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  • A. Dunker
2020

Many-to-one binding by intrinsically disordered protein regions

Alterovitz, W. L., Faraggi, E., Oldfield, C. J., Meng, J., Xue, B., Huang, F., Romero, P., Kloczkowski, A., Uversky, V. N. & Dunker, A. K., Jan 1 2020, In : Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. 25, p. 159-170 12 p.

Research output: Contribution to journalArticle

Nipah shell disorder, modes of infection, and virulence

Goh, G. K. M., Dunker, A. K., Foster, J. A. & Uversky, V. N., Apr 2020, In : Microbial Pathogenesis. 141, 103976.

Research output: Contribution to journalArticle

3 Scopus citations

Shell disorder analysis predicts greater resilience of the SARS-CoV-2 (COVID-19) outside the body and in body fluids

Goh, G. K. M., Dunker, A. K., Foster, J. A. & Uversky, V. N., Jul 2020, In : Microbial Pathogenesis. 144, 104177.

Research output: Contribution to journalArticle

Open Access
2019

Entropy, fluctuations, and disordered proteins

Faraggi, E., Dunker, A. K., Jernigan, R. L. & Kloczkowski, A., Jan 1 2019, In : Entropy. 21, 8, 764.

Research output: Contribution to journalArticle

Open Access

Hiv vaccine mystery and viral shell disorder

Goh, G. K. M., Dunker, A. K., Foster, J. A. & Uversky, V. N., May 2019, In : Biomolecules. 9, 5, 178.

Research output: Contribution to journalArticle

Open Access
7 Scopus citations

Intrinsically disordered domains: Sequence ➔ disorder ➔ function relationships

Zhou, J., Oldfield, C. J., Yan, W., Shen, B. & Dunker, A., Jan 1 2019, In : Protein Science. 28, 9, p. 1652-1663 12 p.

Research output: Contribution to journalArticle

3 Scopus citations

Zika and flavivirus shell disorder: Virulence and fetal morbidity

Kian-Meng Goh, G., Dunker, A. K., Foster, J. A. & Uversky, V. N., Nov 2019, In : Biomolecules. 9, 11, 710.

Research output: Contribution to journalArticle

Open Access
4 Scopus citations
2018

Evolution of protein ductility in duplicated genes of plants

Yruela, I., Contreras-Moreira, B., Dunker, A. K. & Niklas, K. J., Aug 20 2018, In : Frontiers in Plant Science. 9, 1216.

Research output: Contribution to journalArticle

3 Scopus citations

Intrinsically Disordered Proteins Link Alternative Splicing and Post-translational Modifications to Complex Cell Signaling and Regulation

Zhou, J., Zhao, S. & Dunker, A. K., Aug 3 2018, In : Journal of molecular biology. 430, 16, p. 2342-2359 18 p.

Research output: Contribution to journalArticle

19 Scopus citations

Pacific Symposium on Biocomputing 2018

Altman, R. B., Dunker, A. K., Hunter, L., Ritchie, M. D. & Klein, T. E., Jan 1 2018, In : Pacific Symposium on Biocomputing. 0, 212669, p. vii-ix

Research output: Contribution to journalEditorial

Regulating Protein Function by Delayed Folding

Zhou, J. & Dunker, A. K., May 1 2018, In : Structure. 26, 5, p. 679-681 3 p.

Research output: Contribution to journalShort survey

3 Scopus citations

Sequence fingerprints distinguish erroneous from correct predictions of intrinsically disordered protein regions

Saravanan, K. M., Dunker, A. K. & Krishnaswamy, S., Dec 10 2018, In : Journal of Biomolecular Structure and Dynamics. 36, 16, p. 4338-4351 14 p.

Research output: Contribution to journalArticle

3 Scopus citations

The evolutionary origins of cell type diversification and the role of intrinsically disordered proteins

Niklas, K. J., Dunker, A. K. & Yruela, I., Mar 24 2018, In : Journal of Experimental Botany. 69, 7, p. 1437-1446 10 p.

