Journal articles

Accepted / In Press

Massive genome reduction predates the divergence of Symbiodiniaceae dinoflagellates
Shah S, Dougan KE, Chen Y, Lo R, Laird G, Fortuin MDA, Rai SK, Murigneux V, Bellantuono AJ, Rodriguez-Lanetty M, Bhattacharya D, Chan CX
The ISME Journal. Accepted 8 April 2024.



Contaminant or goldmine? In silico assessment of Symbiodiniaceae community using coral hologenomes
Ishida H, Riginos C, Chan CX
2024. Frontiers in Protistology. 2: 1376877. DOIPDF


Genome-wide transcriptome analysis reveals the diversity and function of long non-coding RNAs in dinoflagellates
Chen Y, Dougan KE, Nguyen Q, Bhattacharya D, Chan CX
2024. NAR Genomics and Bioinformatics. 6: lqae016. DOIPubMedPDF


Facultative lifestyle drives diversity of coral algal symbionts
Bhattacharya D, Stephens TG, Chille EE, Benites LF, Chan CX
2024. Trends in Ecology and Evolution. 39: 239-247. DOIPubMedPDF



Multi-omics analysis reveals the molecular response to heat stress in a “red tide” dinoflagellate
Dougan KE*, Deng ZL*, Wöhlbrand L*, Reuse C*, Bunk B, Chen Y, Hartlich J, Hiller K, John U, Kalvelage J, Mansky J, Neumann-Schaal M, Overmann J, Petersen J, Sanchez-Garcia S, Schmidt-Hohagen K, Shah S, Spröer C, Sztajer H, Wang H, Bhattacharya D, Rabus R, Jahn D, Chan CX^, Wagner-Döbler I^
*: these authors contribute equally; ^: senior corresponding authors
2023. Genome Biology. 24: 265. DOIPDF


Developing model systems for dinoflagellates in the post-genomic era
Ishida H, John U, Murray MA, Bhattacharya D, Chan CX
2023. Journal of Phycology. 59: 799-808. DOIPubMedPDF


Gene duplication is the primary driver of intraspecific genomic divergence in coral algal symbionts
Shah S, Dougan KE, Chen Y, Bhattacharya D, Chan CX
2023. Open Biology. 13: 230182. DOIPubMedPDF


In vivo structure probing of RNA in Archaea: novel insights into the ribosome structure of Methanosarcina acetivorans
Williams AM, Jolley E, Santiago-Martí­nez MG, Chan CX, Gutell R, Ferry JG, Bevilacqua PC
2023. RNA. 29: 1610-1620. DOIPubMedPDF


Building consensus around the assessment and interpretation of Symbiodiniaceae diversity
Davies SW, Gamache MH, Howe-Kerr LI, Kriefall NG, Baker AC, Banaszak AT, Bay LK, Bellantuono AJ, Bhattacharya D, Chan CX, Claar DC, Coffroth MA, Cunning R, Davy SK, del Campo J, Díaz-Almeyda EM, Frommlet JC, Fuess LE, González-Pech RA, Goulet TL, Hoadley KD, Howells EJ, Hume BCC, Kemp DW, Kenkel CD, Kitchen SA, LaJeunesse TC, Lin S, McIlroy SE, McMinds R, Nitschke MR, Oakley CA, Peixoto RS, Prada C, Putnam HM, Quigley KM, Reich HG, Reimer JD, Rodriguez-Lanetty M, Rosales SM, Saad OS, Sampayo EM, Santos SR, Shoguchi E, Smith EG, Stat M, Stephens TG, Strader ME, Suggett DJ, Swain TD, Tran C, Traylor-Knowles N, Voolstra CR, Warner ME, Weis VM, Wright RM, Xiang T, Yamashita H, Ziegler M, Correa AMS, Parkinson JE
2023. PeerJ 11: e15023. DOIPubMedPDF


Micro‑analytical and molecular approaches for understanding the distribution, biochemistry, and molecular biology of selenium in (hyperaccumulator) plants
Pinto Irish K, Harvey MA, Harris HH, Aarts MGM, Chan CX, Erskine PD, van der Ent A
2023. Planta 257: 2. DOIPubMedPDF



Evolutionary responses of a reef-building coral to climate change at the end of the last glacial maximum
Zhang J, Richards ZT, Adam AAS, Chan CX, Shinzato C, Gilmour J, Thomas L, Strugnell JM, Miller DJ, Cooke I
2022. Molecular Biology and Evolution 39: msac201. DOIPubMedPDF


