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Umeå universitet
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Huvudmenyn dold.
Personalbild Johan Trygg

Johan Trygg

Forskningen fokuserar på att utveckla kemometri.

Vetenskaplig meritering: Docent

Kontakt

E-post
johan.trygg@umu.se
Telefon
090-786 69 17, 0730-64 71 37

Verksam som

Anknytning
Professor vid Kemiska institutionen
Plats
KB.B4, Linnaeus väg 10, (rum: C4.13.19) Umeå universitet, 901 87 Umeå

Forskningen fokuserar på att utveckla kemometri vilket inkluderar avancerad data analys på storskaliga 'omics' dataset för att förstå, förebygga och behandla sjukdomar och därigenom förbättra global hälsa. 

Jag är föreståndare för Computational Analytics Support Platform (CASP)

OPLS-based multiclass classification and data-driven interclass relationship discovery
Journal of Chemical Information and Modeling, American Chemical Society (ACS) 2025, Vol. 65, (4) : 1762-1770
Forsgren, Edvin; Björkblom, Benny; Trygg, Johan; et al.
Telomemore enables single-cell analysis of cell cycle and chromatin condensation
Nucleic Acids Research, Oxford University Press 2025, Vol. 53, (3)
Yakovenko, Iryna; Mihai, Ionut Sebastian; Selinger, Martin; et al.
Time-resolved hierarchical modeling highlights metabolites influencing productivity and cell death in Chinese hamster ovary cells
Biotechnology Journal, Wiley-VCH Verlagsgesellschaft 2025, Vol. 20, (3)
Eriksson, Andreas; Richelle, Anne; Trygg, Johan; et al.
A novel data mining framework to investigate causes of boiler failures in waste-to-energy plants
Processes, MDPI 2024, Vol. 12, (7)
Wang, Dong; Jiang, Lili; Kjellander, Måns; et al.
A scalable, data analytics workflow for image-based morphological profiles
Chemometrics and Intelligent Laboratory Systems, Elsevier 2024, Vol. 254
Forsgren, Edvin; Cloarec, Olivier; Jonsson, Pär; et al.
Bounding box is all you need: learning to segment cells in 2D microscopic images via box annotations
Medical image understanding and analysis: 28th annual conference, MIUA 2024, Manchester, UK, July 24–26, 2024, proceedings, part I, Cham: Springer 2024 : 314-328
Khalid, Nabeel; Caroprese, Maria; Lovell, Gillian; et al.
CellGenie: an end-to-end pipeline for synthetic cellular data generation and segmentation: a use case for cell segmentation in microscopic images
Medical image understandingand analysis: 28th Annual Conference, MIUA 2024, Manchester, UK, July 24–26, 2024, Proceedings, part 1, Springer Nature 2024 : 387-401
Khalid, Nabeel; Koochali, Mohammadmahdi; Leon, Duway Nicolas Lesmes; et al.
CellSpot: deep learning-based efficient cell center detection in microscopic images
Artificial Neural Networks and Machine Learning – ICANN 2024: 33rd International Conference on Artificial Neural Networks, Lugano, Switzerland, September 17–20, 2024, Proceedings, Part VIII, Springer Nature 2024 : 215-229
Khalid, Nabeel; Caroprese, Maria; Lovell, Gillian; et al.
Feasibility and performance of cross-clone Raman calibration models in CHO cultivation
Biotechnology Journal, John Wiley & Sons 2024, Vol. 19, (1)
Machleid, Rafael; Hoehse, Marek; Scholze, Steffi; et al.
Deep learning architectures for the prediction of YY1-mediated chromatin loops
Bioinformatics research and applications: 19th international symposium, ISBRA 2023, Wrocław, Poland, October 9–12, 2023, proceedings, Springer 2023 : 72-84
Abbasi, Ahtisham Fazeel; Asim, Muhammad Nabeel; Trygg, Johan; et al.
Near-infrared hyperspectral image analysis for monitoring the cheese-ripening process
Journal of Dairy Science, Elsevier 2023, Vol. 106, (11) : 7407-7418
Alinaghi, Masoumeh; Nilsson, David; Singh, Nikita; et al.
PACE: point annotation-based cell segmentation for efficient microscopic image analysis
Artificial Neural Networks and Machine Learning – ICANN 2023: 32nd International Conference on Artificial Neural Networks, Heraklion, Crete, Greece, September 26–29, 2023, Proceedings, Part II, Springer Nature 2023 : 545-557
Khalid, Nabeel; Froes, Tiago Comassetto; Caroprese, Maria; et al.
BoT-Net: a lightweight bag of tricks-based neural network for efficient LncRNA–miRNA interaction prediction
Interdisciplinary Sciences: Computational Life Sciences, Springer 2022, Vol. 14, (4) : 841-862
Asim, Muhammad Nabeel; Ibrahim, Muhammad Ali; Zehe, Christoph; et al.
