Works by Kampen, Antoine H C van

Results: 38

Multi-Scale Modeling Recapitulates the Effect of Genetic Alterations Associated With Diffuse Large B-Cell Lymphoma in the Germinal Center Dynamics.

Published in:

Frontiers in Systems Biology, 2022, v. 2, p. 1, doi. 10.3389/fsysb.2022.864690

By:

Merino Tejero, Elena;
Mao, Qirong;
Lashgari, Danial;
García-Valiente, Rodrigo;
Robert, Philippe A.;
Meyer-Hermann, Michael;
Martínez, María Rodríguez;
Guikema, Jeroen E. J.;
Hoefsloot, Huub H. C.;
van Kampen, Antoine H. C.

Publication type:

Article

compendiumdb: an R package for retrieval and storage of functional genomics data.

Published in:

2016

By:

Nandal, Umesh K.;
Moerland, Perry D.;
van Kampen, Antoine H. C.

Publication type:

Question & Answer

N -Glycosylation Site Analysis of Citrullinated Antigen-Specific B-Cell Receptors Indicates Alternative Selection Pathways During Autoreactive B-Cell Development.

Published in:

Frontiers in Immunology, 2019, p. 1, doi. 10.3389/fimmu.2019.02092

By:

Vergroesen, Rochelle D.;
Slot, Linda M.;
van Schaik, Barbera D. C.;
Koning, Marvyn T.;
Rispens, Theo;
van Kampen, Antoine H. C.;
Toes, René E. M.;
Scherer, Hans U.

Publication type:

Article

Understanding repertoire sequencing data through a multiscale computational model of the germinal center.

Published in:

NPJ Systems Biology & Applications, 2023, v. 9, n. 1, p. 1, doi. 10.1038/s41540-023-00271-y

By:

García-Valiente, Rodrigo;
Merino Tejero, Elena;
Stratigopoulou, Maria;
Balashova, Daria;
Jongejan, Aldo;
Lashgari, Danial;
Pélissier, Aurélien;
Caniels, Tom G.;
Claireaux, Mathieu A. F.;
Musters, Anne;
van Gils, Marit J.;
Rodríguez Martínez, María;
de Vries, Niek;
Meyer-Hermann, Michael;
Guikema, Jeroen E. J.;
Hoefsloot, Huub;
van Kampen, Antoine H. C.

Publication type:

Article

TCRβ clones in muscle tissue share structural features in patients with idiopathic inflammatory myopathy and are associated with disease activity.

Published in:

Frontiers in Immunology, 2024, p. 01, doi. 10.3389/fimmu.2023.1279055

By:

Anang, Dornatien C.;
Walter, Hannah A. W.;
Lim, Johan;
Niewold, Ilse T. G.;
van der Weele, Linda;
Aronica, Eleonora;
Eftimov, Filip;
Raaphorst, Joost;
van Schaik, Barbera D. C.;
van Kampen, Antoine H. C.;
van der Kooi, Anneke J.;
de Vries, Niek

Publication type:

Article

Identification of IOMA-class neutralizing antibodies targeting the CD4-binding site on the HIV-1 envelope glycoprotein.

Published in:

Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-32208-0

By:

van Schooten, Jelle;
Farokhi, Elinaz;
Schorcht, Anna;
van den Kerkhof, Tom L. G. M.;
Gao, Hongmei;
van der Woude, Patricia;
Burger, Judith A.;
Meesters, Tim G. Rijkhold;
Bijl, Tom;
Ghalaiyini, Riham;
Turner, Hannah L.;
Dorning, Jessica;
van Schaik, Barbera D. C.;
van Kampen, Antoine H. C.;
Labranche, Celia C.;
Stanfield, Robyn L.;
Sok, Devin;
Montefiori, David C.;
Burton, Dennis R.;
Seaman, Michael S.

Publication type:

Article

Circadian misalignment disturbs the skeletal muscle lipidome in healthy young men.

Published in:

FASEB Journal, 2021, v. 35, n. 6, p. 1, doi. 10.1096/fj.202100143R

By:

Harmsen, Jan-Frieder;
van Polanen, Nynke;
van Weeghel, Michel;
Wefers, Jakob;
Hoeks, Joris;
Vaz, Frédéric M.;
Pras-Raves, Mia L.;
van Kampen, Antoine H. C.;
Schaart, Gert;
van Moorsel, Dirk;
Hansen, Jan;
Hesselink, Matthijs K. C.;
Houtkooper, Riekelt H.;
Schrauwen, Patrick

Publication type:

Article

Improving the description of metabolic networks: the TCA cycle as example.

