| Year |
Citation |
Score |
| 2020 |
Youssef N, Susko E, Bielawski JP. Consequences of Stability-Induced Epistasis for Substitution Rates. Molecular Biology and Evolution. PMID 32897316 DOI: 10.1093/Molbev/Msaa151 |
0.342 |
|
| 2020 |
Douglas GM, Bielawski JP, Langille MGI. Re-evaluating the relationship between missing heritability and the microbiome. Microbiome. 8: 87. PMID 32513310 DOI: 10.1186/S40168-020-00839-4 |
0.321 |
|
| 2020 |
Yang Z, Bielawski JP. Statistical methods for detecting molecular adaptation. Trends in Ecology & Evolution. 15: 496-503. PMID 11114436 DOI: 10.1016/S0169-5347(00)01994-7 |
0.345 |
|
| 2019 |
Jones CT, Youssef N, Susko E, Bielawski JP. A phenotype-genotype codon model for detecting adaptive evolution. Systematic Biology. PMID 31730199 DOI: 10.1093/Sysbio/Syz075 |
0.396 |
|
| 2019 |
Jones CT, Susko E, Bielawski JP. Looking for Darwin in Genomic Sequences: Validity and Success Depends on the Relationship Between Model and Data. Methods in Molecular Biology (Clifton, N.J.). 1910: 399-426. PMID 31278672 DOI: 10.1007/978-1-4939-9074-0_13 |
0.371 |
|
| 2019 |
Chen W, Kenney T, Bielawski J, Gu H. Testing adequacy for DNA substitution models. Bmc Bioinformatics. 20: 349. PMID 31221105 DOI: 10.1186/S12859-019-2905-3 |
0.312 |
|
| 2019 |
Dunn KA, Kenney T, Gu H, Bielawski JP. Improved inference of site-specific positive selection under a generalized parametric codon model when there are multinucleotide mutations and multiple nonsynonymous rates. Bmc Evolutionary Biology. 19: 22. PMID 30642241 DOI: 10.1186/S12862-018-1326-7 |
0.346 |
|
| 2018 |
Dunn KA, Andrews K, Bashwih RO, Bielawski JP. Bayesian Inference of Microbial Community Structure from Metagenomic Data Using BioMiCo. Methods in Molecular Biology (Clifton, N.J.). 1849: 267-289. PMID 30298260 DOI: 10.1007/978-1-4939-8728-3_17 |
0.307 |
|
| 2018 |
Jones CT, Youssef N, Susko E, Bielawski JP. Phenomenological load on model parameters can lead to false biological conclusions. Molecular Biology and Evolution. PMID 29596684 DOI: 10.1093/Molbev/Msy049 |
0.306 |
|
| 2016 |
Jones CT, Youssef N, Susko E, Bielawski JP. Shifting Balance on a Static Mutation-Selection Landscape: A Novel Scenario of Positive Selection. Molecular Biology and Evolution. PMID 28110273 DOI: 10.1093/Molbev/Msw237 |
0.361 |
|
| 2016 |
Dunn KA, Moore-Connors J, MacIntyre B, Stadnyk A, Thomas NA, Noble A, Mahdi G, Rashid M, Otley AR, Bielawski JP, Van Limbergen J. The Gut Microbiome of Pediatric Crohn's Disease Patients Differs from Healthy Controls in Genes That Can Influence the Balance Between a Healthy and Dysregulated Immune Response. Inflammatory Bowel Diseases. 22: 2607-2618. PMID 27760077 DOI: 10.1097/Mib.0000000000000949 |
0.305 |
|
| 2016 |
Mingrone J, Susko E, Bielawski J. Smoothed Bootstrap Aggregation for Assessing Selection Pressure at Amino Acid Sites. Molecular Biology and Evolution. PMID 27486222 DOI: 10.1093/Molbev/Msw160 |
0.337 |
|
| 2016 |
Bielawski JP, Baker JL, Mingrone J. Inference of Episodic Changes in Natural Selection Acting on Protein Coding Sequences via CODEML. Current Protocols in Bioinformatics / Editoral Board, Andreas D. Baxevanis ... [Et Al.]. 54: 6.15.1-6.15.32. PMID 27322407 DOI: 10.1002/Cpbi.2 |
0.36 |
