CoGen as a Collaborative Platform
We are hoping to connect talented researchers to work together by applying new technology and converging different scientific disciplines. Through this meaningful collaborative work, scientific discoveries and applications can be accelerated, with our ultimate mission to put genomics and bioinformatics at the core of everyday applications and solve real world problems.
We are focusing on a few exciting fields of study, such as agrigenomics and crop improvement, infectious disease and pathogen research, and data-driven biology.
Our collaborative partners includes highly reputable researchers from leading Institute of Higher Learning (e.g. University of Malaya, Universiti Putra Malaysia, Universiti Kebangsaan Malaysia) and Government Research Institutes (e.g. Malaysian Palm Oil Board, Malaysian Rubber Board, Malaysia Genome Institute).
Subscribe to our collaborative approach and join us to do great science!
We have published more than 40 peer-reviewed papers in high impact journals such as Nature Scientific Reports, Bioinformatics, Database, PLoS ONE, Frontiers in Microbiology and BMC Genomics, as a proven track record of our collaborative approach.
Find out more about our scientific publications:
- Ghazali, A.K., Eng, S.A., Khoo, J.S., Teoh, S., Hoh, C.C. and Nathan, S. (2021). Whole-genome comparative analysis of Malaysian Burkholderia pseudomallei clinical isolates. Microbial genomics, 7(2).
- Mat Razali, N., Hisham, S. N., Kumar, I. S., Shukla, R. N., Lee, M., Abu Bakar, M. F., & Nadarajah, K. (2021). Comparative Genomics: Insights on the Pathogenicity and Lifestyle of Rhizoctonia solani. International journal of molecular sciences, 22(4), 2183
- Tan, I.K.P., Foong, C.P., Tan, H.T., Lim, H., Zain, N.A.A., Tan, Y.C., Hoh, C.C. and Sudesh, K. 2020. Polyhydroxyalkanoate (PHA) synthase genes and PHA-associated gene clusters in Pseudomonas spp. and Janthinobacterium spp. isolated from Antarctica. Journal of Biotechnology, 313, 18-28.
- Ting N.C., Sherbina, K., Khoo, J.S., Kamaruddin, K., Chan, P.K., Chan, K.L., Ab Halim, M.A., Sritharan, K., Yaakub, Z., Mayes, S., Massawe, F., Chang, P.L., Nuzhdin, S.V., Sambanthamurthi, R. and Singh, R. 2020. Expression of fatty cid and tricylglycerol synthesis genes in interspecific hybrids of oil palm. Scientific Reports, 10, 16296.
- Leow, S.S., Lee, W.K., Khoo, J.S., Teoh, S., Hoh, C.C. Fairus, S., Sambanthamurthi, R. and Hayes, K.C. 2020. Identification of references genes for real-time polymerase chain reaction gene expression studies in Nile rats fed water soluble palm fruit extract. Molecular Biology Reports, doi.org/10.1007/s11033-020-06003-3.
- Kuan, C.S., Ng, K.P., Yew, S.M., Meleh, H.U., Seow, H.F., How, K.N., Yeo, S.K., Jee, J.M., Tan, Y.C., Yee, W.Y. and Hoh C.C. 2020. Comparative Genomics and Phenotypic Analyses of Pathogenic Fungi Neoscytalidium dimidiatum and Bipolaris papendorfii, isolated from human skin scraping. Research Square, doi.org/10.21203/rs.3.rs-96876/v1.
- Wee, C.Y., Tamizi, A.A., Nazaruddin, N.H., Ng, S.M., Khoo, J.S. and Jajuli, R. 2020. First Draft Genome Assembly of the Malaysian Stingless Bee, Heterotrigona itama (Apidae Meliponinase). Data, 5(4) 112.
- Zulkifli, Y., Rajinder, S., Ting, N.C., Marhalil, M., Xaviar, A., Rajanaidu, N., Jansen, J., MOHD DIN, A., Ong-Abdullah, M., Chie, T.Y. and Kushairi, A. (2020). Quantitative Trait Loci (Qtl) Linked to Compactness in an Interspecific Backcross Two (Bc2 ) Population of Oil Palm. Journal of Oil Palm Research, 32(2), pp.201-210.