Published in:

FASEB Journal, 2012, v. 26, n. 9, p. 3625, doi. 10.1096/fj.11-203091

By:

Stobbe, Miranda D.;
Houten, Sander M.;
van Kampen, Antoine H. C.;
Wanders, Ronald J. A.;
Moerland, Perry D.

Publication type:

Article

Full transcriptome analysis of rhabdomyosarcoma, normal, and fetal skeletal muscle: statistical comparison of multiple SAGE libraries.

Published in:

FASEB Journal, 2005, v. 19, n. 3, p. 404, doi. 10.1096/fj.04-2104fje

By:

Schaaf, Gerben J.;
Ruijter, Jan M.;
Van Ruissen, Fred;
Benit-Deekman, Jennifer;
Baas, Frank;
Zwijnenburg, Danny A.;
Kool, Marcel;
Waaijer, Raymond;
Van Kampen, Antoine H. C.;
Valentijn, Linda J.

Publication type:

Article

Low-power photodynamic therapy induces survival signaling in perihilar cholangiocarcinoma cells.

Published in:

2015

By:

Weijer, Ruud;
Broekgaarden, Mans;
van Golen, Rowan F.;
Bulle, Esther;
Nieuwenhuis, Esther;
Jongejan, Aldo;
Moerland, Perry D.;
van Kampen, Antoine H. C.;
van Gulik, Thomas M.;
Heger, Michal

Publication type:

journal article

Mutations in PCYT2 disrupt etherlipid biosynthesis and cause a complex hereditary spastic paraplegia.

Published in:

2019

By:

Vaz, Frédéric M;
McDermott, John H;
Alders, Mariëlle;
Wortmann, Saskia B;
Kölker, Stefan;
Pras-Raves, Mia L;
Vervaart, Martin A T;
Lenthe, Henk van;
Luyf, Angela C M;
Elfrink, Hyung L;
Metcalfe, Kay;
Cuvertino, Sara;
Clayton, Peter E;
Yarwood, Rebecca;
Lowe, Martin P;
Lovell, Simon;
Rogers, Richard C;
Study, Deciphering Developmental Disorders;
Kampen, Antoine H C van;
Ruiter, Jos P N

Publication type:

journal article

Candidate prioritization for low-abundant differentially expressed proteins in 2D-DIGE datasets.

Published in:

BMC Bioinformatics, 2015, v. 16, n. 1, p. 527, doi. 10.1186/s12859-015-0455-x

By:

Nandal, Umesh K.;
Vlietstra, Wytze J.;
Byrman, Carsten;
Jeeninga, Rienk E.;
Ringrose, Jeffrey H.;
van Kampen, Antoine H. C.;
Speijer, Dave;
Moerland, Perry D.

Publication type:

Article

Multiple Testing Issues in Discriminating Compound-Related Peaks and Chromatograms from High Frequency Noise, Spikes and Solvent-Based Noise in LC - MS Data Sets.

Published in:

Statistical Applications in Genetics & Molecular Biology, 2007, v. 6, n. 1, p. 1, doi. 10.2202/1544-6115.1295

By:

Nyangoma, Stephen O.;
Van Kampen, Antoine A. H. C.;
Reijmers, Theo H.;
Govorukhina, Natalia I.;
Van der Zee, Ate G. J.;
Billingham, Lucinda J.;
Bischoff, Rainer;
Jansen, Ritsert C.

Publication type:

Article

Beyond the polymerase-γ theory: Production of ROS as a mode of NRTI-induced mitochondrial toxicity.

Published in:

PLoS ONE, 2017, v. 12, n. 11, p. 1, doi. 10.1371/journal.pone.0187424

By:

Smith, Reuben L.;
Tan, Josephine M. E.;
Jonker, Martijs J.;
Jongejan, Aldo;
Buissink, Thomas;
Veldhuijzen, Steve;
van Kampen, Antoine H. C.;
Brul, Stanley;
van der Spek, Hans

Publication type:

Article

Identification of proteins associated with clinical and pathological features of proliferative diabetic retinopathy in vitreous and fibrovascular membranes.

Published in:

PLoS ONE, 2017, v. 12, n. 11, p. 1, doi. 10.1371/journal.pone.0187304

By:

Klaassen, Ingeborg;
de Vries, Ewout W.;
Vogels, Ilse M. C.;
van Kampen, Antoine H. C.;
Bosscha, Machteld I.;
Steel, David H. W.;
Van Noorden, Cornelis J. F.;
Lesnik-Oberstein, Sarit Y.;
Schlingemann, Reinier O.

