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Peer-reviewed journal articles

Collectively cited >330 times. H-index: 11 (Google Scholar), 10 (ISI). Updated 13 May 2013.

[2013]

  • Bhattacharya D, Price DC, Chan CX, Qiu H, Rose N, Ball S, Weber APM, Arias MC, Henrissat B, Coutinho PM, Krishnan A, Zäuner S, Morath S, Hilliou F, Egizi A, Perrineau MM and Yoon HS (2013). Genome of the red alga Porphyridium purpureum. Nature Communications, accepted 26 April.
  • Chan CX, Mahbob M and Ragan MA (2013). Clustering evolving proteins into homologous families. BMC Bioinformatics 14: 120. • DOI • PubMed • PDF •
  • Chan CX (2013). Phylogenomics of marine algae. Malaysian Journal of Science, accepted 5 February. Invited; special issue.
  • Chan CX and Ragan MA (2013). Next-generation phylogenomics. Biology Direct 8: 3. • DOI • PubMed • PDF •

[2012]

  • Chan CX, Blouin NA, Zhuang Y, Zäuner S, Prochnik SE, Lindquist E, Lin S, Benning C, Lohr M, Yarish C, Gantt E, Grossman AR, Lu S, Müller K, Stiller J, Brawley SH and Bhattacharya D (2012). Porphyra (Bangiophyceae) transcriptomes provide insights into red algal development and metabolism. Journal of Phycology 48(6): 1328-1342. • DOI • PDF • Data Site •
  • Chan CX, Soares MB, Bonaldo MF, Wisecaver JH, Hackett JD, Anderson DM, Erdner DL and Bhattacharya D (2012). Analysis of Alexandrium tamarense (Dinophyceae) genes reveals the complex evolutionary history of a microbial eukaryote. Journal of Phycology 48(5): 1130-1142. • DOI • PubMed • PDF • Supp Info •
  • Stiller JW, Perry J, Rymarquis LA, Accerbi M, Green PJ, Prochnik S, Lindquist E, Chan CX, Yarish C, Lin S, Zhuang Y, Blouin NA and Brawley SH (2012). Major developmental regulators and their expression in two closely related species of Porphyra (Rhodophyta). Journal of Phycology 48(4): 883-896. • DOI • PDF •
  • Chan CX, Bhattacharya D and Reyes-Prieto A (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 • PubMed • PDF •

    Highlight: Ellerton E (2012) In this issue of Mobile Genetic Elements 2(2): 65-66. • DOI
  • Chan CX, Zäuner S, Wheeler GL, Grossman AR, Prochnik SE, Blouin NA, Zhuang Y, Benning C, Berg GM, Yarish C, Eriksen RL, Klein AS, Lin S, Levine I, Brawley SH and Bhattacharya D (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 • PubMed • PDF • Supp Info •

    Highlight: Minorsky PV (2012). On the Inside. Plant Physiology 158(4): 1485-1486. • DOI
  • Price DC, Chan CX, Yoon HS, Yang EC, Qiu H, Weber AP, Schwacke R, Gross J, Blouin NA, Lane C, Reyes-Prieto A, Durnford DG, Neilson JAD, Lang BF, Burger G, Steiner JM, Löffelhardt W, Meuser JE, Posewitz MC, Ball S, Arias MC, Henrissat B, Coutinho PM, Rensing SA, Symeonidi A, Doddapaneni H, Green BR, Rajah VD, Boore J and Bhattacharya D (2012). Cyanophora paradoxa genome elucidates origin of photosynthesis in algae and plants. Science 335(6070): 843-847. • DOI • PubMed • PDF • Data Site •