Research output: Contribution to journalReview article

14 Scopus citations
2017

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

3 Scopus citations

Corrigendum: DisProt 7.0: a major update of the database of disordered proteins

Piovesan, D., Tabaro, F., Mičetić, I., Necci, M., Quaglia, F., Oldfield, C. J., Aspromonte, M. C., Davey, N. E., Davidović, R., Dosztányi, Z., Elofsson, A., Gasparini, A., Hatos, A., Kajava, A. V., Kalmar, L., Leonardi, E., Lazar, T., Macedo-Ribeiro, S., Macossay-Castillo, M., Meszaros, A. & 20 others, Minervini, G., Murvai, N., Pujols, J., Roche, D. B., Salladini, E., Schad, E., Schramm, A., Szabo, B., Tantos, A., Tonello, F., Tsirigos, K. D., Veljković, N., Ventura, S., Vranken, W., Warholm, P., Uversky, V. N., Dunker, A. K., Longhi, S., Tompa, P. & Tosatto, S. C. E., Jan 4 2017, In : Nucleic acids research. 45, D1, p. D1123-D1124

Research output: Contribution to journalComment/debate

Open Access
9 Scopus citations

DisProt 7.0: A major update of the database of disordered proteins

Piovesan, D., Tabaro, F., Mičetić, I., Necci, M., Quaglia, F., Oldfield, C. J., Aspromonte, M. C., Davey, N. E., Davidović, R., Dosztányi, Z., Elofsson, A., Gasparini, A., Hatos, A., Kajava, A. V., Kalmar, L., Leonardi, E., Lazar, T., Macedo-Ribeiro, S., Macossay-Castillo, M., Meszaros, A. & 20 others, Minervini, G., Murvai, N., Pujols, J., Roche, D. B., Salladini, E., Schad, E., Schramm, A., Szabo, B., Tantos, A., Tonello, F., Tsirigos, K. D., Veljković, N., Ventura, S., Vranken, W., Warholm, P., Uversky, V. N., Dunker, A. K., Longhi, S., Tompa, P. & Tosatto, S. C. E., Jan 1 2017, In : Nucleic acids research. 45, D1, p. D219-D227

Research output: Contribution to journalArticle

90 Scopus citations

Evidence for a strong correlation between transcription factor protein disorder and organismic complexity

Yruela, I., Oldfield, C. J., Niklas, K. J. & Dunker, A. K., Jan 1 2017, In : Genome Biology and Evolution. 9, 5, p. 1248-1265 18 p.

Research output: Contribution to journalArticle

12 Scopus citations

Simultaneous quantification of protein order and disorder

Sormanni, P., Piovesan, D., Heller, G. T., Bonomi, M., Kukic, P., Camilloni, C., Fuxreiter, M., Dosztanyi, Z., Pappu, R. V., Babu, M. M., Longhi, S., Tompa, P., Dunker, A. K., Uversky, V. N., Tosatto, S. C. E. & Vendruscolo, M., Mar 22 2017, In : Nature chemical biology. 13, 4, p. 339-342 4 p.

Research output: Contribution to journalComment/debate

43 Scopus citations

Time, space, and disorder in the expanding proteome universe

Minde, D. P., Dunker, A. K. & Lilley, K. S., Apr 1 2017, In : Proteomics. 17, 7, 1600399.

Research output: Contribution to journalArticle

10 Scopus citations
2016

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

Goh, G. K. M., Dunker, A. K. & Uversky, V. N., Jan 1 2016, In : Molecular BioSystems. 12, 6, p. 1881-1891 11 p.

Research output: Contribution to journalArticle

10 Scopus citations

Lipopolysaccharide treatment induces genome-wide pre-mRNA splicing pattern changes in mouse bone marrow stromal stem cells

Zhou, A., Li, M., He, B., Feng, W., Huang, F., Xu, B., Dunker, A. K., Balch, C., Li, B., Liu, Y. & Wang, Y., Aug 22 2016, In : BMC genomics. 17, 509.

Research output: Contribution to journalArticle

2 Scopus citations

Molecular recognition features (MoRFs) in three domains of life

Yan, J., Dunker, A. K., Uversky, V. N. & Kurgan, L., Mar 1 2016, In : Molecular BioSystems. 12, 3, p. 697-710 14 p.

Research output: Contribution to journalArticle

49 Scopus citations

Pacific Symposium on Biocomputing 2016

Altman, R. B., Dunker, A. K., Hunter, L., Klein, T. E. & Ritchie, M. D., Jan 1 2016, In : Pacific Symposium on Biocomputing. p. vi-vii

Research output: Contribution to journalEditorial

Pacific Symposium on Biocomputing 2016

Altman, R. B., Dunker, A., Hunter, L., Klein, T. E. & Ritchie, M. D., 2016, In : Pacific Symposium on Biocomputing 2016, PSB 2016. p. vi-vii

Research output: Contribution to journalEditorial

Prostate-associated gene 4 (PAGE4), an intrinsically disordered cancer/testis antigen, is a novel therapeutic target for prostate cancer

Kulkarni, P., Dunker, A. K., Weninger, K. & Orban, J., Sep 2016, In : Asian Journal of Andrology. 18, 5, p. 695-703 9 p.

