Pulmonology Research 2

Research output

Research output per year 2013 2016 2018 2019 2020 2021 2022 2023 2024 2024

• 70 Article
• 10 Review article
• 8 Doctoral thesis 1 (Research UU / Graduation UU)
• 5 Chapter
• 7 More
  • 4 Meeting Abstract
  • 2 Letter
  • 1 Doctoral thesis 2 (Research NOT UU / Graduation UU)

Research output per year

Research output per year

Search results

• 2024

  Colonization of vancomycin-resistant Enterococcus faecium in human-derived colonic epithelium: Unraveling the transcriptional dynamics of host-enterococcal interactions

  Stege, P. B., Beekman, J. M., Hendrickx, A. P. A., Van Eijk, L., Rogers, M. R. C., Suen, S. W. F., Vonk, A. M., Willems, R. J. L. & Paganelli, F. L., 7 May 2024, In: FEMS Microbes. 5, xtae014.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Enterococcus faecium 100%
  • Vancomycin-Resistant Enterococci 99%
  • vancomycin 87%
  • epithelium 61%
  • Epithelium 58%

• OrgaSegment: deep-learning based organoid segmentation to quantify CFTR dependent fluid secretion

  Lefferts, J. W., Kroes, S., Smith, M. B., Niemöller, P. J., Nieuwenhuijze, N. D. A., Sonneveld van Kooten, H. N., van der Ent, C. K., Beekman, J. M. & van Beuningen, S. F. B., 13 Mar 2024, In: Communications biology. 7, 1, 9 p., 319.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Deep Learning 100%
  • Fluids and Secretions 98%
  • Organoids 95%
  • Conductance 69%
  • cystic fibrosis 66%
  3 Downloads (Pure)

• Repeatability and reproducibility of the Forskolin-induced swelling (FIS) assay on intestinal organoids from people with Cystic Fibrosis

  Bierlaagh, M. C., Ramalho, A. S., Silva, I. A. L., Vonk, A. M., van den Bor, R. M., van Mourik, P., Pott, J., Suen, S. W. F., Boj, S. F., Vries, R. G. J., Lammertyn, E., Vermeulen, F., Amaral, M. D., de Boeck, K., van der Ent, C. K. & Beekman, J. M., Jul 2024, In: Journal of Cystic Fibrosis. 23, 4, p. 693-702 10 p.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Organoids 100%
  • Colforsin 83%
  • Cystic Fibrosis 74%
  • Theranostic Nanomedicine 16%
  • Precision Medicine 13%
• 2023

  Airway Epithelial Cultures of Children with Esophageal Atresia as a Model to Study Respiratory Tract Disorders

  Dreyer, H. H. M., van Tuyll van Serooskerken, E. S., Rodenburg, L. W., Bittermann, A. J. N., Arets, H. G. M., Reuling, E. M. B. P., Verweij, J. W., Haarman, E. G., van der Zee, D. C., Tytgat, S. H. A. J., van der Ent, C. K., Beekman, J. M., Amatngalim, G. D. & Lindeboom, M. Y. A., 5 Jun 2023, In: Children (Basel, Switzerland). 10, 6, p. 1-9 9 p., 1020.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Esophageal Atresia 100%
  • Respiratory System 68%
  • Cilia 42%
  • Nasal Lavage Fluid 37%
  • Organoids 31%
  6 Downloads (Pure)

• CFTR Function Restoration upon Elexacaftor/Tezacaftor/Ivacaftor Treatment in Patient-Derived Intestinal Organoids with Rare CFTR Genotypes.

  Lefferts, J. W., Bierlaagh, M. C., Kroes, S., Nieuwenhuijze, N. D. A., Sonneveld van Kooten, H. N., Niemöller, P. J., Verburg, T. F., Janssens, H. M., Muilwijk, D., van Beuningen, S. F. B., van der Ent, C. K. & Beekman, J. M., Oct 2023, In: International Journal of Molecular Sciences. 24, 19, 14 p., 14539.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • tezacaftor; ivacaftor 100%
  • Ivacaftor 99%
  • cystic fibrosis 84%
  • Organoids 62%
  • regulators 60%
  9 Downloads (Pure)

• Dynamic regulation of airway surface liquid pH by TMEM16A and SLC26A4 in cystic fibrosis nasal epithelia with rare mutations

  Delpiano, L., Rodenburg, L. W., Burke, M., Nelson, G., Amatngalim, G. D., Beekman, J. M. & Gray, M. A., 15 Nov 2023, In: Proceedings of the National Academy of Sciences of the United States of America. 120, 47, e2307551120.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Nasal Mucosa 100%
  • Cystic Fibrosis 83%
  • Mutation 48%
  • Homeostasis 14%
  • Fluids and Secretions 12%

