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Klaas Vandepoele

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Plant Chromosomes

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Publications

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Wim Verelst; Mario Enrico Pè; Klaas Vandepoele; Edoardo Bertolini; Stefanie De Bodt; Marlies Demeulenaere; Dirk Inzé
Molecular and physiological analysis of growth-limiting drought stress in Brachypodium distachyon leaves.
Riet De Smet; Steven Maere; Marc C E Van Montagu; Klaas Vandepoele; Keith L Adams; Yves Van de Peer
Convergent gene loss following gene and genome duplications creates single-copy families in flowering plants.
Sara Movahedi; Michiel Van Bel; Ken S Heyndrickx; Klaas Vandepoele
Comparative co-expression analysis in plant biology.

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All Publications

2013: Wim Verelst; Mario Enrico Pè; Klaas Vandepoele; Edoardo Bertolini; Stefanie De Bodt; Marlies Demeulenaere; Dirk Inzé
Molecular and physiological analysis of growth-limiting drought stress in Brachypodium distachyon leaves.
Molecular plant 2013;6(2):311-22.
2013: Riet De Smet; Steven Maere; Marc C E Van Montagu; Klaas Vandepoele; Keith L Adams; Yves Van de Peer
Convergent gene loss following gene and genome duplications creates single-copy families in flowering plants.
Proceedings of the National Academy of Sciences of the United States of America 2013;110(8):2898-903.
2012: Sara Movahedi; Michiel Van Bel; Ken S Heyndrickx; Klaas Vandepoele
Comparative co-expression analysis in plant biology.
Plant, cell & environment 2012;35(10):1787-98.
2012: Feng Wang; Klaas Vandepoele; Mieke Van Lijsebettens
Tetraspanin genes in plants.
Plant science : an international journal of experimental plant biology 2012;190():9-15.
2012: Ken S Heyndrickx; Klaas Vandepoele
Systematic identification of functional plant modules through the integration of complementary data sources.
Plant physiology 2012;159(3):884-901.
2012: Mauricio Quimbaya; Eric Raspé; Klaas Vandepoele; Gerrit T S Beemster; Geert Berx; Stijn Dhondt; Michiel Matthijs; Lieven De Veylder
Identification of putative cancer genes through data integration and comparative genomics between plants and humans.
Cellular and molecular life sciences : CMLS 2012;69(12):2041-55.
2012: Veselin Petrov; Frank Van Breusegem; Klaas Vandepoele; Vanessa Vermeirssen; Inge De Clercq; Ivan N Minkov; Tsanko S Gechev
Identification of cis-regulatory elements specific for different types of reactive oxygen species in Arabidopsis thaliana.
Gene 2012;499(1):52-60.
2012: Michiel Van Bel; Yves Van de Peer; Sara Movahedi; Sebastian Proost; Christopher Scheerlinck; Elisabeth Wischnitzki; Klaas Vandepoele
Dissecting plant genomes with the PLAZA comparative genomics platform.
Plant physiology 2012;158(2):590-600.
2012: Daniel Vaulot; Rodrigo De la Iglesia; Frédéric Gaboyer; Frederick Gavory; Cécile Lepère; Hervé Moreau; Julie Poulain; Eve Toulza; Osvaldo Ulloa; Klaas Vandepoele; Gwenaël Piganeau
Metagenomes of the picoalga Bathycoccus from the Chile coastal upwelling.
PloS one 2012;7(6):e39648.
2012: Sebastian Proost; Yves Van de Peer; Dieter De Witte; Piet Demeester; Bart Dhoedt; Jan Fostier; Klaas Vandepoele
i-ADHoRe 3.0--fast and sensitive detection of genomic homology in extremely large data sets.
Nucleic acids research 2012;40(2):e11.
2011: Sara Movahedi; Yves Van de Peer; Klaas Vandepoele
Comparative network analysis reveals that tissue specificity and gene function are important factors influencing the mode of expression evolution in Arabidopsis and rice.