|
| 2016 |
Baker JL, Dunn K, Mingrone J, Wood BA, Karpinski BA, Sherwood CC, Wildman DE, Maynard TM, Bielawski JP. Functional Divergence of the Nuclear Receptor NR2C1 as a Modulator of Pluripotentiality During Hominid Evolution. Genetics. PMID 27075724 DOI: 10.1534/Genetics.115.183889 |
0.345 |
|
| 2016 |
Moore-Connors JM, Dunn KA, Bielawski JP, Van Limbergen J. Novel Strategies for Applied Metagenomics. Inflammatory Bowel Diseases. PMID 26848519 DOI: 10.1097/Mib.0000000000000717 |
0.306 |
|
| 2014 |
Shafiei M, Dunn KA, Chipman H, Gu H, Bielawski JP. BiomeNet: a Bayesian model for inference of metabolic divergence among microbial communities. Plos Computational Biology. 10: e1003918. PMID 25412107 DOI: 10.1371/Journal.Pcbi.1003918 |
0.302 |
|
| 2014 |
Yoder AD, Chan LM, dos Reis M, Larsen PA, Campbell CR, Rasoloarison R, Barrett M, Roos C, Kappeler P, Bielawski J, Yang Z. Molecular evolutionary characterization of a V1R subfamily unique to strepsirrhine primates. Genome Biology and Evolution. 6: 213-27. PMID 24398377 DOI: 10.1093/Gbe/Evu006 |
0.423 |
|
| 2014 |
Garvin MR, Bielawski JP, Sazanov LA, Gharrett AJ. Review and meta-analysis of natural selection in mitochondrial complex I in metazoans Journal of Zoological Systematics and Evolutionary Research. DOI: 10.1111/Jzs.12079 |
0.383 |
|
| 2013 |
Bay RA, Bielawski JP. Inference of functional divergence among proteins when the evolutionary process is non-stationary. Journal of Molecular Evolution. 76: 205-15. PMID 23443835 DOI: 10.1007/S00239-013-9549-0 |
0.388 |
|
| 2013 |
Dunn KA, Jiang W, Field C, Bielawski JP. Improving evolutionary models for mitochondrial protein data with site-class specific amino acid exchangeability matrices. Plos One. 8: e55816. PMID 23383286 DOI: 10.1371/Journal.Pone.0055816 |
0.353 |
|
| 2013 |
Bielawski JP. Detecting the signatures of adaptive evolution in protein-coding genes. Current Protocols in Molecular Biology / Edited by Frederick M. Ausubel ... [Et Al.]. Unit 19.1.. PMID 23288462 DOI: 10.1002/0471142727.Mb1901S101 |
0.42 |
|
| 2011 |
Bay RA, Bielawski JP. Recombination detection under evolutionary scenarios relevant to functional divergence. Journal of Molecular Evolution. 73: 273-86. PMID 22210457 DOI: 10.1007/S00239-011-9473-0 |
0.399 |
|
| 2011 |
Garvin MR, Bielawski JP, Gharrett AJ. Positive Darwinian selection in the piston that powers proton pumps in complex I of the mitochondria of Pacific salmon. Plos One. 6: e24127. PMID 21969854 DOI: 10.1371/Journal.Pone.0024127 |
0.378 |
|
| 2009 |
Dunn KA, Bielawski JP, Ward TJ, Urquhart C, Gu H. Reconciling ecological and genomic divergence among lineages of listeria under an "extended mosaic genome concept". Molecular Biology and Evolution. 26: 2605-15. PMID 19666992 DOI: 10.1093/Molbev/Msp176 |
0.399 |
|
| 2008 |
Sullivan MB, Coleman ML, Quinlivan V, Rosenkrantz JE, Defrancesco AS, Tan G, Fu R, Lee JA, Waterbury JB, Bielawski JP, Chisholm SW. Portal protein diversity and phage ecology. Environmental Microbiology. 10: 2810-23. PMID 18673386 DOI: 10.1111/J.1462-2920.2008.01702.X |
0.319 |
|
| 2008 |
Bao L, Gu H, Dunn KA, Bielawski JP. Likelihood-based clustering (LiBaC) for codon models, a method for grouping sites according to similarities in the underlying process of evolution. Molecular Biology and Evolution. 25: 1995-2007. PMID 18586695 DOI: 10.1093/Molbev/Msn145 |
