A. Dunker

  • 29187 Citations
  • 82 h-Index
1969 …2019
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Publications 1969 2019

Article
3 Citations (Scopus)

2K09 and thereafter: The coming era of integrative bioinformatics, systems biology and intelligent computing for functional genomics and personalized medicine research

Yang, J. Y., Niemierko, A., Bajcsy, R., Xu, D., Athey, B. D., Zhang, A., Ersoy, O. K., Li, G. Z., Borodovsky, M., Zhang, J. C., Arabnia, H. R., Deng, Y., Dunker, A., Liu, Y. & Ghafoor, A., Nov 29 2010, In : BMC Genomics. 11, SUPPL. 3, I1.

Research output: Contribution to journalArticle

Precision Medicine
Systems Biology
Genomics
Computational Biology
Research
91 Citations (Scopus)

Aberrant mobility phenomena of the DNA repair protein XPA

Iakoucheva, L. M., Kimzey, A. L., Masselon, C. D., Smith, R. D., Dunker, A. & Ackerman, E. J., 2001, In : Protein Science. 10, 7, p. 1353-1362 10 p.

Research output: Contribution to journalArticle

Xenopus
DNA Repair
Repair
DNA
Molecular weight
4 Citations (Scopus)

Abundance and functional roles of intrinsic disorder in allergenic proteins and allergen representative peptides

Xue, B., Soeria-Atmadja, D., Gustafsson, M. G., Hammerling, U., Dunker, A. & Uversky, V. N., Sep 2011, In : Proteins: Structure, Function and Genetics. 79, 9, p. 2595-2606 12 p.

Research output: Contribution to journalArticle

Allergens
Peptides
Proteins
Allergies
Immunoglobulin E
119 Citations (Scopus)

Abundance of intrinsic disorder in protein associated with cardiovascular disease

Cheng, Y., LeGall, T., Oldfield, C. J., Dunker, A. & Uversky, V. N., Sep 5 2006, In : Biochemistry. 45, 35, p. 10448-10460 13 p.

Research output: Contribution to journalArticle

Cardiovascular Diseases
Proteins
Intrinsically Disordered Proteins
Protein Databases
Distribution functions
35 Citations (Scopus)

A comparative analysis of viral matrix proteins using disorder predictors

Goh, G. K. M., Dunker, A. & Uversky, V. N., 2008, In : Virology Journal. 5, 126.

Research output: Contribution to journalArticle

Viral Matrix Proteins
HIV-1
Proteins
Equine infectious anemia virus
Human Immunodeficiency Virus Proteins
60 Citations (Scopus)

A computational investigation of allostery in the catabolite activator protein

Li, W., Uversky, V. N., Dunker, A. & Meroueh, S., Dec 19 2007, In : Journal of the American Chemical Society. 129, 50, p. 15668-15676 9 p.

Research output: Contribution to journalArticle

Cyclic AMP Receptor Protein
DNA
Proteins
Free energy
Calorimetry
58 Citations (Scopus)

A creature with a hundred waggly tails: Intrinsically disordered proteins in the ribosome

Peng, Z., Oldfield, C. J., Xue, B., Mizianty, M. J., Dunker, A., Kurgan, L. & Uversky, V. N., 2014, In : Cellular and Molecular Life Sciences. 71, 8, p. 1477-1504 28 p.

Research output: Contribution to journalArticle

Intrinsically Disordered Proteins
Ribosomes
Ribosomal Proteins
Proteins
RNA-Binding Proteins
68 Citations (Scopus)

Addressing the intrinsic disorder bottleneck in structural proteomics

Oldfield, C. J., Ulrich, E. L., Cheng, Y., Dunker, A. & Markley, J. L., May 15 2005, In : Proteins: Structure, Function and Genetics. 59, 3, p. 444-453 10 p.

Research output: Contribution to journalArticle

Proteomics
Genomics
Proteins
Magnetic Resonance Spectroscopy
Nuclear magnetic resonance spectroscopy
6 Citations (Scopus)

Advances in translational bioinformatics facilitate revealing the landscape of complex disease mechanisms

Yang, J. Y., Dunker, A., Liu, J. S., Qin, X., Arabnia, H. R., Yang, W., Niemierko, A., Chen, Z., Luo, Z., Wang, L., Liu, Y., Xu, D., Deng, Y., Tong, W. & Yang, M. Q., Dec 16 2014, In : BMC Bioinformatics. 15, 17, I1.