• Exploring intrinsic variability between cultured nasal and bronchial epithelia in cystic fibrosis

  Rodenburg, L. W., Metzemaekers, M., van der Windt, I. S., Smits, S. M. A., den Hertog-Oosterhoff, L. A., Kruisselbrink, E., Brunsveld, J. E., Michel, S., de Winter-de Groot, K. M., van der Ent, C. K., Stadhouders, R., Beekman, J. M. & Amatngalim, G. D., 30 Oct 2023, In: Scientific Reports. 13, 1, 18573.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Nasal Mucosa 100%
  • Cystic Fibrosis 83%
  • Nose 69%
  • Epithelium 65%
  • Epithelial Cells 51%

• FDA-approved drug screening in patient-derived organoids demonstrates potential of drug repurposing for rare cystic fibrosis genotypes

  de Poel, E., Spelier, S., Hagemeijer, M. C., van Mourik, P., Suen, S. W. F., Vonk, A. M., Brunsveld, J. E., Ithakisiou, G. N., Kruisselbrink, E., Oppelaar, H., Berkers, G., de Winter de Groot, K. M., Heida-Michel, S., Jans, S. R., van Panhuis, H., Bakker, M., van der Meer, R., Roukema, J., Dompeling, E., Weersink, E. J. M., & 5 othersKoppelman, G. H., Blaazer, A. R., Muijlwijk-Koezen, J. E., van der Ent, C. K. & Beekman, J. M., May 2023, In: Journal of Cystic Fibrosis. 22, 3, p. 548-559 12 p.

  Research output: Contribution to journal › Article › Academic › peer-review

  • Drug Repositioning 100%
  • Organoids 95%
  • Preclinical Drug Evaluations 86%
  • Phosphodiesterase 4 Inhibitors 83%
  • Cystic Fibrosis 71%

• High-throughput functional assay in cystic fibrosis patient-derived organoids allows drug repurposing

  Spelier, S., de Poel, E., Ithakisiou, G. N., Suen, S. W. F., Hagemeijer, M. C., Muilwijk, D., Vonk, A. M., Brunsveld, J. E., Kruisselbrink, E., van der Ent, C. K. & Beekman, J. M., Jan 2023, In: ERJ Open Research. 9, 1, 00495-2022.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Drug Repositioning 100%
  • Organoids 95%
  • Cystic Fibrosis Transmembrane Conductance Regulator 91%
  • Cystic Fibrosis 71%
  • Hydroxymethylglutaryl-CoA Reductase Inhibitors 21%
  4 Citations (Scopus)

  7 Downloads (Pure)

• Impaired SARS-CoV-2 specific T-cell response in patients with severe COVID-19

  Rümke, L. W., Smit, W. L., Bossink, A., Limonard, G. J. M., Muilwijk, D., Haas, L. E. M., Reusken, C., van der Wal, S., Thio, B. J., van Os, Y. M. G., Gremmels, H., Beekman, J. M., Nijhuis, M., Wensing, A. M. J., Heron, M. & Thijsen, S. F. T., Apr 2023, In: Frontiers in Immunology. 14, 9 p., 1046639.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • SARS Virus 100%
  • T-Lymphocytes 41%
  • Viruses 22%
  • Nucleocapsid 22%
  • Immunosorbents 21%

• Protocol for generating airway organoids from 2D air liquid interface-differentiated nasal epithelia for use in a functional CFTR assay

  Rodenburg, L. W., van der Windt, I. S., Dreyer, H. H. M., Smits, S. M. A., den Hertog-Oosterhoff, L. A., Aarts, E. M., Beekman, J. M. & Amatngalim, G. D., 15 Sept 2023, In: STAR protocols. 4, 3, p. 1-28 102337.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Nasal 100%
  • Organoids 99%
  • Cystic Fibrosis Transmembrane Conductance Regulator 95%
  • Nasal Mucosa 88%
  • Cystic Fibrosis 73%
  6 Downloads (Pure)

• Targeted locus amplification reveals heterogeneity between and within CFTR genotypes and association with CFTR function in patient-derived intestinal organoids

  Lefferts, J. W., Boersma, V., Nieuwenhuijze, N. D. A., Suen, S. W. F., Hajo, K., Collantes, N. S., Vermeulen, C., Groeneweg, T., Hagemeijer, M. C., de Jonge, H. R., van der Ent, C. K., Splinter, E. & Beekman, J. M., May 2023, In: Journal of Cystic Fibrosis. 22, 3, p. 538-547 10 p.

