Sebastian Proost, PhD

Sebastian Proost, PhD

Bioinformatics | Data Science

sebastian.proost@gmail.com


Languages

DutchEnglishGermanFrench

Skills

Python8 years 
Data Science5 years 
Flask6 years 
HTML & CSS12 years 
Linux12 years 
JavaScript5 years 
R3 years 
34 publications, 5485 citations. H-index : 22

[preprint] Comparative transcriptomic analysis reveals conserved transcriptional programs underpinning organogenesis and reproduction in land plants. bioRxiv (2020)

I. Julca, C. Ferrari, M. Flores-Tornero, S. Proost, A.-C. Lindner, ... , J. D. Becker and M. Mutwil

[preprint] Kingdom-wide analysis of the evolution of the plant type III polyketide synthase superfamily. bioRxiv (2020)

T. Naake, H. A. Maeda, S. Proost, T. Takayuki, A. R. Fernie

Statin therapy is associated with lower prevalence of gut microbiota dysbiosis. Nature (2020)

S. Vieira-Silva, G. Falony, E. Belda, T. Nielsen, J. Aron-Wisnewsky, R. Chakaroun, S. K. Forslund, K. Assmann, M. Valles-Colomer, T. T. D. Nguyen, S. Proost, ... , K. Clément and J. Raes

pubmed

A novel seed plants gene regulates oxidative stress tolerance in Arabidopsis thaliana. Cellular and Molecular Life Sciences (2019)

N. Sujeeth, N. Mehterov, S. Gupta, M. K. Qureshi, A. Fischer, S. Proost, M. A. Omidbakhshfard, T. Obata, M. Benina, N. Staykov, S. Balazadeh, D. Walther, A. R. Fernie, B. Mueller-Roeber, J. Hille, T. S. Gechev

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Appropriate thiamin pyrophosphate levels are required for acclimation to changes in photoperiod. Plant Physiology (2019)

L. Rosado-Souza, S. Proost, M. Moulin, S. Bergmann, S. Bocobza, A. Aharoni, T. B. Fitzpatrick, M. Mutwil, A. R. Fernie, T. Obata

pubmed

Kingdom-wide comparison reveals the evolution of diurnal gene expression in Archaeplastida. Nature Communications (2019)

C. Ferrari, S. Proost, M. Janowski, J. Becker, Z. Nikoloski, D. Bhattacharya, D. Price, T. Tohge, A. Bar-Even, A. Fernie, M. Stitt, M. Mutwil

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Transcriptomics of manually isolated Amborella trichopoda egg apparatus cells. Plant Reproduction (2019)

M. Flores-Tornero, S. Proost, M. Mutwil, C. P. Scutt, T. Dresselhaus, S. Sprunck

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Multi‐tissue integration of transcriptomic and specialized metabolite profiling provides tools for assessing the common bean (Phaseolus vulgaris) metabolome. The Plant Journal (2018)

L. Perez de Souza, F. Scossa, S. Proost, E. Bitocchi, R Papa, T. Tohge, A. R. Fernie

pubmed

CoNekT: an open-source framework for comparative genomic and transcriptomic network analyses. Nucleic Acids Research (2018)

S. Proost, M. Mutwil

pubmedgithub

PhytoNet: Comparative co-expression network analyses across phytoplankton and land plants. Nucleic Acids Research (2018)

C. Ferrari, S. Proost, C. Ruprecht, M. Mutwil

pubmed

AtRsgA from Arabidopsis thaliana controls maturation of the small subunit of the chloroplast ribosome. The Plant Journal (2018)

M. Janowski, R. Zoschke, L Scharff, S. Martinez Jaime, C. Ferrari, S. Proost, N. Omranian, M. Musialak-Lange, Z. Nikoloski, A. Graf, M. A. Schottler, A. Sampathkumar, N. Vaid, M. Mutwil

pubmed

LSTrAP: efficiently combining RNA sequencing data into co-expression networks. BMC Bioinformatics (2017)

S. Proost, A. Krawczyk, M. Mutwil

pubmedgithub

Expression atlas and comparative co-expression network analyses reveal important genes involved in the formation of lignified cell wall in Brachypodium distachyon. New Phytologist (2017)

R. Sibout, S. Proost, B. Hansen, N. Vaid, F. Giorgi, S. Ho-Yue-Kuang, F. Legée, L. Cezart, O. Bouchabké-Coussa, C. Soulhat, N. Provart, A. Pasha, P. Le Bris, E. Jamet, D. Roujol, H. Hoefte, C. Lapierre, S. Persson, M. Mutwil

pubmed

Phylogenomic analysis of gene co-expression networks reveals evolution of functional modules. The Plant Journal (2017)

C. Ruprecht, S. Proost, M. Hernandez-Coronado, C. Ortiz-Ramirez, D. Lang, S. A. Rensing, J. D. Becker, K. Vandepoele, M. Mutwil

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Beyond genomics: studying evolution with gene networks. Trends in Plant Science (2017)

C. Ruprecht, N. Vaid, S. Proost, S. Persson, M. Mutwil

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PlaNet: Comparative Co-Expression Network Analyses for Plants. Plant Genomics Databases (Book Chapter) (2017)

S. Proost, M.Mutwil

pubmed

Novel allelic variants in ACD6 cause hybrid necrosis in local collection of Arabidopsis thaliana. New Phytologist (2017)

