Bai, Bing; Schiffthaler, Bastian; van der Horst, Sjors et. al 2023 SeedTransNet: a directional translational network revealing regulatory patterns during seed maturation and germination Research article (Peer reviewed) DOI:10.1093/jxb/erac394
Akhter, Shirin; Westrin, Karl Johan; Zivi, Nathan et. al 2022 Cone-setting in spruce is regulated by conserved elements of the age-dependent flowering pathway Research article (Peer reviewed) DOI:10.1111/nph.18449
Chowdhury, Jamil; Kemppainen, Minna; Delhomme, Nicolas et. al 2022 Laccaria bicolor pectin methylesterases are involved in ectomycorrhiza development with Populus tremula x Populus tremuloides Research article (Peer reviewed) DOI:10.1111/nph.18358
Andre, Domenique; Marcon, Alice; Lee, Keh Chien et. al 2022 FLOWERING LOCUS T paralogs control the annual growth cycle in Populus trees Research article (Peer reviewed) DOI:10.1016/j.cub.2022.05.023
Liebsch, Daniela; Juvany, Marta; Li, Zhonghai et. al 2022 Metabolic control of arginine and ornithine levels paces the progression of leaf senescence Research article (Peer reviewed) DOI:10.1093/plphys/kiac244
Ohlund, Pontus; Delhomme, Nicolas; Hayer, Juliette et. al 2022 Transcriptome Analysis of an Aedes albopictus Cell Line Single- and Dual-Infected with Lammi Virus and WNV Research article (Peer reviewed) DOI:10.3390/ijms23020875
Bag, Pushan; Lihavainen, Jenna; Delhomme, Nicolas et. al 2021 An atlas of the Norway spruce needle seasonal transcriptome Research article (Peer reviewed) DOI:10.1111/tpj.15530
Christie, Nanette; Mannapperuma, Chanaka; Ployet, Raphael et. al 2021 qtlXplorer: an online systems genetics browser in the Eucalyptus Genome Integrative Explorer (EucGenIE) Research article (Peer reviewed) DOI:10.1186/s12859-021-04514-9
Papaioannou, Ioannis A.; Dutreux, Fabien; Peltier, France A. et. al 2021 Sex without crossing over in the yeast Saccharomycodes ludwigii Research article (Peer reviewed) DOI:10.1186/s13059-021-02521-w
Martin, Frida; Halvarsson, Peter; Delhomme, Nicolas et. al 2021 Exploring the beta-tubulin gene family in a benzimidazole-resistant Parascaris univalens population Research article (Peer reviewed) DOI:10.1016/j.ijpddr.2021.08.004
Seyfferth, Carolin; Wessels, Bernard A.; Vahala, Jorma et. al 2021 Populus PtERF85 Balances Xylem Cell Expansion and Secondary Cell Wall Formation in Hybrid Aspen Research article (Peer reviewed) DOI:10.3390/cells10081971
Mahboubi, Amir; Delhomme, Nicolas; Haggstrom, Sara et. al 2021 Small-scale sequencing enables quality assessment of Ribo-Seq data: an example from Arabidopsis cell culture Research article (Peer reviewed) DOI:10.1186/s13007-021-00791-w
Mahmud, A. K. M. Firoj; Delhomme, Nicolas; Nandi, Soumyadeep et. al 2021 ProkSeq for complete analysis of RNA-Seq data from prokaryotes Research article (Peer reviewed) DOI:10.1093/bioinformatics/btaa1063
Schneider, Andreas N.; Sundh, John; Sundstrom, Gorel et. al 2021 Comparative Fungal Community Analyses Using Metatranscriptomics and Internal Transcribed Spacer Amplicon Sequencing from Norway Spruce Research article (Peer reviewed) DOI:10.1128/mSystems.00884-20
Zhang, Bo; Sztojka, Bernadette; Seyfferth, Carolin et. al 2020 The chromatin-modifying protein HUB2 is involved in the regulation of lignin composition in xylem vessels Research article (Peer reviewed) DOI:10.1093/jxb/eraa264
Sullivan, Alexis R.; Eldfjell, Yrin; Schiffthaler, Bastian et. al 2020 The Mitogenome of Norway Spruce and a Reappraisal of Mitochondrial Recombination in Plants Research article (Peer reviewed) DOI:10.1093/gbe/evz263
