| The Norway spruce genome sequence and conifer genome evolution B Nystedt, NR Street, A Wetterbom, A Zuccolo, YC Lin, DG Scofield, ... Nature 497 (7451), 579-584, 2013 | 1543 | 2013 |
| The Atlantic salmon genome provides insights into rediploidization S Lien, BF Koop, SR Sandve, JR Miller, MP Kent, T Nome, TR Hvidsten, ... Nature 533 (7602), 200-205, 2016 | 999 | 2016 |
| Markers of adenocarcinoma characteristic of the site of origin: development of a diagnostic algorithm JL Dennis, TR Hvidsten, EC Wit, J Komorowski, AK Bell, I Downie, ... Clinical Cancer Research 11 (10), 3766-3772, 2005 | 404 | 2005 |
| Genome interplay in the grain transcriptome of hexaploid bread wheat M Pfeifer, KG Kugler, SR Sandve, B Zhan, H Rudi, TR Hvidsten, ... Science 345 (6194), 1250091, 2014 | 325 | 2014 |
| Photoperiodic control of seasonal growth is mediated by ABA acting on cell-cell communication S Tylewicz, A Petterle, S Marttila, P Miskolczi, A Azeez, RK Singh, ... Science 360 (6385), 212-215, 2018 | 297 | 2018 |
| The plant genome integrative explorer resource: PlantGenIE. org D Sundell, C Mannapperuma, S Netotea, N Delhomme, YC Lin, A Sjödin, ... New Phytologist 208 (4), 1149-1156, 2015 | 265 | 2015 |
| AspWood: High-spatial-resolution transcriptome profiles reveal uncharacterized modularity of wood formation in Populus tremula D Sundell, NR Street, M Kumar, EJ Mellerowicz, M Kucukoglu, ... The Plant Cell 29 (7), 1585-1604, 2017 | 212 | 2017 |
| Lineage-specific rediploidization is a mechanism to explain time-lags between genome duplication and evolutionary diversification FM Robertson, MK Gundappa, F Grammes, TR Hvidsten, AK Redmond, ... Genome biology 18, 1-14, 2017 | 162 | 2017 |
| Predicting gene ontology biological process from temporal gene expression patterns A Lægreid, TR Hvidsten, H Midelfart, J Komorowski, AK Sandvik Genome research 13 (5), 965-979, 2003 | 151 | 2003 |
| Learning rule-based models of biological process from gene expression time profiles using gene ontology TR Hvidsten, A Lægreid, J Komorowski Bioinformatics 19 (9), 1116-1123, 2003 | 145 | 2003 |
| Predicting gene function from gene expressions and ontologies TR Hvidsten, J Komorowski, AK Sandvik, A Lægreid Pacific Symposium on Biocomputing 6, 299-310, 2001 | 119 | 2001 |
| Activity–dormancy transition in the cambial meristem involves stage-specific modulation of auxin response in hybrid aspen K Baba, A Karlberg, J Schmidt, J Schrader, TR Hvidsten, L Bako, ... Proceedings of the National Academy of Sciences 108 (8), 3418-3423, 2011 | 113 | 2011 |
| Gene co-expression network connectivity is an important determinant of selective constraint N Mähler, J Wang, BK Terebieniec, PK Ingvarsson, NR Street, ... PLoS genetics 13 (4), e1006402, 2017 | 112 | 2017 |
| Functional and evolutionary genomic inferences in Populus through genome and population sequencing of American and European aspen YC Lin, J Wang, N Delhomme, B Schiffthaler, G Sundström, A Zuccolo, ... Proceedings of the National Academy of Sciences 115 (46), E10970-E10978, 2018 | 78 | 2018 |
| Subfunctionalization versus neofunctionalization after whole-genome duplication SR Sandve, RV Rohlfs, TR Hvidsten Nature genetics 50 (7), 908-909, 2018 | 77 | 2018 |
| OnPLS integration of transcriptomic, proteomic and metabolomic data shows multi-level oxidative stress responses in the cambium of transgenic hipI-superoxide dismutase Populus … V Srivastava, O Obudulu, J Bygdell, T Löfstedt, P Rydén, R Nilsson, ... BMC genomics 14, 1-16, 2013 | 74 | 2013 |
