Computational sepsis mining and modelling

Computational sepsis mining and modelling

NTNU Health

Computational sepsis mining and modelling

Introduction

Capturing and preserving individual case histories using novel technology for integrating temporal interpretation of clinical text with structured data; Establishing knowledge and decision support for individualized, real-time, infection and sepsis monitoring; Demonstrate a clinical dashboard extending the computerized chart for process monitoring and patient risk mitigation. Indirectly, improve interventions and reduce drug resistance.

Objectives and potential for impact

  1. Using advanced semantic modelling, extract detailed knowledge about infectious disease prevalence and exposure from textual and other health records for Central Norway. This includes re-analysing already established large registers and sources of secondary health information for which the collaborating research groups/centres has permission and consent to use. Impacts: Enable omics-wide association studies based on existing health information. Develop empirically validated set of care/disease cases representative for care improvement and risk reduction, usable for decision support and baselining.
  2. Further research and develop verifiable and scalable technology for massive clinical temporal data analysis, building on theory and tools for process and event mining developed and validated locally and by partners. Impacts: Prepare the Platform for secondary use of health data. Establish operative Platform-agnostic, case-based decision support. Make Norway, NTNU and Central Norway Health Trust an important centre for computational data-driven health.
  3. Establish a gold standard, validated, annotated clinical corpus and corresponding knowledge models for sepsis. Impact: Help nailing precise Sepsis prevention and treatment. Becoming an attractive multi-centre partner, with novel technology and high quality data, for international big health data projects.

 

Research tasks

  1. Improve machine learning methods for recognizing and classifying clinical statements, modifiers, indicators and variables.
  2. Further develop ontologies of infection-related phenotypes, interventions, findings.
  3. Carefully annotate a sufficiently large training corpus of clinical records.
  4. Employ health care process mining methods to derive commonly occurring patterns and subprocesses so as to build knowledge about dependent and independent events and processes.
  5. Train statement-classifiers and data-fusion algorithms using process knowledge, annotated corpus and ontologies.
  6. Further develop theories of constraint-based computational clinical reasoning.
  7. Use research registers, prevalence surveys and other sources to evaluate, improve and validate quality of the computational patient model.