M. Swiadek*, S. Proost*, D. Sieh, J. Yu, M. Todesco, C. Jorzig, A. E. Rodriguez Cubillos, B. Ploetner, Z. Nikoloski, E. Chae, P. Giavalisco, A. Fischer, F. Schroeder, S.-T. Kim, D. Weigel, R.A.E. Laitinen

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Tools of the trade: studying molecular networks in plants. Current Opinion in Plant Biology (2016)

S. Proost, M.Mutwil

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Growth-regulating factors (GRFs): a small transcription factor family with important functions in plant biology. Molecular Plant (2015)

M. A. Omidbakhshfard, S. Proost, U. Fujikura, B. Mueller-Roeber

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The genome sequence of the orchid Phalaenopsis equestris. Nature Genetics (2015)

J. Cai*, X. Liu*, K. Vanneste*, S. Proost*, W.-C. Tsai*, K.-W. Liu*, ..., Y. Van de Peer, and Z.-J. Liu

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PLAZA 3.0: an access point for plant comparative genomics. Nucleic Acids Research (2014)

S. Proost*, M. Van Bel*, D. Vaneechoutte, Y. Van de Peer, D. Inzé, B. Mueller-Roeber, and K. Vandepoele

pubmedlink

Reversal of senescence by N resupply to N-starved Arabidopsis thaliana: transcriptomic and metabolomic consequences. Journal of Experimental Botany (2014)

S. Balazadeh, J. Schildhauer, W. L. Araújo, S. Munné-Bosch, A. R Fernie, S. Proost, K. Humbeck, and B. Mueller-Roeber

pubmed

TRAPID: an efficient online tool for the functional and comparative analysis of de novo RNA-Seq transcriptomes. Genome Biology (2013)

M. Van Bel, S. Proost, C. Van Neste, D. Deforce, Y. Van de Peer, and K. Vandepoele

pubmedlink

FLOWERING LOCUS C in monocots and the tandem origin of angiosperm-specific MADS-box genes. Nature Communications (2013)

P. Ruelens, R. A. de Maagd, S. Proost, G. Theißen, K. Geuten, and K. Kaufmann

pubmed

Gamma paleohexaploidy in the stem lineage of core eudicots: significance for MADS-Box gene and species diversification. Molecular Biology and Evolution (2012)

D. Vekemans*, S. Proost*, K. Vanneste, H. Coenen, T. Viaene, P. Ruelens, S. Maere, Y. Van de Peer, and K. Geuten

pubmed

Dissecting plant genomes with the PLAZA comparative genomics platform. Plant Physiology (2012)

M. Van Bel*, S. Proost*, E. Wischnitzki, S. Mohavedi, C. Scheerlinck, Y. Van de Peer, and K. Vandepoele

pubmedlink

i-ADHoRe 3.0 - fast and sensitive detection of genomic homology in extremely large data sets. Nucleic Acids Research (2012)

S. Proost*, J. Fostier*, D. De Witte, B. Dhoedt, P. Demeester, Y. Van de Peer, and K. Vandepoele

pubmedgithub

The Medicago genome provides insight into the evolution of rhizobial symbioses. Nature (2011)

N. D. Young, F. Debelle, G. Oldroyd, R. Geurts, S. B. Cannon, M. K. Udvardi, V. A. Benedito, K. F. X. Mayer, J. Gouzy, H. Schoof, Y. Van de Peer, S. Proost, D. R. Cook, ..., D. C. Schwartz, J. Rogers, F. Quetier, C. D. Town, and B. A. Roe

pubmed

Journey through the past: 150 million years of plant genome evolution. The Plant Journal (2011)

S. Proost, P. Pattyn, T. Gerats, and Y. Van de Peer

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A greedy, graph-based algorithm for the alignment of multiple homologous gene lists. Bioinformatics (2011)

J. Fostier*, S. Proost*, B. Dhoedt, Y. Saeys, P. Demeester, Y. Van de Peer, and K. Vandepoele

pubmedgithub

The genome of the domesticated apple (Malus x domestica Borkh.). Nature genetics (2010)

R. Velasco, A. Zharkikh, J. Affourtit, A. Dhingra, A. Cestaro, A. Kalyanaraman, P. Fontana, S. K. Bhatnagar, M. Troggio, D. Pruss, ..., J. A. Fawcett, S. Proost, P. Rouze, L. Sterck, S. Toppo, B. Lazzari, R. P. Hellens, C. E. Durel, A. Gutin, R. E. Bumgarner, S. E. Gardiner, M. Skolnick, M. Egholm, Y. Van de Peer, F. Salamini, and R. Viola

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The flowering world: a tale of duplications. Trends in Plant Science (2009)

Y. Van de Peer, J. A. Fawcett, S. Proost, L. Sterck, and K. Vandepoele

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PLAZA: a comparative genomics resource to study gene and genome evolution in plants. The Plant Cell (2009)

S. Proost*, M. Van Bel*, L. Sterck, K. Billiau, T. Van Parys, Y. Van de Peer, and K. Vandepoele

pubmedlink

Predicting protein-protein interactions in Arabidopsis thaliana through integration of orthology, gene ontology and co-expression. BMC Genomics (2009)

S. De Bodt, S. Proost, K. Vandepoele, P. Rouze, and Y. Van de Peer

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