| A comprehensive analysis of the structure-function relationship in proteins based on local structure similarity TR Hvidsten, A Lægreid, A Kryshtafovych, G Andersson, K Fidelis, ... PLoS ONE 4 (7), e6266, 2009 | 74 | 2009 |
| Challenges in microarray class discovery: a comprehensive examination of normalization, gene selection and clustering E Freyhult, M Landfors, J Önskog, TR Hvidsten, P Rydén BMC bioinformatics 11 (1), 503, 2010 | 70 | 2010 |
| Microbiota-directed fibre activates both targeted and secondary metabolic shifts in the distal gut L Michalak, JC Gaby, L Lagos, SL La Rosa, TR Hvidsten, C Tétard-Jones, ... Nature Communications 11 (1), 5773, 2020 | 68 | 2020 |
| Comparative regulomics supports pervasive selection on gene dosage following whole genome duplication GB Gillard, L Grønvold, LL Røsæg, MM Holen, Ø Monsen, BF Koop, ... Genome Biology 22, 1-18, 2021 | 65* | 2021 |
| Using multi-data hidden Markov models trained on local neighborhoods of protein structure to predict residue–residue contacts P Björkholm, P Daniluk, A Kryshtafovych, K Fidelis, R Andersson, ... Bioinformatics 25 (10), 1264-1270, 2009 | 63 | 2009 |
| Innovation, conservation, and repurposing of gene function in root cell type development K Kajala, M Gouran, L Shaar-Moshe, GA Mason, J Rodriguez-Medina, ... Cell 184 (12), 3333-3348. e19, 2021 | 62 | 2021 |
| Discovering regulatory binding-site modules using rule-based learning TR Hvidsten, B Wilczyński, A Kryshtafovych, J Tiuryn, J Komorowski, ... Genome research 15 (6), 856-866, 2005 | 62 | 2005 |
| ComPlEx: conservation and divergence of co-expression networks in A. thaliana, Populus and O. sativa S Netotea, D Sundell, NR Street, TR Hvidsten BMC genomics 15, 1-17, 2014 | 60 | 2014 |
| NorWood: a gene expression resource for evo‐devo studies of conifer wood development S Jokipii‐Lukkari, D Sundell, O Nilsson, TR Hvidsten, NR Street, ... New Phytologist 216 (2), 482-494, 2017 | 58 | 2017 |
| Populus tremula (European aspen) shows no evidence of sexual dimorphism KM Robinson, N Delhomme, N Mähler, B Schiffthaler, J Önskog, ... BMC plant biology 14, 1-14, 2014 | 57 | 2014 |
| Evolution of cold acclimation and its role in niche transition in the temperate grass subfamily Pooideae M Schubert, L Grønvold, SR Sandve, TR Hvidsten, S Fjellheim Plant physiology 180 (1), 404-419, 2019 | 55* | 2019 |
| Generalized modeling of enzyme–ligand interactions using proteochemometrics and local protein substructures H Strömbergsson, A Kryshtafovych, P Prusis, K Fidelis, JES Wikberg, ... Proteins: Structure, Function, and Bioinformatics 65 (3), 568-579, 2006 | 51 | 2006 |
| A segmental maximum a posteriori approach to genome-wide copy number profiling R Andersson, CEG Bruder, A Piotrowski, U Menzel, H Nord, J Sandgren, ... Bioinformatics 24 (6), 751-758, 2008 | 49 | 2008 |
| Life‐stage associated remodeling of lipid metabolism regulation in Atlantic salmon G Gillard, TN Harvey, A Gjuvsland, Y Jin, M Thomassen, S Lien, M Leaver, ... Molecular Ecology, 2018 | 46 | 2018 |
| Classification of microarrays; synergistic effects between normalization, gene selection and machine learning J Önskog, E Freyhult, M Landfors, P Ryden, TR Hvidsten BMC bioinformatics 12 (1), 390, 2011 | 45 | 2011 |
| Interaction model based on local protein substructures generalizes to the entire structural enzyme-ligand space H Strömbergsson, P Daniluk, A Kryshtafovych, K Fidelis, JES Wikberg, ... Journal of chemical information and modeling 48 (11), 2278-2288, 2008 | 45 | 2008 |
| Characterization of cytokinin signaling and homeostasis gene families in two hardwood tree species: Populus trichocarpa and Prunus persica J Immanen, K Nieminen, H Duchens Silva, F Rodríguez Rojas, LA Meisel, ... BMC genomics 14, 1-12, 2013 | 44 | 2013 |