Improved Cladocopium goreaui genome assembly reveals features of a facultative coral symbiont and the complex evolutionary history of dinoflagellate genes
Chen Y, Shah S, Dougan KE, van Oppen MJH, Bhattacharya D, Chan CX
2022. Microorganisms 10: 1662. • DOIPubMedPDF


Genome-powered classification of microbial eukaryotes: focus on coral algal symbionts
Dougan KE, González-Pech RA, Stephens TG, Shah S, Chen Y, Ragan MA, Bhattacharya D, Chan CX
Trends in Microbiology • 30: 831-840 • DOIPubMedPDF (accepted manuscript)


Transcriptome of the coralline alga Calliarthron tuberculosum (Corallinales, Rhodophyta) reveals convergent evolution of a partial lignin biosynthesis pathway
Xue JY, Hind K, Lemay MA, Mcminigal A, Jourdain E, Chan CX, Martone PT
2022. PLoS ONE 17: e0266892. • DOIPubMedPDF


Genome-guided analysis of seven weed species reveals conserved sequence and structural features of key gene targets for herbicide development
Shah S, Lonhienne T, Murray CE, Chen Y, Dougan KE, Low YS, Williams CM, Schenk G, Walter GH, Guddat LW, Chan CX
2022. Frontiers in Plant Science • 13: 909073. • DOIPubMedPDF


Alignment-free analysis of whole-genome sequences from Symbiodiniaceae reveals differential phylogenetic signals in distinct regions
Lo R, Dougan KE, Chen Y, Shah S, Bhattacharya D, Chan CX
2022. Frontiers in Plant Science • 13: 815714 • DOIPubMedPDF


Nuclear genome of a pedinophyte pinpoints genomic innovation and streamlining in the green algae
Repetti S, Iha C, Uthanumallian K, Jackson C, Chen Y, Chan CX, Verbruggen H
2022. New Phytologist • 233: 2144–2154. • DOIPubMedPDF


Tightly constrained genome reduction and relaxation of purifying selection during secondary plastid endosymbiosis
Uthanumallian K, Iha C, Repetti SI, Chan CX, Bhattacharya D, Duchene S, Verbruggen H
2022. Molecular Biology and Evolution • 39(1): msab295. • DOIPubMedPDF



Consensus guidelines for advancing coral holobiont genome and specimen voucher deposition
Voolstra CR, Quigley KM, Davies SW, Parkinson JE, Peixoto RS, Aranda M, Baker AC, Barno AR, Barshis DJ, Benzoni F, Bonito V, Bourne DG, Buitrago-López C, Bridge TCL, Chan CX, Combosch DJ, Craggs J, Frommlet JC, Herrera S, Quattrini AM, Röthig T, Reimer JD, Rubio-Portillo E, Suggett DJ, Villela H, Ziegler M, Sweet M
2021. Frontiers in Marine Science • 8: 701784 • DOIPDF


Comparative genomics supports that Brazilian bioethanol Saccharomyces cerevisiae comprise a unified group of domesticated strains related to cachaça spirit yeasts
Jacobus AP, Stephens TG, Youssef P, González-Pech RA, Ciccotosto-Camp MM, Dougan KE, Chen Y, Basso LC, Frazzon J, Chan CX, Gross J
2021. Frontiers in Microbiology • 12: 644089. • DOIPubMedPDF


Comparison of 15 dinoflagellate genomes reveals extensive sequence and structural divergence in family Symbiodiniaceae and genus Symbiodinium
González-Pech RA, Stephens TG, Chen Y, Mohamed AR, Cheng Y, Shah S, Dougan KE, Fortuin MDA, Lagorce R, Burt DW, Bhattacharya D, Ragan MA, Chan CX
2021. BMC Biology • 19: 73. • DOIPubMedPDF


Genomic adaptations to an endolithic lifestyle in the coral-associated alga Ostreobium
Iha C, Dougan KE, Varela JA, Avila V, Jackson CJ, Bogaert KA, Chen Y, Judd LM, Wick R, Holt KE, Pasella MM, Ricci F, Repetti SI, Medina M, Marcelino VR, Chan CX, Verbruggen H
2021. Current Biology • 31(7): 1393-1402 • DOIPubMed



