Year |
Citation |
Score |
2020 |
Oberti M, Vaisman II. cnnAlpha: Protein Disordered Regions Prediction by Reduced Amino Acid Alphabets and Convolutional Neural Networks. Proteins. PMID 32535960 DOI: 10.1002/prot.25966 |
0.3 |
|
2019 |
Masso M, Bansal A, Prem P, Gajjala A, Vaisman II. Fitness of unregulated human Ras mutants modeled by implementing computational mutagenesis and machine learning techniques. Heliyon. 5: e01884. PMID 31211262 DOI: 10.1016/J.Heliyon.2019.E01884 |
0.703 |
|
2019 |
Oberti M, Vaisman I. shiny-pred: a server for the prediction of protein disordered regions F1000research. 8: 230. DOI: 10.12688/F1000Research.17669.1 |
0.39 |
|
2019 |
Masso M, Bansal A, Gajjala A, Prem P, Vaisman II. Cancer-Ml: Modeling Fitness of Unregulated RAS Mutants using Computational Mutagenesis and Machine Learning Biophysical Journal. 116: 561a. DOI: 10.1016/J.Bpj.2018.11.3015 |
0.626 |
|
2015 |
McCoy MD, Jafri S, Vaisman I. Structural and Functional Impact of Amino Acid Substitution on Calmodulin Binding in Cardiac Myocytes Biophysical Journal. 108: 265a-266a. DOI: 10.1016/J.Bpj.2014.11.1464 |
0.384 |
|
2014 |
Masso M, Vaisman II. AUTO-MUTE 2.0: A Portable Framework with Enhanced Capabilities for Predicting Protein Functional Consequences upon Mutation. Advances in Bioinformatics. 2014: 278385. PMID 25197272 DOI: 10.1155/2014/278385 |
0.729 |
|
2014 |
Masso M, Chuang G, Hao K, Jain S, Vaisman II. Structure-based predictors of resistance to the HIV-1 integrase inhibitor Elvitegravir. Antiviral Research. 106: 5-12. PMID 24681122 DOI: 10.1016/J.Antiviral.2014.03.006 |
0.726 |
|
2013 |
Masso M, Vaisman II. Sequence and structure based models of HIV-1 protease and reverse transcriptase drug resistance. Bmc Genomics. 14: S3. PMID 24268064 DOI: 10.1186/1471-2164-14-S4-S3 |
0.759 |
|
2011 |
Masso M, Vaisman II. A structure-based computational mutagenesis elucidates the spectrum of stability-activity relationships in proteins. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 2011: 3225-8. PMID 22255026 DOI: 10.1109/IEMBS.2011.6090877 |
0.711 |
|
2011 |
Masso M, Vaisman II. Structure-based prediction of protein activity changes: assessing the impact of single residue replacements. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 2011: 3221-4. PMID 22255025 DOI: 10.1109/IEMBS.2011.6090876 |
0.752 |
|
2011 |
Ravich VL, Masso M, Vaisman II. A combined sequence-structure approach for predicting resistance to the non-nucleoside HIV-1 reverse transcriptase inhibitor Nevirapine. Biophysical Chemistry. 153: 168-72. PMID 21146283 DOI: 10.1016/J.Bpc.2010.11.004 |
0.645 |
|
2011 |
Masso M, Vaisman II. Modeling cell proliferation activity of human interleukin-3 upon single residue replacements Bioinformatics 2011 - Proceedings of the International Conference On Bioinformatics Models, Methods and Algorithms. 93-101. |
0.648 |
|
2010 |
Masso M, Vaisman II. Accurate and efficient gp120 V3 loop structure based models for the determination of HIV-1 co-receptor usage. Bmc Bioinformatics. 11: 494. PMID 20923564 DOI: 10.1186/1471-2105-11-494 |
0.691 |
|
2010 |
Masso M, Vaisman II. Knowledge-based computational mutagenesis for predicting the disease potential of human non-synonymous single nucleotide polymorphisms. Journal of Theoretical Biology. 266: 560-8. PMID 20655929 DOI: 10.1016/J.Jtbi.2010.07.026 |
