K. Laukens

J. Cotton, K. Laukens, P. Meysman, 2018, Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases.

Transcriptome profiling of HepG2 cells exposed to the flame retardant 9,10-dihydro-9-oxa-10-phosphaphenanthrene 10-oxide (DOPO).

S. Husson, K. Laukens, G. Beemster, 2018, Toxicology research.

Untargeted liquid chromatography-mass spectrometry metabolomics to assess drug-induced cholestatic features in HepaRG® cells.

T. Vanhaecke, A. Covaci, K. Laukens, 2019, Toxicology and applied pharmacology.

1H-NMR study of the metabolome of an exceptionally anoxia tolerant vertebrate, the crucian carp (Carassius carassius)

K. Laukens, G. Nilsson, R. Dommisse, 2012, Metabolomics.

Multidisciplinary study of the secondary immune response in grandparents re-exposed to chickenpox

H. Goossens, N. Hens, P. van Damme, 2017, Scientific Reports.

Viral Evolution and Immunology of SARS-CoV-2 in a Persistent Infection after Treatment with Rituximab

B. Ogunjimi, K. Laukens, P. Meysman, 2022, Viruses.

Variants in Bedaquiline-Candidate-Resistance Genes: Prevalence in Bedaquiline-Naive Patients, Effect on MIC, and Association with Mycobacterium tuberculosis Lineage

A. Pain, T. Heupink, K. Laukens, 2022, Antimicrobial agents and chemotherapy.

Proteomic profiling of cellular targets of lipopolysaccharide-induced signalling in Nicotiana tabacum BY-2 cells.

K. Laukens, E. Witters, I. Dubery, 2008, Biochimica et biophysica acta.

clusTCR: a Python interface for rapid clustering of large sets of CDR3 sequences

K. Laukens, P. Meysman, Sebastiaan Valkiers, 2021, bioRxiv.

Band 3–mediated Plasmodium vivax invasion is associated with transcriptional variation in PvTRAg genes

A. Rosanas-Urgell, K. Laukens, L. Robinson, 2022, Frontiers in Cellular and Infection Microbiology.

Cyclic AMP affinity purification and ESI–QTOF MS–MS identification of cytosolic glyceraldehyde 3‐phosphate dehydrogenase and two nucleoside diphosphate kinase isoforms from tobacco BY‐2 cells

K. Laukens, H. V. Van Onckelen, E. Witters, 2001, FEBS letters.

Semi-supervised machine learning for sensitive open modification spectral library searching

William E. Fondrie, W. Bittremieux, K. Laukens, 2022, bioRxiv.

1H-NMR study of the metabolome of a moderately hypoxia-tolerant fish, the common carp (Cyprinus carpio)

K. Laukens, R. Dommisse, G. De Boeck, 2013, Metabolomics.

Transcriptomic profiling of different responder types in adults after a Priorix® vaccination.

G. Mortier, P. Beutels, P. van Damme, 2020, Vaccine.

T cell immunity in HSV-1- and VZV-infected neural ganglia.

B. Ogunjimi, K. Laukens, P. Meysman, 2022, Trends in microbiology.

Proteomic Assessment of C57BL/6 Hippocampi after Non-Selective Pharmacological Inhibition of Nitric Oxide Synthase Activity: Implications of Seizure-like Neuronal Hyperexcitability Followed by Tauopathy

K. Laukens, G. D. De Meyer, A. Sieben, 2022, Biomedicines.

Fractionated irradiation of MCF7 breast cancer cells rewires a gene regulatory circuit towards a treatment‐resistant stemness phenotype

W. D. De Vos, K. Laukens, R. Quintens, 2022, Molecular oncology.

The role of monocytes in the development of Tuberculosis-associated Immune Reconstitution Inflammatory Syndrome.