Dual RNA-seq analyses of a coral and its native symbiont during the establishment of symbiosis
Mohamed AR, Andrade N, Moya A, Chan CX, Negri A, Bourne DG, Ying H, Ball EE, Miller DJ
2020. Molecular Ecology • 29: 3921-3937. • DOIPubMed


Comparative transcriptomic analyses of Chromera and Symbiodiniaceae
Mohamed AR, Chan CX, Ragan MA, Zhang J, Cooke I, Ball EE, Miller DJ
2020. Environmental Microbiology Reports • 12: 435-443. • DOIPubMedPDF


Sex in Symbiodiniaceae dinoflagellates: genomic evidence for independent loss of the canonical synaptonemal complex
Shah S, Chen Y, Bhattacharya D, Chan CX
2020. Scientific Reports • 10: 9792. DOIPubMedPDF

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Genomes of the dinoflagellate Polarella glacialis encode tandemly repeated single-exon genes with adaptive functions
Stephens TG, González-Pech RA, Cheng Y, Mohamed AR, Burt DW, Bhattacharya D, Ragan MA, Chan CX
2020. BMC Biology • 18: 56. DOIPubMedPDF

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IMB News: Algae use distinct method when swapping DNA during sex


Evidence that inconsistent gene prediction can mislead analysis of dinoflagellate genomes
Chen Y, González-Pech RA, Stephens TG, Bhattacharya D, Chan CX
2020. Journal of Phycology • 56: 6-10. DOIPubMedPDFData Site



A genomic view of the reef-building coral Porites lutea and its microbial symbionts
Robbins SJ, Singleton CM, Chan CX, Messer LF, Geers AU, Ying H, Baker A, Bell SC, Morrow KM, Ragan MA, Miller DJ, Forêt S, ReFuGe2020 Consortium, Voolstra CR, Tyson GW, Bourne DG
2019. Nature Microbiology • 4: 2090-2100. • DOIPubMedPDFData Site

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Benchmarking of alignment-free sequence comparison methods
Zielezinski A, Girgis HZ, Bernard G, Leimeister CA, Tang K, Dencker T, Lau AK, Röhling S, Choi J, Waterman MS, Comin M, Kim SH, Vinga S, Almeida JS, Chan CX, James BT, Sun F, Morgenstern B, Karlowski WM
2019. Genome Biology • 20: 144. • DOIPubMedPDFAFproject site


Analysis of an improved Cyanophora paradoxa genome assembly
Price DC, Goodenough UW, Roth R, Lee JH, Kariyawasam T, Mutwil M, Ferrari C, Facchinelli F, Ball SG, Cenci U, Chan CX, Wagner NE, Yoon HS, Weber APM, Bhattacharya D
2019. DNA Research • 26: 287-299. • DOIPubMedPDF


Genome evolution of coral reef symbionts as intracellular residents
González-Pech RA, Bhattacharya D, Ragan MA, ChanCX
2019. Trends in Ecology & Evolution • 34: 799-806 • DOIPubMedPublisherPDF (accepted manuscript)

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Space Daily: Better understanding of coral-algae relationship could help prevent bleaching


Molecular techniques and their limitations shape our view of the holobiont
Cooke I, Mead O, Whalen C, Boote C, Moya A, Ying H, Robbins S, Strugnell JM, Darling A, Miller DJ, Voolstra CR, Adamska M, Consortium of Australian Academy of Science Boden Research Conference Participants
2019. Zoology • 137: 125695 • DOIPubMedPDF



Resolving structure and function of metaorganisms through a holistic framework combining reductionist and integrative approaches
Jaspers C, Fraune S, Arnold AE, Miller DJ, Bosch TCG, Voolstra CR, Consortium of Australian Academy of Science Boden Research Conference Participants
2019. Zoology • 133: 81-87 • DOIPubMedPDF



Commonly misunderstood parameters of NCBI BLAST and important considerations for users
González-Pech RA, Stephens TG, Chan CX
2019. Bioinformatics • 35: 2697-2698. DOIPubMedPDF (accepted manuscript)



Alignment-free inference of hierarchical and reticulate phylogenomic relationships
Bernard G, Chan CX, Chan YB, Chua XY, Cong Y, Hogan JM, Maetschke SR, Ragan MA
2019. Briefings in Bioinformatics • 20: 426-435. • DOIPubMedPDF




