Large-scale analysis of temporal gene expression variation in peripheral blood
2026
Nature Communications
N. Mishra, F. Kimmig, D. Vandeputte, V. Talevi, L. De Commer, C. Verspecht, A. Vich Vila, J. S. El-Sayed Moustafa, L. Kreft, A. Botzki, Y. El Darzi, S. Proost, L. Devolder, D. Wang, J. P. Bernardes, N. A. Aziz, SYSCID consortium, A. Franke, S. Schreiber, E. T. Dermitzakis, S. Vieira-Silva, G. Falony, K. S. Small, M. M. B. Breteler, J. L. Schultze, J. Raes and P. Rosenstiel
Serum PCBs, OCPs, PBDEs and PCAs: Associations with metabolic syndrome risk factors in the Flemish Gut Flora Project cohort
2026
Environmental Research
A. Cseresznye, F. den Ouden, Y. Ait Bamai, L. Engelen, E. Maris, E. De Paepe, G. Poma, M. Derrien, A. Vich Vila, S. Proost, L. de Commer, C. Verspecht, L. Devolder, S. Vieira-Silva, G. Falony, L. Y. Hemeryck, S. Yin, T. J. McGrath, R. Pero-Gascon, A. van Nuijs, S. De Saeger, T. Nawrot, L. Vanhaecke, J. Raes, and A. Covaci
Distinct Natural Killer Cell Signature in Still Disease: Insights From a Multinational Immunome Project Consortium for Autoinflammatory Disorders
2025
Arthritis & Rheumatology
A. De Visscher, J. Beliën, B. Malengier-Devlies, E. Bernaerts, L. De Vuyst, J. Filtjens, K. Ahmadzadeh, T. Mitera, N. Berghmans, K. Laskari, Y. Jamilloux, P. Regnier, D. Saadoun, C. Girard-Guyonvarc'h, C. Gabay, M. Gouwy, P. Proost, S. Humblet-Baron, Y. M. Mueller, S. J. Erkland, H. J. G. van de Werken, D. G. B. Grashof, P. D. Katsikis, The ImmunAID consortium [incl. S. Proost], C. Wouters, and P. Matthys
Development and validation of an LC-MS/MS method for the simultaneous detection of urinary inflammatory biomarkers in a Flemish birth cohort
2025
Journal of Chromatography B
F. den Ouden, A. Cseresznye, L. Engelen, E. Maris, E. De Paepe, G. Poma, S. Proost, A. Vich i Vila, L. Y. Hemeryck, R. Pero-Gascon, S. De Saeger, J. Raes, L. Vanhaecke, T. S. Nawrot, and A. Covaci
Chemical exposure in childhood: A study on organophosphate flame retardants and plasticizers in a Flemish birth cohort
2025
Environmental Research
F. den Ouden, A. Cseresznye, L. Engelen, E. Maris, S. Bosschaerts, C. Gys, P. Cleys, Y. Ait Bamai, R. Pero-Gascon, L. Y. Hemeryck, E. De Paepe, S. Proost, A. Vich Vila, J. Raes, L. Vanhaecke, M. De Boevre, S. De Saeger, T. S. Nawrot, G. Poma, and A. Covaci
Dietary convergence induces individual responses in faecal microbiome composition
2025
eGastroenterology
A. Vermeulen*, E. Bootsma*, S. Proost*, S. Vieira-Silva*, G. Kathagen*, J. F. Vázquez-Castellanos, R. Y. Tito, J. Sabino, S. Vermeire, C. Matthys, J. Raes and G. Falony
Elevated serum levels of interleukin-18 discriminate Still’s disease from other autoinflammatory conditions: results from the European ImmunAID cohort
2025
RMD Open
C. Girard-Guyonvarc’h, E. Rodriguez, Y. M. Mueller, A. Caruso, P. D. Katsikis and C. Gabay, The ImmunAID consortium [incl. S. Proost]
Means and methods to classify the gut microbiome
2025
Patent · WO2025125682
J. Raes, S. Proost, G. Falony
Beyond the Norm: epidemiology of irritable bowel syndrome and mental health among sexual and gender-diverse young adults in a large representative cohort
2024
Gastroenterology
E. Bootsma*, L. Jansen*, K. van Houte, R. C. Kessler, J. Tack , R. Bruffaerts, Gut-Brain Interactions – WHO – World Mental Health International College Student Initiative Working Group [W. Voorspoels, S. Proost, P. Mortier, G. Kiekens, J. Alonso, J. Raes, G. Falony, S. Vieira-Silva, L. van Oudenhove, P. Cuijpers, R. P. Auerbach]
Associations of HIV and iron status with gut microbiota composition, gut inflammation, and gut integrity in South African school-age children: A two-way factorial case-control study
2023
Journal of Human Nutrition and Dietetics
C. Goosen*, S. Proost*, J. Baumgartner, K. Mallick, R. Y. Tito, S. L. Barnabas, M. F. Cotton, M. B. Zimmermann, J. Raes, R. Blaauw
Mood disorders in higher education in Flanders during the 2nd COVID-19 wave: Prevalence and help-seeking: Findings from the Flemish College Surveys (FLeCS)
2023
Journal of Psychiatric Research