0.715 |
|
2010 |
Masso M, Vaisman II. AUTO-MUTE: web-based tools for predicting stability changes in proteins due to single amino acid replacements. Protein Engineering, Design & Selection : Peds. 23: 683-7. PMID 20573719 DOI: 10.1093/Protein/Gzq042 |
0.745 |
|
2010 |
Masso M, Vaisman II. Structure-Based Machine Learning Models for Computational Mutagenesis Introduction to Protein Structure Prediction: Methods and Algorithms. 403-430. DOI: 10.1002/9780470882207.ch18 |
0.642 |
|
2009 |
Masso M, Mathe E, Parvez N, Hijazi K, Vaisman II. Modeling the functional consequences of single residue replacements in bacteriophage f1 gene V protein. Protein Engineering, Design & Selection : Peds. 22: 665-71. PMID 19690089 DOI: 10.1093/Protein/Gzp050 |
0.796 |
|
2009 |
Masso M, Alsheddi T, Vaisman II. Accurate prediction of stability changes in bacteriophage T4 lysozyme upon single amino acid replacements 2009 Ieee International Conference On Bioinformatics and Biomedicine, Bibm 2009. 26-30. DOI: 10.1109/BIBM.2009.50 |
0.717 |
|
2009 |
Yang S, Lach-hab M, Vaisman II, Blaisten-Barojas E. Identifying Zeolite Frameworks with a Machine Learning Approach The Journal of Physical Chemistry C. 113: 21721-21725. DOI: 10.1021/Jp907017U |
0.312 |
|
2008 |
Masso M, Vaisman II. Accurate prediction of stability changes in protein mutants by combining machine learning with structure based computational mutagenesis. Bioinformatics (Oxford, England). 24: 2002-9. PMID 18632749 DOI: 10.1093/Bioinformatics/Btn353 |
0.76 |
|
2008 |
Barenboim M, Masso M, Vaisman II, Jamison DC. Statistical geometry based prediction of nonsynonymous SNP functional effects using random forest and neuro-fuzzy classifiers. Proteins. 71: 1930-9. PMID 18186470 DOI: 10.1002/Prot.21838 |
0.724 |
|
2008 |
Masso M, Mathe E, Parvez N, Hijazi K, Vaisman II. Structure based functional analysis of bacteriophage f1 gene v protein Proceedings - Ieee International Conference On Bioinformatics and Biomedicine, Bibm 2008. 402-406. DOI: 10.1109/BIBM.2008.14 |
0.789 |
|
2008 |
Masso M, Hijazi K, Parvez N, Vaisman II. Computational mutagenesis of E. coli lac repressor: Insight into structure-function relationships and accurate prediction of mutant activity Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 4983: 390-401. DOI: 10.1007/978-3-540-79450-9_36 |
0.736 |
|
2007 |
Masso M, Vaisman II. Accurate prediction of enzyme mutant activity based on a multibody statistical potential. Bioinformatics (Oxford, England). 23: 3155-61. PMID 17977887 DOI: 10.1093/Bioinformatics/Btm509 |
0.711 |
|
2007 |
Reck GM, Vaisman II. Decoy discrimination using contact potentials based on delaunay tessellation of hydrated proteins Proceedings - Isvd 2007 the 4th International Symposium On Voronoi Diagrams in Science and Engineering 2007. 159-167. DOI: 10.1109/ISVD.2007.13 |
0.725 |
|
2007 |
Masso M, Vaisman II. A novel sequence-structure approach for accurate prediction of resistance to HIV-1 protease inhibitors Proceedings of the 7th Ieee International Conference On Bioinformatics and Bioengineering, Bibe. 952-958. DOI: 10.1109/BIBE.2007.4375673 |
0.745 |
|
2006 |
