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Marko Djordjevic, Ph.D. - Publications

Affiliations: 
2005 Columbia University, New York, NY 
Area:
Theoretical Condensed Matter Physics
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30 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Bozic B, Repac J, Djordjevic M. Endogenous Gene Regulation as a Predicted Main Function of Type I-E CRISPR/Cas System in . Molecules (Basel, Switzerland). 24. PMID 30795631 DOI: 10.3390/Molecules24040784  0.318
2019 Zigic D, Salom I, Auvinen J, Djordjevic M, Djordjevic M. DREENA-B framework: First predictions of R and v2 within dynamical energy loss formalism in evolving QCD medium Physics Letters B. 791: 236-241. DOI: 10.1016/J.Physletb.2019.02.020  0.306
2019 Djordjevic M, Zigic D, Blagojevic B, Auvinen J, Salom I, Djordjevic M. Dynamical energy loss formalism: from describing suppression patterns to implications for future experiments Nuclear Physics A. 982: 699-702. DOI: 10.1016/J.Nuclphysa.2018.10.020  0.303
2018 Guzina J, Chen WH, Stankovic T, Djordjevic M, Zdobnov E, Djordjevic M. Analysis Suggests Common Appearance of scaRNAs in Type II Systems and Their Association With Bacterial Virulence. Frontiers in Genetics. 9: 474. PMID 30386377 DOI: 10.3389/Fgene.2018.00474  0.319
2018 Klimuk E, Bogdanova E, Nagornykh M, Rodic A, Djordjevic M, Medvedeva S, Pavlova O, Severinov K. Controller protein of restriction-modification system Kpn2I affects transcription of its gene by acting as a transcription elongation roadblock. Nucleic Acids Research. PMID 30295835 DOI: 10.1093/Nar/Gky880  0.318
2017 Djordjevic M, Djordjevic M, Zdobnov E. Scoring Targets of Transcription in Bacteria Rather than Focusing on Individual Binding Sites. Frontiers in Microbiology. 8: 2314. PMID 29213263 DOI: 10.3389/Fmicb.2017.02314  0.311
2017 Rodic A, Blagojevic B, Djordjevic M, Severinov K, Djordjevic M. Features of CRISPR-Cas Regulation Key to Highly Efficient and Temporally-Specific crRNA Production. Frontiers in Microbiology. 8: 2139. PMID 29163425 DOI: 10.3389/Fmicb.2017.02139  0.317
2016 Nikolic M, Stankovic T, Djordjevic M. Contribution of bacterial promoter elements to transcription start site detection accuracy. Journal of Bioinformatics and Computational Biology. 1650038. PMID 27908222 DOI: 10.1142/S0219720016500384  0.309
2016 Guzina J, Djordjevic M. Promoter recognition by ECF σ factors: analyzing DNA and protein interaction motifs. Journal of Bacteriology. PMID 27137497 DOI: 10.1128/Jb.00244-16  0.32
2015 Guzina J, Djordjevic M. Inferring bacteriophage infection strategies from genome sequence: analysis of bacteriophage 7-11 and related phages. Bmc Evolutionary Biology. 15: S1. PMID 25708710 DOI: 10.1186/1471-2148-15-S1-S1  0.32
2014 Zukher I, Novikova M, Tikhonov A, Nesterchuk MV, Osterman IA, Djordjevic M, Sergiev PV, Sharma CM, Severinov K. Ribosome-controlled transcription termination is essential for the production of antibiotic microcin C. Nucleic Acids Research. 42: 11891-902. PMID 25274735 DOI: 10.1093/Nar/Gku880  0.324
2014 Djordjevic M. Integrating sequence analysis with biophysical modelling for accurate transcription start site prediction. Journal of Integrative Bioinformatics. 11: 240. PMID 24953455 DOI: 10.2390/Biecoll-Jib-2014-240  0.325
2014 Djordjevic M. Explaining the fine hierarchy in pion and kaon suppression at LHC: Importance of fragmentation functions Journal of Physics G: Nuclear and Particle Physics. 41. DOI: 10.1088/0954-3899/41/5/055104  0.304
2014 Djordjevic M, Blagojevic B. RHIC and LHC jet suppression in non-central collisions Physics Letters, Section B: Nuclear, Elementary Particle and High-Energy Physics. 737: 298-302. DOI: 10.1016/J.Physletb.2014.08.063  0.316
