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A Comprehensive Workflow for Applying Single-Cell Clustering and Pseudotime Analysis to Flow Cytometry Data2020 The Journal of Immunology article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Janine E. Melsen, Monique M. van Ostaijen-ten Dam, Arjan C. Lankester, Marco W. Schilham, Erik B. van den Akker
56citations -
Pseudotime dynamics of T cells in pancreatic ductal adenocarcinoma inform distinct functional states within the regulatory and cytotoxic T cells2023 iScience article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Ashwin Jainarayanan, Nithishwer Mouroug-Anand, Edward H. Arbe-Barnes, Adam J. Bush, Rachael J. M. Bashford-Rogers, Adam Enver Frampton, +5 more
12citations -
Untangling biological factors influencing trajectory inference from single cell data2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Mohammed Charrout, Marcel J. T. Reinders, Ahmed Essam Mahfouz
2citations -
P-426 Comprehensive study of the endometrial early/mid secretory phase during natural cycles reveals conserved molecular dynamics involved in the window of implantation2024 Human Reproduction conference-abstract Immunology and Microbiology Reproductive System and Pregnancy
Filippo Zambelli, Sara Pietroforte, Berta Gayete-Mor, Marta Trullenque, María Jesús López, M Corral Garrido, +4 more
0citations -
O-300 Characterization of the transcriptional changes of human endometrium across the window of implantation during natural cycles reveals consistent dynamics2025 Human Reproduction conference-abstract Immunology and Microbiology Reproductive System and Pregnancy Open access
Irene Miguel-Escalada, Berta Gayete-Mor, Lucía Álvarez-González, Marta Trullenque, Anna Blázquez, J J Guillén-Quílez, +7 more
0citations -
Atherosclerotic plaque fibroblasts derive from adventitial and medial Pdgfra -lineage-positive cells and predominantly maintain fibroblast identity2026 Cardiovascular Research article Immunology and Microbiology Atherosclerosis and Cardiovascular Diseases Open access
Guanliang Li, S. Asselberghs, Baixue Yu, Cong Feng, Paul‐Lennard Mendez, Dimitri Kasakovski, +22 more
0citations -
Revealing the spatio-phenotypic patterning of cells in healthy and tumor tissues with mLSR-3D and STAPL-3D2021 Nature Biotechnology article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access cited by 4 patents
Ravian L. van Ineveld, Michiel Kleinnijenhuis, María Alieva, Sam de Blank, Mario Barrera Román, Esmée J. van Vliet, +9 more
34citations -
Human and murine fibroblast single-cell transcriptomics reveals fibroblast clusters are differentially affected by ageing and serum cholesterol2023 Cardiovascular Research article Immunology and Microbiology Atherosclerosis and Cardiovascular Diseases Open access
Kim van Kuijk, Ian R McCracken, Renée J. H. A. Tillie, S. Asselberghs, Dlzar Ali Kheder, Stan Muitjens, +22 more
48citations -
Single-cell transcriptomics in bone marrow delineates CD56dimGranzymeK+ subset as intermediate stage in NK cell differentiation2022 Frontiers in Immunology article Immunology and Microbiology Immune Cell Function and Interaction Open access
Janine E. Melsen, Monique M. van Ostaijen-ten Dam, Dorenda J. A. Schoorl, Pieter J. Schol, Daphne A. L. van den Homberg, Arjan C. Lankester, +2 more
17citations -
Time-independent disease state identification defines distinct trajectories determined by localised vs systemic inflammation in patients with early rheumatoid arthritis2025 Annals of the Rheumatic Diseases article Medicine Rheumatoid Arthritis Research and Therapies Open access
Nils Steinz, Tjardo Daniël Maarseveen, Erik B. van den Akker, Andrew Paul Cope, John Dudley Isaacs, Aaron R. Winkler, +3 more
13citations
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