Projects per year
Personal profile
Research profile
Our innate immune system is the first to interact with pathogens (e.g. bacteria and virus) and is central in protecting us from infections and determining the final outcome. This is especially true for the very young where the immune system (innate and adaptive) is immature, rendering them increasingly susceptible to infectious diseases. At the same time, unfavorable immune reactions can lead to autoimmune diseases with a significant negative impact. My research focus is to understand the development of the human immune system in early life, with a particular focus on the innate immune system, and as an extension of this understand how immune reactions lead to autoimmune diseases. The main methods I apply are OMICS (Big Data) with bioinformatics including machine learning strategies. The perspective is to facilitate better treatment strategies and diagnostic tools.
Full list of publications: http://scholar.google.com/citations?user=v_zRbfcAAAAJ
CV: https://www.linkedin.com/in/tubenn
Teaching profile
I teach on all academic levels at the university, from 1st semester to PhD level. PBL is a central element in all my teaching activities, and I have attended a number of PBL- andcase-based workshops.
Main subjects:
- Biochemistry
- Eucaryotic cell biology
- Enzyme kinetics
- Bioinformatics
- Proteomics analysis
- Course for case cafilitators
Main methods:
- Lectures with 10-300 students, physical and online with ongoing assignments.
- Project supervision. individual and in groups with laboratory and bioinformatics elements.
- Facilitation of problem-based case learning.
Administrative profile
- Profile track coordinator Translational Medicine MedIS Master Education.
- Studyboard for medicine.
- Semester coordinator 2nd semester MedIS Master.
- Module Coordinator 1.1, Medicine and MedIS Bachelor level.
- Chair for Digital PBL @ SUND Casework.
- Coordinator for Implementation of Digital Competences in the Medicine and MedIS Study Curriculum.
PhD Supervision
- PhD Co-supervisor for Karen Mai Møllegaard (2021 - )
- PhD Co-supervisor for Laura Lind Throne Degn (2021 - )
- PhD assessment committe chairman Rocco Giordano (2021)
- PhD assessment committe chairman Jonas Ellegaard Nielsen (2021)
Expertise related to UN Sustainable Development Goals
In 2015, UN member states agreed to 17 global Sustainable Development Goals (SDGs) to end poverty, protect the planet and ensure prosperity for all. This person’s work contributes towards the following SDG(s):
Education/Academic qualification
Postdoctoral researcher, The innate immune system and inflammation: Proteomics and bioinformatics, Harvard University
1 Oct 2015 → 31 Mar 2017
Postdoctoral resaercher, The innate immune system in inflammatory bowel diseases, Regional Hospital Southern Denmark
1 Apr 2014 → 31 Mar 2015
External positions
Adjunct Associate Professor in Inflammatory Diseases, University of Southern Denmark
1 Apr 2021 → 31 Mar 2026
Keywords
- Biomedicine
- Protein Science
- Systems Biology based approaches using proteomic and metabolomic techniques
- immunology
- innate immune system
- Bioinformatics
- transcriptomics
- proteomics
- Medicine
- Protein Science
- Systems Biology based approaches using proteomic and metabolomic techniques
- immunology
- innate immune system
- Bioinformatics
- transcriptomics
- proteomics
- Chemistry and Bioscience
- biochemistry
- enzymes
- metabolism
- hormones
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Collaborations from the last five years
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EPIC-HIPC: Systems Biology to Identify Biomarkers of Neonatal Vaccine Immunogenicity (EPIC-HIPC)
01/01/2016 → 01/01/2022
Project: Research
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MassIVE: Re-analysis of publicly available proteomics datasets
20/10/2016 → 01/03/2019
Project: Research
Research output
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Dynamic molecular changes during the first week of human life follow a robust developmental trajectory
Lee, A. H., Shannon, C. P., Amenyogbe, N., Bennike, T. B., Diray-Arce, J., Idoko, O. T., Gill, E. E., Ben-Othman, R., Pomat, W. S., van Haren, S. D., Cao, K. A. L., Cox, M., Darboe, A., Falsafi, R., Ferrari, D., Harbeson, D. J., He, D., Bing, C., Hinshaw, S. J., Ndure, J., & 24 others , 12 Mar 2019, In: Nature Communications. 10, 1, 14 p., 1092.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile113 Citations (Scopus)89 Downloads (Pure) -
A clinical proteomics study of exhaled breath condensate and biomarkers for pulmonary embolism
Gade, I. L., Juul Riddersholm, S., Stilling-Vinther, T., Brøndum, R. F., Bennike, T. B. & Honoré, B., Jan 2024, In: Journal of Breath Research. 18, 1, 016007.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile18 Downloads (Pure) -
Advances in proteomics: characterization of the innate immune system after birth and during inflammation
Bennike, T. B., 6 Oct 2023, In: Frontiers in Immunology. 14, 1254948.Research output: Contribution to journal › Review article › peer-review
Open AccessFile10 Downloads (Pure) -
Complement killing of clinical Klebsiella pneumoniae isolates is serum concentration dependent
Opstrup, K. V., Bennike, T. B., Christiansen, G. & Birkelund, S., May 2023, In: Microbes and Infection. 25, 4, 105074.Research output: Contribution to journal › Journal article › Research › peer-review
2 Citations (Scopus) -
