Visual cohort comparison for spatial single-cell omics-data
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Thomas Höllt | Boudewijn P. F. Lelieveldt | Noel F. C. C. de Miranda | Antonios Somarakis | Marieke E. Ijsselsteijn | Sietse J. Luk | Boyd Kenkhuis | T. Höllt | B. Lelieveldt | A. Somarakis | Boyd Kenkhuis | N. Miranda | S. J. Luk | M. Ijsselsteijn | S. Luk
[1] Antoni Ribas,et al. Anti-programmed-death-receptor-1 treatment with pembrolizumab in ipilimumab-refractory advanced melanoma: a randomised dose-comparison cohort of a phase 1 trial , 2014, The Lancet.
[2] Salil S. Bhate,et al. Deep Profiling of Mouse Splenic Architecture with CODEX Multiplexed Imaging , 2017, Cell.
[3] Tamara Munzner,et al. A Multi-Level Typology of Abstract Visualization Tasks , 2013, IEEE Transactions on Visualization and Computer Graphics.
[4] Hans-Georg Pagendarm,et al. Comparative Visualization - Approaches and Examples , 1994 .
[5] Carolina Wählby,et al. In situ sequencing for RNA analysis in preserved tissue and cells , 2013, Nature Methods.
[6] Bernd Bodenmiller,et al. Automatic single cell segmentation on highly multiplexed tissue images , 2015, Cytometry. Part A : the journal of the International Society for Analytical Cytology.
[7] Eduard Gröller,et al. Bladder Runner: Visual Analytics for the Exploration of RT‐Induced Bladder Toxicity in a Cohort Study , 2018, Comput. Graph. Forum.
[8] Stephan Beck,et al. Making multi-omics data accessible to researchers , 2019, Scientific Data.
[9] P. Rousseeuw. Silhouettes: a graphical aid to the interpretation and validation of cluster analysis , 1987 .
[10] Charl P. Botha,et al. Comparative exploration of whole-body MR through locally rigid transforms , 2013, International Journal of Computer Assisted Radiology and Surgery.
[11] Jonathan C. Roberts,et al. Visual comparison for information visualization , 2011, Inf. Vis..
[12] Philip T. Kortum,et al. Determining what individual SUS scores mean: adding an adjective rating scale , 2009 .
[13] J. B. Brooke,et al. SUS: A 'Quick and Dirty' Usability Scale , 1996 .
[14] J. Buhmann,et al. Highly multiplexed imaging of tumor tissues with subcellular resolution by mass cytometry , 2014, Nature Methods.
[15] Markus Wagner,et al. KAVAGait: Knowledge-Assisted Visual Analytics for Clinical Gait Analysis , 2017, IEEE Transactions on Visualization and Computer Graphics.
[16] Pat Hanrahan,et al. Polaris: A System for Query, Analysis, and Visualization of Multidimensional Relational Databases , 2002, IEEE Trans. Vis. Comput. Graph..
[17] Daniel A. Keim,et al. v‐plots: Designing Hybrid Charts for the Comparative Analysis of Data Distributions , 2020, Comput. Graph. Forum.
[18] Ben Shneiderman,et al. Interactive Dynamics for Visual Analysis , 2012 .
[19] M. Mearin,et al. Mass Cytometry of the Human Mucosal Immune System Identifies Tissue- and Disease-Associated Immune Subsets. , 2016, Immunity.
[20] Klaus H. Hinrichs,et al. Interactive Comparative Visualization of Multimodal Brain Tumor Segmentation Data , 2013, VMV.
[21] Bernhard Preim,et al. Visual Analytics of Image-Centric Cohort Studies in Epidemiology , 2015, Visualization in Medicine and Life Sciences III.
[22] David Gotz,et al. Interactive Visual Patient Cohort Analysis , 2012 .
[23] Peter Kampstra,et al. Beanplot: A Boxplot Alternative for Visual Comparison of Distributions , 2008 .
[24] G. Elisabeta Marai,et al. RemBrain: Exploring Dynamic Biospatial Networks with Mosaic Matrices and Mirror Glyphs , 2017, Visualization and Data Analysis.
[25] Elmar Eisemann,et al. Comparative Visualization for Diffusion Tensor Imaging Group Study at Multiple Levels of Detail , 2017, VCBM.
[26] Cynthia A. Brewer,et al. ColorBrewer in Print: A Catalog of Color Schemes for Maps , 2003 .
[27] Alexander van Oudenaarden,et al. Spatially resolved transcriptomics and beyond , 2014, Nature Reviews Genetics.
[28] Brandy E. Olin,et al. CytoMAP: A Spatial Analysis Toolbox Reveals Features of Myeloid Cell Organization in Lymphoid Tissues , 2019, bioRxiv.
