Features | Partner Sites | Information | LinkXpress
Sign In
GLOBETECH PUBLISHING
JIB
GLOBETECH PUBLISHING

Genetic Barcode Helping Make Sense of Deluge of Genetic Data

By BiotechDaily International staff writers
Posted on 23 Dec 2013
An enhanced internet research application is helping clinicians and cancer researchers make sense out of a flood of genetic data from close to 100,000 patients and more than 50,000 lab mice.

The tool, called the Gene Expression Barcode 3.0, is will be a key resource in the new age of personalized medicine, in which cancer therapies are customized to the genetic composition of an individual patient’s tumor.

Significant new improvements in the Gene Expression Barcode 3.0 were reported in the January 2014 issue of the journal Nucleic Acids Research, published online December 2013 ahead of print. The senior author Dr. Michael J. Zilliox is from the Loyola University Chicago Stritch School of Medicine (IL, USA) and the co-inventor of the Gene Expression Barcode.

“The tool has two main advantages,” Dr. Zilliox said. “It’s fast and it’s free.” The Gene Expression Barcode is available online (please see Related Links below), and designed and hosted by Loyola University Chicago Stritch School of Medicine. The website is receiving 1,600 unique visitors monthly.

Determining how a patient’s cancer genes are expressed can help a clinician put together a pursonlized treatment. In a tumor cell, for example, certain genes are expressed while other genes are unexpressed. Moreover, different kinds of cancer cells have different patterns of gene expression. Genes are expressed through RNA, a nucleic acid that performs as a messenger to carry out instructions from DNA for making proteins.

Research institutions have made public genetic data from nearly 100,000 patients, most of whom had cancer, and more than 50,000 laboratory mice. However, in raw form, these data are too cumbersome to be of much practical use for most researchers. The Gene Expression Barcode employs sophisticated statistical methods to make this huge amount of data much more user-friendly to researchers.

The barcode algorithm is designed to estimate the genes that are expressed and those unexpressed.  The Gene Expression Barcode is binary coded: the expressed genes are ones and the unexpressed genes are zeroes.

Dr. Zilliox co-invented the Gene Expression Barcode, with Rafael Irizarry, Ph.D. Dr. Zilliox and Irizarry first reported the Gene Expression Barcode in 2007. In 2011, they reported an improved 2.0 version. The Barcode already has been cited in more than 120 scientific articles, and the new 3.0 version will make it even easier and faster for researchers to use, according to Dr. Zilliox.

Related Links:

Gene Expression Barcode
Loyola University Chicago Stritch School of Medicine



comments powered by Disqus

Channels

Genomics/Proteomics

view channel
Image: Differences in the structure of a small lung artery (top row) and heart cross section (lower row) of rodents without disease (far left column); with pulmonary hypertension (middle) and a diseased rodent treated with the HDL peptide (right). Note the much narrowed lung artery, and thick walls and larger chamber of the heart in the diseased animal and improvements with 4F peptide treatment (Photo courtesy of UCLA - University of California, Los Angeles).

Apolipoprotein A-1 Mimetic Peptide Reverses Pulmonary Hypertension in Rodent Models

A small peptide that mimics the activity of apolipoprotein A-1 (apo A-1), the main protein component of the high density lipoproteins (HDL), counteracted the effects of oxidized lipids and alleviated symptoms... Read more

Drug Discovery

view channel
Image: The five stages of biofilm development: (1) Initial attachment, (2) Irreversible attachment, (3) Maturation I, (4) Maturation II, and (5) Dispersion. Each stage of development in the diagram is paired with a photomicrograph of a developing P. aeruginosa biofilm. All photomicrographs are shown to same scale (Photo courtesy of Wikimedia Commons).

Ionic Liquids Disperse Bacterial Biofilms and Increase Antibiotic Susceptibility

The ionic liquid choline-geranate was shown to effectively eliminate the protective biofilm generated by bacteria such as Salmonella enterica and Pseudomonas aeruginosa and to significantly increase the... Read more

Therapeutics

view channel
Image: Hair follicle (blue) being attacked by T cells (green) (Photo courtesy of Christiano Lab/Columbia University Medical Center).

Hair Restoration Method Clones Patients’ Cells to Grow New Hair Follicles

Researchers have developed of a new hair restoration approach that uses a patient’s cells to grow new hair follicles. In addition, the [US] Food and Drugs Administration (FDA) recently approved a new drug... Read more

Business

view channel

Partnership Established to Decode Bowel Disease

23andMe (Mountain View, CA,USA), a personal genetics company, is collaborating with Pfizer, Inc. (New York, NY, USA), in which the companies will seek to enroll 10,000 people with inflammatory bowel disease (IBD) in a research project designed to explore the genetic factors associated with the onset, progression, severity,... Read more
 
Copyright © 2000-2014 Globetech Media. All rights reserved.