  Research output: Contribution to journal › Article › Academic › peer-review

  • Organoids 100%
  • Cystic Fibrosis Transmembrane Conductance Regulator 95%
  • Genotype 54%
  • Cystic Fibrosis 22%
  • Alleles 11%

• Use of 2,6-diaminopurine as a potent suppressor of UGA premature stop codons in cystic fibrosis

  Leroy, C., Spelier, S., Essonghe, N. C., Poix, V., Kong, R., Gizzi, P., Bourban, C., Amand, S., Bailly, C., Guilbert, R., Hannebique, D., Persoons, P., Arhant, G., Prévotat, A., Reix, P., Hubert, D., Gérardin, M., Chamaillard, M., Prevarskaya, N., Rebuffat, S., & 3 othersShapovalov, G., Beekman, J. & Lejeune, F., 5 Apr 2023, In: Molecular Therapy. 31, 4, p. 970-985 16 p.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • 2,6-diaminopurine 100%
  • 2,6-diaminopurines 87%
  • Terminator Codon 66%
  • Nonsense Codon 63%
  • Cystic Fibrosis 54%
  5 Citations (Scopus)

  7 Downloads (Pure)

• Validating organoid-derived human intestinal monolayers for personalized therapy in cystic fibrosis

  Birimberg-Schwartz, L., Ip, W., Bartlett, C., Avolio, J., Vonk, A. M., Gunawardena, T., Du, K., Esmaeili, M., Beekman, J. M., Rommens, J., Strug, L., Bear, C. E., Moraes, T. J. & Gonska, T., Jun 2023, In: Life Science Alliance. 6, 6, e202201857.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • cystic fibrosis 100%
  • Nasal 96%
  • Organoids 96%
  • therapy 77%
  • Cystic Fibrosis 71%
  7 Downloads (Pure)
• 2022

  A PI3Kγ mimetic peptide triggers CFTR gating, bronchodilation, and reduced inflammation in obstructive airway diseases

  Ghigo, A., Murabito, A., Sala, V., Pisano, A. R., Bertolini, S., Gianotti, A., Caci, E., Montresor, A., Premchandar, A., Pirozzi, F., Ren, K., Sala, A. D., Mergiotti, M., Richter, W., de Poel, E., Matthey, M., Caldrer, S., Cardone, R. A., Civiletti, F., Costamagna, A., & 26 othersQuinney, N. L., Butnarasu, C., Visentin, S., Ruggiero, M. R., Baroni, S., Crich, S. G., Ramel, D., Laffargue, M., Tocchetti, C. G., Levi, R., Conti, M., Lu, X. Y., Melotti, P., Sorio, C., De Rose, V., Facchinetti, F., Fanelli, V., Wenzel, D., Fleischmann, B. K., Mall, M. A., Beekman, J., Laudanna, C., Gentzsch, M., Lukacs, G. L., Pedemonte, N. & Hirsch, E., 30 Mar 2022, In: Science translational medicine. 14, 638, abl6328.

  Research output: Contribution to journal › Article › Academic › peer-review

  • Cystic Fibrosis Transmembrane Conductance Regulator 100%
  • Phosphatidylinositol 3-Kinase 80%
  • Cyclic AMP 78%
  • Peptides 50%
  • Inflammation 46%
  3 Citations (Scopus)

• Drug Repurposing for Cystic Fibrosis: Identification of Drugs That Induce CFTR-Independent Fluid Secretion in Nasal Organoids

  Rodenburg, L. W., Delpiano, L., Railean, V., Centeio, R., Pinto, M. C., Smits, S. M. A., van der Windt, I. S., van Hugten, C. F. J., van Beuningen, S. F. B., Rodenburg, R. N. P., van der Ent, C. K., Amaral, M. D., Kunzelmann, K., Gray, M. A., Beekman, J. M. & Amatngalim, G. D., 21 Oct 2022, In: International Journal of Molecular Sciences. 23, 20, 12657.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • cystic fibrosis 100%
  • secretions 77%
  • Drug Repositioning 77%
  • Fluids and Secretions 75%
  • Nasal 74%
  4 Downloads (Pure)

• Forskolin-induced organoid swelling is associated with long-term cystic fibrosis disease progression

  Muilwijk, D., de Poel, E., van Mourik, P., Suen, S. W. F., Vonk, A. M., Brunsveld, J. E., Kruisselbrink, E., Oppelaar, H., Hagemeijer, M. C., Berkers, G., de Winter-de Groot, K. M., Heida-Michel, S., Jans, S. R., van Panhuis, H., van der Eerden, M. M., van der Meer, R., Roukema, J., Dompeling, E., Weersink, E. J. M., Koppelman, G. H., & 5 othersVries, R., Zomer-van Ommen, D. D., Eijkemans, M. J. C., van der Ent, C. K. & Beekman, J. M., 1 Aug 2022, In: The European respiratory journal. 60, 2, p. 1-11 2100508.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Organoids 100%
  • Colforsin 83%
  • Cystic Fibrosis 74%
  • Disease Progression 60%
  • Cystic Fibrosis Transmembrane Conductance Regulator 35%
  18 Downloads (Pure)