| A novel approach to fold recognition using sequence-derived properties from sets of structurally similar local fragments of proteins TR Hvidsten, A Kryshtafovych, J Komorowski, K Fidelis Bioinformatics 19 (suppl_2), ii81-ii91, 2003 | 43 | 2003 |
| The grayling genome reveals selection on gene expression regulation after whole-genome duplication S Varadharajan, SR Sandve, GB Gillard, OK Tørresen, TD Mulugeta, ... Genome biology and evolution 10 (10), 2785-2800, 2018 | 42 | 2018 |
| A metabolite roadmap of the wood‐forming tissue in Populus tremula IN Abreu, AI Johansson, K Sokołowska, T Niittylä, B Sundberg, ... New Phytologist 228 (5), 1559-1572, 2020 | 38 | 2020 |
| Integration of absolute multi-omics reveals dynamic protein-to-RNA ratios and metabolic interplay within mixed-domain microbiomes F Delogu, BJ Kunath, PN Evans, MØ Arntzen, TR Hvidsten, PB Pope Nature communications 11 (1), 4708, 2020 | 37 | 2020 |
| Ethylene signaling induces gelatinous layers with typical features of tension wood in hybrid aspen J Felten, J Vahala, J Love, A Gorzsás, M Rüggeberg, N Delhomme, ... New Phytologist 218 (3), 999-1014, 2018 | 37 | 2018 |
| Towards integration of population and comparative genomics in forest trees PK Ingvarsson, TR Hvidsten, NR Street New Phytologist 212 (2), 338-344, 2016 | 37 | 2016 |
| From proteins to polysaccharides: lifestyle and genetic evolution of Coprothermobacter proteolyticus BJ Kunath, F Delogu, AE Naas, MØ Arntzen, VGH Eijsink, B Henrissat, ... The ISME journal 13 (3), 603-617, 2019 | 35 | 2019 |
| Guidelines for RNA-Seq data analysis N Delhomme, N Mähler, B Schiffthaler, D Sundell, C Mannapperuma, ... EpiGeneSys Protocol, 2015 | 34 | 2015 |
| A multi-omics approach reveals function of Secretory Carrier-Associated Membrane Proteins in wood formation of Populus trees O Obudulu, N Mähler, T Skotare, J Bygdell, IN Abreu, M Ahnlund, ... BMC genomics 19, 1-18, 2018 | 32 | 2018 |
| Extracting functional trends from whole genome duplication events using comparative genomics RA Hermansen, TR Hvidsten, SR Sandve, DA Liberles Biological procedures online 18, 1-10, 2016 | 30 | 2016 |
| Serendipitous Meta-Transcriptomics: The Fungal Community of Norway Spruce (Picea abies) N Delhomme, G Sundström, N Zamani, H Lantz, YC Lin, TR Hvidsten, ... PloS ONE 10 (9), e0139080, 2015 | 28 | 2015 |
| A systems biology model of the regulatory network in Populus leaves reveals interacting regulators and conserved regulation N Street, S Jansson, TR Hvidsten BMC Plant Biology 11 (1), 13, 2011 | 28 | 2011 |
| Co-expression analysis, proteomic and metabolomic study on the impact of a Deg/HtrA protease triple mutant in Synechocystis sp. PCC 6803 exposed to temperature and high light … H Miranda, O Cheregi, S Netotea, TR Hvidsten, T Moritz, C Funk Journal of Proteomics 78, 294 – 311, 2012 | 25 | 2012 |
| A tutorial-based guide to the ROSETTA system: A Rough Set Toolkit for Analysis of Data TR Hvidsten http://www.trhvidsten.org, 2006 | 24* | 2006 |
| Leaf shape in Populus tremula is a complex, omnigenic trait N Mähler, B Schiffthaler, KM Robinson, BK Terebieniec, M Vučak, ... Ecology and evolution 10 (21), 11922-11940, 2020 | 23 | 2020 |
| Quantitative proteomics reveals protein profiles underlying major transitions in aspen wood development O Obudulu, J Bygdell, B Sundberg, T Moritz, TR Hvidsten, J Trygg, ... BMC genomics 17, 1-17, 2016 | 22 | 2016 |
