WeFaceNano: a user-friendly pipeline for complete ONT sequence assembly and detection of antibiotic resistance in multi-plasmid bacterial isolates

by Astrid P. Heikema, Rick Jansen, Saskia D. Hiltemann, John P. Hays, Andrew P. Stubbs
Published 2021-06-01

Robust deep learning model for prognostic stratification of pancreatic ductal adenocarcinoma patients

by Jie Ju, Leonoor V. Wismans, Dana A.M. Mustafa, Marcel J.T. Reinders, Casper H.J. van Eijck, Andrew P. Stubbs, Yunlei Li
Published 2021-12-01

Ligand Activation of the Androgen Receptor Downregulates E-Cadherin-Mediated Cell Adhesion and Promotes Apoptosis of Prostatic Cancer Cells

by Joanna Nightingale, Khurram S. Chaudhary, Paul D. Abel, Andrew P. Stubbs, Hanna M. Romanska, Stephen E. Mitchell, Gordon W.H. Stamp, El-Nasir Lalani
Published 2003-07-01

Identification, Validation, and Utilization of Immune Cells in Pancreatic Ductal Adenocarcinoma Based on Marker Genes

by Willem de Koning, Willem de Koning, Diba Latifi, Yunlei Li, Yunlei Li, Casper H. J. van Eijck, Andrew P. Stubbs, Dana A. M. Mustafa
Published 2021-04-01

Evaluation of the antigen-experienced B-cell receptor repertoire in healthy children and adults

by Hanna IJspeert, Pauline A. van Schouwenburg, David van Zessen, David van Zessen, Ingrid Pico-Knijnenburg, Gertjan J. Driessen, Andrew P. Stubbs, Mirjam van der Burg
Published 2016-10-01

Artificial Intelligence in Digital Pathology for Bladder Cancer: Hype or Hope? A Systematic Review

by Farbod Khoraminia, Saul Fuster, Neel Kanwal, Mitchell Olislagers, Kjersti Engan, Geert J. L. H. van Leenders, Andrew P. Stubbs, Farhan Akram, Tahlita C. M. Zuiverloon
Published 2023-09-01

Antigen receptor sequencing of paired bone marrow samples shows homogeneous distribution of acute lymphoblastic leukemia subclones

by Prisca M.J. Theunissen, David van Zessen, Andrew P. Stubbs, Malek Faham, Christian M. Zwaan, Jacques J.M. van Dongen, Vincent H.J. Van Der Velden
Published 2017-11-01

Comparison of Illumina versus Nanopore 16S rRNA Gene Sequencing of the Human Nasal Microbiota

by Astrid P. Heikema, Deborah Horst-Kreft, Stefan A. Boers, Rick Jansen, Saskia D. Hiltemann, Willem de Koning, Robert Kraaij, Maria A. J. de Ridder, Chantal B. van Houten, Louis J. Bont, Andrew P. Stubbs, John P. Hays
Published 2020-09-01

Identification of CVID Patients With Defects in Immune Repertoire Formation or Specification

by Pauline A. van Schouwenburg, Hanna IJspeert, Ingrid Pico-Knijnenburg, Virgil A. S. H. Dalm, Virgil A. S. H. Dalm, P. Martin van Hagen, P. Martin van Hagen, David van Zessen, Andrew P. Stubbs, Smita Y. Patel, Mirjam van der Burg
Published 2018-11-01

Immunomodulatory Effects of Stereotactic Body Radiotherapy and Vaccination with Heat-Killed Mycobacterium Obuense (IMM-101) in Patients with Locally Advanced Pancreatic Cancer

by Freek R. van ‘t Land, Sai P. Lau, Willem de Koning, Larissa Klaase, Madelief Vink, Anneloes van Krimpen, Jasper Dumas, Disha Vadgama, Joost J. Nuyttens, Dana A. M. Mustafa, Ralph Stadhouders, Marcella Willemsen, Andrew P. Stubbs, Joachim G. Aerts, Casper H. J. van Eijck
Published 2022-10-01

Strategies for B-cell receptor repertoire analysis in Primary Immunodeficiencies:From severe combined immunodeficiency to common variable immunodeficiency

by Hanna eIJspeert, Marjolein eWentink, David evan Zessen, David evan Zessen, Gertjan J Driessen, Virgil A.S.H. Dalm, Martin P van Hagen, Ingrid ePico-Knijnenburg, Erik J Simons, Jacques J.M. van Dongen, Andrew P. Stubbs, Mirjam eVan Der Burg
Published 2015-04-01

