A. Dunker

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

2013
52 Citations (Scopus)
Intrinsically Disordered Proteins
Molecular recognition
Catalysis
Static Electricity
Electrostatics
29 Citations (Scopus)

Utilization of protein intrinsic disorder knowledge in structural proteomics

Oldfield, C. J., Xue, B., Van, Y. Y., Ulrich, E. L., Markley, J. L., Dunker, A. & Uversky, V. N., Feb 2013, In : Biochimica et Biophysica Acta - Proteins and Proteomics. 1834, 2, p. 487-498 12 p.

Research output: Contribution to journalArticle

Proteomics
Proteins
Intrinsically Disordered Proteins
Pipelines
Crystal structure
2012

Binding promiscuity of unfolded peptides

Oldfield, C. J., Xue, B., Dunker, A. & Uversky, V. N., Feb 22 2012, Protein and Peptide Folding, Misfolding, and Non-Folding. John Wiley and Sons, p. 239-277 39 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

2 Citations (Scopus)

Erratum: A protein domain-based interactome network for C. elegans early embryogenesis (Cell (2008) 134 (534-545))

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., Dec 21 2012, In : Cell. 151, 7, p. 1633 1 p.

Research output: Contribution to journalArticle

24 Citations (Scopus)

High-throughput characterization of intrinsic disorder in proteins from the Protein Structure Initiative

Johnson, D. E., Xue, B., Sickmeier, M. D., Meng, J., Cortese, M. S., Oldfield, C. J., Le Gall, T., Dunker, A. & Uversky, V. N., Oct 2012, In : Journal of Structural Biology. 180, 1, p. 201-215 15 p.

Research output: Contribution to journalArticle

Proteins
Circular Dichroism
Digestion
Intrinsically Disordered Proteins
Myoglobin
2 Citations (Scopus)

Intrinsically disordered proteins: Analysis, prediction, simulation, and biology

Chen, J., Cheng, J. & Dunker, A., 2012, In : Unknown Journal. p. 67-69 3 p.

Research output: Contribution to journalArticle

Intrinsically Disordered Proteins
Proteins

Intrinsically disordered proteins

Uversky, V. N. & Dunker, A., 2012, Comprehensive Biophysics. Elsevier Inc., Vol. 3. p. 170-211 42 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Intrinsically Disordered Proteins
Proteins
Biophysics
Biochemistry
Molecular biology
45 Citations (Scopus)

Intrinsic protein disorder and protein-protein interactions.

Hsu, W. L., Oldfield, C., Meng, J., Huang, F., Xue, B., Uversky, V. N., Romero, P. & Dunker, A., 2012, In : Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. p. 116-127 12 p.

Research output: Contribution to journalArticle

Intrinsically Disordered Proteins
Artifacts
Proteins
Amino Acids
Weights and Measures
5 Citations (Scopus)

Molecular profiling - An essential technology enabling personalized medicine in breast cancer

Liu, J., Li, S., Dunker, A. & Uversky, V. N., Apr 2012, In : Current Drug Targets. 13, 4, p. 541-554 14 p.

Research output: Contribution to journalArticle

Precision Medicine
Medicine
Tumors
Breast Neoplasms
Technology
174 Citations (Scopus)

MoRFpred, a computational tool for sequence-based prediction and characterization of short disorder-to-order transitioning binding regions in proteins

Disfani, F. M., Hsu, W. L., Mizianty, M. J., Oldfield, C. J., Xue, B., Dunker, A., Uversky, V. N. & Kurgan, L., Jun 2012, In : Bioinformatics. 28, 12, bts209.

Research output: Contribution to journalArticle

Feature Recognition
Molecular recognition
Disorder
Proteins
Protein
48 Citations (Scopus)

Multiparametric analysis of intrinsically disordered proteins: Looking at intrinsic disorder through compound eyes

Uversky, V. N. & Dunker, A., Mar 6 2012, In : Analytical Chemistry. 84, 5, p. 2096-2104 9 p.

