PE-Assembler: De novo assembler using short paired-end reads

由 Ariyaratne, P.N., Sung, W.-K.
出版 2013

PET-tool: A software suite for comprehensive processing and managing of Paired-End diTag (PET) sequence data

由 Chiu, K.P., Wong, C.-H., Chen, Q., Ariyaratne, P., Ooi, H.S., Wei, C.-L., Sung, W.-K.K., Ruan, Y.
出版 2013

Pathway aberrations of murine melanoma cells observed in Paired-End diTag transcriptomes

由 Chiu, K.P., Ariyaratne, P., Xu, H., Tan, A., Ng, P., Liu, E.T.-B., Ruan, Y., Wei, C.-L., Sung, W.-K.K.
出版 2013

Xenopus tropicalis genome re-scaffolding and re-annotation reach the resolution required for in vivo ChIA-PET analysis

由 Buisine N., Ruan X., Bilesimo P., Grimaldi A., Alfama G., Ariyaratne P., Mulawadi F., Chen J., Sung W.-K., Liu E.T., Demeneix B.A., Ruan Y., Sachs L.M.
出版 2018

ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing

由 Li, G., Xu, H., Mulawadi, F.H., Velkov, S., Vega, V., Ariyaratne, P.N., Mohamed, Y.B., Ooi, H.-S., Sung, W.-K., Fullwood, M.J., Wei, C.-L., Ruan, Y., Tennakoon, C.
出版 2011

Fusion transcripts and transcribed retrotransposed loci discovered through comprehensive transcriptome analysis using Paired-End diTags (PETs)

由 Ruan, Y., Hong, S.O., Siew, W.C., Kuo, P.C., Xiao, D.Z., Srinivasan, K.G., Yao, F., Chiou, Y.C., Liu, J., Ariyaratne, P., Bin, W.G.W., Kuznetsov, V.A., Shahab, A., Sung, W.-K., Bourque, G., Palanisamy, N., Wei, C.-L.
出版 2013

Genomic acquisition of a capsular polysaccharide virulence cluster by non-pathogenic Burkholderia isolates

由 Sim B.M.Q., Chantratita N., Ooi W.F., Nandi T., Tewhey R., Wuthiekanun V., Thaipadungpanit J., Tumapa S., Ariyaratne P., Sung W.-K., Sem X.H., Chua H.H., Ramnarayanan K., Lin C.H., Liu Y., Feil E.J., Glass M.B., Tan G., Peacock S.J., Tan P.
出版 2018

A genomic survey of positive selection in Burkholderia pseudomallei provides insights into the evolution of accidental virulence

由 Nandi, T., Ong, C., Singh, A.P., Boddey, J., Atkins, T., Sarkar-Tyson, M., Essex-Lopresti, A.E., Chua, H.H., Pearson, T., Kreisberg, J.F., Nilsson, C., Ariyaratne, P., Ronning, C., Losada, L., Ruan, Y., Sung, W.-K., Woods, D., Titball, R.W., Beacham, I., Peak, I., Keim, P., Nierman, W.C., Tan, P.
出版 2014

Long Span DNA Paired-End-Tag (DNA-PET) Sequencing Strategy for the Interrogation of Genomic Structural Mutations and Fusion-Point-Guided Reconstruction of Amplicons

由 Yao, F., Ariyaratne, P.N., Hillmer, A.M., Lee, W.H., Li, G., Teo, A.S.M., Woo, X.Y., Zhang, Z., Chen, J.P., Poh, W.T., Zawack, K.F.B., Chan, C.S., Leong, S.T., Neo, S.C., Choi, P.S.D., Gao, S., Nagarajan, N., Thoreau, H., Shahab, A., Ruan, X., Cacheux-Rataboul, V., Wei, C.-L., Bourque, G., Sung, W.-K., Liu, E.T., Ruan, Y.
出版 2014

Detection of chromosomal breakpoints in patients with developmental delay and speech disorders

由 Utami K.H., Hillmer A.M., Aksoy I., Chew E.G.Y., Teo A.S.M., Zhang Z., Lee C.W.H., Chen P.J., Seng C.C., Ariyaratne P.N., Rouam S.L., Soo L.S., Yousoof S., Prokudin I., Peters G., Collins F., Wilson M., Kakakios A., Haddad G., Menuet A., Perche O., Tay S.K.H., Sung K.W.K., Ruan X., Ruan Y., Liu E.T., Briault S., Jamieson R.V., Davila S., Cacheux V.
出版 2018

Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma

由 Sung, W.-K., Zheng, H., Li, S., Chen, R., Liu, X., Li, Y., Lee, N.P., Lee, W.H., Ariyaratne, P.N., Tennakoon, C., Mulawadi, F.H., Wong, K.F., Liu, A.M., Poon, R.T., Fan, S.T., Chan, K.L., Gong, Z., Hu, Y., Lin, Z., Wang, G., Zhang, Q., Barber, T.D., Chou, W.-C., Aggarwal, A., Hao, K., Zhou, W., Zhang, C., Hardwick, J., Buser, C., Xu, J., Kan, Z., Dai, H., Mao, M., Reinhard, C., Wang, J., Luk, J.M.
出版 2013