• Forskolin induced swelling (FIS) assay in intestinal organoids to guide eligibility for compassionate use treatment in a CF patient with a rare genotype

  Aalbers, B. L., Brunsveld, J. E., van der Ent, C. K., van den Eijnden, J. C., Beekman, J. M. & Heijerman, H. G. M., Mar 2022, In: Journal of Cystic Fibrosis. 21, 2, p. 254-257 4 p.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Compassionate Use Trials 100%
  • Organoids 86%
  • Colforsin 71%
  • Genotype 47%
  • Mutation 36%
  8 Downloads (Pure)

• Functional Restoration of CFTR Nonsense Mutations in Intestinal Organoids

  de Poel, E., Spelier, S., Suen, S. W. F., Kruisselbrink, E., Graeber, S. Y., Mall, M. A., Weersink, E. J. M., van der Eerden, M. M., Koppelman, G. H., van der Ent, C. K. & Beekman, J. M., Mar 2022, In: Journal of Cystic Fibrosis. 21, 2, p. 246-253 8 p.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Organoids 100%
  • Cystic Fibrosis Transmembrane Conductance Regulator 95%
  • Nonsense Codon 87%
  • ivacaftor 55%
  • Nonsense Mediated mRNA Decay 49%
  1 Citation (Scopus)

  16 Downloads (Pure)

• In-depth Characterization of Vaccine Breakthrough Infections With SARS-CoV-2 Among Health Care Workers in a Dutch Academic Medical Center

  Rümke, L. W., Groenveld, F. C., van Os, Y. M. G., Praest, P., Tanja, A. A. N., de Jong, D. T. C. M., Symons, J., Schuurman, R., Reinders, T., Hofstra, L. M., Nierkens, S., Thijsen, S. F. T., Heron, M., Lebbink, R-J., Beekman, J. M., Nijhuis, M. & Wensing, A. M. J., Jan 2022, In: Open forum infectious diseases. 9, 1, p. 1-6 ofab553.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • SARS Virus 100%
  • Vaccination 54%
  • Vaccines 50%
  • Occupational Groups 48%
  • Delivery of Health Care 41%
  2 Citations (Scopus)

  2 Downloads (Pure)

• Measuring cystic fibrosis drug responses in organoids derived from 2D differentiated nasal epithelia

  Amatngalim, G. D., Rodenburg, L. W., Aalbers, B. L., Raeven, H. H., Aarts, E. M., Sarhane, D., Spelier, S., Lefferts, J. W., Silva, I. A., Nijenhuis, W., Vrendenbarg, S., Kruisselbrink, E., Brunsveld, J. E., van Drunen, C. M., Michel, S., de Winter-de Groot, K. M., Heijerman, H. G., Kapitein, L. C., Amaral, M. D., van der Ent, C. K., & 1 othersBeekman, J. M., Dec 2022, In: Life Science Alliance. 5, 12, p. 1-14 e202101320.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Organoids 100%
  • Nasal Mucosa 88%
  • Cystic Fibrosis 74%
  • Pharmaceutical Preparations 31%
  • Nose 30%
  4 Downloads (Pure)

• Mogelijke toepassingen van organoïden in de geneeskunde

  Translated title of the contribution: Possible applications of organoids in medicineMijnders, M., Fuchs, S. A. & Nieuwenhuis, E. E. S., 12 Jan 2022, In: Nederlands Tijdschrift voor Geneeskunde. 166, d6011.

  Research output: Contribution to journal › Article › Academic › peer-review

  • Organoids 100%
  • Medicine 55%
  • Regenerative Medicine 13%
  • Precision Medicine 13%
  • Cystic Fibrosis 12%

• Mutation-specific reporter for optimization and enrichment of prime editing

  Schene, I. F., Joore, I. P., Baijens, J. H. L., Stevelink, R., Kok, G., Shehata, S., Ilcken, E. F., Nieuwenhuis, E. E. S., Bolhuis, D. P., van Rees, R. C. M., Spelier, S. A., van der Doef, H. P. J., Beekman, J. M., Houwen, R. H. J., Nieuwenhuis, E. E. S. & Fuchs, S. A., 1 Mar 2022, In: Nature Communications. 13, 1, 1028.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • editing 100%
  • mutations 80%
  • Mutation 58%
  • optimization 44%
  • Guide RNA 19%
  21 Downloads (Pure)

