Natasa Przulj - Publications

Information and Computer Science - Ph.D. University of California, Irvine, Irvine, CA 
Computer Science, Bioinformatics Biology

39 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
2017 Yaveroğlu ÖN, Malod-Dognin N, Milenković T, Pržulj N. Rebuttal to the Letter to the Editor in response to the paper: proper evaluation of alignment-free network comparison methods. Bioinformatics (Oxford, England). PMID 28073757 DOI: 10.1093/bioinformatics/btw388  0.56
2016 Costanzo M, VanderSluis B, Koch EN, Baryshnikova A, Pons C, Tan G, Wang W, Usaj M, Hanchard J, Lee SD, Pelechano V, Styles EB, Billmann M, van Leeuwen J, van Dyk N, ... ... Przulj N, et al. A global genetic interaction network maps a wiring diagram of cellular function. Science (New York, N.Y.). 353. PMID 27708008 DOI: 10.1126/science.aaf1420  1
2015 Yaveroğlu ÖN, Milenković T, Pržulj N. Proper evaluation of alignment-free network comparison methods. Bioinformatics (Oxford, England). 31: 2697-704. PMID 25810431 DOI: 10.1093/bioinformatics/btv170  0.56
2015 Yaveroğlu ÖN, Fitzhugh SM, Kurant M, Markopoulou A, Butts CT, Pržulj N. Ergm.graphlets: A Package for ERG Modeling Based on Graphlet Statistics Journal of Statistical Software. 65: 1-29.  1
2014 Filipovi? A, Lombardo Y, Faronato M, Fronato M, Abrahams J, Aboagye E, Nguyen QD, d'Aqua BB, Ridley A, Green A, Rahka E, Ellis I, Recchi C, Przulj N, Sarajli? A, et al. Anti-nicastrin monoclonal antibodies elicit pleiotropic anti-tumour pharmacological effects in invasive breast cancer cells. Breast Cancer Research and Treatment. 148: 455-62. PMID 25248409 DOI: 10.1007/s10549-014-3119-z  1
2014 Cvijovic M, Almquist J, Hagmar J, Hohmann S, Kaltenbach HM, Klipp E, Krantz M, Mendes P, Nelander S, Nielsen J, Pagnani A, Przulj N, Raue A, Stelling J, Stoma S, et al. Bridging the gaps in systems biology. Molecular Genetics and Genomics : Mgg. 289: 727-34. PMID 24728588 DOI: 10.1007/s00438-014-0843-3  1
2013 Žitnik M, Janjić V, Larminie C, Zupan B, Pržulj N. Discovering disease-disease associations by fusing systems-level molecular data. Scientific Reports. 3: 3202. PMID 24232732 DOI: 10.1038/srep03202  1
2013 Hayes W, Sun K, Pržulj N. Graphlet-based measures are suitable for biological network comparison. Bioinformatics (Oxford, England). 29: 483-91. PMID 23349212 DOI: 10.1093/bioinformatics/bts729  1
2012 Memišević V, Pržulj N. C-GRAAL: common-neighbors-based global GRAph ALignment of biological networks. Integrative Biology : Quantitative Biosciences From Nano to Macro. 4: 734-43. PMID 22234340 DOI: 10.1039/c2ib00140c  0.56
2012 King AD, Pržulj N, Jurisica I. Protein complex prediction with RNSC. Methods in Molecular Biology (Clifton, N.J.). 804: 297-312. PMID 22144160 DOI: 10.1007/978-1-61779-361-5_16  1
2011 Milenković T, Memišević V, Bonato A, Pržulj N. Dominating biological networks. Plos One. 6: e23016. PMID 21887225 DOI: 10.1371/journal.pone.0023016  0.56
2011 Kuchaiev O, Przulj N. Integrative network alignment reveals large regions of global network similarity in yeast and human. Bioinformatics (Oxford, England). 27: 1390-6. PMID 21414992 DOI: 10.1093/bioinformatics/btr127  1
2011 Kuchaiev O, Stevanovi? A, Hayes W, Pržulj N. GraphCrunch 2: Software tool for network modeling, alignment and clustering. Bmc Bioinformatics. 12: 24. PMID 21244715 DOI: 10.1186/1471-2105-12-24  1
2011 Betkaoui B, Thomas DB, Luk W, Przulj N. A framework for FPGA acceleration of large graph problems: Graphlet counting case study 2011 International Conference On Field-Programmable Technology, Fpt 2011. DOI: 10.1109/FPT.2011.6132667  1
2011 Przulj N. Introduction to the special issue on biological networks Internet Mathematics. 7: 207-208. DOI: 10.1080/15427951.2011.621769  1
2010 Milenkovi? T, Ng WL, Hayes W, Przulj N. Optimal network alignment with graphlet degree vectors. Cancer Informatics. 9: 121-37. PMID 20628593  0.56
2010 Ho H, Milenković T, Memisević V, Aruri J, Przulj N, Ganesan AK. Protein interaction network topology uncovers melanogenesis regulatory network components within functional genomics datasets. Bmc Systems Biology. 4: 84. PMID 20550706 DOI: 10.1186/1752-0509-4-84  0.56
2010 Memisevic V, Milenkovic T, Przulj N. An integrative approach to modeling biological networks. Journal of Integrative Bioinformatics. 7. PMID 20375453 DOI: 10.2390/biecoll-jib-2010-120  1
