Cancer Genomics Browser – New Tool for Research that Combines Clinical and Genomic Data
Posted Mar 30 2009 3:50pm
The browser contains publicly available cancer genomic data. Clinical trials and cancer genomics research are also benefiting with using on a confidential basis. It is an extension of the UCSC Genome Browser, which is averaging a million page requests a week. I sure wished my blog was that busy.
The Cancer Genomics Browser is able to integrate genomic and clinical databases, something has has been a chore to bring together on one screen in a useable format. The two are shown side by side on the screen.
"Large clinical trials that include detailed molecular profiling of patient samples generate a really big mountain of data. Actually, it is more like several big mountains of data," Lenburg said. "The browser creates a way of organizing all this data, and all these different types of data, into a single unified picture."
“The browser is a suite of web-based tools to integrate, visualize and analyze cancer genomics and clinical data. This browser displays a whole-genome and pathway-oriented view of genome-wide experimental measurements for individual and sets of samples alongside their associated clinical information.”
“This site hosts the public UCSC Cancer Genomics Browser. The public site contains a rapidly growing body of publicly available cancer genomic data, including 12 published studies, datasets from the TCGA consortium, and others.”
Now that the platforms is here, what’s left is to add some state-of-the-art algorithms to get the most out of the data. With clinical trials of any size, the data collected and analyzed is huge, so having a tool that can organize and bring to a useable screen format will certainly be a help. BD
A Cancer Genomics Browser developed by researchers at the University of California, Santa Cruz, provides a new way to visualize and analyze data from studies aimed at improving cancer treatment by unraveling the complex genetic roots of the disease.
The browser consists of a suite of web-based tools designed to help researchers find patterns in the huge amounts of clinical and genomic data being gathered in large-scale cancer studies. Medical researchers hope to identify genetic signatures and other " biomarkers" in cancer cells that can be used to predict how individual patients will respond to different therapies throughout the course of their treatment.
"What is amazing about the browser is that it allows us to combine complex molecular data and clinical observations, and provides insights into how we can truly improve treatment and outcomes," said Esserman, director of the Carol Franc Buck Breast Care Center and associate director of the Breast Oncology Program at the Helen Diller Family Comprehensive Cancer Center at UCSF.
Many different types of genomic changes can have clinical significance, including insertions, deletions, and other changes in the DNA sequence, such as changes in the number of copies of a gene. Moreover, microarrays and high-throughput methods for measuring proteins make it possible to see how these genomic alterations interfere with the cell's normal workings.