ArticleComputer graphics forum : journal of the European Association for Computer Graphics2012
StratomeX: Visual Analysis of Large-Scale Heterogeneous Genomics Data for Cancer Subtype Characterization.
Article in Computer graphics forum : journal of the European Association for Computer Graphics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
32 citing papers in PubMed.
- Visual analytics framework for survival analysis and biomarker discovery from gene expression data.PloS one · 2026Article
- OmicsTIDE: interactive exploration of trends in multi-omics data.Bioinformatics advances · 2023Article
- OncoThreads: visualization of large-scale longitudinal cancer molecular data.Bioinformatics (Oxford, England) · 2021Article
- Intron retention is a robust marker of intertumoral heterogeneity in pancreatic ductal adenocarcinoma.NPJ genomic medicine · 2020Article
- Transcriptomic and proteomic intra-tumor heterogeneity of colorectal cancer varies depending on tumor location within the colorectum.PloS one · 2020Article
- Lineage: Visualizing Multivariate Clinical Data in Genealogy Graphs.IEEE transactions on visualization and computer graphics · 2019Article
- Visual Analytics of Genomic and Cancer Data: A Systematic Review.Cancer informatics · 2019Review
- Visual Pattern-Driven Exploration of Big Data.2018 International Symposium on Big Data Visual and Immersive Analytics (BDVA) : Konstanz, Germany, October 17 -19, 2018. IEEE International Symposium on Big Data Visual and Immersive Analytics (4th : 2018 : Konstanz, Germany) · 2018Article
- Juniper: A Tree+ Table Approach to Multivariate Graph Visualization.IEEE transactions on visualization and computer graphics · 2018Article
- Integrative analysis of the inter-tumoral heterogeneity of triple-negative breast cancer.Scientific reports · 2018Article
- COZOID: contact zone identifier for visual analysis of protein-protein interactions.BMC bioinformatics · 2018Article
- Exploring and visualizing multidimensional data in translational research platforms.Briefings in bioinformatics · 2017Article
- MediSyn: uncertainty-aware visualization of multiple biomedical datasets to support drug treatment selection.BMC bioinformatics · 2017Article
- Interactive visual exploration and refinement of cluster assignments.BMC bioinformatics · 2017Article
- Intertumoral Heterogeneity within Medulloblastoma Subgroups.Cancer cell · 2017Article
- A Review of Pathway-Based Analysis Tools That Visualize Genetic Variants.Frontiers in genetics · 2017Review
- From Visual Exploration to Storytelling and Back Again.Computer graphics forum : journal of the European Association for Computer Graphics · 2016Article
- User Interface Requirements for Web-Based Integrated Care Pathways: Evidence from the Evaluation of an Online Care Pathway Investigation Tool.Journal of medical systems · 2015Article
- Individual Motile CD4(+) T Cells Can Participate in Efficient Multikilling through Conjugation to Multiple Tumor Cells.Cancer immunology research · 2015Article
- XCluSim: a visual analytics tool for interactively comparing multiple clustering results of bioinformatics data.BMC bioinformatics · 2015Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors.
Funding
Abstract
Identification and characterization of cancer subtypes are important areas of research that are based on the integrated analysis of multiple heterogeneous genomics datasets. Since there are no tools supporting this process, much of this work is done using ad-hoc scripts and static plots, which is inefficient and limits visual exploration of the data. To address this, we have developed StratomeX, an integrative visualization tool that allows investigators to explore the relationships of candidate subtypes across multiple genomic data types such as gene expression, DNA methylation, or copy number data. StratomeX represents datasets as columns and subtypes as bricks in these columns. Ribbons between the columns connect bricks to show subtype relationships across datasets. Drill-down features enable detailed exploration. StratomeX provides insights into the functional and clinical implications of candidate subtypes by employing small multiples, which allow investigators to assess the effect of subtypes on molecular pathways or outcomes such as patient survival. As the configuration of viewing parameters in such a multi-dataset, multi-view scenario is complex, we propose a meta visualization and configuration interface for dataset dependencies and data-view relationships. StratomeX is developed in close collaboration with domain experts. We describe case studies that illustrate how investigators used the tool to explore subtypes in large datasets and demonstrate how they efficiently replicated findings from the literature and gained new insights into the data.
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.