Publication type:

Article

Use of prior knowledge for the analysis of high-throughput transcriptomics and metabolomics data.

Published in:

BMC Systems Biology, 2014, v. 8, n. Suppl 2, p. 1, doi. 10.1186/1752-0509-8-S2-S2

By:

Reshetova, Polina;
Smilde, Age K.;
van Kampen, Antoine H. C.;
Westerhuis, Johan A.

Publication type:

Article

Plasma lipidomics as a diagnostic tool for peroxisomal disorders.

Published in:

Journal of Inherited Metabolic Disease, 2018, v. 41, n. 3, p. 489, doi. 10.1007/s10545-017-0114-7

By:

Herzog, Katharina;
Pras-Raves, Mia L.;
Ferdinandusse, Sacha;
Vervaart, Martin A. T.;
Luyf, Angela C. M.;
van Kampen, Antoine H. C.;
Wanders, Ronald J. A.;
Waterham, Hans R.;
Vaz, Frédéric M.

Publication type:

Article

Functional characterisation of peroxisomal β-oxidation disorders in fibroblasts using lipidomics.

Published in:

Journal of Inherited Metabolic Disease, 2018, v. 41, n. 3, p. 479, doi. 10.1007/s10545-017-0076-9

By:

Herzog, Katharina;
Pras-Raves, Mia L.;
Ferdinandusse, Sacha;
Vervaart, Martin A. T.;
Luyf, Angela C. M.;
van Kampen, Antoine H. C.;
Wanders, Ronald J. A.;
Waterham, Hans R.;
Vaz, Frédéric M.

Publication type:

Article

Characterization and Monitoring of Antigen-Responsive T Cell Clones Using T Cell Receptor Gene Expression Analysis.

Published in:

Frontiers in Immunology, 2021, v. 11, p. N.PAG, doi. 10.3389/fimmu.2020.609624

By:

Pollastro, Sabrina;
de Bourayne, Marie;
Balzaretti, Giulia;
Jongejan, Aldo;
van Schaik, Barbera D. C.;
Niewold, Ilse T. G.;
van Kampen, Antoine H. C.;
Maillère, Bernard;
de Vries, Niek

Publication type:

Article

Multiscale Modeling of Germinal Center Recapitulates the Temporal Transition From Memory B Cells to Plasma Cells Differentiation as Regulated by Antigen Affinity-Based Tfh Cell Help.

Published in:

Frontiers in Immunology, 2021, v. 11, p. N.PAG, doi. 10.3389/fimmu.2020.620716

By:

Merino Tejero, Elena;
Lashgari, Danial;
García-Valiente, Rodrigo;
Gao, Xuefeng;
Crauste, Fabien;
Robert, Philippe A.;
Meyer-Hermann, Michael;
Martínez, María Rodríguez;
van Ham, S. Marieke;
Guikema, Jeroen E. J.;
Hoefsloot, Huub;
van Kampen, Antoine H. C.

Publication type:

Article

ENCORE: a practical implementation to improve reproducibility and transparency of computational research.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-52446-8

By:

van Kampen, Antoine H. C.;
Mahamune, Utkarsh;
Jongejan, Aldo;
van Schaik, Barbera D. C.;
Balashova, Daria;
Lashgari, Danial;
Pras-Raves, Mia;
Wever, Eric J. M.;
Dane, Adrie D.;
García-Valiente, Rodrigo;
Moerland, Perry D.

Publication type:

Article

Systematic evaluation of B-cell clonal family inference approaches.

Published in:

BMC Immunology, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12865-024-00600-8

By:

Balashova, Daria;
van Schaik, Barbera D. C.;
Stratigopoulou, Maria;
Guikema, Jeroen E. J.;
Caniels, Tom G.;
Claireaux, Mathieu;
van Gils, Marit J.;
Musters, Anne;
Anang, Dornatien C.;
de Vries, Niek;
Greiff, Victor;
van Kampen, Antoine H. C.

Publication type:

Article

Systematic evaluation of B-cell clonal family inference approaches.

Published in:

BMC Immunology, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12865-024-00600-8

By:

Balashova, Daria;
van Schaik, Barbera D. C.;
Stratigopoulou, Maria;
Guikema, Jeroen E. J.;
Caniels, Tom G.;
Claireaux, Mathieu;
van Gils, Marit J.;
Musters, Anne;
Anang, Dornatien C.;
de Vries, Niek;
Greiff, Victor;
van Kampen, Antoine H. C.

