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Cytokine and chemokine gene expression in patients with clinically suspect arthralgia; a longitudinal study during progression to inflammatory arthritis or non-progression
Judith W Heutz, Cleo Rogier, Ellis Niemantsverdriet, Susan J. F. van den Eeden, Pascal H P de Jong, Erik Lubberts, +2 more
1citations -
Optimizing the IMQ model: Deep characterization of the human TLR7 response for early drug development2024 Research Square preprint Immunology and Microbiology Immune Response and Inflammation Open access
Juliette A. van den Noort, Salma Assil, Micha N. Ronner, Michelle Osse, Iris Pot, Yalçin Yavuz, +7 more
0citations -
Human Neocortical Glutamatergic Neurons Revealed Through Multimodal Profiling2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Rachel A. Dalley, Sarah Walling-Bell, Jeremy A. Miller, Femke Waleboer, Julian Thijssen, Audrey McCutcheon, +88 more
3citations -
Utilizing gene co-expression networks with the rat kidney TXG-MAPr tool to enhance safety assessment, biomarker identification and human translation2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Steven J. Kunnen, Giulia Callegaro, Jeffrey J. Sutherland, Panuwat Trairatphisan, Hugo W van Kessel, Lukas S. Wijaya, +11 more
1citations -
Reference-based cell type matching of spatial transcriptomics data2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Yun Zhang, Jeremy A. Miller, Jeongbin Park, Boudewijn P. F. Lelieveldt, Brian Long, Tamim Abdelaal, +12 more
5citations -
Novel Type 2-high gene clusters associated with corticosteroid sensitivity in COPD2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Chronic Obstructive Pulmonary Disease (COPD) Research Open access
Alen Faiz, Stelios Pavlidis, C-H.S. Kuo, Anthony Rowe, Pieter Sicco Hiemstra, Wim Timens, +9 more
2citations -
SpaceWalker: Interactive Gradient Exploration for Spatial Transcriptomics Data2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Chang Li, Julian Thijssen, Tamim Abdelaal, Thomas Höllt, Boudewijn P. F. Lelieveldt
2citations -
A Network-based Transcriptomic Landscape of HepG2 cells to Uncover Causal Gene Cytotoxicity Interactions Underlying Drug-Induced Liver Injury2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Pharmacology, Toxicology and Pharmaceutics Drug-Induced Hepatotoxicity and Protection Open access
Lukas S. Wijaya, Attila Gábor, Iris Pot, Luca van de Have, Julio Sáez-Rodríguez, James L. Stevens, +3 more
1citations -
Evolution of cellular diversity in primary motor cortex of human, marmoset monkey, and mouse2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Trygve E. Bakken, Nikolas L. Jorstad, Qiwen Hu, Blue B. Lake, Wei Tian, Brian E. Kalmbach, +94 more
89citations -
Inferring spatially transient gene expression pattern from spatial transcriptomic studies2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Jan Kueckelhaus, Jasmin von Ehr, Vidhya Madapusi Ravi, Paulina Will, Kevin Joseph, Jürgen Beck, +4 more
53citations -
Yeast9: A Consensus Yeast Metabolic Model Enables Quantitative Analysis of Cellular Metabolism By Incorporating Big Data2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Microbial Metabolic Engineering and Bioproduction Open access
Chengyu Zhang, Feiran Li, Cheng Wei Quan Eiden, William Taussig Scott, Ulf W. Liebal, Lars M. Blank, +8 more
8citations -
SpaGE: Spatial Gene Enhancement using scRNA-seq2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access cited by 4 patents
Tamim Abdelaal, Soufiane M. C. Mourragui, Ahmed Essam Mahfouz, Marcel J. T. Reinders
7citations -
Exploring cellular changes in ruptured human quadriceps tendons at single-cell resolution2024 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Tendon Structure and Treatment Open access
Jolet Y. Mimpen, Mathew J. Baldwin, Claudia Paul, Lorenzo Ramos‐Mucci, Alina Kurjan, C. Cohen, +9 more
5citations -
Cytosplore-Transcriptomics: a scalable inter-active framework for single-cell RNA sequencing data analysis2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Tamim Abdelaal, Jeroen Eggermont, Thomas Höllt, Ahmed Essam Mahfouz, Marcel J. T. Reinders, Boudewijn P. F. Lelieveldt
2citations -
Spatial Transcriptomic Characterization of Novel Pathologic Niches in IPF2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Interstitial Lung Diseases and Idiopathic Pulmonary Fibrosis Open access
Christoph H. Mayr, Diana Santacruz, Sebastian Jarosch, Charlotte Lempp, Lavinia Neubert, Berenice Rath, +7 more
1citations -
Blood N -glycomic signature of fibrosis in MASLD shows low levels of global α2,3-sialylation2024 medRxiv preprint Biochemistry, Genetics and Molecular Biology Glycosylation and Glycoproteins Research Open access
Tamás Pongrácz, Bart J. Verwer, Anne Linde Mak, Oleg A. Mayboroda, Simone Nicolardi, Marco René Bladergroen, +9 more
1citations -
Genetic modulation of immune gene co-expression in the aged mouse hippocampus by the Apbb1ip locus2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Neuroscience Neuroinflammation and Neurodegeneration Mechanisms Open access
James E. Tomkins, Aditi Methi, Gerard A. Bouland, Birte Doludda, Kitty B. Murphy, Jeremy A. Miller, +2 more
0citations -
An integrated multimodal pan-organ atlas of the female reproductive system across the lifespan contextualises gynaecological pathologies2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Celeste E Cohen, Antonio Párraga-Leo, Leticia Rodríguez-Montes, Christina E. Kim, Marie Moullet, Ana Paredes, +49 more
0citations -
Multimodal analysis unveils tumor microenvironment heterogeneity linked to immune activity and evasion2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Cancer Immunotherapy and Biomarkers Open access
Óscar Lapuente-Santana, Gregor Sturm, Markus Außerhofer, Constantin Zackl, Maria Zopoglou, Nicholas McGranahan, +5 more
0citations