    Commentary/media coverage:
    • Tsai IJ (2012) The first green revolution. Nature Reviews Microbiology 10:314. • DOI
    • Spiegel FW (2012) Contemplating the first Plantae. Science 335(6070):809-810. • DOI
    • Beillo D (2012) How the first plant came to be. Scientific American • also in Nature News
    • Origin of Photosynthesis Revealed by a 'Living Fossil'. ScienceDaily.com
    • Plants may have a single ancestor. PhysOrg.com
    • The origin of photosynthesis revealed Rutgers News
    • Biologist sketches common ancestor of plants and algae. ts-si.org
    • Neue Erkenntnisse über Photosynthese: Forscher entschlüsseln Genom eines lebenden Fossils [GER] uni-protokolle.de
    • Die allererste Pflanze ging aus einzigartiger Vereinigung hervor [GER] derSrandard.at
    • Der Urahn aller Pflanzen. [GER] Science.ORF.at
    • Descubren el primer antepasado común de las plantas y las algas. [ESP] Lukor.com
    • 十六亿年前地理环境-造就地球光合植物诞生 [CHI] 腾讯科技 (tech.qq.com)

[2011]

  • Chan CX, Reyes-Prieto A and Bhattacharya D (2011). Red and green algal origin of diatom membrane transporters: insights into environmental adaptation and cell evolution. PLoS ONE 6(12): e29138. • DOI • PubMed • PDF • Supp Info •
  • Chan CX, Beiko RG and Ragan MA (2011). Lateral transfer of genes and gene fragments in Staphylococcus extends beyond mobile elements. Journal of Bacteriology 193(15): 3964-3977. • DOI • PubMed • PDF • Data Site •
  • Chan CX and Bhattacharya D (2011). Non-random sharing of Plantae genes. Communicative and Integrative Biology 4(3): 361-363. • DOI • PubMed • PDF
  • Chan CX, Gross J, Yoon HS and Bhattacharya D (2011). Plastid origin and evolution: new models provide insights into old problems. Plant Physiology 155(4): 1552-1560. • DOI • PubMed • PDF •
  • Chan CX, Yang EC, Banerjee T, Yoon HS, Martone PT, Estevez JM and Bhattacharya D (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 • PubMed • PDF • Supp Info •

    Commentary/media coverage:
    • Dorrell RG and Smith AG (2012). Do red and green make brown? Perspectives on plastid acquisitions within chromalveolates Eukaryotic Cell 10(7):856-868. • DOI
    • What do red algae and green algae have in common? Rutgers News
    • Red and green algae: separated at birth Futurity.org
    • The similarities in red, green algae. PhysOrg.com

[2009]

  • Chan CX, Beiko RG, Darling AE and Ragan MA (2009). Lateral transfer of genes and gene fragments in prokaryotes. Genome Biology and Evolution 1:429-438. • DOI • PubMed • PDF •
  • Chan CX, Darling AE, Beiko RG and Ragan MA (2009). Are protein domains modules of lateral genetic transfer? PLoS ONE 4(2): e4524. • DOI • PubMed • PDF •

[2007]

  • Chan CX, Beiko RG and Ragan MA (2007). A two-phase strategy for detecting recombination in nucleotide sequences. South African Computer Journal 38: 20-27. • link • PDF •

[2006]

  • Chan CX, Beiko RG and Ragan MA (2006). Detecting recombination in evolving nucleotide sequences. BMC Bioinformatics 7:412. • DOI • PubMed • PDF •
  • Chan CX, Ho CL and Phang SM (2006). Trends in seaweed research. Trends in Plant Science 11(4): 165-166. • DOI • PubMed • PDF •

[2005]

  • Beiko RG, Chan CX and Ragan MA (2005). A word-oriented approach to alignment validation. Bioinformatics 21(10): 2230-2239. • DOI • PubMed • PDF •
  • Phang SM, Wong CL, Lim PE, Yeong HY and Chan CX (2005). Seaweed diversity of the Langkawi Islands with emphasis on the northeastern region. Malaysian Journal of Science 24(3 Sp Issue): 77-94. • www • PDF •

[2004]

  • Chan CX (2004). Comparing different approaches in large-scale seaweed gene discovery. Bioinformatics India 2(3): 106-111. • PDF •
  • Chan CX, Teo SS, Ho CL, Othman RY and Phang SM (2004). Optimisation of RNA extraction from Gracilaria changii (Gracilariales, Rhodophyta). Journal of Applied Phycology 16(4): 297-301. • DOI • PubMed • PDF •
Scholarly book chapters