• Recurrent respiratory syncytial virus infection in a CD14 deficient patient

  Besteman, S. B., Phung, E., Raeven, H. H. M., Amatngalim, G. D., Rumpret, M., Crabtree, J., Schepp, R. M., Rodenburg, L. W., Siemonsma, S. G., Verleur, N., van Slooten, R., Duran, K., van Haaften, G., Beekman, J. M., Chang, L. A., Meyaard, L., van der Bruggen, T., Berbers, G. A. M., Derksen, N., Nierkens, S., & 6 othersMorabito, K. M., Ruckwardt, T. J., Kurt-Jones, E. A., Golenbock, D., Graham, B. S. & Bont, L. J., 15 Jul 2022, In: The Journal of infectious diseases. 226, 2, p. 258-269 12 p.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Respiratory Syncytial Virus Infections 100%
  • Respiratory Syncytial Viruses 90%
  • Nose 31%
  • Air 30%
  • Interleukin-6 29%
  9 Downloads (Pure)

• Redefining Hypo- and Hyper-Responding Phenotypes of CFTR Mutants for Understanding and Therapy

  Hillenaar, T., Beekman, J., van der Sluijs, P. & Braakman, I., Dec 2022, In: International Journal of Molecular Sciences. 23, 23, 15170.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • phenotype 100%
  • Modulators 72%
  • therapy 67%
  • mutations 66%
  • modulators 60%
  11 Downloads (Pure)

• The SLC26A9 inhibitor S9-A13 provides no evidence for a role of SLC26A9 in airway chloride secretion but suggests a contribution to regulation of ASL pH and gastric proton secretion

  Jo, S., Centeio, R., Park, J., Ousingsawat, J., Jeon, D. K., Talbi, K., Schreiber, R., Ryu, K., Kahlenberg, K., Somoza, V., Delpiano, L., Gray, M. A., Amaral, M. D., Railean, V., Beekman, J. M., Rodenburg, L. W., Namkung, W. & Kunzelmann, K., Nov 2022, In: FASEB Journal. 36, 11, e22534.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Sulfate Transporters 100%
  • Chlorides 61%
  • Protons 58%
  • Solute 47%
  • Stomach 41%
  3 Citations (Scopus)

  6 Downloads (Pure)
• 2021

  Breast development in a 7 year old girl with CF treated with ivacaftor: An indication for personalized dosing?

  Jeyaratnam, J., van der Meer, R., Berkers, G., Heijerman, H. G., Beekman, J. M. & van der Ent, C. K., Sept 2021, In: Journal of Cystic Fibrosis. 20, 5, p. e63-e66

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • ivacaftor 100%
  • Breast 44%
  • Sweat 23%
  • Correlation of Data 22%
  • Chlorides 20%
  9 Downloads (Pure)

• CFTR Rescue in Intestinal Organoids with GLPG/ABBV-2737, ABBV/GLPG-2222 and ABBV/GLPG-2451 Triple Therapy

  de Poel, E., Spelier, S., Korporaal, R., Lai, K. W., Boj, S. F., Conrath, K., van der Ent, C. K. & Beekman, J. M., 15 Sept 2021, In: Frontiers in Molecular Biosciences. 8, 698358.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Organoids 100%
  • Cystic Fibrosis Transmembrane Conductance Regulator 95%
  • lumacaftor 55%
  • ivacaftor 51%
  • Mutation 21%
  4 Downloads (Pure)

• Evaluating CRISPR-based prime editing for cancer modeling and CFTR repair in organoids

  Geurts, M. H., de Poel, E., Pleguezuelos-Manzano, C., Oka, R., Carrillo, L., Andersson-Rolf, A., Boretto, M., Brunsveld, J. E., van Boxtel, R., Beekman, J. M. & Clevers, H., Oct 2021, In: Life Science Alliance. 4, 10, e202000940.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Organoids 100%
  • Clustered Regularly Interspaced Short Palindromic Repeats 87%
  • mutation 75%
  • repair 73%
  • cancer 71%
  2 Citations (Scopus)

  11 Downloads (Pure)

• Lumacaftor/ivacaftor in people with cystic fibrosis with an A455E-CFTR mutation

  Berkers, G., van der Meer, R., Heijerman, H., Beekman, J. M., Boj, S. F., Vries, R. G. J., van Mourik, P., Doyle, J. R., Audhya, P., Yuan, Z. J., Kinnman, N. & van der Ent, C. K., Sept 2021, In: Journal of Cystic Fibrosis. 20, 5, p. 761-767 7 p.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • ivacaftor drug combination lumacaftor 100%
  • Cystic Fibrosis 52%
  • Organoids 50%
  • Sweat 36%
  • Chlorides 32%
  17 Downloads (Pure)

• Prediction of Real-World Long-Term Outcomes of People with CF Homozygous for the F508del Mutation Treated with CFTR Modulators

  Muilwijk, D., Bierlaagh, M., van Mourik, P., Kraaijkamp, J., van der Meer, R., van den Bor, R., Heijerman, H., Eijkemans, R., Beekman, J. & van der Ent, K., 16 Dec 2021, In: Journal of Personalized Medicine. 11, 12, p. 1-12 1376.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • ivacaftor drug combination lumacaftor 100%
  • Cystic Fibrosis Transmembrane Conductance Regulator 67%
  • Sweat 63%
  • Chlorides 56%
  • insulin receptor-related receptor 39%
  6 Downloads (Pure)