P. De Baetselier, K. Laukens, R. Van den Bergh, 2014, Immunobiology.

In vitro assessment of hepatotoxicity by metabolomics: a review

T. Vanhaecke, A. Covaci, K. Laukens, 2018, Archives of Toxicology.

Open Modification Searching of SARS-CoV-2–Human Protein Interaction Data Reveals Novel Viral Modification Sites

W. Bittremieux, K. Laukens, K. Boonen, 2022, bioRxiv.

Selective whole-genome sequencing of Plasmodium parasites directly from blood samples by nanopore adaptive sampling

A. Rosanas-Urgell, K. Laukens, B. Cuypers, 2022, bioRxiv.

Late-Breaking Abstracts

R. Maselli, K. Laukens, P. Meysman, 2019, United European Gastroenterology Journal.

1H-NMR study of the metabolome of an exceptionally anoxia tolerant vertebrate, the crucian carp (Carassius carassius)

K. Laukens, G. Nilsson, R. Dommisse, 2013, Metabolomics.

speaq 2.0: A complete workflow for high-throughput 1D NMR spectra processing and quantification

Trung Nghia Vu, Kris Laukens, Pieter Meysman, 2017, bioRxiv.

Banana (Musa spp.) as a model to study the meristem proteome: Acclimation to osmotic stress

K. Laukens, H. V. Van Onckelen, R. Swennen, 2007, Proteomics.

Targeted interactomics reveals a complex core cell cycle machinery in Arabidopsis thaliana

Martin Kuiper, Dirk Inzé, Pierre Hilson, 2010, Molecular systems biology.

Preparation of protein extracts from recalcitrant plant tissues: An evaluation of different methods for two‐dimensional gel electrophoresis analysis

K. Laukens, R. Swennen, S. Carpentier, 2005, Proteomics.

speaq 2.0: a wavelet-based workflow for high-throughput 1D NMR spectra processing and quantification

A. Covaci, K. Laukens, P. Meysman, 2017 .

Transcriptome profiling in blood before and after hepatitis B vaccination shows significant differences in gene expression between responders and non-responders.

Kris Laukens, Niel Hens, Benson Ogunjimi, 2018, Vaccine.

Quality control in mass spectrometry-based proteomics.

Lennart Martens, Wout Bittremieux, Kris Laukens, 2018, Mass spectrometry reviews.

Dietary Flavanols Modulate the Transcription of Genes Associated with Cardiovascular Pathology without Changes in Their DNA Methylation State

G. Haegeman, A. Bast, K. Laukens, 2014, PloS one.

Auranofin reveals therapeutic anticancer potential by triggering distinct molecular cell death mechanisms and innate immunity in mutant p53 non-small cell lung cancer

W. D. De Vos, K. Laukens, M. Peeters, 2021, Redox biology.

Ferroptosis Induction in Multiple Myeloma Cells Triggers DNA Methylation and Histone Modification Changes Associated with Cellular Senescence

M. Dhaenens, L. Godderis, D. Deforce, 2021, International Journal of Molecular Sciences.

Recent advances in T-cell receptor repertoire analysis: bridging the gap with multimodal single-cell RNA sequencing

Sofie Gielis, B. Ogunjimi, K. Laukens, 2022, ImmunoInformatics.

Bioinformatics approaches for the functional interpretation of protein lists: From ontology term enrichment to network analysis

Kris Laukens, Stefan Naulaerts, Wim Vanden Berghe, 2015, Proteomics.

In vitro assessment of hepatotoxicity by metabolomics: a review

T. Vanhaecke, A. Covaci, K. Laukens, 2018, Archives of Toxicology.

Oocyte maturation under lipotoxic conditions induces carryover transcriptomic and functional alterations during post-hatching development of good-quality blastocysts: novel insights from a bovine embryo-transfer model.

K. Laukens, P. Meysman, G. Beemster, 2020, Human reproduction.

A hormone and proteome approach to picturing the initial metabolic events during Plasmodiophora brassicae infection on Arabidopsis.

D. Inzé, K. Laukens, D. Van Der Straeten, 2006, Molecular plant-microbe interactions : MPMI.

Protein complex analysis: From raw protein lists to protein interaction networks.

Lennart Martens, Bart Goethals, Jan Tavernier, 2017, Mass spectrometry reviews.

