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2009

[15] Vacic V, Iakoucheva LM, Lonardi S, and Radivojac P. "Graphlet kernels for prediction of functional residues in protein structures." Journal of Computational Biology. In press. web site

[14] Bogunovic D, O’Neill DW, Belitskaya-Levy I, Vacic V, Yu Y-L, Adams S, Darvishian F, Berman R, Shapiro R, Pavlick AC, Lonardi S, Zavadil J, Osman I, and Bhardwaj N. "Immune profile and mitotic index of metastatic melanoma lesions enhance clinical staging in predicting patient survival." Proceedings of the National Academy of Sciences. In press. Featured in U.S. News & World Report

[13] McCarthy SE, Makarov V, Kirov G, Addington A, McClellan J, Yoon S, Perkins D, Dickel DE, Kusenda M, Krastoshevsky O, Krause V, Kumar RA, Grozeva D, Malhotra D, Walsh T, Zackai EH, Kaplan P, Ganesh J, Krantz ID, Spinner NB, Roccanova P, Bhandari A, Pavon K, Lakshmi B, Leotta A, Kendall J, Lee Y, Vacic V, Gary S, Iakoucheva L, Crow TJ, Christian SL, Lieberman J, Stroup S, Lehtimäki T, Puura K, Haldeman-Englert C, Pearl J, Goodell M, Willour VL, DeRosse P, Steele J, Kassem L, Wolff J, Chitkara N, McMahon F, Malhotra AK, Potash JB, Schulze T, Nöthen MM, Cichon S, Rietschel M, Leibenluft E, Kustanovich V, Lajonchere CM, Sutcliffe JS, Skuse D, Gill M, Gallagher L, Mendell NR, Wellcome Trust Case Control Consortium, Craddock N, Owen MJ, O’Donovan MC, Shaikh TH, Susser E, DeLisi LE, Sullivan PF, Deutsch CK, Rapoport J, Levy DL, King MC, and Sebat J. "Microduplications of 16p11.2 are associated with schizophrenia." Nature Genetics. 41:1223-7. (2009) Featured on GenomeWeb

[12] Radivojac P, Vacic V, Haynes C, Cocklin RR, Mohan A, Heyen JW, Goebl MG, and Iakoucheva LM. "Identification, analysis and prediction of protein ubiquitination sites." Proteins: Structure, Function, and Bioinformatics. In press. web site

2008

[11] Dunker AK, Oldfield CJ, Meng J, Romero P, Yang JY, Chen JW, Vacic V, Obradovic Z, and Uversky VN. "The unfoldomics decade: an update on intrinsically disordered proteins." BMC Genomics. 9(S2):S1. (2008)

[10] Vacic V, Jin H, Zhu J-K, and Lonardi S. "A probabilistic method for small RNA flowgram matching." Pacific Symposium on Biocomputing, PSB'08, 13:75-86. (2008) slides web site

[9] Jin H, Vacic V, Girke T, Lonardi S, and Zhu J-K. "Small RNAs and the regulation of cis-natural antisense transcripts in Arabidopsis." BMC Molecular Biology. 9:6. (2008)

2007

[8] Fu Z, Chen X, Vacic V, Nan P, Zhong Y, and Jiang T. "MSOAR: a high-throughput ortholog assignment system based on genome rearrangement." Journal of Computational Biology. 14(9):1160-75. (2007) web site

[7] Vacic V, Oldfield CJ, Mohan A, Radivojac P, Cortese MS, Uversky VN, and Dunker AK. "Characterization of molecular recognition features, MoRFs, and their binding partners." Journal of Proteome Research. 6(6):2351-66. (2007)

[6] Vacic V, Uversky VN, Dunker AK, and Lonardi S. "Composition Profiler: a tool for discovery and visualization of amino acid composition differences." BMC Bioinformatics. 8:211. (2007) web site

[5] Sickmeier M, Hamilton JA, LeGall T, Vacic V, Cortese MS, Tantos A, Szabo B, Tompa P, Chen J, Uversky VN, Obradovic Z, and Dunker AK. "DisProt: the database of disordered proteins." Nucleic Acids Research. 35:D786-93. (2007). web site

2006

[4] Mohan A, Oldfield CJ, Radivojac P, Vacic V, Cortese MS, Dunker AK, and Uversky VN. "Analysis of molecular recognition features (MoRFs)." Journal of Molecular Biology, 362(5):1043-59. (2006)

[3] Vacic V, Iakoucheva LM, and Radivojac P. "Two Sample Logo: a graphical representation of the differences between two sets of sequence alignments." Bioinformatics, 22(12):1536-7. (2006) web site

[2] Fu Z, Chen X, Vacic V, Nan P, Zhong Y, and Jiang T. "A parsimony approach to genome-wide ortholog assignment." ACM Annual Conference on Research in Computational Molecular Biology, RECOMB'06, Venice, Italy. (2006)

