| Year |
Citation |
Score |
| 2023 |
Mangione W, Falls Z, Samudrala R. Effective holistic characterization of small molecule effects using heterogeneous biological networks. Frontiers in Pharmacology. 14: 1113007. PMID 37180722 DOI: 10.3389/fphar.2023.1113007 |
0.32 |
|
| 2022 |
Mangione W, Falls Z, Samudrala R. Optimal COVID-19 therapeutic candidate discovery using the CANDO platform. Frontiers in Pharmacology. 13: 970494. PMID 36091793 DOI: 10.3389/fphar.2022.970494 |
0.325 |
|
| 2022 |
Falls Z, Fine J, Chopra G, Samudrala R. Accurate Prediction of Inhibitor Binding to HIV-1 Protease Using CANDOCK. Frontiers in Chemistry. 9: 775513. PMID 35111726 DOI: 10.3389/fchem.2021.775513 |
0.533 |
|
| 2020 |
Mangione W, Falls Z, Chopra G, Samudrala R. cando.py: Open source software for predictive bioanalytics of large scale drug-protein-disease data. Journal of Chemical Information and Modeling. PMID 32515949 DOI: 10.1021/Acs.Jcim.0C00110 |
0.633 |
|
| 2020 |
Mangione W, Falls Z, Melendy T, Chopra G, Samudrala R. Shotgun drug repurposing biotechnology to tackle epidemics and pandemics. Chemrxiv : the Preprint Server For Chemistry. PMID 32511286 DOI: 10.26434/chemrxiv.12045318 |
0.54 |
|
| 2020 |
Mangione W, Falls Z, Melendy T, Chopra G, Samudrala R. Shotgun drug repurposing biotechnology to tackle epidemics and pandemics. Drug Discovery Today. PMID 32405249 DOI: 10.1016/J.Drudis.2020.05.002 |
0.581 |
|
| 2020 |
Fine J, Konc J, Samudrala R, Chopra G. CANDOCK: Chemical Atomic Network-based Hierarchical Flexible Docking Algorithm using Generalized Statistical Potentials. Journal of Chemical Information and Modeling. PMID 32069042 DOI: 10.1021/Acs.Jcim.9B00686 |
0.61 |
|
| 2019 |
Fine J, Lackner R, Samudrala R, Chopra G. Computational chemoproteomics to understand the role of selected psychoactives in treating mental health indications. Scientific Reports. 9: 13155. PMID 31511563 DOI: 10.1038/S41598-019-49515-0 |
0.582 |
|
| 2019 |
Falls Z, Mangione W, Schuler J, Samudrala R. Exploration of interaction scoring criteria in the CANDO platform. Bmc Research Notes. 12: 318. PMID 31174591 DOI: 10.1186/S13104-019-4356-3 |
0.375 |
|
| 2019 |
Mangione W, Samudrala R. Identifying Protein Features Responsible for Improved Drug Repurposing Accuracies Using the CANDO Platform: Implications for Drug Design. Molecules (Basel, Switzerland). 24. PMID 30621144 DOI: 10.3390/Molecules24010167 |
0.446 |
|
| 2017 |
Schuler J, Hudson ML, Schwartz D, Samudrala R. A Systematic Review of Computational Drug Discovery, Development, and Repurposing for Ebola Virus Disease Treatment. Molecules (Basel, Switzerland). 22. PMID 29053626 DOI: 10.3390/Molecules22101777 |
0.319 |
|
| 2016 |
Chopra G, Kaushik S, Elkin PL, Samudrala R. Combating Ebola with Repurposed Therapeutics Using the CANDO Platform. Molecules (Basel, Switzerland). 21. PMID 27898018 DOI: 10.3390/Molecules21121537 |
0.622 |
|
| 2016 |
Craig JK, Risler JK, Loesch KA, Dong W, Baker D, Barrett LK, Subramanian S, Samudrala R, Van Voorhis WC. Mycobacterium Cytidylate Kinase Appears to Be an Undruggable Target. Journal of Biomolecular Screening. PMID 27146385 DOI: 10.1177/1087057116646702 |
0.321 |
|
| 2016 |