A primer to frequent itemset mining for bioinformatics

Bart Goethals, Wout Bittremieux, Kris Laukens, 2013, Briefings Bioinform..

Activation of Interferon-Stimulated Genes following Varicella-Zoster Virus Infection in a Human iPSC-Derived Neuronal In Vitro Model Depends on Exogenous Interferon-α

G. Mortier, B. Ogunjimi, K. Laukens, 2022, Viruses.

Increased herpes zoster risk associated with poor HLA-A immediate early 62 protein (IE62) affinity

H. Goossens, G. Mortier, P. van Damme, 2018, Immunogenetics.

A community proposal to integrate proteomics activities in ELIXIR

Lennart Martens, Martin Eisenacher, Wout Bittremieux, 2017, F1000Research.

Designing biomedical proteomics experiments: state-of-the-art and future perspectives

Lennart Martens, Wout Bittremieux, Jan Ramon, 2016, Expert review of proteomics.

Apolipoprotein L1 Variant Associated with Increased Susceptibility to Trypanosome Infection

A. Schnaufer, K. Laukens, O. Balmer, 2016, mBio.

HLA-DRB1 Alleles Associated with Lower Leishmaniasis Susceptibility Share Common Amino Acid Polymorphisms and Epitope Binding Repertoires

Sofie Gielis, K. Laukens, P. Meysman, 2021, Vaccines.

Predicted epitope binding core motifs and common amino acid polymorphisms distinguish protective- from susceptibility-associated HLA alleles in leishmaniasis

Sofie Gielis, K. Laukens, P. Meysman, 2021, bioRxiv.

C-5 DNA methyltransferase 6 does not generate detectable DNA methylation in Leishmania

K. Laukens, P. Meysman, G. De Muylder, 2019, bioRxiv.

pBRIT: gene prioritization by correlating functional and phenotypic annotations through integrative data fusion

Yves Moreau, Kris Laukens, Amin Ardeshirdavani, 2018, Bioinform..

Covalent Cysteine Targeting of Bruton’s Tyrosine Kinase (BTK) Family by Withaferin-A Reduces Survival of Glucocorticoid-Resistant Multiple Myeloma MM1 Cells

W. V. Berghe, Nicolas De Neuter, K. Laukens, 2021, Cancers.

Highlights from the 11th ISCB Student Council Symposium 2015

Giovanni Felici, Farzana Rahman, M. Michael Gromiha, 2016, BMC Bioinformatics.

(1)H NMR based metabolomics of CSF and blood serum: a metabolic profile for a transgenic rat model of Huntington disease.

Kim A. Verwaest, A. Van der Linden, K. Laukens, 2011, Biochimica et biophysica acta.

Leveraging T-cell receptor – epitope recognition models to disentangle unique and cross-reactive T-cell response to SARS-CoV-2 during COVID-19 progression/resolution

B. Ogunjimi, K. Laukens, P. Meysman, 2023, bioRxiv.

Machine learning applications in proteomics research: How the past can boost the future

Lennart Martens, Harald Barsnes, Wout Bittremieux, 2014, Proteomics.

Whole genome sequencing of Mycobacterium tuberculosis: current standards and open issues

Yang Zhou, Qian Gao, Kris Laukens, 2019, Nature Reviews Microbiology.

1H-NMR study of the metabolome of a moderately hypoxia-tolerant fish, the common carp (Cyprinus carpio)

K. Laukens, R. Dommisse, T. Vu, 2013, Metabolomics.

Blood transcriptomics to facilitate diagnosis and stratification in pediatric rheumatic diseases – a proof of concept study

P. van Damme, B. Ogunjimi, K. Laukens, 2022, Pediatric Rheumatology.

COLOMBOS v2.0: an ever expanding collection of bacterial expression compendia

Kathleen Marchal, Qiang Fu, Luca Bianco, 2013, Nucleic Acids Res..

