Predrag Radivojac


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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

  • 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 grant for International Symposium on Information Theory, ISIT 1997, Ulm, Germany

Student Awards:

  • 2010, Shuyan Li; $1,250 Travel Award for PSB 2010, National Library of Medicine, National Institutes of Health

  • 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, Amrita Mohan, Teaching Award, School of Informatics, Indiana University

  • 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 for 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 Service - Selected

 

 2010   Scientific program committee, AMIA Summit on Translational Bioinformatics (STB 2010)
 2006-2009

Session chair, Molecular Bioinformatics for Diseases, Pacific Symposium on Biocomputing (PSB)
 2009   Program committee, European Conference on Machine Learning (ECML 2009)
 2009   Program committee, SIAM International Conference on Data Mining (SDM 2009)
 2009   Scientific program committee and session chair, AMIA Summit on Translational Bioinformatics (STB 2009)
 2008

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

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

 

Selected Publications

Reviews

  1. Dalkilic MM, Costello JC, Clark WT, Radivojac P. From protein-disease associations to disease informatics. Front Biosci (2008) 13: 3391-3407.

  2. Radivojac P, Iakoucheva LM, Oldfield CJ, Obradovic Z, Uversky VN, Dunker AK. Intrinsic disorder and functional proteomics. Biophys J (2007) 92(5): 1439-1456.

 

Protein bioinformatics

  1. Mohan A, Uversky VN, Radivojac P. Influence of sequence changes and environment on intrinsically disordered proteins. PLoS Comput Biol (2009) 5(9): e1000497.

  2. 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.

  3. Radivojac P, Peng K, Clark WT, Peters BJ, Mohan A, Boyle SM, Mooney SD. An integrated approach to inferring gene-disease associations in humans. Proteins (2008) 72(3):1030-1037.

 

Proteomics

  1. Li YF, Arnold RJ, Li Y, Radivojac P, Sheng Q, Tang H. A Bayesian approach to protein inference problem in shotgun proteomics. J Comput Biol (2009) 16(8): 1183-1193.

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

  3. Tang H, Arnold RJ, Alves P, Xun Z, Clemmer DE, Novotny MV, Reilly JP, Radivojac P. A computational approach toward label-free protein quantification using predicted peptide detectability. Bioinformatics (2006) 22 (14): e481-e488.

 

Machine learning and data mining

  1. Dalkilic MM, Clark WT, Costello JC, Radivojac P. 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. Radivojac P, Obradovic Z, Dunker AK, Vucetic S. Feature selection filters based on the permutation test. European Conference on Machine Learning, ECML 2004, pp. 334-346, Pisa, Italy, September 2004.

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

See all publications

 

Miscellaneous

  • H-index on August 1, 2009: 15 - ISI Web of Knowledge; 16 - Scopus; 18 - Google Scholar (no attempt was made to verify correctness of citations).

  • Genealogy at the Mathematics Genealogy Project (MGP) web site

    •  Some famous ancestors according to MGP: Alonzo Church (6th generation), Simeon Lagrange, Leonard Euler, Jacob Bernoulli.

Last modified: October 26, 2009