2013 Djordjevic M. Efficient transcription initiation in bacteria: an interplay of protein-DNA interaction parameters. Integrative Biology : Quantitative Biosciences From Nano to Macro. 5: 796-806. PMID 23511241 DOI: 10.1039/C3Ib20221F  0.353
2012 Djordjevic M, Djordjevic M, Severinov K. CRISPR transcript processing: a mechanism for generating a large number of small interfering RNAs. Biology Direct. 7: 24. PMID 22849651 DOI: 10.1186/1745-6150-7-24  0.309
2012 Pavlova O, Lavysh D, Klimuk E, Djordjevic M, Ravcheev DA, Gelfand MS, Severinov K, Akulenko N. Temporal regulation of gene expression of the Escherichia coli bacteriophage phiEco32. Journal of Molecular Biology. 416: 389-99. PMID 22261232 DOI: 10.1016/J.Jmb.2012.01.002  0.324
2010 Djordjevic M. Inferring protein-DNA interaction parameters from SELEX experiments. Methods in Molecular Biology (Clifton, N.J.). 674: 195-211. PMID 20827593 DOI: 10.1007/978-1-60761-854-6_12  0.326
2010 Pougach K, Semenova E, Bogdanova E, Datsenko KA, Djordjevic M, Wanner BL, Severinov K. Transcription, processing and function of CRISPR cassettes in Escherichia coli. Molecular Microbiology. 77: 1367-79. PMID 20624226 DOI: 10.1111/J.1365-2958.2010.07265.X  0.3
2010 Djordjevic M. A Genome-Wide Analysis of Poised Promoters in Bacteria Biophysical Journal. 98. DOI: 10.1016/J.Bpj.2009.12.399  0.355
2009 Djordjevic M. Modeling Transcription Initiation By Bacterial RNA Polymerase Biophysical Journal. 96. DOI: 10.1016/J.Bpj.2008.12.193  0.368
2008 Djordjevic M, Bundschuh R. Formation of the open complex by bacterial RNA polymerase--a quantitative model. Biophysical Journal. 94: 4233-48. PMID 18281386 DOI: 10.1529/Biophysj.107.116970  0.35
2008 Bogdanova E, Djordjevic M, Papapanagiotou I, Heyduk T, Kneale G, Severinov K. Transcription regulation of the type II restriction-modification system AhdI. Nucleic Acids Research. 36: 1429-42. PMID 18203750 DOI: 10.1093/Nar/Gkm1116  0.34
2007 Djordjevic M. SELEX experiments: new prospects, applications and data analysis in inferring regulatory pathways. Biomolecular Engineering. 24: 179-89. PMID 17428731 DOI: 10.1016/J.Bioeng.2007.03.001  0.323
2007 Sevostyanova A, Djordjevic M, Kuznedelov K, Naryshkina T, Gelfand MS, Severinov K, Minakhin L. Temporal regulation of viral transcription during development of Thermus thermophilus bacteriophage phiYS40. Journal of Molecular Biology. 366: 420-35. PMID 17187825 DOI: 10.1016/J.Jmb.2006.11.050  0.344
2006 Djordjevic M, Semenova E, Shraiman B, Severinov K. Quantitative analysis of a virulent bacteriophage transcription strategy. Virology. 354: 240-51. PMID 16887164 DOI: 10.1016/J.Virol.2006.05.038  0.345
2006 Djordjevic M, Sengupta AM. Quantitative modeling and data analysis of SELEX experiments. Physical Biology. 3: 13-28. PMID 16582458 DOI: 10.1088/1478-3975/3/1/002  0.324
2005 Semenova E, Djordjevic M, Shraiman B, Severinov K. The tale of two RNA polymerases: transcription profiling and gene expression strategy of bacteriophage Xp10. Molecular Microbiology. 55: 764-77. PMID 15661002 DOI: 10.1111/J.1365-2958.2004.04442.X  0.314
2003 Djordjevic M, Sengupta AM, Shraiman BI. A biophysical approach to transcription factor binding site discovery. Genome Research. 13: 2381-90. PMID 14597652 DOI: 10.1101/Gr.1271603  0.329
2002 Sengupta AM, Djordjevic M, Shraiman BI. Specificity and robustness in transcription control networks. Proceedings of the National Academy of Sciences of the United States of America. 99: 2072-7. PMID 11854503 DOI: 10.1073/Pnas.022388499  0.341
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