| Year |
Citation |
Score |
| 2024 |
Shi T, Gao Z, Chen J, Van de Peer Y. Dosage sensitivity shapes balanced expression and gene longevity of homoeologs after whole-genome duplications in angiosperms. The Plant Cell. PMID 39121058 DOI: 10.1093/plcell/koae227 |
0.451 |
|
| 2024 |
Milosavljevic S, Kauai F, Mortier F, Van de Peer Y, Bonte D. A metabolic perspective on polyploid invasion and the emergence of life histories: Insights from a mechanistic model. American Journal of Botany. 111: e16387. PMID 39113228 DOI: 10.1002/ajb2.16387 |
0.4 |
|
| 2024 |
Wu T, Bafort Q, Mortier F, Almeida-Silva F, Natran A, Van de Peer Y. The immediate metabolomic effects of whole-genome duplication in the greater duckweed, Spirodela polyrhiza. American Journal of Botany. 111: e16383. PMID 39087852 DOI: 10.1002/ajb2.16383 |
0.438 |
|
| 2024 |
Almeida-Silva F, Prost-Boxoen L, Van de Peer Y. hybridexpress: an R/Bioconductor package for comparative transcriptomic analyses of hybrids and their progenitors. The New Phytologist. PMID 38798271 DOI: 10.1111/nph.19862 |
0.325 |
|
| 2024 |
Kauai F, Bafort Q, Mortier F, Van Montagu M, Bonte D, Van de Peer Y. Interspecific transfer of genetic information through polyploid bridges. Proceedings of the National Academy of Sciences of the United States of America. 121: e2400018121. PMID 38748576 DOI: 10.1073/pnas.2400018121 |
0.372 |
|
| 2024 |
Chen H, Zwaenepoel A, Van de Peer Y. wgd v2: a suite of tools to uncover and date ancient polyploidy and whole-genome duplication. Bioinformatics (Oxford, England). PMID 38632086 DOI: 10.1093/bioinformatics/btae272 |
0.516 |
|
| 2024 |
Salojärvi J, Rambani A, Yu Z, Guyot R, Strickler S, Lepelley M, Wang C, Rajaraman S, Rastas P, Zheng C, Muñoz DS, Meidanis J, Paschoal AR, Bawin Y, Krabbenhoft TJ, ... ... Van de Peer Y, et al. The genome and population genomics of allopolyploid Coffea arabica reveal the diversification history of modern coffee cultivars. Nature Genetics. 56: 721-731. PMID 38622339 DOI: 10.1038/s41588-024-01695-w |
0.355 |
|
| 2024 |
Guo L, Wang S, Jiao X, Ye X, Deng D, Liu H, Li Y, Van de Peer Y, Wu W. Convergent and/or parallel evolution of RNA-binding proteins in angiosperms after polyploidization. The New Phytologist. PMID 38436132 DOI: 10.1111/nph.19656 |
0.401 |
|
| 2024 |
Shi TL, Jia KH, Bao YT, Nie S, Tian XC, Yan XM, Chen ZY, Li ZC, Zhao SW, Ma HY, Zhao Y, Li X, Zhang RG, Guo J, Zhao W, ... ... Van de Peer Y, et al. High-quality genome assembly enables prediction of allele-specific gene expression in hybrid poplar. Plant Physiology. PMID 38412470 DOI: 10.1093/plphys/kiae078 |
0.447 |
|
| 2024 |
Ma X, Vanneste S, Chang J, Ambrosino L, Barry K, Bayer T, Bobrov AA, Boston L, Campbell JE, Chen H, Chiusano ML, Dattolo E, Grimwood J, He G, Jenkins J, ... ... Van de Peer Y, et al. Seagrass genomes reveal ancient polyploidy and adaptations to the marine environment. Nature Plants. PMID 38278954 DOI: 10.1038/s41477-023-01608-5 |
0.529 |
|
| 2023 |
Li X, Yu S, Cheng Z, Chang X, Yun Y, Jiang M, Chen X, Wen X, Li H, Zhu W, Xu S, Xu Y, Wang X, Zhang C, Wu Q, ... ... Van de Peer Y, et al. Origin and evolution of the triploid cultivated banana genome. Nature Genetics. PMID 38082204 DOI: 10.1038/s41588-023-01589-3 |
0.527 |
|
| 2023 |
Zhang Y, Van de Peer Y, Lu B, Zhang S, Che J, Chen J, Marchal K, Yang X. Expression divergence of expansin genes drive the heteroblasty in Ceratopteris chingii. Bmc Biology. 21: 244. PMID 37926805 DOI: 10.1186/s12915-023-01743-7 |
0.437 |
|
| 2023 |
Ebadi M, Bafort Q, Mizrachi E, Audenaert P, Simoens P, Van Montagu M, Bonte D, Van de Peer Y. The duplication of genomes and genetic networks and its potential for evolutionary adaptation and survival during environmental turmoil. Proceedings of the National Academy of Sciences of the United States of America. 120: e2307289120. PMID 37788315 DOI: 10.1073/pnas.2307289120 |
0.393 |
|
| 2023 |
Xue JY, Fan HY, Zeng Z, Zhou YH, Hu SY, Li SX, Cheng YJ, Meng XR, Chen F, Shao ZQ, Van de Peer Y. Comprehensive regulatory networks for tomato organ development based on the genome and RNAome of MicroTom tomato. Horticulture Research. 10: uhad147. PMID 37691964 DOI: 10.1093/hr/uhad147 |
0.365 |
|
| 2023 |
Almeida-Silva F, Van de Peer Y. Whole-genome Duplications and the Long-term Evolution of Gene Regulatory Networks in Angiosperms. Molecular Biology and Evolution. 40. PMID 37405949 DOI: 10.1093/molbev/msad141 |
0.431 |
|
| 2023 |
Ma L, Liu KW, Li Z, Hsiao YY, Qi Y, Fu T, Tang GD, Zhang D, Sun WH, Liu DK, Li Y, Chen GZ, Liu XD, Liao XY, Jiang YT, ... ... Van de Peer Y, et al. Diploid and tetraploid genomes of Acorus and the evolution of monocots. Nature Communications. 14: 3661. PMID 37339946 DOI: 10.1038/s41467-023-38829-3 |
0.502 |
|
| 2023 |
Cao Y, Almeida-Silva F, Zhang WP, Ding YM, Bai D, Bai WN, Zhang BW, Van de Peer Y, Zhang DY. Genomic Insights into Adaptation to Karst Limestone and Incipient Speciation in East Asian spp. (Juglandaceae). Molecular Biology and Evolution. 40: msad121. PMID 37325551 DOI: 10.1093/molbev/msad121/7175457 |
0.426 |
|
| 2023 |
Nikolaidis M, Hesketh A, Frangou N, Mossialos D, Van de Peer Y, Oliver SG, Amoutzias GD. A panoramic view of the genomic landscape of the genus . Microbial Genomics. 9. PMID 37266990 DOI: 10.1099/mgen.0.001028 |
0.509 |
|
| 2023 |
Cao Y, Almeida-Silva F, Zhang WP, Ding YM, Bai D, Bai WN, Zhang BW, Van de Peer Y, Zhang DY. Genomic Insights into Adaptation to Karst Limestone and Incipient Speciation in East Asian Platycarya spp. (Juglandaceae). Molecular Biology and Evolution. PMID 37216901 DOI: 10.1093/molbev/msad121 |
0.399 |
|
| 2023 |
Song A, Su J, Wang H, Zhang Z, Zhang X, Van de Peer Y, Chen F, Fang W, Guan Z, Zhang F, Wang Z, Wang L, Ding B, Zhao S, Ding L, et al. Analyses of a chromosome-scale genome assembly reveal the origin and evolution of cultivated chrysanthemum. Nature Communications. 14: 2021. PMID 37037808 DOI: 10.1038/s41467-023-37730-3 |
0.508 |
|
| 2023 |
Kauai F, Mortier F, Milosavljevic S, Van de Peer Y, Bonte D. Neutral processes underlying the macro eco-evolutionary dynamics of mixed-ploidy systems. Proceedings. Biological Sciences. 290: 20222456. PMID 36946113 DOI: 10.1098/rspb.2022.2456 |
0.324 |
|
| 2023 |
Wu T, Natran A, Prost L, Aydogdu E, Van de Peer Y, Bafort Q. Studying Whole-Genome Duplication Using Experimental Evolution of Spirodela polyrhiza. Methods in Molecular Biology (Clifton, N.J.). 2545: 373-390. PMID 36720823 DOI: 10.1007/978-1-0716-2561-3_19 |
0.356 |
|
| 2023 |
Bafort Q, Prost L, Aydogdu E, Van de Vloet A, Casteleyn G, Van de Peer Y, De Clerck O. Studying Whole-Genome Duplication Using Experimental Evolution of Chlamydomonas. Methods in Molecular Biology (Clifton, N.J.). 2545: 351-372. PMID 36720822 DOI: 10.1007/978-1-0716-2561-3_18 |
0.346 |
|
| 2023 |
Li J, Van de Peer Y, Li Z. Inference of Ancient Polyploidy Using Transcriptome Data. Methods in Molecular Biology (Clifton, N.J.). 2545: 47-76. PMID 36720807 DOI: 10.1007/978-1-0716-2561-3_3 |
0.516 |
|
| 2023 |
Xue JY, Li Z, Hu SY, Kao SM, Zhao T, Wang JY, Wang Y, Chen M, Qiu Y, Fan HY, Liu Y, Shao ZQ, Van de Peer Y. The Saururus chinensis genome provides insights into the evolution of pollination strategies and herbaceousness in magnoliids. The Plant Journal : For Cell and Molecular Biology. PMID 36602036 DOI: 10.1111/tpj.16097 |
0.524 |
|
| 2022 |
Chang J, Duong TA, Schoeman C, Ma X, Roodt D, Barker N, Li Z, Van de Peer Y, Mizrachi E. The Genome of the King Protea, Protea cynaroides. The Plant Journal : For Cell and Molecular Biology. PMID 36424853 DOI: 10.1111/tpj.16044 |
0.509 |
|
| 2022 |
Chen H, Fang Y, Zwaenepoel A, Huang S, Van de Peer Y, Li Z. Revisiting ancient polyploidy in leptosporangiate ferns. The New Phytologist. PMID 36349406 DOI: 10.1111/nph.18607 |
0.512 |
|
| 2022 |
Zhang Y, Yang X, Van de Peer Y, Chen J, Marchal K, Shi T. Evolution of isoform-level gene expression patterns across tissues during lotus species divergence. The Plant Journal : For Cell and Molecular Biology. PMID 36123806 DOI: 10.1111/tpj.15984 |
0.47 |
|
| 2022 |
Peng R, Xu Y, Tian S, Unver T, Liu Z, Zhou Z, Cai X, Wang K, Wei Y, Liu Y, Wang H, Hu G, Zhang Z, Grover CE, Hou Y, ... ... Van de Peer Y, et al. Evolutionary divergence of duplicated genomes in newly described allotetraploid cottons. Proceedings of the National Academy of Sciences of the United States of America. 119: e2208496119. PMID 36122204 DOI: 10.1073/pnas.2208496119 |
0.55 |
|
| 2022 |
Fang Y, Qin X, Liao Q, Du R, Luo X, Zhou Q, Li Z, Chen H, Jin W, Yuan Y, Sun P, Zhang R, Zhang J, Wang L, Cheng S, ... ... Van de Peer Y, et al. The genome of homosporous maidenhair fern sheds light on the euphyllophyte evolution and defences. Nature Plants. PMID 36050462 DOI: 10.1038/s41477-022-01222-x |
0.529 |
|
| 2022 |
Chang J, Marczuk-Rojas JP, Waterman C, Garcia-Llanos A, Chen S, Ma X, Hulse-Kemp A, Van Deynze A, Van de Peer Y, Carretero-Paulet L. Chromosome-scale assembly of the Moringa oleifera Lam. genome uncovers polyploid history and evolution of secondary metabolism pathways through tandem duplication. The Plant Genome. e20238. PMID 35894687 DOI: 10.1002/tpg2.20238 |
0.542 |
|
| 2022 |
Catania T, Li Y, Winzer T, Harvey D, Meade F, Caridi A, Leech A, Larson TR, Ning Z, Chang J, Van de Peer Y, Graham IA. Author Correction: A functionally conserved STORR gene fusion in Papaver species that diverged 16.8 million years ago. Nature Communications. 13: 3755. PMID 35768458 DOI: 10.1038/s41467-022-31568-x |
0.329 |
|
| 2022 |
Zhang T, Qiao Q, Du X, Zhang X, Hou Y, Wei X, Sun C, Zhang R, Yun Q, Crabbe MJC, Van de Peer Y, Dong W. Cultivated hawthorn (Crataegus pinnatifida var. major) genome sheds light on the evolution of Maleae (apple tribe). Journal of Integrative Plant Biology. PMID 35748532 DOI: 10.1111/jipb.13318 |
0.563 |
|
| 2022 |
Catania T, Li Y, Winzer T, Harvey D, Meade F, Caridi A, Leech A, Larson TR, Ning Z, Chang J, Van de Peer Y, Graham IA. A functionally conserved STORR gene fusion in Papaver species that diverged 16.8 million years ago. Nature Communications. 13: 3150. PMID 35672295 DOI: 10.1038/s41467-022-30856-w |
0.348 |
|
| 2022 |
Wang Z, Xue JY, Hu SY, Zhang F, Yu R, Chen D, Van de Peer Y, Jiang J, Song A, Ni L, Hua J, Lu Z, Yu C, Yin Y, Gu C. The genome of reveals its adaptation to saline and waterlogged habitat. Horticulture Research. 9: uhac067. PMID 35480957 DOI: 10.1093/hr/uhac067 |
0.531 |
|
| 2022 |
Xu Z, Li Z, Ren F, Gao R, Wang Z, Zhang J, Zhao T, Ma X, Pu X, Xin T, Rombauts S, Sun W, Van de Peer Y, Chen S, Song J. The genome of Corydalis reveals the evolution of benzylisoquinoline alkaloid biosynthesis in Ranunculales. The Plant Journal : For Cell and Molecular Biology. PMID 35476217 DOI: 10.1111/tpj.15788 |
0.578 |
|
| 2022 |
Li MH, Liu KW, Li Z, Lu HC, Ye QL, Zhang D, Wang JY, Li YF, Zhong ZM, Liu X, Yu X, Liu DK, Tu XD, Liu B, Hao Y, ... ... Van de Peer Y, et al. Genomes of leafy and leafless Platanthera orchids illuminate the evolution of mycoheterotrophy. Nature Plants. 8: 373-388. PMID 35449401 DOI: 10.1038/s41477-022-01127-9 |
0.526 |
|
| 2022 |
Sun C, Xie YH, Li Z, Liu YJ, Sun XM, Li JJ, Quan WP, Zeng QY, Van de Peer Y, Zhang SG. The Larix kaempferi genome reveals new insights into wood properties. Journal of Integrative Plant Biology. PMID 35442564 DOI: 10.1111/jipb.13265 |
0.557 |
|
| 2022 |
Liu Y, Wang S, Li L, Yang T, Dong S, Wei T, Wu S, Liu Y, Gong Y, Feng X, Ma J, Chang G, Huang J, Yang Y, Wang H, ... ... Van de Peer Y, et al. The Cycas genome and the early evolution of seed plants. Nature Plants. PMID 35437001 DOI: 10.1038/s41477-022-01129-7 |
0.555 |
|
| 2022 |
Wang ZH, Wang XF, Lu T, Li MR, Jiang P, Zhao J, Liu ST, Fu XQ, Wendel JF, Van de Peer Y, Liu B, Li LF. Reshuffling of the ancestral core-eudicot genome shaped chromatin topology and epigenetic modification in Panax. Nature Communications. 13: 1902. PMID 35393424 DOI: 10.1038/s41467-022-29561-5 |