Plant physiology 2011;156(3):1316-30.
2011: Ron Mittler; Vladimir Shulaev; Nobuhiro Suzuki; Vanesa B Tognetti; Marty Gollery; Gad Miller; Klaas Vandepoele; Sandy Vanderauwera; Frank Van Breusegem
ROS signaling: the new wave?
Trends in plant science 2011;16(6):300-9.
2011: Elena Babiychuk; Klaas Vandepoele; Josef Wissing; Miguel Garcia-Diaz; Riet De Rycke; Hana Akbari; Jérôme Joubès; Tom Beeckman; Lothar Jänsch; Margrit Frentzen; Marc C E Van Montagu; Sergei Kushnir
Plastid gene expression and plant development require a plastidic protein of the mitochondrial transcription termination factor family.
Proceedings of the National Academy of Sciences of the United States of America 2011;108(16):6674-9.
2011: Jan Fostier; Sebastian Proost; Bart Dhoedt; Yvan Saeys; Piet Demeester; Yves Van de Peer; Klaas Vandepoele
A greedy, graph-based algorithm for the alignment of multiple homologous gene lists.
Bioinformatics (Oxford, England) 2011;27(6):749-56.
2010: Marie J J Huysman; Cindy Martens; Klaas Vandepoele; Jeroen Gillard; Edda Rayko; Marc heijde; Chris Bowler; Dirk Inzé; Yves Van de Peer; Lieven De Veylder; Wim Vyverman
Genome-wide analysis of the diatom cell cycle unveils a novel type of cyclins involved in environmental signaling.
Genome biology 2010;11(2):R17.
2010: Naoki Takahashi; Mauricio Quimbaya; Veit Schubert; Tim Lammens; Klaas Vandepoele; Ingo Schubert; Minami Matsui; Dirk Inzé; Geert Berx; Lieven De Veylder
The MCM-binding protein ETG1 aids sister chromatid cohesion required for postreplicative homologous recombination repair.
PLoS genetics 2010;6(1):e1000817.
2009: Sebastian Proost; Michiel Van Bel; Lieven Sterck; Kenny Billiau; Thomas Van Parys; Yves Van de Peer; Klaas Vandepoele
PLAZA: a comparative genomics resource to study gene and genome evolution in plants.
The Plant cell 2009;21(12):3718-31.
2009: Yves Van de Peer; Jeffrey A Fawcett; Sebastian Proost; Lieven Sterck; Klaas Vandepoele
The flowering world: a tale of duplications.
Trends in plant science 2009;14(12):680-8.
2009: Gwenael Piganeau; Klaas Vandepoele; Sébastien Gourbière; Yves Van de Peer; Hervé Moreau
Unravelling cis-regulatory elements in the genome of the smallest photosynthetic eukaryote: phylogenetic footprinting in Ostreococcus.
Journal of molecular evolution 2009;69(3):249-59.
2009: Klaas Vandepoele; Mauricio Quimbaya; Tine Casneuf; Lieven De Veylder; Yves Van de Peer
Unraveling transcriptional control in Arabidopsis using cis-regulatory elements and coexpression networks.
Plant physiology 2009;150(2):535-46.
2009: Stien Dhaese; Klaas Vandepoele; Davy Waterschoot; Berlinda Vanloo; Joël Vandekerckhove; Christophe Ampe; Marleen Van Troys
The mouse thymosin beta15 gene family displays unique complexity and encodes a functional thymosin repeat.
Journal of molecular biology 2009;387(4):809-25.
2009: Stefanie De Bodt; Sebastian Proost; Klaas Vandepoele; Pierre Rouzé; Yves Van de Peer
Predicting protein-protein interactions in Arabidopsis thaliana through integration of orthology, gene ontology and co-expression.
BMC genomics 2009;10():288.
