Search Results - "van de Wiel, A."

Survival and biomarker analyses from the OpACIN-neo and OpACIN neoadjuvant immunotherapy trials in stage III melanoma by Rozeman, E. A., Hoefsmit, E. P., Reijers, I. L. M., Saw, R. P. M., Versluis, J. M., Krijgsman, O., Dimitriadis, P., Sikorska, K., van de Wiel, B. A., Eriksson, H., Gonzalez, M., Torres Acosta, A., Grijpink-Ongering, L. G., Shannon, K., Haanen, J. B. A. G., Stretch, J., Ch’ng, S., Nieweg, O. E., Mallo, H. A., Adriaansz, S., Kerkhoven, R. M., Cornelissen, S., Broeks, A., Klop, W. M. C., Zuur, C. L., van Houdt, W. J., Peeper, D. S., Spillane, A. J., van Akkooi, A. C. J., Scolyer, R. A., Schumacher, T. N. M., Menzies, A. M., Long, G. V., Blank, C. U.

“…Neoadjuvant ipilimumab plus nivolumab showed high pathologic response rates (pRRs) in patients with macroscopic stage III melanoma in the phase 1b OpACIN (…”
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Effects of dependence in high-dimensional multiple testing problems by Kim, Kyung In, van de Wiel, Mark A

“…We consider effects of dependence among variables of high-dimensional data in multiple hypothesis testing problems, in particular the False Discovery Rate…”
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Methods for significance testing of categorical covariates in logistic regression models after multiple imputation: power and applicability analysis by Eekhout, Iris, van de Wiel, Mark A, Heymans, Martijn W

“…Multiple imputation is a recommended method to handle missing data. For significance testing after multiple imputation, Rubin's Rules (RR) are easily applied…”
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Genome-wide DNA copy number alterations in head and neck squamous cell carcinomas with or without oncogene-expressing human papillomavirus by SMEETS, S. J, BRAAKHUIS, B. J. M, ABBAS, S, SNIJDERS, P. J. F, YLSTRA, B, VAN DE WIEL, M. A, MEIJER, G. A, LEEMANS, C. R, BRAKENHOFF, R. H

“…Oncogene-expressing human papillomavirus type 16 (HPV16) is found in a subset of head and neck squamous cell carcinomas (HNSCC). HPV16 drives carcinogenesis by…”
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Identification of the optimal combination dosing schedule of neoadjuvant ipilimumab plus nivolumab in macroscopic stage III melanoma (OpACIN-neo): a multicentre, phase 2, randomised, controlled trial by Rozeman, Elisa A, Menzies, Alexander M, van Akkooi, Alexander C J, Adhikari, Chandra, Bierman, Carolien, van de Wiel, Bart A, Scolyer, Richard A, Krijgsman, Oscar, Sikorska, Karolina, Eriksson, Hanna, Broeks, Annegien, van Thienen, Johannes V, Guminski, Alexander D, Acosta, Alex Torres, ter Meulen, Sylvia, Koenen, Anne Miek, Bosch, Linda J W, Shannon, Kerwin, Pronk, Loes M, Gonzalez, Maria, Ch'ng, Sydney, Grijpink-Ongering, Lindsay G, Stretch, Jonathan, Heijmink, Stijn, van Tinteren, Harm, Haanen, John B A G, Nieweg, Omgo E, Klop, Willem M C, Zuur, Charlotte L, Saw, Robyn P M, van Houdt, Winan J, Peeper, Daniel S, Spillane, Andrew J, Hansson, Johan, Schumacher, Ton N, Long, Georgina V, Blank, Christian U

“…The outcome of patients with macroscopic stage III melanoma is poor. Neoadjuvant treatment with ipilimumab plus nivolumab at the standard dosing schedule…”
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Detection of colorectal cancer in urine using DNA methylation analysis by Bach, S., Paulis, I., Sluiter, N. R., Tibbesma, M., Martin, I., van de Wiel, M. A., Tuynman, J. B., Bahce, I., Kazemier, G., Steenbergen, R. D. M.

“…Colorectal cancer (CRC) is the second leading cause for cancer-related death globally. Clinically, there is an urgent need for non-invasive CRC detection. This…”
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Fcα Receptor-1-Activated Monocytes Promote B Lymphocyte Migration and IgA Isotype Switching by Bos, Amélie V., van Gool, Melissa M. J., Breedveld, Annelot C., van der Mast, Richard, Marsman, Casper, Bouma, Gerd, van de Wiel, Mark A., van Ham, S. Marieke, Mebius, Reina E., van Egmond, Marjolein

“…Patients with inflammatory bowel disease (IBD) produce enhanced immunoglobulin A (IgA) against the microbiota compared to healthy individuals, which has been…”
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Bayesian log-normal deconvolution for enhanced in silico microdissection of bulk gene expression data by Andrade Barbosa, Bárbara, van Asten, Saskia D., Oh, Ji Won, Farina-Sarasqueta, Arantza, Verheij, Joanne, Dijk, Frederike, van Laarhoven, Hanneke W. M., Ylstra, Bauke, Garcia Vallejo, Juan J., van de Wiel, Mark A., Kim, Yongsoo

“…Deconvolution of bulk gene expression profiles into the cellular components is pivotal to portraying tissue’s complex cellular make-up, such as the tumor…”
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Testing the prediction error difference between 2 predictors by van de Wiel, Mark A., Berkhof, Johannes, van Wieringen, Wessel N.

