| Year |
Citation |
Score |
| 2023 |
Maier A, Hartung M, Abovsky M, Adamowicz K, Bader GD, Baier S, Blumenthal DB, Chen J, Elkjaer ML, Garcia-Hernandez C, Hoffmann M, Jurisica I, Kotlyar M, Lazareva O, Levi H, et al. Drugst.One -- A plug-and-play solution for online systems medicine and network-based drug repurposing. Arxiv. PMID 37332567 |
0.387 |
|
| 2023 |
Doria-Belenguer S, Xenos A, Ceddia G, Malod-Dognin N, Pržulj N. A functional analysis of omic network embedding spaces reveals key altered functions in cancer. Bioinformatics (Oxford, England). PMID 37084262 DOI: 10.1093/bioinformatics/btad281 |
0.456 |
|
| 2022 |
Windels SFL, Malod-Dognin N, Pržulj N. Graphlet eigencentralities capture novel central roles of genes in pathways. Plos One. 17: e0261676. PMID 35077468 DOI: 10.1371/journal.pone.0261676 |
0.481 |
|
| 2020 |
Doria-Belenguer S, Youssef MK, Böttcher R, Malod-Dognin N, Pržulj N. Probabilistic graphlets capture biological function in probabilistic molecular networks. Bioinformatics (Oxford, England). 36: i804-i812. PMID 33381834 DOI: 10.1093/bioinformatics/btaa812 |
0.699 |
|
| 2020 |
Malod-Dognin N, Pancaldi V, Valencia A, Pržulj N. Chromatin network markers of leukemia. Bioinformatics (Oxford, England). 36: i455-i463. PMID 32657405 DOI: 10.1093/Bioinformatics/Btaa445 |
0.34 |
|
| 2019 |
Windels SFL, Malod-Dognin N, Pržulj N. Graphlet Laplacians for topology-function and topology-disease relationships. Bioinformatics (Oxford, England). PMID 31192358 DOI: 10.1093/bioinformatics/btz455 |
0.585 |
|
| 2019 |
Malod-Dognin N, Pržulj N. Functional geometry of protein interactomes. Bioinformatics (Oxford, England). PMID 30821317 DOI: 10.1093/bioinformatics/btz146 |
0.596 |
|
| 2019 |
Malod-Dognin N, Petschnigg J, Windels SFL, Povh J, Hemmingway H, Ketteler R, Pržulj N. Towards a data-integrated cell. Nature Communications. 10: 805. PMID 30778056 DOI: 10.1038/s41467-019-08797-8 |
0.313 |
|
| 2018 |
Gaudelet T, Malod-Dognin N, Pržulj N. Higher-order molecular organization as a source of biological function. Bioinformatics (Oxford, England). 34: i944-i953. PMID 30423061 DOI: 10.1093/bioinformatics/bty570 |
0.589 |
|
| 2017 |
Malod-Dognin N, Ban K, Pržulj N. Unified Alignment of Protein-Protein Interaction Networks. Scientific Reports. 7: 953. PMID 28424527 DOI: 10.1038/s41598-017-01085-9 |
0.743 |
|
| 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 |
0.75 |
|
| 2016 |
Sarajlić A, Malod-Dognin N, Yaveroğlu ÖN, Pržulj N. Graphlet-based Characterization of Directed Networks. Scientific Reports. 6: 35098. PMID 27734973 DOI: 10.1038/srep35098 |
0.686 |
|
| 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 |
0.437 |
|
| 2016 |
Pržulj N, Malod-Dognin N. NETWORK ANALYSIS. Network analytics in the age of big data. Science (New York, N.Y.). 353: 123-4. PMID 27387938 DOI: 10.1126/science.aah3449 |
0.632 |
|
| 2016 |
Przulj N. Patient-specific network data fusion for stratification, biomarker discovery and personalized treatment F1000research. 5. DOI: 10.7490/F1000Research.1112641.1 |
0.544 |
|
| 2015 |
Gligorijević V, Malod-Dognin N, Pržulj N. Fuse: multiple network alignment via data fusion. Bioinformatics (Oxford, England). PMID 26668003 DOI: 10.1093/bioinformatics/btv731 |
0.612 |
|
| 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 |
0.814 |
|
| 2015 |
Malod-Dognin N, Pržulj N. L-GRAAL: Lagrangian graphlet-based network aligner. Bioinformatics (Oxford, England). 31: 2182-9. PMID 25725498 DOI: 10.1093/bioinformatics/btv130 |
0.515 |
|
| 2015 |
Davis D, Yaveroğlu ÖN, Malod-Dognin N, Stojmirovic A, Pržulj N. Topology-function conservation in protein-protein interaction networks. Bioinformatics (Oxford, England). 31: 1632-9. PMID 25609797 DOI: 10.1093/Bioinformatics/Btv026 |
0.476 |
|
| 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. DOI: 10.18637/Jss.V065.I12 |
0.432 |
|
| 2014 |
Gligorijević V, Janjić V, Pržulj N. Integration of molecular network data reconstructs Gene Ontology. Bioinformatics (Oxford, England). 30: i594-600. PMID 25161252 DOI: 10.1093/bioinformatics/btu470 |
0.483 |
|
| 2014 |
Sarajlić A, Gligorijević V, Radak D, Pržulj N. Network wiring of pleiotropic kinases yields insight into protective role of diabetes on aneurysm. Integrative Biology : Quantitative Biosciences From Nano to Macro. 6: 1049-57. PMID 25098752 DOI: 10.1039/c4ib00125g |
0.343 |
|
| 2014 |
Sarajlić A, Pržulj N. Survey of network-based approaches to research of cardiovascular diseases. Biomed Research International. 2014: 527029. PMID 24772427 DOI: 10.1155/2014/527029 |
