Sebastian Proost

Postdoc
(Group member from 2007 until 2014)


+ 32 (0) 9 33 13 822

VIB / Ghent University
Bioinformatics & Systems Biology
Technologiepark 927
B-9052 Gent
BELGIUM

CV

  • 2003-2005: Bachelor in Biology, Hasselt University, Belgium
  • 2005-2007: Master in Biotechnology, Ghent University, Belgium
  • Master thesis: "Genome wide prediction of protein-protein interactions in Arabidopsis thaliana"
  • 2007-2012: PhD Bioinformatics and Evolutionary Genomics, Ghent University/VIB

Research

Now the number of sequenced plant genomes is rising it's possible to start working on comparing several genomes. This can lead to novel insights in evolution and mechanisms of speciation. To be able to browse these large amounts of comparative genomics data several visualizations will have to be developed and grouped into an online accessible platform.

Besides working on this platform I'm also studying whether or not gene loss after duplication has contributed to the speciation of cereals. (Reciprocal gene loss)

Papers

(14) Ruprecht, C., Proost, S., Hernandez-Coronado, M., Ortiz-Ramirez, C., Lang, D., Rensing, S.A., Becker, C., Vandepoele, K., Mutwil, M. (2017) Phylogenomic analysis of gene co-expression networks reveals the evolution of functional modules. Plant J. 90(3):447-465.
(13) Proost, S., Van Bel, M., Vaneechoutte, D., Van de Peer, Y., Inzé, D., Mueller-Roeber, B., Vandepoele, K. (2015) PLAZA 3.0: an access point for plant comparative genomics. Nucleic Acids Research 43(Database issue):D974-81.
(12) Cai, H., Liu, X., Vanneste, K., Proost, S., Tsai, C., Liu, K.-W., Chen, L.-J., He, Y., Xu, SX., Bian, C., Zheng, Z., Sun, F., Liu, W., , ., Pan, Z.-Y., Hsu, C.-C., Yang, Y.-P., Hsu, Y.-C., Chuang, Y.-C., Dievart, A., Dufayard, J.-F., Xu, SX., Wang, X., Wang, X., Xiao, X.-J., Zhao, X.-M., Du, Y., Zhang, G.-Q., Wang, X., Su, Y.-Y., Xie, G.-C., Liu, G.-H., Li, L.-Q., Huang, L.-Q., Luo, Y., Chen, H.-H., Van de Peer, Y., Liu, Z.-J. (2014) The genome sequence of the orchid Phalaenopsis equestris. Nat. Genet. 47(1):65–72.
(11) Van Bel, M., Proost, S., Van Neste, C., Deforce, D., Van de Peer, Y., Vandepoele, K. (2013) TRAPID: an efficient online tool for the functional and comparative analysis of de novo RNA-Seq transcriptomes. Genome Biol. 14(12):R134.
(10) * Vekemans, D., * Proost, S., Vanneste, K., Coenen, H., Viaene, T., Ruelens, P., Maere, S., Van de Peer, Y., Geuten, K. (2012) Gamma paleohexaploidy in the stem-lineage of core eudicots: significance for MADS-box gene and species diversification. Mol. Biol. Evol. 29(12):3793-806. *contributed equally
(9) * Van Bel, M., * Proost, S., Wischnitzki, E., Movahedi, S., Scheerlinck, C., Van de Peer, Y., Vandepoele, K. (2012) Dissecting plant genomes with the PLAZA comparative genomics platform. Plant Physiol. 158(2):590-600. *contributed equally
(8) * Proost, S., * Fostier, J., De Witte, D., Dhoedt, B., Demeester, P., Van de Peer, Y., Vandepoele, K. (2012) i-ADHoRe 3.0 - Fast and Sensitive Detection of Genomic Homology in Extremely Large Data Sets. Nucleic Acids Res. 40(2):e11. *contributed equally
