Bioinformatics

dr. Sanne Abeln
- s.abelnvunl
- Faculty of Science, Bioinformatics - Visiting Fellow
- AIMMS - Visiting Fellow
- Integrative Bioinformatics - Visiting Fellow
Person: Academic
dr. Evert Bosdriesz
- e.bosdrieszvunl
- Faculty of Science, Bioinformatics - Assistant Professor
- AIMMS - Assistant Professor
- Bio Informatics (IBIVU) - Assistant Professor
Person: Academic
dr. ir. Anton Feenstra
- k.a.feenstravunl
- Faculty of Science, Bioinformatics - Associate Professor
- AIMMS - Associate Professor
- Integrative Bioinformatics - Associate Professor
Person: Academic
Dea Gogishvili
- d.gogishvilivunl
- Faculty of Science, Bioinformatics - External PhD Candidate
- AIMMS - External PhD Candidate
- Bio Informatics (IBIVU) - External PhD Candidate
Person: Academic
Victor Kyllesbech
- v.kyllesbechvunl
- Faculty of Science, Bioinformatics - PhD Candidate
- AIMMS - PhD Candidate
Person: Academic

7 Finished

Targeting chromosomal breakpoint structural variants in colorectal cancer
Abeln, S. (Principal Investigator) & Lakbir, S. (Project Researcher)
1/10/21 → 31/10/24
Project: Research
Multi-omics Interdisciplinary Research Integration to Address DEmentia diagnosis.
Abeln, S. (Principal Investigator), Gogishvili, D. (Project Researcher), Waury, K. (Project Researcher) & Heringa, J. (Principal Investigator)
1/11/19 → 31/08/24
Project: Research
ELIXIR-NL Digital Research Infrastructure for Life Sciences.
Feenstra, A. (Project Researcher) & Donkervliet, J. (Project Researcher)
1/09/18 → 31/08/20
Project: Research
Delineating entropic contributions in beta-strand formation.
Abeln, S. (Principal Investigator), Hashemi Shabestari, M. (Project Researcher) & van Gils, J. (Project Researcher)
1/08/18 → 30/09/23
Project: Research
BIOEXE
Jacobsen, A. (Project Researcher) & Feenstra, A. (Principal Investigator)
1/12/12 → 1/07/17
Project: Research

The impact of structural variants in colorectal cancer
Lakbir, S., 29 Oct 2025, 209 p.
Research output: PhD Thesis › PhD-Thesis - Research and graduation internal

Open Access
File
31 Downloads (Pure)
Text indexing for long patterns using locally consistent anchors
Ayad, L. A. K., Loukides, G. & Pissis, S. P., Sept 2025, In: VLDB Journal. 34, 5, p. 1-25 25 p., 58.
Research output: Contribution to Journal › Article › Academic › peer-review

Open Access
Exploring Molecular Odor Taxonomies for Structure-based Odor Predictions using Machine Learning
Verbeek, C., Leemans, I., Mouhib, H., Sajan, A., Lisena, P., Troncy, R., Abeln, S., Sluis, S., Sajan, A. & Haydarlou, R., 1 Aug 2025, In: Chemical Senses.
Research output: Contribution to Journal › Article › Academic › peer-review

Open Access
Subsequence covers of words
Charalampopoulos, P., Pissis, S. P., Radoszewski, J., Rytter, W., Waleń, T. & Zuba, W., 7 Jul 2025, In: Theoretical Computer Science. 1041, p. 1-14 14 p., 115216.
Research output: Contribution to Journal › Article › Academic › peer-review

Open Access
Probing the effect of the disordered flank regions on amyloid fibril growth and proliferation
Aunstrup Larsen, J., van Gils, J. H. M., Ray, S., Dickmanns, M., Wang, S., Sadek, A., Mohammad-Beigi, H., Zanganeh, M., Abeln, S. & Buell, A. K., 18 Jun 2025, (E-pub ahead of print) In: RSC Advances. 15, 26, p. 20668-20681 14 p.
Research output: Contribution to Journal › Article › Academic › peer-review

Open Access

Algorithms in Sequence Analysis
Kumar, R.
1/09/25 → 31/08/26
Course
Basic Models of Biological Networks
Bruggeman, F.
1/09/25 → 31/08/26
Course
Basics of Bioinformatics and Systems Biology
Gralka, M.
1/09/25 → 31/08/26
Course
Bioinformatics for Translational Medicine
Urtasun Elizari, J.
1/09/25 → 31/08/26
Course
Biosystems Data Analysis
Westerhuis, J.
1/09/25 → 31/08/26
Course

13 Lecture / Presentation

PIPENN-EMB: Ensemble net and Protein Embeddings generalise Protein Interface Prediction beyond Homology
Feenstra, A. (Speaker) & Thomas, D. P. G. (Speaker)
18 Jun 2024
Activity: Lecture / Presentation › Academic
Ensemble net and Protein Embeddings generalise Protein Interface Prediction beyond Homology
Feenstra, A. (Keynote speaker)
4 Nov 2024
Activity: Lecture / Presentation › Academic
PIPENN: Protein Interface Prediction from sequence with an Ensemble of Neural Nets
Feenstra, A. (Invited speaker)
3 Nov 2022
Activity: Lecture / Presentation › Academic
Mitochondrial medicine avant la lettre, how the nuclear genome plays catchup to the process of mitochondrial genome degradation
Feenstra, K. A. (Speaker) & Huynen, M. A. (Speaker)
23 Feb 2017
Activity: Lecture / Presentation › Academic
Mapping the Protein-protein Interaction Free Energy Landscape
Feenstra, A. (Invited speaker)
12 May 2017
Activity: Lecture / Presentation › Academic