E. Bootsma*, L. Jansen*, G. Kiekens, W. Voorpoels, P. Mortier, S. Proost, I. van de Poel, K. Jacobs, K. Demyttenaere, J. Alonso, R. C. Kessler, P. Cuijpers, R. P. Auerbach and R. Bruffaerts
Long-term life history predicts current gut microbiome in a population-based cohort study
2022
Nature Aging
J. Si, J. F. Vázquez-Castellanos, A. C. Gregory, L. Decommer, L. Rymenans, S. Proost, J. Centelles Lodeiro, M. Weger, M. Notdurfter, C. Leitner, P. Santer, G. Rungger, J. Willeit, P. Willeit, R. Pechlaner, F. Grabherr, S. Kiechl, H. Tilg and J. Raes
High-energy level metabolism and transport revealed at the transition from close to open flowers
2022
Plant Physiology
M. Borghi, L. Perez de Souza, T. Tohge, J. Mi, G. Melandri, S. Proost, M. Martins, S. Al-Babili, H. Bouwmeester and A. Fernie
The effect of ß-glucan prebiotic on kidney function, uremic toxins and gut microbiome in stage 3 to 5 chronic kidney disease (CKD) predialysis participants: a randomized controlled trial
2022
Nutrients
Z. Ebrahim*, S. Proost*, R. Y. Tito, J. Raes, G. Glorieux, M. R. Moosa and R. Blaauw
The effect of oral iron supplementation on the gut microbiota, gut inflammation, and iron status in iron-depleted South African school-age children with virally suppressed HIV and without HIV
2022
European Journal of Nutrition
C. Goosen*, S. Proost*, R. Y. Tito, J. Baumgartner, S. L. Barnabas, M. F. Cotton, M. B. Zimmermann, J. Raes and R. Blaauw
Means and methods to diagnose gut flora dysbiosis and inflammation
2022
Patent · WO2022073973A1
J. Raes, S. Proost, G. Falony, S. Vieira-Silva, N. J. Timpson, D. A. Hughes
Topology of the redox network during induction of photosynthesis as revealed by time-resolved proteomics in tobacco
2021
Science Advances
D. Zimmer, C. Swart, A. Graf, S. Arrivault, M. Tillich, S. Proost, Z. Nikoloski, M. Stitt, R. Bock, T. Mühlhaus and A. Boulouis
Comparative transcriptomic analysis reveals conserved transcriptional programs underpinning organogenesis and reproduction in land plants
2021
Nature Plants
I. Julca, C. Ferrari, M. Flores-Tornero, S. Proost, A.-C. Lindner, ... , J. D. Becker and M. Mutwil
Kingdom-wide analysis of the evolution of the plant type III polyketide synthase superfamily
2021
Plant Physiology
T. Naake, H. A. Maeda, S. Proost, T. Takayuki, A. R. Fernie
Statin therapy is associated with lower prevalence of gut microbiota dysbiosis
2020
Nature
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
A novel seed plants gene regulates oxidative stress tolerance in Arabidopsis thaliana
2019
Cellular and Molecular Life Sciences
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
Appropriate thiamin pyrophosphate levels are required for acclimation to changes in photoperiod
2019
Plant Physiology
L. Rosado-Souza, S. Proost, M. Moulin, S. Bergmann, S. Bocobza, A. Aharoni, T. B. Fitzpatrick, M. Mutwil, A. R. Fernie, T. Obata
Kingdom-wide comparison reveals the evolution of diurnal gene expression in Archaeplastida
2019
Nature Communications
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
Transcriptomics of manually isolated Amborella trichopoda egg apparatus cells
2019
Plant Reproduction
M. Flores-Tornero, S. Proost, M. Mutwil, C. P. Scutt, T. Dresselhaus, S. Sprunck
Multi‐tissue integration of transcriptomic and specialized metabolite profiling provides tools for assessing the common bean (Phaseolus vulgaris) metabolome
2018
The Plant Journal
L. Perez de Souza, F. Scossa, S. Proost, E. Bitocchi, R Papa, T. Tohge, A. R. Fernie
CoNekT: an open-source framework for comparative genomic and transcriptomic network analyses
2018
Nucleic Acids Research
S. Proost, M. Mutwil
PhytoNet: Comparative co-expression network analyses across phytoplankton and land plants
2018
Nucleic Acids Research
C. Ferrari, S. Proost, C. Ruprecht, M. Mutwil
AtRsgA from Arabidopsis thaliana controls maturation of the small subunit of the chloroplast ribosome
2018
The Plant Journal
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
LSTrAP: efficiently combining RNA sequencing data into co-expression networks
2017
BMC Bioinformatics
S. Proost, A. Krawczyk, M. Mutwil