Research output: Contribution to journalArticle

Bioinformatics
Computational Biology
Genes
Promoter
Protein
69 Citations (Scopus)

A functionally required unfoldome from the plant kingdom: Intrinsically disordered N-terminal domains of GRAS proteins are involved in molecular recognition during plant development

Sun, X., Xue, B., Jones, W. T., Rikkerink, E., Dunker, A. & Uversky, V. N., Oct 2011, In : Plant Molecular Biology. 77, 3, p. 205-223 19 p.

Research output: Contribution to journalArticle

Intrinsically Disordered Proteins
Plant Development
plant development
proteins
Computational Biology
268 Citations (Scopus)

Alternative splicing in concert with protein intrinsic disorder enables increased functional diversity in multicellular organisms

Romero, P. R., Zaidi, S., Fang, Y. Y., Uversky, V. N., Radivojac, P., Oldfield, C. J., Cortese, M. S., Sickmeier, M., LeGall, T., Obradovic, Z. & Dunker, A., May 30 2006, In : Proceedings of the National Academy of Sciences of the United States of America. 103, 22, p. 8390-8395 6 p.

Research output: Contribution to journalArticle

Alternative Splicing
Proteins
Protein Isoforms
Protein Databases
Recombinant DNA
91 Citations (Scopus)

Alternative splicing of intrinsically disordered regions and rewiring of protein interactions

Buljan, M., Chalancon, G., Dunker, A., Bateman, A., Balaji, S., Fuxreiter, M. & Babu, M. M., Jun 2013, In : Current Opinion in Structural Biology. 23, 3, p. 443-450 8 p.

Research output: Contribution to journalArticle

Alternative Splicing
Proteins
Post Translational Protein Processing
Protein Isoforms
Messenger RNA
25 Citations (Scopus)

A model for fd phage penetration and assembly

Dunker, A., Ensign, L. D., Arnold, G. E. & Roberts, L. M., Nov 4 1991, In : FEBS Letters. 292, 1-2, p. 271-274 4 p.

Research output: Contribution to journalArticle

Bacteriophage M13
Bacteriophages
Chloroform
Proteins
Capsid Proteins
51 Citations (Scopus)

A model for membrane transport through α-helical protein pores

Dunker, A. & Marvin, D. A., May 8 1978, In : Journal of Theoretical Biology. 72, 1, p. 9-16 8 p.

Research output: Contribution to journalArticle

porins
Porins
protons
Protons
Membrane
434 Citations (Scopus)

Analysis of Molecular Recognition Features (MoRFs)

Mohan, A., Oldfield, C. J., Radivojac, P., Vacic, V., Cortese, M. S., Dunker, A. & Uversky, V. N., Oct 6 2006, In : Journal of Molecular Biology. 362, 5, p. 1043-1059 17 p.

Research output: Contribution to journalArticle

Proteins
Computational Biology
Chemical Databases
Explosions
Protein Binding
7 Citations (Scopus)

Analysis of protein-nucleic acid filter binding using the poisson distribution: A method to estimate co-operativity

Dunker, A., Apr 1 1975, In : FEBS Letters. 52, 2, p. 323-326 4 p.

Research output: Contribution to journalArticle

Coliphages
Poisson Distribution
Radioligand Assay
DNA Viruses
Bacterial Proteins
44 Citations (Scopus)

Analysis of structured and intrinsically disordered regions of transmembrane proteins

Xue, B., Li, L., Meroueh, S., Uversky, V. N. & Dunker, A., 2009, In : Molecular BioSystems. 5, 12, p. 1688-1702 15 p.

Research output: Contribution to journalArticle

Membrane Proteins
Proteins
Water
Amino Acids
Protein Transport
13 Citations (Scopus)

An assignment of intrinsically disordered regions of proteins based on NMR structures

Ota, M., Koike, R., Amemiya, T., Tenno, T., Romero, P. R., Hiroaki, H., Dunker, A. & Fukuchi, S., Jan 2013, In : Journal of Structural Biology. 181, 1, p. 29-36 8 p.

Research output: Contribution to journalArticle

Intrinsically Disordered Proteins
Magnetic Resonance Spectroscopy
Proteins
X-Rays
Biological Phenomena
17 Citations (Scopus)

A new method for determining protein secondary structure by laser raman spectroscopy applied to FD phage

Williams, R. W., Dunker, A. & Peticolas, W. L., Jan 1 1980, In : Biophysical Journal. 32, 1, p. 232-234 3 p.

