Vitae


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Education

Post-doctoral fellow, Bioinformatics, Indiana University School of Medicine, Indianapolis, Indiana, U.S.A., 2004

Ph.D., Computer and Information Sciences, Temple University, Philadelphia, Pennsylvania, U.S.A., 2003

M.S., Electrical Engineering, University of Belgrade, Serbia, 1997

B.S., Electrical Engineering, University of Novi Sad, Serbia, 1994

 

Positions and Employment

2005-

Assistant Professor, School of Informatics, Indiana University, Bloomington, Indiana
2004-2005

Visiting Assistant Professor, School of Informatics, Indiana University, Bloomington, Indiana
2004

Post-doctoral fellow, School of Medicine, Indiana University, Indianapolis, Indiana
2004-2005 

Consultant, Molecular Kinetics, Indianapolis, Indiana
2000-2003

Research and Teaching Assistant, Department of Computer and Information Sciences, Temple University, Philadelphia, Pennsylvania
2002

Research fellow, Molecular Kinetics, Pullman, Washington
2001

Software Design Engineer Intern, Natural Language Group, Microsoft, Redmond, Washington
1994-1999  

Research and Teaching Associate, School of Engineering, University of Novi Sad, Novi Sad, Serbia

 

 Awards and Honors

 

Awards to me:

  • 2007, NSF CAREER Award

  • 2001, $500 Graduate student award, Temple University

  • 1998-1999, Outstanding young scientist award, 3 year fully subsidized university housing, University of Novi Sad

  • 1997, approx. $500 Travel award for International Symposium on Information Theory, ISIT 1997, Soros Foundation and a few companies in Novi Sad, Serbia

Awards to students who work(ed) with me:

  • 2007, Amrita Mohan, $600 Travel Award from NSF to attend Academic Workshop for Underrepresented Assistant Professors, Associate Professors, and Senior Doctoral Students, organized by the Coalition to Diversify Computing (CDC).

  • 2007-2009, Amrita Mohan, $38,750 Lilly Fellowship, Eli Lilly and Company Foundation

  • 2007, Pedro Alves; $1,250 Travel Award for PSB 2007, National Institutes of Health

  • 2006, Wyatt Clark; $750 Travel Award for SDM 2006, Lawrence Livermore National Laboratory

  • 2006, James Costello; $750 Travel Award for SDM 2006, Lawrence Livermore National Laboratory

  • 2006, Narmada Jayasankar; $100, Best Poster Award, InWIC 2006

  • 2005, Kenneth Daily; $400, Travel Award for CIBCB 2005, IEEE Computational Intelligence Society

  • 2004, Stuart Young; $3000, McNair Fellowship, Indiana University

Professional Memberships

 

 2007-

Member, American Society for Mass Spectrometry (ASMS)
 2004-

Member, International Society of Computational Biology (ISCB)
 2004-

AGEP Professor (Alliances for Graduate and Professoriate Program). AGEP is an alliance addressing national minority education challenge and promoting participation of minorities. (Midwest Crossroads AGEP)

 

Professional Experience and Service

 

 2006-2009

Session co-chair, Molecular Bioinformatics for Diseases, Pacific Symposium on Biocomputing (PSB)
 2009  Program committee, SIAM International Conference on Data Mining (SDM 2009)
 2009  Program committee, AMIA Summit on Translational Bioinformatics (STB 2009)
 2008

Program committee, Structural Bioinformatics, European Conference on Computational Biology (ECCB 2008)
 2007  Area co-chair, Bioinformatics of Disease, International Conference on Intelligent Systems for Molecular Biology (ISMB 2007)
 2006

Area co-chair, Human Health, International Conference on Intelligent Systems for Molecular Biology (ISMB 2006)
 2006-2007

Program committee, ICPR Workshop on Pattern Recognition in Bioinformatics (PRIB 2007)
 2006-2007

Program committee, VLDB Workshop on Data Mining in Bioinformatics (VLDB 2007)
 2006

Program committee, ACM CIKM Workshop on Text Mining in Bioinformatics (TMBio 2006)

 

Selected Publications

Reviews

  1. M. M. Dalkilic, J. C. Costello, W. T. Clark, P. Radivojac. From protein-disease associations to disease informatics. Front Biosci. (2008) 13: 3391-3407.