[29] Holger Moch,et al. The single-cell pathology landscape of breast cancer , 2020, Nature.
[30] Michael Angelo,et al. Mapping cell phenotypes in breast cancer , 2020 .
[31] Bernd Bodenmiller,et al. miCAT: A toolbox for analysis of cell phenotypes and interactions in multiplex image cytometry data , 2017, Nature Methods.
[32] P. Sorger,et al. Facetto: Combining Unsupervised and Supervised Learning for Hierarchical Phenotype Analysis in Multi-Channel Image Data , 2019, bioRxiv.
[33] Kun Zhang,et al. Fluorescent in situ sequencing (FISSEQ) of RNA for gene expression profiling in intact cells and tissues , 2015, Nature Protocols.
[34] Kirstie J. Whitaker,et al. Raincloud plots: a multi-platform tool for robust data visualization , 2018, PeerJ Prepr..
[35] Michalis Vazirgiannis,et al. Clustering validity assessment: finding the optimal partitioning of a data set , 2001, Proceedings 2001 IEEE International Conference on Data Mining.
[36] Edward R. Tufte,et al. Envisioning Information , 1990 .
[37] Carlos Eduardo Scheidegger,et al. Looks Good To Me: Visualizations As Sanity Checks , 2019, IEEE Transactions on Visualization and Computer Graphics.
[38] Jeremy L. Muhlich,et al. Interpretative guides for interacting with tissue atlas and digital pathology data using the Minerva browser , 2020 .
[39] Garry Nolan,et al. MIBI-TOF: A multiplexed imaging platform relates cellular phenotypes and tissue structure , 2019, Science Advances.
[40] Marieke E Ijsselsteijn,et al. Cancer immunophenotyping by seven‐colour multispectral imaging without tyramide signal amplification , 2018, The journal of pathology. Clinical research.
[41] Hanspeter Pfister,et al. Screenit: Visual Analysis of Cellular Screens , 2017, IEEE Transactions on Visualization and Computer Graphics.
[42] R. Mayeux. Biomarkers: Potential uses and limitations , 2004, NeuroRX.
[43] Elmar Eisemann,et al. Visual analysis of mass cytometry data by hierarchical stochastic neighbour embedding reveals rare cell types , 2017, Nature Communications.
[44] Carlos Caldas,et al. Imaging mass cytometry and multiplatform genomics define the phenogenomic landscape of breast cancer , 2020, Nature Cancer.
[45] J. Reiber,et al. Integrated Visual Analysis for Heterogeneous Datasets in Cohort Studies , 2010 .
[46] James C. Bezdek,et al. Cluster validation with generalized Dunn's indices , 1995, Proceedings 1995 Second New Zealand International Two-Stream Conference on Artificial Neural Networks and Expert Systems.
[47] Stefan Bruckner,et al. VAICo: Visual Analysis for Image Comparison , 2013, IEEE Transactions on Visualization and Computer Graphics.
[48] G. Elisabeta Marai,et al. GRACE: A Visual Comparison Framework for Integrated Spatial and Non-Spatial Geriatric Data , 2013, IEEE Transactions on Visualization and Computer Graphics.
[49] Karoly Szuhai,et al. PRAME and HLA Class I expression patterns make synovial sarcoma a suitable target for PRAME specific T-cell receptor gene therapy , 2018, Oncoimmunology.
[50] C. Newschaffer,et al. Causes of death in elderly prostate cancer patients and in a comparison nonprostate cancer cohort. , 2000, Journal of the National Cancer Institute.
[51] Michael Thompson,et al. A visual analytics approach to understanding care process variation and conformance , 2015, VAHC '15.
[52] Pat Hanrahan,et al. Polaris: a system for query, analysis and visualization of multi-dimensional relational databases , 2000, IEEE Symposium on Information Visualization 2000. INFOVIS 2000. Proceedings.
[53] Frits Koning,et al. ImaCytE: Visual Exploration of Cellular Micro-Environments for Imaging Mass Cytometry Data , 2021, IEEE Transactions on Visualization and Computer Graphics.
[54] Sarah A. Teichmann,et al. Faculty Opinions recommendation of histoCAT: analysis of cell phenotypes and interactions in multiplex image cytometry data. , 2017 .
[55] F. Markowetz,et al. Quantitative Image Analysis of Cellular Heterogeneity in Breast Tumors Complements Genomic Profiling , 2012, Science Translational Medicine.
[56] F S Fay,et al. Visualization of single RNA transcripts in situ. , 1998, Science.
[57] Masatoyo Nishizawa,et al. Clinical features of neuromyelitis optica in a large Japanese cohort: comparison between phenotypes , 2011, Journal of Neurology, Neurosurgery & Psychiatry.
[58] Ben Shneiderman,et al. Dynamic queries for visual information seeking , 1994, IEEE Software.