| Local descriptors of protein structure: A systematic analysis of the sequence‐structure relationship in proteins using short‐and long‐range interactions TR Hvidsten, A Kryshtafovych, K Fidelis Proteins: Structure, Function, and Bioinformatics 75 (4), 870-884, 2009 | 20 | 2009 |
| Using local gene expression similarities to discover regulatory binding site modules B Wilczyński, TR Hvidsten, A Kryshtafovych, J Tiuryn, J Komorowski, ... BMC bioinformatics 7 (1), 505, 2006 | 16 | 2006 |
| Rough sets in bioinformatics TR Hvidsten, J Komorowski Transactions on rough sets VII, Lecture notes in computer science 4400, 225-243, 2007 | 14 | 2007 |
| SalMotifDB: a tool for analyzing putative transcription factor binding sites in salmonid genomes TD Mulugeta, T Nome, TH To, MK Gundappa, DJ Macqueen, DI Våge, ... BMC genomics 20, 1-8, 2019 | 13 | 2019 |
| Overexpression of vesicle-associated membrane protein PttVAP27-17 as a tool to improve biomass production and the overall saccharification yields in Populus trees ML Gandla, N Mähler, S Escamez, T Skotare, O Obudulu, L Möller, ... Biotechnology for Biofuels 14, 1-14, 2021 | 12 | 2021 |
| Populus PtERF85 Balances Xylem Cell Expansion and Secondary Cell Wall Formation in Hybrid Aspen. C Seyfferth, BA Wessels, J Vahala, J Kangasjärvi, N Delhomme, ... Cells 10 (8), 1971, 2021 | 12 | 2021 |
| Fault diagnosis in rotating machinery using rough set theory and ROSETTA TR Hvidsten European Congress on Intelligent Techniques & Soft Computing (EUFIT'99), 1999 | 12 | 1999 |
| Metabolic influence of core ciliates within the rumen microbiome TO Andersen, I Altshuler, A Vera-Ponce de León, JM Walter, E McGovern, ... The ISME Journal 17 (7), 1128-1140, 2023 | 10 | 2023 |
| Identification of growth regulators using cross-species network analysis in plants PL Curci, J Zhang, N Mähler, C Seyfferth, C Mannapperuma, T Diels, ... Plant Physiology, 2022 | 9 | 2022 |
| Revealing cell cycle control by combining model-based detection of periodic expression with novel cis-regulatory descriptors C Andersson, TR Hvidsten, A Isaksson, M Gustafsson, J Komorowski BMC systems biology 1 (1), 45, 2007 | 9 | 2007 |
| Gene expression trends and protein features effectively complement each other in gene function prediction K Wabnik, TR Hvidsten, A Kedzierska, J Van Leene, G De Jaeger, ... Bioinformatics 25 (3), 322-330, 2009 | 8 | 2009 |
| Transkingdom network analysis provides insight into host-microbiome interactions in Atlantic salmon MA Strand, Y Jin, SR Sandve, PB Pope, TR Hvidsten Computational and Structural Biotechnology Journal 19, 1028-1034, 2021 | 6 | 2021 |
| Predicting function of genes and proteins from sequence, structure and expression data TR Hvidsten Uppsala University, 2004 | 6 | 2004 |
| Towards knowledge discovery from cDNA microarray gene expression data J Komorowski, TR Hvidsten, TK Jenssen, D Tjeldvoll, E Hovig, A Sandvik, ... Principles of Data Mining and Knowledge Discovery, Lecture Notes in Computer …, 2000 | 6 | 2000 |
| What can cold‐induced transcriptomes of Arctic Brassicaceae tell us about the evolution of cold tolerance? S Birkeland, T Slotte, A Krag Brysting, ALS Gustafsson, ... Molecular Ecology 31 (16), 4271-4285, 2022 | 5 | 2022 |
| Ny kunnskap fra måling av genuttrykk gjennom DNA-mikromatrise J Komorowski, TR Hvidsten, TK Jenssen, D Tjeldvoll, E Hovig, A Lægreid, ... Tidsskr Nor Lægeforen 121 (10), 1229-1233, 2001 | 5 | 2001 |
| Synergy: A Web Resource for Exploring Gene Regulation in Synechocystis sp. PCC6803 N Mähler, O Cheregi, C Funk, S Netotea, TR Hvidsten PLoS ONE 9 (11), e113496, 2014 | 4 | 2014 |
