POInT _Browse Citations

To cite the browser itself, use:

Siddiqui, M. and G. C. Conant. (2023) POInT_browse: Orthology prediction and synteny exploration for paleopolyploid genomes. BMC Bioinformatics, 24: 174. [Reprint]

To cite the POInT computation, please cite one or both of:

Emery, M., M. M. S. Willis, Y. Hao, K. Barry, K. Oakgrove, Y. Peng, J. Schmutz, E. Lyons, J. C. Pires, P. P. Edger, and G. C. Conant. 2018. Preferential retention of genes from one parental genome after polyploidy illustrates the nature and scope of the genomic conflicts induced by hybridization. PLoS Genetics 14: e1007267. [Article Online][Reprint]

Conant, G. C. and K. H. Wolfe. (2008) Probabilistic cross-species inference of orthologous genomic regions created by whole-genome duplication in yeast, Genetics 179: 1681-1692. [Reprint]

Citing particular datasets:

• At-Alpha&Grass Rho:
• Emery, M., M. M. S. Willis, Y. Hao, K. Barry, K. Oakgrove, Y. Peng, J. Schmutz, E. Lyons, J. C. Pires, P. P. Edger, and G. C. Conant. 2018. Preferential retention of genes from one parental genome after polyploidy illustrates the nature and scope of the genomic conflicts induced by hybridization. PLoS Genetics 14: e1007267. [Article Online][Reprint]
• Brassica Hexaploidy:
• Hao Y, M. E. Mabry, P. Edger, M. Freeling, C. Zheng, L. Jin, R. VanBuren, M. Colle, H. An, R. S. Abrahams, J. D. Washburn, X. Qi, K. Barry, C. Daum, S. Shu, J. Schmutz, D. Sankoff, M. S. Barker, E. Lyons, J. C. Pires and G. C. Conant (2021) The contributions of the allopolyploid parents of the mesopolyploid Brassiceae are evolutionarily distinct but functionally compatible. Genome Research 31: 799-810 [Reprint][Article Online]
• Legume WGD/Paramecium WGD/Salmon WGD:
• Hao, Y., J. Fleming, J. Petterson, E. Lyons, P. P. Edger, J. C. Pires, J. L. Thorne, and G. C. Conant. (2022) Convergent evolution of polyploid genomes from across the eukaryotic tree of life. G3: Genes, Genomes, Genetics,, online ahead of print. [Preprint][Article Online]
• Nematode Triploidy:
• Schoonmaker, A., Y. Hao, D. M. McK Bird and G C. Conant. (2020) A single, shared triploidy in three species of parasitic nematodes. G3: Genes, Genomes, Genetics, 10: 225-233 [Reprint][Article Online].
• Solanaceae Hexaploidy:
• McRae, L., A. Beric and G. C. Conant. (2022) Hybridization order is not the driving factor behind biases in duplicate gene losses among the hexaploid Solanaceae. Proceedings of the Royal Society, Biological Sciences, 289: 20221810. [Reprint][Article Online]
• Teleost WGD:
• Conant, G. C. (2020) The lasting after-effects of an ancient polyploidy on the genomes of teleosts. PLoS ONE, 15: e0231356. [Reprint][Article Online]
• Yeast WGD:
• Conant, G. C. and K. H. Wolfe. (2008) Probabilistic cross-species inference of orthologous genomic regions created by whole-genome duplication in yeast, Genetics 179: 1681-1692. [Reprint]
• G. C. Conant. (2014) Comparative genomics as a time machine: How relative gene dosage and metabolic requirements shaped the time-dependent resolution of yeast polyploidy, Molecular Biology and Evolution, 31: 3184-3193. [Reprint]