0.535 |
|
| 2022 |
Li L, Chen X, Fang D, Dong S, Guo X, Li N, Campos-Dominguez L, Wang W, Liu Y, Lang X, Peng Y, Tian D, Thomas DC, Mu W, Liu M, ... ... Van de Peer Y, et al. Genomes shed light on the evolution of Begonia, a mega-diverse genus. The New Phytologist. PMID 34997964 DOI: 10.1111/nph.17949 |
0.525 |
|
| 2022 |
Deneweth J, Van de Peer Y, Vermeirssen V. Nearby transposable elements impact plant stress gene regulatory networks: a meta-analysis in A. thaliana and S. lycopersicum. Bmc Genomics. 23: 18. PMID 34983397 DOI: 10.1186/s12864-021-08215-8 |
0.472 |
|
| 2022 |
Xu H, Li Z, Jiang PF, Zhao L, Qu C, Van de Peer Y, Liu YJ, Zeng QY. Divergence of Active Site Motifs among Different Classes of Populus Glutaredoxins Results in Substrate Switches. The Plant Journal : For Cell and Molecular Biology. PMID 34981873 DOI: 10.1111/tpj.15660 |
0.347 |
|
| 2021 |
Gonçalves MFM, Hilário S, Van de Peer Y, Esteves AC, Alves A. Genomic and Metabolomic Analyses of the Marine Fungus : Insights into Saltwater Adaptability Mechanisms and Its Biosynthetic Potential. Journal of Fungi (Basel, Switzerland). 8. PMID 35049971 DOI: 10.3390/jof8010031 |
0.47 |
|
| 2021 |
Gonçalves MFM, Hilário S, Tacão M, Van de Peer Y, Alves A, Esteves AC. Genome and Metabolome MS-Based Mining of a Marine Strain of . Journal of Fungi (Basel, Switzerland). 7. PMID 34947073 DOI: 10.3390/jof7121091 |
0.304 |
|
| 2021 |
Ai Y, Li Z, Sun WH, Chen J, Zhang D, Ma L, Zhang QH, Chen MK, Zheng QD, Liu JF, Jiang YT, Li BJ, Liu X, Xu XY, Yu X, ... ... Van de Peer Y, et al. Correction: The Cymbidium genome reveals the evolution of unique morphological traits. Horticulture Research. 8: 264. PMID 34907207 DOI: 10.1038/s41438-021-00709-6 |
0.455 |
|
| 2021 |
Ai Y, Li Z, Sun WH, Chen J, Zhang D, Ma L, Zhang QH, Chen MK, Zheng QD, Liu JF, Jiang YT, Li BJ, Liu X, Xu XY, Yu X, ... ... Van de Peer Y, et al. The Cymbidium genome reveals the evolution of unique morphological traits. Horticulture Research. 8: 255. PMID 34848682 DOI: 10.1038/s41438-021-00683-z |
0.542 |
|
| 2021 |
Qiao Q, Edger PP, Xue L, Qiong, Lu J, Zhang Y, Cao Q, Yocca AE, Platts AE, Knapp SJ, Van Montagu M, Van de Peer Y, Lei J, Zhang T. Evolutionary history and pan-genome dynamics of strawberry ( spp.). Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 34697247 DOI: 10.1073/pnas.2105431118 |
0.543 |
|
| 2021 |
Song C, Fu F, Yang L, Niu Y, Tian Z, He X, Yang X, Chen J, Sun W, Wan T, Zhang H, Yang Y, Xiao T, Dossa K, Meng X, ... ... Van de Peer Y, et al. Taxus yunnanensis genome offers insights into gymnosperm phylogeny and taxol production. Communications Biology. 4: 1203. PMID 34671091 DOI: 10.1038/s42003-021-02697-8 |
0.493 |
|
| 2021 |
Nikolaidis M, Markoulatos P, Van de Peer Y, Oliver SG, Amoutzias GD. The neighborhood of the Spike gene is a hotspot for modular intertypic homologous and non-homologous recombination in Coronavirus genomes. Molecular Biology and Evolution. PMID 34638137 DOI: 10.1093/molbev/msab292 |
0.46 |
|
| 2021 |
Ma X, Olsen JL, Reusch TBH, Procaccini G, Kudrna D, Williams M, Grimwood J, Rajasekar S, Jenkins J, Schmutz J, Van de Peer Y. Improved chromosome-level genome assembly and annotation of the seagrass, (eelgrass). F1000research. 10: 289. PMID 34621505 DOI: 10.12688/f1000research.38156.1 |
0.487 |
|
| 2021 |
Sun WH, Li Z, Xiang S, Ni L, Zhang D, Chen DQ, Qiu MY, Zhang QG, Xiao L, Din L, Li Y, Liao XY, Liu XD, Jiang YT, Zhang PL, ... ... Van de Peer Y, et al. The Euscaphis japonica genome and the evolution of malvids. The Plant Journal : For Cell and Molecular Biology. PMID 34587334 DOI: 10.1111/tpj.15518 |
0.421 |
|
| 2021 |
Hale I, Ma X, Melo ATO, Padi FK, Hendre PS, Kingan SB, Sullivan ST, Chen S, Boffa JM, Muchugi A, Danquah A, Barnor MT, Jamnadass R, Van de Peer Y, Van Deynze A. Genomic Resources to Guide Improvement of the Shea Tree. Frontiers in Plant Science. 12: 720670. PMID 34567033 DOI: 10.3389/fpls.2021.720670 |
0.535 |
|
| 2021 |
Li Z, Van de Peer Y. A non-duplicated magnoliid genome. Nature Plants. PMID 34475527 DOI: 10.1038/s41477-021-00989-9 |
0.461 |
|
| 2021 |
Jia KH, Liu H, Zhang RG, Xu J, Zhou SS, Jiao SQ, Yan XM, Tian XC, Shi TL, Luo H, Li ZC, Bao YT, Nie S, Guo JF, Porth I, ... ... Van de Peer Y, et al. Chromosome-scale assembly and evolution of the tetraploid Salvia splendens (Lamiaceae) genome. Horticulture Research. 8: 177. PMID 34465761 DOI: 10.1038/s41438-021-00614-y |
0.55 |
|
| 2021 |
De Vos S, Rombauts S, Coussement L, Dermauw W, Vuylsteke M, Sorgeloos P, Clegg JS, Nambu Z, Van Nieuwerburgh F, Norouzitallab P, Van Leeuwen T, De Meyer T, Van Stappen G, Van de Peer Y, Bossier P. The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments. Bmc Genomics. 22: 635. PMID 34465293 DOI: 10.1186/s12864-021-07937-z |
0.338 |
|
| 2021 |
Yuan Z, Druzhinina IS, Gibbons JG, Zhong Z, Van de Peer Y, Rodriguez RJ, Liu Z, Wang X, Wei H, Wu Q, Wang J, Shi G, Cai F, Peng L, Martin FM. Correction: Divergence of a genomic island leads to the evolution of melanization in a halophyte root fungus. The Isme Journal. PMID 34408269 DOI: 10.1038/s41396-021-01083-w |
0.483 |
|
| 2021 |
Cheng SP, Jia KH, Liu H, Zhang RG, Li ZC, Zhou SS, Shi TL, Ma AC, Yu CW, Gao C, Cao GL, Zhao W, Nie S, Guo JF, Jiao SQ, ... ... Van de Peer Y, et al. Haplotype-resolved genome assembly and allele-specific gene expression in cultivated ginger. Horticulture Research. 8: 188. PMID 34354050 DOI: 10.1038/s41438-021-00599-8 |
0.464 |
|
| 2021 |
Ma YP, Wariss HM, Liao RL, Zhang RG, Yun QZ, Olmstead RG, Chau JH, Milne RI, Van de Peer Y, Sun WB. Genome-wide analysis of butterfly bush (Buddleja alternifolia) in three uplands provides insights into biogeography, demography and speciation. The New Phytologist. PMID 34292587 DOI: 10.1111/nph.17637 |
0.414 |
|
| 2021 |
Wan T, Liu Z, Leitch IJ, Xin H, Maggs-Kölling G, Gong Y, Li Z, Marais E, Liao Y, Dai C, Liu F, Wu Q, Song C, Zhou Y, Huang W, ... ... Van de Peer Y, et al. The Welwitschia genome reveals a unique biology underpinning extreme longevity in deserts. Nature Communications. 12: 4247. PMID 34253727 DOI: 10.1038/s41467-021-24528-4 |
0.532 |
|
| 2021 |
Yuan Z, Druzhinina IS, Gibbons JG, Zhong Z, Van de Peer Y, Rodriguez RJ, Liu Z, Wang X, Wei H, Wu Q, Wang J, Shi G, Cai F, Peng L, Martin FM. Divergence of a genomic island leads to the evolution of melanization in a halophyte root fungus. The Isme Journal. PMID 34108667 DOI: 10.1038/s41396-021-01023-8 |
0.439 |
|
| 2021 |
Zhao T, Zwaenepoel A, Xue JY, Kao SM, Li Z, Schranz ME, Van de Peer Y. Whole-genome microsynteny-based phylogeny of angiosperms. Nature Communications. 12: 3498. PMID 34108452 DOI: 10.1038/s41467-021-23665-0 |
0.515 |
|
| 2021 |
Cao YL, Li YL, Fan YF, Li Z, Yoshida K, Wang JY, Ma XK, Wang N, Mitsuda N, Kotake T, Ishimizu T, Tsai KC, Niu SC, Zhang D, Sun WH, ... ... Van de Peer Y, et al. Wolfberry genomes and the evolution of Lycium (Solanaceae). Communications Biology. 4: 671. PMID 34083720 DOI: 10.1038/s42003-021-02152-8 |
0.606 |
|
| 2021 |
Ma X, Vaistij FE, Li Y, Jansen van Rensburg WS, Harvey S, Bairu MW, Venter SL, Mavengahama S, Ning Z, Graham IA, Van Deynze A, Van de Peer Y, Denby KJ. A chromosome-level Amaranthus cruentus genome assembly highlights gene family evolution and biosynthetic gene clusters that may underpin the nutritional value of this traditional crop. The Plant Journal : For Cell and Molecular Biology. PMID 33960539 DOI: 10.1111/tpj.15298 |
0.502 |
|
| 2021 |
Van de Peer Y, Ashman TL, Soltis PS, Soltis DE. Polyploidy: an evolutionary and ecological force in stressful times. The Plant Cell. 33: 11-26. PMID 33751096 DOI: 10.1093/plcell/koaa015 |
0.365 |
|
| 2021 |
Farhat S, Le P, Kayal E, Noel B, Bigeard E, Corre E, Maumus F, Florent I, Alberti A, Aury JM, Barbeyron T, Cai R, Da Silva C, Istace B, Labadie K, ... ... Van de Peer Y, et al. Rapid protein evolution, organellar reductions, and invasive intronic elements in the marine aerobic parasite dinoflagellate Amoebophrya spp. Bmc Biology. 19: 1. PMID 33407428 DOI: 10.1186/s12915-020-00927-9 |
0.45 |
|
| 2020 |
Liu H, Lyu HM, Zhu K, Van de Peer Y, Cheng ZM. The emergence and evolution of intron-poor and intronless genes in intron-rich plant gene families. The Plant Journal : For Cell and Molecular Biology. PMID 33217085 DOI: 10.1111/tpj.15088 |
0.423 |
|
| 2020 |
Verlinden H, Sterck L, Li J, Li Z, Yssel A, Gansemans Y, Verdonck R, Holtof M, Song H, Behmer ST, Sword GA, Matheson T, Ott SR, Deforce D, Van Nieuwerburgh F, ... Van de Peer Y, et al. First draft genome assembly of the desert locust, . F1000research. 9: 775. PMID 33163158 DOI: 10.12688/f1000research.25148.2 |
0.503 |
|
| 2020 |
Chen D, Zhang Q, Tang W, Huang Z, Wang G, Wang Y, Shi J, Xu H, Lin L, Li Z, Chi W, Huang L, Xia J, Zhang X, Guo L, ... ... Van de Peer Y, et al. The evolutionary origin and domestication history of goldfish (). Proceedings of the National Academy of Sciences of the United States of America. PMID 33139555 DOI: 10.1073/pnas.2005545117 |
0.497 |
|
| 2020 |
Greenhalgh R, Dermauw W, Glas JJ, Rombauts S, Wybouw N, Thomas J, Alba JM, Pritham EJ, Legarrea S, Feyereisen R, Van de Peer Y, Van Leeuwen T, Clark RM, Kant MR. Genome streamlining in a minute herbivore that manipulates its host plant. Elife. 9. PMID 33095158 DOI: 10.7554/eLife.56689 |
0.536 |
|
| 2020 |
Yang FS, Nie S, Liu H, Shi TL, Tian XC, Zhou SS, Bao YT, Jia KH, Guo JF, Zhao W, An N, Zhang RG, Yun QZ, Wang XZ, Mannapperuma C, ... ... Van de Peer Y, et al. Chromosome-level genome assembly of a parent species of widely cultivated azaleas. Nature Communications. 11: 5269. PMID 33077749 DOI: 10.1038/s41467-020-18771-4 |
0.531 |
|
| 2020 |
Carretero-Paulet L, Van de Peer Y. The evolutionary conundrum of whole-genome duplication. American Journal of Botany. 107: 1101-1105. PMID 32815563 DOI: 10.1002/ajb2.1520 |
0.505 |
|
| 2020 |
Zhang GQ, Liu KW, Li Z, Lohaus R, Hsiao YY, Niu SC, Wang JY, Lin YC, Xu Q, Chen LJ, Yoshida K, Fujiwara S, Wang ZW, Zhang YQ, Mitsuda N, ... ... Van de Peer Y, et al. Author Correction: The Apostasia genome and the evolution of orchids. Nature. PMID 32681116 DOI: 10.1038/s41586-020-2524-1 |
0.366 |
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| 2020 |
Li L, Wang S, Wang H, Sahu SK, Marin B, Li H, Xu Y, Liang H, Li Z, Cheng S, Reder T, Çebi Z, Wittek S, Petersen M, Melkonian B, ... ... Van de Peer Y, et al. Author Correction: The genome of Prasinoderma coloniale unveils the existence of a third phylum within green plants. Nature Ecology & Evolution. PMID 32678322 DOI: 10.1038/S41559-020-1268-5 |
0.378 |
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| 2020 |
Fox DT, Soltis DE, Soltis PS, Ashman TL, Van de Peer Y. Polyploidy: A Biological Force From Cells to Ecosystems. Trends in Cell Biology. PMID 32646579 DOI: 10.1016/J.Tcb.2020.06.006 |
0.362 |
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| 2020 |
Li L, Wang S, Wang H, Sahu SK, Marin B, Li H, Xu Y, Liang H, Li Z, Cheng S, Reder T, Çebi Z, Wittek S, Petersen M, Melkonian B, ... ... Van de Peer Y, et al. The genome of Prasinoderma coloniale unveils the existence of a third phylum within green plants. Nature Ecology & Evolution. PMID 32572216 DOI: 10.1038/S41559-020-1221-7 |
0.512 |
|
| 2020 |
Roelofs D, Zwaenepoel A, Sistermans T, Nap J, Kampfraath AA, Van de Peer Y, Ellers J, Kraaijeveld K. Multi-faceted analysis provides little evidence for recurrent whole-genome duplications during hexapod evolution. Bmc Biology. 18: 57. PMID 32460826 DOI: 10.1186/S12915-020-00789-1 |
0.54 |
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| 2020 |
Novikova PY, Brennan IG, Booker W, Mahony M, Doughty P, Lemmon AR, Moriarty Lemmon E, Roberts JD, Yant L, Van de Peer Y, Keogh JS, Donnellan SC. Polyploidy breaks speciation barriers in Australian burrowing frogs Neobatrachus. Plos Genetics. 16: e1008769. PMID 32392206 DOI: 10.1371/Journal.Pgen.1008769 |