Research output: Contribution to journalArticle

Intrinsically Disordered Proteins
Proteome
Proteins
219 Citations (Scopus)
Proteome
Viruses
Eukaryota
Intrinsically Disordered Proteins
Proteins

Pacific symposium on biocomputing 2012

Altman, R. B., Dunker, A., Hunter, L. & Klein, T. E., 2012, In : Unknown Journal. p. v-vi

Research output: Contribution to journalArticle

Preface

Uversky, V. N. & Dunker, A., 2012, In : Methods in molecular biology (Clifton, N.J.). 895

Research output: Contribution to journalArticle

12 Citations (Scopus)

Proline rich motifs as drug targets in immune mediated disorders

Srinivasan, M. & Dunker, A., 2012, In : International Journal of Peptides. 2012, 634769.

Research output: Contribution to journalArticle

Immune System Diseases
Proline
Pharmaceutical Preparations
Signal transduction
Immunomodulation
23 Citations (Scopus)

Protein intrinsic disorder and induced pluripotent stem cells

Xue, B., Oldfield, C. J., Van, Y. Y., Dunker, A. & Uversky, V. N., Jan 2012, In : Molecular BioSystems. 8, 1, p. 134-150 17 p.

Research output: Contribution to journalArticle

Induced Pluripotent Stem Cells
Proteins
Embryonic Stem Cells
Computational Biology
Transcription Factors
5 Citations (Scopus)

Secondary Structure, a Missing Component of Sequence-Based Minimotif Definitions

Sargeant, D. P., Gryk, M. R., Maciejewski, M. W., Thapar, V., Kundeti, V., Rajasekaran, S., Romero, P., Dunker, A., Li, S. C., Kaneko, T. & Schiller, M. R., Dec 7 2012, In : PLoS One. 7, 12, e49957.

Research output: Contribution to journalArticle

post-translational modification
protein-protein interactions
signal transduction
Proteins
proteins
94 Citations (Scopus)

SPINE-D: Accurate prediction of short and long disordered regions by a single neural-network based method

Zhang, T., Faraggi, E., Xue, B., Dunker, A., Uversky, V. N. & Zhou, Y., Feb 2012, In : Journal of Biomolecular Structure and Dynamics. 29, 4, p. 799-813 15 p.

Research output: Contribution to journalArticle

Proteins
X-Rays
Informatics
Area Under Curve
Databases
48 Citations (Scopus)

Structural basis for activation of calcineurin by calmodulin

Rumi-Masante, J., Rusinga, F. I., Lester, T. E., Dunlap, T. B., Williams, T. D., Dunker, A., Weis, D. D. & Creamer, T. P., Jan 13 2012, In : Journal of Molecular Biology. 415, 2, p. 307-317 11 p.

Research output: Contribution to journalArticle

Calcineurin
Calmodulin
Calcium-Calmodulin-Dependent Protein Kinases
Catalytic Domain
Binding Sites
42 Citations (Scopus)

Subclassifying disordered proteins by the CH-CDF plot method.

Huang, F., Oldfield, C., Meng, J., Hsu, W. L., Xue, B., Uversky, V. N., Romero, P. & Dunker, A., 2012, In : Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. p. 128-139 12 p.

Research output: Contribution to journalArticle

Intrinsically Disordered Proteins
Gene Ontology
Mitosis
Proteins
Databases
52 Citations (Scopus)

Sweeping away protein aggregation with entropic bristles: Intrinsically disordered protein fusions enhance soluble expression

Santner, A. A., Croy, C. H., Vasanwala, F. H., Uversky, V. N., Van, Y. Y. J. & Dunker, A., Sep 18 2012, In : Biochemistry. 51, 37, p. 7250-7262 13 p.

Research output: Contribution to journalArticle

Intrinsically Disordered Proteins
Fusion reactions
Agglomeration
Proteins
Glutathione Transferase
27 Citations (Scopus)

The roles of intrinsic disorder in orchestrating the Wnt-pathway

Xue, B., Dunker, A. & Uversky, V. N., Apr 2012, In : Journal of Biomolecular Structure and Dynamics. 29, 5, p. 843-861 19 p.

Research output: Contribution to journalArticle

Wnt Signaling Pathway
Catenins
Axin Protein
Proteins
Cyclin-Dependent Kinase Inhibitor Proteins
6 Citations (Scopus)

Uncertainty analysis in protein disorder prediction

Ghalwash, M. F., Dunker, A. & Obradović, Z., Jan 2012, In : Molecular BioSystems. 8, 1, p. 381-391 11 p.