Chopra G, Samudrala R. Exploring polypharmacology in drug discovery and repurposing using the CANDO platform. Current Pharmaceutical Design. PMID 27013226 DOI: 10.2174/1381612822666160325121943 |
0.609 |
|
| 2015 |
Manocheewa S, Mittler JE, Samudrala R, Mullins JI. Composite Sequence-Structure Stability Models as Screening Tools for Identifying Vulnerable Targets for HIV Drug and Vaccine Development. Viruses. 7: 5718-35. PMID 26556362 DOI: 10.3390/V7112901 |
0.39 |
|
| 2015 |
Sethi G, Chopra G, Samudrala R. Multiscale modelling of relationships between protein classes and drug behavior across all diseases using the CANDO platform. Mini Reviews in Medicinal Chemistry. 15: 705-17. PMID 25694071 DOI: 10.2174/1389557515666150219145148 |
0.658 |
|
| 2015 |
Sethi G, Chopra G, Samudrala R. Multiscale modelling of relationships between protein classes and drug behavior across all diseases using the CANDO platform Mini-Reviews in Medicinal Chemistry. 15: 705-717. DOI: 10.4172/0974-276X.C1.079 |
0.61 |
|
| 2014 |
Minie M, Chopra G, Sethi G, Horst J, White G, Roy A, Hatti K, Samudrala R. CANDO and the infinite drug discovery frontier. Drug Discovery Today. 19: 1353-63. PMID 24980786 DOI: 10.1016/J.Drudis.2014.06.018 |
0.759 |
|
| 2013 |
Lertkiatmongkol P, Assawamakin A, White G, Chopra G, Rongnoparut P, Samudrala R, Tongsima S. Distal effect of amino acid substitutions in CYP2C9 polymorphic variants causes differences in interatomic interactions against (S)-warfarin. Plos One. 8: e74053. PMID 24023924 DOI: 10.1371/Journal.Pone.0074053 |
0.599 |
|
| 2013 |
Laurenzi A, Hung LH, Samudrala R. Structure prediction of partial-length protein sequences. International Journal of Molecular Sciences. 14: 14892-907. PMID 23867606 DOI: 10.3390/Ijms140714892 |
0.441 |
|
| 2012 |
Martinez-Avila O, Wu S, Kim SJ, Cheng Y, Khan F, Samudrala R, Sali A, Horst JA, Habelitz S. Self-assembly of filamentous amelogenin requires calcium and phosphate: from dimers via nanoribbons to fibrils. Biomacromolecules. 13: 3494-502. PMID 22974364 DOI: 10.1021/Bm300942C |
0.618 |
|
| 2012 |
Horst JA, Pieper U, Sali A, Zhan L, Chopra G, Samudrala R, Featherstone JD. Strategic protein target analysis for developing drugs to stop dental caries. Advances in Dental Research. 24: 86-93. PMID 22899687 DOI: 10.1177/0022034512449837 |
0.753 |
|
| 2012 |
Gungormus M, Oren EE, Horst JA, Fong H, Hnilova M, Somerman MJ, Snead ML, Samudrala R, Tamerler C, Sarikaya M. Cementomimetics-constructing a cementum-like biomineralized microlayer via amelogenin-derived peptides. International Journal of Oral Science. 4: 69-77. PMID 22743342 DOI: 10.1038/Ijos.2012.40 |
0.64 |
|
| 2012 |
Hung LH, Samudrala R. Accelerated protein structure comparison using TM-score-GPU Bioinformatics. 28: 2191-2192. PMID 22718788 DOI: 10.1093/Bioinformatics/Bts345 |
0.427 |
|
| 2012 |
Horst JA, Laurenzi A, Bernard B, Samudrala R. Computational Multitarget Drug Discovery Polypharmacology in Drug Discovery. 263-301. DOI: 10.1002/9781118098141.ch13 |
0.607 |
|
| 2012 |
Goldman AD, Horst JA, Hung L, Samudrala R. Evolution of the Protein Repertoire Reviews in Cell Biology and Molecular Medicine. DOI: 10.1002/3527600906.Mcb.200400157.Pub2 |
0.679 |
|
| 2011 |