0.406 |
|
| 2020 |
Zwaenepoel A, Van de Peer Y. Model-based detection of whole-genome duplications in a phylogeny. Molecular Biology and Evolution. PMID 32359154 DOI: 10.1093/molbev/msaa111 |
0.433 |
|
| 2020 |
Shi T, Rahmani RS, Gugger PF, Wang M, Li H, Zhang Y, Li Z, Wang Q, Van de Peer Y, Marchal K, Chen J. Distinct expression and methylation patterns for genes with different fates following a single whole-genome duplication in flowering plant. Molecular Biology and Evolution. PMID 32343808 DOI: 10.1093/molbev/msaa105 |
0.513 |
|
| 2020 |
Yau S, Krasovec M, Benites LF, Rombauts S, Groussin M, Vancaester E, Aury JM, Derelle E, Desdevises Y, Escande ML, Grimsley N, Guy J, Moreau H, Sanchez-Brosseau S, van de Peer Y, et al. Virus-host coexistence in phytoplankton through the genomic lens. Science Advances. 6: eaay2587. PMID 32270031 DOI: 10.1126/Sciadv.Aay2587 |
0.795 |
|
| 2020 |
Chen YC, Li Z, Zhao YX, Gao M, Wang JY, Liu KW, Wang X, Wu LW, Jiao YL, Xu ZL, He WG, Zhang QY, Liang CK, Hsiao YY, Zhang DY, ... ... Van de Peer Y, et al. The Litsea genome and the evolution of the laurel family. Nature Communications. 11: 1675. PMID 32245969 DOI: 10.1038/s41467-020-15493-5 |
0.517 |
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| 2020 |
Welgemoed T, Pierneef R, Sterck L, Van de Peer Y, Swart V, Scheepers KD, Berger DK. Assembly of Transcriptomes From a B73 Maize Line Introgressed With a QTL for Resistance to Gray Leaf Spot Disease Reveals a Candidate Allele of a Lectin Receptor-Like Kinase. Frontiers in Plant Science. 11: 191. PMID 32231673 DOI: 10.3389/fpls.2020.00191 |
0.319 |
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| 2020 |
Pu X, Li Z, Tian Y, Gao R, Hao L, Hu Y, He C, Sun W, Xu M, Peters RJ, Van de Peer Y, Xu Z, Song J. The honeysuckle genome provides insight into the molecular mechanism of carotenoid metabolism underlying dynamic flower coloration. The New Phytologist. PMID 32187685 DOI: 10.1111/Nph.16552 |
0.43 |
|
| 2020 |
Zhang J, Fu XX, Li RQ, Zhao X, Liu Y, Li MH, Zwaenepoel A, Ma H, Goffinet B, Guan YL, Xue JY, Liao YY, Wang QF, Wang QH, Wang JY, ... ... Van de Peer Y, et al. The hornwort genome and early land plant evolution. Nature Plants. PMID 32042158 DOI: 10.1038/S41477-019-0588-4 |
0.523 |
|
| 2019 |
Zhang L, Chen F, Zhang X, Li Z, Zhao Y, Lohaus R, Chang X, Dong W, Ho SYW, Liu X, Song A, Chen J, Guo W, Wang Z, Zhuang Y, ... ... Van de Peer Y, et al. The water lily genome and the early evolution of flowering plants. Nature. PMID 31853069 DOI: 10.1038/S41586-019-1852-5 |
0.525 |
|
| 2019 |
Wang S, Li L, Li H, Sahu SK, Wang H, Xu Y, Xian W, Song B, Liang H, Cheng S, Chang Y, Song Y, Çebi Z, Wittek S, Reder T, ... ... Van de Peer Y, et al. Genomes of early-diverging streptophyte algae shed light on plant terrestrialization. Nature Plants. PMID 31844283 DOI: 10.1038/S41477-019-0560-3 |
0.518 |
|
| 2019 |
Tan MP, Wong LL, Razali SA, Afiqah-Aleng N, Mohd Nor SA, Sung YY, Van de Peer Y, Sorgeloos P, Danish-Daniel M. Applications of Next-Generation Sequencing Technologies and Computational Tools in Molecular Evolution and Aquatic Animals Conservation Studies: A Short Review. Evolutionary Bioinformatics Online. 15: 1176934319892284. PMID 31839703 DOI: 10.1177/1176934319892284 |
0.371 |
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| 2019 |
Gonçalves MFM, Nunes RB, Tilleman L, Van de Peer Y, Deforce D, Van Nieuwerburgh F, Esteves AC, Alves A. Dual RNA Sequencing of during Infection Unveils Host-Pathogen Interactions. International Journal of Molecular Sciences. 20. PMID 31816814 DOI: 10.3390/Ijms20236083 |
0.361 |
|
| 2019 |
Linsmith G, Rombauts S, Montanari S, Deng CH, Celton JM, Guérif P, Liu C, Lohaus R, Zurn JD, Cestaro A, Bassil NV, Bakker LV, Schijlen E, Gardiner SE, Lespinasse Y, ... ... Van de Peer Y, et al. Pseudo-chromosome-length genome assembly of a double haploid "Bartlett" pear (Pyrus communis L.). Gigascience. 8. PMID 31816089 DOI: 10.1093/gigascience/giz138 |
0.376 |
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| 2019 |
Yssel AEJ, Kao SM, Van de Peer Y, Sterck L. ORCAE-AOCC: A Centralized Portal for the Annotation of African Orphan Crop Genomes. Genes. 10. PMID 31757073 DOI: 10.3390/genes10120950 |
0.523 |
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| 2019 |
Burgess STG, Marr EJ, Bartley K, Nunn FG, Down RE, Weaver RJ, Prickett JC, Dunn J, Rombauts S, Van Leeuwen T, Van de Peer Y, Nisbet AJ. A genomic analysis and transcriptomic atlas of gene expression in Psoroptes ovis reveals feeding- and stage-specific patterns of allergen expression. Bmc Genomics. 20: 756. PMID 31640546 DOI: 10.1186/s12864-019-6082-6 |
0.374 |
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| 2019 |
Yao Y, Carretero-Paulet L, Van de Peer Y. Using digital organisms to study the evolutionary consequences of whole genome duplication and polyploidy. Plos One. 14: e0220257. PMID 31365541 DOI: 10.1371/journal.pone.0220257 |
0.473 |
|
| 2019 |
Defoort J, Van de Peer Y, Carretero-Paulet L. The evolution of gene duplicates in angiosperms and the impact of protein-protein interactions and the mechanism of duplication. Genome Biology and Evolution. PMID 31364708 DOI: 10.1093/gbe/evz156 |
0.471 |
|
| 2019 |
Roodt D, Li Z, Van de Peer Y, Mizrachi E. Loss of wood formation genes in monocot genomes. Genome Biology and Evolution. PMID 31173081 DOI: 10.1093/gbe/evz115 |
0.549 |
|
| 2019 |
Zwaenepoel A, Van de Peer Y. Inference of ancient whole genome duplications and the evolution of the gene duplication and loss rate. Molecular Biology and Evolution. PMID 31004147 DOI: 10.1093/molbev/msz088 |
0.415 |
|
| 2019 |
Zhang T, Qiao Q, Novikova PY, Wang Q, Yue J, Guan Y, Ming S, Liu T, De J, Liu Y, Al-Shehbaz IA, Sun H, Van Montagu M, Huang J, Van de Peer Y, et al. Genome of , a close relative of , shows ecological adaptation to high altitude. Proceedings of the National Academy of Sciences of the United States of America. PMID 30894495 DOI: 10.1073/pnas.1817580116 |
0.502 |
|
| 2019 |
Navia D, Novelli VM, Rombauts S, Freitas-Astúa J, Santos de Mendonça R, Nunes MA, Machado MA, Lin YC, Le P, Zhang Z, Grbić M, Wybouw N, Breeuwer JAJ, Van Leeuwen T, Van de Peer Y. Draft Genome Assembly of the False Spider Mite . Microbiology Resource Announcements. 8. PMID 30746524 DOI: 10.1128/MRA.01563-18 |
0.506 |
|
| 2018 |
Khayi S, Azza NE, Gaboun F, Pirro S, Badad O, Claros MG, Lightfoot DA, Unver T, Chaouni B, Merrouch R, Rahim B, Essayeh S, Ganoudi M, Abdelwahd R, Diria G, ... ... Van de Peer Y, et al. First draft genome assembly of the Argane tree ( ). F1000research. 7: 1310. PMID 32509273 DOI: 10.12688/f1000research.15719.2 |
0.49 |
|
| 2018 |
Zwaenepoel A, Li Z, Lohaus R, Van de Peer Y. Finding evidence for whole genome duplications: a reappraisal. Molecular Plant. PMID 30599206 DOI: 10.1016/j.molp.2018.12.019 |
0.476 |
|
| 2018 |
Burgess STG, Bartley K, Nunn F, Wright HW, Hughes M, Gemmell M, Haldenby S, Paterson S, Rombauts S, Tomley FM, Blake DP, Pritchard J, Schicht S, Strube C, Øines Ø, ... ... Van de Peer Y, et al. Draft Genome Assembly of the Poultry Red Mite, . Microbiology Resource Announcements. 7. PMID 30533782 DOI: 10.1128/MRA.01221-18 |
0.514 |
|
| 2018 |
Zwaenepoel A, Van de Peer Y. wgd - simple command line tools for the analysis of ancient whole genome duplications. Bioinformatics (Oxford, England). PMID 30398564 DOI: 10.1093/bioinformatics/bty915 |
0.456 |
|
| 2018 |
Lin YC, Wang J, Delhomme N, Schiffthaler B, Sundström G, Zuccolo A, Nystedt B, Hvidsten TR, de la Torre A, Cossu RM, Hoeppner MP, Lantz H, Scofield DG, Zamani N, Johansson A, ... ... Van de Peer Y, et al. Functional and evolutionary genomic inferences in through genome and population sequencing of American and European aspen. Proceedings of the National Academy of Sciences of the United States of America. PMID 30373829 DOI: 10.1073/pnas.1801437115 |
0.52 |
|
| 2018 |
De Clerck O, Kao SM, Bogaert KA, Blomme J, Foflonker F, Kwantes M, Vancaester E, Vanderstraeten L, Aydogdu E, Boesger J, Califano G, Charrier B, Clewes R, Del Cortona A, D'Hondt S, ... ... Van de Peer Y, et al. Insights into the Evolution of Multicellularity from the Sea Lettuce Genome. Current Biology : Cb. PMID 30220504 DOI: 10.1016/J.Cub.2018.08.015 |
0.859 |
|
| 2018 |
Heydari M, Miclotte G, Van de Peer Y, Fostier J. BrownieAligner: accurate alignment of Illumina sequencing data to de Bruijn graphs. Bmc Bioinformatics. 19: 311. PMID 30180801 DOI: 10.1186/s12859-018-2319-7 |
0.39 |
|
| 2018 |
Nishiyama T, Sakayama H, de Vries J, Buschmann H, Saint-Marcoux D, Ullrich KK, Haas FB, Vanderstraeten L, Becker D, Lang D, Vosolsobě S, Rombauts S, Wilhelmsson PKI, Janitza P, Kern R, ... ... Van de Peer Y, et al. The Chara Genome: Secondary Complexity and Implications for Plant Terrestrialization. Cell. 174: 448-464.e24. PMID 30007417 DOI: 10.1016/J.Cell.2018.06.033 |
0.427 |
|
| 2018 |
Li FW, Brouwer P, Carretero-Paulet L, Cheng S, de Vries J, Delaux PM, Eily A, Koppers N, Kuo LY, Li Z, Simenc M, Small I, Wafula E, Angarita S, Barker MS, ... ... Van de Peer Y, et al. Fern genomes elucidate land plant evolution and cyanobacterial symbioses. Nature Plants. PMID 29967517 DOI: 10.1038/S41477-018-0188-8 |
0.593 |
|
| 2018 |
Defoort J, Van de Peer Y, Vermeirssen V. Function, dynamics and evolution of network motif modules in integrated gene regulatory networks of worm and plant. Nucleic Acids Research. PMID 29873777 DOI: 10.1093/nar/gky468 |
0.342 |
|
| 2018 |
de Jonge R, Ebert MK, Huitt-Roehl CR, Pal P, Suttle JC, Spanner RE, Neubauer JD, Jurick WM, Stott KA, Secor GA, Thomma BPHJ, Van de Peer Y, Townsend CA, Bolton MD. Gene cluster conservation provides insight into cercosporin biosynthesis and extends production to the genus . Proceedings of the National Academy of Sciences of the United States of America. PMID 29844193 DOI: 10.1073/Pnas.1712798115 |
0.33 |
|
| 2018 |
Van de Peer Y, Pires JC. Editorial overview: Genome studies and molecular genetics: Treasure troves of evolution. Current Opinion in Plant Biology. PMID 29748036 DOI: 10.1016/J.Pbi.2018.04.015 |
0.366 |
|
| 2018 |
Burgess STG, Bartley K, Marr EJ, Wright HW, Weaver RJ, Prickett JC, Hughes M, Haldenby S, Thi Le P, Rombauts S, Van Leeuwen T, Van de Peer Y, Nisbet AJ. Draft Genome Assembly of the Sheep Scab Mite, Psoroptes ovis. Genome Announcements. 6. PMID 29674543 DOI: 10.1128/genomeA.00265-18 |
0.543 |
|
| 2018 |
Zwaenepoel A, Diels T, Amar D, Van Parys T, Shamir R, Van de Peer Y, Tzfadia O. MorphDB: Prioritizing Genes for Specialized Metabolism Pathways and Gene Ontology Categories in Plants. Frontiers in Plant Science. 9: 352. PMID 29616063 DOI: 10.3389/Fpls.2018.00352 |
0.507 |
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| 2018 |
Novikova PY, Hohmann N, Van de Peer Y. Polyploid Arabidopsis species originated around recent glaciation maxima. Current Opinion in Plant Biology. 42: 8-15. PMID 29448159 DOI: 10.1016/j.pbi.2018.01.005 |
0.327 |
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| 2018 |
Wan T, Liu ZM, Li LF, Leitch AR, Leitch IJ, Lohaus R, Liu ZJ, Xin HP, Gong YB, Liu Y, Wang WC, Chen LY, Yang Y, Kelly LJ, Yang J, ... ... Van de Peer Y, et al. A genome for gnetophytes and early evolution of seed plants. Nature Plants. PMID 29379155 DOI: 10.1038/s41477-017-0097-2 |
0.565 |
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| 2018 |
Khayi S, Azza NE, Gaboun F, Pirro S, Badad O, Claros MG, Lightfoot DA, Unver T, Chaouni B, Merrouch R, Rahim B, Essayeh S, Ganoudi M, Abdelwahd R, Diria G, ... ... Van de Peer Y, et al. First draft genome assembly of the Argane tree (Argania spinosa) F1000research. 7: 1310. DOI: 10.12688/F1000RESEARCH.15719.1 |
0.491 |
|
| 2017 |