2009: Naïra Naouar; Klaas Vandepoele; Tim Lammens; Tineke Casneuf; Georg Zeller; Paul van Hummelen; Detlef Weigel; Gunnar Rätsch; Dirk Inzé; Martin Kuiper; Lieven De Veylder; Marnik Vuylsteke
Quantitative RNA expression analysis with Affymetrix Tiling 1.0R arrays identifies new E2F target genes.
The Plant journal : for cell and molecular biology 2009;57(1):184-94.
2008: Chris Bowler; Andrew E Allen; Jonathan H Badger; Jane Grimwood; Kamel Jabbari; Alan Kuo; Uma Maheswari; Cindy Martens; Florian Maumus; Robert P Otillar; Edda Rayko; Asaf Salamov; Klaas Vandepoele; Bank Beszteri; Ansgar Gruber; Marc heijde; Michael Katinka; Thomas Mock; Klaus Valentin; Fréderic Verret; John A Berges; Colin Brownlee; Jean-Paul Cadoret; Anthony Chiovitti; Chang Jae Choi; Sacha Coesel; Alessandra De Martino; J Chris Detter; Colleen Durkin; Angela Falciatore; Jérome Fournet; Miyoshi Haruta; Marie J J Huysman; Bethany D Jenkins; Katerina Jiroutova; Richard E Jorgensen; Yolaine Joubert; Aaron Kaplan; Nils Kroger; Peter G Kroth; Julie La Roche; Erica Lindquist; Markus Lommer; Véronique Martin-Jézéquel; Pascal Jean Lopez; Susan Lucas; Manuela Mangogna; Karen McGinnis; Linda K Medlin; Anton Montsant; Marie-Pierre Oudot-Le Secq; Carolyn Napoli; Miroslav Obornik; Micaela Schnitzler Parker; Jean-Louis Petit; Betina M Porcel; Nicole Poulsen; Matthew Robison; Leszek Rychlewski; Tatiana A Rynearson; Jeremy Schmutz; Harris Shapiro; Magali Siaut; Michele Stanley; Michael R Sussman; Alison R Taylor; Assaf Vardi; Peter von Dassow; Wim Vyverman; Anusuya Willis; Lucjan S Wyrwicz; Daniel S Rokhsar; Jean Weissenbach; E Virginia Armbrust; Beverley R Green; Yves Van de Peer; Igor V Grigoriev
The Phaeodactylum genome reveals the evolutionary history of diatom genomes.
Nature 2008;456(7219):239-44.
2008: Claire Lessa Alvim Kamei; Joanna Boruc; Klaas Vandepoele; Hilde Van den Daele; Sara Maes; Eugenia Russinova; Dirk Inzé; Claire Lessa Alvim Kamei
The PRA1 gene family in Arabidopsis.
Plant physiology 2008;147(4):1735-49.
2008: Cindy Martens; Klaas Vandepoele; Yves Van de Peer
Whole-genome analysis reveals molecular innovations and evolutionary transitions in chromalveolate species.
Proceedings of the National Academy of Sciences of the United States of America 2008;105(9):3427-32.
2008: Korneel Vandenbroucke; Steven Robbens; Klaas Vandepoele; Dirk Inzé; Yves Van de Peer; Frank Van Breusegem
Hydrogen peroxide-induced gene expression across kingdoms: a comparative analysis.
Molecular biology and evolution 2008;25(3):507-16.
2007: Adrian Peres; Michelle L Churchman; Srivaidehirani Hariharan; Kristiina Irma Helena Himanen; Aurine Verkest; Klaas Vandepoele; Zoltán Magyar; Yves Hatzfeld; Els Van Der Schueren; Gerrit T S Beemster; Valerie Frankard; John C Larkin; Dirk Inzé; Lieven De Veylder
Novel plant-specific cyclin-dependent kinase inhibitors induced by biotic and abiotic stresses.
The Journal of biological chemistry 2007;282(35):25588-96.