Research output: Contribution to journalArticle

Secondary Protein Structure
Raman Spectrum Analysis
Bacteriophages
Lasers
2 Citations (Scopus)

Another disordered chameleon: The micro-exon gene 14 protein from schistosomiasis

Dunker, A., Jun 4 2013, In : Biophysical Journal. 104, 11, p. 2326-2328 3 p.

Research output: Contribution to journalArticle

Intrinsically Disordered Proteins
Lizards
Schistosomiasis
Protein Folding
Exons
14 Citations (Scopus)

Another Window into Disordered Protein Function

Dunker, A., Sep 11 2007, In : Structure. 15, 9, p. 1026-1028 3 p.

Research output: Contribution to journalArticle

Multiple Personality Disorder
Proteins
136 Citations (Scopus)

A Protein Domain-Based Interactome Network for C. elegans Early Embryogenesis

Boxem, M., Maliga, Z., Klitgord, N., Li, N., Lemmens, I., Mana, M., de Lichtervelde, L., Mul, J. D., van de Peut, D., Devos, M., Simonis, N., Yildirim, M. A., Cokol, M., Kao, H. L., de Smet, A. S., Wang, H., Schlaitz, A. L., Hao, T., Milstein, S., Fan, C. & 17 others, Tipsword, M., Drew, K., Galli, M., Rhrissorrakrai, K., Drechsel, D., Koller, D., Roth, F. P., Iakoucheva, L. M., Dunker, A., Bonneau, R., Gunsalus, K. C., Hill, D. E., Piano, F., Tavernier, J., van den Heuvel, S., Hyman, A. A. & Vidal, M., Aug 8 2008, In : Cell. 134, 3, p. 534-545 12 p.

Research output: Contribution to journalArticle

Embryonic Development
Proteins
Biological Phenomena
Centrosome
Proteome
34 Citations (Scopus)
Proton Pump
Tobacco Mosaic Virus
Virus Assembly
Proton Pumps
proton pump
71 Citations (Scopus)

Archaic chaos: Intrinsically disordered proteins in Archaea

Xue, B., Williams, R. W., Oldfield, C. J., Dunker, A. & Uversky, V. N., May 28 2010, In : BMC Systems Biology. 4, SUPPL. 1, S1.

Research output: Contribution to journalArticle

Intrinsically Disordered Proteins
Archaea
Chaos theory
Chaos
Proteins
19 Citations (Scopus)

Assessing secondary structure assignment of protein structures by using pairwise sequence-alignment benchmarks

Zhang, W., Dunker, A. & Zhou, Y., Apr 2008, In : Proteins: Structure, Function and Genetics. 71, 1, p. 61-67 7 p.

Research output: Contribution to journalArticle

Secondary Protein Structure
Benchmarking
Sequence Alignment
Proteins
Electric sparks
149 Citations (Scopus)

Atomic force microscopy of DNA and bacteriophage in air, water and propanol: The role of adhesion forces

Lyubchenko, Y. L., Oden, P. I., Lampner, D., Lindsay, S. M. & Dunker, A., 1993, In : Nucleic Acids Research. 21, 5, p. 1117-1123 7 p.

Research output: Contribution to journalArticle

1-Propanol
Bacteriophages
Atomic Force Microscopy
Propanol
Adhesion
50 Citations (Scopus)

Biochemistry: Controlled chaos

Uversky, V. N. & Dunker, A., Nov 28 2008, In : Science. 322, 5906, p. 1340-1341 2 p.

Research output: Contribution to journalArticle

Intrinsically Disordered Proteins
Biochemistry
55 Citations (Scopus)

Ca2+-induced folding and aggregation of skeletal muscle sarcoplasmic reticulum calsequestrin: The involvement of the trifluoperazine-binding site

He, Z., Dunker, A., Wesson, C. R. & Trumble, W. R., Nov 25 1993, In : Journal of Biological Chemistry. 268, 33, p. 24635-24641 7 p.

Research output: Contribution to journalArticle

Calsequestrin
Trifluoperazine
Sarcoplasmic Reticulum
Muscle
Skeletal Muscle
83 Citations (Scopus)

Calmodulin signaling: Analysis and prediction of a disorder-dependent molecular recognition

Radivojac, P., Vucetic, S., O'Connor, T. R., Uversky, V. N., Obradovic, Z. & Dunker, A., May 1 2006, In : Proteins: Structure, Function and Genetics. 63, 2, p. 398-410 13 p.