Impaired Abcb1a function and red meat in a translational colitis mouse model induces inflammation and alters microbiota composition
Stensballe, A., Bennike, T. B., Ravn-Haren, G., Mortensen, A., Aboo, C., Knudsen, L. A., Rühlemann, M. C., Birkelund, S., Bang, C., Franke, A., Vogel, U., Hansen, A. K. & Andersen, V., 31 Jul 2023, In: Frontiers in Medicine. 10, 1200317.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile17 Downloads (Pure)
Datasets
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Additional file 1 of Proteomic analysis of synovial fluid from rheumatic arthritis and spondyloarthritis patients
Birkelund, S. (Creator), Bennike, T. B. (Creator), Kastaniegaard, K. (Creator), Lausen, M. (Creator), Poulsen, T. B. G. (Creator), Kragstrup, T. W. (Creator), Deleuran, B. W. (Creator), Christiansen, G. (Creator) & Stensballe, A. (Creator), Figshare, 6 Aug 2020
DOI: 10.6084/m9.figshare.12775188.v1, https://springernature.figshare.com/articles/Additional_file_1_of_Proteomic_analysis_of_synovial_fluid_from_rheumatic_arthritis_and_spondyloarthritis_patients/12775188/1 and one more link, https://springernature.figshare.com/articles/dataset/Additional_file_1_of_Proteomic_analysis_of_synovial_fluid_from_rheumatic_arthritis_and_spondyloarthritis_patients/12775188 (show fewer)
Dataset
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Complement deposition on Chlamydia trachomatis
Bennike, T. B. (Creator), Nielsen, M. L. (Creator), Thomsen, M. E. (Creator), Christiansen, G. (Creator), Karred, N. (Creator), Stensballe, A. (Creator) & Birkelund, S. (Creator), PRoteomics IDEntifications Database (PRIDE), 26 May 2020
https://www.ebi.ac.uk/pride/archive/projects/PXD019393
Dataset
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Proteomic analysis of synovial fluid from rheumatic arthritis and spondyloarthritis patients
Birkelund, S. (Creator), Bennike, T. B. (Creator), Kastaniegaard, K. (Creator), Lausen, M. (Creator), Poulsen, T. B. G. (Creator), Kragstrup, T. W. (Creator), Deleuran, B. W. (Creator), Christiansen, G. (Creator) & Stensballe, A. (Creator), Figshare, 2020
DOI: 10.6084/m9.figshare.c.5085102, https://springernature.figshare.com/collections/Proteomic_analysis_of_synovial_fluid_from_rheumatic_arthritis_and_spondyloarthritis_patients/5085102
Dataset
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Proteomic analysis of synovial fluid from rheumatic arthritis and spondyloarthritis patients
Birkelund, S. (Creator), Bennike, T. B. (Creator), Kastaniegaard, K. (Creator), Lausen, M. (Creator), Poulsen, T. B. G. (Creator), Kragstrup, T. W. (Creator), Deleuran, B. W. (Creator), Christiansen, G. (Creator) & Stensballe, A. (Creator), Figshare, 2020
DOI: 10.6084/m9.figshare.c.5085102.v1, https://doi.org/10.6084%2Fm9.figshare.c.5085102.v1
Dataset
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Depleted Prefractionated Human Plasma for Data Independent Acquisition Spectral Library
Bennike, T. B. (Creator), Bellin, M. D. (Contributor), Xuan, Y. (Contributor), Stensballe, A. (Contributor), Møller, F. T. (Contributor), Beilman, G. (Contributor), Levy, O. (Contributor), Cruz-Monserrate, Z. (Contributor), Andersen, V. (Contributor), Steen, J. (Contributor), Conwell, D. L. (Contributor) & Steen, H. (Contributor), PRoteomics IDEntifications Database (PRIDE), 18 Apr 2018
https://www.ebi.ac.uk/pride/archive/projects/PXD008163
Dataset
Activities
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Ontogeny of the plasma proteome across the first week of human life
Tue Bjerg Bennike (Lecturer)
18 Oct 2019Activity: Talks and presentations › Conference presentations
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Large scale proteomics of biofluids
Tue Bjerg Bennike (Lecturer)
5 Dec 2023Activity: Talks and presentations › Conference presentations
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Frontiers in Immunology (Journal)
Tue Bjerg Bennike (Peer reviewer)
3 Aug 2022Activity: Editorial work and peer review › Peer review of manuscripts › Research
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Frontiers in Immunology (Journal)
Tue Bjerg Bennike (Peer reviewer)
30 Jun 2022Activity: Editorial work and peer review › Peer review of manuscripts › Research
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Bottom-up proteomic analysis of the exhaled breath condensate from twenty-six individual healthy persons
Inger Lise Gade (Lecturer), Tue Bjerg Bennike (Lecturer), Søren Risom Kristensen (Other) & Bent Honoré (Other)
14 Jun 2022Activity: Talks and presentations › Conference presentations
Press/Media
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Bedre børnevaccination med Big Data: Ny forskning kortlægger nyfødtes komplicerede første uge
14/03/2019 → 14/03/2019
4 items of Media coverage
Press/Media: Press / Media
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How Do Our Immune Systems Develop in the First Days of Life?
22/10/2020
6 items of Media coverage
Press/Media: Press / Media
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Weekly highlight from Precision Vaccines Program
05/07/2019
1 item of Media coverage
Press/Media: Press / Media
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Big data er vejen til bedre børnevaccinationer
03/04/2019
1 item of Media coverage
Press/Media: Press / Media
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Small babies, big data - Systems biology reveals babies' detailed developmental trajectory during week 1 of life
12/03/2019
1 item of Media coverage
Press/Media: Press / Media