Genome-Wide SNP Analysis Reveals Distinct Origins of Trypanosoma evansi and Trypanosoma equiperdum

K. Laukens, F. Van den Broeck, B. Cuypers, 2017, Genome biology and evolution.

OP-GBEV170100 1990..1997

K. Laukens, F. Van den Broeck, B. Cuypers, 2017 .

Current challenges for unseen-epitope TCR interaction prediction and a new perspective derived from image classification

Wout Bittremieux, Kris Laukens, Pieter Moris, 2020, Briefings Bioinform..

ClusTCR: a python interface for rapid clustering of large sets of CDR3 sequences with unknown antigen specificity

Kris Laukens, Pieter Meysman, Marc van Houcke, 2021, Bioinform..

The radiosensitising effect of gemcitabine and its main metabolite dFdU under low oxygen conditions is in vitro not dependent on functional HIF-1 protein

P. Pauwels, K. Laukens, K. Williams, 2014, BMC Cancer.

A bioanalytical method for the proteome wide display and analysis of protein complexes from whole plant cell lysates

D. Inzé, K. Laukens, Jelle Van Leene, 2009, Proteomics.

Computational quality control tools for mass spectrometry proteomics

Lennart Martens, Wout Bittremieux, Dirk Valkenborg, 2017, Proteomics.

A targeted multi-omics approach reveals paraoxonase-1 as a determinant of obesity-associated fatty liver disease

K. Laukens, L. V. Van Gaal, A. Tvarijonaviciute, 2021, Clinical epigenetics.

On the viability of unsupervised T-cell receptor sequence clustering for epitope preference

Kris Laukens, Benson Ogunjimi, Pieter Meysman, 2018, Bioinform..

Investigating the Role of Chromatin Remodeler FOXA1 in Ferroptotic Cell Death

W. V. Berghe, K. Laukens, B. Cuypers, 2021, bioRxiv.

The use of plasma donor-derived, cell-free DNA to monitor acute rejection after kidney transplantation.

W. van Biesen, D. Abramowicz, K. Laukens, 2020, Nephrology, dialysis, transplantation : official publication of the European Dialysis and Transplant Association - European Renal Association.

Plasma donor-derived cell-free DNA kinetics after kidney transplantation using a single tube multiplex PCR assay

W. van Biesen, D. Abramowicz, K. Laukens, 2018, PloS one.

Cytokinin affinity purification and identification of a tobacco BY‐2 adenosine kinase

K. Laukens, M. Strnad, H. V. Van Onckelen, 2003, FEBS letters.

TCRex: detection of enriched T cell epitope specificity in full T cell receptor sequence repertoires

Sofie Gielis, Pieter Moris, W. Bittremieux, 2018, bioRxiv.

COLOMBOS v3.0: leveraging gene expression compendia for cross-species analyses

Chiara Romualdi, Luca Bianco, Julio Collado-Vides, 2015, Nucleic Acids Res..

Leveraging T-cell receptor – epitope recognition models to disentangle unique and cross-reactive T-cell response to SARS-CoV-2 during COVID-19 progression/resolution

Nicolas De Neuter, B. Ogunjimi, K. Laukens, 2020, bioRxiv.

A quantitative portrait of three xylanase inhibiting protein families in different wheat cultivars using 2D-DIGE and multivariate statistical tools.

J. Robben, J. Delcour, K. Laukens, 2009, Journal of proteomics.

Toxicogenomics of the flame retardant tris (2-butoxyethyl) phosphate in HepG2 cells using RNA-seq.

S. Husson, K. Laukens, G. Beemster, 2018, Toxicology in vitro : an international journal published in association with BIBRA.

Ectopic MicroRNA-150-5p Transcription Sensitizes Glucocorticoid Therapy Response in MM1S Multiple Myeloma Cells but Fails to Overcome Hormone Therapy Resistance in MM1R Cells

J. Vandesompele, W. V. Berghe, K. Laukens, 2014, PloS one.

Integration of gel-based proteome data with pProRep

Filip Lemière, Kris Laukens, Rune Matthiesen, 2006, Bioinform..

Kynurenine pathway abnormalities are state-specific but not diagnosis-specific in schizophrenia and bipolar disorder

M. Leboyer, K. Laukens, P. Meysman, 2023, Brain, behavior, & immunity - health.

Grasping frequent subgraph mining for bioinformatics applications

Boris Cule, Bart Goethals, Wout Bittremieux, 2018, BioData Mining.