Research output: Contribution to journalArticle

Molecular recognition
Calmodulin
Intrinsically Disordered Proteins
Cell signaling
Calmodulin-Binding Proteins
88 Citations (Scopus)

CDF it all: Consensus prediction of intrinsically disordered proteins based on various cumulative distribution functions

Xue, B., Oldfield, C. J., Dunker, A. & Uversky, V. N., May 6 2009, In : FEBS Letters. 583, 9, p. 1469-1474 6 p.

Research output: Contribution to journalArticle

Intrinsically Disordered Proteins
Distribution functions
Proteins
Error analysis
Neural networks
9 Citations (Scopus)

Changes in predicted protein disorder tendency may contribute to disease risk

Hu, Y., Liu, Y., Jung, J., Dunker, A. & Wang, Y., Dec 23 2011, In : BMC Genomics. 12, SUPPL. 5, S2.

Research output: Contribution to journalArticle

Nucleotides
Proteins
Intrinsically Disordered Proteins
Genome
Inborn Genetic Diseases
3 Citations (Scopus)

Characterization of aleutian mink disease virus

Yoon, J. W., Dunker, A. & Kenyon, A. J., 1975, In : Virology. 64, 2, p. 575-580 6 p.

Research output: Contribution to journalArticle

Aleutian Mink Disease Virus
Virion
Mink
Capsid
Viruses
6 Citations (Scopus)

Characterization of hepatic carnitine palmitoyltransferase. Use of bromoacyl derivatives and antibodies

Brady, P. S., Dunker, A. & Brady, L. J., 1987, In : Biochemical Journal. 241, 3, p. 751-757 7 p.

Research output: Contribution to journalArticle

Carnitine O-Palmitoyltransferase
Coenzyme A
Derivatives
Antibodies
Liver
300 Citations (Scopus)

Characterization of molecular recognition features, MoRFs, and their binding partners

Vacic, V., Oldfield, C. J., Mohan, A., Radivojac, P., Cortese, M. S., Uversky, V. N. & Dunker, A., Jun 2007, In : Journal of Proteome Research. 6, 6, p. 2351-2366 16 p.

Research output: Contribution to journalArticle

Molecular recognition
Proteins
Proteome
Antigen-Antibody Complex
Hydrogen
34 Citations (Scopus)

Circular dichroism studies of fd coat protein in membrane vesicles

Williams, R. W. & Dunker, A., 1977, In : Journal of Biological Chemistry. 252, 18, p. 6253-6255 3 p.

Research output: Contribution to journalArticle

Coliphages
Artificial Membranes
Capsid Proteins
Viral Proteins
Circular Dichroism
59 Citations (Scopus)

Classification and knowledge discovery in protein databases

Radivojac, P., Chawla, N. V., Dunker, A. & Obradovic, Z., Aug 2004, In : Journal of Biomedical Informatics. 37, 4, p. 224-239 16 p.

Research output: Contribution to journalArticle

Protein Databases
Data mining
Noise
Logistic Models
Proteins
581 Citations (Scopus)

Classification of intrinsically disordered regions and proteins

Van Der Lee, R., Buljan, M., Lang, B., Weatheritt, R. J., Daughdrill, G. W., Dunker, A., Fuxreiter, M., Gough, J., Gsponer, J., Jones, D. T., Kim, P. M., Kriwacki, R. W., Oldfield, C. J., Pappu, R. V., Tompa, P., Uversky, V. N., Wright, P. E. & Babu, M. M., Jul 9 2014, In : Chemical Reviews. 114, 13, p. 6589-6631 43 p.

Research output: Contribution to journalArticle

Proteins
Genes
171 Citations (Scopus)

Close encounters of the third kind: Disordered domains and the interactions of proteins

Tompa, P., Fuxreiter, M., Oldfield, C. J., Simon, I., Dunker, A. & Uversky, V. N., 2009, In : BioEssays. 31, 3, p. 328-335 8 p.

Research output: Contribution to journalArticle

Protein Interaction Domains and Motifs
Proteins
Wiskott-Aldrich Syndrome Protein
Microfilament Proteins
Protein Folding
78 Citations (Scopus)

Clusterin, a binding protein with a molten globule-like region

Bailey, R. W., Dunker, A., Brown, C. J., Garner, E. C. & Griswold, M. D., Oct 2 2001, In : Biochemistry. 40, 39, p. 11828-11840 13 p.

