Einstein offers easy-to-use genome analyzer to scientific community

Jun 07, 2011

Scientists at Albert Einstein College of Medicine of Yeshiva University have developed a desktop genome analyzer and browser that allows biologists to rapidly and easily analyze and process their high-throughput data. The open-source software, called GenPlay, is described in the May 19 online edition of Bioinformatics.

Currently, is analyzed mainly by information specialists rather than by the who designed the experiments that produce the data. GenPlay was created with the goal of offering biologists a user-friendly, multi-purpose tool that can help them visualize, analyze and transform their into biologically relevant tracks.

“The first human was sequenced 10 years ago by an international consortium at a cost of $7 billion,” notes GenPlay co-developer Eric Bouhassira, Ph.D., senior author of the Bioinformatics article, professor of medicine and of cell biology, and the Ingeborg and Ira Leon Rennert Professor of Stem Cell Biology and Regenerative Medicine at Einstein. “But today, a complete genome can be sequenced for less than $10,000 and the cost is predicted to drop to less than $1,000 in a few years. The dramatic dip in cost has led to the creation of an avalanche of new data that biologists are having trouble analyzing. GenPlay is intended to make it easier for biologists to make sense of their data.”

A dozen or so genome browsers are currently available. GenPlay offers a major advantage over the others, says Dr. Bouhassira, because it “emphasizes letting biologists take control of their own data by providing continuous visual feedback together with extremely rapid browsing at every decision point during an analysis.”

GenPlay handles three major types of data: data from gene expression studies, epigenetic data, and single nucleotide polymorphism (SNP) data. The free GenPlay software is available from www.genplay.net . The code source of the software is available at genplay.einstein.yu.edu/svn/GenPlay .

The Bioinformatics paper is titled “GenPlay, a Multi-Purpose Genome Analyzer and Browser.” The lead author of the paper is Julien Lajugie, M.S., associate in Einstein’s department of medicine, who co-developed GenPlay and wrote the GenPlay program. The project was funded by New York State Stem Cell Science (NYSTEM).

Explore further: Sex chromosomes—why the Y genes matter

Related Stories

The '$1,000 genome' may cost $100,000 to understand

May 11, 2011

Advances in technology have almost lifted the curtain on the long-awaited era of the "$1,000 genome" — a time when all the genes that make up a person can be deciphered for about that amount – compared to nearly ...

Panel explores Human Genome Project’s legacy

Feb 23, 2011

OK, we’re part Neanderthal, and not that much different from chimpanzees after all. We also know that some drugs won’t work on my cancer, even though they might work on yours.

Web-based tools, called 'Galaxy,' simplify genomic analysis

Feb 23, 2010

With tremendous advances in DNA sequencing and the advent of microarray technology in the 1990s, biology embarked on a new age of discovery. Researchers suddenly had access to unprecedented amounts of data -- and faced unprecedented ...

Humans more diverse than we allow

Mar 29, 2011

A question central to Gillian Einstein's research is, How can I do science that would not make essentialist assumptions about the body?

Recommended for you

Sex chromosomes—why the Y genes matter

2 hours ago

Several genes have been lost from the Y chromosome in humans and other mammals, according to research published in the open access journal Genome Biology. The study shows that essential Y genes are rescue ...

Better mouse model enables colon cancer research

16 hours ago

Every day, it seems, someone in some lab is "curing cancer." Well, it's easy to kill cancer cells in a lab, but in a human, it's a lot more complicated, which is why nearly all cancer drugs fail clinical ...

How to get high-quality RNA from chemically complex plants

May 26, 2015

Ask any molecular plant biologist about RNA extractions and you might just open up the floodgates to the woes of troubleshooting. RNA extraction is a notoriously tricky and sensitive lab procedure. New protocols out of the ...

Plant fertility—how hormones get around

May 26, 2015

Researchers at Tokyo Institute of Technology have identified a transporter protein at the heart of a number of plant processes associated with fertility and possibly aging.

User comments : 0

Please sign in to add a comment. Registration is free, and takes less than a minute. Read more

Click here to reset your password.
Sign in to get notified via email when new comments are made.