| Year |
Citation |
Score |
| 2020 |
Shanafelt M, Rabara T, MacArt D, Williams C, Hekman R, Joo H, Tsai J, Vierra C. Structural Characterization of Black Widow Spider Dragline Silk Proteins CRP1 and CRP4. Molecules (Basel, Switzerland). 25. PMID 32674428 DOI: 10.3390/Molecules25143212 |
0.446 |
|
| 2018 |
Ibal G, Oye B, Joo H, Tsai J. Hydrophobic Effect: The Entropic Structure of the Protein Hydration Interface Biophysical Journal. 114: 49a. DOI: 10.1016/J.Bpj.2017.11.320 |
0.43 |
|
| 2017 |
Crawford TR, Patel S, MacArt D, Joo H, Tsai J. Novel Method for the Design of a New Alpha-Helical Fold Biophysical Journal. 112: 194a. DOI: 10.1016/J.Bpj.2016.11.1075 |
0.377 |
|
| 2016 |
Li Q, Dahl DB, Vannucci M, Joo H, Tsai JW. KScons: A Bayesian Approach for Protein Residue Contact Prediction using the Knob-Socket Model of Protein Tertiary Structure. Bioinformatics (Oxford, England). PMID 27559156 DOI: 10.1093/Bioinformatics/Btw553 |
0.377 |
|
| 2016 |
Patel S, Joo H, Tsai J. An Amino Acid Code for the Rational Design and Investigation of Protein Packing Structure using the knob-socket Model Biophysical Journal. 110: 539a. DOI: 10.1016/J.Bpj.2015.11.2884 |
0.46 |
|
| 2016 |
Joo H, Fraga KJ, Tsai J. The knob-Socket Model: An Amino Acid Code Describing Protein Tertiary Packing Structure Biophysical Journal. 110: 538a-539a. DOI: 10.1016/J.Bpj.2015.11.2883 |
0.468 |
|
| 2016 |
Fraga KJ, Joo H, Tsai J. An Amino Acid Code to Protein Quaternary Structure Biophysical Journal. 110: 387a. DOI: 10.1016/J.Bpj.2015.11.2091 |
0.44 |
|
| 2016 |
Joo H, Chen V, Elson S, Tsai J. Protein Packing Code for DNA Recognition Based on the Knob-Socket Model Biophysical Journal. 110: 240a. DOI: 10.1016/J.Bpj.2015.11.1323 |
0.305 |
|
| 2015 |
Fraga KJ, Joo H, Tsai J. An amino acid code to define a protein's tertiary packing surface. Proteins. PMID 26575337 DOI: 10.1002/Prot.24966 |
0.448 |
|
| 2015 |
Joo H, Chavan AG, Fraga KJ, Tsai J. An amino acid code for irregular and mixed protein packing. Proteins. PMID 26370334 DOI: 10.1002/Prot.24929 |
0.422 |
|
| 2015 |
Khachatryan V, Sirunyan AM, Tumasyan A, Adam W, Bergauer T, Dragicevic M, Erö J, Friedl M, Frühwirth R, Ghete VM, Hartl C, Hörmann N, Hrubec J, Jeitler M, Kiesenhofer W, ... ... Tsai JF, et al. Evidence for Collective Multiparticle Correlations in p-Pb Collisions. Physical Review Letters. 115: 012301. PMID 26182092 DOI: 10.1103/Physrevlett.115.012301 |
0.425 |
|
| 2015 |
Khachatryan V, Sirunyan AM, Tumasyan A, Adam W, Bergauer T, Dragicevic M, Erö J, Friedl M, Frühwirth R, Ghete VM, Hartl C, Hörmann N, Hrubec J, Jeitler M, Kiesenhofer W, ... ... Tsai JF, et al. Search for a standard model Higgs boson produced in association with a top-quark pair and decaying to bottom quarks using a matrix element method. The European Physical Journal. C, Particles and Fields. 75: 251. PMID 26097407 DOI: 10.1140/Epjc/S10052-015-3454-1 |
0.452 |
|
| 2015 |