Publication type:

Article

A central role for Notch in effector CD8<sup>+</sup> T cell differentiation.

Published in:

Nature Immunology, 2014, v. 15, n. 12, p. 1143, doi. 10.1038/ni.3027

By:

Backer, Ronald A;
Helbig, Christina;
Gentek, Rebecca;
Kent, Andrew;
Laidlaw, Brian J;
Dominguez, Claudia X;
de Souza, Yevan S;
van Trierum, Stella E;
van Beek, Ruud;
Rimmelzwaan, Guus F;
ten Brinke, Anja;
Willemsen, A Marcel;
van Kampen, Antoine H C;
Kaech, Susan M;
Blander, J Magarian;
van Gisbergen, Klaas;
Amsen, Derk

Publication type:

Article

Performance of VIDISCA-454 in Feces-Suspensions and Serum.

Published in:

Viruses (1999-4915), 2012, v. 4, n. 8, p. 1328, doi. 10.3390/v4081328

By:

de Vries, Michel;
Oude Munnink, Bas B.;
Deijs, Martin;
Canuti, Marta;
Koekkoek, Sylvie M.;
Molenkamp, Richard;
Bakker, Margreet;
Jurriaans, Suzanne;
Van Schaik, Barbera D. C.;
Luyf, Angela C.;
Olabarriaga, Silvia D.;
van Kampen, Antoine H. C.;
van Der Hoek, Lia

Publication type:

Article

Effect of Hyperglycemia on Gene Expression during Early Organogenesis in Mice.

Published in:

PLoS ONE, 2016, v. 11, n. 7, p. 1, doi. 10.1371/journal.pone.0158035

By:

Zhao, Jing;
Hakvoort, Theodorus B. M.;
Willemsen, A. Marcel;
Jongejan, Aldo;
Sokolovic, Milka;
Bradley, Edward J.;
de Boer, Vincent C. J.;
Baas, Frank;
van Kampen, Antoine H. C.;
Lamers, Wouter H.

Publication type:

Article

Somatic Variation of T-Cell Receptor Genes Strongly Associate with HLA Class Restriction.

Published in:

PLoS ONE, 2015, v. 10, n. 10, p. 1, doi. 10.1371/journal.pone.0140815

By:

Klarenbeek, Paul L.;
Doorenspleet, Marieke E.;
Esveldt, Rebecca E. E.;
van Schaik, Barbera D. C.;
Lardy, Neubury;
van Kampen, Antoine H. C.;
Tak, Paul P.;
Plenge, Robert M.;
Baas, Frank;
de Bakker, Paul I. W.;
de Vries, Niek

Publication type:

Article

From affinity selection to kinetic selection in Germinal Centre modelling.

Published in:

PLoS Computational Biology, 2022, v. 18, n. 6, p. 1, doi. 10.1371/journal.pcbi.1010168

By:

Lashgari, Danial;
Merino Tejero, Elena;
Meyer-Hermann, Michael;
Claireaux, Mathieu A. F.;
van Gils, Marit J.;
Hoefsloot, Huub C. J.;
van Kampen, Antoine H. C.

Publication type:

Article

Computational Model Reveals Limited Correlation between Germinal Center B-Cell Subclone Abundancy and Affinity: Implications for Repertoire Sequencing.

Published in:

Frontiers in Immunology, 2017, v. 8, p. 1, doi. 10.3389/fimmu.2017.00221

By:

Reshetova, Polina;
van Schaik, Barbera D. C.;
Klarenbeek, Paul L.;
Doorenspleet, Marieke E.;
Esveldt, Rebecca E. E.;
Paul-Peter, Paul-Peter;
Guikema, Jeroen E. J.;
de Vries, Niek;
van Kampen, Antoine H. C.

Publication type:

Article

Embracing Complexity beyond Systems Medicine: A New Approach to Chronic Immune Disorders.

Published in:

Frontiers in Immunology, 2016, v. 7, p. 1, doi. 10.3389/fimmu.2016.00587

By:

te Velde, Anje A.;
Bezema, Tjitske;
van Kampen, Antoine H. C.;
Kraneveld, Aletta D.;
ť Hart, Bert A.;
Middendorp, Henriët van;
Hack, Erik C.;
van Montfrans, Joris M.;
Belzer, Clara;
Jans-Beken, Lilian;
Pieters, Raymond H.;
Knipping, Karen;
Huber, Machteld;
H. Boots, Annemieke M.;
Garssen, Johan;
Radstake, Tim R.;
M. Evers, Andrea W.;
Prakken, Berent J.;
Joosten, Irma

Publication type:

Article

Initial steps towards a production platform for DNA sequence analysis on the grid.