Wingfield BD, Berger DK, Steenkamp ET, Lim HJ, Duong TA, Bluhm BH, de Beer ZW, De Vos L, Fourie G, Naidoo K, Olivier N, Lin YC, Van de Peer Y, Joubert F, Crampton BG, et al. IMA Genome-F 8: Draft genome of Cercospora zeina, Fusarium pininemorale, Hawksworthiomyces lignivorus, Huntiella decipiens and Ophiostoma ips. Ima Fungus. 8: 385-396. PMID 29242781 DOI: 10.5598/imafungus.2017.08.02.10 |
0.505 |
|
| 2017 |
Causier B, Li Z, De Smet R, Lloyd JPB, Van de Peer Y, Davies B. Conservation of Nonsense-Mediated mRNA Decay Complex Components Throughout Eukaryotic Evolution. Scientific Reports. 7: 16692. PMID 29192227 DOI: 10.1038/s41598-017-16942-w |
0.325 |
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| 2017 |
De Tiège A, Van de Peer Y, Braeckman J, Tanghe KB. The sociobiology of genes: the gene's eye view as a unifying behavioural-ecological framework for biological evolution. History and Philosophy of the Life Sciences. 40: 6. PMID 29168053 DOI: 10.1007/s40656-017-0174-x |
0.392 |
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| 2017 |
Unver T, Wu Z, Sterck L, Turktas M, Lohaus R, Li Z, Yang M, He L, Deng T, Escalante FJ, Llorens C, Roig FJ, Parmaksiz I, Dundar E, Xie F, ... ... Van de Peer Y, et al. Genome of wild olive and the evolution of oil biosynthesis. Proceedings of the National Academy of Sciences of the United States of America. PMID 29078332 DOI: 10.1073/Pnas.1708621114 |
0.449 |
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| 2017 |
De Smet R, Sabaghian E, Li Z, Saeys Y, Van de Peer Y. Coordinated Functional Divergence of Genes after Genome Duplication in Arabidopsis thaliana. The Plant Cell. PMID 29070508 DOI: 10.1105/tpc.17.00531 |
0.518 |
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| 2017 |
Van Bel M, Diels T, Vancaester E, Kreft L, Botzki A, Van de Peer Y, Coppens F, Vandepoele K. PLAZA 4.0: an integrative resource for functional, evolutionary and comparative plant genomics. Nucleic Acids Research. PMID 29069403 DOI: 10.1093/nar/gkx1002 |
0.828 |
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| 2017 |
Tasdighian S, Van Bel M, Li Z, Van de Peer Y, Carretero-Paulet L, Maere S. Reciprocally Retained Genes in the Angiosperm Lineage Show the Hallmarks of Dosage Balance Sensitivity. The Plant Cell. PMID 29061868 DOI: 10.1105/tpc.17.00313 |
0.472 |
|
| 2017 |
Zhang GQ, Liu KW, Li Z, Lohaus R, Hsiao YY, Niu SC, Wang JY, Lin YC, Xu Q, Chen LJ, Yoshida K, Fujiwara S, Wang ZW, Zhang YQ, Mitsuda N, ... ... Van de Peer Y, et al. The Apostasia genome and the evolution of orchids. Nature. PMID 28902843 DOI: 10.1038/nature23897 |
0.605 |
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| 2017 |
Roodt D, Lohaus R, Sterck L, Swanepoel RL, Van de Peer Y, Mizrachi E. Evidence for an ancient whole genome duplication in the cycad lineage. Plos One. 12: e0184454. PMID 28886111 DOI: 10.1371/journal.pone.0184454 |
0.536 |
|
| 2017 |
Orr RJS, Rombauts S, Van de Peer Y, Shalchian-Tabrizi K. Draft Genome Sequences of Two Unclassified Bacteria, Sphingomonas sp. Strains IBVSS1 and IBVSS2, Isolated from Environmental Samples. Genome Announcements. 5. PMID 28839038 DOI: 10.1128/genomeA.00894-17 |
0.411 |
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| 2017 |
Orr RJS, Rombauts S, Van de Peer Y, Shalchian-Tabrizi K. Draft Genome Sequences of Two Unclassified Bacteria, Hydrogenophaga sp. Strains IBVHS1 and IBVHS2, Isolated from Environmental Samples. Genome Announcements. 5. PMID 28839037 DOI: 10.1128/genomeA.00884-17 |
0.388 |
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| 2017 |
Heydari M, Miclotte G, Demeester P, Van de Peer Y, Fostier J. Evaluation of the impact of Illumina error correction tools on de novo genome assembly. Bmc Bioinformatics. 18: 374. PMID 28821237 DOI: 10.1186/s12859-017-1784-8 |
0.308 |
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| 2017 |
Orr RJS, Rombauts S, Van de Peer Y, Shalchian-Tabrizi K. Draft Genome Sequences of Two Unclassified Chitinophagaceae Bacteria, IBVUCB1 and IBVUCB2, Isolated from Environmental Samples. Genome Announcements. 5. PMID 28818898 DOI: 10.1128/genomeA.00787-17 |
0.434 |
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| 2017 |
Ruprecht C, Lohaus R, Vanneste K, Mutwil M, Nikoloski Z, Van de Peer Y, Persson S. Revisiting ancestral polyploidy in plants. Science Advances. 3: e1603195. PMID 28695205 DOI: 10.1126/Sciadv.1603195 |
0.349 |
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| 2017 |
Cañas RA, Li Z, Pascual MB, Castro-Rodríguez V, Ávila C, Sterck L, Van de Peer Y, Cánovas FM. The gene expression landscape of pine seedling tissues. The Plant Journal : For Cell and Molecular Biology. PMID 28635135 DOI: 10.1111/tpj.13617 |
0.398 |
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| 2017 |
Van de Peer Y, Mizrachi E, Marchal K. The evolutionary significance of polyploidy. Nature Reviews. Genetics. PMID 28502977 DOI: 10.1038/nrg.2017.26 |
0.433 |
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| 2017 |
Miclotte G, Plaisance S, Rombauts S, Van de Peer Y, Audenaert P, Fostier J. OMSim: a simulator for optical map data. Bioinformatics (Oxford, England). PMID 28472230 DOI: 10.1093/bioinformatics/btx293 |
0.31 |
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| 2017 |
Li Z, De La Torre AR, Sterck L, Canovas FM, Avila C, Merino Sierra I, Antonio Cabezas J, Teresa Cervera M, Ingvarsson PK, Van de Peer Y. Single-copy genes as molecular markers for phylogenomic studies in seed plants. Genome Biology and Evolution. PMID 28460034 DOI: 10.1093/gbe/evx070 |
0.47 |
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| 2017 |
De La Torre AR, Li Z, Van de Peer Y, Ingvarsson PK. Contrasting Rates of Molecular Evolution and Patterns of Selection among Gymnosperms and Flowering Plants. Molecular Biology and Evolution. PMID 28333233 DOI: 10.1093/molbev/msx069 |
0.384 |
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| 2016 |
Cormier A, Avia K, Sterck L, Derrien T, Wucher V, Andres G, Monsoor M, Godfroy O, Lipinska A, Perrineau MM, Van De Peer Y, Hitte C, Corre E, Coelho SM, Cock JM. Re-annotation, improved large-scale assembly and establishment of a catalogue of noncoding loci for the genome of the model brown alga Ectocarpus. The New Phytologist. PMID 27870061 DOI: 10.1111/nph.14321 |
0.548 |
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| 2016 |
Rensing SA, Ick J, Fawcett JA, Lang D, Zimmer A, Van de Peer Y, Reski R. Erratum to: An ancient genome duplication contributed to the abundance of metabolic genes in the moss Physcomitrella patens. Bmc Evolutionary Biology. 16: 184. PMID 27608630 DOI: 10.1186/s12862-016-0739-4 |
0.504 |
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| 2016 |
Xie Q, Tzfadia O, Levy M, Weithorn E, Peled-Zehavi H, Van Parys T, Van de Peer Y, Galili G. hfAIM: A reliable bioinformatics approach for in silico genome-wide identification of autophagy-associated Atg8-interacting motifs in various organisms. Autophagy. 1-12. PMID 27071037 DOI: 10.1080/15548627.2016.1147668 |
0.332 |
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| 2016 |
Van de Peer Y, Pires JC. Editorial overview: Genome studies and molecular genetics: Of plant genes, genomes, and genomics. Current Opinion in Plant Biology. PMID 27052806 DOI: 10.1016/J.Pbi.2016.03.010 |
0.547 |
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| 2016 |
Lohaus R, Van de Peer Y. Of dups and dinos: evolution at the K/Pg boundary. Current Opinion in Plant Biology. 30: 62-69. PMID 26894611 DOI: 10.1016/j.pbi.2016.01.006 |
0.39 |
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| 2016 |
Jelen V, de Jonge R, Van de Peer Y, Javornik B, Jakše J. Complete mitochondrial genome of the Verticillium-wilt causing plant pathogen Verticillium nonalfalfae. Plos One. 11: e0148525. PMID 26839950 DOI: 10.1371/journal.pone.0148525 |
0.427 |
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| 2016 |
Olsen JL, Rouzé P, Verhelst B, Lin YC, Bayer T, Collen J, Dattolo E, De Paoli E, Dittami S, Maumus F, Michel G, Kersting A, Lauritano C, Lohaus R, Töpel M, ... ... Van de Peer Y, et al. The genome of the seagrass Zostera marina reveals angiosperm adaptation to the sea. Nature. PMID 26814964 DOI: 10.1038/Nature16548 |
0.511 |
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| 2016 |
Zhang GQ, Xu Q, Bian C, Tsai WC, Yeh CM, Liu KW, Yoshida K, Zhang LS, Chang SB, Chen F, Shi Y, Su YY, Zhang YQ, Chen LJ, Yin Y, ... ... Van de Peer Y, et al. The Dendrobium catenatum Lindl. genome sequence provides insights into polysaccharide synthase, floral development and adaptive evolution. Scientific Reports. 6: 19029. PMID 26754549 DOI: 10.1038/srep19029 |
0.569 |
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| 2016 |
Li Z, Defoort J, Tasdighian S, Maere S, Van de Peer Y, De Smet R. Gene duplicability of core genes is highly consistent across all angiosperms. The Plant Cell. PMID 26744215 DOI: 10.1105/tpc.15.00877 |
0.497 |
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| 2016 |
Van Landeghem S, Van Parys T, Dubois M, Inzé D, Van de Peer Y. Diffany: an ontology-driven framework to infer, visualise and analyse differential molecular networks. Bmc Bioinformatics. 17: 18. PMID 26729218 DOI: 10.1186/s12859-015-0863-y |
0.423 |
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| 2015 |
Tzfadia O, Diels T, De Meyer S, Vandepoele K, Aharoni A, Van de Peer Y. CoExpNetViz: Comparative Co-Expression Networks Construction and Visualization Tool. Frontiers in Plant Science. 6: 1194. PMID 26779228 DOI: 10.3389/Fpls.2015.01194 |
0.745 |
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| 2015 |
Ranade SS, Lin YC, Van de Peer Y, García-Gil MR. Comparative in silico analysis of SSRs in coding regions of high confidence predicted genes in Norway spruce (Picea abies) and Loblolly pine (Pinus taeda). Bmc Genetics. 16: 149. PMID 26706685 DOI: 10.1186/s12863-015-0304-y |
0.384 |
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| 2015 |
Soltis PS, Marchant DB, Van de Peer Y, Soltis DE. Polyploidy and genome evolution in plants. Current Opinion in Genetics & Development. 35: 119-125. PMID 26656231 DOI: 10.1016/J.Gde.2015.11.003 |
0.524 |
|
| 2015 |
Delhomme N, Sundström G, Zamani N, Lantz H, Lin YC, Hvidsten TR, Höppner MP, Jern P, Van de Peer Y, Lundeberg J, Grabherr MG, Street NR. Serendipitous Meta-Transcriptomics: The Fungal Community of Norway Spruce (Picea abies). Plos One. 10: e0139080. PMID 26413905 DOI: 10.1371/journal.pone.0139080 |
0.385 |
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| 2015 |
Potenza E, Racchi ML, Sterck L, Coller E, Asquini E, Tosatto SC, Velasco R, Van de Peer Y, Cestaro A. Exploration of alternative splicing events in ten different grapevine cultivars. Bmc Genomics. 16: 706. PMID 26380971 DOI: 10.1186/s12864-015-1922-5 |
0.39 |
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| 2015 |
Morel G, Sterck L, Swennen D, Marcet-Houben M, Onesime D, Levasseur A, Jacques N, Mallet S, Couloux A, Labadie K, Amselem J, Beckerich JM, Henrissat B, Van de Peer Y, Wincker P, et al. Corrigendum: Differential gene retention as an evolutionary mechanism to generate biodiversity and adaptation in yeasts. Scientific Reports. 5: 12596. PMID 26225486 DOI: 10.1038/Srep12596 |
0.5 |
|
| 2015 |
Ghorbani S, Lin YC, Parizot B, Fernandez A, Njo MF, Van de Peer Y, Beeckman T, Hilson P. Expanding the repertoire of secretory peptides controlling root development with comparative genome analysis and functional assays. Journal of Experimental Botany. 66: 5257-69. PMID 26195730 DOI: 10.1093/jxb/erv346 |
0.516 |
|
| 2015 |
Sundell D, Mannapperuma C, Netotea S, Delhomme N, Lin YC, Sjödin A, Van de Peer Y, Jansson S, Hvidsten TR, Street NR. The Plant Genome Integrative Explorer Resource: PlantGenIE.org. The New Phytologist. PMID 26192091 DOI: 10.1111/nph.13557 |
0.529 |
|