2010 Memisevic V, Milenkovic T, Przulj N. Complementarity of network and sequence information in homologous proteins. Journal of Integrative Bioinformatics. 7. PMID 20375452 DOI: 10.2390/biecoll-jib-2010-135  1
2010 Kuchaiev O, Milenkovic T, Memisevic V, Hayes W, Przulj N. Topological network alignment uncovers biological function and phylogeny. Journal of the Royal Society, Interface / the Royal Society. 7: 1341-54. PMID 20236959 DOI: 10.1098/rsif.2010.0063  1
2010 Kaake RM, Milenković T, Przulj N, Kaiser P, Huang L. Characterization of cell cycle specific protein interaction networks of the yeast 26S proteasome complex by the QTAX strategy. Journal of Proteome Research. 9: 2016-29. PMID 20170199 DOI: 10.1021/pr1000175  0.56
2010 Przulj N, Kuchaiev O, Stevanovi? A, Hayes W. Geometric evolutionary dynamics of protein interaction networks. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 178-89. PMID 19908370  1
2009 Kuchaiev O, Wang PT, Nenadic Z, Przulj N. Structure of brain functional networks. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 2009: 4166-70. PMID 19964621 DOI: 10.1109/IEMBS.2009.5333938  1
2009 Kuchaiev O, Rasajski M, Higham DJ, Przulj N. Geometric de-noising of protein-protein interaction networks. Plos Computational Biology. 5: e1000454. PMID 19662157 DOI: 10.1371/journal.pcbi.1000454  1
2009 Milenkovi? T, Filippis I, Lappe M, Przulj N. Optimized null model for protein structure networks. Plos One. 4: e5967. PMID 19557139 DOI: 10.1371/journal.pone.0005967  1
2009 Kuchaiev O, Przulj N. Learning the structure of protein-protein interaction networks. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 39-50. PMID 19209694  1
2008 Milenković T, Przulj N. Uncovering biological network function via graphlet degree signatures. Cancer Informatics. 6: 257-73. PMID 19259413  0.56
2008 Higham DJ, Rasajski M, Przulj N. Fitting a geometric graph to a protein-protein interaction network. Bioinformatics (Oxford, England). 24: 1093-9. PMID 18344248 DOI: 10.1093/bioinformatics/btn079  0.56
2008 Milenković T, Lai J, Przulj N. GraphCrunch: a tool for large network analyses. Bmc Bioinformatics. 9: 70. PMID 18230190 DOI: 10.1186/1471-2105-9-70  0.56
2007 Hormozdiari F, Berenbrink P, Przulj N, Sahinalp SC. Not all scale-free networks are born equal: the role of the seed graph in PPI network evolution. Plos Computational Biology. 3: e118. PMID 17616981 DOI: 10.1371/journal.pcbi.0030118  1
2007 Hormozdiari F, Berenbrink P, Pržulj N, Sahinalp C. Not all scale free networks are born equal: The role of the seed graph in PPI network emulation Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 4532: 1-13.  1
2006 Przulj N, Higham DJ. Modelling protein-protein interaction networks via a stickiness index. Journal of the Royal Society, Interface / the Royal Society. 3: 711-6. PMID 16971339 DOI: 10.1098/rsif.2006.0147  0.56
2006 Przulj N, Corneil DG, Jurisica I. Efficient estimation of graphlet frequency distributions in protein-protein interaction networks. Bioinformatics (Oxford, England). 22: 974-80. PMID 16452112 DOI: 10.1093/bioinformatics/btl030  1
2005 Barrios-Rodiles M, Brown KR, Ozdamar B, Bose R, Liu Z, Donovan RS, Shinjo F, Liu Y, Dembowy J, Taylor IW, Luga V, Przulj N, Robinson M, Suzuki H, Hayashizaki Y, et al. High-throughput mapping of a dynamic signaling network in mammalian cells. Science (New York, N.Y.). 307: 1621-5. PMID 15761153 DOI: 10.1126/science.1105776  1
2005 Pržulj N, Corneil DG. 2-tree probe interval graphs have a large obstruction set Discrete Applied Mathematics. 150: 216-231. DOI: 10.1016/j.dam.2004.06.015  1
2004 Przulj N, Corneil DG, Jurisica I. Modeling interactome: scale-free or geometric? Bioinformatics (Oxford, England). 20: 3508-15. PMID 15284103 DOI: 10.1093/bioinformatics/bth436  1
2004 King AD, Pržulj N, Jurisica I. Protein complex prediction via cost-based clustering Bioinformatics. 20: 3013-3020. PMID 15180928 DOI: 10.1093/bioinformatics/bth351  1
2004 Pržulj N, Wigle DA, Jurisica I. Functional topology in a network of protein interactions Bioinformatics. 20: 340-348. PMID 14960460 DOI: 10.1093/bioinformatics/btg415  1
2004 Pržulj N, Corneil DG, Köhler E. Hereditary dominating pair graphs Discrete Applied Mathematics. 134: 239-261. DOI: 10.1016/S0166-218X(03)00304-4  1
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