• Predictive Value of EGFR-PI3K-AKT-mTOR-Pathway Inhibitor Biomarkers for Head and Neck Squamous Cell Carcinoma: A Systematic Review

  de Kort, W. W. B., Spelier, S., Devriese, L. A., van Es, R. J. J. & Willems, S. M., Mar 2021, In: Molecular Diagnosis and Therapy. 25, 2, p. 123-136 14 p.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Squamous Cell Carcinoma of Head and Neck 100%
  • Phosphatidylinositol 3-Kinases 88%
  • ErbB Receptors 85%
  • Systematic Reviews 66%
  • Biomarkers 58%
  6 Downloads (Pure)
• 2020

  A CRISPR-Cas9-based reporter system for single-cell detection of extracellular vesicle-mediated functional transfer of RNA

  de Jong, O. G., Murphy, D. E., Mäger, I., Willms, E., Garcia-Guerra, A., Gitz-Francois, J. J., Lefferts, J., Gupta, D., Steenbeek, S. C., van Rheenen, J., El Andaloussi, S., Schiffelers, R. M., Wood, M. J. A. & Vader, P., 28 Feb 2020, In: Nature Communications. 11, 1, p. 1-13 1113.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • ribonucleic acids 100%
  • Transfer RNA 86%
  • Extracellular Vesicles 76%
  • Clustered Regularly Interspaced Short Palindromic Repeats 74%
  • biological evolution 65%
  2 Citations (Scopus)

  19 Downloads (Pure)

• An open-source high-content analysis workflow for CFTR function measurements using the forskolin-induced swelling assay

  Hagemeijer, M. C., Vonk, A. M., Awatade, N. T., Silva, I. A. L., Tischer, C., Hilsenstein, V., Beekman, J. M., Amaral, M. D. & Botelho, H. M., 15 Dec 2020, In: Bioinformatics. 36, 24, p. 5686-5694 9 p.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  • Content Analysis 100%
  • Swelling 79%
  • Work Flow 79%
  • Open Source 75%
  • Assays 64%
  1 Citation (Scopus)

• Clinical effects of the three CFTR potentiator treatments curcumin, genistein and ivacaftor in patients with the CFTR-S1251N gating mutation

  Berkers, G., van der Meer, R., van Mourik, P., Vonk, A. M., Kruisselbrink, E., Suen, S. W., Heijerman, H. G., Majoor, C. J., Koppelman, G. H., Roukema, J., Janssens, H. M., de Rijke, Y. B., Kemper, E. M., Beekman, J. M., van der Ent, C. K. & de Jonge, H. R., Nov 2020, In: Journal of Cystic Fibrosis. 19, 6, p. 955-961 7 p.

  Research output: Contribution to journal › Article › Academic › peer-review

  • ivacaftor 100%
  • Genistein 70%
  • Curcumin 67%
  • Organoids 51%
  • Mutation 33%

• CRISPR-Based Adenine Editors Correct Nonsense Mutations in a Cystic Fibrosis Organoid Biobank

  Geurts, M. H., de Poel, E., Amatngalim, G. D., Oka, R., Meijers, F. M., Kruisselbrink, E., van Mourik, P., Berkers, G., de Winter-de Groot, K. M., Michel, S., Muilwijk, D., Aalbers, B. L., Mullenders, J., Boj, S. F., Suen, S. W. F., Brunsveld, J. E., Janssens, H. M., Mall, M. A., Graeber, S. Y., van Boxtel, R., & 3 othersvan der Ent, C. K., Beekman, J. M. & Clevers, H., 2 Apr 2020, In: Cell stem cell. 26, 4, p. 503-510.e7

  Research output: Contribution to journal › Article › Academic › peer-review

  • Organoids 100%
  • Adenine 89%
  • Clustered Regularly Interspaced Short Palindromic Repeats 87%
  • Nonsense Codon 87%
  • Cystic Fibrosis 74%
  2 Citations (Scopus)

• Forskolin-induced swelling of intestinal organoids correlates with disease severity in adults with cystic fibrosis and homozygous F508del mutations

  de Winter-de Groot, K. M., Berkers, G., Marck-van der Wilt, R. E. P., van der Meer, R., Vonk, A., Dekkers, J. F., Geerdink, M., Michel, S., Kruisselbrink, E., Vries, R., Clevers, H., Vleggaar, F. P., Elias, S. G., Heijerman, H. G. M., van der Ent, C. K. & Beekman, J. M., Jul 2020, In: Journal of Cystic Fibrosis. 19, 4, p. 614-619 6 p.