| 2015 |
Morel G, Sterck L, Swennen D, Marcet-Houben M, Onesime D, Levasseur A, Jacques N, Mallet S, Couloux A, Labadie K, Amselem J, Beckerich JM, Henrissat B, Van de Peer Y, Wincker P, et al. Differential gene retention as an evolutionary mechanism to generate biodiversity and adaptation in yeasts. Scientific Reports. 5: 11571. PMID 26108467 DOI: 10.1038/Srep11571 |
0.5 |
|
| 2015 |
Vanneste K, Sterck L, Myburg AA, Van de Peer Y, Mizrachi E. Horsetails Are Ancient Polyploids: Evidence from Equisetum giganteum. The Plant Cell. PMID 26002871 DOI: 10.1105/Tpc.15.00157 |
0.465 |
|
| 2015 |
Zhang Z, Mao L, Chen H, Bu F, Li G, Sun J, Li S, Sun H, Jiao C, Blakely R, Pan J, Cai R, Luo R, Van de Peer Y, Jacobsen E, et al. Genome-Wide Mapping of Structural Variations Reveals a Copy Number Variant That Determines Reproductive Morphology in Cucumber. The Plant Cell. 27: 1595-604. PMID 26002866 DOI: 10.1105/Tpc.114.135848 |
0.434 |
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| 2015 |
De La Torre AR, Lin YC, Van de Peer Y, Ingvarsson PK. Genome-wide analysis reveals diverged patterns of codon bias, gene expression, and rates of sequence evolution in picea gene families. Genome Biology and Evolution. 7: 1002-15. PMID 25747252 DOI: 10.1093/gbe/evv044 |
0.465 |
|
| 2015 |
Cai J, Liu X, Vanneste K, Proost S, Tsai WC, Liu KW, Chen LJ, He Y, Xu Q, Bian C, Zheng Z, Sun F, Liu W, Hsiao YY, Pan ZJ, ... ... Van de Peer Y, et al. Corrigendum: The genome sequence of the orchid Phalaenopsis equestris. Nature Genetics. 47: 304. PMID 25711871 DOI: 10.1038/Ng0315-304A |
0.803 |
|
| 2015 |
Cai J, Liu X, Vanneste K, Proost S, Tsai WC, Liu KW, Chen LJ, He Y, Xu Q, Bian C, Zheng Z, Sun F, Liu W, Hsiao YY, Pan ZJ, ... ... Van de Peer Y, et al. The genome sequence of the orchid Phalaenopsis equestris. Nature Genetics. 47: 65-72. PMID 25420146 DOI: 10.1038/Ng.3149 |
0.87 |
|
| 2015 |
Proost S, Van Bel M, Vaneechoutte D, Van de Peer Y, Inzé D, Mueller-Roeber B, Vandepoele K. PLAZA 3.0: an access point for plant comparative genomics. Nucleic Acids Research. 43: D974-81. PMID 25324309 DOI: 10.1093/Nar/Gku986 |
0.845 |
|
| 2014 |
Vermeirssen V, De Clercq I, Van Parys T, Van Breusegem F, Van de Peer Y. Arabidopsis ensemble reverse-engineered gene regulatory network discloses interconnected transcription factors in oxidative stress. The Plant Cell. 26: 4656-79. PMID 25549671 DOI: 10.1105/tpc.114.131417 |
0.314 |
|
| 2014 |
Blanc-Mathieu R, Verhelst B, Derelle E, Rombauts S, Bouget FY, Carré I, Château A, Eyre-Walker A, Grimsley N, Moreau H, Piégu B, Rivals E, Schackwitz W, Van de Peer Y, Piganeau G. An improved genome of the model marine alga Ostreococcus tauri unfolds by assessing Illumina de novo assemblies. Bmc Genomics. 15: 1103. PMID 25494611 DOI: 10.1186/1471-2164-15-1103 |
0.509 |
|
| 2014 |
Lin YC, Boone M, Meuris L, Lemmens I, Van Roy N, Soete A, Reumers J, Moisse M, Plaisance S, Drmanac R, Chen J, Speleman F, Lambrechts D, Van de Peer Y, Tavernier J, et al. Genome dynamics of the human embryonic kidney 293 lineage in response to cell biology manipulations. Nature Communications. 5: 4767. PMID 25182477 DOI: 10.1038/ncomms5767 |
0.39 |
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| 2014 |
Ahmed S, Cock JM, Pessia E, Luthringer R, Cormier A, Robuchon M, Sterck L, Peters AF, Dittami SM, Corre E, Valero M, Aury JM, Roze D, Van de Peer Y, Bothwell J, et al. A haploid system of sex determination in the brown alga Ectocarpus sp. Current Biology : Cb. 24: 1945-57. PMID 25176635 DOI: 10.1016/j.cub.2014.07.042 |
0.303 |
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| 2014 |
Ranade SS, Lin YC, Zuccolo A, Van de Peer Y, García-Gil Mdel R. Comparative in silico analysis of EST-SSRs in angiosperm and gymnosperm tree genera. Bmc Plant Biology. 14: 220. PMID 25143005 DOI: 10.1186/s12870-014-0220-8 |
0.476 |
|
| 2014 |
Vanneste K, Maere S, Van de Peer Y. Tangled up in two: a burst of genome duplications at the end of the Cretaceous and the consequences for plant evolution. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 369. PMID 24958926 DOI: 10.1098/rstb.2013.0353 |
0.451 |
|
| 2014 |
Myburg AA, Grattapaglia D, Tuskan GA, Hellsten U, Hayes RD, Grimwood J, Jenkins J, Lindquist E, Tice H, Bauer D, Goodstein DM, Dubchak I, Poliakov A, Mizrachi E, Kullan AR, ... ... Van de Peer Y, et al. The genome of Eucalyptus grandis. Nature. 510: 356-62. PMID 24919147 DOI: 10.1038/Nature13308 |
0.549 |
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| 2014 |
Pajoro A, Biewers S, Dougali E, Leal Valentim F, Mendes MA, Porri A, Coupland G, Van de Peer Y, van Dijk AD, Colombo L, Davies B, Angenent GC. The (r)evolution of gene regulatory networks controlling Arabidopsis plant reproduction: a two-decade history. Journal of Experimental Botany. 65: 4731-45. PMID 24913630 DOI: 10.1093/jxb/eru233 |
0.34 |
|
| 2014 |
Vanneste K, Baele G, Maere S, Van de Peer Y. Analysis of 41 plant genomes supports a wave of successful genome duplications in association with the Cretaceous-Paleogene boundary. Genome Research. 24: 1334-47. PMID 24835588 DOI: 10.1101/gr.168997.113 |
0.517 |
|
| 2014 |
Bracken-Grissom H, Collins AG, Collins T, Crandall K, Distel D, Dunn C, Giribet G, Haddock S, Knowlton N, Martindale M, Medina M, Messing C, O'Brien SJ, Paulay G, ... ... Van de Peer Y, et al. The Global Invertebrate Genomics Alliance (GIGA): developing community resources to study diverse invertebrate genomes. The Journal of Heredity. 105: 1-18. PMID 24336862 DOI: 10.1093/jhered/est084 |
0.499 |
|
| 2014 |
Zhurov V, Navarro M, Bruinsma KA, Arbona V, Santamaria ME, Cazaux M, Wybouw N, Osborne EJ, Ens C, Rioja C, Vermeirssen V, Rubio-Somoza I, Krishna P, Diaz I, Schmid M, ... ... Van de Peer Y, et al. Reciprocal responses in the interaction between Arabidopsis and the cell-content-feeding chelicerate herbivore spider mite. Plant Physiology. 164: 384-99. PMID 24285850 DOI: 10.1104/Pp.113.231555 |
0.313 |
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| 2014 |
Bolton MD, de Jonge R, Inderbitzin P, Liu Z, Birla K, Van de Peer Y, Subbarao KV, Thomma BP, Secor GA. The heterothallic sugarbeet pathogen Cercospora beticola contains exon fragments of both MAT genes that are homogenized by concerted evolution. Fungal Genetics and Biology : Fg & B. 62: 43-54. PMID 24216224 DOI: 10.1016/J.Fgb.2013.10.011 |
0.508 |
|
| 2013 |
Van Bel M, Proost S, Van Neste C, Deforce D, Van de Peer Y, Vandepoele K. TRAPID: an efficient online tool for the functional and comparative analysis of de novo RNA-Seq transcriptomes. Genome Biology. 14: R134. PMID 24330842 DOI: 10.1186/Gb-2013-14-12-R134 |
0.804 |
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| 2013 |
Verhelst B, Van de Peer Y, Rouzé P. The complex intron landscape and massive intron invasion in a picoeukaryote provides insights into intron evolution. Genome Biology and Evolution. 5: 2393-401. PMID 24273312 DOI: 10.1093/gbe/evt189 |
0.425 |
|
| 2013 |
De Clercq I, Vermeirssen V, Van Aken O, Vandepoele K, Murcha MW, Law SR, Inzé A, Ng S, Ivanova A, Rombaut D, van de Cotte B, Jaspers P, Van de Peer Y, Kangasjärvi J, Whelan J, et al. The membrane-bound NAC transcription factor ANAC013 functions in mitochondrial retrograde regulation of the oxidative stress response in Arabidopsis. The Plant Cell. 25: 3472-90. PMID 24045019 DOI: 10.1105/tpc.113.117168 |
0.698 |
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| 2013 |
Zimmer AD, Lang D, Buchta K, Rombauts S, Nishiyama T, Hasebe M, Van de Peer Y, Rensing SA, Reski R. Reannotation and extended community resources for the genome of the non-seed plant Physcomitrella patens provide insights into the evolution of plant gene structures and functions. Bmc Genomics. 14: 498. PMID 23879659 DOI: 10.1186/1471-2164-14-498 |
0.607 |
|
| 2013 |
Vandepoele K, Van Bel M, Richard G, Van Landeghem S, Verhelst B, Moreau H, Van de Peer Y, Grimsley N, Piganeau G. pico-PLAZA, a genome database of microbial photosynthetic eukaryotes. Environmental Microbiology. 15: 2147-53. PMID 23826978 DOI: 10.1111/1462-2920.12174 |
0.834 |
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| 2013 |
Read BA, Kegel J, Klute MJ, Kuo A, Lefebvre SC, Maumus F, Mayer C, Miller J, Monier A, Salamov A, Young J, Aguilar M, Claverie JM, Frickenhaus S, Gonzalez K, ... ... Van de Peer Y, et al. Pan genome of the phytoplankton Emiliania underpins its global distribution. Nature. 499: 209-13. PMID 23760476 DOI: 10.1038/Nature12221 |
0.413 |
|
| 2013 |
Nystedt B, Street NR, Wetterbom A, Zuccolo A, Lin YC, Scofield DG, Vezzi F, Delhomme N, Giacomello S, Alexeyenko A, Vicedomini R, Sahlin K, Sherwood E, Elfstrand M, Gramzow L, ... ... Van de Peer Y, et al. The Norway spruce genome sequence and conifer genome evolution. Nature. 497: 579-84. PMID 23698360 DOI: 10.1038/Nature12211 |
0.531 |
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| 2013 |
Van Landeghem S, Björne J, Wei CH, Hakala K, Pyysalo S, Ananiadou S, Kao HY, Lu Z, Salakoski T, Van de Peer Y, Ginter F. Large-scale event extraction from literature with multi-level gene normalization. Plos One. 8: e55814. PMID 23613707 DOI: 10.1371/Journal.Pone.0055814 |
0.347 |
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| 2013 |
Van Landeghem S, De Bodt S, Drebert ZJ, Inzé D, Van de Peer Y. The potential of text mining in data integration and network biology for plant research: a case study on Arabidopsis. The Plant Cell. 25: 794-807. PMID 23532071 DOI: 10.1105/tpc.112.108753 |
0.537 |
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| 2013 |
Ruttink T, Sterck L, Rohde A, Bendixen C, Rouzé P, Asp T, Van de Peer Y, Roldan-Ruiz I. Orthology Guided Assembly in highly heterozygous crops: creating a reference transcriptome to uncover genetic diversity in Lolium perenne. Plant Biotechnology Journal. 11: 605-17. PMID 23433242 DOI: 10.1111/pbi.12051 |
0.389 |
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| 2013 |
De Smet R, Adams KL, Vandepoele K, Van Montagu MC, Maere S, Van de Peer Y. 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. 110: 2898-903. PMID 23382190 DOI: 10.1073/pnas.1300127110 |
0.818 |
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| 2013 |
Andolfo G, Sanseverino W, Rombauts S, Van de Peer Y, Bradeen JM, Carputo D, Frusciante L, Ercolano MR. Overview of tomato (Solanum lycopersicum) candidate pathogen recognition genes reveals important Solanum R locus dynamics. The New Phytologist. 197: 223-37. PMID 23163550 DOI: 10.1111/j.1469-8137.2012.04380.x |
0.43 |
|
| 2012 |
Moreau H, Verhelst B, Couloux A, Derelle E, Rombauts S, Grimsley N, Van Bel M, Poulain J, Katinka M, Hohmann-Marriott MF, Piganeau G, Rouzé P, Da Silva C, Wincker P, Van de Peer Y, et al. Gene functionalities and genome structure in Bathycoccus prasinos reflect cellular specializations at the base of the green lineage. Genome Biology. 13: R74. PMID 22925495 DOI: 10.1186/Gb-2012-13-8-R74 |
0.814 |
|
| 2012 |
Murat F, Van de Peer Y, Salse J. Decoding plant and animal genome plasticity from differential paleo-evolutionary patterns and processes. Genome Biology and Evolution. 4: 917-28. PMID 22833223 DOI: 10.1093/Gbe/Evs066 |
0.512 |
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| 2012 |
Vekemans D, Proost S, Vanneste K, Coenen H, Viaene T, Ruelens P, Maere S, Van de Peer Y, Geuten K. Gamma paleohexaploidy in the stem lineage of core eudicots: significance for MADS-box gene and species diversification. Molecular Biology and Evolution. 29: 3793-806. PMID 22821009 DOI: 10.1093/molbev/mss183 |
0.851 |
|
| 2012 |
Van Landeghem S, Hakala K, Rönnqvist S, Salakoski T, Van de Peer Y, Ginter F. Exploring Biomolecular Literature with EVEX: Connecting Genes through Events, Homology, and Indirect Associations. Advances in Bioinformatics. 2012: 582765. PMID 22719757 DOI: 10.1155/2012/582765 |
0.31 |
