Featured Research

from universities, journals, and other organizations

Scientists Find Cancer's Genetic Core: 67 Genes Universally Activated In Human Cancer

Date:
June 9, 2004
Source:
University Of Michigan Health System
Summary:
Of the approximately 35,000 genes in the human genome, scientists at the University of Michigan's Comprehensive Cancer Center have found that activity from just 67 is required to change normal human cells into cancer.

ANN ARBOR, Mich. -- Of the approximately 35,000 genes in the human genome, scientists at the University of Michigan’s Comprehensive Cancer Center have found that activity from just 67 is required to change normal human cells into cancer.

These 67 genes constitute what U-M scientists call cancer’s meta-signature – a core set of essential genes, which somehow triggers the transformation from normal cells to cells that are neoplastic, or growing abnormally. A list of these genes, and a description of a new database used to identify them, will be published June 7 in the online edition of the Proceedings of the National Academy of Sciences (PNAS).

“We used a statistical analysis method called comparative meta-profiling to examine 40 datasets from other investigators showing specific patterns of genetic activity associated with one of 12 types of cancer,” says Daniel Rhodes, the paper’s first author and a student in the U-M Medical School’s Medical Scientist Training Program and Bioinformatics Graduate Program. “The result was a common transcriptional profile with 67 activated genes present in nearly all cancerous tissue samples in the study, regardless of their tissue of origin.”

“This paper is the first to report common patterns of genetic activity across multiple cancer microarray datasets from different investigators,” says Arul M. Chinnaiyan, M.D., Ph.D., an associate professor of pathology and urology in the U-M Medical School, who directed the study. “These genes and their associated proteins are the molecular components that make different types of cancer more similar to each other than to normal tissue. Since these genes appear to be involved in so many types of cancer, they are prime targets for new cancer-fighting drugs.”

Chinnaiyan, Rhodes and colleagues also identified another 69-gene meta-signature showing a common pattern of genetic activity in aggressive, invasive undifferentiated cancers. The pattern is different from the one found in well-differentiated cancers that grow slowly and are easier to control.

To test the validity of the meta-signatures, U-M researchers looked for the same patterns of genetic activity in 12 other gene expression databases, which were not available when the study began. “In seven of nine datasets, including three from new types of cancer, our first meta-signature significantly discriminated between cancer and respective normal tissue,” Rhodes says. “In three of five datasets, the second meta-signature significantly discriminated between samples from high- and low-grade cancers.”

ONCOMINE, the cancer microarray database used in the study, was developed by Chinnaiyan, Rhodes and colleagues in the U-M Medical School, Johns Hopkins University School of Medicine, and the Institute of Bioinformatics in Bangalore, India.

“Finding the genetic interactions that promote or inhibit cancer’s development is like looking for a needle in a haystack,” Chinnaiyan says. “There are millions of possible combinations. Since the development of microarray technology, more than 200 studies of gene expression signatures in human cancers have been published. They include millions of data points from thousands of experiments stored on different technology platforms. Most cancer biologists don’t have the bioinformatics expertise to access the data, so they have been unable to take advantage of it.”

Microarrays are microchips containing thousands DNA probes that are used to profile tissue samples from malignant tumors. Scientists wash tissue samples on the microarray with a solution containing fluorescent probes that glow when bound to a specific gene or gene combination. Tissue samples containing more of a specific gene glow more intensely than samples with little or no expression of the gene. The procedure is repeated by microarray analysis of normal tissue. A computer then analyzes the level of fluorescence to prepare a visual image comparing patterns of genetic activity in malignant and normal tissue.

“When we started the ONCOMINE project, our goal was to bring all the publicly available cancer microarray data together in an integrated, unified format, making it accessible to the entire cancer research community,” Chinnaiyan explains. “The database makes it possible to focus on the activity of one gene in many types of cancer, or look for patterns of gene activity in one type of cancer. It is a great time-saver, because it lets you do the initial experiments in silico without having to generate all the primary data yourself.”

While he believes the results of his study proves the value of the ONCOMINE database, Chinnaiyan emphasizes that it will never replace the need for careful laboratory analyses to validate initial research findings.

“Our challenge now is to incorporate the growing mass of cancer microarray data,” Rhodes says. “If we are to keep up with this rapidly advancing field, it’s crucial for us to streamline our entire process from data collection and normalization to statistical analysis and gene annotation.”

