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Author Details

Frank C P Holstege
Princess Maxima Center for Pediatric Oncology
1990
172
60
Trey Ideker (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
37400763Systematic discovery of gene fusions in pediatric cancer by integrating RNA-seq and WGS.BMC Cancer2023
37662907ErbB2 (HER2)-CAR-NK-92 cells for enhanced immunotherapy of metastatic fusion-driven alveolar rhabdomyosarcoma.Front Immunol2023
37823774Ewing Sarcoma Single-cell Transcriptome Analysis Reveals Functionally Impaired Antigen-presenting Cells.Cancer Res Commun2023
37152023Targeted locus amplification to develop robust patient-specific assays for liquid biopsies in pediatric solid tumors.Front Oncol2023
34304246Identification and characterization of relapse-initiating cells in MLL-rearranged infant ALL by single-cell transcriptomics.Leukemia2022
35476984Hypoxic, glycolytic metabolism is a vulnerability of B-acute lymphoblastic leukemia-initiating cells.Cell Rep2022
36402763PPARγ lipodystrophy mutants reveal intermolecular interactions required for enhancer activation.Nat Commun2022
36459971Optimized human intestinal organoid model reveals interleukin-22-dependency of paneth cell formation.Cell Stem Cell2022
36182817Implementation of paediatric precision oncology into clinical practice: The Individualized Therapies for Children with cancer program 'iTHER'.Eur J Cancer2022
36002022Optimized human intestinal organoid model reveals interleukin-22-dependency of paneth cell formation.Cell Stem Cell2022
36066422A balancing act: interactions within NuA4/TIP60 regulate picNuA4 function in Saccharomyces cerevisiae and humans.Genetics2022
36230794Molecular Characterization Reveals Subclasses of 1q Gain in Intermediate Risk Wilms Tumors.Cancers (Basel)2022
35916583Mesenchymal tumor organoid models recapitulate rhabdomyosarcoma subtypes.EMBO Mol Med2022
35085008Improved Gene Fusion Detection in Childhood Cancer Diagnostics Using RNA Sequencing.JCO Precis Oncol2022
33306797Suboptimal Global Transcriptional Response Increases the Harmful Effects of Loss-of-Function Mutations.Mol Biol Evol2021
33547074Tumor to normal single-cell mRNA comparisons reveal a pan-neuroblastoma cancer cell.Sci Adv2021
33848015LGR6 marks nephron progenitor cells.Dev Dyn2021
33500353Single-cell atlas of developing murine adrenal gland reveals relation of Schwann cell precursor signature to neuroblastoma phenotype.Proc Natl Acad Sci U S A2021
34615983A systematic analysis of genetic interactions and their underlying biology in childhood cancer.Commun Biol2021
34520050Shortening of membrane lipid acyl chains compensates for phosphatidylcholine deficiency in choline-auxotroph yeast.EMBO J2021
34301765Single-cell atlas reveals meningeal leukocyte heterogeneity in the developing mouse brain.Genes Dev2021
34162837Single cell derived mRNA signals across human kidney tumors.Nat Commun2021
32161258An organoid biobank for childhood kidney cancers that captures disease and tissue heterogeneity.Nat Commun2020
33280256Genome-wide off-rates reveal how DNA binding dynamics shape transcription factor function.Mol Syst Biol2020
32685929An Optimized Chromatin Immunoprecipitation Protocol for Quantification of Protein-DNA Interactions.STAR Protoc2020
31083661The ability of transcription factors to differentially regulate gene expression is a crucial component of the mechanism underlying inversion, a frequently observed genetic interaction pattern.PLoS Comput Biol2019
31226206CHETAH: a selective, hierarchical cell type identification method for single-cell RNA sequencing.Nucleic Acids Res2019
31506296Regulation of Skn7-dependent, oxidative stress-induced genes by the RNA polymerase II-CTD phosphatase, Fcp1, and Mediator kinase subunit, Cdk8, in yeast.J Biol Chem2019
30833775Tubuloids derived from human adult kidney and urine for personalized disease modeling.Nat Biotechnol2019
29440168FOXO Transcription Factors Both Suppress and Support Breast Cancer Progression.Cancer Res2018
30203048Dot1 promotes H2B ubiquitination by a methyltransferase-independent mechanism.Nucleic Acids Res2018
29979971Sequence-Directed Action of RSC Remodeler and General Regulatory Factors Modulates +1 Nucleosome Position to Facilitate Transcription.Mol Cell2018
27979920Molecular mechanisms that distinguish TFIID housekeeping from regulatable SAGA promoters.EMBO J2017
28257504Growth condition dependency is the major cause of non-responsiveness upon genetic perturbation.PLoS One2017