- Jabeen, S., Yap, H.Y., Abdullah, F.F.J., Zakaria, Z., Isa, N.M., Tan, Y.C., Yap, S.J., Satharasinghe, D.A. and Omar, A.R. 2019. Complete genome sequence analysis and characterization of selected iron regulation genes of Pasteurella Multocida Serotype A Strain PMTB2. 1. Genes. 10, 81.A
- Ho, C.L., Tan, Y.C., Yeoh, K.A., Lee, W.K., Ghazali, A.K., Yee, W.Y. and Hoh, C.C. 2019. Leaf transcriptome of oil palm (Elaies guineensis Jacq.) infected by Ganoderma boninense. Trees. pp 1-8.
- Chow, K. S., Khoo, J. S., Zainuddin, Z. M., Ng, S. M., & Hoh, C. C. (2019). Utility of PacBio Iso-Seq for transcript and gene discovery in Hevea latex. Journal of Rubber Research, 22(4), 169-186.
- Ho, C.L., Tan, Y.C., Yeoh, K.A., Lee, W.K., Ghazali, A.K., Yee, W.Y. and Hoh, C.C. 2018. Transcriptional response of oil palm (Elaeis guineensis Jacq.) inoculated simultaneously with both Ganoderma boninense and Trichoderma harzianum. Plant Gene, 13, 56-63.
- Wong, Y.C., Abd El Ghany, M., Ghazzali, M., Naeem, R., Yap, S.J., Hoh, C.C., Pain, A. and Nathan, S. 2018. Genetic determinants associated with in vivo survival of Burkholderia cenocepacia in the Caenorhabditis elegans model. Frontiers in Microbiology, 9: 1118.
- Tan, K.K., Tan, Y.C., Chang, L.Y., Lee, K.W., Nor’e, S.S., Yee, W.Y., Hoh, C.C. and AbuBakar, S., 2017. Geographical distribution of Brucella melitensis inferred from rpoB gene variation. The Journal of Infection in Developing Countries, 11(05), pp.420-425.
- Ithnin, M., Xu, Y., Marjuni, M., Serdari, N.M., Amiruddin, M.D., Low, E.T.L., Tan, Y.C., Yap, S.J., Ooi, L.C.L., Nookiah, R. and Singh, R., 2017. Multiple locus genome-wide association studies for important economic traits of oil palm. Tree Genetics & Genomes, 13(5), p.103.
- Lee, W.K., Zainuddin, N.A.M., Teh, H.Y., Lim, Y.Y., Jaafar, M.U., Khoo, J.S., Ghazali, A.K., Namasivayam, P., Abdullah, J.O. and Ho, C.L., 2017. Reducing the number of artifactual repeats in de novo assembly of RNA-Seq data by optimizing the assembly pipeline. Gene Reports, 9, pp.7-12.
- Chow, Y.P., Murad, N.A.A., Rani, Z.M., Khoo, J.S., Chong, P.S., Wu, L.L. and Jamal, R., 2017. Exome sequencing identifies SLC26A4, GJB2, SCARB2 and DUOX2 mutations in 2 siblings with Pendred syndrome in a Malaysian family. Orphanet journal of rare diseases, 12(1), p.40.
- Farhanah, M.I., Yasmin, A.R., Mat Isa, N., Hair-Bejo, M., Ideris, A., Powers, C., Oladapo, O., Nair, V., Khoo, J.S., Ghazali, A.K., Yee, W.Y. and Omar, A.R. 2017. Bursal transcriptome profiling of different inbred chicken lines reveals key differentially expressed genes at 3 days post-infection with very virulent infectious bursal disease virus. Journal of General Virology,
- Jabeen, S., Yong, Y.H., Abdullah, F.J.F., Zakaria, Z., Isa, N.M., Tan, Y.C., Yee, W.Y. and Omar, A.R. 2017. Complete genome sequence of Pasteurella multocida Serotype A Strain PMTB2. 1 isolated from buffaloes that died of Septicemia in Malaysia. Genome Announcements, 5(44), pp.e01190-17.
- Ho, C.L. and Yee, W.Y. 2017. RNA-seq analysis in plant-fungus interactions. In Crop Improvement (pp. 1-25). Springer, Cham.
- Kuan, C.S., Cham, C.Y., Singh, G., Yew, S.M., Tan, Y.C., Chong, P.S., Toh, Y.F., Atiya, N., Na, S.L., Lee, K.W. and Hoh, C.C., 2016. Genomic Analyses of Cladophialophora bantiana, a Major Cause of Cerebral Phaeohyphomycosis Provides Insight into Its Lifestyle, Virulence and Adaption in Host. PloS one, 11(8), p.e0161008.