2005

[1] Vucetic S, Obradovic Z, Vacic V, Radivojac P, Peng K, Iakoucheva LM, Cortese MS, Lawson JD, Brown CJ, Sikes JG, Newton CD, and Dunker AK. "Disprot: a database of protein disorder." Bioinformatics, 21(1): 137-140. (2005)

Coauthor Index

A. Keith Dunker	[1] [4] [5] [6] [7] [11]
Predrag Radivojac	[1] [3] [4] [7] [12] [15]
Lilia M. Iakoucheva	[1] [3] [12] [13] [15]
Stefano Lonardi	[6] [9] [10] [14] [15]
Vladimir N. Uversky	[4] [5] [6] [7] [11]
Marc S. Cortese	[1] [4] [5] [7]
Zoran Obradovic	[1] [5] [11]
Amrita Mohan	[4] [7] [15]
Christopher J. Oldfield	[4] [7] [11]
Xin Chen	[2] [8]
Zheng Fu	[2] [8]
Tao Jiang	[2] [8]
Hailing Jin	[9] [10]
Peng Nan	[2] [8]
Yang Zhong	[2] [8]
Jian-Kang Zhu	[9] [10]
Sylvia Adams	[14]
Anjene Addington	[13]
Ilana Belitskaya-Levy	[14]
Russell Berman	[14]
Abhishek Bhandari	[13]
Nina Bhardwaj	[14]
Dusan Bogunovic	[14]
Celeste J. Brown	[1]
Jake Chen	[5]
Jessica Walton Chen	[11]
Nisha Chitkara	[13]
Susan Christian	[13]
Sven Cichon	[13]
Ross R. Cocklin	[15]
Nick Craddock	[13]
Timothy Crow	[13]
Farbod Darvishian	[14]
Lynn DeLisi	[13]
Pamela DeRosse	[13]
Curtis Deutsch	[13]
Diane Dickel	[13]
Louise Gallagher	[13]
Jaya Ganesh	[13]
Sydney Gary	[13]
Michael Gill	[13]
Thomas Girke	[9]
Mark G. Goebl	[12]
Meredith Goodell	[13]
Detelina Grozeva	[13]
Chad Haldeman-Englert	[13]
Justin A. Hamilton	[5]
Chad Haynes	[12]
Joshua W. Heyen	[12]
Paige Kaplan	[13]
Layla Kassem	[13]
Jude Kendall	[13]
Mary-Claire King	[13]
George Kirov	[13]
Ian Krantz	[13]
Olga Krastoshevsky	[13]
Verena Krause	[13]
Ravinesh Kumar	[13]
Mary Kusenda	[13]
B. Lakshmi	[13]
J. David Lawson	[1]
Yoon-Ha Lee	[13]
Tanguy LeGall	[5]
Terho Lehtimäki	[13]
Ellen Leibenluft	[13]
Anthony Leotta	[13]
Deborah Levy	[13]
Jeffrey Lieberman	[13]
Vladimir Makarov	[13]
Anil Malhotra	[13]
Dheeraj Malhotra	[13]
Shane McCarthy	[13]
Jon McClellan	[13]
Francis McMahon	[13]
Nancy Mendell	[13]
Jingwei Meng	[11]
Crystal D. Newton	[1]
Markus Nöthen	[13]
Michael O'Donovan	[13]
David W. O’Neill	[14]
Iman Osman	[14]
Michael Owen	[13]
Anna C. Pavlick	[14]
Kevin Pavon	[13]
Justin Pearl	[13]
Kang Peng	[1]
Diana Perkins	[13]
James Potash	[13]
Judith Rapoport	[13]
Marcella Rietschel	[13]
Patricia Roccanova	[13]
Pedro Romero	[11]
Thomas Schultz	[13]
Richard Shapiro	[14]
Jonathan Sebat	[13]
Tamim Shaikh	[13]
Megan Sickmeier	[5]
Jason G. Sikes	[1]
David Skuse	[13]
Nancy Spinner	[13]
Joe Steele	[13]
T. Scott Stroup	[13]
Patrick Sullivan	[13]
Ezra Susser	[13]
James Sutcliffe	[13]
Beata Szabo	[5]
Agnes Tantos	[5]
Peter Tompa	[5]
Slobodan Vucetic	[1]
Tom Walsh	[13]
Virginia Wilour	[13]
Jessica Wolff	[13]
Jack Y. Yang	[11]
Seungtai Yoon	[13]
Yi-Lo Yu	[14]
Elaine Zackai	[13]
Jiri Zavadil	[14]

Venue Index

Bioinformatics	[1] [3]
Journal of Computational Biology	[8] [15]
BMC Bioinformatics	[6]
BMC Genomics	[11]
BMC Molecular Biology	[9]
Journal of Molecular Biology	[4]
Journal of Proteome Research	[7]
Nature Genetics	[13]
Nucleic Acids Research	[5]
Pacific Symposium on Biocomputing, PSB	[10]
Proceedings of the National Academy of Sciences	[14]
Proteins: Structure, Function, and Bioinformatics	[12]
ACM Annual Conference on Research in Computational Molecular Biology, RECOMB	[2]