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2013 Journal Article Biological intuition in alignment-free methods: response to PosadaRagan, Mark A. and Chan, Cheong Xin (2013). Biological intuition in alignment-free methods: response to Posada. Journal of Molecular Evolution, 77 (1-2), 1-2. doi: 10.1007/s00239-013-9573-0 |
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2013 Journal Article Evidence for widespread exonic small RNAs in the glaucophyte alga Cyanophora paradoxaGross, Jeferson, Wajid, Sana, Price, Dana C., Zelzion, Ehud, Li, Junyi, Chan, Cheong Xin and Bhattacharya, Debashish (2013). Evidence for widespread exonic small RNAs in the glaucophyte alga Cyanophora paradoxa. PLoS One, 8 (7) e67669, 67669.1-67669.9. doi: 10.1371/journal.pone.0067669 |
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2013 Journal Article Genome of the red alga Porphyridium purpureumBhattacharya, Debashish, Price, Dana C., Chan, Cheong Xin, Qiu, Huan, Rose, Nicholas, Ball, Steven, Weber, Andreas P. M., Arias, Maria Cecilia, Henrissat, Bernard, Coutinho, Pedro M., Krishnan, Anagha, Zaeuner, Simone, Morath, Shannon, Hilliou, Frederique, Egizi, Andrea, Perrineau, Marie-Mathilde and Yoon, Hwan Su (2013). Genome of the red alga Porphyridium purpureum. Nature Communications, 4 (1) 2931, 1941.1-1941.10. doi: 10.1038/ncomms2931 |
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2013 Journal Article Clustering evolving proteins into homologous familiesChan, Cheong Xin, Mahbob, Maisarah and Ragan, Mark A. (2013). Clustering evolving proteins into homologous families. BMC Bioinformatics, 14 (1) 120, 120.1-120.11. doi: 10.1186/1471-2105-14-120 |
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2013 Journal Article Next-generation phylogenomicsChan, Cheong Xin and Ragan, Mark A. (2013). Next-generation phylogenomics. Biology Direct, 8 (1) 3, 3.1-3.14. doi: 10.1186/1745-6150-8-3 |
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2013 Journal Article Phylogenomics of marine algaeChan, C. X. (2013). Phylogenomics of marine algae. Malaysian Journal of Science, 32 (SPEC. ISS.), 11-18. doi: 10.22452/mjs.vol32no3.2 |
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2012 Journal Article Porphyra (Bangiophyceae) transcriptomes provide insights into red algal development and metabolismChan, Cheong Xin, Blouin, Nicolas A., Zhuang, Yunyun, Zaeuner, Simone, Prochnik, Simon E., Lindquist, Erika, Lin, Senjie, Benning, Christoph, Lohr, Martin, Yarish, Charles, Gantt, Elisabeth, Grossman, Arthur R., Lu, Shan, Mueller, Kirsten, Stiller, John W., Brawley, Susan H. and Bhattacharya, Debashish (2012). Porphyra (Bangiophyceae) transcriptomes provide insights into red algal development and metabolism. Journal of Phycology, 48 (6), 1328-1342. doi: 10.1111/j.1529-8817.2012.01229.x |
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2012 Journal Article Analysis of Alexandrium tamarense (Dinophyceae) genes reveals the complex evolutionary history of a microbial eukaryoteChan, Cheong Xin, Soares, Marcelo B., Bonaldo, Maria F., Wisecaver, Jennifer H., Hackett, Jeremiah D., Anderson, Donald M., Erdner, Deana L. and Bhattacharya, Debashish (2012). Analysis of Alexandrium tamarense (Dinophyceae) genes reveals the complex evolutionary history of a microbial eukaryote. Journal of Phycology, 48 (5), 1130-1142. doi: 10.1111/j.1529-8817.2012.01194.x |
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2012 Journal Article Major developmental regulators and their expression in two closely related species of Porphyra (Rhodophyta)Stiller, John W., Perry, Justin, Rymarquis, Linda A., Accerbi, Monica, Green, Pamela J., Prochnik, Simon, Lindquist, Erika, Chan, Cheong Xin, Yarish, Charles, Lin, Senjie, Zhuang, Yunyun, Blouin, Nicolas A. and Brawley, Susan H. (2012). Major developmental regulators and their expression in two closely related species of Porphyra (Rhodophyta). Journal of Phycology, 48 (4), 883-896. doi: 10.1111/j.1529-8817.2012.01138.x |
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2012 Journal Article Analysis of Porphyra membrane transporters demonstrates gene transfer among photosynthetic eukaryotes and numerous sodium-coupled transport systemsChan, Cheong Xin, Zauner, Simone, Wheeler, Glen, Grossman, Arthur R., Prochnik, Simon E., Blouin, Nicolas A., Zhuang, Yunyun, Benning, Christoph, Berg, Gry Mine, Yarish, Charles, Eriksen, Renee L., Klein, Anita S., Lin, Senjie, Levine, Ira, Brawley, Susan H. and Bhattacharya, Debashish (2012). Analysis of Porphyra membrane transporters demonstrates gene transfer among photosynthetic eukaryotes and numerous sodium-coupled transport systems. Plant Physiology, 158 (4), 2001-2012. doi: 10.1104/pp.112.193896 |