Spatial genomics reveals a high number and specific location of B cells in the pancreatic ductal adenocarcinoma microenvironment of long-term survivors

by Hosein M. Aziz, Lawlaw Saida, Willem de Koning, Willem de Koning, Andrew P. Stubbs, Yunlei Li, Yunlei Li, Kostandinos Sideras, Elena Palacios, Jaime Feliu, Jaime Feliu, Jaime Feliu, Marta Mendiola, Marta Mendiola, Casper H. J. van Eijck, Casper H. J. van Eijck, Dana A. M. Mustafa
Published 2023-01-01

IL-7 Receptor Mutations and Steroid Resistance in Pediatric T cell Acute Lymphoblastic Leukemia: A Genome Sequencing Study.

by Yunlei Li, Jessica G C A M Buijs-Gladdines, Kirsten Canté-Barrett, Andrew P Stubbs, Eric M Vroegindeweij, Willem K Smits, Ronald van Marion, Winand N M Dinjens, Martin Horstmann, Roland P Kuiper, Rogier C Buijsman, Guido J R Zaman, Peter J van der Spek, Rob Pieters, Jules P P Meijerink
Published 2016-12-01

A Decentralized Kidney Transplant Biopsy Classifier for Transplant Rejection Developed Using Genes of the Banff-Human Organ Transplant Panel

by Myrthe van Baardwijk, Myrthe van Baardwijk, Myrthe van Baardwijk, Myrthe van Baardwijk, Iacopo Cristoferi, Iacopo Cristoferi, Iacopo Cristoferi, Jie Ju, Hilal Varol, Hilal Varol, Robert C. Minnee, Robert C. Minnee, Marlies E. J. Reinders, Marlies E. J. Reinders, Yunlei Li, Andrew P. Stubbs, Marian C. Clahsen-van Groningen, Marian C. Clahsen-van Groningen, Marian C. Clahsen-van Groningen
Published 2022-05-01

Deciphering imprints of impaired memory B-cell maturation in germinal centers of three patients with common variable immunodeficiency

by Pauline van Schouwenburg, Pauline van Schouwenburg, Susanne Unger, Susanne Unger, Susanne Unger, Kathryn J. Payne, Kathryn J. Payne, Kathryn J. Payne, Fabian M. P. Kaiser, Fabian M. P. Kaiser, Ingrid Pico-Knijnenburg, Jens Pfeiffer, Oliver Hausmann, David Friedmann, David Friedmann, David Friedmann, Michelle Erbel, Maximilian Seidl, Maximilian Seidl, David van Zessen, Andrew P. Stubbs, Mirjam van der Burg, Klaus Warnatz, Klaus Warnatz
Published 2022-10-01

FAIR Genomes metadata schema promoting Next Generation Sequencing data reuse in Dutch healthcare and research

by K. Joeri van der Velde, Gurnoor Singh, Rajaram Kaliyaperumal, XiaoFeng Liao, Sander de Ridder, Susanne Rebers, Hindrik H. D. Kerstens, Fernanda de Andrade, Jeroen van Reeuwijk, Fini E. De Gruyter, Saskia Hiltemann, Maarten Ligtvoet, Marjan M. Weiss, Hanneke W. M. van Deutekom, Anne M. L. Jansen, Andrew P. Stubbs, Lisenka E. L. M. Vissers, Jeroen F. J. Laros, Esther van Enckevort, Daphne Stemkens, Peter A. C. ‘t Hoen, Jeroen A. M. Beliën, Mariëlle E. van Gijn, Morris A. Swertz
Published 2022-04-01

The diagnostic value of nasal microbiota and clinical parameters in a multi-parametric prediction model to differentiate bacterial versus viral infections in lower respiratory trac...

by Yunlei Li, Chantal B. van Houten, Stefan A. Boers, Ruud Jansen, Asi Cohen, Dan Engelhard, Robert Kraaij, Saskia D. Hiltemann, Jie Ju, David Fernández, Cristian Mankoc, Eva González, Wouter J. de Waal, Karin M. de Winter-de Groot, Tom F. W. Wolfs, Pieter Meijers, Bart Luijk, Jan Jelrik Oosterheert, Sanjay U. C. Sankatsing, Aik W. J. Bossink, Michal Stein, Adi Klein, Jalal Ashkar, Ellen Bamberger, Isaac Srugo, Majed Odeh, Yaniv Dotan, Olga Boico, Liat Etshtein, Meital Paz, Roy Navon, Tom Friedman, Einav Simon, Tanya M. Gottlieb, Ester Pri-Or, Gali Kronenfeld, Kfir Oved, Eran Eden, Andrew P. Stubbs, Louis J. Bont, John P. Hays
Published 2022-01-01