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| 2012 |
Sato S, Tabata S, Hirakawa H, Asamizu E, Shirasawa K, Isobe S, Kaneko T, Nakamura Y, Shibata D, Aoki K, Egholm M, Knight J, Bogden R, Li C, Shuang Y, ... ... Van De Peer Y, et al. The tomato genome sequence provides insights into fleshy fruit evolution Nature. 485: 635-641. PMID 22660326 DOI: 10.1038/Nature11119 |
0.6 |
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| 2012 |
De Smet R, Van de Peer Y. Redundancy and rewiring of genetic networks following genome-wide duplication events. Current Opinion in Plant Biology. 15: 168-76. PMID 22305522 DOI: 10.1016/j.pbi.2012.01.003 |
0.37 |
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| 2012 |
Malacarne G, Perazzolli M, Cestaro A, Sterck L, Fontana P, Van de Peer Y, Viola R, Velasco R, Salamini F. Deconstruction of the (paleo)polyploid grapevine genome based on the analysis of transposition events involving NBS resistance genes. Plos One. 7: e29762. PMID 22253773 DOI: 10.1371/journal.pone.0029762 |
0.513 |
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| 2012 |
Van Bel M, Proost S, Wischnitzki E, Movahedi S, Scheerlinck C, Van de Peer Y, Vandepoele K. Dissecting plant genomes with the PLAZA comparative genomics platform. Plant Physiology. 158: 590-600. PMID 22198273 DOI: 10.1104/pp.111.189514 |
0.842 |
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| 2012 |
Abeel T, Van Parys T, Saeys Y, Galagan J, Van de Peer Y. GenomeView: a next-generation genome browser. Nucleic Acids Research. 40: e12. PMID 22102585 DOI: 10.1093/Nar/Gkr995 |
0.464 |
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| 2012 |
Proost S, Fostier J, De Witte D, Dhoedt B, Demeester P, Van de Peer Y, Vandepoele K. i-ADHoRe 3.0--fast and sensitive detection of genomic homology in extremely large data sets. Nucleic Acids Research. 40: e11. PMID 22102584 DOI: 10.1093/nar/gkr955 |
0.859 |
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| 2012 |
Hacquard S, Joly DL, Lin YC, Tisserant E, Feau N, Delaruelle C, Legué V, Kohler A, Tanguay P, Petre B, Frey P, Van de Peer Y, Rouzé P, Martin F, Hamelin RC, et al. A comprehensive analysis of genes encoding small secreted proteins identifies candidate effectors in Melampsora larici-populina (poplar leaf rust). Molecular Plant-Microbe Interactions : Mpmi. 25: 279-93. PMID 22046958 DOI: 10.1094/MPMI-09-11-0238 |
0.458 |
|
| 2011 |
Grbić M, Van Leeuwen T, Clark RM, Rombauts S, Rouzé P, Grbić V, Osborne EJ, Dermauw W, Ngoc PC, Ortego F, Hernández-Crespo P, Diaz I, Martinez M, Navajas M, Sucena É, ... ... Van de Peer Y, et al. The genome of Tetranychus urticae reveals herbivorous pest adaptations. Nature. 479: 487-92. PMID 22113690 DOI: 10.1038/Nature10640 |
0.567 |
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| 2011 |
Young ND, Debellé F, Oldroyd GE, Geurts R, Cannon SB, Udvardi MK, Benedito VA, Mayer KF, Gouzy J, Schoof H, Van de Peer Y, Proost S, Cook DR, Meyers BC, Spannagl M, et al. The Medicago genome provides insight into the evolution of rhizobial symbioses. Nature. 480: 520-4. PMID 22089132 DOI: 10.1038/Nature10625 |
0.856 |
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| 2011 |
Coyne RS, Hannick L, Shanmugam D, Hostetler JB, Brami D, Joardar VS, Johnson J, Radune D, Singh I, Badger JH, Kumar U, Saier M, Wang Y, Cai H, Gu J, ... ... Van de Peer Y, et al. Comparative genomics of the pathogenic ciliate Ichthyophthirius multifiliis, its free-living relatives and a host species provide insights into adoption of a parasitic lifestyle and prospects for disease control. Genome Biology. 12: R100. PMID 22004680 DOI: 10.1186/Gb-2011-12-10-R100 |
0.381 |
|
| 2011 |
Van de Peer Y. A mystery unveiled. Genome Biology. 12: 113. PMID 21635712 DOI: 10.1186/gb-2011-12-5-113 |
0.381 |
|
| 2011 |
Movahedi S, Van de Peer Y, Vandepoele K. 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. 156: 1316-30. PMID 21571672 DOI: 10.1104/pp.111.177865 |
0.818 |
|
| 2011 |
Duplessis S, Cuomo CA, Lin YC, Aerts A, Tisserant E, Veneault-Fourrey C, Joly DL, Hacquard S, Amselem J, Cantarel BL, Chiu R, Coutinho PM, Feau N, Field M, Frey P, ... ... Van de Peer Y, et al. Obligate biotrophy features unraveled by the genomic analysis of rust fungi. Proceedings of the National Academy of Sciences of the United States of America. 108: 9166-71. PMID 21536894 DOI: 10.1073/Pnas.1019315108 |
0.453 |
|
| 2011 |
Hu TT, Pattyn P, Bakker EG, Cao J, Cheng JF, Clark RM, Fahlgren N, Fawcett JA, Grimwood J, Gundlach H, Haberer G, Hollister JD, Ossowski S, Ottilar RP, Salamov AA, ... ... Van de Peer Y, et al. The Arabidopsis lyrata genome sequence and the basis of rapid genome size change. Nature Genetics. 43: 476-81. PMID 21478890 DOI: 10.1038/Ng.807 |
0.546 |
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| 2011 |
Proost S, Pattyn P, Gerats T, Van de Peer Y. Journey through the past: 150 million years of plant genome evolution. The Plant Journal : For Cell and Molecular Biology. 66: 58-65. PMID 21443623 DOI: 10.1111/j.1365-313X.2011.04521.x |
0.868 |
|
| 2011 |
Van de Peer Y. Genomes: the truth is in there. Embo Reports. 12: 93. PMID 21283113 DOI: 10.1038/embor.2011.1 |
0.468 |
|
| 2011 |
Fostier J, Proost S, Dhoedt B, Saeys Y, Demeester P, Van de Peer Y, Vandepoele K. A greedy, graph-based algorithm for the alignment of multiple homologous gene lists. Bioinformatics (Oxford, England). 27: 749-56. PMID 21216775 DOI: 10.1093/bioinformatics/btr008 |
0.839 |
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| 2011 |
Fierro AC, Vandenbussche F, Engelen K, Van de Peer Y, Marchal K. Meta Analysis of Gene Expression Data within and Across Species. Current Genomics. 9: 525-34. PMID 19516959 DOI: 10.2174/138920208786847935 |
0.385 |
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| 2011 |
Fierro AC, Vandenbussche F, Engelen K, Van de Peer Y, Marchal K. Meta Analysis of Gene Expression Data within and Across Species. Current Genomics. 9: 525-34. PMID 19516959 DOI: 10.2174/138920208786847935 |
0.385 |
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| 2011 |
Myburg A, Grattapaglia D, Tuskan G, Jenkins J, Schmutz J, Mizrachi E, Hefer C, Pappas G, Sterck L, Van De Peer Y, Hayes R, Rokhsar D. The Eucalyptus grandisGenome Project: Genome and transcriptome resources for comparative analysis of woody plant biology Bmc Proceedings. 5. DOI: 10.1186/1753-6561-5-S7-I20 |
0.515 |
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| 2010 |
Sánchez-Rodríguez A, Martens C, Engelen K, Van de Peer Y, Marchal K. The potential for pathogenicity was present in the ancestor of the Ascomycete subphylum Pezizomycotina. Bmc Evolutionary Biology. 10: 318. PMID 20964831 DOI: 10.1186/1471-2148-10-318 |
0.374 |
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| 2010 |
Velasco R, Zharkikh A, Affourtit J, Dhingra A, Cestaro A, Kalyanaraman A, Fontana P, Bhatnagar SK, Troggio M, Pruss D, Salvi S, Pindo M, Baldi P, Castelletti S, Cavaiuolo M, ... ... Van de Peer Y, et al. The genome of the domesticated apple (Malus × domestica Borkh.). Nature Genetics. 42: 833-9. PMID 20802477 DOI: 10.1038/Ng.654 |
0.858 |
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| 2010 |
Martens C, Van de Peer Y. The hidden duplication past of the plant pathogen Phytophthora and its consequences for infection. Bmc Genomics. 11: 353. PMID 20525264 DOI: 10.1186/1471-2164-11-353 |
0.591 |
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| 2010 |
Cock JM, Sterck L, Rouzé P, Scornet D, Allen AE, Amoutzias G, Anthouard V, Artiguenave F, Aury JM, Badger JH, Beszteri B, Billiau K, Bonnet E, Bothwell JH, Bowler C, ... ... Van de Peer Y, et al. The Ectocarpus genome and the independent evolution of multicellularity in brown algae. Nature. 465: 617-21. PMID 20520714 DOI: 10.1038/Nature09016 |
0.541 |
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| 2010 |
Huysman MJ, Martens C, Vandepoele K, Gillard J, Rayko E, Heijde M, Bowler C, Inzé D, Van de Peer Y, De Veylder L, Vyverman W. Genome-wide analysis of the diatom cell cycle unveils a novel type of cyclins involved in environmental signaling. Genome Biology. 11: R17. PMID 20146805 DOI: 10.1186/Gb-2010-11-2-R17 |
0.778 |
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| 2010 |
Amoutzias GD, He Y, Gordon J, Mossialos D, Oliver SG, Van de Peer Y. Posttranslational regulation impacts the fate of duplicated genes. Proceedings of the National Academy of Sciences of the United States of America. 107: 2967-71. PMID 20080574 DOI: 10.1073/pnas.0911603107 |
0.527 |
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| 2010 |
Rehrauer H, Aquino C, Gruissem W, Henz SR, Hilson P, Laubinger S, Naouar N, Patrignani A, Rombauts S, Shu H, Van de Peer Y, Vuylsteke M, Weigel D, Zeller G, Hennig L. AGRONOMICS1: a new resource for Arabidopsis transcriptome profiling. Plant Physiology. 152: 487-99. PMID 20032078 DOI: 10.1104/Pp.109.150185 |
0.412 |
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| 2010 |
Amoutzias G, Van de Peer Y. Single-Gene and Whole-Genome Duplications and the Evolution of Protein-Protein Interaction Networks Evolutionary Genomics and Systems Biology. 413-429. DOI: 10.1002/9780470570418.ch19 |
0.397 |
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| 2009 |
Proost S, Van Bel M, Sterck L, Billiau K, Van Parys T, Van de Peer Y, Vandepoele K. PLAZA: a comparative genomics resource to study gene and genome evolution in plants. The Plant Cell. 21: 3718-31. PMID 20040540 DOI: 10.1105/tpc.109.071506 |
0.878 |
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| 2009 |
Van de Peer Y, Fawcett JA, Proost S, Sterck L, Vandepoele K. The flowering world: a tale of duplications. Trends in Plant Science. 14: 680-8. PMID 19818673 DOI: 10.1016/j.tplants.2009.09.001 |
0.853 |
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| 2009 |
Vermeirssen V, Joshi A, Michoel T, Bonnet E, Casneuf T, Van de Peer Y. Transcription regulatory networks in Caenorhabditis elegans inferred through reverse-engineering of gene expression profiles constitute biological hypotheses for metazoan development. Molecular Biosystems. 5: 1817-30. PMID 19763340 DOI: 10.1039/B908108a |
0.316 |
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| 2009 |
Piganeau G, Vandepoele K, Gourbière S, Van de Peer Y, Moreau H. Unravelling cis-regulatory elements in the genome of the smallest photosynthetic eukaryote: phylogenetic footprinting in Ostreococcus. Journal of Molecular Evolution. 69: 249-59. PMID 19693423 DOI: 10.1007/S00239-009-9271-0 |
0.788 |
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| 2009 |
Van de Peer Y, Maere S, Meyer A. The evolutionary significance of ancient genome duplications. Nature Reviews. Genetics. 10: 725-32. PMID 19652647 DOI: 10.1038/Nrg2600 |
0.505 |
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| 2009 |
De Bodt S, Proost S, Vandepoele K, Rouzé P, Van de Peer Y. Predicting protein-protein interactions in Arabidopsis thaliana through integration of orthology, gene ontology and co-expression. Bmc Genomics. 10: 288. PMID 19563678 DOI: 10.1186/1471-2164-10-288 |
0.764 |
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| 2009 |
De Schutter K, Lin YC, Tiels P, Van Hecke A, Glinka S, Weber-Lehmann J, Rouzé P, Van de Peer Y, Callewaert N. Genome sequence of the recombinant protein production host Pichia pastoris. Nature Biotechnology. 27: 561-6. PMID 19465926 DOI: 10.1038/nbt.1544 |
0.338 |
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| 2009 |
Worden AZ, Lee JH, Mock T, Rouzé P, Simmons MP, Aerts AL, Allen AE, Cuvelier ML, Derelle E, Everett MV, Foulon E, Grimwood J, Gundlach H, Henrissat B, Napoli C, ... ... Van de Peer Y, et al. Green evolution and dynamic adaptations revealed by genomes of the marine picoeukaryotes Micromonas. Science (New York, N.Y.). 324: 268-72. PMID 19359590 DOI: 10.1126/Science.1167222 |