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2012 Journal Article Endosymbiotic and horizontal gene transfer in microbial eukaryotes: impacts on cell evolution and the tree of lifeChan, Cheong Xin, Bhattacharya, Debashish and Reyes-Prieto, Adrian (2012). Endosymbiotic and horizontal gene transfer in microbial eukaryotes: impacts on cell evolution and the tree of life. Mobile Genetic Elements, 2 (2), 101-105. doi: 10.4161/mge.20110 |
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2012 Journal Article Cyanophora paradoxa genome elucidates origin of photosynthesis in algae and plantsPrice, Dana C., Chan, Cheong Xin, Yoon, Hwan Su, Yang, Eun Chan, Qiu, Huan, Weber, Andreas P. M., Schwacke, Rainer, Gross, Jeferson, Blouin, Nicolas A., Lane, Chris, Reyes-Prieto, Adrian, Durnford, Dion G., Neilson, Jonathan A. D., Lang, B. Franz, Burger, Gertraud, Steiner, Jurgen M., Loffelhardt, Wolfgang, Meuser, Jonathan E., Posewitz, Matthew C., Ball, Steven, Arias, Maria Cecilia, Henrissat, Bernard, Coutinho, Pedro M., Rensing, Stefan A., Symeonidi, Aikaterini, Doddapaneni, Harshavardhan, Green, Beverley R., Rajah, Veeran D., Boore, Jeffrey and Bhattacharya, Debashish (2012). Cyanophora paradoxa genome elucidates origin of photosynthesis in algae and plants. Science, 335 (6070), 843-847. doi: 10.1126/science.1213561 |
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2011 Journal Article Red and green algal origin of diatom membrane transporters: Insights into environmental adaptation and cell evolutionChan, Cheong Xin, Reyes-Prieto, Adrian and Bhattacharya, Debashish (2011). Red and green algal origin of diatom membrane transporters: Insights into environmental adaptation and cell evolution. PLoS One, 6 (12) e29138, e29138.1-e29138.11. doi: 10.1371/journal.pone.0029138 |
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2011 Journal Article Lateral transfer of genes and gene fragments in Staphylococcus extends beyond mobile elementsChan, Cheong Xin, Beiko, Robert G. and Ragan, Mark A. (2011). Lateral transfer of genes and gene fragments in Staphylococcus extends beyond mobile elements. Journal of Bacteriology, 193 (15), 3964-3977. doi: 10.1128/JB.01524-10 |
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2011 Journal Article Non-random sharing of plantae genesChan, Cheong Xin and Bhattacharya, Debashish (2011). Non-random sharing of plantae genes. Communicative and Integrative Biology, 4 (3), 361-363. doi: 10.4161/cib.4.3.15700 |
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2011 Journal Article Plastid origin and evolution: New models provide insights into old problemsChan, Cheong Xin, Gross, Jeferson, Yoon, Hwan Su and Bhattacharya, Debashish (2011). Plastid origin and evolution: New models provide insights into old problems. Plant Physiology, 155 (4), 1552-1560. doi: 10.1104/pp.111.173500 |
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2011 Journal Article Red and green algal monophyly and extensive gene sharing found in a rich repertoire of red algal genesChan, Cheong Xin, Yang, Chan Yang, Banerjee, Titas, Yoon, Hwan Su, Martone, Patrick T., Estevez, Jose M. and Bhattacharya, Debashish (2011). Red and green algal monophyly and extensive gene sharing found in a rich repertoire of red algal genes. Current Biology, 21 (4), 328-333. doi: 10.1016/j.cub.2011.01.037 |
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2010 Journal Article The origin of plastidsChan, Cheong Xin and Bhattacharya, Debashish (2010). The origin of plastids. Nature Education, 3 (9), 84-1-84-5. |
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2009 Journal Article Lateral transfer of genes and gene fragments in prokaryotesChan, Cheong Xin, Beiko, Robert G., Darling, Aaron E. and Ragan, Mark A. (2009). Lateral transfer of genes and gene fragments in prokaryotes. Genome Biology and Evolution, 1, 429-438. doi: 10.1093/gbe/evp044 |
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2009 Journal Article Are protein domains modules of lateral genetic transfer?Chan, Cheong Xin, Darling, Aaron E., Beiko, Robert G. and Ragan, Mark A. (2009). Are protein domains modules of lateral genetic transfer?. PLoS One, 4 (2) e4524, e4524.1-e4524.8. doi: 10.1371/journal.pone.0004524 |