(7) Young, N.D., Debelle, F., Oldroyd, G.E., Geurts, P., Cannon, S.B., Udvardi, M., Benedito, V., Mayer, K., Gouzy, J.P., Schoof, H., Van de Peer, Y., Proost, S., Cook, D.R., Meyers, B.C., Spannagl, M., Cheung, F., De Mita, S., Krishnakumar, V., Gundlach, H., Zhou, K., Mudge, J., Bharti, A., Murray, J.A.H., Naoumkina, M., Rosen, B., Silverstein, K., Tang, H., Rombauts, S., Zhao, Q., Zhou, K., Barbe, V., Bardou, P., Bechner, M., Bellec, A., Berger, A., Berges, J., Bidwell, S.L., Bisseling, T., Choisne, N., Couloux, A., Denny, R., Deshpande, S., Dai, Y., Doyle, J., Dudez, A., Farmer, E.E., Fouteau, S., Franken, C., Gibelin, C., Gish, J., Goldstein, S., Gonzalez, A., Green, P.J., Hallab, A., Hartog, M., Hua, A., Humphray, S., Jeong, D., Jing, Y., Jöcker, A., Kenton, S., Kim, J.R., Klee, K., Lai, M.-H., Lang, D., Lin, S., Macmil, S., Magdelenat, G., Matthews, L., McCorrison, J., Monaghan, E., Mun, J., Najar, F., Nicholson, C., Noirot, C., OBleness, M., Paule, C., Poulain, J., Prion, F., Qin, B., Qu, D., Retzel, E., Riddle, C., Sallet, E., Samain, S., Samson, G., Sanders, I., Saurat, O., Scarpelli, C., Schiex, T., Ségurens, B., Severin, A., Sherrier, J., Shi, J., Sims, S., Singer, S., Sinharoy, S., Sterck, L., Viollet, A., Wang, X., Wang, X., Wang, X., Wang, X., Warfsmann, J., Weissenbach, J., White, O., White, O., Wiley, G., Wincker, P., Xing, Y., Yang, L., Yao, Z., Ying, F., Zhai, J., Zhou, K., Zuber, A., Denarie, J., Dixon, R., May, G., Schwartz, D., Rogers, J., Quetier, F., Town, C.D., Roe, B. (2011) The Medicago genome provides insight into the evolution of rhizobial symbioses. Nature 480(7378):520-4.
(6) Proost, S., Pattyn, P., Gerats, T., Van de Peer, Y. (2011) Journey through the past: 150 million years of plant genome evolution. Plant J. 66(1):58-65.
(5) * Fostier, J., * Proost, S., Dhoedt, B., Saeys, Y., Demeester, P., Van de Peer, Y., Vandepoele, K. (2011) A Greedy, Graph-Based Algorithm for the Alignment of Multiple Homologous Gene Lists. Bioinformatics 27(6):749-56. *contributed equally
(4) Velasco, R., Zharkikh, A., Affourtit, J., Dhingra, A., Cestaro, A., Kalyanaraman, A., Fontana, P., Bhatnagar, S.K., Troggio, M., Pruss, D., Salvi, S., Pindo, M., Baldi, P., Castelletti, S., Cavaiuolo, M., Coppola, G., Costa, F., Cova, V., Dal Ri, A., Goremykin, V., Komjanc, M., Longhi, S., Magnago, P., Malacarne, G., Malnoy, M., Micheletti, D., Moretto, M., Perazzolli, M., Si-Ammour, A., Vezzulli, S., Zini, E., Eldredge, G., FitzGerald, L.M., Gutin, N., Lanchbury, J., Macalma, T., Mitchell, J.T., Reid, J., Wardell, B., Kodira, C., Chen, Z., Desany, B., Niazi, F., Palmer, L., Koepke, T., Jiwan, D., Schaeffer, S., Krishnan, V., Wu, C., Chu, V.T., King, S.T., Vick, J., Tao, Q., Mraz, A., Stormo, K., Stormo, K., Bogden, R., Ederle, D., Stella, A., Vecchietti, A., Kater, M.M., Masiero, S., Lasserre, P., Lespinasse, Y., Allan, A.C., Bus, V., Chagné, D., Crowhurst, R.N., Gleave, A.P., Lavezzo, E., Fawcett, J., Proost, S., Rouzé, P., Sterck, L., Toppo, S., Lazzari, B., Hellens, R.P., Durel, C., Gutin, A., Bumgarner, R.E., Gardiner, S.E., Skolnick, M., Egholm, M., Van de Peer, Y., Salamini, F., Viola, R. (2010) The genome of the domesticated apple (Malus x domestica Borkh.). Nat. Genet. 42(10):833-9.
(3) * Proost, S., * Van Bel, M., Sterck, L., Billiau, K., Van Parys, T., Van de Peer, Y., Vandepoele, K. (2009) PLAZA: a comparative genomics resource to study gene and genome evolution in plants. The Plant Cell 21(12):3718-31. *contributed equally
(2) Van de Peer, Y., Fawcett, J., Proost, S., Sterck, L., Vandepoele, K. (2009) The flowering world: a tale of duplications. Trends Plant Science 14(12):680-8.
(1) De Bodt, S., Proost, S., Vandepoele, K., Rouzé, P., Van de Peer, Y. (2009) Predicting protein-protein interactions in Arabidopsis thaliana through integration of orthology, gene ontology and co-expression. BMC Genomics 10:288.








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VIB / UGent
Bioinformatics & Evolutionary Genomics
Technologiepark 927
B-9052 Gent
BELGIUM
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