Core genes in diverse dinoflagellate lineages include a wealth of conserved dark genes with unknown functions
Stephens TG, Ragan MA, Bhattacharya D, Chan CX
Scientific Reports • 8: 17175. • DOIPubMedPDF



k-mer similarity, networks of microbial genomes and taxonomic rank
Bernard G, Greenfield P, Ragan MA, Chan CX
mSystems • 3: e00257-18. • DOIPubMedPDFSupplemental Site

mSystems 2018 Nov/Dec Issue Cover



Symbiodinium genomes reveal adaptive evolution of functions related to coral-dinoflagellate symbiosis
Liu H, Stephens TG, González-Pech RA, Beltran VH, Lapeyre B, Bongaerts P, Cooke I, Aranda M, Bourne DG, Forêt S, Miller DJ, van Oppen MJH, Voolstra CR, Ragan MA, Chan CX
2018. Communications Biology • 1: 95. • DOIPubMedPDFBehind-the-Paper


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Analysis of the draft genome of the red seaweed Gracilariopsis chorda provides insights into genome size evolution in Rhodophyta
Lee J, Yang EC, Graf L, Yang JH, Qiu H, Zelzion U, Chan CX, Stephens TG, Weber APM, Boo GH, Boo SM, Kim KM, Shin Y, Jung M, Lee SJ, Yim HS, Lee JY, Bhattacharya D, Yoon HS
2018. Molecular Biology and Evolution • 35: 1869-1886. • DOIPubMedPDF



Active host response to algal symbionts in the sea slug Elysia chlorotica
Chan CX, Vaysberg P, Price DC, Pelletreau KN, Rumpho ME, Bhattacharya D
2018. Molecular Biology and Evolution • 35: 1706-1711. • DOIPubMedFull textPDFNational Geographic FeatureVideo Feature



Plastid phylogenomics with broad taxon sampling further elucidates the distinct evolutionary origins and timing of secondary green plastids
Jackson C, Knoll AH, Chan CX, Verbruggen H
2018. Scientific Reports • 8: 1523. • DOIPubMedPDF



Deciphering the nature of the coral-Chromera association
Mohamed AR, Cumbo V, Harii S, Shinzato C, Chan CX, Ragan MA, Satoh N, Ball EE, Miller DJ
2018. ISME Journal • 12: 776–790. • DOIPubMedPDFFeature



Selection of reference genes for transcript profiling of Sargassum polycystum by quantitative Real-Time Polymerase Chain Reaction
Sim MC, Chan CX, Ho CL, Phang SM
2018. Phycological Research • 66: 247–252. • DOIPDF


Signatures of adaptation and symbiosis in genomes and transcriptomes of Symbiodinium
González-Pech RA, Ragan MA, Chan CX
2017. Scientific Reports • 7: 15021. • DOIPubMedPDF



Biotic interactions as drivers of algal origin and evolution
Brodie J, Ball SG, Bouget FY, Chan CX, De Clerck O, Cock JM, Gachon C, Grossman AR, Mock T, Raven JA, Saha M, Smith AG, Vardi A, Yoon HS, Bhattacharya D
2017. New Phytologist • 216(3): 670-681 • DOIPubMedPDF



Insights into the red algae and eukaryotic evolution from the genome of Porphyra umbilicalis (Bangiophyceae, Rhodophyta)
Brawley SH, Blouin NA, Ficko-Blean E, Wheeler GL, Lohr M, Goodson HV, Jenkins JW, Blaby-Haas CE, Helliwell KE, Chan CX, Marriage TN, Bhattacharya D, Klein AS, Badis Y, Brodie J, Cao Y, Collén J, Dittami SM, Gachon CMM, Green BR, Karpowicz SJ, Kim JW, Kudahl UJ, Lin S, Michel G, Mittag M, Olson BJSC, Pangilinan JL, Peng Y, Qiu H, Shu S, Singer JT, Smith AG, Sprecher BN, Wagner V, Wang W, Wang ZY, Yan J, Yarish C, Zäuner-Riek S, Zhuang Y, Zou Y, Lindquist EA, Grimwood J, Barry KW, Rokhsar DS, Schmutz J, Stiller JW, Grossman AR, Prochnik SE
2017. Proceedings of the National Academy of Sciences USA • 114(31): E6361-E6370. • DOIPubMedPDFFeature