- Wong, Y.C., El Ghany, M.A., Naeem, R., Lee, K.W., Tan, Y.C., Pain, A. and Nathan, S., 2016. Candidate essential genes in Burkholderia cenocepacia J2315 identified by genome-wide TraDIS. Frontiers in microbiology, 7.
- Ho, C.L., Tan, Y.C., Yeoh, K.A., Ghazali, A.K., Yee, W.Y. and Hoh, C.C., 2016. De novo transcriptome analyses of host-fungal interactions in oil palm (Elaeis guineensis Jacq.). BMC genomics, 17(1), p.66.
- Kuan, C.S., Ismail, R., Kwan, Z., Yew, S.M., Yeo, S.K., Chan, C.L., Toh, Y.F., Na, S.L., Lee, K.W., Hoh, C.C. and Yee, W.Y., 2016. Isolation and Characterization of an Atypical Metschnikowia sp. Strain from the Skin Scraping of a Dermatitis Patient. PloS one, 11(6), p.e0156119.
- Yew, S.M., Chan, C.L., Ngeow, Y.F., Toh, Y.F., Na, S.L., Lee, K.W., Hoh, C.C., Yee, W.Y., Ng, K.P. and Kuan, C.S., 2016. Insight into different environmental niches adaptation and allergenicity from the Cladosporium sphaerospermum genome, a common human allergy-eliciting Dothideomycetes. Scientific reports, 6.
- Yew, S.M., Chan, C.L., Kuan, C.S., Toh, Y.F., Ngeow, Y.F., Na, S.L., Lee, K.W., Hoh, C.C., Yee, W.Y. and Ng, K.P., 2016. The genome of newly classified Ochroconis mirabilis: Insights into fungal adaptation to different living conditions. BMC genomics, 17(1), p.91.
- Toh, Y.F., Yew, S.M., Chan, C.L., Na, S.L., Lee, K.W., Hoh, C.C., Yee, W.Y., Ng, K.P. and Kuan, C.S., 2016. Genome Anatomy of Pyrenochaeta unguis-hominis UM 256, a Multidrug Resistant Strain Isolated from Skin Scraping. PloS one, 11(9), p.e0162095.
- Kuan, C.S., Yew, S.M., Chan, C.L., Toh, Y.F., Lee, K.W., Cheong, W.H., Yee, W.Y., Hoh, C.C., Yap, S.J. and Ng, K.P., 2016. DemaDb: an integrated dematiaceous fungal genomes database. Database, 2016, p.baw008.
- Chin, C.Y., Hara, Y., Ghazali, A.K., Yap, S.J., Kong, C., Wong, Y.C., Rozali, N., Koh, S.F., Hoh, C.C., Puthucheary, S.D. and Nathan, S., 2015. Global transcriptional analysis of Burkholderia pseudomallei high and low biofilm producers reveals insights into biofilm production and virulence. BMC genomics, 16(1), p.471.
- Kuan, C.S., Chan, C.L., Yew, S.M., Toh, Y.F., Khoo, J.S., Chong, J., Lee, K.W., Tan, Y.C., Yee, W.Y., Ngeow, Y.F. and Ng, K.P., 2015. Genome analysis of the first extensively drug-resistant (XDR) Mycobacterium tuberculosis in Malaysia provides insights into the genetic basis of its biology and drug resistance. PloS one, 10(6), p.e0131694.
- Tan, K.K., Tan, Y.C., Chang, L.Y., Lee, K.W., Nore, S.S., Yee, W.Y., Isa, M.N.M., Jafar, F.L., Hoh, C.C. and AbuBakar, S., 2015. Full genome SNP-based phylogenetic analysis reveals the origin and global spread of Brucella melitensis. BMC genomics, 16(1), p.93.
- Kuan, C.S., Yew, S.M., Toh, Y.F., Chan, C.L., Ngeow, Y.F., Lee, K.W., Na, S.L., Yee, W.Y., Hoh, C.C. and Ng, K.P., 2015. Dissecting the fungal biology of Bipolaris papendorfii: from phylogenetic to comparative genomic analysis. DNA research, 22(3), pp.219-232.
- Kuan, C.S., Yew, S.M., Toh, Y.F., Chan, C.L., Lim, S.K., Lee, K.W., Na, S.L., Hoh, C.C., Yee, W.Y. and Ng, K.P., 2015. Identification and characterization of a rare fungus, Quambalaria cyanescens, isolated from the peritoneal fluid of a patient after nocturnal intermittent peritoneal dialysis. PloS one, 10(12), p.e0145932.