2007: Lieven Sterck; Stephane Marcel Rombauts; Klaas Vandepoele; Pierre Rouzé; Yves Van de Peer
How many genes are there in plants (... and why are they there)?
Current opinion in plant biology 2007;10(2):199-203.
2007: Bart Rymen; Fabio Fiorani; Fatma Kartal; Klaas Vandepoele; Dirk Inzé; Gerrit T S Beemster
Cold nights impair leaf growth and cell cycle progression in maize through transcriptional changes of cell cycle genes.
Plant physiology 2007;143(3):1429-38.
2007: Debby Polet; Anja Lambrechts; Klaas Vandepoele; Joël Vandekerckhove; Christophe Ampe
On the origin and evolution of vertebrate and viral profilins.
FEBS letters 2007;581(2):211-7.
2007: Riccardo Velasco; Andrey Zharkikh; Michela Troggio; Dustin A Cartwright; Alessandro Cestaro; Dmitry Pruss; Massimo Pindo; Lisa M Fitzgerald; Silvia Vezzulli; Julia Reid; Giulia Malacarne; Diana Iliev; Giuseppina Coppola; Bryan Wardell; Diego Micheletti; Teresita Macalma; Marco Facci; Jeff T Mitchell; Michele Perazzolli; Glenn Eldredge; Pamela Gatto; Rozan Oyzerski; Marco Moretto; Natalia Gutin; Marco Stefanini; Yang Chen; Cinzia Segala; Christine Davenport; Lorenzo Demattè; Amy Mraz; Juri Battilana; Keith Stormo; Fabrizio Costa; Quanzhou Tao; Azeddine Si-Ammour; Tim Harkins; Angie Lackey; Clotilde Perbost; bruce taillon; Alessandra Stella; Victor Solovyev; Jeffrey A Fawcett; Lieven Sterck; Klaas Vandepoele; Stella M Grando; Stefano Toppo; Claudio Moser; Jerry Lanchbury; Robert Bogden; Mark Skolnick; Vittorio Sgaramella; Satish K Bhatnagar; Paolo Fontana; Alexander Gutin; Yves Van de Peer; Francesco Salamini; Roberto Viola
A high quality draft consensus sequence of the genome of a heterozygous grapevine variety.
PloS one 2007;2(12):e1326.
2006: Klaas Vandepoele; Tineke Casneuf; Yves Van de Peer
Identification of novel regulatory modules in dicotyledonous plants using expression data and comparative genomics.
Genome biology 2006;7(11):R103.
2006: Tine Blomme; Klaas Vandepoele; Stefanie De Bodt; Cedric Simillion; Steven Maere; Yves Van de Peer
The gain and loss of genes during 600 million years of vertebrate evolution.
Genome biology 2006;7(5):R43.
2005: Klaas Vandepoele; Kobe Vlieghe; Kobe Florquin; Lars Hennig; Gerrit T S Beemster; Wilhelm Gruissem; Yves Van de Peer; Dirk Inzé; Lieven De Veylder
Genome-wide identification of potential plant E2F target genes.
Plant physiology 2005;139(1):316-28.
2005: Andrew H Paterson; John E Bowers; Yves Van de Peer; Klaas Vandepoele
Ancient duplication of cereal genomes.
The New phytologist 2005;165(3):658-61.
2005: Klaas Vandepoele; Yves Van de Peer
Exploring the plant transcriptome through phylogenetic profiling.
Plant physiology 2005;137(1):31-42.
2004: Cedric Simillion; Klaas Vandepoele; Yves Van de Peer
Recent developments in computational approaches for uncovering genomic homology.
BioEssays : news and reviews in molecular, cellular and developmental biology 2004;26(11):1225-35.
2004: Dominique Vercammen; Brigitte Van De Cotte; Geert De Jaeger; Dominique Eeckhout; Peter Casteels; Klaas Vandepoele; Isabel Vandenberghe; Jozef Van Beeumen; Dirk Inzé; Frank Van Breusegem
Type II metacaspases Atmc4 and Atmc9 of Arabidopsis thaliana cleave substrates after arginine and lysine.