0.394 |
|
| 2007 |
Anisimova M, Bielawski J, Dunn K, Yang Z. Phylogenomic analysis of natural selection pressure in Streptococcus genomes. Bmc Evolutionary Biology. 7: 154. PMID 17760998 DOI: 10.1186/1471-2148-7-154 |
0.374 |
|
| 2007 |
Bao L, Gu H, Dunn KA, Bielawski JP. Methods for selecting fixed-effect models for heterogeneous codon evolution, with comments on their application to gene and genome data. Bmc Evolutionary Biology. 7: S5. PMID 17288578 DOI: 10.1186/1471-2148-7-S1-S5 |
0.424 |
|
| 2006 |
Aguileta G, Bielawski JP, Yang Z. Proposed standard nomenclature for the alpha- and beta-globin gene families. Genes & Genetic Systems. 81: 367-71. PMID 17159299 DOI: 10.1266/Ggs.81.367 |
0.308 |
|
| 2006 |
Aguileta G, Bielawski JP, Yang Z. Evolutionary rate variation among vertebrate beta globin genes: implications for dating gene family duplication events. Gene. 380: 21-9. PMID 16843621 DOI: 10.1016/J.Gene.2006.04.019 |
0.386 |
|
| 2006 |
Sullivan MB, Lindell D, Lee JA, Thompson LR, Bielawski JP, Chisholm SW. Prevalence and evolution of core photosystem II genes in marine cyanobacterial viruses and their hosts. Plos Biology. 4: e234. PMID 16802857 DOI: 10.1371/Journal.Pbio.0040234 |
0.36 |
|
| 2006 |
Aris-Brosou S, Bielawski JP. Large-scale analyses of synonymous substitution rates can be sensitive to assumptions about the process of mutation. Gene. 378: 58-64. PMID 16797879 DOI: 10.1016/J.Gene.2006.04.024 |
0.381 |
|
| 2006 |
Popescu CE, Borza T, Bielawski JP, Lee RW. Evolutionary rates and expression level in Chlamydomonas. Genetics. 172: 1567-76. PMID 16361241 DOI: 10.1534/Genetics.105.047399 |
0.411 |
|
| 2005 |
Zeidner G, Bielawski JP, Shmoish M, Scanlan DJ, Sabehi G, Béjà O. Potential photosynthesis gene recombination between Prochlorococcus and Synechococcus via viral intermediates. Environmental Microbiology. 7: 1505-13. PMID 16156724 DOI: 10.1111/J.1462-2920.2005.00833.X |
0.373 |
|
| 2005 |
Shi P, Bielawski JP, Yang H, Zhang YP. Adaptive diversification of vomeronasal receptor 1 genes in rodents. Journal of Molecular Evolution. 60: 566-76. PMID 15983866 DOI: 10.1007/S00239-004-0172-Y |
0.36 |
|
| 2004 |
Aguileta G, Bielawski JP, Yang Z. Gene conversion and functional divergence in the beta-globin gene family. Journal of Molecular Evolution. 59: 177-89. PMID 15486692 DOI: 10.1007/S00239-004-2612-0 |
0.403 |
|
| 2004 |
Bielawski JP, Yang Z. A maximum likelihood method for detecting functional divergence at individual codon sites, with application to gene family evolution. Journal of Molecular Evolution. 59: 121-32. PMID 15383915 DOI: 10.1007/S00239-004-2597-8 |
0.413 |
|
| 2004 |
Murad L, Bielawski JP, Matyasek R, KovarÃk A, Nichols RA, Leitch AR, Lichtenstein CP. The origin and evolution of geminivirus-related DNA sequences in Nicotiana. Heredity. 92: 352-8. PMID 14985783 DOI: 10.1038/Sj.Hdy.6800431 |
0.318 |
|
| 2003 |
Yang W, Bielawski JP, Yang Z. Widespread adaptive evolution in the human immunodeficiency virus type 1 genome. Journal of Molecular Evolution. 57: 212-21. PMID 14562964 DOI: 10.1007/S00239-003-2467-9 |
0.375 |
|
| 2003 |