Aad G, Abbott B, Abdallah J, Abdinov O, Aben R, Abolins M, AbouZeid OS, Abramowicz H, Abreu H, Abreu R, Abulaiti Y, Acharya BS, Adamczyk L, Adams DL, Adelman J, ... ... Tsai JF, et al. Combined Measurement of the Higgs Boson Mass in pp Collisions at sqrt[s]=7 and 8 TeV with the ATLAS and CMS Experiments. Physical Review Letters. 114: 191803. PMID 26024162 DOI: 10.1103/Physrevlett.114.191803 |
0.405 |
|
| 2015 |
Khachatryan V, Sirunyan AM, Tumasyan A, Adam W, Bergauer T, Dragicevic M, Erö J, Friedl M, Frühwirth R, Ghete VM, Hartl C, Hörmann N, Hrubec J, Jeitler M, Kiesenhofer W, ... ... Tsai JF, et al. Measurement of J/ψ and ψ(2S) Prompt Double-Differential Cross Sections in pp Collisions at sqrt[s]=7 TeV. Physical Review Letters. 114: 191802. PMID 26024161 DOI: 10.1103/Physrevlett.114.191802 |
0.407 |
|
| 2015 |
Khachatryan V, Sirunyan AM, Tumasyan A, Adam W, Bergauer T, Dragicevic M, Erö J, Friedl M, Frühwirth R, Ghete VM, Hartl C, Hörmann N, Hrubec J, Jeitler M, Kiesenhofer W, ... ... Tsai JF, et al. Precise determination of the mass of the Higgs boson and tests of compatibility of its couplings with the standard model predictions using proton collisions at 7 and 8[Formula: see text]. The European Physical Journal. C, Particles and Fields. 75: 212. PMID 25999783 DOI: 10.1140/Epjc/S10052-015-3351-7 |
0.447 |
|
| 2014 |
Li Q, Dahl DB, Vannucci M, Hyun Joo, Tsai JW. Bayesian model of protein primary sequence for secondary structure prediction. Plos One. 9: e109832. PMID 25314659 DOI: 10.1371/Journal.Pone.0109832 |
0.406 |
|
| 2014 |
Joo H, Tsai J. An amino acid code for β-sheet packing structure. Proteins. 82: 2128-40. PMID 24668690 DOI: 10.1002/Prot.24569 |
0.317 |
|
| 2013 |
Day R, Joo H, Chavan AC, Lennox KP, Chen YA, Dahl DB, Vannucci M, Tsai JW. Understanding the general packing rearrangements required for successful template based modeling of protein structure from a CASP experiment. Computational Biology and Chemistry. 42: 40-8. PMID 23266765 DOI: 10.1016/J.Compbiolchem.2012.10.008 |
0.37 |
|
| 2012 |
Joo H, Chavan AG, Phan J, Day R, Tsai J. An amino acid packing code for α-helical structure and protein design. Journal of Molecular Biology. 419: 234-54. PMID 22426125 DOI: 10.1016/J.Jmb.2012.03.004 |
0.447 |
|
| 2011 |
Day R, Qu X, Swanson R, Bohannan Z, Bliss R, Tsai J. Relative packing groups in template-based structure prediction: cooperative effects of true positive constraints. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 18: 17-26. PMID 21210729 DOI: 10.1089/cmb.2010.0078 |
0.319 |
|
| 2010 |
Day R, Lennox KP, Dahl DB, Vannucci M, Tsai JW. Characterizing the regularity of tetrahedral packing motifs in protein tertiary structure. Bioinformatics (Oxford, England). 26: 3059-66. PMID 21047817 DOI: 10.1093/Bioinformatics/Btq573 |
0.351 |
|
| 2010 |
Lennox KP, Dahl DB, Vannucci M, Day R, Tsai JW. A DIRICHLET PROCESS MIXTURE OF HIDDEN MARKOV MODELS FOR PROTEIN STRUCTURE PREDICTION. The Annals of Applied Statistics. 4: 916-942. PMID 21031154 DOI: 10.1214/09-Aoas296 |
0.373 |
|
| 2010 |
Joo H, Qu X, Swanson R, McCallum CM, Tsai J. Fine grained sampling of residue characteristics using molecular dynamics simulation. Computational Biology and Chemistry. 34: 172-83. PMID 20621565 DOI: 10.1016/J.Compbiolchem.2010.06.002 |
0.402 |
|
| 2009 |
