Publications

424. Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thaliana

Tineke Casneuf, Stefanie De Bodt, Jeroen Raes, Steven Maere, Yves Van de Peer

(2006) - Genome Biology

DOI
423. Identification of novel regulatory modules in dicotyledonous plants using expression data and comparative genomics

Vandepoele, K., Casneuf, T., Van de Peer, Y.

(2006) - Genome Biology

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422. Genome analysis of the smallest free-living eukaryote Ostreococcus tauri unveils many unique features

Derelle, E., Ferraz, C., Rombauts, S., Rouzé, P., Worden, A.Z., Robbens, S., Partensky, F., Degroeve, S., Echeynié, S., Cooke, R., Saeys, Y., Wuyts, J., Jabbari, K., Bowler, C., Panaud, O., Piégu, B., Ball, S.G., Ral, J.-P., Bouget, F.-Y., Piganeau, G., De Baets, B., Pícard, A., Delseny, M., Demaille, J., Van De Peer, Y., Moreau, H.

(2006) - Proceedings of the National Academy of Sciences of the United States of America

DOI
421. Legume genome evolution viewed through the Medicago truncatula and Lotus japonicus genomes

Cannon, S.B., Sterck, L., Rombauts, S., Sato, S., Cheung, F., Gouzy, J., Wang, X., Mudge, J., Vasdewani, J., Scheix, T., Spannagl, M., Monaghan, E., Nicholson, C., Humphray, S.J., Schoof, H., Mayer, K.F.X., Rogers, J., Quétier, F., Oldroyd, G.E., Debellé, F., Cook, D.R., Retzel, E.F., Roe, B.A., Town, C.D., Tabata, S., Van De Peer, Y., Young, N.D.

(2006) - Proceedings of the National Academy of Sciences of the United States of America

DOI
420. Promoter analysis of MADS-box genes in eudicots through phylogenetic footprinting

De Bodt, S., Theissen, G., Van De Peer, Y.

(2006) - Molecular Biology and Evolution

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419. An improved statistical method for detecting heterotachy in nucleotide sequences

Baele, G., Raes, J., Van De Peer, Y., Vansteelandt, S.

(2006) - Molecular Biology and Evolution

DOI
418. The gain and loss of genes during 600 million years of vertebrate evolution

Tine Blomme, Klaas Vandepoele, Stefanie De Bodt, Cedric Simillion, Steven Maere, Yves Van de Peer

(2006) - Genome Biology

DOI
417. The genome of black cottonwood, Populus trichocarpa (Torr. & Gray)

Tuskan, G.A., DiFazio, S., Jansson, S., Bohlmann, J., Grigoriev, I., Hellsten, U., Putnam, M., Ralph, S., Rombauts, S., Salamov, A., Schein, J., Sterck, L., Aerts, A., Bhalerao, R.R., Bhalerao, R.P., Blaudez, D., Boerjan, W., Brun, A., Brunner, A., Busov, V., Campbell, M., Carlson, J., Chalot, M., Chapman, J., Chen, G.-L., Cooper, D., Coutinho, P.M., Couturier, J., Covert, S., Cronk, Q., Cunningham, R., Davis, J., Degroeve, S., Dŕjardin, A., DePamphilis, C., Detter, J., Dirks, B., Dubchak, I., Duplessis, S., Ehlting, J., Ellis, B., Gendler, K., Goodstein, D., Gribskov, M., Grimwood, J., Groover, A., Gunter, L., Hamberger, B., Heinze, B., Helariutta, Y., Henrissat, B., Holligan, D., Holt, R., Huang, W., Islam-Faridi, N., Jones, S., Jones-Rhoades, M., Jorgensen, R., Joshi, C., Kangasjärvi, J., Karlsson, J., Kelleher, C., Kirkpatrick, R., Kirst, M., Kohler, A., Kalluri, U., Larimer, F., Leebens-Mack, J., Leplé, J.-C., Locascio, P., Lou, Y., Lucas, S., Martin, F., Montanini, B., Napoli, C., Nelson, D.R., Nelson, C., Nieminen, K., Nilsson, O., Pereda, V., Peter, G., Philippe, R., Pilate, G., Poliakov, A., Razumovskaya, J., Richardson, P., Rinaldi, C., Ritland, K., Rouzé, P., Ryaboy, D., Schmutz, J., Schrader, J., Segerman, B., Shin, H., Siddiqui, A., Sterky, F., Terry, A., Tsai, C.-J., Uberbacher, E., Unneberg, P., Vahala, J., Wall, K., Wessler, S., Yang, G., Yin, T., Douglas, C., Marra, M., Sandberg, G., Van De Peer, Y., Rokhsar, D.

(2006) - Science

DOI
416. Helicoidal transfer matrix model for inhomogeneous DNA melting

Michoel, T., Van De Peer, Y.

(2006) - Physical Review E - Statistical, Nonlinear, and Soft Matter Physics

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415. Feature ranking using an EDA-based wrapper approach

Saeys, Y., Degroeve, S., Van De Peer, Y.