Research output: Contribution to journalArticle

Uncertainty
Proteins
Intrinsically Disordered Proteins
Mutation
Sequence Homology
3 Citations (Scopus)

Why are we Interested in the Unfolded Peptides and Proteins?

Uversky, V. N. & Dunker, A., Feb 22 2012, Protein and Peptide Folding, Misfolding, and Non-Folding. John Wiley and Sons, p. 1-54 54 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Protein Unfolding
Peptides
Proteins
2011
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
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
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
2 Citations (Scopus)

Do Viral Proteins Possess Unique Features?

Xue, B., Williams, R. W., Oldfield, C. J., Goh, G. K. M., Dunker, A. & Uversky, V. N., Oct 24 2011, Flexible Viruses: Structural Disorder in Viral Proteins. John Wiley and Sons, p. 1-34 34 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Alternative Splicing
Viral Proteins

Erratum: (Biophysical Journal)

Hsu, W. L., Oldfield, C. J., Xue, B., Wagle, M., Meng, J., Huang, F., Morales, C., Uversky, V. N. & Dunker, A., May 4 2011, In : Biophysical Journal. 100, 9, p. 2329 1 p.

Research output: Contribution to journalArticle

Erratum: (Biophysical Journal)

Huang, F., Oldfield, C. J., Bin, X., Meng, J., Hsu, W., Uversky, V. N. & Dunker, A., May 4 2011, In : Biophysical Journal. 100, 9, p. 2329 1 p.

Research output: Contribution to journalArticle

Erratum: (Biophysical Journal)

Morales, C., Oldfield, C. J., Hsu, W. L., Huang, F., Meng, J., Wagle, M. R., Rehlander, R. J., Williams, R. W., Peyetti, S., Xia, Y., Obradovic, Z., Uversky, V. N. & Dunker, A., May 4 2011, In : Biophysical Journal. 100, 9, p. 2328 1 p.

Research output: Contribution to journalArticle

139 Citations (Scopus)

Evolution and disorder

Brown, C. J., Johnson, A. K., Dunker, A. & Daughdrill, G. W., Jun 2011, In : Current Opinion in Structural Biology. 21, 3, p. 441-446 6 p.

Research output: Contribution to journalArticle

Proteins
Point Mutation
28 Citations (Scopus)

In-silico prediction of disorder content using hybrid sequence representation

Mizianty, M. J., Zhang, T., Xue, B., Zhou, Y., Dunker, A., Uversky, V. N. & Kurgan, L., Jun 17 2011, In : BMC Bioinformatics. 12, 245.

Research output: Contribution to journalArticle

Computer Simulation
Disorder
Proteins
Prediction
Intrinsically Disordered Proteins
10 Citations (Scopus)

Phosphorylation of human calsequestrin: Implications for calcium regulation

Sanchez, E. J., Munske, G. R., Criswell, A., Milting, H., Dunker, A. & Kang, C., Jul 2011, In : Molecular and Cellular Biochemistry. 353, 1-2, p. 195-204 10 p.

Research output: Contribution to journalArticle

Calsequestrin
Phosphorylation
Calcium
Sarcoplasmic Reticulum
Substitution reactions
6 Citations (Scopus)

Predictive power estimation algorithm (PPEA) - a new algorithm to reduce overfitting for genomic biomarker discovery

Liu, J., Jolly, R. A., Smith, A. T., Searfoss, G. H., Goldstein, K. M., Uversky, V. N., Dunker, A., Li, S., Thomas, C. E. & Wei, T., Sep 15 2011, In : PLoS One. 6, 9, e24233.

Research output: Contribution to journalArticle

Biomarkers
biomarkers
genomics
Genes
Toxicogenetics
13 Citations (Scopus)

Regions of intrinsic disorder help identify a novel nuclear localization signal in Toxoplasma gondii histone acetyltransferase TgGCN5-B

Dixon, S. E., Bhatti, M. M., Uversky, V. N., Dunker, A. & Sullivan, W., Feb 2011, In : Molecular and Biochemical Parasitology. 175, 2, p. 192-195 4 p.

Research output: Contribution to journalArticle

Histone Acetyltransferases
Nuclear Localization Signals
Toxoplasma
Parasites
Proteins
15 Citations (Scopus)

Sequences and topology: Intrinsic disorder in the evolving universe of protein structure

Dunker, A. & Gough, J., Jun 2011, In : Current Opinion in Structural Biology. 21, 3, p. 379-381 3 p.