The algal revolution
Brodie J, Chan CX, De Clerck O, Cock JM, Coelho SM, Gachon C, Grossman AR, Mock T, Raven JA, Smith AG, Yoon HS, Bhattacharya D
2017. Trends in Plant Science • 22(8): 726-738. • DOIPubMedPublisherPDF




Recapitulating phylogenies using k-mers: from trees to networks [version 2; referees: 2 approved]
Bernard G, Ragan MA, Chan CX
2016. F1000Research • 5: 2789. • DOIPDFNetwork



The transcriptomic response of the coral Acropora digitifera to a competent Symbiodinium strain: the symbiosome as an arrested early phagosome
Mohamed AR, Cumbo V, Harii S, Shinzato C, Chan CX, Ragan MA, Bourne DG, Willis BL, Ball EE, Satoh N, Miller DJ
2016. Molecular Ecology • 25(13): 3127–3141. • DOIPubMedPDF



Alignment-free microbial phylogenomics under scenarios of sequence divergence, genome rearrangement and lateral genetic transfer
Bernard G, Chan CX, Ragan MA
2016. Scientific Reports 6: 28970. • DOIPubMed • PDF



PhySortR: a fast, flexible tool for sorting phylogenetic trees in R
Stephens TG, Bhattacharya D, Ragan MA, Chan CX
2016. PeerJ 4: e2038. • DOIPubMedPDFSoftware




The ReFuGe 2020 consortium – using ‘omics’ approaches to explore the adaptability and resilience of coral holobionts to environmental change
Voolstra CR, Miller DJ, Ragan MA, Hoffmann A, Hoegh-Guldberg O, Bourne D, Ball E, Ying H, Forêt S, Takahashi S, Weynberg KD, van Oppen MJ, Morrow K, Chan CX, Rosic N, Leggat W, Sprungala S, Imelfort M, Tyson GW, Kassahn K, Lundgren P, Beeden R, Ravasi T, Berumen M, Abel E, Fyffe T
2015. Frontiers in Marine Science 2: 68. • DOIPDF




Inferring phylogenies of evolving sequences without multiple sequence alignment
Chan CX, Bernard G, Poirion O, Hogan JM, Ragan MA
2014. Scientific Reports 4: 6504. • DOIPubMedPDFSoftware



Molecular phylogenetics before sequences: oligonucleotide catalogs as k-mer spectra
Ragan MA, Bernard G, Chan CX
2014. RNA Biology 11(3): 176-185. • DOIPubMedPDF



A new species of Burkholderia isolated from sugarcane roots promotes plant growth
Paungfoo-Lonhienne C, Lonhienne T, Yeoh YK, Webb RI, Lakshmanan P, Chan CX, Lim PE, Ragan MA, Schmidt S, Hugenholtz P
2014. Microbial Biotechnology 7(2): 142-154. • DOIPubMedPDF




Analysis of horizontal genetic transfer in red algae in the post-genomics age
Chan CX, Bhattacharya D
2013. Mobile Genetic Elements 3(6): e27669 • DOIPubMedPDF
Online 2 Jan 2014



Foreign gene recruitment to the fatty acid biosynthesis pathway in diatoms
Chan CX, Baglivi FL, Jenkins CE, Bhattacharya D
2013. Mobile Genetic Elements 3(5): e27313 • DOIPubMedPDF
Online 10 Dec 2013



Biological intuition in alignment-free methods: response to Posada
Ragan MA, Chan CX
2013. Journal of Molecular Evolution 77(1-2): 1-2 • DOIPubMedPDF


Evidence for widespread exonic small RNAs in the glaucophyte alga Cyanophora paradoxa
Gross J, Wajid S, Price DC, Zelzion E, Li J, Chan CX, Bhattacharya D
2013. PLoS ONE 8(7): e67669 • DOIPubMedPDF



Genome of the red alga Porphyridium purpureum
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, Yoon HS
2013. Nature Communications 4: 1941 • DOIPubMedPDF
ISI Highly Cited



Clustering evolving proteins into homologous families
Chan CX, Mahbob M, Ragan MA
2013. BMC Bioinformatics 14: 120 • DOIPubMedPDF



Next-generation phylogenomics
Chan CX, Ragan MA
2013. Biology Direct 8: 3. • DOIPubMedPDF



Phylogenomics of marine algae
Chan CX
2013. Malaysian Journal of Science 32 (SCS Special Issue): 11-18. • DOIPDF