Moughon SE, Samudrala R. LoCo: A novel main chain scoring function for protein structure prediction based on local coordinates Bmc Bioinformatics. 12. PMID 21920038 DOI: 10.1186/1471-2105-12-368 |
0.453 |
|
| 2011 |
Horst OV, Horst JA, Samudrala R, Dale BA. Caries induced cytokine network in the odontoblast layer of human teeth. Bmc Immunology. 12: 9. PMID 21261944 DOI: 10.1186/1471-2172-12-9 |
0.604 |
|
| 2011 |
Cunningham ML, Horst JA, Rieder MJ, Hing AV, Stanaway IB, Park SS, Samudrala R, Speltz ML. IGF1R variants associated with isolated single suture craniosynostosis. American Journal of Medical Genetics. Part A. 155: 91-7. PMID 21204214 DOI: 10.1002/Ajmg.A.33781 |
0.63 |
|
| 2011 |
McDermott JE, Corrigan A, Peterson E, Oehmen C, Niemann G, Cambronne ED, Sharp D, Adkins JN, Samudrala R, Heffron F. Computational prediction of type III and IV secreted effectors in gram-negative bacteria. Infection and Immunity. 79: 23-32. PMID 20974833 DOI: 10.1128/Iai.00537-10 |
0.363 |
|
| 2010 |
Notman R, Oren EE, Tamerler C, Sarikaya M, Samudrala R, Walsh TR. Solution study of engineered quartz binding peptides using replica exchange molecular dynamics Biomacromolecules. 11: 3266-3274. PMID 20964422 DOI: 10.1021/Bm100646Z |
0.316 |
|
| 2010 |
Horst JA, Wang K, Horst OV, Cunningham ML, Samudrala R. Disease risk of missense mutations using structural inference from predicted function. Current Protein & Peptide Science. 11: 573-88. PMID 20887259 DOI: 10.2174/138920310794109139 |
0.663 |
|
| 2010 |
Horst JA, Samudrala R. A protein sequence meta-functional signature for calcium binding residue prediction. Pattern Recognition Letters. 31: 2103-2112. PMID 20824111 DOI: 10.1016/J.Patrec.2010.04.012 |
0.699 |
|
| 2010 |
Costin JM, Jenwitheesuk E, Lok SM, Hunsperger E, Conrads KA, Fontaine KA, Rees CR, Rossmann MG, Isern S, Samudrala R, Michael SF. Structural optimization and de novo design of dengue virus entry inhibitory peptides. Plos Neglected Tropical Diseases. 4: e721. PMID 20582308 DOI: 10.1371/Journal.Pntd.0000721 |
0.358 |
|
| 2010 |
Goldman AD, Samudrala R, Baross JA. The evolution and functional repertoire of translation proteins following the origin of life Biology Direct. 5. PMID 20377891 DOI: 10.1186/1745-6150-5-15 |
0.339 |
|
| 2010 |
Borlee BR, Goldman AD, Murakami K, Samudrala R, Wozniak DJ, Parsek MR. Pseudomonas aeruginosa uses a cyclic-di-GMP-regulated adhesin to reinforce the biofilm extracellular matrix. Molecular Microbiology. 75: 827-42. PMID 20088866 DOI: 10.1111/J.1365-2958.2009.06991.X |
0.306 |
|
| 2009 |
Horst J, Samudrala R. Diversity of protein structures and difficulties in fold recognition: the curious case of protein G. F1000 Biology Reports. 1: 69. PMID 20209018 DOI: 10.3410/B1-69 |
0.693 |
|
| 2009 |
Liu T, Horst JA, Samudrala R. A novel method for predicting and using distance constraints of high accuracy for refining protein structure prediction. Proteins. 77: 220-34. PMID 19422061 DOI: 10.1002/Prot.22434 |
0.683 |
|
| 2009 |
Kittichotirat W, Guerquin M, Bumgarner RE, Samudrala R. Protinfo PPC: A web server for atomic level prediction of protein complexes Nucleic Acids Research. 37: W519-W525. PMID 19420059 DOI: 10.1093/Nar/Gkp306 |
0.414 |
|
| 2009 |