Published in:

BMC Bioinformatics, 2010, v. 11, p. 598, doi. 10.1186/1471-2105-11-598

By:

Luyf, Angela C. M.;
van Schaik, Barbera D. C.;
de Vries, Michel;
Baas, Frank;
van Kampen, Antoine H. C.;
Olabarriaga, Silvia D.

Publication type:

Article

Streptococcus pneumoniae Arginine Synthesis Genes Promote Growth and Virulence in Pneumococcal Meningitis.

Published in:

Journal of Infectious Diseases, 2014, v. 209, n. 11, p. 1781, doi. 10.1093/infdis/jit818

By:

Piet, Jurgen R.;
Geldhoff, Madelijn;
van Schaik, Barbera D. C.;
Brouwer, Matthijs C.;
Valls Seron, Mercedes;
Jakobs, Marja E.;
Schipper, Kim;
Pannekoek, Yvonne;
Zwinderman, Aeilko H.;
van der Poll, Tom;
van Kampen, Antoine H. C.;
Baas, Frank;
van der Ende, Arie;
van de Beek, Diederik

Publication type:

Article

Cerebellar and hepatic alterations in ACBD5-deficient mice are associated with unexpected, distinct alterations in cellular lipid homeostasis.

Published in:

Communications Biology, 2020, v. 3, n. 1, p. N.PAG, doi. 10.1038/s42003-020-01442-x

By:

Darwisch, Warda;
von Spangenberg, Marino;
Lehmann, Jana;
Singin, Öznur;
Deubert, Geralt;
Kühl, Sandra;
Roos, Johannes;
Horstmann, Heinz;
Körber, Christoph;
Hoppe, Simone;
Zheng, Hongwei;
Kuner, Thomas;
Pras-Raves, Mia L.;
van Kampen, Antoine H. C.;
Waterham, Hans R.;
Schwarz, Kathrin V.;
Okun, Jürgen G.;
Schultz, Christian;
Vaz, Frédéric M.;
Islinger, Markus

Publication type:

Article

In rheumatoid arthritis inflamed joints share dominant patientspecific B-cell clones.

Published in:

Frontiers in Immunology, 2022, v. 13, p. 1, doi. 10.3389/fimmu.2022.915687

By:

Musters, Anne;
Balzaretti, Giulia;
van Schaik, Barbera D. C.;
Jongejan, Aldo;
van der Weele, Linda;
Tas, Sander W.;
van Kampen, Antoine H. C.;
de Vries, Niek

Publication type:

Article

Coupled Antigen and BLIMP1 Asymmetric Division With a Large Segregation Between Daughter Cells Recapitulates the Temporal Transition From Memory B Cells to Plasma Cells and a DZ-to-LZ Ratio in the Germinal Center.

Published in:

Frontiers in Immunology, 2021, v. 12, p. 1, doi. 10.3389/fimmu.2021.716240

By:

Merino Tejero, Elena;
Lashgari, Danial;
García-Valiente, Rodrigo;
He, Jiaojiao;
Robert, Philippe A.;
Meyer-Hermann, Michael;
Guikema, Jeroen E. J.;
Hoefsloot, Huub;
van Kampen, Antoine H. C.

Publication type:

Article

B-cell receptor profiling before and after IVIG monotherapy in newly diagnosed idiopathic inflammatory myopathies.

Published in:

Rheumatology, 2023, v. 62, n. 7, p. 2585, doi. 10.1093/rheumatology/keac602

By:

Anang, Dornatien C;
Walter, Hannah A W;
Lim, Johan;
Niewold, Ilse;
van der Weele, Linda;
Aronica, Eleonora;
Eftimov, Filip;
Raaphorst, Joost;
Schaik, Barbera D C van;
Kampen, Antoine H C van;
Kooi, Anneke J van der;
Vries, Niek de

Publication type:

Article

Tat-dependent production of an HIV-1 TAR-encoded miRNA-like small RNA.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 9, p. 4340, doi. 10.1093/nar/gkw167

By:

Harwig, Alex;
Jongejan, Aldo;
van Kampen, Antoine H. C.;
Berkhout, Ben;
Das, Atze T.

Publication type:

Article

Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer.

Published in:

2020

By:

Soleimani Dodaran, Maryam;
Borgoni, Simone;
Sofyalı, Emre;
Verschure, Pernette J.;
Wiemann, Stefan;
Moerland, Perry D.;
van Kampen, Antoine H. C.

Publication type:

journal article