ArticleGenome medicine2013
Computational purification of individual tumor gene expression profiles leads to significant improvements in prognostic prediction.
Article in Genome medicine, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 62 papers.
What it found
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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
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Who cites it
62 citing papers in PubMed.
- A guide to transcriptomic deconvolution in cancer.Nature reviews. Cancer · 2026Review
- scPER: A Rigorous Computational Approach to Determine Cellular Subtypes in Tumors Aligned With Cancer Phenotypes From Total RNA Sequencing.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Identification of GBP6 as a potential prognostic biomarker in esophageal carcinoma by integrated bioinformatics analysis and experiment validation.Annals of medicine · 2025Article
- Multi-omic-based classification for identifying optimal neoadjuvant treatment strategies for high-risk early-stage breast cancer.Science China. Life sciences · 2025Article
- Barcoded Orthotopic Patient-Derived Head & Neck Squamous Cell Carcinoma Model Demonstrating Clonal Stability and Maintenance of Cancer Driver Mutational Landscape.Cancer medicine · 2025Article
- Approaching the holistic transcriptome-convolution and deconvolution in transcriptomics.Briefings in bioinformatics · 2025Review
- Advances and applications in single-cell and spatial genomics.Science China. Life sciences · 2025Review
- ZBTB7A is a modulator of KDM5-driven transcriptional networks in basal breast cancer.Cell reports · 2024Article
- iSubGen generates integrative disease subtypes by pairwise similarity assessment.Cell reports methods · 2024Article
- High expression of LncRNA HOTAIR is a risk factor for temozolomide resistance in glioblastoma via activation of the miR-214/β-catenin/MGMT pathway.Scientific reports · 2024Article
- Development and validation of a gene expression-based Breast Cancer Purity Score.NPJ precision oncology · 2024Article
- A Comprehensive Overview of RNA Deconvolution Methods and Their Application.Molecules and cells · 2023Review
- Bioinformatics Tools for Bulk Gene Expression Deconvolution in Diabetic Retinopathy.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Deconvolution analysis of cell-type expression from bulk tissues by integrating with single-cell expression reference.Genetic epidemiology · 2022Article
- Gene interaction perturbation network deciphers a high-resolution taxonomy in colorectal cancer.eLife · 2022Article
- Estimation of tumor cell total mRNA expression in 15 cancer types predicts disease progression.Nature biotechnology · 2022Article
- FastMix: a versatile data integration pipeline for cell type-specific biomarker inference.Bioinformatics (Oxford, England) · 2022Article
- Deconvolution of tumor composition using partially available DNA methylation data.BMC bioinformatics · 2022Article
- Deconvolving Clinically Relevant Cellular Immune Cross-talk from Bulk Gene Expression Using CODEFACS and LIRICS Stratifies Patients with Melanoma to Anti-PD-1 Therapy.Cancer discovery · 2022Article
- Functional annotation of breast cancer risk loci: current progress and future directions.British journal of cancer · 2022Review
2 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Tumor heterogeneity is a limiting factor in cancer treatment and in the discovery of biomarkers to personalize it. We describe a computational purification tool, ISOpure, to directly address the effects of variable normal tissue contamination in clinical tumor specimens. ISOpure uses a set of tumor expression profiles and a panel of healthy tissue expression profiles to generate a purified cancer profile for each tumor sample and an estimate of the proportion of RNA originating from cancerous cells. Applying ISOpure before identifying gene signatures leads to significant improvements in the prediction of prognosis and other clinical variables in lung and prostate cancer.
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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.