Samudrala R, Heffron F, McDermott JE. Accurate prediction of secreted substrates and identification of a conserved putative secretion signal for type III secretion systems. Plos Pathogens. 5: e1000375. PMID 19390620 DOI: 10.1371/Journal.Ppat.1000375 |
0.374 |
|
| 2009 |
Frazier Z, McDermott J, Guerquin M, Samudrala R. Computational representation of biological systems. Methods in Molecular Biology (Clifton, N.J.). 541: 535-49. PMID 19381532 DOI: 10.1007/978-1-59745-243-4_23 |
0.356 |
|
| 2009 |
Wichadakul D, McDermott J, Samudrala R. Prediction and integration of regulatory and protein-protein interactions. Methods in Molecular Biology (Clifton, N.J.). 541: 101-43. PMID 19381527 DOI: 10.1007/978-1-59745-243-4_6 |
0.387 |
|
| 2009 |
Bernard B, Samudrala R. A generalized knowledge-based discriminatory function for biomolecular interactions Proteins: Structure, Function and Bioinformatics. 76: 115-128. PMID 19127590 DOI: 10.1002/Prot.22323 |
0.358 |
|
| 2008 |
Wang K, Horst JA, Cheng G, Nickle DC, Samudrala R. Protein meta-functional signatures from combining sequence, structure, evolution, and amino acid property information. Plos Computational Biology. 4: e1000181. PMID 18818722 DOI: 10.1371/Journal.Pcbi.1000181 |
0.727 |
|
| 2008 |
Liu T, Guerquin M, Samudrala R. Improving the accuracy of template-based predictions by mixing and matching between initial models Bmc Structural Biology. 8. PMID 18457597 DOI: 10.1186/1472-6807-8-24 |
0.401 |
|
| 2008 |
Jenkins C, Samudrala R, Geary SJ, Djordjevic SP. Structural and functional characterization of an organic hydroperoxide resistance protein from Mycoplasma gallisepticum Journal of Bacteriology. 190: 2206-2216. PMID 18192392 DOI: 10.1128/Jb.01685-07 |
0.304 |
|
| 2008 |
Jenwitheesuk E, Horst JA, Rivas KL, Van Voorhis WC, Samudrala R. Novel paradigms for drug discovery: computational multitarget screening. Trends in Pharmacological Sciences. 29: 62-71. PMID 18190973 DOI: 10.1016/J.Tips.2007.11.007 |
0.68 |
|
| 2008 |
Samudrala R, Oren EE, Cheng G, Horst J, Bernard B, Gungormus M, Hnilova M, Fong H, Tamerler C, Sarikaya M. Knowledge-based design of inorganic-binding peptides 5th Conference On Foundations of Nanoscience: Self-Assembled Architectures and Devices, Fnano 2008. 75-80. |
0.619 |
|
| 2007 |
Ngan SC, Hung LH, Liu T, Samudrala R. Scoring functions for de novo protein structure prediction revisited Methods in Molecular Biology. 413: 243-281. PMID 18075169 DOI: 10.1007/978-1-59745-574-9_10 |
0.449 |
|
| 2007 |
Bockhorst J, Lu F, Janes JH, Keebler J, Gamain B, Awadalla P, Su Xz, Samudrala R, Jojic N, Smith JD. Structural polymorphism and diversifying selection on the pregnancy malaria vaccine candidate VAR2CSA Molecular and Biochemical Parasitology. 155: 103-112. PMID 17669514 DOI: 10.1016/J.Molbiopara.2007.06.007 |
0.327 |
|
| 2006 |
Hung LH, Samudrala R. An automated assignment-free Bayesian approach for accurately identifying proton contacts from NOESY data Journal of Biomolecular Nmr. 36: 189-198. PMID 17016668 DOI: 10.1007/S10858-006-9082-1 |
0.346 |
|
| 2006 |
Wang K, Samudrala R. Incorporating background frequency improves entropy-based residue conservation measures Bmc Bioinformatics. 7. PMID 16916457 DOI: 10.1186/1471-2105-7-385 |
