@article{ProostVanBelVaneechoutteetal.2015,
  author    = {Proost, Sebastian and Van Bel, Michiel and Vaneechoutte, Dries and Van de Peer, Yves and Inze, Dirk and M{\"u}ller-R{\"o}ber, Bernd and Vandepoele, Klaas},
  title     = {PLAZA 3.0: an access point for plant comparative genomics},
  series = {Nucleic acids research},
  volume    = {43},
  journal   = {Nucleic acids research},
  number    = {D1},
  publisher = {Oxford Univ. Press},
  address   = {Oxford},
  issn      = {0305-1048},
  doi       = {10.1093/nar/gku986},
  pages     = {D974 -- D981},
  year      = {2015},
  abstract  = {Comparative sequence analysis has significantly altered our view on the complexity of genome organization and gene functions in different kingdoms. PLAZA 3.0 is designed to make comparative genomics data for plants available through a user-friendly web interface. Structural and functional annotation, gene families, protein domains, phylogenetic trees and detailed information about genome organization can easily be queried and visualized. Compared with the first version released in 2009, which featured nine organisms, the number of integrated genomes is more than four times higher, and now covers 37 plant species. The new species provide a wider phylogenetic range as well as a more in-depth sampling of specific clades, and genomes of additional crop species are present. The functional annotation has been expanded and now comprises data from Gene Ontology, MapMan, UniProtKB/Swiss-Prot, PlnTFDB and PlantTFDB. Furthermore, we improved the algorithms to transfer functional annotation from well-characterized plant genomes to other species. The additional data and new features make PLAZA 3.0 (http://bioinformatics.psb.ugent.be/plaza/) a versatile and comprehensible resource for users wanting to explore genome information to study different aspects of plant biology, both in model and non-model organisms.},
  language  = {en}
}
@article{OmidbakhshfardProostFujikuraetal.2015,
  author    = {Omidbakhshfard, Mohammad Amin and Proost, Sebastian and Fujikura, Ushio and M{\"u}ller-R{\"o}ber, Bernd},
  title     = {Growth-Regulating Factors (GRFs): A Small Transcription Factor Family with Important Functions in Plant Biology},
  series = {Molecular plant},
  volume    = {8},
  journal   = {Molecular plant},
  number    = {7},
  publisher = {Cell Press},
  address   = {Cambridge},
  issn      = {1674-2052},
  doi       = {10.1016/j.molp.2015.01.013},
  pages     = {998 -- 1010},
  year      = {2015},
  abstract  = {Growth-regulating factors (GRFs) are plant-specific transcription factors that were originally identified for their roles in stem and leaf development, but recent studies highlight them to be similarly important for other central developmental processes including flower and seed formation, root development, and the coordination of growth processes under adverse environmental conditions. The expression of several GRFs is controlled by microRNA miR396, and the GRF-miRNA396 regulatory module appears to be central to several of these processes. In addition, transcription factors upstream of GRFs and miR396 have been discovered, and gradually downstream target genes of GRFs are being unraveled. Here, we review the current knowledge of the biological functions performed by GRFs and survey available molecular data to illustrate how they exert their roles at the cellular level.},
  language  = {en}
}