Porphyra (Bangiophyceae) transcriptomes provide insights into red algal development and metabolism
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, Bhattacharya D
2012. Journal of Phycology 48(6): 1328-1342 • DOIPDFData Site



Analysis of Alexandrium tamarense (Dinophyceae) genes reveals the complex evolutionary history of a microbial eukaryote
Chan CX, Soares MB, Bonaldo MF, Wisecaver JH, Hackett JD, Anderson DM, Erdner DL, Bhattacharya D
2012. Journal of Phycology 48(5): 1130-1142 • DOIPubMedPDFSupp Info



Major developmental regulators and their expression in two closely related species of Porphyra (Rhodophyta)
Stiller JW, Perry J, Rymarquis LA, Accerbi M, Green PJ, Prochnik S, Lindquist E, Chan CX, Yarish C, Lin S, Zhuang Y, Blouin NA, Brawley SH
2012. Journal of Phycology 48(4): 883-896 • DOIPubMedPDF


Endosymbiotic and horizontal gene transfer in microbial eukaryotes: impacts on cell evolution and the tree of life
Chan CX, Bhattacharya D, Reyes-Prieto A
2012. Mobile Genetic Elements 2(2): 101-105 • DOIPubMedPDF



Analysis of Porphyra membrane transporters demonstrates gene transfer among photosynthetic eukaryotes and numerous sodium-coupled transport systems
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, Bhattacharya D
2012. Plant Physiology 158(4): 2001-2012 • DOIPubMedPDFSupp Info


Cyanophora paradoxa genome elucidates origin of photosynthesis in algae and plants
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, Bhattacharya D
2012. Science 335(6070): 843-847 • DOIPubMedPDFData Site




Red and green algal origin of diatom membrane transporters: insights into environmental adaptation and cell evolution
Chan CX, Reyes-Prieto A, Bhattacharya D
2011. PLoS ONE 6(12): e29138 • DOIPubMedPDFSupp Info


Lateral transfer of genes and gene fragments in Staphylococcus extends beyond mobile elements
Chan CX, Beiko RG, Ragan MA
2011. Journal of Bacteriology 193(15): 3964-3977 • DOIPubMedPDFData Site



Non-random sharing of Plantae genes
Chan CX, Bhattacharya D
2011. Communicative and Integrative Biology 4(3): 361-363 • DOIPubMedPDF

Plastid origin and evolution: new models provide insights into old problems
Chan CX, Gross J, Yoon HS, Bhattacharya D
2011. Plant Physiology 155(4): 1552-1560 • DOIPubMedPDF



Red and green algal monophyly and extensive gene sharing found in a rich repertoire of red algal genes
Chan CX, Yang EC, Banerjee T, Yoon HS, Martone PT, Estevez JM, Bhattacharya D
2011. Current Biology 21(4): 328-333 • DOIPubMedPDFSupp Info




Lateral transfer of genes and gene fragments in prokaryotes
Chan CX, Beiko RG, Darling AE, Ragan MA
2009. Genome Biology and Evolution 1:429-438 • DOIPubMedPDF


Are protein domains modules of lateral genetic transfer?
Chan CX, Darling AE, Beiko RG, Ragan MA
2009. PLoS ONE 4(2): e4524. • DOIPubMedPDF



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


Detecting recombination in evolving nucleotide sequences
Chan CX, Beiko RG, Ragan MA
2006. BMC Bioinformatics 7:412 • DOIPubMedPDF


Trends in seaweed research
Chan CX, Ho CL, Phang SM
2006. Trends in Plant Science 11(4): 165-166 • DOIPubMedPDF



A word-oriented approach to alignment validation
Beiko RG, Chan CX, Ragan MA
2005. Bioinformatics 21(10): 2230-2239 • DOIPubMedPDFSoftware


Seaweed diversity of the Langkawi Islands with emphasis on the northeastern region
Phang SM, Wong CL, Lim PE, Yeong HY, Chan CX
2005. Malaysian Journal of Science 24 (Langkawi Special Issue): 77-94 • linkPDF


Comparing different approaches in large-scale seaweed gene discovery
Chan CX
2004. Bioinformatics India 2(3): 106-111 • PDF

Optimisation of RNA extraction from Gracilaria changii (Gracilariales, Rhodophyta)
Chan CX, Teo SS, Ho CL, Othman RY, Phang SM
2004. Journal of Applied Phycology 16(4): 297-301 • DOIPDF