Research output: Contribution to journalArticle

Clusterin
Molten materials
Carrier Proteins
Proteins
Trypsin
105 Citations (Scopus)

Combining prediction, computation and experiment for the characterization of protein disorder

Bracken, C., Iakoucheva, L. M., Romero, P. R. & Dunker, A., Oct 2004, In : Current Opinion in Structural Biology. 14, 5, p. 570-576 7 p.

Research output: Contribution to journalArticle

Intrinsically Disordered Proteins
Mass Spectrometry
Magnetic Resonance Spectroscopy
Genome
Proteins

Comments on filamentous phage assembly.

Dunker, A., 1981, In : Progress in Clinical and Biological Research. 64, p. 383-388 6 p.

Research output: Contribution to journalArticle

Coliphages
Protein Conformation
Viral DNA
Viral Proteins
Virus Replication
1 Citation (Scopus)

Comparing NMR and X-ray protein structure: Lindemann-like parameters and NMR disorder

Faraggi, E., Dunker, A., Sussman, J. L. & Kloczkowski, A., Aug 8 2017, (Accepted/In press) In : Journal of Biomolecular Structure and Dynamics. p. 1-11 11 p.

Research output: Contribution to journalArticle

X-Rays
Proteins
34 Citations (Scopus)

Comparing predictors of disordered protein.

Li, X., Obradovic, Z., Brown, C. J., Garner, E. C. & Dunker, A., 2000, In : Genome informatics. Workshop on Genome Informatics. 11, p. 172-184 13 p.

Research output: Contribution to journalArticle

Amino Acids
Amino Acid Sequence
Proteins
Logistic Models
102 Citations (Scopus)

Comparing skeletal and cardiac calsequestrin structures and their calcium binding: A proposed mechanism for coupled calcium binding and protein polymerization

Park, H., Park, Y. I., Kim, E., Youn, B., Fields, K., Dunker, A. & Kang, C., Apr 23 2004, In : Journal of Biological Chemistry. 279, 17, p. 18026-18033 8 p.

Research output: Contribution to journalArticle

Calsequestrin
Calcium-Binding Proteins
Polymerization
Calcium
Ions
18 Citations (Scopus)

Comparison of lipid/gramicidin dispersions and cocrystals by Raman scattering

Short, K. W., Wallace, B. A., Myers, R. A., Fodor, S. P. A. & Dunker, A., 1987, In : Biochemistry. 26, 2, p. 557-562 6 p.

Research output: Contribution to journalArticle

Gramicidin
Raman Spectrum Analysis
Dispersions
Raman scattering
Lipids
194 Citations (Scopus)

Composition Profiler: A tool for discovery and visualization of amino acid composition differences

Vacic, V., Uversky, V. N., Dunker, A. & Lonardi, S., Jun 19 2007, In : BMC Bioinformatics. 8, 211.

Research output: Contribution to journalArticle

Amino Acids
Amino acids
Visualization
Proteins
Protein
86 Citations (Scopus)

Conservation of intrinsic disorder in protein domains and families: I. A database of conserved predicted disordered regions

Chen, J. W., Romero, P., Uversky, V. N. & Dunker, A., Apr 2006, In : Journal of Proteome Research. 5, 4, p. 879-887 9 p.

Research output: Contribution to journalArticle

Conservation
Sequence Alignment
Databases
Proteins
Proteome
84 Citations (Scopus)

Conservation of intrinsic disorder in protein domains and families: II. Functions of conserved disorder

Chen, J. W., Romero, P., Uversky, V. N. & Dunker, A., Apr 2006, In : Journal of Proteome Research. 5, 4, p. 888-898 11 p.

Research output: Contribution to journalArticle

Conservation
Proteins
Archaeal Proteins
RNA-Binding Proteins
Bacterial Proteins
6 Citations (Scopus)

Correlating: Flavivirus virulence and levels of intrinsic disorder in shell proteins: Protective roles vs. immune evasion

Goh, G. K. M., Dunker, A. & Uversky, V. N., 2016, In : Molecular BioSystems. 12, 6, p. 1881-1891 11 p.

Research output: Contribution to journalArticle

Immune Evasion
Flavivirus
Virulence
Protein C
Tick-Borne Encephalitis Viruses
428 Citations (Scopus)

Coupled folding and binding with α-helix-forming molecular recognition elements

Oldfield, C. J., Cheng, Y., Cortese, M. S., Romero, P., Uversky, V. N. & Dunker, A., Sep 20 2005, In : Biochemistry. 44, 37, p. 12454-12470 17 p.

Research output: Contribution to journalArticle

Molecular recognition
Proteins
Genomics
Nucleic Acids
Conformations