SynthesisNucleic acids research2010
Meta-analysis of cancer gene expression signatures reveals new cancer genes, SAGE tags and tumor associated regions of co-regulation.
Synthesis in Nucleic acids research, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed.
- Implications of canonical histone H3.1 and histone variant H3.3 in cancer.Open biology · 2025Review
- Transcriptome profiling and analysis of patients with esophageal squamous cell carcinoma from Kazakhstan.Frontiers in genetics · 2024Article
- Knockdown of ribosomal protein S15A inhibits proliferation of breast cancer cells through induction of apoptosis in vitro.Cytotechnology · 2018Article
- Replication-dependent histone isoforms: a new source of complexity in chromatin structure and function.Nucleic acids research · 2018Review
- Identification of a gene signature for discriminating metastatic from primary melanoma using a molecular interaction network approach.Scientific reports · 2017Article
- Histone isoform H2A1H promotes attainment of distinct physiological states by altering chromatin dynamics.Epigenetics & chromatin · 2017Article
- NPY1R is a novel peripheral blood marker predictive of metastasis and prognosis in breast cancer patients.Oncology letters · 2015Article
- Ribosomal protein S15A augments human osteosarcoma cell proliferation in vitro.Cancer biotherapy & radiopharmaceuticals · 2014Article
- A rapid nested polymerase chain reaction method to detect circulating cancer cells in breast cancer patients using multiple marker genes.Oncology letters · 2014Article
- Hypoxia and the extracellular matrix: drivers of tumour metastasis.Nature reviews. Cancer · 2014Review
- Co-development of diagnostic vectors to support targeted therapies and theranostics: essential tools in personalized cancer therapy.Frontiers in oncology · 2014Review
- Affymetrix GeneChip microarray preprocessing for multivariate analyses.Briefings in bioinformatics · 2012Article
- Article
- Cliques for the identification of gene signatures for colorectal cancer across population.BMC systems biology · 2012Article
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Cancer is among the major causes of human death and its mechanism(s) are not fully understood. We applied a novel meta-analysis approach to multiple sets of merged serial analysis of gene expression and microarray cancer data in order to analyze transcriptome alterations in human cancer. Our methodology, which we denote 'COgnate Gene Expression patterNing in tumours' (COGENT), unmasked numerous genes that were differentially expressed in multiple cancers. COGENT detected well-known tumor-associated (TA) genes such as TP53, EGFR and VEGF, as well as many multi-cancer, but not-yet-tumor-associated genes. In addition, we identified 81 co-regulated regions on the human genome (RIDGEs) by using expression data from all cancers. Some RIDGEs (28%) consist of paralog genes while another subset (30%) are specifically dysregulated in tumors but not in normal tissues. Furthermore, a significant number of RIDGEs are associated with GC-rich regions on the genome. All assembled data is freely available online (www.oncoreveal.org) as a tool implementing COGENT analysis of multi-cancer genes and RIDGEs. These findings engender a deeper understanding of cancer biology by demonstrating the existence of a pool of under-studied multi-cancer genes and by highlighting the cancer-specificity of some TA-RIDGEs.
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