0.445 |
|
| 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 |
0.373 |
|
| 2014 |
Yaveroğlu ÖN, Malod-Dognin N, Davis D, Levnajic Z, Janjic V, Karapandza R, Stojmirovic A, Pržulj N. Revealing the hidden language of complex networks. Scientific Reports. 4: 4547. PMID 24686408 DOI: 10.1038/Srep04547 |
0.692 |
|
| 2013 |
Sarajlić A, Janjić V, Stojković N, Radak D, Pržulj N. Network topology reveals key cardiovascular disease genes. Plos One. 8: e71537. PMID 23977067 DOI: 10.1371/journal.pone.0071537 |
0.517 |
|
| 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 |
0.717 |
|
| 2012 |
Janjić V, Pržulj N. Biological function through network topology: a survey of the human diseasome. Briefings in Functional Genomics. 11: 522-32. PMID 22962330 DOI: 10.1093/bfgp/els037 |
0.624 |
|
| 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 |
0.884 |
|
| 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 |
0.563 |
|
| 2011 |
Milenković T, Memišević V, Bonato A, Pržulj N. Dominating biological networks. Plos One. 6: e23016. PMID 21887225 DOI: 10.1371/Journal.Pone.0023016 |
0.881 |
|
| 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 |
0.879 |
|
| 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 |
0.881 |
|
| 2011 |
Pržulj N. Protein-protein interactions: making sense of networks via graph-theoretic modeling. Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. 33: 115-23. PMID 21188720 DOI: 10.1002/bies.201000044 |
0.52 |
|
| 2011 |
Przulj N. Introduction to the special issue on biological networks Internet Mathematics. 7: 207-208. DOI: 10.1080/15427951.2011.621769 |
0.722 |
|
| 2010 |
Milenkovi? T, Ng WL, Hayes W, Przulj N. Optimal network alignment with graphlet degree vectors. Cancer Informatics. 9: 121-37. PMID 20628593 DOI: 10.4137/Cin.S4744 |
0.756 |
|
| 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 |
0.801 |
|
| 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 |
0.872 |
|
| 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 |
0.842 |
|
| 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 |
0.836 |
|
| 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 |
0.626 |
|
| 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 |
0.882 |
|
| 2010 |
Milenkovic T, Memisevic V, Ganesan AK, Przulj N. Systems-level cancer gene identification from protein interaction network topology applied to melanogenesis-related functional genomics data. Journal of the Royal Society, Interface / the Royal Society. 7: 423-37. PMID 19625303 DOI: 10.1098/Rsif.2009.0192 |
0.857 |
|
| 2010 |
Kuchaiev O, Przulj N. Global Network Alignment Nature Precedings. DOI: 10.1038/Npre.2010.4505.1 |
0.878 |
|
| 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 |
0.844 |
|
| 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 |
0.856 |
|
| 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 |
0.616 |
|
| 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 |
0.881 |
|
| 2009 |
Kuchaiev O, Milenkovic T, Memisevic V, Hayes W, Przulj N. Topological network alignment uncovers biological function and phylogeny Nature Precedings. DOI: 10.1038/Npre.2009.4089.1 |
0.821 |
|
| 2008 |
Milenković T, Przulj N. Uncovering biological network function via graphlet degree signatures. Cancer Informatics. 6: 257-73. PMID 19259413 |
0.758 |
|
| 2008 |
Guerrero C, Milenkovic T, Przulj N, Kaiser P, Huang L. Characterization of the proteasome interaction network using a QTAX-based tag-team strategy and protein interaction network analysis. Proceedings of the National Academy of Sciences of the United States of America. 105: 13333-8. PMID 18757749 DOI: 10.1073/Pnas.0801870105 |
0.812 |
|
| 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 |
0.599 |
|
| 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 |
0.845 |
|
| 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 |
0.645 |
|
| 2007 |
Przulj N. Biological network comparison using graphlet degree distribution. Bioinformatics (Oxford, England). 23: e177-83. PMID 17237089 DOI: 10.1093/bioinformatics/btl301 |
0.599 |
|
| 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. |
0.6 |
|
| 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 |
0.503 |
|
| 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 |
0.693 |
|
| 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 |
0.469 |
|
| 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 |
0.393 |
|
| 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 |
0.456 |
|
| 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 |
0.664 |
|
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