“…We develop an inference framework for the difference in errors between 2 prediction procedures. The 2 procedures may differ in any aspect and possibly utilize…”
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Weighted clustering of called array CGH data by Van Wieringen, Wessel N., Van De Wiel, Mark A., Ylstra, Bauke

“…Array comparative genomic hybridization (aCGH) is a laboratory technique to measure chromosomal copy number changes. A clear biological interpretation of the…”
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Fecal amine metabolite analysis before onset of severe necrotizing enterocolitis in preterm infants: a prospective case–control study by Deianova, N., el Manouni el Hassani, S., Struijs, E. A., Jansen, E. E. W., Bakkali, A., van de Wiel, M. A., de Boode, W. P., Hulzebos, C. V., van Kaam, A. H., Kramer, B. W., d’Haens, E., Vijlbrief, D. C., van Weissenbruch, M. M., de Jonge, W. J., Benninga, M. A., Niemarkt, H. J., de Boer, N. K. H., de Meij, T. G. J.

“…Infants developing necrotizing enterocolitis (NEC) have a different metabolomic profile compared to controls. The potential of specific metabolomics, i.e…”
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Erratum to: Assessment of predictive performance in incomplete data by combining internal validation and multiple imputation by Wahl, Simone, Boulesteix, Anne-Laure, Zierer, Astrid, Thorand, Barbara, van de Wiel, Mark A

“…After publication of the original article [1], it came to the authors' attention that Mark A. van de Wiel's name was spelled incorrectly due to a…”
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Vemurafenib plus cobimetinib in unresectable stage IIIc or stage IV melanoma: response monitoring and resistance prediction with positron emission tomography and tumor characteristics (REPOSIT): study protocol of a phase II, open-label, multicenter study by van der Hiel, Bernies, Haanen, John B A G, Stokkel, Marcel P M, Peeper, Daniel S, Jimenez, Connie R, Beijnen, Jos H, van de Wiel, Bart A, Boellaard, Ronald, van den Eertwegh, Alfons J M

“…In patients with BRAFV600 mutated unresectable stage IIIc or metastatic melanoma, molecular targeted therapy with combined BRAF/MEK-inhibitor vemurafenib plus…”
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Multiple putative oncogenes at the chromosome 20q amplicon contribute to colorectal adenoma to carcinoma progression by Carvalho, B, Postma, C, Mongera, S, Hopmans, E, Diskin, S, van de Wiel, M A, van Criekinge, W, Thas, O, Matthäi, A, Cuesta, M A, Terhaar Sive Droste, J S, Craanen, M, Schröck, E, Ylstra, B, Meijer, G A

“…This study aimed to identify the oncogenes at 20q involved in colorectal adenoma to carcinoma progression by measuring the effect of 20q gain on mRNA…”
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Implementing a Class of Permutation Tests: The coin Package by Hothorn, Torsten, Hornik, Kurt, Wiel, Mark A. van de, Zeileis, Achim

“…The R package coin implements a unified approach to permutation tests providing a huge class of independence tests for nominal, ordered, numeric, and censored…”
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Distinct Metabolomic Signatures in Preclinical and Obstructive Hypertrophic Cardiomyopathy by Schuldt, Maike, van Driel, Beau, Algül, Sila, Parbhudayal, Rahana Y, Barge-Schaapveld, Daniela Q C M, Güçlü, Ahmet, Jansen, Mark, Michels, Michelle, Baas, Annette F, van de Wiel, Mark A, Nieuwdorp, Max, Levin, Evgeni, Germans, Tjeerd, Jans, Judith J M, van der Velden, Jolanda

“…Hypertrophic Cardiomyopathy (HCM) is a common inherited heart disease with poor risk prediction due to incomplete penetrance and a lack of clear…”
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Increased gene copy numbers at chromosome 20q are frequent in both squamous cell carcinomas and adenocarcinomas of the cervix by Wilting, SM, Snijders, PJF, Meijer, GA, Ylstra, B, van den IJssel, PRLA, Snijders, AM, Albertson, DG, Coffa, J, Schouten, JP, van de Wiel, MA, Meijer, CJLM, Steenbergen, RDM

“…Genome‐wide microarray‐based comparative genomic hybridization (array CGH) was used to identify common chromosomal alterations involved in cervical…”
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stepwiseCM: An R Package for Stepwise Classification of Cancer Samples Using Multiple Heterogeneous Data Sets by Obulkasim, Askar, van de Wiel, Mark A

“…This paper presents the R/Bioconductor package stepwiseCM, which classifies cancer samples using two heterogeneous data sets in an efficient way. The algorithm…”
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Expression of Pla2g2a prevents carcinogenesis in Muc2‐deficient mice by Fijneman, R. J. A., Peham, J. R., van de Wiel, M. A., Meijer, G. A., Matise, I., Velcich, A., Cormier, R. T.

“…Goblet cell depletion and down‐regulation of MUC2 expression are observed in a significant percentage of human non‐mucinous colorectal adenocarcinomas. Direct…”
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PRECISE: a domain adaptation approach to transfer predictors of drug response from pre-clinical models to tumors by Mourragui, Soufiane, Loog, Marco, van de Wiel, Mark A, Reinders, Marcel J T, Wessels, Lodewyk F A

“…Abstract Motivation Cell lines and patient-derived xenografts (PDXs) have been used extensively to understand the molecular underpinnings of cancer. While core…”
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