DeepMuCS: A framework for co-culture microscopic image analysis: from generation to segmentation
2022 IEEE-EMBS International Conference on Biomedical and Health Informatics (BHI), IEEE 2022 : 1-4
Khalid, Nabeel; Koochali, Mohammadmahdi; Rajashekar, Vikas; et al.
EL-RMLocNet: An explainable LSTM network for RNA-associated multi-compartment localization prediction
Computational and Structural Biotechnology Journal, Elsevier 2022, Vol. 20 : 3986-4002
Asim, Muhammad Nabeel; Ibrahim, Muhammad Ali; Malik, Muhammad Imran; et al.
Hierarchical time-series analysis of dynamic bioprocess systems
Biotechnology Journal, John Wiley & Sons 2022, Vol. 17, (12)
Alinaghi, Masoumeh; Surowiec, Izabella; Scholze, Steffi; et al.
Perinatal risk factors for mortality in very preterm infants: A nationwide, population-based discriminant analysis
Acta Paediatrica, John Wiley & Sons 2022, Vol. 111, (8) : 1526-1535
Norman, Mikael; Nilsson, David; Trygg, Johan; et al.
Point2Mask: A Weakly Supervised Approach for Cell Segmentation Using Point Annotation
Medical image understanding and analysis: 26th annual conference, MIUA 2022, Cambridge, UK, July 27–29, 2022, proceedings, Springer 2022 : 139-153
Khalid, Nabeel; Schmeisser, Fabian; Koochali, Mohammadmahdi; et al.
Serine protease inhibitors restrict host susceptibility to SARS-CoV-2 infections
mBio, American Society for Microbiology 2022, Vol. 13, (3)
Rosendal, Ebba; Mihai, Ionut Sebastian; Becker, Miriam; et al.
Toward Delicate Anomaly Detection of Energy Consumption for Buildings: Enhance the Performance From Two Levels
IEEE Access, IEEE 2022, Vol. 10 : 31649-31659
Wang, Dong; Enlund, Therese; Trygg, Johan; et al.
Towards better process management in wastewater treatment plants: Process analytics based on SHAP values for tree-based machine learning methods
Journal of Environmental Management, Elsevier 2022, Vol. 301
Wang, Dong; Thunéll, Sven; Lindberg, Ulrika; et al.
A machine learning framework to improve effluent quality control in wastewater treatment plants
Science of the Total Environment, Elsevier 2021, Vol. 784
Wang, Dong; Thunéll, Sven; Lindberg, Ulrika; et al.
A robust and precise convnet for small non-coding rna classification (rpc-snrc)
IEEE Access, Vol. 9 : 19379-19390
Asim, Muhammad Nabeel; Malik, Muhammad Imran; Zehe, Christoph; et al.
An Introduction to Some Basic Chemometric Tools
Chemometrics and Cheminformatics in Aquatic Toxicology, John Wiley & Sons 2021 : 71-88
Eriksson, Lennart; Johansson, Erik; Trygg, Johan
DeepCeNS: An end-to-end Pipeline for Cell and Nucleus Segmentation in Microscopic Images
Proceedings of the International Joint Conference on Neural Networks
Khalid, Nabeel; Munir, Mohsin; Edlund, Christoffer; et al.
DeepCIS: An end-to-end Pipeline for Cell-type aware Instance Segmentation in Microscopic Images
2021 IEEE EMBS International Conference on Biomedical and Health Informatics, Proceedings
Khalid, Nabeel; Munir, Mohsin; Edlund, Christoffer; et al.
L2S-MirLoc: A Lightweight Two Stage MiRNA Sub-Cellular Localization Prediction Framework
Proceedings of the International Joint Conference on Neural Networks
Asim, Muhammad Nabeel; Ibrahim, Muhammad Ali; Zehe, Christoph; et al.
LIVECell: a large-scale dataset for label-free live cell segmentation
Nature Methods, Nature Publishing Group 2021, Vol. 18, (9) : 1038-1045
Edlund, Christoffer; Jackson, Timothy R.; Khalid, Nabeel; et al.
Multiblock variable influence on orthogonal projections (MB-VIOP) for enhanced interpretation of total, global, local and unique variations in OnPLS models
BMC Bioinformatics, BioMed Central 2021, Vol. 22, (1)
Galindo-Prieto, Beatriz; Geladi, Paul; Trygg, Johan
Out-of-Distribution Example Detection in Deep Neural Networks using Distance to Modelled Embedding
Sjögren, Rickard; Trygg, Johan
Overexpression of vesicle-associated membrane protein PttVAP27-17 as a tool to improve biomass production and the overall saccharification yields in Populus trees
Biotechnology for Biofuels, BioMed Central 2021, Vol. 14, (1)
Gandla, Madhavi Latha; Mähler, Niklas; Escamez, Sacha; et al.
Statistical analysis in metabolic phenotyping
Nature Protocols, Nature Publishing Group 2021, Vol. 16, (9) : 4299-4326
Blaise, Benjamin J.; Correia, Gonçalo D. S.; Haggart, Gordon A.; et al.