Research output: Contribution to journalReview article

10 Scopus citations
2015

Back to the future: Nuclear magnetic resonance and bioinformatics studies on intrinsically disordered proteins

Dunker, A. K. & Oldfield, C. J., Sep 22 2015, Advances in Experimental Medicine and Biology. Springer New York LLC, p. 1-34 34 p. (Advances in Experimental Medicine and Biology; vol. 870).

Research output: Chapter in Book/Report/Conference proceedingChapter

7 Scopus citations

Back to the future: Nuclear magnetic resonance and bioinformatics studies on intrinsically disordered proteins

Dunker, A. & Oldfield, C. J., Sep 19 2015, Intrinsically Disordered Proteins Studied by NMR Spectroscopy. Springer International Publishing, p. 1-34 34 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

3 Scopus citations

Detection of links between Ebola nucleocapsid and virulence using disorder analysis

Goh, G. K. M., Dunker, A. & Uversky, V. N., May 22 2015, In : Molecular BioSystems. 11, 8, p. 2337-2344 8 p.

Research output: Contribution to journalArticle

8 Scopus citations

Erratum to: A new hydropathy scale that improves disorder prediction, [BMC Bioinformatics, 15(Suppl 17) (2014), 54]

Huang, F., Oldfield, C. J., Xue, B., Hsu, W. L., Meng, J., Liu, X., Shen, L., Romero, P., Uversky, V. N. & Dunker, A. K., Jul 31 2015, In : BMC bioinformatics. 16, 1, 241.

Research output: Contribution to journalComment/debate

Intrinsically disordered proteins and multicellular organisms

Dunker, A. K., Bondos, S. E., Huang, F. & Oldfield, C. J., Jan 1 2015, In : Seminars in Cell and Developmental Biology. 37, p. 44-55 12 p.

Research output: Contribution to journalReview article

63 Scopus citations

Intrinsic disorder mediates hepatitis C virus core-host cell protein interactions

Dolan, P. T., Roth, A. P., Xue, B., Sun, R., Dunker, A. K., Uversky, V. N. & Lacount, D. J., Feb 1 2015, In : Protein Science. 24, 2, p. 221-235 15 p.

Research output: Contribution to journalArticle

26 Scopus citations

Pacific symposium on biocomputing 2015

Altman, R. B., Dunker, A., Hunter, L., Klein, T. E. & Ritchie, M. D., 2015, In : Unknown Journal. p. vi-vii

Research output: Contribution to journalEditorial

Shell disorder, immune evasion and transmission behaviors among human and animal retroviruses

Goh, G. K. M., Dunker, A. K. & Uversky, V. N., May 22 2015, In : Molecular BioSystems. 11, 8, p. 2312-2323 12 p.

Research output: Contribution to journalArticle

7 Scopus citations
2014

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. K., Kurgan, L. & Uversky, V. N., Apr 2014, In : Cellular and Molecular Life Sciences. 71, 8, p. 1477-1504 28 p.

Research output: Contribution to journalArticle

64 Scopus citations

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

Yang, J. Y., Dunker, A. K., 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 journalEditorial

8 Scopus citations

Classification of intrinsically disordered regions and proteins

Van Der Lee, R., Buljan, M., Lang, B., Weatheritt, R. J., Daughdrill, G. W., Dunker, A. K., 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 journalReview article

663 Scopus citations

Identification of genes and pathways involved in kidney renal clear cell carcinoma

Yang, W., Yoshigoe, K., Qin, X., Liu, J. S., Yang, J. Y., Niemierko, A., Deng, Y., Liu, Y., Dunker, A. K., Chen, Z., Wang, L., Xu, D., Arabnia, H. R., Tong, W. & Yang, M. Q., Dec 16 2014, In : BMC bioinformatics. 15, 17, S2.