0.339 |
|
| 2006 |
Liu T, Samudrala R. The effect of experimental resolution on the performance of knowledge-based discriminatory functions for protein structure selection Protein Engineering, Design and Selection. 19: 431-437. PMID 16845128 DOI: 10.1093/Protein/Gzl027 |
0.406 |
|
| 2006 |
Korotkova N, Le Trong I, Samudrala R, Korotkov K, Van Loy CP, Bui AL, Moseley SL, Stenkamp RE. Crystal structure and mutational analysis of the DaaE adhesin of Escherichia coli Journal of Biological Chemistry. 281: 22367-22377. PMID 16751628 DOI: 10.1074/Jbc.M604646200 |
0.376 |
|
| 2006 |
Wang K, Samudrala R. Automated functional classification of experimental and predicted protein structures Bmc Bioinformatics. 7. PMID 16749925 DOI: 10.1186/1471-2105-7-278 |
0.428 |
|
| 2006 |
Howell DPG, Samudrala R, Smith JD. Disguising itself-insights into Plasmodium falciparum binding and immune evasion from the DBL crystal structure Molecular and Biochemical Parasitology. 148: 1-9. PMID 16621067 DOI: 10.1016/J.Molbiopara.2006.03.004 |
0.305 |
|
| 2006 |
Chang AN, McDermott J, Frazier Z, Guerquin M, Samudrala R. INTEGRATOR: interactive graphical search of large protein interactomes over the Web. Bmc Bioinformatics. 7: 146. PMID 16542421 DOI: 10.1186/1471-2105-7-146 |
0.311 |
|
| 2006 |
Ngan SC, Inouye MT, Samudrala R. A knowledge-based scoring function based on residue triplets for protein structure prediction Protein Engineering, Design and Selection. 19: 187-193. PMID 16533801 DOI: 10.1093/Protein/Gzj018 |
0.421 |
|
| 2005 |
Cheng G, Qian B, Samudrala R, Baker D. Improvement in protein functional site prediction by distinguishing structural and functional constraints on protein family evolution using computational design. Nucleic Acids Research. 33: 5861-7. PMID 16224101 DOI: 10.1093/Nar/Gki894 |
0.604 |
|
| 2005 |
Jenwitheesuk E, Samudrala R. Identification of potential multitarget antimalarial drugs [4] Journal of the American Medical Association. 294: 1490-1491. PMID 16189361 DOI: 10.1001/Jama.294.12.1490 |
0.327 |
|
| 2005 |
Liu T, Jenwitheesuk E, Teller DC, Samudrala R. Structural insights into the cellular retinaldehyde-binding protein (CRALBP). Proteins. 61: 412-22. PMID 16121400 DOI: 10.1002/Prot.20621 |
0.376 |
|
| 2005 |
Hung LH, Ngan SC, Liu T, Samudrala R. PROTINFO: New algorithms for enhanced protein structure predictions Nucleic Acids Research. 33: W77-W80. PMID 15980581 DOI: 10.1093/Nar/Gki403 |
0.418 |
|
| 2005 |
McDermott J, Guerquin M, Frazier Z, Chang AN, Samudrala R. BIOVERSE: enhancements to the framework for structural, functional and contextual modeling of proteins and proteomes. Nucleic Acids Research. 33: W324-5. PMID 15980482 DOI: 10.1093/Nar/Gki401 |
0.37 |
|
| 2005 |
McDermott J, Bumgarner R, Samudrala R. Functional annotation from predicted protein interaction networks. Bioinformatics (Oxford, England). 21: 3217-26. PMID 15919725 DOI: 10.1093/Bioinformatics/Bti514 |
0.38 |
|
| 2005 |
Wang K, Samudrala R. FSSA: A novel method for identifying functional signatures from structural alignments Bioinformatics. 21: 2969-2977. PMID 15860561 DOI: 10.1093/Bioinformatics/Bti471 |
0.385 |
|
| 2005 |
