113393. PMID 34607224 DOI: 10.1016/j.ultramic.2021.113393   
2021 Mani C, Acharya G, Kshirsagar S, Vijayan M, Khan H, Hemachandra Reddy P, Palle K. A Novel Role for BRIP1/FANCJ in Neuronal Cells Health and in Resolving Oxidative Stress-Induced DNA Lesions. Journal of Alzheimer's Disease : Jad. PMID 34776453 DOI: 10.3233/JAD-215305   
2021 Bailey CG, Gupta S, Metierre C, Amarasekera PMS, O'Young P, Kyaw W, Laletin T, Francis H, Semaan C, Sharifi Tabar M, Singh KP, Mullighan CG, Wolkenhauer O, Schmitz U, Rasko JEJ. Structure-function relationships explain CTCF zinc finger mutation phenotypes in cancer. Cellular and Molecular Life Sciences : Cmls. PMID 34657170 DOI: 10.1007/s00018-021-03946-z   
2021 Okafor IC, Choi J, Ha T. Single Molecule Methods for studying CRISPR Cas9-Induced DNA Unwinding. Methods (San Diego, Calif.). PMID 34767923 DOI: 10.1016/j.ymeth.2021.11.003   
2021 Sánchez-Osuna M, Cortés P, Lee M, Smith AT, Barbé J, Erill I. Non-canonical LexA proteins regulate the SOS response in the Bacteroidetes. Nucleic Acids Research. PMID 34614190 DOI: 10.1093/nar/gkab773   
2021 Keshav A, Murarka P, Srivastava P. Bending is required for activation of dsz operon by the TetR family protein (DszGR). Gene. 146061. PMID 34774682 DOI: 10.1016/j.gene.2021.146061   
2021 Muzzopappa F, Hertzog M, Erdel F. DNA length tunes the fluidity of DNA-based condensates. Biophysical Journal. 120: 1288-1300. PMID 33640380 DOI: 10.1016/j.bpj.2021.02.027   
2021 Cappadocia L, Kochańczyk T, Lima CD. DNA asymmetry promotes SUMO modification of the single-stranded DNA-binding protein RPA. The Embo Journal. e103787. PMID 34585421 DOI: 10.15252/embj.2019103787   
2021 Guo Y, Rall-Scharpf M, Bourdon JC, Wiesmüller L, Biber S. p53 isoforms differentially impact on the POLι dependent DNA damage tolerance pathway. Cell Death & Disease. 12: 941. PMID 34645785 DOI: 10.1038/s41419-021-04224-3   
2021 Lancey C, Tehseen M, Bakshi S, Percival M, Takahashi M, Sobhy MA, Raducanu VS, Blair K, Muskett FW, Ragan TJ, Crehuet R, Hamdan SM, De Biasio A. Cryo-EM structure of human Pol κ bound to DNA and mono-ubiquitylated PCNA. Nature Communications. 12: 6095. PMID 34667155 DOI: 10.1038/s41467-021-26251-6   
2021 Lee C, Kim YJ, Kim KS, Lee JY, Kim DN. Modulating the chemo-mechanical response of structured DNA assemblies through binding molecules. Nucleic Acids Research. PMID 34850119 DOI: 10.1093/nar/gkab1119   
2021 Kaur P, Pan H, Longley MJ, Copeland WC, Wang H. Using Atomic Force Microscopy to Study the Real Time Dynamics of DNA Unwinding by Mitochondrial Twinkle Helicase. Bio-Protocol. 11: e4139. PMID 34604445 DOI: 10.21769/BioProtoc.4139   
2021 Khan JA, Guss AM, Kao KC. Enhancing transcription in Escherichia coli and Pseudomonas putida using bacteriophage lambda anti-terminator protein Q. Biotechnology Letters. PMID 34792701 DOI: 10.1007/s10529-021-03206-x   
2021 Khamari L, Pramanik S, Shekhar S, Mahato P, Mukherjee S. Preferential Binding of Epirubicin Hydrochloride with Single Nucleotide Mismatched DNA and Subsequent Sequestration by a Mixed Micelle. The Journal of Physical Chemistry. B. PMID 34652157 DOI: 10.1021/acs.jpcb.1c06944   
2021 Miura T, Onodera R, Terashima J, Ozawa S, Habano W. β-naphthoflavone-induced upregulation of expression is mediated by the preferential binding of aryl hydrocarbon receptor to unmethylated xenobiotic responsive elements. Experimental and Therapeutic Medicine. 22: 1410. PMID 34676003 DOI: 10.3892/etm.2021.10846   
2021 Sapozhnikov DM, Szyf M. Unraveling the functional role of DNA demethylation at specific promoters by targeted steric blockage of DNA methyltransferase with CRISPR/dCas9. Nature Communications. 12: 5711. PMID 34588447 DOI: 10.1038/s41467-021-25991-9   
