Models and Methods in Comparative Genomics

by Bourque, G., Zhang, L.
Published 2014

Success in the DREAM3 signaling response challenge using simple weighted-average imputation: Lessons for community-wide experiments in systems biology

by Clarke N.D., Bourque G.
Published 2018

A comparative synteny map of Burkholderia species links large-scale genome rearrangements to fine-scale nucleotide variation in prokaryotes

by Lin, C.H., Bourque, G., Tan, P.
Published 2014

PPARG Binding Landscapes in Macrophages Suggest a Genome-Wide Contribution of PU.1 to Divergent PPARG Binding in Human and Mouse

by Pott S., Kamrani N.K., Bourque G., Pettersson S., Liu E.T.
Published 2018

A population-based LD map of the human chromosome 6p

by Yu, H.X., Chia, J.-M., Chan, S.H., Ren, E.C., Bourque, G., Wong, M.V.
Published 2011

Transposable elements have rewired the core regulatory network of human embryonic stem cells

by Kunarso, G., Chia, N.-Y., Jeyakani, J., Hwang, C., Lu, X., Chan, Y.-S., Ng, H.-H., Bourque, G.
Published 2014

SON connects the splicing-regulatory network with pluripotency in human embryonic stem cells

by Lu, X., Göke, J., Sachs, F., Jacques, P.-E., Liang, H., Feng, B., Bourque, G., Bubulya, P.A., Ng, H.-H.
Published 2014

Regulation of estrogen receptor-mediated long range transcription via evolutionarily conserved distal response elements

by You, F.P., Wansa, K.D.S.A., Mei, H.L., Zhao, B., Shu, Z.H., Peck, Y.T., Kar, S.L., Bourque, G., Liu, E.T., Cheung, E.
Published 2015

Multiplatform genome-wide identification and modeling of functional human estrogen receptor binding sites

by Vega V.B., Lin C.-Y., Lai K.S., Kong S.L., Xie M., Su X., Teh H.F., Thomsen J.S., Yeo A.L., Sung W.K., Bourque G., Liu E.T.
Published 2018

Molecular conservation of estrogen-response associated with cell cycle regulation, hormonal carcinogenesis and cancer in zebrafish and human cancer cell lines

by Lam, S.H., Lee, S.G., Lin, C.Y., Thomsen, J.S., Fu, P.Y., Murthy, K.R., Li, H., Govindarajan, K.R., Nick, L.C., Bourque, G., Gong, Z., Lufkin, T., Liu, E.T., Mathavan, S.
Published 2014

Zebrafish mRNA sequencing deciphers novelties in transcriptome dynamics during maternal to zygotic transition

by Aanes, H., Winata, C.L., Lin, C.H., Chen, J.P., Srinivasan, K.G., Lee, S.G.P., Lim, A.Y.M., Hajan, H.S., Collas, P., Bourque, G., Gong, Z., Korzh, V., Aleström, P., Mathavan, S.
Published 2014

Whole-Genome Mapping of Histone H3 Lys4 and 27 Trimethylations Reveals Distinct Genomic Compartments in Human Embryonic Stem Cells

by Zhao, X.D., Han, X., Chew, J.L., Liu, J., Chiu, K.P., Choo, A., Orlov, Y.L., Sung, W.-K., Shahab, A., Kuznetsov, V.A., Bourque, G., Oh, S., Ruan, Y., Ng, H.-H., Wei, C.-L.
Published 2013

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

by 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.
Published 2013

CTCF-mediated functional chromatin interactome in pluripotent cells

by Handoko, L., Xu, H., Li, G., Ngan, C.Y., Chew, E., Schnapp, M., Lee, C.W.H., Ye, C., Ping, J.L.H., Mulawadi, F., Wong, E., Sheng, J., Zhang, Y., Poh, T., Chan, C.S., Kunarso, G., Shahab, A., Bourque, G., Cacheux-Rataboul, V., Sung, W.-K., Ruan, Y., Wei, C.-L.
Published 2013

Whole-genome cartography of estrogen receptor α binding sites

by Lin, C.-Y., Vega, V.B., Thomsen, J.S., Zhang, T., Say, L.K., Xie, M., Kuo, P.C., Lipovich, L., Barnett, D.H., Stossi, F., Yeo, A., George, J., Kuznetsov, V.A., Yew, K.L., Tze, H.C., Palanisamy, N., Miller, L.D., Cheung, E., Katzenellenbogen, B.S., Ruan, Y., Bourque, G., Wei, C.-L., Liu, E.T.
Published 2015

The Oct4 and Nanog transcription network regulates pluripotency in mouse embryonic stem cells

by Loh, Y.-H., Wu, Q., Chew, J.-L., Vega, V.B., Zhang, W., Chen, X., Bourque, G., George, J., Leong, B., Liu, J., Wong, K.-Y., Sung, K.W., Lee, C.W.H., Zhao, X.-D., Chiu, K.-P., Lipovich, L., Kuznetsov, V.A., Robson, P., Stanton, L.W., Wei, C.-L., Ruan, Y., Lim, B., Ng, H.-H.
Published 2014

Integration of External Signaling Pathways with the Core Transcriptional Network in Embryonic Stem Cells

by Chen, X., Xu, H., Yuan, P., Fang, F., Huss, M., Vega, V.B., Wong, E., Orlov, Y.L., Zhang, W., Jiang, J., Loh, Y.-H., Yeo, H.C., Yeo, Z.X., Narang, V., Govindarajan, K.R., Leong, B., Shahab, A., Ruan, Y., Bourque, G., Sung, W.-K., Clarke, N.D., Wei, C.-L., Ng, H.-H.
Published 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

by 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.
Published 2014

Whole-genome reconstruction and mutational signatures in gastric cancer

by 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.
Published 2018

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

by 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.
Published 2014