ONCOMINE is available at no charge to university scientists at http://www.oncomine.org. More than 800 investigators from 20 countries are registered users. Researchers from private corporations can purchase licensing rights. A description of the database was published previously in the January/February 2004 issue of Neoplasia.

Pilot funding for ONCOMINE was provided by the U-M Medical School and the Medical School’s Department of Pathology. Research funding was provided by the American Cancer Society, the U-M Comprehensive Cancer Center Support Grant, the U-M Specialized Program of Research in Prostate Cancer, and the U-M Bioinformatics Program.

Additional U-M collaborators in the study include: Jianjun Yu, bioinformatics graduate student; Radhika Varambally, computer systems analyst; Debashis Ghosh, Ph.D., assistant professor of biostatistics in the School of Public Health; and Terrence Barrette, research associate.

###

Citation: Proceedings of the National Academy of Sciences, article #04-01994


Story Source:

The above story is based on materials provided by University Of Michigan Health System. Note: Materials may be edited for content and length.


Cite This Page:

University Of Michigan Health System. "Scientists Find Cancer's Genetic Core: 67 Genes Universally Activated In Human Cancer." ScienceDaily. ScienceDaily, 9 June 2004. <www.sciencedaily.com/releases/2004/06/040609074210.htm>.
University Of Michigan Health System. (2004, June 9). Scientists Find Cancer's Genetic Core: 67 Genes Universally Activated In Human Cancer. ScienceDaily. Retrieved April 19, 2014 from www.sciencedaily.com/releases/2004/06/040609074210.htm
University Of Michigan Health System. "Scientists Find Cancer's Genetic Core: 67 Genes Universally Activated In Human Cancer." ScienceDaily. www.sciencedaily.com/releases/2004/06/040609074210.htm (accessed April 19, 2014).

Share This



More Health & Medicine News

Saturday, April 19, 2014

Featured Research

from universities, journals, and other organizations


Featured Videos

from AP, Reuters, AFP, and other news services

'Holy Grail' Of Weight Loss? New Find Could Be It

'Holy Grail' Of Weight Loss? New Find Could Be It

Newsy (Apr. 18, 2014) In a potential breakthrough for future obesity treatments, scientists have used MRI scans to pinpoint brown fat in a living adult for the first time. Video provided by Newsy
Powered by NewsLook.com
Little Progress Made In Fighting Food Poisoning, CDC Says

Little Progress Made In Fighting Food Poisoning, CDC Says

Newsy (Apr. 18, 2014) A new report shows rates of two foodborne infections increased in the U.S. in recent years, while salmonella actually dropped 9 percent. Video provided by Newsy
Powered by NewsLook.com
Scientists Create Stem Cells From Adult Skin Cells

Scientists Create Stem Cells From Adult Skin Cells

Newsy (Apr. 17, 2014) The breakthrough could mean a cure for some serious diseases and even the possibility of human cloning, but it's all still a way off. Video provided by Newsy
Powered by NewsLook.com
Obama: 8 Million Healthcare Signups

Obama: 8 Million Healthcare Signups

AP (Apr. 17, 2014) President Barack Obama gave a briefing Thursday announcing 8 million people have signed up under the Affordable Care Act. He blasted continued Republican efforts to repeal the law. (April 17) Video provided by AP
Powered by NewsLook.com

Search ScienceDaily

Number of stories in archives: 140,361

Find with keyword(s):
Enter a keyword or phrase to search ScienceDaily for related topics and research stories.

Save/Print:
Share:

Breaking News:
from the past week

In Other News

... from NewsDaily.com

Science News

Health News

Environment News

Technology News



Save/Print:
Share:

Free Subscriptions


Get the latest science news with ScienceDaily's free email newsletters, updated daily and weekly. Or view hourly updated newsfeeds in your RSS reader:

Get Social & Mobile


Keep up to date with the latest news from ScienceDaily via social networks and mobile apps:

Have Feedback?


Tell us what you think of ScienceDaily -- we welcome both positive and negative comments. Have any problems using the site? Questions?
Mobile: iPhone Android Web
Follow: Facebook Twitter Google+
Subscribe: RSS Feeds Email Newsletters
Latest Headlines Health & Medicine Mind & Brain Space & Time Matter & Energy Computers & Math Plants & Animals Earth & Climate Fossils & Ruins