0.541 |
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| 2009 |
Vandepoele K, Quimbaya M, Casneuf T, De Veylder L, Van de Peer Y. Unraveling transcriptional control in Arabidopsis using cis-regulatory elements and coexpression networks. Plant Physiology. 150: 535-46. PMID 19357200 DOI: 10.1104/pp.109.136028 |
0.738 |
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| 2009 |
Fawcett JA, Maere S, Van De Peer Y. Plants with double genomes might have had a better chance to survive the Cretaceous-Tertiary extinction event Proceedings of the National Academy of Sciences of the United States of America. 106: 5737-5742. PMID 19325131 DOI: 10.1073/pnas.0900906106 |
0.508 |
|
| 2008 |
Bowler C, Allen AE, Badger JH, Grimwood J, Jabbari K, Kuo A, Maheswari U, Martens C, Maumus F, Otillar RP, Rayko E, Salamov A, Vandepoele K, Beszteri B, Gruber A, ... ... Van de Peer Y, et al. The Phaeodactylum genome reveals the evolutionary history of diatom genomes. Nature. 456: 239-44. PMID 18923393 DOI: 10.1038/Nature07410 |
0.828 |
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| 2008 |
Abeel T, Saeys Y, Rouzé P, Van de Peer Y. ProSOM: Core promoter prediction based on unsupervised clustering of DNA physical profiles Bioinformatics. 24: i24-i31. PMID 18586720 DOI: 10.1093/bioinformatics/btn172 |
0.399 |
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| 2008 |
Amoutzias G, Van de Peer Y. Together We Stand: Genes Cluster to Coordinate Regulation Developmental Cell. 14: 640-642. PMID 18477446 DOI: 10.1016/J.Devcel.2008.04.006 |
0.311 |
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| 2008 |
Amoutzias GD, Robertson DL, Van de Peer Y, Oliver SG. Choose your partners: dimerization in eukaryotic transcription factors Trends in Biochemical Sciences. 33: 220-229. PMID 18406148 DOI: 10.1016/j.tibs.2008.02.002 |
0.332 |
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| 2008 |
Martin F, Aerts A, Ahrén D, Brun A, Danchin EG, Duchaussoy F, Gibon J, Kohler A, Lindquist E, Pereda V, Salamov A, Shapiro HJ, Wuyts J, Blaudez D, Buée M, ... ... Van de Peer Y, et al. The genome of Laccaria bicolor provides insights into mycorrhizal symbiosis. Nature. 452: 88-92. PMID 18322534 DOI: 10.1038/Nature06556 |
0.516 |
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| 2008 |
Martens C, Vandepoele K, Van de Peer Y. 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. 105: 3427-32. PMID 18299576 DOI: 10.1073/pnas.0712248105 |
0.812 |
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| 2008 |
Vandenbroucke K, Robbens S, Vandepoele K, Inzé D, Van De Peer Y, Van Breusegem F. Hydrogen peroxide-induced gene expression across kingdoms: A comparative analysis Molecular Biology and Evolution. 25: 507-516. PMID 18187560 DOI: 10.1093/molbev/msm276 |
0.775 |
|
| 2008 |
Abeel T, Saeys Y, Bonnet E, Rouzé P, Van De Peer Y. Generic eukaryotic core promoter prediction using structural features of DNA Genome Research. 18: 310-323. PMID 18096745 DOI: 10.1101/gr.6991408 |
0.409 |
|
| 2008 |
Rensing SA, Lang D, Zimmer AD, Terry A, Salamov A, Shapiro H, Nishiyama T, Perroud PF, Lindquist EA, Kamisugi Y, Tanahashi T, Sakakibara K, Fujita T, Oishi K, Shin-I T, ... ... Van de Peer Y, et al. The Physcomitrella genome reveals evolutionary insights into the conquest of land by plants. Science (New York, N.Y.). 319: 64-9. PMID 18079367 DOI: 10.1126/Science.1150646 |
0.547 |
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| 2008 |
Robbens S, Rouzé P, Cock JM, Spring J, Worden AZ, Van de Peer Y. The FTO gene, implicated in human obesity, is found only in vertebrates and marine algae. Journal of Molecular Evolution. 66: 80-4. PMID 18058156 DOI: 10.1007/s00239-007-9059-z |
0.403 |
|
| 2008 |
Tzika AC, Helaers R, Van de peer Y, Milinkovitch MC. MANTIS: A phylogenetic framework for multi-species genome comparisons Bioinformatics. 24: 151-157. PMID 18025004 DOI: 10.1093/bioinformatics/btm567 |
0.568 |
|
| 2008 |
Simillion C, Janssens K, Sterck L, Van de peer Y. i-ADHoRe 2.0: An improved tool to detect degenerated genomic homology using genomic profiles Bioinformatics. 24: 127-128. PMID 17947255 DOI: 10.1093/bioinformatics/btm449 |
0.51 |
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| 2008 |
John U, Beszteri B, Derelle E, Van de Peer Y, Read B, Moreau H, Cembella A. Novel Insights into Evolution of Protistan Polyketide Synthases through Phylogenomic Analysis Protist. 159: 21-30. PMID 17931970 DOI: 10.1016/j.protis.2007.08.001 |
0.517 |
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| 2008 |
Foissac S, Gouzy J, Rombauts S, Mathé C, Amselem J, Sterck L, Van De Peer Y, Rouzé P, Schiex T. Genome annotation in plants and fungi: EuGène as a model platform Current Bioinformatics. 3: 87-97. DOI: 10.2174/157489308784340702 |
0.455 |
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| 2007 |
Van Hellemont R, Blomme T, Van De Peer Y, Marchal K. Divergence of regulatory sequences in duplicated fish genes Genome Dynamics. 3: 81-100. PMID 18753786 DOI: 10.1159/000107605 |
0.433 |
|
| 2007 |
Velasco R, Zharkikh A, Troggio M, Cartwright DA, Cestaro A, Pruss D, Pindo M, Fitzgerald LM, Vezzulli S, Reid J, Malacarne G, Iliev D, Coppola G, Wardell B, Micheletti D, ... ... Van de Peer Y, et al. A high quality draft consensus sequence of the genome of a heterozygous grapevine variety. Plos One. 2: e1326. PMID 18094749 DOI: 10.1371/Journal.Pone.0001326 |
0.805 |
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| 2007 |
Merks RMH, Van de Peer Y, Inzé D, Beemster GTS. Canalization without flux sensors: a traveling-wave hypothesis Trends in Plant Science. 12: 384-390. PMID 17765595 DOI: 10.1016/j.tplants.2007.08.004 |
0.46 |
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| 2007 |
Rensing SA, Ick J, Fawcett JA, Lang D, Zimmer A, Van de Peer Y, Reski R. An ancient genome duplication contributed to the abundance of metabolic genes in the moss Physcomitrella patens. Bmc Evolutionary Biology. 7: 130. PMID 17683536 DOI: 10.1186/1471-2148-7-130 |
0.585 |
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| 2007 |
Saeys Y, Abeel T, Degroeve S, Van de Peer Y. Translation initiation site prediction on a genomic scale: Beauty in simplicity Bioinformatics. 23: i418-i423. PMID 17646326 DOI: 10.1093/bioinformatics/btm177 |
0.427 |
|
| 2007 |
Van de Peer Y. The future for plants and plants for the future Genome Biology. 8. PMID 17626611 DOI: 10.1186/gb-2007-8-7-308 |
0.351 |
|
| 2007 |
Palenik B, Grimwood J, Aerts A, Rouzé P, Salamov A, Putnam N, Dupont C, Jorgensen R, Derelle E, Rombauts S, Zhou K, Otillar R, Merchant SS, Podell S, Gaasterland T, ... ... Van de Peer Y, et al. The tiny eukaryote Ostreococcus provides genomic insights into the paradox of plankton speciation. Proceedings of the National Academy of Sciences of the United States of America. 104: 7705-10. PMID 17460045 DOI: 10.1073/Pnas.0611046104 |
0.425 |
|
| 2007 |
Robbens S, Petersen J, Brinkmann H, Rouzé P, Van De Peer Y. Unique regulation of the Calvin cycle in the ultrasmall green alga Ostreococcus Journal of Molecular Evolution. 64: 601-604. PMID 17457634 DOI: 10.1007/s00239-006-0159-y |
0.359 |
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| 2007 |
Sterck L, Rombauts S, Vandepoele K, Rouzé P, Van de Peer Y. How many genes are there in plants (... and why are they there)? Current Opinion in Plant Biology. 10: 199-203. PMID 17289424 DOI: 10.1016/j.pbi.2007.01.004 |
0.795 |
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| 2007 |
Robbens S, Derelle E, Ferraz C, Wuyts J, Moreau H, Van De Peer Y. The complete chloroplast and mitochondrial DNA sequence of Ostreococcus tauri: Organelle genomes of the smallest eukaryote are examples of compaction Molecular Biology and Evolution. 24: 956-968. PMID 17251180 DOI: 10.1093/molbev/msm012 |
0.577 |
|
| 2007 |
Carlton JM, Hirt RP, Silva JC, Delcher AL, Schatz M, Zhao Q, Wortman JR, Bidwell SL, Alsmark UC, Besteiro S, Sicheritz-Ponten T, Noel CJ, Dacks JB, Foster PG, Simillion C, ... Van de Peer Y, et al. Draft genome sequence of the sexually transmitted pathogen Trichomonas vaginalis. Science (New York, N.Y.). 315: 207-12. PMID 17218520 DOI: 10.1126/Science.1132894 |
0.492 |
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| 2007 |
Saeys Y, Rouzé P, Van de Peer Y. In search of the small ones: Improved prediction of short exons in vertebrates, plants, fungi and protists Bioinformatics. 23: 414-420. PMID 17204465 DOI: 10.1093/bioinformatics/btl639 |
0.336 |
|
| 2006 |
Vandepoele K, Casneuf T, Van de Peer Y. Identification of novel regulatory modules in dicotyledonous plants using expression data and comparative genomics. Genome Biology. 7: R103. PMID 17090307 DOI: 10.1186/gb-2006-7-11-r103 |
0.724 |
|
| 2006 |
Cannon SB, Sterck L, Rombauts S, Sato S, Cheung F, Gouzy J, Wang X, Mudge J, Vasdewani J, Schiex T, Scheix T, Spannagl M, Monaghan E, Nicholson C, Humphray SJ, ... ... Van de Peer Y, et al. Legume genome evolution viewed through the Medicago truncatula and Lotus japonicus genomes. Proceedings of the National Academy of Sciences of the United States of America. 103: 14959-64. PMID 17003129 DOI: 10.1073/Pnas.0603228103 |
0.563 |
|
| 2006 |
Tuskan GA, Difazio S, Jansson S, Bohlmann J, Grigoriev I, Hellsten U, Putnam N, Ralph S, Rombauts S, Salamov A, Schein J, Sterck L, Aerts A, Bhalerao RR, Bhalerao RP, ... ... Van de Peer Y, et al. The genome of black cottonwood, Populus trichocarpa (Torr. & Gray). Science (New York, N.Y.). 313: 1596-604. PMID 16973872 DOI: 10.1126/Science.1128691 |
0.58 |
|
| 2006 |
Derelle E, Ferraz C, Rombauts S, Rouzé P, Worden AZ, Robbens S, Partensky F, Degroeve S, Echeynié S, Cooke R, Saeys Y, Wuyts J, Jabbari K, Bowler C, Panaud O, ... ... Van de Peer Y, et al. Genome analysis of the smallest free-living eukaryote Ostreococcus tauri unveils many unique features. Proceedings of the National Academy of Sciences of the United States of America. 103: 11647-52. PMID 16868079 DOI: 10.1073/Pnas.0604795103 |
0.568 |
|
| 2006 |
Blomme T, Vandepoele K, De Bodt S, Simillion C, Maere S, Van de Peer Y. The gain and loss of genes during 600 million years of vertebrate evolution Genome Biology. 7. PMID 16723033 DOI: 10.1186/gb-2006-7-5-r43 |
0.81 |
|
| 2006 |
Baele G, Raes J, Van de Peer Y, Vansteelandt S. An improved statistical method for detecting heterotachy in nucleotide sequences. Molecular Biology and Evolution. 23: 1397-405. PMID 16672284 DOI: 10.1093/Molbev/Msl006 |
0.61 |
|
| 2006 |
De Bodt S, Theissen G, Van De Peer Y. Promoter analysis of MADS-box genes in eudicots through phylogenetic footprinting Molecular Biology and Evolution. 23: 1293-1303. PMID 16581940 DOI: 10.1093/molbev/msk016 |
0.492 |
|
| 2006 |
Casneuf T, De Bodt S, Raes J, Maere S, Van de Peer Y. Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thaliana. Genome Biology. 7: R13. PMID 16507168 DOI: 10.1186/Gb-2006-7-2-R13 |
0.756 |
|
| 2006 |
Vandepoele K, Casneuf T, Van de Peer Y. Identification of novel regulatory modules in dicotyledonous plants using expression data and comparative genomics Genome Biology. 7. DOI: 10.1186/gb-2006-7-11-r103 |
0.773 |
|
| 2005 |
De Bodt S, Maere S, Van de Peer Y. Genome duplication and the origin of angiosperms. Trends in Ecology & Evolution. 20: 591-7. PMID 16701441 DOI: 10.1016/j.tree.2005.07.008 |
0.522 |
|
| 2005 |
De Bodt S, Maere S, Van de Peer Y. Genome duplication and the origin of angiosperms. Trends in Ecology & Evolution. 20: 591-7. PMID 16701441 DOI: 10.1016/j.tree.2005.07.008 |
0.522 |
|
| 2005 |
Van Hellemont R, Monsieurs P, Thijs G, De Moor B, Van de Peer Y, Marchal K. A novel approach to identifying regulatory motifs in distantly related genomes Genome Biology. 6. PMID 16420672 DOI: 10.1186/gb-2005-6-13-r113 |
0.336 |
|
| 2005 |