Masso M, Lu Z, Vaisman II. Computational mutagenesis studies of protein structure-function correlations. Proteins. 64: 234-45. PMID 16617425 DOI: 10.1002/Prot.20968 |
0.726 |
|
2006 |
Mathe E, Olivier M, Kato S, Ishioka C, Vaisman I, Hainaut P. Predicting the transactivation activity of p53 missense mutants using a four-body potential score derived from Delaunay tessellations. Human Mutation. 27: 163-72. PMID 16395672 DOI: 10.1002/Humu.20284 |
0.692 |
|
2005 |
Barenboim M, Jamison DC, Vaisman II. Statistical geometry approach to the study of functional effects of human nonsynonymous SNPs. Human Mutation. 26: 471-6. PMID 16200641 DOI: 10.1002/Humu.20238 |
0.339 |
|
2005 |
Taylor T, Rivera M, Wilson G, Vaisman II. New method for protein secondary structure assignment based on a simple topological descriptor. Proteins. 60: 513-24. PMID 15887224 DOI: 10.1002/prot.20471 |
0.319 |
|
2004 |
Bostick DL, Shen M, Vaisman II. A simple topological representation of protein structure: implications for new, fast, and robust structural classification. Proteins. 56: 487-501. PMID 15229882 DOI: 10.1002/Prot.20146 |
0.342 |
|
2004 |
Taylor T, Vaisman I. A new method of secondary structure assignment based on the delaunay tessellation of protein structures Proceedings - 2004 Ieee Computational Systems Bioinformatics Conference, Csb 2004. 706-707. |
0.317 |
|
2003 |
Tropsha A, Carter CW, Cammer S, Vaisman II. Simplicial neighborhood analysis of protein packing (SNAPP): a computational geometry approach to studying proteins. Methods in Enzymology. 374: 509-44. PMID 14696387 DOI: 10.1016/S0076-6879(03)74022-1 |
0.343 |
|
2003 |
Masso M, Vaisman II. Comprehensive mutagenesis of HIV-1 protease: a computational geometry approach. Biochemical and Biophysical Research Communications. 305: 322-6. PMID 12745077 DOI: 10.1016/S0006-291X(03)00760-5 |
0.7 |
|
2003 |
Bostick D, Vaisman II. A new topological method to measure protein structure similarity. Biochemical and Biophysical Research Communications. 304: 320-5. PMID 12711317 DOI: 10.1016/S0006-291X(03)00585-0 |
0.317 |
|
1999 |
Shats O, Vaisman II, Shats A, Sherman S. SECOS: Sequence-conformation-structure database for amino acid residues in proteins Bioinformatics. 15: 525-526. PMID 10383478 DOI: 10.1093/Bioinformatics/15.6.525 |
0.333 |
|
1997 |
Zheng W, Cho SJ, Vaisman II, Tropsha A. A new approach to protein fold recognition based on Delaunay tessellation of protein structure Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 486-497. PMID 9390317 |
0.362 |
|
1996 |
Tropsha A, Singh RK, Vaisman II, Zheng W. Statistical geometry analysis of proteins: implications for inverted structure prediction Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 614-623. PMID 9390262 |
0.383 |
|
1995 |
Hoffman DL, Laiter S, Singh RK, Vaisman II, Tropsha A. Rapid protein structure classification using one-dimensional structure profiles on the BioSCAN parallel computer Bioinformatics. 11: 675-679. PMID 8808584 DOI: 10.1093/Bioinformatics/11.6.675 |
0.335 |
|
1995 |
Laiter S, Hoffman DL, Singh RK, Vaisman II, Tropsha A. Pseudotorsional OCCO backbone angle as a single descriptor of protein secondary structure Protein Science. 4: 1633-1643. PMID 8520489 DOI: 10.1002/Pro.5560040821 |
0.308 |
|
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