Research output: Contribution to journalArticle

32 Scopus citations

Improving protein order-disorder classification using charge-hydropathy plots

Huang, F., Oldfield, C. J., Xue, B., Hsu, W. L., Meng, J., Liu, X., Shen, L., Romero, P., Uversky, V. N. & Dunker, A. K., Dec 16 2014, In : BMC bioinformatics. 15, 17, S4.

Research output: Contribution to journalArticle

27 Scopus citations

Intrinsically disordered proteins and intrinsically disordered protein regions

Oldfield, C. J. & Dunker, A. K., Jun 2014, In : Annual Review of Biochemistry. 83, p. 553-584 32 p.

Research output: Contribution to journalArticle

347 Scopus citations

Pacific symposium on biocomputing 2014

Altman, R. B., Dunker, A., Hunter, L., Klein, T. E. & Ritchie, M. D., 2014, In : Unknown Journal. p. v-vi

Research output: Contribution to journalArticle

PE-DB: A database of structural ensembles of intrinsically disordered and of unfolded proteins

Varadi, M., Kosol, S., Lebrun, P., Valentini, E., Blackledge, M., Dunker, A. K., Felli, I. C., Forman-Kay, J. D., Kriwacki, R. W., Pierattelli, R., Sussman, J., Svergun, D. I., Uversky, V. N., Vendruscolo, M., Wishart, D., Wright, P. E. & Tompa, P., Jan 1 2014, In : Nucleic acids research. 42, D1, p. D326-D335

Research output: Contribution to journalArticle

123 Scopus citations

The emerging genomics and systems biology research lead to systems genomics studies

Yang, M. Q. U., Yoshigoe, K., Yang, W., Tong, W., Qin, X., Dunker, A., Chen, Z., Arbania, H. R., Liu, J. S., Niemierko, A. & Yang, J. Y., 2014, In : BMC Genomics. 15, p. I1

Research output: Contribution to journalArticle

3 Scopus citations

The number of cell types, information content, and the evolution of complex multicellularity

Niklas, K. J., Cobb, E. D. & Dunker, A. K., Jan 1 2014, In : Acta Societatis Botanicorum Poloniae. 83, 4, p. 337-347 11 p.

Research output: Contribution to journalArticle

9 Scopus citations

The structural and functional signatures of proteins that undergo multiple events of post-translational modification

Pejaver, V., Hsu, W. L., Xin, F., Dunker, A. K., Uversky, V. N. & Radivojac, P., Aug 2014, In : Protein Science. 23, 8, p. 1077-1093 17 p.

Research output: Contribution to journalArticle

154 Scopus citations
2013

Alternative splicing of intrinsically disordered regions and rewiring of protein interactions

Buljan, M., Chalancon, G., Dunker, A. K., Bateman, A., Balaji, S., Fuxreiter, M. & Babu, M. M., Jun 1 2013, In : Current Opinion in Structural Biology. 23, 3, p. 443-450 8 p.

Research output: Contribution to journalReview article

100 Scopus citations

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. K. & Fukuchi, S., Jan 1 2013, In : Journal of Structural Biology. 181, 1, p. 29-36 8 p.

Research output: Contribution to journalArticle

15 Scopus citations

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

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

Research output: Contribution to journalShort survey

2 Scopus citations

D2P2: Database of disordered protein predictions

Oates, M. E., Romero, P., Ishida, T., Ghalwash, M., Mizianty, M. J., Xue, B., Dosztányi, Z., Uversky, V. N., Obradovic, Z., Kurgan, L., Dunker, A. K. & Gough, J., Jan 1 2013, In : Nucleic acids research. 41, D1, p. D508-D516

Research output: Contribution to journalArticle

255 Scopus citations

Exploring the binding diversity of intrinsically disordered proteins involved in one-to-many binding

Hsu, W. L., Oldfield, C. J., Xue, B., Meng, J., Huang, F., Romero, P., Uversky, V. N. & Dunker, A. K., Mar 1 2013, In : Protein Science. 22, 3, p. 258-273 16 p.

Research output: Contribution to journalArticle

103 Scopus citations

Interplay between estrogen receptor and AKT in Estradiol-induced alternative splicing

Bhat-Nakshatri, P., Song, E. K., Collins, N. R., Uversky, V. N., Dunker, A. K., O'Malley, B. W., Geistlinger, T. R., Carroll, J. S., Brown, M. & Nakshatri, H., Jun 13 2013, In : BMC Medical Genomics. 6, 1, 21.

Research output: Contribution to journalArticle

12 Scopus citations