Contact

Contact

Publications

Publications

Overview of our most recent publications

Research activity

Viser 30 av 309 for
Publikasjoner Forfattere Tidsskrift År
A Genome-wide Association Study of Susceptibility to Upper Urinary Tract Infections H.M. Flatby, A. Ravi, K.V. Liyanarachi, J.E. Afset, H. Rasheed, B.M. Brumpton, K. Hveem, B.O. Asvold, A.T. Dewan, E. Solligard, ...flere forfattere Journal of Infectious Diseases 2024
Timely empirical antibiotic therapy against sepsis in a rural Norwegian ambulance service: a prospective cohort study L.-J. Andersson, G.S. Simonsen, E. Solligard, K. Fredriksen ...flere forfattere BMC Health Services Research 2024
Identification and characterisation of carbapenem-resistant Streptococcus nidrosiense sp. nov. isolated from blood culture T.G. Ronning, C. Olaisen, C.G. As, J.E. Afset, M.S. Haugan ...flere forfattere New Microbes and New Infections 2024
Leveraging explainable artificial intelligence for early prediction of bloodstream infections using historical electronic health records R. Bopche, L.T. Gustad, J.E. Afset, B. Ehrnstrom, J.K. Damas, O. Nytro ...flere forfattere PLOS Digital Health 2024
In-hospital mortality, readmission, and prolonged length of stay risk prediction leveraging historical electronic patient records R. Bopche, L.T. Gustad, J.E. Afset, B. Ehrnstrom, J.K. Damas, O. Nytro ...flere forfattere JAMIA Open 2024
Chronic kidney disease and risk of bloodstream infections and sepsis: a 17-year follow-up of the population-based Trøndelag Health Study in Norway K.V. Liyanarachi, R.M. Mohus, T. Rogne, L.T. Gustad, B.O. Asvold, S. Romundstad, E. Solligard, S. Hallan, J.K. Damas ...flere forfattere Infection 2024
Incidence of invasive infections with Group B streptococcus in adults in Norway 1996–2019: a nationwide registry-based case–control study E. Uggen, C. Olaisen, R.V. Lyng, G.S. Simonsen, R.M. Baevre-Jensen, F.W. Gran, B.O. Asvold, T.I.L. Nilsen, J.K. Damas, J.E. Afset ...flere forfattere Infection 2024
The Role of Health Informatics Research: A Case of a Large-Scale Implementation in Norway P.J. Toussaint, G. Ellingsen, M. Hertzum, L. Melby ...flere forfattere Studies in Health Technology and Informatics 2024
A review of information sources and analysis methods for data driven decision aids in child and adolescent mental health services K. Koochakpour, O. Nytro, B.L. Leventhal, Westbye O. Sverre, Rost T. Brox, R. Koposov, T. Frodl, C. Clausen, L. Stien, N. Skokauskas ...flere forfattere International Journal of Medical Informatics 2024
Risk of death in Klebsiella pneumoniae bloodstream infections is associated with specific phylogenetic lineages A. Fostervold, N. Raffelsberger, M.A.K. Hetland, R. Bakksjo, E. Bernhoff, O. Samuelsen, A. Sundsfjord, J.E. Afset, C.F. Berntsen, R.M. Baevre-Jensen, ...flere forfattere Journal of Infection 2024
Enteroaggregative Escherichia coli in mid-Norway: A prospective, case control study I. Haugan, M.G. Husby, B. Skjotskift, D.A. Mostue, A. Brun, L.C. Olsen, M.R. Simpson, H. Lange, J.E. Afset ...flere forfattere PLoS ONE 2024
The combination of pleconaril, rupintrivir, and remdesivir efficiently inhibits enterovirus infections in vitro, delaying the development of drug-resistant virus variants A. Ianevski, I.T. Froysa, H. Lysvand, C. Calitz, T. Smura, Nilsen H.-J. Schjelderup, E. Hoyer, J.E. Afset, A. Sridhar, K.C. Wolthers, ...flere forfattere Antiviral Research 2024
Insights from a decade of surveillance: Molecular epidemiology of methicillin-resistant Staphylococcus aureus in Norway from 2008 to 2017 T.G. Ronning, H. Enger, J.E. Afset, C.G. As ...flere forfattere PLoS ONE 2024
Coding practice for sepsis 2008-21 Kodepraksis ved sepsis 2008–21 N.V. Skei, J.E. Afset, B. Ehrnstrom, B.S. Nessan, J.K. Damas, T.I.L. Nilsen, L.T. Gustad ...flere forfattere Tidsskrift for den Norske laegeforening : tidsskrift for praktisk medicin, ny raekke 2024
Predicting In-Hospital Death from Derived EHR Trajectory Features R. Bopche, L.T. Gustad, J.E. Afset, J.K. Damas, O. Nytro ...flere forfattere Studies in Health Technology and Informatics 2024