(2006) - Studies in Fuzziness and Soft Computing

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414. Feature extraction using clustering of protein

Bonet, I., Saeys, Y., Ábalo, R.G., García, M.M., Sanchez, R., Van De Peer, Y.

(2006) - Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)

DOI
413. The small RNA world of plants

Bonnet, E., Van De Peer, Y., Rouzé, P.

(2006) - New Phytologist

DOI
412. Cell cycle regulation in plant development.

Inzé D, De Veylder L

(2006) -

DOI
411. Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thaliana

Casneuf, T, De Bodt, S, Raes, J, Maere, S, Van de Peer, Y

(2006) - Genome Biology

DOI
410. The gain and loss of genes during 600 million years of vertebrate evolution

Blomme, Tine, Vandepoele, Klaas, De Bodt, Stefanie, Simillion, Cedric, Maere, Steven, Van de Peer, Yves

(2006) - Genome Biology

DOI
409. A novel role for abscisic acid emerges from underground

De Smet, I., Zhang, H. M., Inze, D., Beeckman, T.

(2006) - Trends in Plant Science

DOI
408. Lateral root initiation or the birth of a new meristem

De Smet, I., Vanneste, S., Inze, D., Beeckman, T.

(2006) - Plant Molecular Biology

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407. Serpin1 of Arabidopsis thaliana is a suicide inhibitor for metacaspase 9.

Vercammen D, Belenghi B, van de Cotte B, Beunens T, Gavigan JA, De Rycke R, Brackenier A, Inzé D, Harris JL, Van Breusegem F

(2006) -

DOI
406. Somatic cytokinesis and pollen maturation in Arabidopsis depend on TPLATE, which has domains similar to coat proteins.

Van Damme D, Coutuer S, De Rycke R, Bouget FY, Inzé D, Geelen D

(2006) - The Plant cell

DOI
405. A hormone and proteome approach to picturing the initial metabolic events during Plasmodiophora brassicae infection on Arabidopsis.

Devos S, Kris Laukens, Deckers P, Dominique Van Der Straeten, Tom Beeckman, Dirk Inzé, Van Onckelen H, Witters E, Els Prinsen

(2006) - Molecular Plant-Microbe Interactions

DOI
404. SIAMESE, a plant-specific cell cycle regulator, controls endoreplication onset in Arabidopsis thaliana.

Churchman ML, Brown ML, Kato N, Kirik V, Hülskamp M, Inzé D, De Veylder L, Walker JD, Zheng Z, Oppenheimer DG, Gwin T, Churchman J, Larkin JC

(2006) -

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403. The cyclin-dependent kinase inhibitor Orysa;KRP1 plays an important role in seed development of rice.

Barrôco RM, Peres A, Droual AM, De Veylder L, Nguyen le SL, De Wolf J, Mironov V, Peerbolte R, Beemster GT, Inzé D, Broekaert WF, Frankard V

(2006) -

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402. Reactive oxygen species as signals that modulate plant stress responses and programmed cell death.

Gechev TS, Van Breusegem F, Stone JM, Denev I, Laloi C

(2006) -

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401. What if higher plants lack a CDC25 phosphatase?

Boudolf V, Inzé D, De Veylder L

(2006) -

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400. Paternity analysis of Populus nigra L. offspring in a Belgian plantation of native and exotic poplars

Vanden Broeck A, Cottrell, J, Quataert P, Breyne P, Storme V, Boerjan W, Van Slycken J

(2006) - Annals of Forest Science

DOI
399. The Genome of Black Cottonwood, Populus trichocarpa (Torr. & Gray)

G. A. Tuskan, S. DiFazio, S. Jansson, J. Bohlmann, I. Grigoriev, U. Hellsten, N. Putnam, S. Ralph, S. Rombauts, A. Salamov, J. Schein, L. Sterck, A. Aerts, R. R. Bhalerao, R. P. Bhalerao, D. Blaudez, W. Boerjan, A. Brun, A. Brunner, V. Busov, M. Campbell, J. Carlson, M. Chalot, J. Chapman, G.-L. Chen, D. Cooper, P. M. Coutinho, J. Couturier, S. Covert, Q. Cronk, R. Cunningham, J. Davis, S. Degroeve, A. Déjardin, C. dePamphilis, J. Detter, B. Dirks, I. Dubchak, S. Duplessis, J. Ehlting, B. Ellis, K. Gendler, D. Goodstein, M. Gribskov, J. Grimwood, A. Groover, L. Gunter, B. Hamberger, B. Heinze, Y. Helariutta, B. Henrissat, Wout Boerjan

(2006) - Science

DOI
398. Inferring Transcriptional Networks by Mining Omics Data

Tim Van den Bulcke, Karen Lemmens, Yves Van de Peer, Kathleen Marchal

(2006) - Current Bioinformatics

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397. Signaling and Gene Expression for Water-Tolerant Legume Nodulation

Griet Den Herder, Katrien Schroeyers, Marcelle Holsters, Sofie Goormachtig

(2006) - Critical Reviews in Plant Sciences

DOI
396. A novel role for abscisic acid emerges from underground.

