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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 -
A Layered Microcircuit Model of Somatosensory Cortex with Three Interneuron Types and Cell-Type-Specific Short-Term Plasticity2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Neuroscience Neural dynamics and brain function Open access
Han-Jia Jiang, Guanxiao Qi, Renato Duarte, Dirk Feldmeyer, Sacha Jennifer van Albada
8citations -
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 -
Predicting cell-type-specific exon inclusion in the human brain reveals more complex splicing mechanisms in neurons than glia2024 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology RNA Research and Splicing Open access
Lieke Michielsen, Justine Hsu, Anoushka Joglekar, Natan Belchikov, Marcel J. T. Reinders, Hagen Tilgner, +1 more
4citations -
NS-Forest: A machine learning method for the objective identification of minimum marker gene combinations for cell type determination from single cell RNA sequencing2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Brian D. Aevermann, Yun Zhang, Mark A. Novotny, Trygve E. Bakken, Jeremy A. Miller, Rebecca D. Hodge, +3 more
12citations -
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 -
A machine learning method for the discovery of minimum marker gene combinations for cell type identification from single-cell RNA sequencing2021 Genome Research preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Brian D. Aevermann, Yun Zhang, Mark A. Novotny, Mohamed Keshk, Trygve E. Bakken, Jeremy A. Miller, +4 more
96citations -
Pyramidal cell types drive functionally distinct cortical activity patterns during decision-making2021 bioRxiv (Cold Spring Harbor Laboratory) preprint Neuroscience Neural dynamics and brain function Open access
Simon Musall, Xiaonan Richard Sun, Hemanth Mohan, Xu An, Steven Gluf, Shu-Jing Li, +6 more
26citations -
Dyr726, a brain-penetrant inhibitor of PI3Kα, Type III receptor tyrosine kinases, and WNT signaling2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology PI3K/AKT/mTOR signaling in cancer Open access
Vasudha Tandon, Alessandra Fistrovich, Joaquina Nogales, Febe Ferro, Samantha Rokey, Carly R. Cabel, +25 more
0citations -
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 -
Building the blood-brain barrier: a scalable self-assembling 3D model of the brain microvasculature under unidirectional flow2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Neuroscience Barrier Structure and Function Studies Open access
J. Admiraal, Promise Emeh, Marleen Bokkers, Thomas Olivier, Karla C. S. Queiroz, Todd P. Burton, +1 more
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, +28 more
2citations -
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 -
NOTCH3 active immunotherapy reduces NOTCH3 deposition in brain capillaries in a CADASIL mouse model2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Cerebrovascular and genetic disorders Open access
Daniel V. Oliveira, Kirsten Coupland, Shaobo Jin, Francesca Del Gaudio, Sailan Wang, Rhys Fox, +6 more
0citations -
Tau phosphorylated at serine 356 is associated with Alzheimer’s disease pathology and can be lowered in mouse and human brain tissue using the NUAK inhibitor WZ40032023 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Alzheimer's disease research and treatments Open access
Lewis W. Taylor, Elizabeth M. Simzer, Claire Pimblett, Oscar T. T. Lacey-Solymar, Robert I. McGeachan, Jamie L. Rose, +10 more
2citations -
Associations between methylation age and brain age in late adolescence2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Epigenetics and DNA Methylation Open access
Faye Sanders, Vilte Baltramonaityte, Gary J Donohoe, Neil M Davies, Erin C. Dunn, Charlotte A. M. Cecil, +1 more
6citations