  Research output: Contribution to journal › Article › Academic › peer-review

  • Organoids 100%
  • Colforsin 83%
  • Cystic Fibrosis 74%
  • Mutation 42%
  • Thorax 39%

• Getting neural about airway gland secretion

  Amatngalim, G. D. & Ribeiro, C. M. P., 1 Apr 2020, In: European Respiratory Journal. 55, 4, 2000466.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

• Protocol for Application, Standardization and Validation of the Forskolin-Induced Swelling Assay in Cystic Fibrosis Human Colon Organoids

  Vonk, A. M., van Mourik, P., Ramalho, A. S., Silva, I. A. L., Statia, M., Kruisselbrink, E., Suen, S. W. F., Dekkers, J. F., Vleggaar, F. P., Houwen, R. H. J., Mullenders, J., Boj, S. F., Vries, R., Amaral, M. D., de Boeck, K., van der Ent, C. K. & Beekman, J. M., 19 Jun 2020, In: STAR protocols. 1, 1, p. 1-31 31 p., 100019.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Organoids 100%
  • Cystic Fibrosis Transmembrane Conductance Regulator 95%
  • Colforsin 83%
  • Cystic Fibrosis 74%
  • Colon 61%
  16 Citations (Scopus)

  7 Downloads (Pure)

• R117H-CFTR function and response to VX-770 correlate with mRNA and protein expression in intestinal organoids

  Van Mourik, P., van Haaren, P., Kruisselbrink, E., Korkmaz, C., Janssens, H. M., de Winter – de Groot, K. M., van der Ent, C. K., Hagemeijer, M. C. & Beekman, J. M., Sept 2020, In: Journal of Cystic Fibrosis. 19, 5, p. 728-732 5 p.

  Research output: Contribution to journal › Article › Academic › peer-review

  • ivacaftor 100%
  • Organoids 77%
  • Messenger RNA 33%
  • Colforsin 32%
  • Proteins 21%

• Responsible use of organoids in precision medicine: The need for active participant involvement

  Lensink, M. A., Jongsma, K. R., Boers, S. N., Noordhoek, J. J., Beekman, J. M. & Bredenoord, A. L., Apr 2020, In: Development (Cambridge). 147, 7, 177972.

  Research output: Contribution to journal › Article › Academic › peer-review

  • Organoids 100%
  • Precision Medicine 82%
  • Privacy 22%
  • Ethics 19%
  • Tissue Donors 14%
• 2019

  A 'catch-and-release' receptor for the cholera toxin

  Mahon, C. S., Wildsmith, G. C., Haksar, D., De Poel, E., Beekman, J. M., Pieters, R. J., Webb, M. E. & Turnbull, W. B., 30 Oct 2019, In: Faraday discussions. 219, p. 112-127 16 p.

  Research output: Contribution to journal › Article › Academic › peer-review

  • cholera 100%
  • Critical Solution Temperature 64%
  • Toxin 55%
  • carbohydrates 53%
  • Carbohydrate 48%
  1 Citation (Scopus)

• FcγRIII stimulation breaks the tolerance of human nasal epithelial cells to bacteria through cross-talk with TLR4

  Golebski, K., Hoepel, W., van Egmond, D., de Groot, E. J., Amatngalim, G. D., Beekman, J. M., Fokkens, W. J., van Drunen, C. M. & den Dunnen, J., 1 Mar 2019, In: Mucosal immunology. 12, 2, p. 425-433 9 p.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • IgG Receptors 100%
  • Nasal Cavity 63%
  • Nose 60%
  • Epithelial Cells 53%
  • Bacteria 50%

• Folding-function relationship of the most common cystic fibrosis-causing CFTR conductance mutants

  Van Willigen, M., Vonk, A. M., Yeoh, H. Y., Kruisselbrink, E., Kleizen, B., Van Der Ent, C. K., Egmond, M. R., De Jonge, H. R., Braakman, I., Beekman, J. M. & Van Der Sluijs, P., 1 Jan 2019, In: Life Science Alliance. 2, 1, e201800172.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • lumacaftor 100%
  • cystic fibrosis 74%
  • mutant 57%
  • Cystic Fibrosis 53%
  • Conductance 52%
  6 Citations (Scopus)

  6 Downloads (Pure)

• High-resolution 3D imaging of fixed and cleared organoids

  Dekkers, J. F., Alieva, M., Wellens, L. M., Ariese, H. C. R., Jamieson, P. R., Vonk, A. M., Amatngalim, G. D., Hu, H., Oost, K. C., Snippert, H. J. G., Beekman, J. M., Wehrens, E. J., Visvader, J. E., Clevers, H. & Rios, A. C., 1 Jun 2019, In: Nature Protocols. 14, 6, p. 1756-1771 16 p.