Mechanistic toxicity study of perfluorooctanoic acid in zebrafish suggests mitochondrial dysfunction to play a key role in PFOA toxicity.

K. Laukens, D. Knapen, D. Benoot, 2013, Chemosphere.

A treatment recommender clinical decision support system for personalized medicine: method development and proof-of-concept for drug resistant tuberculosis

Toon Calders, Kris Laukens, Lennert Verboven, 2021, BMC Medical Informatics and Decision Making.

Characterization of acquired nutlin-3 resistant non-small cell lung cancer cells

P. Pauwels, K. Laukens, B. Cuypers, 2020, Cancer drug resistance.

Preexisting memory CD4 T cells in naïve individuals confer robust immunity upon hepatitis B vaccination

G. Mortier, P. van Damme, A. Souquette, 2022, eLife.

Sorted B cell transcriptomes point towards actively regulated B cell responses during ongoing chronic hepatitis B infections.

K. Laukens, P. Meysman, R. D. de Knegt, 2021, Cellular immunology.

Acquired non-thermal plasma resistance mediates a shift towards aerobic glycolysis and ferroptotic cell death in melanoma.

W. V. Berghe, K. Laukens, B. Cuypers, 2022, Drug resistance updates : reviews and commentaries in antimicrobial and anticancer chemotherapy.

Mining the entire Protein DataBank for frequent spatially cohesive amino acid patterns

Boris Cule, Bart Goethals, Cheng Zhou, 2015, BioData Mining.

Large-scale tandem mass spectrum clustering using fast nearest neighbor searching

William Stafford Noble, P. Dorrestein, W. Bittremieux, 2021, bioRxiv.

MESSAR: Automated recommendation of metabolite substructures from tandem mass spectra

Wout Bittremieux, Aida Mrzic, Kris Laukens, 2020, PloS one.

Automated recommendation of metabolite substructures from mass spectra using frequent pattern mining

Wout Bittremieux, Aida Mrzic, Kris Laukens, 2017, bioRxiv.

qcML: An Exchange Format for Quality Control Metrics from Mass Spectrometry Experiments

Lennart Martens, Wout Bittremieux, Juan Antonio Vizcaíno, 2014, Molecular & Cellular Proteomics.

Predicting MmpR-based bedaquiline resistance using sequence- and structure-based features

K. Laukens, P. Meysman, B. Cuypers, 2022, bioRxiv.

Functional genomics in a non-model crop: transcriptomics or proteomics?

H. Matsumura, R. Terauchi, K. Laukens, 2008, Physiologia plantarum.

Gradual Soil Water Depletion Results in Reversible Changes of Gene Expression, Protein Profiles, Ecophysiology, and Growth Performance in Populus euphratica, a Poplar Growing in Arid Regions1[W][OA]

K. Laukens, A. Altman, J. Kangasjärvi, 2006, Plant Physiology.

A novel cell division factor from tobacco 2B-13 cells that induced cell division in auxin-starved tobacco BY-2 cells

K. Laukens, Takashi Shimizu, T. Nagata, 2006, Naturwissenschaften.

On the feasibility of mining CD8+ T cell receptor patterns underlying immunogenic peptide recognition

Wout Bittremieux, Aida Mrzic, Kris Laukens, 2017, Immunogenetics.

Prediction of kinase-specific phosphorylation sites using conditional random fields

Koenraad Van Leemput, Thanh Hai Dang, Kris Laukens, 2008, Bioinform..

Memory CD4+ T cell receptor repertoire data mining as a tool for identifying cytomegalovirus serostatus

Kris Laukens, Niel Hens, Benson Ogunjimi, 2018, Genes & Immunity.

