Refereed Journal Publications

18. Vikram Saraph and Tijana Milenkovic (2013), MAGNA: Maximizing Accuracy in Global Network Alignment, arXiv:1311.2452 [q-bio.MN]. Also, under review.

17. Ryan W. Solava and Tijana Milenkovic (2013), Revealing missing parts of the interactome, arXiv:1307.3329 [q-bio.MN]. Also, under revision.

16. Fazle E. Faisal and Tijana Milenkovic (2013), Dynamic networks reveal key players in aging, arXiv:1307.3388 [cs.CE]. Also, under revision.

15. Andrew K. Rider, Tijana Milenkovic, Geoffrey H. Siwo, Richard S. Pinapati, Scott J. Emrich, Michael T. Ferdig, and Nitesh V. Chawla, (2013), Networks Matter for Systems Biology, submitted.

14. Ryan W. Solava, Ryan P. Michaels, and Tijana Milenkovic (2012), Graphlet-based edge clustering reveals pathogen-interacting proteins, Bioinformatics, 28 (18): i480-i486. Also, in Proceedings of the 11th European Conference on Computational Biology (ECCB), Basel, Switzerland, September 9-12, 2012 (acceptance rate: 14%).

13. Tijana Milenkovic, Vesna Memisevic, Antoni Bonato, and Natasa Przulj (2011), Dominating biological networks, PLOS ONE, 6(8): e23016.

12. Arabidopsis Interactome Mapping Consortium (2011), Evidence for Network Evolution in an Arabidopsis Interactome Map, Science, 333(6042): 601-607.

11. Tijana Milenkovic, Weng L. Ng, Wayne Hayes, and Natasa Przulj (2010), Optimal Network Alignment with Graphlet Degree Vectors, Cancer Informatics, 9:121-137.

10. Hsiang Ho‡, Tijana Milenkovic‡, Vesna Memisevic, Jayavani Aruri, Natasa Przulj, and Anand K. Ganesan (2010), Protein Interaction Network Uncovers Melanogenesis Regulatory Network Components within Functional Genomics Datasets, BMC Systems Biology, 4:84.
‡These authors contributed equally to this work

9. Robyn Kaake, Tijana Milenkovic, Natasa Przulj, Peter Kaiser, and Lan Huang (2010), Characterization of cell cycle specific protein interaction networks of the yeast 26S proteasome complex by the QTAX strategy, Journal of Proteome Research, 9(4): 2016-2029.

8. Vesna Memisevic, Tijana Milenkovic, and Natasa Przulj (2010), Complementarity of network and sequence structure in homologous proteins, Journal of Integrative Bioinformatics, 7(3):135.

7. Vesna Memisevic, Tijana Milenkovic, and Natasa Przulj (2010), An integrative approach to modeling biological networks, Journal of Integrative Bioinformatics, 7(3):120.

6. Oleksii Kuchaiev‡, Tijana Milenkovic‡, Vesna Memisevic, Wayne Hayes, and Natasa Przulj (2010), Topological network alignment uncovers biological function and phylogeny, Journal of the Royal Society Interface, 7(50): 1341-1354.
‡These authors contributed equally to this work

5. Tijana Milenkovic, Vesna Memisevic, Anand K. Ganesan, and Natasa Przulj (2010), Systems-level Cancer Gene Identification from Protein Interaction Network Topology Applied to Melanogenesis-related Interaction Networks, Journal of the Royal Society Interface, 7(44): 423-437, 2010.

4. Tijana Milenkovic‡, Ioannis Filippis‡, Michael Lappe, and Natasa Przulj (2009), Optimized Null Model for Protein Structure Networks, PLOS ONE 4(6): e5967.
‡These authors contributed equally to this work

3. C. Guerrero, T. Milenkovic, N. Przulj, J. J. Jones, P. Kaiser, L. Huang (2008) Characterization of the Yeast Proteasome Interaction Network by QTAX-Based Tag-Team Mass Spectrometry and Protein Interaction Network Analysis, PNAS 105(36): 13333–13338.

2. Tijana Milenkovic and Natasa Przulj (2008) Uncovering Biological Network Function via Graphlet Degree Signatures; Cancer Informatics 2008:6 257–273.

1. Tijana Milenkovic, Jason Lai, and Natasa Przulj (2008) GraphCrunch: a tool for large network analyses, BMC Bioinformatics 9:70. Highly accessed.

 

Refereed Conference Papers

5. Yuriy Hulovatyy, Sidney D’Mello, Rafael A. Calvo, and Tijana Milenkovic (2013), Network Analysis Improves Interpretation of Affective Physiological Data, In IEEE Proceedings of the 2nd International Workshop on Complex Networks and their Applications at the 9th International Conference on Signal-Image Technology and Internet-Based Systems (SITIS), Kyoto, Japan, December 2-5, 2013.

4. Tijana Milenkovic, Han Zhao, and Fazle E. Faisal (2013), Global Network Alignment In The Context Of Aging, In Proceedings of the ACM Conference on Bioinformatics, Computational Biology and Biomedical Informatics (ACM BCB), Washington DC, USA, September 22-25, 2013 (acceptance rate: 28.7%).

3. Ryan W. Solava, Ryan P. Michaels, and Tijana Milenkovic (2012), Graphlet-based edge clustering reveals pathogen-interacting proteins, Proceedings of the 11th European Conference on Computational Biology (ECCB), Basel, Switzerland, September 9-12, 2012 (acceptance rate: 14%). Also, in Bioinformatics, 28 (18): i480-i486

2. Vesna Memisevic, Tijana Milenkovic, and Natasa Przulj (2010), Complementarity of network and sequence structure in homologous proteins, Proceedings of the 6th International Symposium on Integrative Bioinformatics, 22-24 March 2010, Cambridge, United Kingdom.

1. Vesna Memisevic, Tijana Milenkovic, and Natasa Przulj (2010), An integrative approach to modeling biological networks, Proceedings of the 6th International Symposium on Integrative Bioinformatics, 22-24 March 2010, Cambridge, United Kingdom.

 

Refereed Book Chapters

2.Tijana Milenkovic and Natasa Przulj, Topological Characteristics of Molecular Networks, a chapter in Functional Coherence of Molecular Networks in Bioinformatics, edited by Mehmet Koyuturk, Shankar Subramaniam, and Ananthto Grama, Springer, 2012.

1. Natasa Przulj and Tijana Milenkovic, Computational Methods for Analyzing and Modeling Biological Networks, a chapter in “Biological Data Mining”, edited by Jake Chen and Stefano Lonardi, Chapman & Hall/CRC; 1 edition, September 1, 2009.