• 487 Citations
  • 11 h-Index
20082019

Research output per year

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Research Output

  • 487 Citations
  • 11 h-Index
  • 13 Article
  • 4 Review article
2019

ECOD: Identification of distant homology among multidomain and transmembrane domain proteins

Schaeffer, R. D., Kinch, L., Medvedev, K. E., Pei, J., Cheng, H. & Grishin, N. V., Jun 21 2019, In : BMC Molecular and Cell Biology. 20, 1, 18.

Research output: Contribution to journalArticle

Open Access
2018

A sequence family database built on ECOD structural domains

Liao, Y., Schaeffer, R. D., Pei, J. & Grishin, N. V., Sep 1 2018, In : Bioinformatics. 34, 17, p. 2997-3003 7 p.

Research output: Contribution to journalArticle

1 Scopus citations

Searching ECOD for Homologous Domains by Sequence and Structure

Schaeffer, R. D., Liao, Y. & Grishin, N. V., Mar 1 2018, In : Current Protocols in Bioinformatics. 61, 1, e45.

Research output: Contribution to journalArticle

2 Scopus citations
2017

ECOD: New developments in the evolutionary classification of domains

Dustin Schaeffer, R., Liao, Y., Cheng, H. & Grishin, N. V., Jan 1 2017, In : Nucleic Acids Research. 45, D1, p. D296-D302

Research output: Contribution to journalArticle

21 Scopus citations
2016

CASP 11 target classification

Kinch, L. N., Li, W., Schaeffer, R. D., Dunbrack, R. L., Monastyrskyy, B., Kryshtafovych, A. & Grishin, N. V., Sep 1 2016, In : Proteins. 84, p. 20-33 14 p.

Research output: Contribution to journalArticle

21 Scopus citations

Classification of proteins with shared motifs and internal repeats in the ECOD database

Schaeffer, R. D., Kinch, L. N., Liao, Y. & Grishin, N. V., Jul 1 2016, In : Protein Science. p. 1188-1203 16 p.

Research output: Contribution to journalReview article

9 Scopus citations

Estimation of Uncertainties in the Global Distance Test (GDT_TS) for CASP Models

Li, W., Schaeffer, R. D., Otwinowski, Z. & Grishin, N. V., 2016, In : PLoS One. 11, 5, p. e0154786

Research output: Contribution to journalArticle

5 Scopus citations
2015

Manual classification strategies in the ECOD database

Cheng, H., Liao, Y., Schaeffer, R. D. & Grishin, N. V., Jul 1 2015, In : Proteins: Structure, Function and Bioinformatics. 83, 7, p. 1238-1251 14 p.

Research output: Contribution to journalArticle

17 Scopus citations
2014

ECOD: An Evolutionary Classification of Protein Domains

Cheng, H., Schaeffer, R. D., Liao, Y., Kinch, L. N., Pei, J., Shi, S., Kim, B. H. & Grishin, N. V., Dec 1 2014, In : PLoS Computational Biology. 10, 12

Research output: Contribution to journalArticle

100 Scopus citations
2011

Generation of a consensus protein domain dictionary

Schaeffer, R. D., Jonsson, A. L., Simms, A. M. & Daggett, V., Jan 1 2011, In : Bioinformatics. 27, 1, p. 46-54 9 p., btq625.

Research output: Contribution to journalArticle

26 Scopus citations

Malleability of folding intermediates in the homeodomain superfamily

Banachewicz, W., Religa, T. L., Schaeffer, R. D., Daggett, V. & Fersht, A. R., Apr 5 2011, In : Proceedings of the National Academy of Sciences of the United States of America. 108, 14, p. 5596-5601 6 p.

Research output: Contribution to journalArticle

16 Scopus citations

Manifestations of native topology in the denatured state ensemble of rhodopseudomonas palustris cytochrome c′

Dar, T. A., Schaeffer, R. D., Daggett, V. & Bowler, B. E., Feb 15 2011, In : Biochemistry. 50, 6, p. 1029-1041 13 p.

Research output: Contribution to journalArticle

13 Scopus citations

Protein folds and protein folding

Schaeffer, R. D. & Daggett, V., Jan 1 2011, In : Protein Engineering, Design and Selection. 24, 1-2, p. 11-19 9 p.

Research output: Contribution to journalReview article

28 Scopus citations
2010

Dynameomics: A Comprehensive Database of Protein Dynamics

van der Kamp, M. W., Schaeffer, R. D., Jonsson, A. L., Scouras, A. D., Simms, A. M., Toofanny, R. D., Benson, N. C., Anderson, P. C., Merkley, E. D., Rysavy, S., Bromley, D., Beck, D. A. C. & Daggett, V., Mar 1 2010, In : Structure. 18, 4, p. 423-435 13 p.

Research output: Contribution to journalArticle

95 Scopus citations

Dynameomics: Protein dynamics and unfolding across fold space

Jonsson, A. L., Schaeffer, R. D., Van Der Kamp, M. W. & Daggett, V., Jan 1 2010, In : Biomolecular Concepts. 1, 5-6, p. 335-344 10 p.

Research output: Contribution to journalReview article

1 Scopus citations
2008

Combining experiment and simulation in protein folding: closing the gap for small model systems

Schaeffer, R. D., Fersht, A. & Daggett, V., Feb 1 2008, In : Current Opinion in Structural Biology. 18, 1, p. 4-9 6 p.

Research output: Contribution to journalReview article

79 Scopus citations

Dynameomics: Mass annotation of protein dynamics and unfolding in water by high-throughput atomistic molecular dynamics simulations

Beck, D. A. C., Jonsson, A. L., Schaeffer, R. D., Scott, K. A., Day, R., Toofanny, R. D., Alonso, D. O. V. & Daggett, V., Jun 1 2008, In : Protein Engineering, Design and Selection. 21, 6, p. 353-368 16 p.

Research output: Contribution to journalArticle

53 Scopus citations