Expression atlas and comparative co-expression network analyses reveal important genes involved in the formation of lignified cell wall in Brachypodium distachyon
2017
New Phytologist
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
Phylogenomic analysis of gene co-expression networks reveals evolution of functional modules
2017
The Plant Journal
C. Ruprecht, S. Proost, M. Hernandez-Coronado, C. Ortiz-Ramirez, D. Lang, S. A. Rensing, J. D. Becker, K. Vandepoele, M. Mutwil
Beyond genomics: studying evolution with gene networks
2017
Trends in Plant Science
C. Ruprecht, N. Vaid, S. Proost, S. Persson, M. Mutwil
PlaNet: Comparative Co-Expression Network Analyses for Plants
2017
Plant Genomics Databases (Book Chapter)
S. Proost, M.Mutwil
Novel allelic variants in ACD6 cause hybrid necrosis in local collection of Arabidopsis thaliana
2017
New Phytologist
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
Tools of the trade: studying molecular networks in plants
2016
Current Opinion in Plant Biology
S. Proost, M.Mutwil
Growth-regulating factors (GRFs): a small transcription factor family with important functions in plant biology
2015
Molecular Plant
M. A. Omidbakhshfard, S. Proost, U. Fujikura, B. Mueller-Roeber
The genome sequence of the orchid Phalaenopsis equestris
2015
Nature Genetics
J. Cai*, X. Liu*, K. Vanneste*, S. Proost*, W.-C. Tsai*, K.-W. Liu*, ..., Y. Van de Peer, and Z.-J. Liu
PLAZA 3.0: an access point for plant comparative genomics
2014
Nucleic Acids Research
S. Proost*, M. Van Bel*, D. Vaneechoutte, Y. Van de Peer, D. Inzé, B. Mueller-Roeber, and K. Vandepoele
Reversal of senescence by N resupply to N-starved Arabidopsis thaliana: transcriptomic and metabolomic consequences
2014
Journal of Experimental Botany
S. Balazadeh, J. Schildhauer, W. L. Araújo, S. Munné-Bosch, A. R Fernie, S. Proost, K. Humbeck, and B. Mueller-Roeber
TRAPID: an efficient online tool for the functional and comparative analysis of de novo RNA-Seq transcriptomes
2013
Genome Biology
M. Van Bel, S. Proost, C. Van Neste, D. Deforce, Y. Van de Peer, and K. Vandepoele
FLOWERING LOCUS C in monocots and the tandem origin of angiosperm-specific MADS-box genes
2013
Nature Communications
P. Ruelens, R. A. de Maagd, S. Proost, G. Theißen, K. Geuten, and K. Kaufmann
Gamma paleohexaploidy in the stem lineage of core eudicots: significance for MADS-Box gene and species diversification
2012
Molecular Biology and Evolution
D. Vekemans*, S. Proost*, K. Vanneste, H. Coenen, T. Viaene, P. Ruelens, S. Maere, Y. Van de Peer, and K. Geuten
Dissecting plant genomes with the PLAZA comparative genomics platform
2012
Plant Physiology
M. Van Bel*, S. Proost*, E. Wischnitzki, S. Mohavedi, C. Scheerlinck, Y. Van de Peer, and K. Vandepoele
i-ADHoRe 3.0 - fast and sensitive detection of genomic homology in extremely large data sets
2012
Nucleic Acids Research
S. Proost*, J. Fostier*, D. De Witte, B. Dhoedt, P. Demeester, Y. Van de Peer, and K. Vandepoele
The Medicago genome provides insight into the evolution of rhizobial symbioses
2011
Nature
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
Journey through the past: 150 million years of plant genome evolution
2011
The Plant Journal
S. Proost, P. Pattyn, T. Gerats, and Y. Van de Peer
A greedy, graph-based algorithm for the alignment of multiple homologous gene lists
2011
Bioinformatics
J. Fostier*, S. Proost*, B. Dhoedt, Y. Saeys, P. Demeester, Y. Van de Peer, and K. Vandepoele
The genome of the domesticated apple (Malus x domestica Borkh.)
2010
Nature genetics
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
The flowering world: a tale of duplications
2009
Trends in Plant Science
Y. Van de Peer, J. A. Fawcett, S. Proost, L. Sterck, and K. Vandepoele
PLAZA: a comparative genomics resource to study gene and genome evolution in plants
2009
The Plant Cell
S. Proost*, M. Van Bel*, L. Sterck, K. Billiau, T. Van Parys, Y. Van de Peer, and K. Vandepoele
Predicting protein-protein interactions in Arabidopsis thaliana through integration of orthology, gene ontology and co-expression
2009
BMC Genomics
S. De Bodt, S. Proost, K. Vandepoele, P. Rouze, and Y. Van de Peer
