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Single-cell and spatial transcriptomics Sign in to save
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Papers 306
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CellGOSSIP (Cell-specific Graph Operation Strategy on Signaling of Intracellular Pathways) datasets2026 Zenodo (CERN European Organization for Nuclear Research) dataset Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Giulia Cesaro, James S. Nagai, Giacomo Baruzzo, Barbara Di Camillo, Ivan G. Costa
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CellGOSSIP (Cell-specific Graph Operation Strategy on Signaling of Intracellular Pathways) datasets2026 Zenodo (CERN European Organization for Nuclear Research) dataset Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Giulia Cesaro, James S. Nagai, Giacomo Baruzzo, Barbara Di Camillo, Ivan G. Costa
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Multimodal single-cell analysis uncovers transcription factor networks underlying T-cell aging2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Mina Shaigan, Deepika Puri, Giulia Fornero, René Krüger, Mara Steiger, Hannes Klump, +3 more
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scDecorr: feature decorrelation based representation learning enables self-supervised alignment of multiple single-cell experiments2026 Scientific Reports article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Ritabrata Sanyal, Hyojin Kim, Rafael Kramann, Sikander Hayat
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IntraTalker - Modelling Intracellular Signalling in Cellular Crosstalk2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Vanessa Klöker, James S. Nagai, Lampros Mavrommatis, Larissa Hermanns, Jacqueline Michelle Jara Moscoso, Mayra Ruiz, +2 more
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Benchmarking Imputation Methods for Single-Cell RNA Sequencing Data Using Peripheral Blood Mononuclear Cells from Acute Myocardial Infarction Patients0citations
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AtlasOT - The Fused Unbalanced Gromov-Wasserstein for Multimodal Integration of Disease Atlases2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Kai Peng, Mayra L. Ruiz Tejada Segura, Barthélémy Caron, Christoph Kuppe, James Shiniti Nagai, Ivan G. Costa
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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
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GeneSurfer enables transcriptome-wide exploration and annotation of gene co-expression modules in 3D spatial transcriptomics data2025 iScience article 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
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Image-guided alignment of consecutive multi-modal tissue slides2026 Cell Reports Methods article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Benedetta Manzato, Claudio Novella-Rausell, Gangqi Wang, Nina Ogrinc, Rosalie G. J. Rietjens, Marleen E Jacobs, +3 more
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Abstract 4969: Absolute quantification of immune cells in bulk DNA samples and liquid biopsies using digital PCR2020 Cancer Research conference-abstract Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics
Rogier J. Nell, Mieke Versluis, Willem H. Zoutman, Pieter A. van der Velden
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A clusterability measure for single-cell transcriptomics reveals phenotypic subpopulations2021 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Maria Mircea, Mazène Hochane, Xueying Fan, Susana M. Chuva de Sousa Lopes, Diego Garlaschelli, Stefan Semrau
0citations
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