Qu X, Swanson R, Day R, Tsai J. A guide to template based structure prediction. Current Protein & Peptide Science. 10: 270-85. PMID 19519455 DOI: 10.2174/138920309788452182 |
0.496 |
|
| 2009 |
Swanson R, Vannucci M, Tsai JW. Information theory provides a comprehensive framework for the evaluation of protein structure predictions. Proteins. 74: 701-11. PMID 18704942 DOI: 10.1002/Prot.22186 |
0.341 |
|
| 2008 |
Kagiampakis I, Jin H, Kim S, Vannucci M, LiWang PJ, Tsai J. Conservation of unfavorable sequence motifs that contribute to the chemokine quaternary state. Biochemistry. 47: 10637-48. PMID 18781776 DOI: 10.1021/Bi702288A |
0.379 |
|
| 2008 |
Dahl DB, Bohannan Z, Mo Q, Vannucci M, Tsai J. Assessing side-chain perturbations of the protein backbone: a knowledge-based classification of residue Ramachandran space. Journal of Molecular Biology. 378: 749-58. PMID 18377931 DOI: 10.1016/J.Jmb.2008.02.043 |
0.446 |
|
| 2008 |
Swanson R, Kagiampakis I, Tsai JW. An information measure of the quality of protein secondary structure prediction. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 15: 65-79. PMID 18199024 DOI: 10.1089/cmb.2007.0199 |
0.321 |
|
| 2007 |
Wei Y, Huyghues-Despointes BM, Tsai J, Scholtz JM. NMR study and molecular dynamics simulations of optimized beta-hairpin fragments of protein G. Proteins. 69: 285-96. PMID 17600831 DOI: 10.1002/Prot.21494 |
0.337 |
|
| 2007 |
Kim S, Tsai J, Kagiampakis I, LiWang P, Vannucci M. Detecting protein dissimilarities in multiple alignments using Bayesian variable selection. Bioinformatics (Oxford, England). 23: 245-6. PMID 17105719 DOI: 10.1093/Bioinformatics/Btl566 |
0.352 |
|
| 2006 |
Rohl C, Price Y, Fischer TB, Paczkowski M, Zettel MF, Tsai J. Cataloging the relationships between proteins: a review of interaction databases. Molecular Biotechnology. 34: 69-93. PMID 16943573 DOI: 10.1385/Mb:34:1:69 |
0.662 |
|
| 2006 |
Fischer TB, Holmes JB, Miller IR, Parsons JR, Tung L, Hu JC, Tsai J. Assessing methods for identifying pair-wise atomic contacts across binding interfaces. Journal of Structural Biology. 153: 103-12. PMID 16377205 DOI: 10.1016/J.Jsb.2005.11.005 |
0.389 |
|
| 2005 |
Holmes JB, Tsai J. Characterizing conserved structural contacts by pair-wise relative contacts and relative packing groups. Journal of Molecular Biology. 354: 706-21. PMID 16269154 DOI: 10.1016/J.Jmb.2005.09.081 |
0.451 |
|
| 2005 |
Parsons J, Holmes JB, Rojas JM, Tsai J, Strauss CE. Practical conversion from torsion space to Cartesian space for in silico protein synthesis. Journal of Computational Chemistry. 26: 1063-8. PMID 15898109 DOI: 10.1002/Jcc.20237 |
0.312 |
|
| 2004 |
Holmes JB, Tsai J. Some fundamental aspects of building protein structures from fragment libraries. Protein Science : a Publication of the Protein Society. 13: 1636-50. PMID 15152094 DOI: 10.1110/Ps.03494504 |
0.484 |
|
| 2003 |
Krebs WG, Tsai J, Alexandrov V, Junker J, Jansen R, Gerstein M. Tools and databases to analyze protein flexibility; approaches to mapping implied features onto sequences. Methods in Enzymology. 374: 544-84. PMID 14696388 DOI: 10.1016/S0076-6879(03)74023-3 |