Chang AN, McDermott J, Samudrala R. An enhanced Java graph applet interface for visualizing interactomes. Bioinformatics (Oxford, England). 21: 1741-2. PMID 15613388 DOI: 10.1093/Bioinformatics/Bti237 |
0.305 |
|
| 2004 |
Wang K, Fain B, Levitt M, Samudrala R. Improved protein structure selection using decoy-dependent discriminatory functions. Bmc Structural Biology. 4: 8. PMID 15207004 DOI: 10.1186/1472-6807-4-8 |
0.532 |
|
| 2004 |
Wang K, Samudrala R, Mittler J, Qari S, Heneine W, Hellmann N, Bacheler L. Weak Agreement between Antivirogram and PhenoSense Assays in Predicting Reduced Susceptibility to Antiretroviral Drugs [3] (multiple letters) Journal of Clinical Microbiology. 42: 2353-2354. PMID 15131234 DOI: 10.1128/Jcm.42.5.2353-2354.2004 |
0.33 |
|
| 2004 |
McDermott J, Samudrala R, Date SV, Marcotte EM. Enhanced functional information from predicted protein networks Trends in Biotechnology. 22: 60-63. PMID 14757037 DOI: 10.1016/J.Tibtech.2003.11.010 |
0.388 |
|
| 2003 |
Jenwitheesuk E, Samudrala R. Identifying inhibitors of the SARS coronavirus proteinase Bioorganic and Medicinal Chemistry Letters. 13: 3989-3992. PMID 14592491 DOI: 10.1016/J.Bmcl.2003.08.066 |
0.327 |
|
| 2003 |
McDermott J, Samudrala R. Bioverse: Functional, structural and contextual annotation of proteins and proteomes Nucleic Acids Research. 31: 3736-3737. PMID 12824406 DOI: 10.1093/Nar/Gkg550 |
0.356 |
|
| 2003 |
Hung LH, Samudrala R. PROTINFO: Secondary and tertiary protein structure Nucleic Acids Research. 31: 3296-3299. PMID 12824311 DOI: 10.1093/Nar/Gkg541 |
0.424 |
|
| 2003 |
Jenwitheesuk E, Samudrala R. Improved prediction of HIV-1 protease-inhibitor binding energies by molecular dynamics simulations. Bmc Structural Biology. 3: 2. PMID 12675950 DOI: 10.1186/1472-6807-3-2 |
0.342 |
|
| 2003 |
Hung LH, Samudrala R. Accurate and automated classification of protein secondary structure with PsiCSI Protein Science. 12: 288-295. PMID 12538892 DOI: 10.1110/Ps.0222303 |
0.371 |
|
| 2002 |
Jenkins C, Samudrala R, Anderson I, Hedlund BP, Petroni G, Michailova N, Pinel N, Overbeek R, Rosati G, Staley JT. Genes for the cytoskeletal protein tubulin in the bacterial genus Prosthecobacter. Proceedings of the National Academy of Sciences of the United States of America. 99: 17049-54. PMID 12486237 DOI: 10.1073/Pnas.012516899 |
0.327 |
|
| 2002 |
Samudrala R, Levitt M. A comprehensive analysis of 40 blind protein structure predictions. Bmc Structural Biology. 2: 3. PMID 12150712 DOI: 10.1186/1472-6807-2-3 |
0.581 |
|
| 2002 |
Van Loy CP, Sokurenko EV, Samudrala R, Moseley SL. Identification of amino acids in the Dr adhesin required for binding to decay-accelerating factor. Molecular Microbiology. 45: 439-52. PMID 12123455 DOI: 10.1046/J.1365-2958.2002.03022.X |
0.313 |
|
| 2002 |
Samudrala R. Modeling genome structure and function Pure and Applied Chemistry. 74: 907-914. DOI: 10.1351/Pac200274060907 |
0.35 |
|
| 2000 |
Huang ES, Samudrala R, Park BH. Scoring functions for ab initio protein structure prediction. Methods in Molecular Biology (Clifton, N.J.). 143: 223-45. PMID 11084908 DOI: 10.1385/1-59259-368-2:223 |
0.418 |
|
| 2000 |
