Publications

Found 211 results
Filters: Author is Rost, Burkhard  [Clear All Filters]
2005
Benach J, Edstrom WC, Lee I, Das K, Cooper B, Xiao R, Liu J, Rost B, Acton TB, Montelione GT, et al. The 2.35 A structure of the TenA homolog from Pyrococcus furiosus supports an enzymatic function in thiamine metabolism. Acta Crystallogr D Biol Crystallogr. 2005 ;61(Pt 5):589-98.
Ofran Y, Punta M, Schneider R, Rost B. Beyond annotation transfer by homology: novel protein-function prediction methods to assist drug discovery. Drug Discov Today. 2005 ;10(21):1475-82.
Graña O, Baker D, MacCallum RM, Meiler J, Punta M, Rost B, Tress ML, Valencia A. CASP6 assessment of contact prediction. Proteins. 2005 ;61 Suppl 7:214-24.
Snyder DA, Chen Y, Denissova NG, Acton T, Aramini JM, Ciano M, Karlin R, Liu J, Manor P, Rajan PA, et al. Comparisons of NMR spectral quality and success in crystallization demonstrate that NMR and X-ray crystallography are complementary methods for small protein structure determination. J Am Chem Soc. 2005 ;127(47):16505-11.
Moult J, Fidelis K, Rost B, Hubbard T, Tramontano A. Critical assessment of methods of protein structure prediction (CASP)--round 6. Proteins. 2005 ;61 Suppl 7:3-7.
Graña O, Eyrich VA, Pazos F, Rost B, Valencia A. EVAcon: a protein contact prediction evaluation service. Nucleic Acids Res. 2005 ;33(Web Server issue):W347-51.
Nair R, Rost B. Mimicking cellular sorting improves prediction of subcellular localization. J Mol Biol. 2005 ;348(1):85-100.
Mika S, Rost B. NMPdb: Database of Nuclear Matrix Proteins. Nucleic Acids Res. 2005 ;33(Database issue):D160-3.
Punta M, Rost B. PROFcon: novel prediction of long-range contacts. Bioinformatics. 2005 ;21(13):2960-8.
Schlessinger A, Rost B. Protein flexibility and rigidity predicted from sequence. Proteins. 2005 ;61(1):115-26.
Punta M, Rost B. Protein folding rates estimated from contact predictions. J Mol Biol. 2005 ;348(3):507-12.
Powers R, Mirkovic N, Goldsmith-Fischman S, Acton TB, Chiang Y, Huang YJ, Ma L, Rajan PK, Cort JR, Kennedy MA, et al. Solution structure of Archaeglobus fulgidis peptidyl-tRNA hydrolase (Pth2) provides evidence for an extensive conserved family of Pth2 enzymes in archea, bacteria, and eukaryotes. Protein Sci. 2005 ;14(11):2849-61.
2004
Powers R, Acton TB, Chiang Y, Rajan PK, Cort JR, Kennedy MA, Liu J, Ma L, Rost B, Montelione GT. (1)H, (13)C and (15)N assignments for the Archaeglobus fulgidis protein AF2095. J Biomol NMR. 2004 ;30(1):107-8.
Liu J, Hegyi H, Acton TB, Montelione GT, Rost B. Automatic target selection for structural genomics on eukaryotes. Proteins. 2004 ;56(2):188-200.
Wrzeszczynski KO, Rost B. Cataloging proteins in cell cycle control. Methods Mol Biol. 2004 ;241:219-33.
Liu J, Rost B. CHOP: parsing proteins into structural domains. Nucleic Acids Res. 2004 ;32(Web Server issue):W569-71.
Liu J, Rost B. CHOP proteins into structural domain-like fragments. Proteins. 2004 ;55(3):678-88.
Przybylski D, Rost B. Improving fold recognition without folds. J Mol Biol. 2004 ;341(1):255-69.
Nair R, Rost B. LOCnet and LOCtarget: sub-cellular localization for structural genomics targets. Nucleic Acids Res. 2004 ;32(Web Server issue):W517-21.
Mika S, Rost B. NLProt: extracting protein names and sequences from papers. Nucleic Acids Res. 2004 ;32(Web Server issue):W634-7.
