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Mapping the glial transcriptome in Huntington’s disease using snRNAseq: Selective disruption of glial signatures across brain regions2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Neuroscience Genetic Neurodegenerative Diseases Open access
Sunniva M. K. Bøstrand, Luise A. Seeker, Nina-Lydia Kazakou, Nadine Bestard-Cuche, Sarah Jäkel, Boyd Kenkhuis, +5 more
1citations -
Spatial transcriptomics maps region and isoform specific brain alterations in mdx and mdx 4cv models of Duchenne muscular dystrophy2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Muscle Physiology and Disorders Open access
Qiao Mao, L. Heezen, Sharon I. de Vries, Nynke Verwoerd, Annemieke M Aartsma-Rus, Maaike van Putten, +2 more
0citations -
GeneSurfer Enables Transcriptome-wide Exploration and Functional Annotation of Gene Co-expression Modules in 3D Spatial Transcriptomics Data2024 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Chang Li, Julian Thijssen, Thomas Kroes, Ximaine R. van der Burg, Louise van der Weerd, Thomas Höllt, +1 more
0citations -
Cell-type, single-cell, and spatial signatures of brain-region specific splicing in postnatal development2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology RNA Research and Splicing Open access
Anoushka Joglekar, Andrey D. Prjibelski, Ahmed Essam Mahfouz, Paul G. Collier, Susan Lin, Anna Katharina Schlusche, +22 more
5citations -
Multimodal evidence for impaired glymphatic brain clearance as a mediator of “inflammaging” in schizophrenia – integrating insights from in vivo neuroimaging, omics, and post-mortem single nucleus-RNA-Seq data2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Neuroscience Cerebrospinal fluid and hydrocephalus Open access
Xiaolin Tan, Malte Simon, Daniel Rosebrock, Mariia M Firulyova, Doris Gruber-Schoffnegger, Marisa Fuerst, +7 more
0citations -
Multiscale reorganization of brain and behavior under large-scale electrical perturbation2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Neuroscience Functional Brain Connectivity Studies Open access
Sarah Kreuzer, Juergen Dukart, Justine Y. Hansen, Hoang Kim Nguyen, Michael Bentsch, Sophia Zieger, +9 more
0citations -
Transcriptional and cell type profiles of cortical brain regions showing ultradian cortisol rhythm dependent responses to emotional face stimulation2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Neuroscience Stress Responses and Cortisol Open access
Philippe C. Habets, Konstantinos Kalafatakis, Oleh Dzyubachyk, Steven J.A. van der Werff, Arlin Keo, Jamini Thakrar, +5 more
0citations -
An integrated single-cell RNA-seq atlas of the mouse hypothalamic paraventricular nucleus links transcriptional and functional types2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Jari B. Berkhout, Delaram Poormoghadam, Chun‐Xia Yi, Andries Kalsbeek, Onno Cornelis Meijer, Ahmed Essam Mahfouz
0citations -
Spatial patterning of transcriptional and regulatory programs in the primate subcortex2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Shu Dan, Meghan A. Turner, Michael DeBerardine, Lakme Caceres, Victor E. Nieto-Caballero, Jessica Schembri, +29 more
2citations -
Comparative transcriptomics reveals human-specific cortical features2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Nikolas L. Jorstad, Janet H. T. Song, David Exposito-Alonso, Hamsini Suresh, Fenna M. Krienen, Anna Marie Yanny, +35 more
24citations -
SIRV: Spatial inference of RNA velocity at the single-cell resolution2021 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Tamim Abdelaal, Laurens M. Grossouw, R. Jeroen Pasterkamp, Boudewijn P. F. Lelieveldt, Marcel J. T. Reinders, Ahmed Essam Mahfouz
12citations -
Transcriptomic signatures associated with regional cortical thickness changes in Parkinson’s disease2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Parkinson's Disease Mechanisms and Treatments Open access
Arlin Keo, Oleh Dzyubachyk, Jeroen van der Grond, Jacobus Johannes van Hilten, Marcel J. T. Reinders, Ahmed Essam Mahfouz
0citations -
Epigenetic neural glioblastoma enhances synaptic integration and predicts therapeutic vulnerability2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Glioma Diagnosis and Treatment Open access
Richard Drexler, Robin Khatri, Thomas Sauvigny, Malte Mohme, Cécile L. Maire, Alice Senta Ryba, +36 more
10citations -
Hao-Fountain syndrome protein USP7 controls neuronal differentiation via BCOR–ncPRC1.12025 Genes & Development preprint Biochemistry, Genetics and Molecular Biology Ubiquitin and proteasome pathways Open access
Joyce Wolf van der Meer, Axelle Larue, Jan A. VAN DER KNAAP, Gillian E. Chalkley, Ayestha Sijm, Leila Beikmohammadi, +14 more
6citations -
Evaluating exon-skipping therapies targeting the central nervous system in Duchenne muscular dystrophy using high-resolution spatial transcriptomics2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Muscle Physiology and Disorders Open access
Sharon I. de Vries, L. Heezen, Ophélie Vacca, Mathilde Doisy, Annemieke M Aartsma-Rus, Maaike van Putten, +3 more
1citations -
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, +92 more
3citations -
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 -
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 -
Heterogeneity and excitability of BRAF V600E -induced tumors is determined by PI3K/mTOR-signaling state and Trp53 -loss2021 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Glioma Diagnosis and Treatment Open access
Silvia Cases‐Cunillera, Karen M. J. van Loo, Julika Pitsch, Anne Quatraccioni, Sugirthan Sivalingam, Paolo Salomoni, +3 more
0citations -
Spatiotemporal heterogeneity of glioblastoma is dictated by microenvironmental interference2021 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Glioma Diagnosis and Treatment Open access
Vidhya Madapusi Ravi, Paulina Will, Jan Kueckelhaus, Na Sun, Kevin Joseph, Henrike Salié, +20 more
12citations -
Neuronal polyunsaturated fatty acids are protective in FTD/ALS2024 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Amyotrophic Lateral Sclerosis Research Open access
Ashling Giblin, Alexander J. Cammack, Nienke J. Blomberg, Alla Mikheenko, Mireia Carcolé, Rachel Coneys, +11 more
6citations -
Endothelial cannabinoid CB1 receptor deficiency reduces arterial inflammation and lipid uptake in response to atheroprone shear stress2024 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Cannabis and Cannabinoid Research Open access
Bingni Chen, Aishvaryaa Prabhu, Li Guo, Anna Cristina Kaltenbach, Yong Wang, George Shakir, +18 more
2citations