Whole genome sequencing of Mycobacterium tuberculosis: current standards and open issues

P. Ashton, J. Gardy, L. Rigouts, 2019, Nature Reviews Microbiology.

2‐D DIGE reveals changes in wheat xylanase inhibitor protein families due to Fusarium graminearum ΔTri5 infection and grain development

J. Delcour, K. Laukens, C. Courtin, 2010, Proteomics.

Preexisting memory CD 4 T cells in naïve individuals confer robust 1 immunity upon hepatitis B vaccination 2 Running title : Preexisting memory T cells confer immunity to vaccination 3

Nicolas De Neuter, G. Mortier, A. Souquette, 2021 .

An integrated workflow for robust alignment and simplified quantitative analysis of NMR spectrometry data

Bart Goethals, Dirk Valkenborg, Filip Lemière, 2011, BMC Bioinformatics.

Exposure of HepaRG Cells to Sodium Saccharin Underpins the Importance of Including Non-Hepatotoxic Compounds When Investigating Toxicological Modes of Action Using Metabolomics

T. Vanhaecke, A. Covaci, K. Laukens, 2019, Metabolites.

Current and future deep learning algorithms for MS/MS-based small molecule structure elucidation.

Youzhong Liu, W. Bittremieux, K. Laukens, 2021, Rapid communications in mass spectrometry : RCM.

Fast open modification spectral library searching through approximate nearest neighbor indexing

Wout Bittremieux, William Stafford Noble, Kris Laukens, 2018, bioRxiv.

Memory CD4+ T cell receptor repertoire data mining as a tool for identifying cytomegalovirus serostatus

G. Mortier, N. Hens, P. Beutels, 2018, Genes & Immunity.

The workings and failings of clustering T-cell receptor beta-chain sequences without a known epitope preference

Kris Laukens, Benson Ogunjimi, Nicolas De Neuter, 2018, bioRxiv.

Multidisciplinary study of the secondary immune response in grandparents re-exposed to chickenpox

H. Goossens, N. Hens, P. van Damme, 2017, Scientific Reports.

IL-22-Activated MUC13 Impacts on Colonic Barrier Function through JAK1/STAT3, SNAI1/ZEB1 and ROCK2/MAPK Signaling

K. Laukens, B. Cuypers, B. D. De Winter, 2023, Cells.

1 H NMR based metabolomics of CSF and blood serum : A metabolic pro fi le for a transgenic rat model of Huntington disease

Kim A. Verwaest, A. Linden, K. Laukens, 2011 .

Revelation of the metabolic pathway of hederacoside C using an innovative data analysis strategy for dynamic multiclass biotransformation experiments.

K. Laukens, C. Beirnaert, T. De Bruyne, 2019, Journal of chromatography. A.

Diagnosing enterovirus meningitis via blood transcriptomics: an alternative for lumbar puncture?

G. Mortier, P. van Damme, Nicolas De Neuter, 2019, Journal of Translational Medicine.

Varicella-Zoster Virus-Derived Major Histocompatibility Complex Class I-Restricted Peptide Affinity Is a Determining Factor in the HLA Risk Profile for the Development of Postherpetic Neuralgia

Kris Laukens, Benson Ogunjimi, Pieter Meysman, 2014, Journal of Virology.

A new Plasmodium vivax reference genome for South American isolates

A. Rosanas-Urgell, K. Laukens, B. Cuypers, 2023, bioRxiv.

Unraveling tobacco BY-2 protein complexes with BN PAGE/LC-MS/MS and clustering methods.

Jilles Vreeken, Dirk Valkenborg, Kris Laukens, 2011, Journal of proteomics.

A machine-learning based model for automated recommendation of individualized treatment of rifampicin-resistant tuberculosis

K. Dooley, G. Maartens, K. Laukens, 2023, Research square.

SFINX: Straightforward Filtering Index for Affinity Purification-Mass Spectrometry Data Analysis.

J. Tavernier, K. Laukens, P. Meysman, 2016, Journal of proteome research.

iMonDB: Mass Spectrometry Quality Control through Instrument Monitoring.

Lennart Martens, Wout Bittremieux, Dirk Valkenborg, 2015, Journal of proteome research.

Current challenges for epitope-agnostic TCR interaction prediction and a new perspective derived from image classification

Pieter Moris, J. De Pauw, Anna Postovskaya, 2019, bioRxiv.