Sabehi G, Massana R, Bielawski JP, Rosenberg M, Delong EF, Béjà O. Novel Proteorhodopsin variants from the Mediterranean and Red Seas. Environmental Microbiology. 5: 842-9. PMID 14510837 DOI: 10.1046/J.1462-2920.2003.00493.X |
0.384 |
|
| 2003 |
Bielawski JP, Yang Z. Maximum likelihood methods for detecting adaptive evolution after gene duplication. Journal of Structural and Functional Genomics. 3: 201-12. PMID 12836699 DOI: 10.1007/978-94-010-0263-9_20 |
0.404 |
|
| 2002 |
Bielawski JP, Gold JR. Mutation patterns of mitochondrial H- and L-strand DNA in closely related Cyprinid fishes. Genetics. 161: 1589-97. PMID 12583346 |
0.451 |
|
| 2002 |
Ward TJ, Bielawski JP, Kistler HC, Sullivan E, O'Donnell K. Ancestral polymorphism and adaptive evolution in the trichothecene mycotoxin gene cluster of phytopathogenic Fusarium. Proceedings of the National Academy of Sciences of the United States of America. 99: 9278-83. PMID 12080147 DOI: 10.1073/Pnas.142307199 |
0.39 |
|
| 2002 |
Anisimova M, Bielawski JP, Yang Z. Accuracy and power of bayes prediction of amino acid sites under positive selection. Molecular Biology and Evolution. 19: 950-8. PMID 12032251 DOI: 10.1093/Oxfordjournals.Molbev.A004152 |
0.356 |
|
| 2002 |
Bielawski JP, Brault A, Gold JR. Phylogenetic relationships within the genus Pimephales as inferred from ND4 and ND4L nucleotide sequences Journal of Fish Biology. 61: 293-297. DOI: 10.1111/J.1095-8649.2002.Tb01754.X |
0.545 |
|
| 2001 |
Anisimova M, Bielawski JP, Yang Z. Accuracy and power of the likelihood ratio test in detecting adaptive molecular evolution Molecular Biology and Evolution. 18: 1585-1592. PMID 11470850 DOI: 10.1093/Oxfordjournals.Molbev.A003945 |
0.369 |
|
| 2001 |
Bielawski JP, Yang Z. Positive and negative selection in the DAZ gene family Molecular Biology and Evolution. 18: 523-529. PMID 11264403 DOI: 10.1093/Oxfordjournals.Molbev.A003831 |
0.409 |
|
| 2001 |
Bielawski JP, Gold JR. Phylogenetic relationships of cyprinid fishes in subgenus Notropis inferred from nucleotide sequences of the mitochondrially encoded cytochrome b gene Copeia. 656-667. DOI: 10.1643/0045-8511(2001)001[0656:Procfi]2.0.Co;2 |
0.385 |
|
| 2001 |
Bielawski JP, Gold JR. Phylogenetic Relationships of Cyprinid Fishes in SubgenusNotropisInferred from Nucleotide Sequences of the Mitochondrially Encoded CytochromebGene Copeia. 2001: 656-667. DOI: 10.1643/0045-8511(2001)001[0656:PROCFI]2.0.CO;2 |
0.461 |
|
| 1999 |
Ward TJ, Bielawski JP, Davis SK, Templeton JW, Derr JN. Identification of domestic cattle hybrids in wild cattle and bison species: A general approach using mtDNA markers and the parametric bootstrap Animal Conservation. 2: 51-57. DOI: 10.1111/J.1469-1795.1999.Tb00048.X |
0.3 |
|
| 1998 |
Schmidt TR, Bielawski JP, Gold JR. Molecular Phylogenetics and Evolution of the Cytochrome b Gene in the Cyprinid Genus Lythrurus (Actinopterygii: Cypriniformes) Copeia. 1998: 14. DOI: 10.2307/1447697 |
0.467 |
|
| 1996 |
Bielawski JP, Gold JR. Unequal synonymous substitution rates within and between two protein-coding mitochondrial genes. Molecular Biology and Evolution. 13: 889-92. PMID 8754224 DOI: 10.1093/Oxfordjournals.Molbev.A025649 |
0.573 |
|
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