The Journal of biological chemistry 2004;279(44):45329-36.
2004: Isabelle Landrieu; Marco da Costa; Lieven De Veylder; Frédérique Dewitte; Klaas Vandepoele; Sahar Hassan; Jean-Michel Wieruszeski; Florence Corellou; Jean-Denis Faure; Marc Van Montagu; Dirk Inzé; Guy Lippens
A small CDC25 dual-specificity tyrosine-phosphatase isoform in Arabidopsis thaliana.
Proceedings of the National Academy of Sciences of the United States of America 2004;101(36):13380-5.
2004: Cedric Simillion; Klaas Vandepoele; Yvan Saeys; Yves Van de Peer
Building genomic profiles for uncovering segmental homology in the twilight zone.
Genome research 2004;14(6):1095-106.
2004: Dirk Gevers; Klaas Vandepoele; Cedric Simillon; Yves Van de Peer
Gene duplication and biased functional retention of paralogs in bacterial genomes.
Trends in microbiology 2004;12(4):148-54.
2004: Klaas Vandepoele; Wouter De Vos; John S Taylor; Axel Meyer; Yves Van de Peer
Major events in the genome evolution of vertebrates: paranome age and size differ considerably between ray-finned fishes and land vertebrates.
Proceedings of the National Academy of Sciences of the United States of America 2004;101(6):1638-43.
2003: Klaas Vandepoele; Cedric Simillion; Yves Van de Peer
Evidence that rice and other cereals are ancient aneuploids.
The Plant cell 2003;15(9):2192-202.
2003: Peter Breyne; R Dreesen; B Cannoot; Debbie Rombaut; Klaas Vandepoele; Stephane Marcel Rombauts; Rudy Vanderhaeghen; Dirk Inzé; Marc Zabeau
Quantitative cDNA-AFLP analysis for genome-wide expression studies.
Molecular genetics and genomics : MGG 2003;269(2):173-9.
2003: Jeroen Raes; Klaas Vandepoele; Cedric Simillion; Yvan Saeys; Yves Van de Peer
Investigating ancient duplication events in the Arabidopsis genome.
Journal of structural and functional genomics 2003;3(1-4):117-29.
2002: Klaas Vandepoele; Cedric Simillion; Yves Van de Peer
Detecting the undetectable: uncovering duplicated segments in Arabidopsis by comparison with rice.
Trends in genetics : TIG 2002;18(12):606-8.
2002: Peter Breyne; Rozemarijn Dreesen; Klaas Vandepoele; Lieven De Veylder; Frank Van Breusegem; Lindy Callewaert; Stephane Marcel Rombauts; Jeroen Raes; Bernard Cannoot; Gilbert Engler; Dirk Inzé; Marc Zabeau
Transcriptome analysis during cell division in plants.
Proceedings of the National Academy of Sciences of the United States of America 2002;99(23):14825-30.
2002: Klaas Vandepoele; Yvan Saeys; Cedric Simillion; Jeroen Raes; Yves Van de Peer
The automatic detection of homologous regions (ADHoRe) and its application to microcolinearity between Arabidopsis and rice.
Genome research 2002;12(11):1792-801.
2002: Cedric Simillion; Klaas Vandepoele; Marc Van Montagu; Marc Zabeau; Yves Van de Peer
The hidden duplication past of Arabidopsis thaliana.
Proceedings of the National Academy of Sciences of the United States of America 2002;99(21):13627-32.
2002: Klaas Vandepoele; Jeroen Raes; Lieven De Veylder; Pierre Rouzé; Stephane Marcel Rombauts; Dirk Inzé
Genome-wide analysis of core cell cycle genes in Arabidopsis.
The Plant cell 2002;14(4):903-16.