Current challenges for epitope-agnostic TCR interaction prediction and a new perspective derived from image classification

Wout Bittremieux, Pieter Moris, Anna Postovskaya, 2019, bioRxiv.

Predicting compound-protein interaction using hierarchical graph convolutional networks

K. Laukens, P. Meysman, Emmanuel Rivière, 2021, bioRxiv.

MoMAC: Multi-objective optimization to combine multiple association rules into an interpretable classification

K. Laukens, P. Meysman, Danh Bui-Thi, 2021, Applied Intelligence.

Clustering association rules to build beliefs and discover unexpected patterns

Kris Laukens, Danh Bui-Thi, Pieter Meysman, 2020, Applied Intelligence.

Mining spatially cohesive itemsets in protein molecular structures

Boris Cule, Bart Goethals, Cheng Zhou, 2013, BioKDD '13.

Mining the human proteome for conserved mechanisms

W. V. Berghe, K. Laukens, P. Meysman, 2015, BMC Bioinformatics.

MoMAC: Multi-objective optimization to combine multiple association rules into an interpretable classification

Kris Laukens, Pieter Meysman, Danh Bui Thi, 2021, Appl. Intell..

Mining the human proteome for conserved mechanisms

Kris Laukens, Pieter Meysman, Stefan Naulaerts, 2015, BMC Bioinformatics.

MeRgeION: a Multifunctional R Pipeline for Small Molecule LC-MS/MS Data Processing, Searching, and Organizing.

Youzhong Liu, K. Laukens, J. Lippens, 2023, Analytical Chemistry.

Highlights from the 11th ISCB Student Council Symposium 2015

Zdenka Kuncic, Westa Domanova, Dan F. DeBlasio, 2016, BMC Bioinformatics.

Highlights from the eleventh ISCB Student Council Symposium 2015

Dan F. DeBlasio, Sean J. Humphrey, P. Bertolazzi, 2016 .

A global genomic analysis of Salmonella Concord reveals lineages with high antimicrobial resistance in Ethiopia

J. Wain, G. Dougan, F. Weill, 2023, Nature communications.

Fragment ion intensity prediction improves the identification rate of non-tryptic peptides in timsTOF

Mathias Wilhelm, K. Laukens, K. Boonen, 2024, bioRxiv.

Practical Approaches for Mining Frequent Patterns in Molecular Datasets

Bart Goethals, Kris Laukens, Sandy Moens, 2016, Bioinformatics and biology insights.

Mining Association Rules in Graphs Based on Frequent Cohesive Itemsets

Boris Cule, Bart Goethals, Kris Laukens, 2015, PAKDD.

Using Expert Driven Machine Learning to Enhance Dynamic Metabolomics Data Analysis

Wout Bittremieux, Kris Laukens, Pieter Meysman, 2018, bioRxiv.

Extremely fast and accurate open modification spectral library searching of high-resolution mass spectra using feature hashing and graphics processing units

Wout Bittremieux, William Stafford Noble, Kris Laukens, 2019, bioRxiv.

Multiplexed Spliced-Leader Sequencing: A high-throughput, selective method for RNA-seq in Trypanosomatids

P. Myler, K. Laukens, P. Meysman, 2017, Scientific Reports.

Constrained standardization of count data from massive parallel sequencing

K. Laukens, P. Meysman, J. Hooyberghs, 2021, bioRxiv.

A generic approach for "shotgun" analysis of the soluble proteome of plant cell suspension cultures.

K. Laukens, E. Witters, D. Valkenborg, 2015, Journal of chromatography. B, Analytical technologies in the biomedical and life sciences.

Machine learning applications in proteomics research: How the past can boost the future

J. Ramon, S. Degroeve, K. Grave, 2014, Proteomics.

Proteome analysis of non-model plants: a challenging but powerful approach.

B. Devreese, K. Laukens, J. Renaut, 2008, Mass spectrometry reviews.

of: Current and future deep learning algorithms for MS/MS ‐ based small molecule structure elucidation

Thomas De Vijlder, K. Laukens, Wouter Heyndrickx, 2023 .