Kloth, Karen J.; Abreu, Ilka N.; Delhomme, Nicolas et. al 2019 PECTIN ACETYLESTERASE9 Affects the Transcriptome and Metabolome and Delays Aphid Feeding(1)([OPEN]) Research article (Peer reviewed) DOI:10.1104/pp.19.00635
Blokhina, Olga; Laitinen, Teresa; Hatakeyama, Yuto et. al 2019 Ray Parenchymal Cells Contribute to Lignification of Tracheids in Developing Xylem of Norway Spruce(1)([OPEN]) Research article (Peer reviewed) DOI:10.1104/pp.19.00743
Wessels, Bernard; Seyfferth, Carolin; Escamez, Sacha et. al 2019 An AP2/ERF transcription factor ERF139 coordinates xylem cell expansion and secondary cell wall deposition Research article (Peer reviewed) DOI:10.1111/nph.15960
Ranade, Sonali Sachin; Delhomme, Nicolas; Garcia-Gil, M. Rosario 2019 Global gene expression analysis in etiolated and de-etiolated seedlings in conifers Research article (Peer reviewed) DOI:10.1371/journal.pone.0219272
Seyfferth, Carolin; Wessels, Bernard A.; Gorzsas, Andras et. al 2019 Ethylene Signaling Is Required for Fully Functional Tension Wood in Hybrid Aspen Research article (Peer reviewed) DOI:10.3389/fpls.2019.01101
Kumar, Vikash; Hainaut, Matthieu; Delhomme, Nicolas et. al 2019 Poplar carbohydrate-active enzymes: whole-genome annotation and functional analyses based on RNA expression data Research article (Peer reviewed) DOI:10.1111/tpj.14417
Ranade, Sonali Sachin; Delhomme, Nicolas; Garcia-Gil, Maria Rosario 2019 Transcriptome analysis of shade avoidance and shade tolerance in conifers Research article (Peer reviewed) DOI:10.1007/s00425-019-03160-z
Zare, Aman; Johansson, Anna-Mia; Karlsson, Edvin et. al 2018 The gut microbiome participates in transgenerational inheritance of low-temperature responses in Drosophila melanogaster Research article (Peer reviewed) DOI:10.1002/1873-3468.13278
Reza, Salim H.; Delhomme, Nicolas; Street, Nathaniel R. et. al 2018 Transcriptome analysis of embryonic domains in Norway spruce reveals potential regulators of suspensor cell death Research article (Peer reviewed) DOI:10.1371/journal.pone.0192945
Akhter, Shirin; Kretzschmar, Warren W.; Nordal, Veronika et. al 2018 Integrative Analysis of Three RNA Sequencing Methods Identifies Mutually Exclusive Exons of MADS-Box Isoforms During Early Bud Development in Picea abies Research article (Peer reviewed) DOI:10.3389/fpls.2018.01625
Singh, Rajesh Kumar; Maurya, Jay P.; Azeez, Abdul et. al 2018 A genetic network mediating the control of bud break in hybrid aspen Research article (Peer reviewed) DOI:10.1038/s41467-018-06696-y
Capovilla, Giovanna; Delhomme, Nicolas; Collani, Silvio et. al 2018 PORCUPINE regulates development in response to temperature through alternative splicing Research article (Peer reviewed) DOI:10.1038/s41477-018-0176-z
Law, Simon R.; Chrobok, Daria; Juvany, Marta et. al 2018 Darkened Leaves Use Different Metabolic Strategies for Senescence and Survival Research article (Peer reviewed) DOI:10.1104/pp.18.00062
Felten, Judith; Vahala, Jorma; Love, Jonathan et. al 2018 Ethylene signaling induces gelatinous layers with typical features of tension wood in hybrid aspen Research article (Peer reviewed) DOI:10.1111/nph.15078
Jokipii-Lukkari, Soile; Delhomme, Nicolas; Schiffthaler, Bastian et. al 2018 Transcriptional Roadmap to Seasonal Variation in Wood Formation of Norway Spruce Research article (Peer reviewed) DOI:10.1104/pp.17.01590
Seyfferth, Carolin; Wessels, Bernard; Jokipii-Lukkari, Soile et. al 2018 Ethylene-Related Gene Expression Networks in Wood Formation Research article (Peer reviewed) DOI:10.3389/fpls.2018.00272