0.374 |
|
| 2003 |
Tsai J, Bonneau R, Morozov AV, Kuhlman B, Rohl CA, Baker D. An improved protein decoy set for testing energy functions for protein structure prediction. Proteins. 53: 76-87. PMID 12945051 DOI: 10.1002/Prot.10454 |
0.706 |
|
| 2003 |
Swanson R, Tsai J. Pretty good guessing: protein structure prediction at CASP5. Journal of Bacteriology. 185: 3990-3. PMID 12837771 DOI: 10.1128/JB.185.14.3990-3993.2003 |
0.37 |
|
| 2002 |
Bonneau R, Ruczinski I, Tsai J, Baker D. Contact order and ab initio protein structure prediction. Protein Science : a Publication of the Protein Society. 11: 1937-44. PMID 12142448 DOI: 10.1110/Ps.3790102 |
0.666 |
|
| 2002 |
Tsai J, Gerstein M. Calculations of protein volumes: sensitivity analysis and parameter database. Bioinformatics (Oxford, England). 18: 985-95. PMID 12117797 DOI: 10.1093/Bioinformatics/18.7.985 |
0.37 |
|
| 2001 |
Bonneau R, Tsai J, Ruczinski I, Chivian D, Rohl C, Strauss CE, Baker D. Rosetta in CASP4: progress in ab initio protein structure prediction. Proteins. 119-26. PMID 11835488 DOI: 10.1002/Prot.1170 |
0.699 |
|
| 2001 |
Lee MR, Tsai J, Baker D, Kollman PA. Molecular dynamics in the endgame of protein structure prediction. Journal of Molecular Biology. 313: 417-30. PMID 11800566 DOI: 10.1006/Jmbi.2001.5032 |
0.542 |
|
| 2001 |
Bonneau R, Tsai J, Ruczinski I, Baker D. Functional inferences from blind ab initio protein structure predictions. Journal of Structural Biology. 134: 186-90. PMID 11551178 DOI: 10.1006/Jsbi.2000.4370 |
0.659 |
|
| 1999 |
Tsai J, Levitt M, Baker D. Hierarchy of structure loss in MD simulations of src SH3 domain unfolding. Journal of Molecular Biology. 291: 215-25. PMID 10438616 DOI: 10.1006/Jmbi.1999.2949 |
0.438 |
|
| 1999 |
Tsai J, Taylor R, Chothia C, Gerstein M. The packing density in proteins: Standard radii and volumes Journal of Molecular Biology. 290: 253-266. PMID 10388571 DOI: 10.1006/Jmbi.1999.2829 |
0.364 |
|
| 1997 |
Tsai J, Gerstein M, Levitt M. Simulating the minimum core for hydrophobic collapse in globular proteins Protein Science. 6: 2606-2616. PMID 9416609 DOI: 10.1002/Pro.5560061212 |
0.373 |
|
| 1997 |
Levitt M, Gerstein M, Huang E, Subbiah S, Tsai J. Protein folding: The endgame Annual Review of Biochemistry. 66: 549-579. PMID 9242917 DOI: 10.1146/Annurev.Biochem.66.1.549 |
0.44 |
|
| 1996 |
Huang ES, Subbiah S, Tsai J, Levitt M. Using a hydrophobic contact potential to evaluate native and near-native folds generated by molecular dynamics simulations Journal of Molecular Biology. 257: 716-725. PMID 8648635 DOI: 10.1006/Jmbi.1996.0196 |
0.456 |
|
| 1996 |
Tsai J, Gerstein M, Levitt M. Keeping the shape but changing the charges: A simulation study of urea and its iso-steric analogs Journal of Chemical Physics. 104: 9417-9430. DOI: 10.1063/1.471686 |
0.316 |
|
| 1995 |
Gerstein N, Tsai J, Levitt M. The volume of atoms on the protein surface: Calculated from simulation, using Voronoi polyhedra Journal of Molecular Biology. 249: 955-966. PMID 7540695 DOI: 10.1006/Jmbi.1995.0351 |
0.316 |
|
| Show low-probability matches. |