Samudrala R, Levitt M. Decoys 'R' Us: a database of incorrect conformations to improve protein structure prediction. Protein Science : a Publication of the Protein Society. 9: 1399-401. PMID 10933507 DOI: 10.1110/Ps.9.7.1399 |
0.533 |
|
| 2000 |
Samudrala R, Huang ES, Koehl P, Levitt M. Constructing side chains on near-native main chains for ab initio protein structure prediction. Protein Engineering. 13: 453-7. PMID 10906341 DOI: 10.1093/Protein/13.7.453 |
0.517 |
|
| 2000 |
Samudrala R, Xia Y, Levitt M, Cotton NJ, Huang ES, Davis R. Probing structure-function relationships of the DNA polymerase alpha-associated zinc-finger protein using computational approaches. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 179-90. PMID 10902167 |
0.504 |
|
| 2000 |
Xia Y, Huang ES, Levitt M, Samudrala R. Ab initio construction of protein tertiary structures using a hierarchical approach. Journal of Molecular Biology. 300: 171-85. PMID 10864507 DOI: 10.1006/Jmbi.2000.3835 |
0.561 |
|
| 1999 |
Samudrala R, Xia Y, Huang E, Levitt M. Ab initio protein structure prediction using a combined hierarchical approach. Proteins. 194-8. PMID 10526368 DOI: 10.1002/(Sici)1097-0134(1999)37:3+<194::Aid-Prot24>3.0.Co;2-F |
0.572 |
|
| 1999 |
Huang ES, Samudrala R, Ponder JW. Ab initio fold prediction of small helical proteins using distance geometry and knowledge-based scoring functions. Journal of Molecular Biology. 290: 267-81. PMID 10388572 DOI: 10.1006/Jmbi.1999.2861 |
0.439 |
|
| 1999 |
Samudrala R, Xia Y, Levitt M, Huang ES. A combined approach for ab initio construction of low resolution protein tertiary structures from sequence. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 505-16. PMID 10380223 DOI: 10.1142/9789814447300_0050 |
0.577 |
|
| 1998 |
Samudrala R, Moult J. Determinants of side chain conformational preferences in protein structures Protein Engineering. 11: 991-997. PMID 9876919 DOI: 10.1093/Protein/11.11.991 |
0.558 |
|
| 1998 |
Huang ES, Samudrala R, Ponder JW. Distance geometry generates native-like folds for small helical proteins using the consensus distances of predicted protein structures. Protein Science : a Publication of the Protein Society. 7: 1998-2003. PMID 9761481 DOI: 10.1002/Pro.5560070916 |
0.441 |
|
| 1998 |
Samudrala R, Moult J. A graph-theoretic algorithm for comparative modeling of protein structure Journal of Molecular Biology. 279: 287-302. PMID 9636717 DOI: 10.1006/Jmbi.1998.1689 |
0.563 |
|
| 1998 |
Samudrala R, Moult J. An all-atom distance-dependent conditional probability discriminatory function for protein structure prediction Journal of Molecular Biology. 275: 895-916. PMID 9480776 DOI: 10.1006/Jmbi.1997.1479 |
0.573 |
|
| 1997 |
Samudrala R, Moult J. Handling context-sensitivity in protein structures using graph theory: Bona fide prediction Proteins: Structure, Function and Genetics. 29: 43-49. PMID 9485494 DOI: 10.1002/(Sici)1097-0134(1997)1+<43::Aid-Prot7>3.0.Co;2-P |
0.623 |
|
| 1995 |
Samudrala R, Pedersen JT, Zhou HB, Luo R, Fidelis K, Moult J. Confronting the problem of interconnected structural changes in the comparative modeling of proteins Proteins: Structure, Function and Genetics. 23: 327-336. PMID 8710826 DOI: 10.1002/Prot.340230307 |
0.609 |
|
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