The diagnostic value of nasal microbiota and clinical parameters in a multi-parametric prediction model to differentiate bacterial versus viral infections in lower respiratory trac...

by Yunlei Li, Chantal B van Houten, Stefan A Boers, Ruud Jansen, Asi Cohen, Dan Engelhard, Robert Kraaij, Saskia D Hiltemann, Jie Ju, David Fernández, Cristian Mankoc, Eva González, Wouter J de Waal, Karin M de Winter-de Groot, Tom F W Wolfs, Pieter Meijers, Bart Luijk, Jan Jelrik Oosterheert, Sanjay U C Sankatsing, Aik W J Bossink, Michal Stein, Adi Klein, Jalal Ashkar, Ellen Bamberger, Isaac Srugo, Majed Odeh, Yaniv Dotan, Olga Boico, Liat Etshtein, Meital Paz, Roy Navon, Tom Friedman, Einav Simon, Tanya M Gottlieb, Ester Pri-Or, Gali Kronenfeld, Kfir Oved, Eran Eden, Andrew P Stubbs, Louis J Bont, John P Hays
Published 2022-01-01

Correction: A European Spectrum of Pharmacogenomic Biomarkers: Implications for Clinical Pharmacogenomics.

by Clint Mizzi, Eleni Dalabira, Judit Kumuthini, Nduna Dzimiri, Istvan Balogh, Nazli Başak, Ruwen Böhm, Joseph Borg, Paola Borgiani, Nada Bozina, Henrike Bruckmueller, Beata Burzynska, Angel Carracedo, Ingolf Cascorbi, Constantinos Deltas, Vita Dolzan, Anthony Fenech, Godfrey Grech, Vytautas Kasiulevicius, Ľudevít Kádaši, Vaidutis Kučinskas, Elza Khusnutdinova, Yiannis L Loukas, Milan Macek, Halyna Makukh, Ron Mathijssen, Konstantinos Mitropoulos, Christina Mitropoulou, Giuseppe Novelli, Ioanna Papantoni, Sonja Pavlovic, Giuseppe Saglio, Jadranka Sertić, Maja Stojiljkovic, Andrew P Stubbs, Alessio Squassina, Maria Torres, Marek Turnovec, Ron H van Schaik, Konstantinos Voskarides, Salma M Wakil, Anneke Werk, Maria Del Zompo, Branka Zukic, Theodora Katsila, Ming Ta Michael Lee, Alison Motsinger-Rief, Howard L Mc Leod, Peter J van der Spek, George P Patrinos
Published 2017-01-01

A European Spectrum of Pharmacogenomic Biomarkers: Implications for Clinical Pharmacogenomics.

by Clint Mizzi, Eleni Dalabira, Judit Kumuthini, Nduna Dzimiri, Istvan Balogh, Nazli Başak, Ruwen Böhm, Joseph Borg, Paola Borgiani, Nada Bozina, Henrike Bruckmueller, Beata Burzynska, Angel Carracedo, Ingolf Cascorbi, Constantinos Deltas, Vita Dolzan, Anthony Fenech, Godfrey Grech, Vytautas Kasiulevicius, Ľudevít Kádaši, Vaidutis Kučinskas, Elza Khusnutdinova, Yiannis L Loukas, Milan Macek, Halyna Makukh, Ron Mathijssen, Konstantinos Mitropoulos, Christina Mitropoulou, Giuseppe Novelli, Ioanna Papantoni, Sonja Pavlovic, Giuseppe Saglio, Jadranka Setric, Maja Stojiljkovic, Andrew P Stubbs, Alessio Squassina, Maria Torres, Marek Turnovec, Ron H van Schaik, Konstantinos Voskarides, Salma M Wakil, Anneke Werk, Maria Del Zompo, Branka Zukic, Theodora Katsila, Ming Ta Michael Lee, Alison Motsinger-Rief, Howard L Mc Leod, Peter J van der Spek, George P Patrinos
Published 2016-01-01