  Research output: Contribution to journal › Article › Academic › peer-review

  • Organoids 100%
  • Fluorescence Microscopy 76%
  • Marker 66%
  • Sample Preparation 63%
  • Shape 49%
  1 Citation (Scopus)

• Intestinal organoids to model cystic fibrosis

  Van Mourik, P., Beekman, J. M. & Van Der Ent, C. K., 1 Jan 2019, In: European Respiratory Journal. 54, 1, 1802379.

  Research output: Contribution to journal › Article › Academic › peer-review

  • Organoids 100%
  • Cystic Fibrosis 74%
  • Cystic Fibrosis Transmembrane Conductance Regulator 31%
  • Pharmaceutical Preparations 21%
  • Mutation 14%
  5 Citations (Scopus)

• In utero and postnatal VX-770 administration rescues multiorgan disease in a ferret model of cystic fibrosis

  Sun, X., Yi, Y., Yan, Z., Rosen, B. H., Liang, B., Winter, M. C., Evans, T. I. A., Rotti, P. G., Yang, Y., Gray, J. S., Park, S. Y., Zhou, W., Zhang, Y., Moll, S. R., Woody, L., Tran, D. M., Jiang, L., Vonk, A. M., Beekman, J. M., Negulescu, P., & 4 othersVan Goor, F., Fiorino, D. F., Gibson-Corley, K. N. & Engelhardt, J. F., 27 Mar 2019, In: Science Translational Medicine. 11, 485, eaau7531.

  Research output: Contribution to journal › Article › Academic › peer-review

  • ivacaftor 100%
  • Ferrets 76%
  • Cystic Fibrosis 57%
  • Cystic Fibrosis Transmembrane Conductance Regulator 49%
  • Pathology 18%
  9 Citations (Scopus)

• Long-term expanding human airway organoids for disease modeling

  Sachs, N., Papaspyropoulos, A., Zomer-van Ommen, D. D., Heo, I., Böttinger, L., Klay, D., Weeber, F., Huelsz-Prince, G., Iakobachvili, N., Amatngalim, G. D., de Ligt, J., van Hoeck, A., Proost, N., Viveen, M. C., Lyubimova, A., Teeven, L., Derakhshan, S., Korving, J., Begthel, H., Dekkers, J. F., & 28 othersKumawat, K., Ramos, E., van Oosterhout, M. F. M., Offerhaus, G. J., Wiener, D. J., Olimpio, E. P., Dijkstra, K. K., Smit, E. F., van der Linden, M., Jaksani, S., van de Ven, M., Jonkers, J., Rios, A. C., Voest, E. E., van Moorsel, C. H. M., van der Ent, C. K., Cuppen, E., van Oudenaarden, A., Coenjaerts, F. E., Meyaard, L., Bont, L. J., Peters, P. J., Tans, S. J., van Zon, J. S., Boj, S. F., Vries, R. G., Beekman, J. M. & Clevers, H., 14 Jan 2019, In: EMBO Journal. 38, 4, e100300.

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Organoids 100%
  • Mutation 64%
  • Drug 40%
  • Protein 31%
  • Viral Nonstructural Proteins 15%

• R560S: A class II CFTR mutation that is not rescued by current modulators

  Awatade, N. T., Ramalho, S., Silva, I. A. L., Felício, V., Botelho, H. M., de Poel, E., Vonk, A., Beekman, J. M., Farinha, C. M. & Amaral, M. D., Mar 2019, In: Journal of Cystic Fibrosis. 18, 2, p. 182-189 8 p.

  Research output: Contribution to journal › Article › Academic › peer-review

  • Organoids 100%
  • Cystic Fibrosis Transmembrane Conductance Regulator 95%
  • Mutation 71%
  • Biopsy 30%
  • Cell Line 30%

• Rectal Organoids Enable Personalized Treatment of Cystic Fibrosis

  Berkers, G., van Mourik, P., Vonk, A. M., Kruisselbrink, E., Dekkers, J. F., de Winter-de Groot, K. M., Arets, H. G. M., Marck-van der Wilt, R. E. P., Dijkema, J. S., Vanderschuren, M. M., Houwen, R. H. J., Heijerman, H. G. M., van de Graaf, E. A., Elias, S. G., Majoor, C. J., Koppelman, G. H., Roukema, J., Bakker, M., Janssens, H. M., van der Meer, R., & 5 othersVries, R. G. J., Clevers, H. C., de Jonge, H. R., Beekman, J. M. & van der Ent, C. K., 12 Feb 2019, In: Cell Reports. 26, 7, p. 1701-1708.e3

  Research output: Contribution to journal › Article › Academic › peer-review

  Open Access

  File

  • Rectal 100%
  • Organoids 88%
  • Cystic Fibrosis 66%
  • Predictive Value of Tests 47%
  • Precision Medicine 36%
  2 Downloads (Pure)