Bigelow HR, Petrey DS, Liu J, Przybylski D, Rost B. Predicting transmembrane beta-barrels in proteomes. Nucleic Acids Res. 2004 ;32(8):2566-77.
Rost B, Yachdav G, Liu J. The PredictProtein server. Nucleic Acids Res. 2004 ;32(Web Server issue):W321-6.
Mika S, Rost B. Protein names precisely peeled off free text. Bioinformatics. 2004 ;20 Suppl 1:i241-7.
Wunderlich Z, Acton TB, Liu J, Kornhaber G, Everett J, Carter P, Lan N, Echols N, Gerstein M, Rost B, et al. The protein target list of the Northeast Structural Genomics Consortium. Proteins. 2004 ;56(2):181-7.
Liu J, Rost B. Sequence-based prediction of protein domains. Nucleic Acids Res. 2004 ;32(12):3522-30.
2003
Ofran Y, Rost B. Analysing six types of protein-protein interfaces. J Mol Biol. 2003 ;325(2):377-87.
Nair R, Rost B. Better prediction of sub-cellular localization by combining evolutionary and structural information. Proteins. 2003 ;53(4):917-30.
Eyrich VA, Przybylski D, Y Y Koh I, Graña O, Pazos F, Valencia A, Rost B. CAFASP3 in the spotlight of EVA. Proteins. 2003 ;53 Suppl 6:548-60.
Liu J, Rost B. Domains, motifs and clusters in the protein universe. Curr Opin Chem Biol. 2003 ;7(1):5-11.
Carter P, Andersen CAF, Rost B. DSSPcont: Continuous secondary structure assignments for proteins. Nucleic Acids Res. 2003 ;31(13):3293-5.
Y Y Koh I, Eyrich VA, Marti-Renom MA, Przybylski D, Madhusudhan MS, Eswar N, Graña O, Pazos F, Valencia A, Sali A, et al. EVA: Evaluation of protein structure prediction servers. Nucleic Acids Res. 2003 ;31(13):3311-5.
Nair R, Rost B. LOC3D: annotate sub-cellular localization for protein structures. Nucleic Acids Res. 2003 ;31(13):3337-40.
Eyrich VA, Rost B. META-PP: single interface to crucial prediction servers. Nucleic Acids Res. 2003 ;31(13):3308-10.
Nair R, Carter P, Rost B. NLSdb: database of nuclear localization signals. Nucleic Acids Res. 2003 ;31(1):397-9.
Liu J, Rost B. NORSp: Predictions of long regions without regular secondary structure. Nucleic Acids Res. 2003 ;31(13):3833-5.
Carter P, Liu J, Rost B. PEP: Predictions for Entire Proteomes. Nucleic Acids Res. 2003 ;31(1):410-3.
Ofran Y, Rost B. Predicted protein-protein interaction sites from local sequence information. FEBS Lett. 2003 ;544(1-3):236-9.
Rost B. Prediction in 1D: secondary structure, membrane helices, and accessibility. Methods Biochem Anal. 2003 ;44:559-87.
Rost B, Liu J. The PredictProtein server. Nucleic Acids Res. 2003 ;31(13):3300-4.
Andersen CAF, Rost B. Secondary structure assignment. Methods Biochem Anal. 2003 ;44:341-63.
Aramini JM, Huang YJ, Cort JR, Goldsmith-Fischman S, Xiao R, Shih L-Y, Ho CK, Liu J, Rost B, Honig B, et al. Solution NMR structure of the 30S ribosomal protein S28E from Pyrococcus horikoshii. Protein Sci. 2003 ;12(12):2823-30.
Kernytsky A, Rost B. Static benchmarking of membrane helix predictions. Nucleic Acids Res. 2003 ;31(13):3642-4.
Zidovetzki R, Rost B, Armstrong DL, Pecht I. Transmembrane domains in the functions of Fc receptors. Biophys Chem. 2003 ;100(1-3):555-75.
Mika S, Rost B. UniqueProt: Creating representative protein sequence sets. Nucleic Acids Res. 2003 ;31(13):3789-91.

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