Cancer driver genes
Comparison of different functional prediction scores using a gene-based permutation model for identifying cancer driver genes
... of cancer sam- ples to identify potential cancer driver ...lung cancer data sets using seven different functional prediction scores (CADD, DANN, Fathmm-MKL coding, Fathmm-MKL noncod- ing, ...
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TOPDRIVER: the novel identifier of cancer driver genes in Gastric cancer and Melanoma
... of Genes and Genomes (KEGG), Reactome, Mutual Exclusivity Modules in Cancer (MEMo), Pathway Interaction Database (PID), The Cancer Genomics Cloud (CGC), and Pan-Cancer datasets to prioritize ...
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MECoRank: cancer driver genes discovery simultaneously evaluating the impact of SNVs and differential expression on transcriptional networks
... of cancer, we have recognized that the development and progression of can- cer can be promoted by driver mutations or gene per- turbing signaling, regulatory or metabolic pathways ...potential driver ...
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Pharmacogenomic analysis of patient derived tumor cells in gynecologic cancers
... Tumor cell isolates were cultured under serum-free con- ditions for generally 2 to 4 weeks with epidermal growth factor (EGF) and basic fibroblast growth factor (FGF) sup- plements for enrichment of tumor initiating cell ...
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Identifying driver genes involving gene dysregulated expression, tissue-specific expression and gene-gene network
... overcome cancer is to identify the cancer driver genes which can promote cancer evolvement and de- ...since cancer is hetero- geneous and there are too much irrelevant passenger ...
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Validation of a multi-omics strategy for prioritizing personalized candidate driver genes
... of cancer driver genes, especially in a patient-specific ...mutation-driver genes in a hyper-mutated hepatocellular carcinoma patient using a multi-omics ...prioritized driver ...
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iCAGES: integrated CAncer GEnome Score for comprehensively prioritizing driver genes in personal cancer genomes
... atic cancer mutations and identified through whole genome-wide sequencing studies; second, all mutations should be recurrent mutations (occurrence greater than or equal to 4); third, all mutations should have a ...
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Directional association test reveals high-quality putative cancer driver biomarkers including noncoding RNAs
... curated cancer genes on FAN- TOM5 human ...curated cancer genes were obtained from Cancer Gene Census [18] in COSMIC Release ...true cancer driver genes and ...
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Identification of Candidate Driver Genes in Common Focal Chromosomal Aberrations of Microsatellite Stable Colorectal Cancer
... of genes, hence simplifying the identification of driver genes ...novel cancer driver genes with potential therapeutic and prognostic value in several cancer types ...
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Driver Oncogenes but Not as We Know Them: Targetable Fusion Genes in Breast Cancer.
... breast cancer genomes and transcriptomes has heralded an era where this precision medicine approach can be much better implemented, one particular mutation type, intergenic fusions, ...distinct genes, have ...
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PanDrugs: a novel method to prioritize anticancer drug treatments according to individual genomic data
... from cancer genome data is a major challenge in personalized cancer ...as: cancer type; stage; pa- tient status; and/or the presence of prognostic and predictive ...However, cancer treatment ...
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Integrated systems analysis of salivary gland transcriptomics reveals key molecular networks in Sjögren’s syndrome
... the genes from the LCC onto the human interac- tome and employed key driver analysis (KDA), an algorithm that mathematically identifies causal modula- tors of the regulatory state of functionally relevant ...
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Association of a novel point mutation in MSH2 gene with familial multiple primary cancers
... altered genes across 13 major cancer ...altered genes in RPC and SIC. Genes are red or blue colored according to whether their mutations were re- current in the TCGA Pan-Cancer ...
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Integrated genomic characterization of cancer genes in glioma
... 268 driver genes were significantly correlated to clinical outcomes of glioma ...two driver genes, MSH6 and RUNX1T1, drew our attention, as they have been repeatedly reported to be involved in ...
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Discovering cancer genes by integrating network and functional properties
... of genes could be a result of a bias in the PPI network, as it could be argued that these genes received more detailed investigations by the research ...for cancer genes is likely to be a ...
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The Network of Cancer Genes (NCG): a comprehensive catalogue of known and candidate cancer genes from cancer sequencing screens
... and cancer background mutation rate was applied, thus leading to possible false-positive ...of cancer donors and the number of cancer genes ...predict cancer genes is higher for ...
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Splicing dysregulation as a driver of breast cancer.
... Beije N, Sieuwerts AM, Kraan J, Van NM, Onstenk W, Vitale SR, van der Vlugt-Daane M, Dirix LY, Brouwer A, Hamberg P, et al. 2018 Estrogen receptor mutations and splice variants determined in liquid biopsies from ...
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Finding driver pathways in cancer: models and algorithms
... of driver pathways possible ...of cancer [6,12]. In particular, we assume that an important cancer pathway should be perturbed in a large number of ...a driver pathway will have high coverage: ...
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Combinations of newly confirmed Glioma-Associated loci link regions on chromosomes 1 and 9 to increased disease risk
... to genes that contribute to the same biological process, and that population discordance of SNPs can be par- tially resolved by evaluating processes rather than ...five genes, each appearing in two or more ...
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Utilizing cell line-derived organoids to evaluate the efficacy of a novel LIFR-inhibitor, EC359 in targeting pancreatic tumor stroma
... Pancreatic cancer (FC1245, GFP expressing) and stellate (ImPaSC) cells were co-cultured together and subsequently seeded in matrigel (Figure ...expressing cancer cells (Figure 1C, ...
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