| Year |
Citation |
Score |
| 2008 |
Shakhnovich BE, Shakhnovich EI. Improvisation in evolution of genes and genomes: whose structure is it anyway? Current Opinion in Structural Biology. 18: 375-81. PMID 18487041 DOI: 10.1016/J.Sbi.2008.02.007 |
0.341 |
|
| 2007 |
Zeldovich KB, Chen P, Shakhnovich BE, Shakhnovich EI. A first-principles model of early evolution: emergence of gene families, species, and preferred protein folds. Plos Computational Biology. 3: e139. PMID 17630830 DOI: 10.1371/Journal.Pcbi.0030139 |
0.34 |
|
| 2007 |
Lerman G, Shakhnovich BE. Defining functional distance using manifold embeddings of gene ontology annotations. Proceedings of the National Academy of Sciences of the United States of America. 104: 11334-9. PMID 17595300 DOI: 10.1073/Pnas.0702965104 |
0.425 |
|
| 2007 |
Reddy TE, DeLisi C, Shakhnovich BE. Binding site graphs: a new graph theoretical framework for prediction of transcription factor binding sites. Plos Computational Biology. 3: e90. PMID 17500587 DOI: 10.1371/Journal.Pcbi.0030090 |
0.671 |
|
| 2007 |
Reddy TE, Shakhnovich BE, Roberts DS, Russek SJ, DeLisi C. Positional clustering improves computational binding site detection and identifies novel cis-regulatory sites in mammalian GABAA receptor subunit genes. Nucleic Acids Research. 35: e20. PMID 17204484 DOI: 10.1093/Nar/Gkl1062 |
0.685 |
|
| 2007 |
Lukatsky DB, Shakhnovich BE, Mintseris J, Shakhnovich EI. Structural similarity enhances interaction propensity of proteins. Journal of Molecular Biology. 365: 1596-606. PMID 17141268 DOI: 10.1016/J.Jmb.2006.11.020 |
0.32 |
|
| 2006 |
Shakhnovich BE, Koonin EV. Origins and impact of constraints in evolution of gene families. Genome Research. 16: 1529-36. PMID 17053091 DOI: 10.1101/Gr.5346206 |
0.373 |
|
| 2005 |
Reddy TE, DeLisi C, Shakhnovich BE. Assessing transcription factor motif drift from noisy decoy sequences. Genome Informatics. International Conference On Genome Informatics. 16: 59-67. PMID 16362907 DOI: 10.11234/Gi1990.16.59 |
0.656 |
|
| 2005 |
Shakhnovich BE. Improving the precision of the structure-function relationship by considering phylogenetic context. Plos Computational Biology. 1: e9. PMID 16103910 DOI: 10.1371/Journal.Pcbi.0010009 |
0.391 |
|
| 2005 |
Shakhnovich BE, Deeds E, Delisi C, Shakhnovich E. Protein structure and evolutionary history determine sequence space topology. Genome Research. 15: 385-92. PMID 15741509 DOI: 10.1101/Gr.3133605 |
0.584 |
|
| 2004 |
Shakhnovich BE, Reddy TE, Galinsky K, Mellor J, Delisi C. Comparisons of predicted genetic modules: identification of co-expressed genes through module gene flow. Genome Informatics. International Conference On Genome Informatics. 15: 221-8. PMID 15712124 |
0.679 |
|
| 2004 |
Shakhnovich BE, Harvey JM, Delisi C. ELISA: a unified, multidimensional view of the protein domain universe. Genome Informatics. International Conference On Genome Informatics. 15: 213-20. PMID 15712123 DOI: 10.11234/Gi1990.15.213 |
0.55 |
|
| 2004 |
Deeds EJ, Shakhnovich B, Shakhnovich EI. Proteomic traces of speciation. Journal of Molecular Biology. 336: 695-706. PMID 15095981 DOI: 10.1016/J.Jmb.2003.12.066 |
0.331 |
|
| 2004 |
Shakhnovich BE, Max Harvey J. Quantifying structure-function uncertainty: a graph theoretical exploration into the origins and limitations of protein annotation. Journal of Molecular Biology. 337: 933-49. PMID 15033362 DOI: 10.1016/J.Jmb.2004.02.009 |
0.387 |
|
| 2004 |
Tiana G, Shakhnovich BE, Dokholyan NV, Shakhnovich EI. Imprint of evolution on protein structures. Proceedings of the National Academy of Sciences of the United States of America. 101: 2846-51. PMID 14970345 DOI: 10.1073/Pnas.0306638101 |
0.36 |
|
| 2004 |
Shakhnovich BE, Reddy TE, Galinsky K, Mellor J, Delisi C. Comparisons of Predicted Genetic Modules: Identification of Co-Expressed Genes through Module Gene Flow:Identification of Co-Expressed Genes through Module Gene Flow Genome Informatics. 15: 221-228. DOI: 10.11234/Gi1990.15.221 |
0.672 |
|
| 2003 |
Shakhnovich BE, Harvey JM, Comeau S, Lorenz D, DeLisi C, Shakhnovich E. ELISA: Structure-function inferences based on statistically significant and evolutionarily inspired observations Bmc Bioinformatics. 4. PMID 12952559 DOI: 10.1186/1471-2105-4-34 |
0.562 |
|
| 2003 |
Shakhnovich BE, Dokholyan NV, DeLisi C, Shakhnovich EI. Functional fingerprints of folds: evidence for correlated structure-function evolution. Journal of Molecular Biology. 326: 1-9. PMID 12547186 DOI: 10.1016/S0022-2836(02)01362-1 |
0.533 |
|
| 2002 |
Dokholyan NV, Shakhnovich B, Shakhnovich EI. Expanding protein universe and its origin from the biological Big Bang. Proceedings of the National Academy of Sciences of the United States of America. 99: 14132-6. PMID 12384571 DOI: 10.1073/Pnas.202497999 |
0.319 |
|
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