Gevers D, Cohan FM, Lawrence JG, Spratt BG, Coenye T, Feil EJ, Stackebrandt E, Van de Peer Y, Vandamme P, Thompson FL, Swings J. Opinion: Re-evaluating prokaryotic species. Nature Reviews. Microbiology. 3: 733-9. PMID 16138101 DOI: 10.1038/Nrmicro1236 |
0.645 |
|
| 2005 |
Vandepoele K, Vlieghe K, Florquin K, Hennig L, Beemster GTS, Gruissem W, Van De Peer Y, Inzé D, De Veylder L. Genome-wide identification of potential plant E2F target genes Plant Physiology. 139: 316-328. PMID 16126853 DOI: 10.1104/Pp.105.066290 |
0.793 |
|
| 2005 |
Meyer A, Van De Peer Y. From 2R to 3R: Evidence for a fish-specific genome duplication (FSGD) Bioessays. 27: 937-945. PMID 16108068 DOI: 10.1002/Bies.20293 |
0.503 |
|
| 2005 |
Beysen D, Raes J, Leroy BP, Lucassen A, Yates JR, Clayton-Smith J, Ilyina H, Brooks SS, Christin-Maitre S, Fellous M, Fryns JP, Kim JR, Lapunzina P, Lemyre E, Meire F, ... ... Van de Peer Y, et al. Deletions involving long-range conserved nongenic sequences upstream and downstream of FOXL2 as a novel disease-causing mechanism in blepharophimosis syndrome. American Journal of Human Genetics. 77: 205-18. PMID 15962237 DOI: 10.1086/432083 |
0.715 |
|
| 2005 |
Raes J, Van de Peer Y. Functional divergence of proteins through frameshift mutations. Trends in Genetics : Tig. 21: 428-31. PMID 15951050 DOI: 10.1016/J.Tig.2005.05.013 |
0.647 |
|
| 2005 |
Sterck L, Rombauts S, Jansson S, Sterky F, Rouzé P, Van de Peer Y. EST data suggest that poplar is an ancient polyploid. The New Phytologist. 167: 165-70. PMID 15948839 DOI: 10.1111/J.1469-8137.2005.01378.X |
0.405 |
|
| 2005 |
Coenye T, Gevers D, Van de Peer Y, Vandamme P, Swings J. Towards a prokaryotic genomic taxonomy. Fems Microbiology Reviews. 29: 147-67. PMID 15808739 DOI: 10.1016/J.Femsre.2004.11.004 |
0.712 |
|
| 2005 |
Maere S, De Bodt S, Raes J, Casneuf T, Van Montagu M, Kuiper M, Van de Peer Y. Modeling gene and genome duplications in eukaryotes. Proceedings of the National Academy of Sciences of the United States of America. 102: 5454-9. PMID 15800040 DOI: 10.1073/Pnas.0501102102 |
0.795 |
|
| 2005 |
Paterson AH, Bowers JE, Van de Peer Y, Vandepoele K. Ancient duplication of cereal genomes. The New Phytologist. 165: 658-61. PMID 15720677 DOI: 10.1111/J.1469-8137.2005.01347.X |
0.79 |
|
| 2005 |
Vandepoele K, Van De Peer Y. Exploring the plant transcriptome through phylogenetic profiling Plant Physiology. 137: 31-42. PMID 15644465 DOI: 10.1104/pp.104.054700 |
0.793 |
|
| 2005 |
Degroeve S, Saeys Y, De Baets B, Rouzé P, Van de Peer Y. SpliceMachine: predicting splice sites from high-dimensional local context representations. Bioinformatics (Oxford, England). 21: 1332-8. PMID 15564294 DOI: 10.1093/Bioinformatics/Bti166 |
0.374 |
|
| 2005 |
Van De Peer Y, Meyer A. Large-Scale Gene and Ancient Genome Duplications The Evolution of the Genome. 329-368. DOI: 10.1016/B978-012301463-4/50008-5 |
0.502 |
|
| 2004 |
Van de Peer Y. 'Horizontal' plant biology on the rise. Genome Biology. 6: 302. PMID 15642110 DOI: 10.1186/gb-2004-6-1-302 |
0.32 |
|
| 2004 |
Van de Peer Y. Tetraodon genome confirms Takifugu findings: most fish are ancient polyploids. Genome Biology. 5: 250. PMID 15575976 DOI: 10.1186/gb-2004-5-12-250 |
0.485 |
|
| 2004 |
Robbens S, Khadaroo B, Camasses A, Derelle E, Ferraz C, Inzé D, Van de Peer Y, Moreau H. Genome-wide analysis of core cell cycle genes in the unicellular green alga Ostreococcus tauri. Molecular Biology and Evolution. 22: 589-97. PMID 15537805 DOI: 10.1093/MOLBEV/MSI044 |
0.651 |
|
| 2004 |
Van de Peer Y. Computational approaches to unveiling ancient genome duplications. Nature Reviews. Genetics. 5: 752-63. PMID 15510166 DOI: 10.1038/nrg1449 |
0.528 |
|
| 2004 |
Simillion C, Vandepoele K, Van de Peer Y. Recent developments in computational approaches for uncovering genomic homology. Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. 26: 1225-35. PMID 15499578 DOI: 10.1002/BIES.20127 |
0.811 |
|
| 2004 |
Simillion C, Vandepoele K, Saeys Y, Van de Peer Y. Building genomic profiles for uncovering segmental homology in the twilight zone. Genome Research. 14: 1095-106. PMID 15173115 DOI: 10.1101/GR.2179004 |
0.785 |
|
| 2004 |
Gevers D, Vandepoele K, Simillon C, Van de Peer Y. Gene duplication and biased functional retention of paralogs in bacterial genomes. Trends in Microbiology. 12: 148-54. PMID 15116722 DOI: 10.1016/J.Tim.2004.02.007 |
0.857 |
|
| 2004 |
Vandepoele K, De Vos W, Taylor JS, Meyer A, Van de Peer Y. 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. 101: 1638-43. PMID 14757817 DOI: 10.1073/Pnas.0307968100 |
0.822 |
|
| 2003 |
Raes J, Van de Peer Y. Gene duplication, the evolution of novel gene functions, and detecting functional divergence of duplicates in silico. Applied Bioinformatics. 2: 91-101. PMID 15130825 |
0.712 |
|
| 2003 |
Raes J, Rohde A, Christensen JH, Van de Peer Y, Boerjan W. Genome-wide characterization of the lignification toolbox in Arabidopsis. Plant Physiology. 133: 1051-71. PMID 14612585 DOI: 10.1104/Pp.103.026484 |
0.803 |
|
| 2003 |
De Bodt S, Raes J, Van de Peer Y, Theissen G. And then there were many: MADS goes genomic. Trends in Plant Science. 8: 475-83. PMID 14557044 DOI: 10.1016/J.Tplants.2003.09.006 |
0.781 |
|
| 2003 |
Vandepoele K, Simillion C, Van de Peer Y. Evidence that rice and other cereals are ancient aneuploids. The Plant Cell. 15: 2192-202. PMID 12953120 DOI: 10.1105/tpc.014019 |
0.829 |
|
| 2003 |
Vlieghe K, Vuylsteke M, Florquin K, Rombauts S, Maes S, Ormenese S, Van Hummelen P, Van de Peer Y, Inze D, De Veylder L. Microarray analysis of E2Fa-DPa-overexpressing plants uncovers a cross-talking genetic network between DNA replication and nitrogen assimilation. Journal of Cell Science. 116: 4249-59. PMID 12953064 DOI: 10.1242/jcs.00715 |
0.605 |
|
| 2003 |
Rombauts S, Florquin K, Lescot M, Marchal K, Rouzé P, van de Peer Y. Computational approaches to identify promoters and cis-regulatory elements in plant genomes. Plant Physiology. 132: 1162-76. PMID 12857799 DOI: 10.1104/pp.102.017715 |
0.397 |
|
| 2003 |
Raes J, Vandepoele K, Simillion C, Saeys Y, Van de Peer Y. Investigating ancient duplication events in the Arabidopsis genome. Journal of Structural and Functional Genomics. 3: 117-29. PMID 12836691 DOI: 10.1007/978-94-010-0263-9_12 |
0.86 |
|
| 2003 |
Van de Peer Y, Taylor JS, Meyer A. Are all fishes ancient polyploids? Journal of Structural and Functional Genomics. 3: 65-73. PMID 12836686 DOI: 10.1023/A:1022652814749 |
0.539 |
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| 2003 |
Meyer A, Van de Peer Y. 'Natural selection merely modified while redundancy created'--Susumu Ohno's idea of the evolutionary importance of gene and genome duplications. Journal of Structural and Functional Genomics. 3: vii-ix. PMID 12836679 DOI: 10.1023/A:1022684816803 |
0.55 |
|
| 2003 |
De Bodt S, Raes J, Florquin K, Rombauts S, Rouzé P, Theissen G, Van de Peer Y. Genomewide structural annotation and evolutionary analysis of the type I MADS-box genes in plants. Journal of Molecular Evolution. 56: 573-86. PMID 12698294 DOI: 10.1007/S00239-002-2426-X |
0.717 |
|
| 2003 |
Taylor JS, Braasch I, Frickey T, Meyer A, Van de Peer Y. Genome duplication, a trait shared by 22000 species of ray-finned fish. Genome Research. 13: 382-90. PMID 12618368 DOI: 10.1101/Gr.640303 |
0.545 |
|
| 2003 |
Rensing SA, Rombauts S, Van de Peer Y, Reski R. Moss transcriptome and beyond. Trends in Plant Science. 7: 535-8. PMID 12475493 DOI: 10.1016/S1360-1385(02)02363-4 |
0.486 |
|
| 2003 |
Vandepoele K, Simillion C, Van de Peer Y. Detecting the undetectable: uncovering duplicated segments in Arabidopsis by comparison with rice. Trends in Genetics : Tig. 18: 606-8. PMID 12446138 DOI: 10.1016/S0168-9525(02)02796-8 |
0.819 |
|
| 2002 |
Vandepoele K, Saeys Y, Simillion C, Raes J, Van De Peer Y. The automatic detection of homologous regions (ADHoRe) and its application to microcolinearity between Arabidopsis and rice. Genome Research. 12: 1792-801. PMID 12421767 DOI: 10.1101/Gr.400202 |
0.868 |
|
| 2002 |
Simillion C, Vandepoele K, Van Montagu MC, Zabeau M, Van de Peer Y. The hidden duplication past of Arabidopsis thaliana. Proceedings of the National Academy of Sciences of the United States of America. 99: 13627-32. PMID 12374856 DOI: 10.1073/pnas.212522399 |
0.879 |
|
| 2002 |
Van De Peer Y, Frickey T, Taylor JS, Meyer A. Dealing with saturation at the amino acid level: A case study based on anciently duplicated zebrafish genes Gene. 295: 205-211. PMID 12354655 DOI: 10.1016/S0378-1119(02)00689-3 |
0.455 |
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| 2002 |
Oborník M, Van de Peer Y, Hypsa V, Frickey T, Slapeta JR, Meyer A, Lukes J. Phylogenetic analyses suggest lateral gene transfer from the mitochondrion to the apicoplast. Gene. 285: 109-18. PMID 12039037 DOI: 10.1016/S0378-1119(02)00427-4 |
0.483 |
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| 2002 |
Lescot M, Déhais P, Thijs G, Marchal K, Moreau Y, Van de Peer Y, Rouzé P, Rombauts S. PlantCARE, a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences. Nucleic Acids Research. 30: 325-7. PMID 11752327 DOI: 10.1093/nar/30.1.325 |
0.302 |
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| 2002 |
Van de Peer Y, Taylor JS, Joseph J, Meyer A. Wanda: a database of duplicated fish genes. Nucleic Acids Research. 30: 109-12. PMID 11752268 DOI: 10.1093/Nar/30.1.109 |
0.583 |
|
| 2001 |
Van de Peer Y, Taylor JS, Braasch I, Meyer A. The ghost of selection past: rates of evolution and functional divergence of anciently duplicated genes. Journal of Molecular Evolution. 53: 436-46. PMID 11675603 DOI: 10.1007/S002390010233 |
0.427 |
|
| 2001 |
Taylor JS, Van de Peer Y, Braasch I, Meyer A. Comparative genomics provides evidence for an ancient genome duplication event in fish. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 356: 1661-79. PMID 11604130 DOI: 10.1098/Rstb.2001.0975 |
0.566 |
|
| 2001 |
Taylor JS, Van de Peer Y, Meyer A. Genome duplication, divergent resolution and speciation. Trends in Genetics : Tig. 17: 299-301. PMID 11377777 DOI: 10.1016/S0168-9525(01)02318-6 |
0.515 |
|
| 1999 |
Andersen RA, Van de Peer Y, Potter D, Sexton JP, Kawachi M, LaJeunesse T. Phylogenetic analysis of the SSU rRNA from members of the Chrysophyceae. Protist. 150: 71-84. PMID 10724520 DOI: 10.1016/S1434-4610(99)70010-6 |
0.339 |
|
| 1997 |
Král'ová I, Van de Peer Y, Jirku M, Van Ranst M, Scholz T, Lukes J. Phylogenetic analysis of a fish tapeworm, Proteocephalus exiguus, based on the small subunit rRNA gene. Molecular and Biochemical Parasitology. 84: 263-6. PMID 9084047 DOI: 10.1016/S0166-6851(96)02809-5 |
0.321 |
|
| 1996 |
Moens L, Vanfleteren J, Van de Peer Y, Peeters K, Kapp O, Czeluzniak J, Goodman M, Blaxter M, Vinogradov S. Globins in nonvertebrate species: dispersal by horizontal gene transfer and evolution of the structure-function relationships. Molecular Biology and Evolution. 13: 324-33. PMID 8587498 DOI: 10.1093/Oxfordjournals.Molbev.A025592 |
0.304 |
|
| 1996 |
Nelissen B, Van de Peer Y, Wilmotte A, De Wachter R. An early origin of plastids within the cyanobacterial divergence is suggested by evolutionary trees based on complete 16S rRNA sequences. Molecular Biology and Evolution. 12: 1166-73. PMID 8524048 DOI: 10.1093/Oxfordjournals.Molbev.A040289 |
0.372 |
|
| 1994 |
Vanfleteren JR, Van de Peer Y, Blaxter ML, Tweedie SA, Trotman C, Lu L, Van Hauwaert ML, Moens L. Molecular genealogy of some nematode taxa as based on cytochrome c and globin amino acid sequences. Molecular Phylogenetics and Evolution. 3: 92-101. PMID 8075836 DOI: 10.1006/Mpev.1994.1012 |
0.342 |
|
| 1992 |
De Wachter R, Neefs JM, Goris A, Van de Peer Y. The gene coding for small ribosomal subunit RNA in the basidiomycete Ustilago maydis contains a group I intron. Nucleic Acids Research. 20: 1251-7. PMID 1561081 DOI: 10.1093/NAR/20.6.1251 |
0.362 |
|
| Show low-probability matches. |