NWO Veni
Abeln, S. (Recipient), 2011
Prize / Grant: Grant › Academic

MOESM2 of The microbiome associated with equine periodontitis and oral health
Kennedy, R. (Contributor), Lappin, D. (Contributor), Dixon, P. (Contributor), Buijs, M. (Contributor), Zaura, E. (Contributor), Crielaard, W. (Contributor), OâDonnell, L. (Contributor), Bennett, D. (Contributor), Brandt, B. (Contributor) & Riggio, M. (Contributor), Unknown, 14 Apr 2016
DOI: 10.6084/m9.figshare.c.3644585_d1.v1, https://springernature.figshare.com/articles/dataset/MOESM2_of_The_microbiome_associated_with_equine_periodontitis_and_oral_health/4469414/1
Dataset / Software: Dataset
The MIDI Linked Data Cloud dataset
Meroño-Peñuela, A. (Contributor), Hoekstra, R. (Contributor), Gangemi, A. (Contributor), Bloem, P. (Contributor), Stringer, B. (Contributor), Janssen, B. (Contributor), de Boer, V. (Contributor), Allik, A. (Contributor) & de Valk, R. (Contributor), Zenodo, 2017
DOI: 10.5281/zenodo.579603, https://zenodo.org/record/579603
Dataset / Software: Dataset
MOESM1 of The microbiome associated with equine periodontitis and oral health
Kennedy, R. (Contributor), Lappin, D. (Contributor), Dixon, P. (Contributor), Buijs, M. (Contributor), Zaura, E. (Contributor), Crielaard, W. (Contributor), OâDonnell, L. (Contributor), Bennett, D. (Contributor), Brandt, B. (Contributor) & Riggio, M. (Contributor), Unknown, 14 Apr 2016
DOI: 10.6084/m9.figshare.c.3644585_d2.v1, https://springernature.figshare.com/articles/dataset/MOESM1_of_The_microbiome_associated_with_equine_periodontitis_and_oral_health/4469417/1
Dataset / Software: Dataset
Dataset for the tutorial "pinpoint key pathways with Heinz"
Zhang, C. (Creator) & Abeln, S. (Creator), Zenodo, 2018
DOI: 10.5281/zenodo.1344105, https://zenodo.org/record/1344105
Dataset / Software: Dataset
Additional file 2 of INFLECT: an R-package for cytometry cluster evaluation using marker modality
Verhoeff, J. (Creator), Abeln, S. (Creator) & Garcia-Vallejo, J. J. (Creator), Figshare, 2022
DOI: 10.6084/m9.figshare.21582071, https://springernature.figshare.com/articles/dataset/Additional_file_2_of_INFLECT_an_R-package_for_cytometry_cluster_evaluation_using_marker_modality/21582071
Dataset / Software: Dataset

Bioinformatics

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Collaborations and top research areas from the last five years

Dive into details

dr. Sanne Abeln

dr. Evert Bosdriesz

dr. ir. Anton Feenstra

Dea Gogishvili

Victor Kyllesbech

Targeting chromosomal breakpoint structural variants in colorectal cancer

Multi-omics Interdisciplinary Research Integration to Address DEmentia diagnosis.

ELIXIR-NL Digital Research Infrastructure for Life Sciences.

Delineating entropic contributions in beta-strand formation.

BIOEXE

The impact of structural variants in colorectal cancer

Text indexing for long patterns using locally consistent anchors

Exploring Molecular Odor Taxonomies for Structure-based Odor Predictions using Machine Learning

Subsequence covers of words

Probing the effect of the disordered flank regions on amyloid fibril growth and proliferation

Algorithms in Sequence Analysis

Basic Models of Biological Networks

Basics of Bioinformatics and Systems Biology

Bioinformatics for Translational Medicine

Biosystems Data Analysis

PIPENN-EMB: Ensemble net and Protein Embeddings generalise Protein Interface Prediction beyond Homology

Ensemble net and Protein Embeddings generalise Protein Interface Prediction beyond Homology

PIPENN: Protein Interface Prediction from sequence with an Ensemble of Neural Nets

Mitochondrial medicine avant la lettre, how the nuclear genome plays catchup to the process of mitochondrial genome degradation

Mapping the Protein-protein Interaction Free Energy Landscape

NWO Veni

MOESM2 of The microbiome associated with equine periodontitis and oral health

The MIDI Linked Data Cloud dataset

MOESM1 of The microbiome associated with equine periodontitis and oral health

Dataset for the tutorial "pinpoint key pathways with Heinz"

Additional file 2 of INFLECT: an R-package for cytometry cluster evaluation using marker modality

Bioinformatics

Fingerprint

Collaborations and top research areas from the last five years

Profiles

Projects

Research output

Courses

Activities

Prizes

Datasets