- Chan, C.L., Yew, S.M., Ngeow, Y.F., Na, S.L., Lee, K.W., Hoh, C.C., Yee, W.Y. and Ng, K.P., 2015. Genome analysis of Daldinia eschscholtzii strains UM 1400 and UM 1020, wood-decaying fungi isolated from human hosts. BMC genomics, 16(1), p.966.
- Cheong, W.H., Tan, Y.C., Yap, S.J. and Ng, K.P., 2015. ClicO FS: an interactive web-based service of Circos. Bioinformatics, 31(22), pp.3685-3687.
- Chow, K.S., Ghazali, A.K., Hoh, C.C. and Mohd-Zainuddin, Z., 2014. RNA sequencing read depth requirement for optimal transcriptome coverage in Hevea brasiliensis. BMC research notes, 7(1), p.69.
- Yew, S.M., Chan, C.L., Lee, K.W., Na, S.L., Tan, R., Hoh, C.C., Yee, W.Y., Ngeow, Y.F. and Ng, K.P., 2014. A five-year survey of dematiaceous fungi in a tropical hospital reveals potential opportunistic species. PloS one, 9(8), p.e104352.
- Chan, C.L., Yew, S.M., Na, S.L., Tan, Y.C., Lee, K.W., Yee, W.Y., Ngeow, Y.F. and Ng, K.P., 2014. Draft genome sequence of Ochroconis constricta UM 578, isolated from human skin scraping. Genome announcements, 2(2), pp.e00074-14.
- Yew, S.M., Chan, C.L., Soo-Hoo, T.S., Na, S.L., Ong, S.S., Hassan, H., Ngeow, Y.F., Hoh, C.C., Lee, K.W., Yee, W.Y. and Ng, K.P., 2013. Draft genome sequence of dematiaceous coelomycete Pyrenochaeta sp. strain UM 256, isolated from skin scraping. Genome announcements, 1(3), pp.e00158-13.
- Ng, K.P., Yew, S.M., Chan, C.L., Chong, J., Tang, S.N., Soo-Hoo, T.S., Na, S.L., Hassan, H., Ngeow, Y.F., Hoh, C.C. and Lee, K.W., 2013. Draft genome sequence of the first isolate of extensively drug-resistant (XDR) Mycobacterium tuberculosis in Malaysia. Genome announcements, 1(1), pp.e00056-12.
- Ng, K.P., Yew, S.M., Chan, C.L., Tan, R., Soo-Hoo, T.S., Na, S.L., Hassan, H., Ngeow, Y.F., Hoh, C.C., Lee, K.W. and Yee, W.Y., 2013. Draft Genome Sequence of Herpotrichiellaceae sp. UM 238 Isolated from Human Skin Scraping. Genome announcements, 1(1), pp.e00148-12.
- Yap, H.Y., Ghazali, K., Nazarie, W.F.W.M., Isa, M.N.M., Zakaria, Z. and Omar, A.R., 2013. Draft genome sequence of Pasteurella multocida subsp. multocida strain PMTB, isolated from a buffalo. Genome announcements, 1(5), pp.e00872-13.
- Ng, K.P., Ngeow, Y.F., Yew, S.M., Hassan, H., Soo-Hoo, T.S., Na, S.L., Chan, C.L., Hoh, C.C., Lee, K.W. and Yee, W.Y., 2012. Draft genome sequence of Daldinia eschscholzii isolated from blood culture. Eukaryotic cell, 11(5), pp.703-704.
- Ng, K.P., Yew, S.M., Chan, C.L., Soo-Hoo, T.S., Na, S.L., Hassan, H., Ngeow, Y.F., Hoh, C.C., Lee, K.W. and Yee, W.Y., 2012. Sequencing of Cladosporium sphaerospermum, a dematiaceous fungus isolated from blood culture. Eukaryotic cell, 11(5), pp.705-706.
- Ng, K.P., Yew, S.M., Chan, C.L., Soo-Hoo, T.S., Na, S.L., Hassan, H., Ngeow, Y.F., Hoh, C.C., Lee, K.W. and Yee, W.Y., 2012. Genome sequence of an unclassified Pleosporales species isolated from human nasopharyngeal aspirate. Eukaryotic cell, 11(6), pp.828-828.