[2013]

  • Bhattacharya D, Price DC, Chan CX, Gross J, Steiner JM and Löffelhardt W (2013) Analysis of the genome Cyanophora paradoxa: an algal model for understanding primary endosymbiosis. In: Löffelhardt W (ed.) Endosymbiosis. Vienna: Springer, ISBN 978-3-7091-1302-8. In press, due October 2013. • DOI •

[2010]

  • Gantt E, Berg GM, Bhattacharya D, Blouin NA, Brodie JA, Chan CX, Collén J, Cunningham FX, Gross J, Grossman AR, Karpowicz S, Kitade Y, Klein AS, Levine IA, Lin S, Lu S, Lynch M, Minocha SC, Müller K, Neefus CD, de Oliveira MC, Rymarquis L, Smith A, Stiller JW, Wu WK, Yarish C, Zhuang YY and Brawley SH (2010). Porphyra: complex life histories in a harsh environment. In: Seckbach J and Chapman D (eds.) Cellular Origins, Life in Extreme Habitats and Astrobiology, Vol 13: Red Algae in the Genomic Age. New York: Springer, ISBN 978-90-481-3794-7. p129-148. • DOI •

[2004]

  • Chan CX, Ho CL, Othman RY and Phang SM (2004). Optimisation of RNA extraction for Gracilaria changii (Gracilariales, Rhodophyta). In: Phang SM, Chong VC, Ho SC, Mokhtar N, Ooi JLS (eds.) Marine Science into the New Millenium: New Perspectives and Challenges. Kuala Lumpur: University of Malaya Maritime Research Centre. pp. 477-487.
Conference proceedings/abstracts

[2012]

  • Chan CX and Martone PT (2012). Recent advances in the Calliarthron genome: climate responses and cell wall evolution. Journal of Phycology 48: S1-S2. • Proceedings of the Annual Meeting of the Phycological Society of America 2012 • Complete PDF •
  • Gross J, Wajid S, Price D, Chan CX and Bhattacharya D (2012). sRNAs of Cyanophora paradoxa and Chlamydomonas reinhardtii, a system genomics approach to understand algal evolution. Journal of Phycology 48: S20. • Proceedings of the Annual Meeting of the Phycological Society of America 2012 • Complete PDF •

[2008]

  • Moustafa A*, Chan CX*, Danforth M, Zear D, Ahmed H, Jadhav N, Savage T and Bhattacharya D (2008). A phylogenomic approach for studying plastid endosymbiosis. Genome Informatics 21: 165-176. (*equal contribution) • PubMed • PDF •
  • Chan CX, Beiko RG and Ragan MA (2008). Large-scale detection of recombination in nucleotide sequences. Proceedings of the International Conference on Mathematical Biology. AIP Conference Proceedings 971(1): 101-104. • DOI • PDF •

[2007]

  • Chan CX, Beiko RG and Ragan MA (2007). A two-phase approach for detecting recombination in nucleotide sequences. Proceedings of the 1st Southern African Bioinformatics Workshop, 28-30 January, Johannesburg. pp. 9-16. • Repository • PDF •
Other peer-reviewed articles

[2011]

[2010]

  • Chan CX and Bhattacharya D (2010). The origin of plastids. Nature Education 3(9):84. • Web • PDF •
Thesis/dissertation

[2008]

  • Chan CX (2008). Units of genetic transfer in prokaryotes. Brisbane: The University of Queensland. Ph.D. Thesis • Access via UQ eSpace •

[2003]

  • Chan CX (2003). Generation of expressed sequence tags from a Malaysian red seaweed, Gracilaria changii (Gracilariales, Rhodophyta). Kuala Lumpur: University of Malaya. M.Phil. Dissertation (with distinction) • PDF •

[2001]

  • Chan CX (2001). Pengoptimuman penghasilan enzim siklomaltodekstrin glukanotransferase dan pemencilan DNA genomik daripada bakteria alkalofilik G1. Skudai Johor: Universiti Teknologi Malaysia. B.Sc. Hons. Thesis


©2013 Cheong Xin Chan
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