Ive De Smet, Zhang H, Dirk Inzé, Tom Beeckman

(2006) - Trends in Plant Science

DOI
395. Genetical metabolomics of flavonoid biosynthesis in Populus: a case study

Kris Morreel, Geert Goeminne, Véronique Storme, Lieven Sterck, John Ralph, Wouter Coppieters, Peter Breyne, Marijke Steenackers, Michel Georges, Eric Messens, Wout Boerjan

(2006) - The Plant Journal

DOI
394. Arabidopsis PASTICCINO2 is an antiphosphatase involved in regulation of cyclin-dependent kinase A.

Da Costa M, Bach L, Landrieu I, Bellec Y, Catrice O, Brown S, De Veylder L, Lippens G, Inzé D, Faure JD

(2006) -

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393. Nitric oxide- and hydrogen peroxide-responsive gene regulation during cell death induction in tobacco.

Zago E, Morsa S, Dat JF, Alard P, Ferrarini A, Inzé D, Delledonne M, Van Breusegem F

(2006) -

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392. Transcriptomic footprints disclose specificity of reactive oxygen species signaling in Arabidopsis.

Gadjev I, Vanderauwera S, Gechev TS, Laloi C, Minkov IN, Shulaev V, Apel K, Inzé D, Mittler R, Van Breusegem F

(2006) -

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391. Reactive oxygen species in plant cell death.

Van Breusegem F, Dat JF

(2006) -

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390. Aging in legume symbiosis. A molecular view on nodule senescence in Medicago truncatula.

Van de Velde W, Guerra JC, De Keyser A, De Rycke R, Rombauts S, Maunoury N, Mergaert P, Kondorosi E, Holsters M, Goormachtig S

(2006) -

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389. Quantitation of artemisinin and its biosynthetic precursors in Artemisia annua L. by high performance liquid chromatography–electrospray quadrupole time-of-flight tandem mass spectrometry

Filip C.W. Van Nieuwerburgh, Sofie R.F. Vande Casteele, Lies Maes, Alain Goossens, Dirk Inzé, Jan Van Bocxlaer, Dieter L.D. Deforce

(2006) - Journal of Chromatography A

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388. Induction of systemic resistance in tomato by N-acyl-L-homoserine lactone-producing rhizosphere bacteria.

Schuhegger R, Ihring A, Gantner S, Bahnweg G, Knappe C, Vogg G, Hutzler P, Schmid M, Van Breusegem F, Eberl L, Hartmann A, Langebartels C

(2006) -

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387. Use of the SSLP-based method for detection of rare apomictic events in a sexual AtSERK1 transgenic Arabidopsis population

Kantama L, Lambert Y, Hu H, Jong Hde, Vries SCde, Russinova E

(2006) -

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386. Gene-to-metabolite networks for terpenoid indole alkaloid biosynthesis in Catharanthus roseus cells

Heiko Rischer, Matej Orešič, Tuulikki Seppänen-Laakso, Mikko Katajamaa, Freya Lammertyn, Wilson Ardiles-Diaz, Marc C. E. Van Montagu, Dirk Inzé, Kirsi-Marja Oksman-Caldentey, Alain Goossens

(2006) - Proceedings of the National Academy of Sciences

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385. The TORNADO1 and TORNADO2 genes function in several patterning processes during early leaf development in Arabidopsis thaliana.

Cnops G, Neyt P, Raes J, Petrarulo M, Nelissen H, Malenica N, Luschnig C, Tietz O, Ditengou F, Palme K, Azmi A, Prinsen E, Van Lijsebettens M

(2006) -

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384. Lateral Root Initiation or the Birth of a New Meristem

Ive De Smet, Steffen Vanneste, Dirk Inzé, Tom Beeckman

(2006) - Plant Molecular Biology

DOI
383. Evolutionary genetics: When duplicated genes don't stick to the rules

Y Van de Peer

(2006) - Heredity

DOI
382. The Arabidopsis SOMATIC EMBRYOGENESIS RECEPTOR-LIKE KINASE1 protein complex includes BRASSINOSTEROID-INSENSITIVE1.

Karlova R, Boeren S, Russinova E, Aker J, Vervoort J, de Vries S

(2006) -

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381. Cell cycle-dependent targeting of a kinesin at the plasma membrane demarcates the division site in plant cells.

Vanstraelen M, Van Damme D, De Rycke R, Mylle E, Inzé D, Geelen D

(2006) - Current biology : CB

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380. The Arabidopsis leaf as a model system for investigating the role of cell cycle regulation in organ growth.

Beemster GT, Vercruysse S, De Veylder L, Kuiper M, Inzé D

(2006) -

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379. A positive signal from the fertilization of the egg cell sets off endosperm proliferation in angiosperm embryogenesis.

Nowack MK, Grini PE, Jakoby MJ, Lafos M, Koncz C, Schnittger A

(2006) -

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