| A dual enrichment strategy provides soil-and digestate-competent nitrous oxide-respiring bacteria for mitigating climate forcing in agriculture KR Jonassen, I Ormåsen, C Duffner, TR Hvidsten, LR Bakken, SHW Vick Mbio 13 (3), e00788-22, 2022 | 3 | 2022 |
| Calpain DEK1 acts as a developmental switch gatekeeping cell fate transitions V Demko, T Belova, M Messerer, TR Hvidsten, PF Perroud, AE Ako, ... BioRXiv, 2021.08. 25.457637, 2021 | 3 | 2021 |
| A computer scientist's guide to the regulatory genome B Wilczyński, TR Hvidsten Fundamenta Informaticae 103 (1-4), 323-332, 2010 | 2 | 2010 |
| Bioinformatics strategies for cDNA-microarray data processing J Fahlén, M Landfors, E Freyhult, M Bylesjö, J Trygg, T Hvidsten, P Rydén Batch Effects and Noise in Microarray Experiments: Sources and Solutions, 61-74, 2009 | 2 | 2009 |
| Linking genomic prediction of fillet fat content in Atlantic salmon to underlying changes in lipid metabolism regulation TN Harvey, H Dvergedal, L Grønvold, Y Jin, J Ødegård, SA Korsvoll, ... Aquaculture, 740678, 2024 | 1* | 2024 |
| The genome regulatory landscape of Atlantic salmon liver through smoltification TN Harvey, GB Gillard, LL Røsæg, F Grammes, Ø Monsen, JO Vik, ... bioRxiv, 2023.08. 16.553484, 2023 | 1 | 2023 |
| Differential gene expression in the olfactory bulb following exposure to the olfactory toxicant 2, 6-dichlorophenyl methylsulphone and its 2, 5-dichlorinated isomer in mice U Bergström, JA Olsson, TR Hvidsten, J Komorowski, I Brandt Neurotoxicology 28 (6), 1120-1128, 2007 | 1 | 2007 |
| The genome regulatory landscape of Atlantic salmon liver through smoltification TN Harvey, GB Gillard, LL Røsæg, F Grammes, Ø Monsen, JO Vik, ... Plos one 19 (4), e0302388, 2024 | | 2024 |
| Regulation of developmental gatekeeping and cell fate transition by the calpain protease DEK1 in Physcomitrium patens V Demko, T Belova, M Messerer, TR Hvidsten, PF Perroud, AE Ako, ... Communications Biology 7 (1), 1-19, 2024 | | 2024 |
| The need for high-resolution gut microbiome characterization to design efficient strategies for sustainable aquaculture production S Gupta, AVP de León, M Kodama, M Hötzinger, CG Clausen, L Pless, ... bioRxiv, 2024 | | 2024 |
| The role of transposon activity in shaping cis-regulatory element evolution after whole genome duplication O Monsen, L Gronvold, A Datsomor, TN Harvey, J Kijas, ASJ Suh, ... bioRxiv, 2024.01. 02.573861, 2024 | | 2024 |
| Functional validation of transposable element–derived cis-regulatory elements in Atlantic salmon HM Sahlström, AK Datsomor, Ø Monsen, TR Hvidsten, SR Sandve G3: Genes, Genomes, Genetics 13 (4), jkad034, 2023 | | 2023 |
| Analyses of Genome Regulatory Evolution Following Whole-Genome Duplication Using the Phylogenetic EVE Model K Arzumanova, RV Rohlfs, L Grønvold, MA Strand, TR Hvidsten, ... Polyploidy: Methods and Protocols, 209-225, 2023 | | 2023 |
| The Salmon Microbial Genome Atlas enables novel insights into bacteria-host interactions via functional mapping AVP de Leon, M Hoetzinger, T Hensen, S Gupta, B Weston, SM Johnsen, ... bioRxiv, 2023.12. 10.570985, 2023 | | 2023 |
| High radiosensitivity in Norway spruce (Picea abies) is rendered by less comprehensive mobilisation of protection, repair and stress responses compared to the radiotolerant A … P Bhattacharjee, D Blagojevic, YK Lee, GB Gillard, L Gronvold, ... bioRxiv, 2023.11. 20.562501, 2023 | | 2023 |
| Computational Molecular Biology-an overview TR Hvidsten NTNU Computer Science Graduate Student Conference, 2001 | | 2001 |
| Knowledge Discovery in Gene Expression Databases TR Hvidsten Norwegian University of Science and Technology, 1999 | | 1999 |
Simen R. SandveNorwegian university of life sciencesVerified email at nmbu.no