2021 Miller J, Peters JP. Examining the Effects of Netropsin on the Curvature of DNA A-Tracts Using Electrophoresis. Molecules (Basel, Switzerland). 26. PMID 34641414 DOI: 10.3390/molecules26195871   
2021 Zuo L, Ding J, Qi Z. Single-molecule Imaging of EWS-FLI1 Condensates Assembling on DNA. Journal of Visualized Experiments : Jove. PMID 34570101 DOI: 10.3791/62974   
2021 Paulsen T, Malapati P, Shibata Y, Wilson B, Eki R, Benamar M, Abbas T, Dutta A. MicroDNA levels are dependent on MMEJ, repressed by c-NHEJ pathway, and stimulated by DNA damage. Nucleic Acids Research. 49: 11787-11799. PMID 34718766 DOI: 10.1093/nar/gkab984   
2021 Nitiss JL, Kiianitsa K, Sun Y, Nitiss KC, Maizels N. Topoisomerase Assays. Current Protocols. 1: e250. PMID 34606690 DOI: 10.1002/cpz1.250   
2021 Son H, Park J, Hwang I, Jung Y, Bae S, Lee S. Mg-dependent conformational rearrangements of CRISPR-Cas12a R-loop complex are mandatory for complete double-stranded DNA cleavage. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 34853172 DOI: 10.1073/pnas.2113747118   
2021 Son H, Bae S, Lee S. A thermodynamic understanding of the salt-induced B-to-Z transition of DNA containing BZ junctions. Biochemical and Biophysical Research Communications. 583: 142-145. PMID 34735876 DOI: 10.1016/j.bbrc.2021.10.065   
2021 Padmanabhan S, Sanyal K, Dubey D. Identification and analysis of the origin recognition complex in the human fungal pathogen . Micropublication Biology. 2021. PMID 34568775 DOI: 10.17912/micropub.biology.000465   
2021 Swan RL, Cowell IG, Austin CA. . Molecular Pharmacology. PMID 34689119 DOI: 10.1124/molpharm.121.000374   
2021 Bonilla B, Brown AI, Hengel SR, Rapchak KS, Mitchell D, Pressimone CA, Fagunloye AA, Luong TT, Russell RA, Vyas RK, Mertz TM, Zaher HS, Mosammaparast N, Malc EP, Mieczkowski PA, et al. The Shu complex prevents mutagenesis and cytotoxicity of single-strand specific alkylation lesions. Elife. 10. PMID 34723799 DOI: 10.7554/eLife.68080   
2021 Wang X, Liu M, Peng F, Ding X. Hydrophobic magnetic deep eutectic solvent: Synthesis, properties, and application in DNA separation. Journal of Chromatography. A. 1659: 462626. PMID 34695692 DOI: 10.1016/j.chroma.2021.462626   
2021 Pappalardi MB, Keenan K, Cockerill M, Kellner WA, Stowell A, Sherk C, Wong K, Pathuri S, Briand J, Steidel M, Chapman P, Groy A, Wiseman AK, McHugh CF, Campobasso N, et al. Discovery of a first-in-class reversible DNMT1-selective inhibitor with improved tolerability and efficacy in acute myeloid leukemia. Nature Cancer. 2: 1002-1017. PMID 34790902   
2021 Hu J, Bai YS, Zheng LL, Jia NX, Yu DJ, Zhang G. Protein-DNA Binding Residue Prediction via Bagging Strategy and Sequence-based Cube-Format Feature. Ieee/Acm Transactions On Computational Biology and Bioinformatics. PMID 34714748 DOI: 10.1109/TCBB.2021.3123828   
2021 Bindu Ramesan A, Vittala SK, Joseph J. DNA condensation and formation of ultrathin nanosheets via DNA assisted self-assembly of an amphiphilic fullerene derivative. Journal of Photochemistry and Photobiology. B, Biology. 226: 112352. PMID 34798504 DOI: 10.1016/j.jphotobiol.2021.112352   
2021 Bennett M, Cleaves K, Hewezi T. Expression Patterns of DNA Methylation and Demethylation Genes during Plant Development and in Response to Phytohormones. International Journal of Molecular Sciences. 22. PMID 34575855 DOI: 10.3390/ijms22189681   
2021 James RC, Bellani MA, Zhang J, Huang J, Shaik A, Pokharel D, Gali H, Gichimu J, Thazhathveetil AK, Seidman MM. Visualizing replication fork encounters with DNA interstrand crosslinks. Methods in Enzymology. 661: 53-75. PMID 34776223 DOI: 10.1016/bs.mie.2021.08.015   
2021 Chatterjee C, Majumdar S, Deshpande S, Pant D, Matheshwaran S. Real-time kinetic studies of Mycobacterium tuberculosis LexA-DNA interaction. Bioscience Reports. 41. PMID 34792534 DOI: 10.1042/BSR20211419