The pitfalls of negative data bias for the T-cell epitope specificity challenge

K. Laukens, P. Meysman, Ceder Dens, 2023, bioRxiv.

Tailored liquid chromatography-mass spectrometry analysis improves the coverage of the intracellular metabolome of HepaRG cells.

Kris Laukens, Adrian Covaci, Charlie Beirnaert, 2017, Journal of chromatography. A.

Metabolomics analysis of the toxicity pathways of triphenyl phosphate in HepaRG cells and comparison to oxidative stress mechanisms caused by acetaminophen.

T. Vanhaecke, N. Van den Eede, H. Neels, 2015, Toxicology in vitro : an international journal published in association with BIBRA.

Erratum to: Immunological evasion of immediate-early varicella zoster virus proteins

B. Ogunjimi, K. Laukens, P. Meysman, 2016, Immunogenetics.

Immunological evasion of immediate-early varicella zoster virus proteins

B. Ogunjimi, K. Laukens, P. Meysman, 2016, Immunogenetics.

Efficient reduction of candidate matches in peptide spectrum library searching using the top k most intense peaks.

Bart Goethals, Wout Bittremieux, Trung Nghia Vu, 2014, Journal of proteome research.

A quantitative portrait of three xylanase inhibiting protein families in different wheat cultivars using 2D-DIGE and multivariate statistical tools.

J. Robben, J. Delcour, K. Laukens, 2009, Journal of proteomics.

Open Science Resources for the Mass Spectrometry-Based Analysis of SARS-CoV-2.

P. Dorrestein, K. Laukens, N. Bandeira, 2021, Journal of proteome research.

An integrated workflow for robust alignment and simplified quantitative analysis of NMR spectrometry data

Kim A. Verwaest, Bart Goethals, A. Verschoren, 2011, BMC Bioinformatics.

On the viability of unsupervised T-cell receptor sequence clustering for epitope preference

Danh Bui Thi, Nicolas De Neuter, Sofie Gielis, 2018, Bioinform..

TCRex: a webtool for the prediction of T-cell receptor sequence epitope specificity

Nicolas De Neuter, Sofie Gielis, Pieter Moris, 2018 .

Benchmarking of Small Molecule Feature Representations for hERG, Nav1.5, and Cav1.2 Cardiotoxicity Prediction

K. Barakat, K. Laukens, Issar Arab, 2023, bioRxiv.

Varicella-Zoster Virus-Derived Major Histocompatibility Complex Class I-Restricted Peptide Affinity Is a Determining Factor in the HLA Risk Profile for the Development of Postherpetic Neuralgia

P. Beutels, B. Ogunjimi, K. Laukens, 2014, Journal of Virology.

Diagnosing enterovirus meningitis via blood transcriptomics: an alternative for lumbar puncture?

G. Mortier, P. van Damme, Nicolas De Neuter, 2019, Journal of Translational Medicine.

Characterization of a Cell Division Factor from Auxin-Autotrophic 2B-13 Cells Derived from the Tobacco BY-2 Cell Line

K. Laukens, Takashi Shimizu, T. Nagata, 2006 .

The use of the isotopic distribution as a complementary quality metric to assess tandem mass spectra results.

K. Laukens, T. Burzykowski, I. Mertens, 2014, Journal of proteomics.

MIND: A double-linear model to accurately determine monoisotopic precursor mass in high-resolution top-down proteomics.

K. Laukens, J. Hooyberghs, F. Sobott, 2019, Analytical chemistry.

The use of plasma donor-derived, cell-free DNA to monitor acute rejection after kidney transplantation.

W. van Biesen, D. Abramowicz, K. Laukens, 2019, Nephrology, dialysis, transplantation : official publication of the European Dialysis and Transplant Association - European Renal Association.

This item is the archived peer-reviewed author-version of: Withaferin A induces heme oxygenase (HO-1) expression in endothelial cells via activation of the Keap1/Nrf2 pathway

M. Lahtela-Kakkonen, W. V. Berghe, G. Haegeman, 2022 .