  2. P. Radivojac, L. M. Iakoucheva, C. J. Oldfield, Z. Obradovic, V. N. Uversky, A. K. Dunker. Protein disorder and functional proteomics. Biophys J. (2007) 92(5): 1439-1456.

 

Protein bioinformatics

  1. Radivojac P, Baenziger PH, Kann MG, Mort ME, Hahn MW, Mooney SD. Gain and loss of phosphorylation sites in human cancer. Bioinformatics. (2008) 24(16): i241-i247.

  2. P. Radivojac, K. Peng, W. T. Clark, B. J. Peters, A. Mohan, S. M. Boyle, S. D. Mooney. An integrated approach to inferring gene-disease associations in humans. Proteins, (2008) 72(3):1030-1037.

  3. P. Radivojac, S. Vucetic, T. R. O'Connor, V. N. Uversky, Z. Obradovic, A. K. Dunker. Calmodulin signaling: analysis and prediction of a disorder-dependent molecular recognition. Proteins, (2006) 63(2): 398-410.

  4. L. M. Iakoucheva, P. Radivojac, C. J. Brown, T. R. O'Connor, J. G. Sikes, Z. Obradovic, A. K. Dunker. The importance of intrinsic disorder for protein phosphorylation. (joint first authors LMI and PR), Nucleic Acids Res., (2004) 32 (3): 1037-1049.

  5. P. Radivojac, Z. Obradovic, D. K. Smith, G. Zhu, S. Vucetic, C. J. Brown, J. D. Lawson, A. K. Dunker. Protein flexibility and intrinsic disorder. Protein Sci., (2004) 13 (1): 71-80.

 

Proteomics

  1. Li YF, Arnold RJ, Li Y, Radivojac P, Sheng Q, Tang H. A Bayesian approach to protein inference problem in shotgun proteomics. The 12th Annual International Conference on Research in Computational Molecular Biology, RECOMB 2008, pp. 167-180, Singapore, 2008.

  2. P. Alves, R. J. Arnold, D. E. Clemmer, Y. Li, J. P. Reilly, Q. Sheng, H. Tang, Z. Xun, R. Zeng, P. Radivojac. Fast and accurate identification of semi-tryptic peptides in shotgun proteomics. Bioinformatics, (2008) 24 (1): 102-109.

  3. P. Alves, R. J. Arnold, M. V. Novotny, P. Radivojac, J. P. Reilly, H. Tang. Advancements in protein inference from shotgun proteomics using peptide detectability. Pac Symp Biocomput, (2007) 12: 409-420.

  4. H. Tang, R. J. Arnold, P. Alves, Z. Xun, D. E. Clemmer, M. V. Novotny, J. P. Reilly, P. Radivojac. A computational approach toward label-free protein quantification using predicted peptide detectability. Bioinformatics, (2006) 22 (14): e481-e488.

  5. R. J. Arnold, N. Jayasankar, D. Aggarwal, H. Tang, P. Radivojac. A machine learning approach to predicting peptide fragmentation spectra. Pac Symp Biocomput, (2006) 11: 219-230.
     

Machine learning and data mining

  1. M. M. Dalkilic, W. T. Clark, J. C. Costello, P. Radivojac. Using compression to detect classes of inauthentic texts. SIAM International Conference on Data Mining, SDM 2006, pp. 604-608, Bethesda, Maryland, U.S.A., April 2006.

  2. P. Radivojac, Z. Obradovic, A. K. Dunker, S. Vucetic. Feature selection filters based on the permutation test. European Conference on Machine Learning, ECML 2004, pp. 334-346, Pisa, Italy, September 2004.

  3. P. Radivojac, N. V. Chawla, A. K. Dunker, Z. Obradovic. Classification and knowledge discovery in protein databases. J Biomed Inform, (2004) 37(4): 224-239.

See all publications

 

Last modified: August 13, 2008