Whole-genome reconstruction and mutational signatures in gastric cancer

由 Nagarajan N., Bertrand D., Hillmer A.M., Zang Z.J., Yao F., Jacques P., Teo A.S., Cutcutache I., Zhang Z., Lee W.H., Sia Y.Y., Gao S., Ariyaratne P.N., Ho A., Woo X.Y., Veeravali L., Ong C.K., Deng N., Desai K.V., Khor C.C., Hibberd M.L., Shahab A., Rao J., Wu M., Teh M., Zhu F., Chin S.Y., Pang B., So J.B., Bourque G., Soong R., Sung W.-K., Tean Teh B., Rozen S., Ruan X., Yeoh K.G., Tan P.B., Ruan Y.
出版 2018

Comprehensive long-span paired-end-tag mapping reveals characteristic patterns of structural variations in epithelial cancer genomes

由 Hillmer, A.M., Yao, F., Inaki, K., Lee, W.H., Ariyaratne, P.N., Teo, A.S.M., Woo, X.Y., Zhang, Z., Zhao, H., Ukil, L., Chen, J.P., Zhu, F., So, J.B.Y., Salto-Tellez, M., Poh, W.T., Zawack, K.F.B., Nagarajan, N., Gao, S., Li, G., Kumar, V., Lim, H.P.J., Sia, Y.Y., Chan, C.S., Leong, S.T., Neo, S.C., Choi, P.S.D., Thoreau, H., Tan, P.B.O., Shahab, A., Ruan, X., Bergh, J., Hall, P., Cacheux-Rataboul, V., Wei, C.-L., Yeoh, K.G., Sung, W.-K., Bourque, G., Liu, E.T., Ruan, Y.
出版 2014

An oestrogen-receptor-α-bound human chromatin interactome

由 Fullwood, M.J., Liu, M.H., Pan, Y.F., Liu, J., Xu, H., Mohamed, Y.B., Orlov, Y.L., Velkov, S., Ho, A., Mei, P.H., Chew, E.G.Y., Huang, P.Y.H., Welboren, W.-J., Han, Y., Ooi, H.S., Ariyaratne, P.N., Vega, V.B., Luo, Y., Tan, P.Y., Choy, P.Y., Wansa, K.D.S.A., Zhao, B., Lim, K.S., Leow, S.C., Yow, J.S., Joseph, R., Li, H., Desai, K.V., Thomsen, J.S., Lee, Y.K., Karuturi, R.K.M., Herve, T., Bourque, G., Stunnenberg, H.G., Ruan, X., Cacheux-Rataboul, V., Sung, W.-K., Liu, E.T., Wei, C.-L., Cheung, E., Ruan, Y.
出版 2014

A common BIM deletion polymorphism mediates intrinsic resistance and inferior responses to tyrosine kinase inhibitors in cancer

由 Ng, K.P., Hillmer, A.M., Chuah, C.T.H., Juan, W.C., Ko, T.K., Teo, A.S.M., Ariyaratne, P.N., Takahashi, N., Sawada, K., Fei, Y., Soh, S., Lee, W.H., Huang, J.W.J., Allen Jr., J.C., Woo, X.Y., Nagarajan, N., Kumar, V., Thalamuthu, A., Poh, W.T., Ang, A.L., Mya, H.T., How, G.F., Yang, L.Y., Koh, L.P., Chowbay, B., Chang, C.-T., Nadarajan, V.S., Chng, W.J., Than, H., Lim, L.C., Goh, Y.T., Zhang, S., Poh, D., Tan, P., Seet, J.-E., Ang, M.-K., Chau, N.-M., Ng, Q.-S., Tan, D.S.W., Soda, M., Isobe, K., Nöthen, M.M., Wong, T.Y., Shahab, A., Ruan, X., Cacheux-Rataboul, V., Sung, W.-K., Tan, E.H., Yatabe, Y., Mano, H., Soo, R.A., Chin, T.M., Lim, W.-T., Ruan, Y., Ong, S.T.
出版 2014

Assemblathon 1: A competitive assessment of de novo short read assembly methods

由 Earl, D., Bradnam, K., St. John, J., Darling, A., Lin, D., Fass, J., Yu, H.O.K., Buffalo, V., Zerbino, D.R., Diekhans, M., Nguyen, N., Ariyaratne, P.N., Sung, W.-K., Ning, Z., Haimel, M., Simpson, J.T., Fonseca, N.A., Birol, I., Docking, T.R., Ho, I.Y., Rokhsar, D.S., Chikhi, R., Lavenier, D., Chapuis, G., Naquin, D., Maillet, N., Schatz, M.C., Kelley, D.R., Phillippy, A.M., Koren, S., Yang, S.-P., Wu, W., Chou, W.-C., Srivastava, A., Shaw, T.I., Ruby, J.G., Skewes-Cox, P., Betegon, M., Dimon, M.T., Solovyev, V., Seledtsov, I., Kosarev, P., Vorobyev, D., Ramirez-Gonzalez, R., Leggett, R., MacLean, D., Xia, F., Luo, R., Li, Z., Xie, Y., Liu, B., Gnerre, S., MacCallum, I., Przybylski, D., Ribeiro, F.J., Sharpe, T., Hall, G., Kersey, P.J., Durbin, R., Jackman, S.D., Chapman, J.A., Huang, X., DeRisi, J.L., Caccamo, M., Li, Y., Jaffe, D.B., Green, R.E., Haussler, D., Korf, I., Paten, B.
出版 2013