A whole-genome sequenced control population in northern Sweden reveals subregional genetic differences
PLOS ONE, Public Library Science 2020, Vol. 15, (9)
Svensson, Daniel; Rentoft, Matilda; Dahlin, Anna M.; et al.
Analysis of Plant Cell Walls Using High-Throughput Profiling Techniques with Multivariate Methods
The Plant Cell Wall: Methods and Protocols, Humana Press 2020 : 327-337
Moore, John P.; Gao, Yu; Zietsman, Anscha J. J.; et al.
Application of multiblock analysis on a small metabolomic multi-tissue dataset
Metabolites, MDPI 2020, Vol. 10, (7)
Torell, Frida; Skotare, Tomas; Trygg, Johan
MirLocPredictor: A ConvNet-Based Multi-Label MicroRNA Subcellular Localization Predictor by Incorporating k-Mer Positional Information
Genes, MDPI 2020, Vol. 11, (12)
Asim, Muhammad Nabeel; Malik, Muhammad Imran; Zehe, Christoph; et al.
Multivariate patent analysis: using chemometrics to analyze collections of chemical and pharmaceutical patents
Journal of Chemometrics, John Wiley & Sons 2020, Vol. 34, (1)
Sjögren, Rickard; Stridh, Kjell; Skotare, Tomas; et al.
Overexpression of VviPGIP1 and NtCAD14 in Tobacco Screened Using Glycan Microarrays Reveals Cell Wall Reorganisation in the Absence of Fungal Infection
Vaccines, MDPI 2020, Vol. 8, (3)
Weiller, Florent; Gerber, Lorenz; Trygg, Johan; et al.
Subspace Based Model Identification for an Industrial Bioreactor: Handling Infrequent Sampling Using Missing Data Algorithms
Processes, MDPI 2020, Vol. 8, (12)
Patel, Nikesh; Corbett, Brandon; Trygg, Johan; et al.
A geographically matched control population efficiently limits the number of candidate disease-causing variants in an unbiased whole-genome analysis
PLOS ONE, Public Library of Science 2019, Vol. 14, (3)
Rentoft, Matilda; Svensson, Daniel; Sjödin, Andreas; et al.
Cytokine Profiles in Autoantibody Defined Subgroups of Systemic Lupus Erythematosus
Journal of Proteome Research, American Chemical Society (ACS) 2019, Vol. 18, (3) : 1208-1217
Torell, Frida; Eketjäll, Susanna; Idborg, Helena; et al.
doepipeline: a systematic approach to optimizing multi-level and multi-step data processing workflows
BMC Bioinformatics, BioMed Central 2019, Vol. 20, (1)
Svensson, Daniel; Sjögren, Rickard; Sundell, David; et al.
Joint and unique multiblock analysis for integration and calibration transfer of NIR instruments
Analytical Chemistry, Washington: American Chemical Society (ACS) 2019, Vol. 91, (5) : 3516-3524
Skotare, Tomas; Nilsson, David; Xiong, Shaojun; et al.
Joint and unique multiblock analysis of biological data: multiomics malaria study
Faraday discussions, Cambridge: Royal Society of Chemistry 2019, Vol. 218 : 268-283
Surowiec, Izabella; Skotare, Tomas; Sjögren, Rickard; et al.
Metabolic profiling of zebrafish embryo development from blastula period to early larval stages
PLOS ONE, San Francisco: Public Library of Science 2019, Vol. 14, (5)
Dhillon, Sundeep S.; Torell, Frida; Donten, Magdalena; et al.
Ultrasound imaging of dorsal neck muscles with speckle tracking analyses: the relationship between muscle deformation and force
Scientific Reports, Nature Publishing Group 2019, Vol. 9
Peterson, Gunnel; O'Leary, Shaun; Nilsson, David; et al.
A multi-omics approach reveals function of Secretory Carrier-Associated Membrane Proteins in wood formation of​ ​​Populus​​ ​trees
BMC Genomics, Springer Publishing Company 2018, Vol. 19
Obudulu, Ogonna; Mähler, Niklas; Skotare, Tomas; et al.
Alterations in the Mechanical Response of Deep Dorsal Neck Muscles in Individuals Experiencing Whiplash-Associated Disorders Compared to Healthy Controls: An Ultrasound Study
American Journal of Physical Medicine & Rehabilitation, LIPPINCOTT WILLIAMS & WILKINS 2018, Vol. 97, (2) : 75-82
Rahnama, Leila; Peterson, Gunnel; Kazemnejad, Anoshirvan; et al.
Kynurenine pathway is altered in patients with SLE and associated with severe fatigue
Lupus Science and Medicine, BMJ Publishing Group Ltd 2018, Vol. 5, (1)
Åkesson, Karolina; Pettersson, Susanne; Stahl, Sara; et al.
Metabolic Profiling of Multiorgan Samples: Evaluation of MODY5/RCAD Mutant Mice
Journal of Proteome Research, American Chemical Society (ACS) 2018, Vol. 17, (7) : 2293-2306
Torell, Frida; Bennet, Kate; Cereghini, Silvia; et al.
Visa publikationer i DiVA

Forskargrupper

Forskningsledare
Johan Trygg Chemometrics Lab