Laitinen, Teresa; Morreel, Kris; Delhomme, Nicolas et. al 2017 A Key Role for Apoplastic H2O2 in Norway Spruce Phenolic Metabolism Research article (Peer reviewed) DOI:10.1104/pp.17.00085
Sundell, David; Street, Nathaniel R.; Kumar, Manoj et. al 2017 AspWood: High-spatial-resolution transcriptome profiles reveal uncharacterized modularity of wood formation in Populus tremula Research article (Peer reviewed) DOI:10.1105/tpc.17.00153
Schiffthaler, Bastian; Kostadima, Myrto; Delhomme, Nicolas et. al 2016 Training in High-Throughput Sequencing: Common Guidelines to Enable Material Sharing, Dissemination, and Reusability Research article (Peer reviewed) DOI:10.1371/journal.pcbi.1004937
Delhomme, Nicolas; Sundström, Görel; Lantz, Henrik et. al 2015 Serendipitous Meta-Transcriptomics: The Fungal Community of Norway Spruce (Picea abies) Research article (Peer reviewed) DOI:10.1371/journal.pone.0139080
Sundell, David; Mannapperuma, Chanaka; Netotea, Sergiu et. al 2015 The Plant Genome Integrative Explorer Resource: PlantGenIE.org Research article (Peer reviewed) DOI:10.1111/nph.13557
Robinson, Kathryn M.; Delhomme, Nicolas; Mahler, Niklas et. al 2014 Populus tremula (European aspen) shows no evidence of sexual dimorphism Research article (Peer reviewed) DOI:10.1186/s12870-014-0276-5
Landry, Jonathan J. M.; Pyl, Paul Theodor; Rausch, Tobias et. al 2013 The Genomic and Transcriptomic Landscape of a HeLa Cell Line Research article (Peer reviewed) DOI:10.1534/g3.113.005777
Nystedt, Bjorn; Street, Nathaniel R.; Wetterbom, Anna et. al 2013 The Norway spruce genome sequence and conifer genome evolution Research article (Peer reviewed) DOI:10.1038/nature12211
Haag, Daniel; Zipper, Petra; Westrich, Viola et. al 2012 Nos2 Inactivation Promotes the Development of Medulloblastoma in Ptch1+/− Mice by Deregulation of Gap43–Dependent Granule Cell Precursor Migration Research article (Peer reviewed) DOI:10.1371/journal.pgen.1002572
Delhomme, Nicolas; Padioleau, Ismael; Furlong, Eileen E. et. al 2012 easyRNASeq: a bioconductor package for processing RNA-Seq data Research article (Peer reviewed) DOI:10.1093/bioinformatics/bts477
Bonn, Stefan; Zinzen, Robert P.; Girardot, Charles et. al 2012 Tissue-specific analysis of chromatin state identifies temporal signatures of enhancer activity during embryonic development Research article (Peer reviewed) DOI:10.1038/ng.1064
Khmelinskii, Anton; Meurer, Matthias; Duishoev, Nurlanbek et. al 2011 Seamless Gene Tagging by Endonuclease-Driven Homologous Recombination Research article (Peer reviewed) DOI:10.1371/journal.pone.0023794
Barbus, Sebastian; Tews, Bjoern; Karra, Daniela et. al 2011 Differential Retinoic Acid Signaling in Tumors of Long-and Short-term Glioblastoma Survivors Research article (Peer reviewed) DOI:10.1093/jnci/djr036
Stange, D. E.; Engel, F.; Longerich, T. et. al 2010 Expression of an ASCL2 related stem cell signature and IGF2 in colorectal cancer liver metastases with 11p15.5 gain Research article (Peer reviewed) DOI:10.1136/gut.2009.195701
Nishant, K. T.; Wei, Wu; Mancera, Eugenio et. al 2010 The Baker's Yeast Diploid Genome Is Remarkably Stable in Vegetative Growth and Meiosis Research article (Peer reviewed) DOI:10.1371/journal.pgen.1001109
Kokocinski, Felix; Delhomme, Nicolas; Wrobel, Gunnar et. al 2005 FACT - a framework for the functional interpretation of high-throughput experiments Research article (Peer reviewed) DOI:10.1186/1471-2105-6-161