Spatial genomics reveals a high number and specific location of B cells in the pancreatic ductal adenocarcinoma microenvironment of long-term survivors von Aziz, Hosein M, Saida, Lawlaw, de Koning, Willem, Stubbs, Andrew P, Li, Yunlei, Sideras, Kostandinos, Palacios, Elena, Feliu, Jaime, Mendiola, Marta, van Eijck, Casper H J, Mustafa, Dana A M

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Comparison of Illumina versus Nanopore 16S rRNA Gene Sequencing of the Human Nasal Microbiota von Heikema, Astrid P, Horst-Kreft, Deborah, Boers, Stefan A, Jansen, Rick, Hiltemann, Saskia D, de Koning, Willem, Kraaij, Robert, de Ridder, Maria A J, van Houten, Chantal B, Bont, Louis J, Stubbs, Andrew P, Hays, John P

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WeFaceNano: a user-friendly pipeline for complete ONT sequence assembly and detection of antibiotic resistance in multi-plasmid bacterial isolates von Heikema, Astrid P, Jansen, Rick, Hiltemann, Saskia D, Hays, John P, Stubbs, Andrew P

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A Decentralized Kidney Transplant Biopsy Classifier for Transplant Rejection Developed Using Genes of the Banff-Human Organ Transplant Panel von van Baardwijk, Myrthe, Cristoferi, Iacopo, Ju, Jie, Varol, Hilal, Minnee, Robert C, Reinders, Marlies E J, Li, Yunlei, Stubbs, Andrew P, Clahsen-van Groningen, Marian C

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

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NanoGalaxy: Nanopore long-read sequencing data analysis in Galaxy von de Koning, Willem, Miladi, Milad, Hiltemann, Saskia, Heikema, Astrid, Hays, John P, Flemming, Stephan, van den Beek, Marius, Mustafa, Dana A, Backofen, Rolf, Grüning, Björn, Stubbs, Andrew P

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Identification, Validation, and Utilization of Immune Cells in Pancreatic Ductal Adenocarcinoma Based on Marker Genes von de Koning, Willem, Latifi, Diba, Li, Yunlei, van Eijck, Casper H J, Stubbs, Andrew P, Mustafa, Dana A M

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Evaluation of the Antigen-Experienced B-Cell Receptor Repertoire in Healthy Children and Adults von IJspeert, Hanna, van Schouwenburg, Pauline A, van Zessen, David, Pico-Knijnenburg, Ingrid, Driessen, Gertjan J, Stubbs, Andrew P, van der Burg, Mirjam

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Deciphering imprints of impaired memory B-cell maturation in germinal centers of three patients with common variable immunodeficiency von van Schouwenburg, Pauline, Unger, Susanne, Payne, Kathryn J., Kaiser, Fabian M. P., Pico-Knijnenburg, Ingrid, Pfeiffer, Jens, Hausmann, Oliver, Friedmann, David, Erbel, Michelle, Seidl, Maximilian, van Zessen, David, Stubbs, Andrew P., van der Burg, Mirjam, Warnatz, Klaus

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Antigen receptor sequencing of paired bone marrow samples shows homogeneous distribution of acute lymphoblastic leukemia subclones von Theunissen, Prisca M J, van Zessen, David, Stubbs, Andrew P, Faham, Malek, Zwaan, Christian M, van Dongen, Jacques J M, Van Der Velden, Vincent H J

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Identification of CVID Patients With Defects in Immune Repertoire Formation or Specification von van Schouwenburg, Pauline A, IJspeert, Hanna, Pico-Knijnenburg, Ingrid, Dalm, Virgil A S H, van Hagen, P Martin, van Zessen, David, Stubbs, Andrew P, Patel, Smita Y, van der Burg, Mirjam

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XLF deficiency results in reduced N-nucleotide addition during V(D)J recombination von IJspeert, Hanna, Rozmus, Jacob, Schwarz, Klaus, Warren, René L., van Zessen, David, Holt, Robert A., Pico-Knijnenburg, Ingrid, Simons, Erik, Jerchel, Isabel, Wawer, Angela, Lorenz, Myriam, Patıroğlu, Turkan, Akar, Himmet Haluk, Leite, Ricardo, Verkaik, Nicole S., Stubbs, Andrew P., van Gent, Dik C., van Dongen, Jacques J.M., van der Burg, Mirjam

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Robust deep learning model for prognostic stratification of pancreatic ductal adenocarcinoma patients von Ju, Jie, Wismans, Leonoor V., Mustafa, Dana A.M., Reinders, Marcel J.T., van Eijck, Casper H.J., Stubbs, Andrew P., Li, Yunlei

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Automated Selection of Hotspots (ASH): enhanced automated segmentation and adaptive step finding for Ki67 hotspot detection in adrenal cortical cancer von Lu, Hao, Papathomas, Thomas G, van Zessen, David, Palli, Ivo, de Krijger, Ronald R, van der Spek, Peter J, Dinjens, Winand N M, Stubbs, Andrew P

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Mobilization of hepatic mesenchymal stem cells from human liver grafts von Pan, Qiuwei, Fouraschen, Suomi M. G., Kaya, Fatima S. F. Aerts, Verstegen, Monique M., Pescatori, Mario, Stubbs, Andrew P., van IJcken, Wilfred, van der Sloot, Antoine, Smits, Ron, Kwekkeboom, Jaap, Metselaar, Herold J., Kazemier, Geert, de Jonge, Jeroen, Tilanus, Hugo W., Wagemaker, Gerard, Janssen, Harry L. A., van der Laan, Luc J. W.

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

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IL-7 Receptor Mutations and Steroid Resistance in Pediatric T cell Acute Lymphoblastic Leukemia: A Genome Sequencing Study von Li, Yunlei, Buijs-Gladdines, Jessica G C A M, Canté-Barrett, Kirsten, Stubbs, Andrew P, Vroegindeweij, Eric M, Smits, Willem K, van Marion, Ronald, Dinjens, Winand N M, Horstmann, Martin, Kuiper, Roland P, Buijsman, Rogier C, Zaman, Guido J R, van der Spek, Peter J, Pieters, Rob, Meijerink, Jules P P

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Strategies for B-cell receptor repertoire analysis in primary immunodeficiencies: from severe combined immunodeficiency to common variable immunodeficiency von IJspeert, Hanna, Wentink, Marjolein, van Zessen, David, Driessen, Gertjan J, Dalm, Virgil A S H, van Hagen, Martin P, Pico-Knijnenburg, Ingrid, Simons, Erik J, van Dongen, Jacques J M, Stubbs, Andrew P, van der Burg, Mirjam

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Transcriptome Analysis of Infected and Bystander Type 2 Alveolar Epithelial Cells during Influenza A Virus Infection Reveals In Vivo Wnt Pathway Downregulation von Hancock, Aidan S, Stairiker, Christopher J, Boesteanu, Alina C, Monzón-Casanova, Elisa, Lukasiak, Sebastian, Mueller, Yvonne M, Stubbs, Andrew P, García-Sastre, Adolfo, Turner, Martin, Katsikis, Peter D

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FAIR data retrieval for sensitive clinical research data in Galaxy von Ouwerkerk, Jasper, Rasche, Helena, Spalding, John D, Hiltemann, Saskia, Stubbs, Andrew P

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