28416598EBV MicroRNA BART16 Suppresses Type I IFN Signaling.J Immunol2017
28637236The ribosome assembly gene network is controlled by the feedback regulation of transcription elongation.Nucleic Acids Res2017
28049706Coordination of Cell Cycle Progression and Mitotic Spindle Assembly Involves Histone H3 Lysine 4 Methylation by Set1/COMPASS.Genetics2017
26797113An endometrial gene expression signature accurately predicts recurrent implantation failure after IVF.Sci Rep2016
27690330Mapping of a FEB3 homologous febrile seizure locus on mouse chromosome 2 containing candidate genes Scn1a and Scn3a.Eur J Neurosci2016
26681691Genome-wide analysis reveals NRP1 as a direct HIF1α-E2F7 target in the regulation of motorneuron guidance in vivo.Nucleic Acids Res2016
25648147FOXOs support the metabolic requirements of normal and tumor cells by promoting IDH1 expression.EMBO Rep2015
26684451Expression Profiling after Prolonged Experimental Febrile Seizures in Mice Suggests Structural Remodeling in the Hippocampus.PLoS One2015
26700642A high-resolution gene expression atlas of epistasis between gene-specific transcription factors exposes potential mechanisms for genetic interactions.BMC Biol2015
25990325FOXO target gene CTDSP2 regulates cell cycle progression through Ras and p21(Cip1/Waf1).Biochem J2015
24459134Suppression of intragenic transcription requires the MOT1 and NC2 regulators of TATA-binding protein.Nucleic Acids Res2014
25590037Identification of Srp9 as a febrile seizure susceptibility gene.Ann Clin Transl Neurol2014
25157590The genomic landscape of compensatory evolution.PLoS Biol2014
24766815Large-scale genetic perturbations reveal regulatory networks and an abundance of gene-specific repressors.Cell2014
24952590Cell cycle population effects in perturbation studies.Mol Syst Biol2014
24945279Aberrant expression and distribution of enzymes of the urea cycle and other ammonia metabolizing pathways in dogs with congenital portosystemic shunts.PLoS One2014
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Collaborators

Marian J A Groot Koerkamp
Princess Maxima Center for Pediatric Oncology Research
Co-authored papers 54
Patrick Kemmeren
Princess Maxima Center for Pediatric Oncology
Co-authored papers 37
Dik van Leenen
Center for Molecular Medicine, University Medical Center Utrecht, Utrecht University
Co-authored papers 32
Thanasis Margaritis
Princess Maxima Center for Pediatric Oncology
Co-authored papers 23
Philip Lijnzaad
Princess Maxima Center for Pediatric Oncology
Co-authored papers 23
Sander R van Hooff
Princess Maxima Center for Pediatric Oncology
Co-authored papers 15
Joris J Benschop
Center for Molecular Medicine, University Medical Center Utrecht
Co-authored papers 14
Tineke L Lenstra
the Netherlands Cancer Institute, Oncode Institute
Co-authored papers 14
Hans Clevers
Princess Maxima Center for Pediatric Oncology
Co-authored papers 10
Mariel O Brok
Princess Maxima Center for Pediatric Oncology
Co-authored papers 10
Nevan J Krogan (CM4AI)
University of California San Francisco
Co-authored papers 9
Harm van Bakel
Icahn School of Medicine at Mount Sinai
Co-authored papers 9
Nathalie Brabers
University Medical Centre Utrecht, Universiteitsweg
Co-authored papers 8
Loes A L van de Pasch
University Medical Centre Utrecht, Universiteitsweg
Co-authored papers 7
Jan J Molenaar
Co-authored papers 6
Katrin Sameith
Center for Molecular and Cellular Bioengineering
Co-authored papers 6
Alvis Brazma
European Bioinformatics Institute
Co-authored papers 6
Marc van de Wetering
Princess Maxima Center for Pediatric Oncology
Co-authored papers 6
Eva Apweiler
University Medical Centre Utrecht, Universiteitsweg
Co-authored papers 5
Sake van Wageningen
Oncode Institute, The Netherlands Cancer Institute
Co-authored papers 5
Jayne Y Hehir-Kwa
Princess Maxima Center for Pediatric Oncology
Co-authored papers 5
Michael S Kobor
University of British Columbia
Co-authored papers 5
Catherine A Ball
Co-authored papers 4
Cisca Wijmenga
Co-authored papers 4
John Quackenbush
Harvard T. H. Chan School of Public Health
Co-authored papers 4
Christian J Stoeckert
Perelman School of Medicine, University of Pennsylvania
Co-authored papers 4
Linda V Bakker
Wageningen University and Research
Co-authored papers 4
Helen Parkinson
European Bioinformatics Institute
Co-authored papers 4
Hindrik H D Kerstens
Co-authored papers 4
Cheuk W Ko
University Medical Centre Utrecht, Universiteitsweg
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Release 1.2