Research output: Contribution to journalArticle

Molecular Models
Molecular Evolution
Protein Binding
Amino Acid Sequence
Proteins

Structural Disorder in Matrix Proteins of HIV-Related Viruses

Goh, G. K. M., Xue, B., Dunker, A. & Uversky, V. N., Oct 24 2011, Flexible Viruses: Structural Disorder in Viral Proteins. John Wiley and Sons, p. 143-167 25 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Human Immunodeficiency Virus Proteins
Viruses

Structural Disorder in Proteins from Influenza Virus

Goh, G. M., Xue, B., Dunker, A. & Uversky, V. N., Oct 24 2011, Flexible Viruses: Structural Disorder in Viral Proteins. John Wiley and Sons, p. 169-200 32 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Viruses
Proteins
7 Citations (Scopus)

The orderly chaos of proteins

Dunker, A. & Kriwacki, R. W., Apr 2011, In : Scientific American. 304, 4, p. 48-53 6 p.

Research output: Contribution to journalArticle

5 Citations (Scopus)

The orderly chaos of proteins.

Dunker, A. & Kriwacki, R. W., Apr 2011, In : Scientific American. 304, 4, p. 68-73 6 p.

Research output: Contribution to journalArticle

Nonlinear Dynamics
Molecular Evolution
Protein Folding
Molecular Structure
Protein Binding
2010
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
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
104 Citations (Scopus)

Drugs for 'protein clouds': Targeting intrinsically disordered transcription factors

Dunker, A. & Uversky, V. N., Dec 2010, In : Current Opinion in Pharmacology. 10, 6, p. 782-788 7 p.

Research output: Contribution to journalArticle

Protein Transport
Transcription Factors
Pharmaceutical Preparations
Proteins
Protein Binding
1 Citation (Scopus)

Large-Scale Identification of Intrinsically Disordered Proteins

Uversky, V. N., Cortese, M. S., Tompa, P., Csizmok, V. & Dunker, A., Sep 9 2010, Instrumental Analysis of Intrinsically Disordered Proteins: Assessing Structure and Conformation. John Wiley and Sons, p. 671-693 23 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Intrinsically Disordered Proteins
Urea
Proteins
Trichloroacetic Acid
Gels
148 Citations (Scopus)

Musite, a tool for global prediction of general and kinase-specific phosphorylation sites

Gao, J., Thelen, J. J., Dunker, A. & Xu, D., Dec 2010, In : Molecular & cellular proteomics : MCP. 9, 12, p. 2586-2600 15 p.

Research output: Contribution to journalArticle

Phosphorylation
Phosphotransferases
Proteome
Mass spectrometry
Learning systems
43 Citations (Scopus)

N-terminal domains of DELLA proteins are intrinsically unstructured in the absence of interaction with GID1/gibberellic acid receptors

Sun, X., Jones, W. T., Harvey, D., Edwards, P. J. B., Pascal, S. M., Kirk, C., Considine, T., Sheerin, D. J., Rakonjac, J., Oldfield, C. J., Xue, B., Dunker, A. & Uversky, V. N., Apr 9 2010, In : Journal of Biological Chemistry. 285, 15, p. 11557-11571 15 p.

Research output: Contribution to journalArticle

Intrinsically Disordered Proteins
Proteins
Molecular recognition
Degradation
Proteasome Endopeptidase Complex

Pacific symposium on biocomputing 2010

Altman, R. B., Dunker, A., Hunter, L. & Klein, T. E., 2010, In : Unknown Journal.

Research output: Contribution to journalArticle

522 Citations (Scopus)

PONDR-FIT: A meta-predictor of intrinsically disordered amino acids

Xue, B., Dunbrack, R. L., Williams, R. W., Dunker, A. & Uversky, V. N., Apr 2010, In : Biochimica et Biophysica Acta - Proteins and Proteomics. 1804, 4, p. 996-1010 15 p.

Research output: Contribution to journalArticle

Proteomics
Intrinsically Disordered Proteins
Amino Acids
Amino Acid Sequence
Proteins

Preface

Longhi, S., Dunker, A. & Uversky, V. N., Sep 9 2010, In : Unknown Journal.

Research output: Contribution to journalArticle