Challenges in Interpreting Norwegian Child and Adolescent Mental Health Records K. Koochakpour, Solheim F. Sofie, O. Nytro, C. Clausen, T. Frodl, R. Koposov, B.L. Leventhal, D. Pant, Rost T. Brox, L. Stien, ...flere forfattere Studies in Health Technology and Informatics 2024
Ability of clinical data to predict readmission in Child and Adolescent Mental Health Services K. Koochakpour, D. Pant, O.S. Westbye, T.B. Rost, B.L. Leventhal, R. Koposov, C. Clausen, N. Skokauskas, O. Nytro ...flere forfattere PeerJ Computer Science 2024
The CEKG: A Tool for Constructing Event Graphs in the Care Pathways of Multi-Morbid Patients M.N. Aali, F. Mannhardt, P.J. Toussaint ...flere forfattere CEUR Workshop Proceedings 2024
Cryptosporidium species and subtypes in Norway: predominance of C. parvum and emergence of C. mortiferum J.H. Tipu, A. Sivertsen, J.E. Afset, L. Sandven, H. Brekke, H.M. Lund, L.S. Elburg, P. Gaustad, T. Lier, L.R. Tverelv, ...flere forfattere Emerging Microbes and Infections 2024
Patients and family attitudes about clinical and research sharing of electronic clinical data R. Koposov, L. Stien, C. Clausen, B.L. Leventhal, O.S. Westbye, O. Nytro, K. Koochakpour, D. Pant, T.B. Rost, A. Mandahl, ...flere forfattere Nordic Journal of Psychiatry 2024
Economic evidence of clinical decision support systems in mental health: A systematic literature review L. Stien, C. Clausen, I. Feldman, B.L. Leventhal, R. Koposov, K. Koochakpour, O. Nytro, O.S. Westbye, D. Pant, T.B. Rost, ...flere forfattere Digital Health 2024
Mortality and neurodevelopmental outcome after invasive group B streptococcal infection in infants M. Mynarek, T. Vik, G.L. Andersen, A.K. Brigtsen, S.J. Hollung, T.L. Larose, S. Lydersen, L.C. Olsen, M.S. Strom, J.E. Afset ...flere forfattere Developmental Medicine and Child Neurology 2024
Correction: Trends in mortality after a sepsis hospitalization: a nationwide prospective registry study from 2008 to 2021 (Infection, (2023), 51, 6, (1773-1786), 10.1007/s15010-023-02082-z) N.V. Skei, T.I.L. Nilsen, R.M. Mohus, H.C. Prescott, S. Lydersen, E. Solligard, J.K. Damas, L.T. Gustad ...flere forfattere Infection 2023
Trends in mortality after a sepsis hospitalization: a nationwide prospective registry study from 2008 to 2021 N.V. Skei, T.I.L. Nilsen, R.M. Mohus, H.C. Prescott, S. Lydersen, E. Solligard, J.K. Damas, L.T. Gustad ...flere forfattere Infection 2023
Circulating levels of micronutrients and risk of infections: a Mendelian randomization study H.M. Flatby, A. Ravi, J.K. Damas, E. Solligard, T. Rogne ...flere forfattere BMC Medicine 2023
Epigenetic regulator RNF20 underlies temporal hierarchy of gene expression to regulate postnatal cardiomyocyte polarization C.-Y. Lin, Y.-M. Chang, H.-Y. Tseng, Y.-L. Shih, H.-H. Yeh, Y.-R. Liao, H.-H. Tang, C.-L. Hsu, C.-C. Chen, Y.-T. Yan, ...flere forfattere Cell Reports 2023
Pharmacologic and Genetic Downregulation of Proprotein Convertase Subtilisin/Kexin Type 9 and Survival from Sepsis P.R. Lawler, G. Manvelian, A. Coppi, A. Damask, M.N. Cantor, M.A.R. Ferreira, C. Paulding, N. Banerjee, D. Li, S. Jorgensen, ...flere forfattere Critical Care Explorations 2023
A second update on mapping the human genetic architecture of COVID-19 C. Stevens, G.A. Pathak, A. Iwasaki, J. Karjalainen, J. Mehtonen, M.J. Pirinen, E. Solligard, J.E. Afset ...flere forfattere Nature 2023
Role of fungal burden in risk stratification of HIV-negative patients with Pneumocystis pneumonia: A 12-year, retrospective, observational, multicenter cohort S. Gronseth, T. Rogne, L. Heggelund, B.O. Asvold, J.E. Afset, J.K. Damas ...flere forfattere International Journal of Infectious Diseases 2023
Long-term temporal trends in incidence rate and case fatality of sepsis and COVID-19-related sepsis in Norwegian hospitals, 2008-2021: a nationwide registry study N.V. Skei, T.I.L. Nilsen, S.T. Knoop, H.C. Prescott, S. Lydersen, R.M. Mohus, A. Brkic, K.V. Liyanarachi, E. Solligard, J.K. Damas, ...flere forfattere BMJ Open 2023
Publikasjonsdata lastet ned ukentlig fra Scopus-API via  api.elsevier.com og www.scopus.com.