Tag Archives: Cancer

Turning big data into cancer research insights with the Genomic Data Commons

Lab Genomic data gives researchers enormous power to uncover how genomic changes drive cancer formation, metastasis, drug response, and recurrence. However, one of the challenges of identifying genetic abnormalities is that the cancer “drivers,” which promote tumor growth, naturally occur in a long-tail distribution. This means that many patients with cancer have causal genomic changes that only occur in a very small percentage of cancers. Characterizing these rare events requires big data.

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Top TCGA Analysis Tools

Top 5 tools for TCGA data analysis

The Cancer Genome Atlas, better known as the TCGA, began as a small pilot and has grown to become a precious resource for researchers and physicians in the field of cancer research. TCGA currently covers 33 cancer types, and harbors over 20,000 individual tumor samples, each contains a wealth of genetic, proteomic, histologic and clinical data. Exploring such unprecedented amounts of data presents promising avenues for cancer research, yet mining it without comprehensive computational skills is an almost impossible task. Luckily, several tools have recently been developed to aid ‘non-programmer’ researchers in exploring and analyzing TCGA data with ease and elegance.

Here are some of the best and most innovative tools to mine TCGA data:

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Network-of-Cancer-Genes

On the line: Interview with the three musketeers behind the NCG tool

 This time we are on the line with Giovanni Marco Dall’Olio, Thanos Mourkis and Omer An bioinformaticians who developed the Network of Cancer Genes.

NCG is a web resource to analyze duplicability, orthology, and network properties of cancer genes. Manually curated, it introduces a more robust procedure to extract genes from published cancer mutational screenings. NCG wasn’t just developed to scratch a curiosity itch. In fact, Omer utilized this powerful tool to uncover fascinating biological insights throughout his research.

Continue reading On the line: Interview with the three musketeers behind the NCG tool