Corporate Banner
Satellite Banner
Technology
Networks
Scientific Communities
 
Become a Member | Sign in
Home>News>This Article
  News
Return

ATARiS Informatics Platform Hits the Jackpot

Published: Wednesday, May 22, 2013
Last Updated: Wednesday, May 22, 2013
Bookmark and Share
ATARiS is one of several tools developed at the Broad Institute to precisely tune in to the signals within noisy datasets.

Listening to data isn’t easy. Massive amounts of data are often messy and complicated. But somewhere within the cacophony, information can harmonize and produce the sweet sound of discovery – if you have the right tools with which to hear it.

ATARiS is one of several tools developed at the Broad Institute to precisely tune in to the signals within datasets. The original idea for ATARiS came about a few years ago when members of Jill Mesirov’s computational biology and bioinformatics group, Bill Hahn's cancer biology group, and the Broad RNAi Platform were trying to address a common problem from the world of RNAi research. RNAi – short for RNA interference – allows researchers to “turn off” a gene or decrease that gene’s activity. Ideally, every gene in the genome would be paired with an RNAi reagent that could turn it – and only it – off. Instead, most RNAi reagents also disrupt other genes (a frustrating phenomenon known as off-target effects). Without a way to easily isolate on-target effects, the power of RNAi wanes.

RNAi is a critical tool for many projects at the Broad and beyond, including Project Achilles. This project – a joint effort between researchers at the Dana-Farber Cancer Institute and the Broad – seeks to pinpoint cancer’s most important weaknesses. To do so, researchers use RNAi to turn off genes in hundreds of cell lines. About 50,000 RNAi reagents have been used to target 11,000 of the 21,000 human genes (about five RNAi reagents for each of these genes) in order to see which genes are critical for cancer’s survival. These crucial genes could become the targets of drugs in the future.

“What we want to do is tune in on a specific target effect,” says Diane Shao, a graduate student in senior associate member Bill Hahn’s lab at the Broad Institute and Dana-Farber Cancer Institute. However, while researchers can pick out an RNAi reagent that seems particularly adept at killing cancer cells, they can’t be entirely certain which of its effects – on-target or off-target – are bringing about the desired result.

ATARiS helps cut through the noise from the multitude of variables and values. The computational method looks for patterns across multiple samples, assessing the performance of individual RNAi reagents to target specific genes. This allows researchers to determine which gene – rather than which RNAi reagent – is most of interest.

“ATARiS makes RNAi data more accessible,” says Aviad Tsherniak, a computational biologist in Jill Mesirov’s lab at the Broad and the key architect of ATARiS. “It simplifies it and standardizes it, and it makes the data compatible with other kinds methods.”


Further Information

Join For Free

Access to this exclusive content is for Technology Networks Premium members only.

Join Technology Networks Premium for free access to:

  • Exclusive articles
  • Presentations from international conferences
  • Over 4,000+ scientific posters on ePosters
  • More Than 5,300+ scientific videos on LabTube
  • 35 community eNewsletters


Sign In



Forgotten your details? Click Here
If you are not a member you can join here

*Please note: By logging into TechnologyNetworks.com you agree to accept the use of cookies. To find out more about the cookies we use and how to delete them, see our privacy policy.

Related Content

IBM, Broad Institute Launch Major Research Initiative
The $50M project will study thousands of drug resistant tumors and draw on Watson’s computational and machine learning methods to help researchers understand how cancers become resistant to therapies.
Friday, November 11, 2016
Genetic Catalog Unprecedented Tool for Disease Diagnosis
Largest collection of human exome sequence data yields unprecedented tool for diagnosing rare disease.
Thursday, August 18, 2016
Broken Gene May Help Protect Against Ulcerative Colitis
Researchers have uncovered a protective genetic mutation that is specific to ulcerative colitis.
Friday, August 12, 2016
Broad Institute Launches Food Allergy Initiative
Food allergy science initiative will bring leading scientists together to pave way for development of diagnostics, therapeutics.
Friday, June 24, 2016
Shining A Light On Bladder Cancer
Researchers scrutinize patterns of mutations in bladder tumor genomes, gleaning insights into the roles of DNA repair and tobacco-related DNA damage.
Friday, May 06, 2016
A Cellular Symphony Responsible for Autoimmune Disease
Broad Institute researchers have used a novel approach to increase our understanding of the immune system as a whole.
Monday, November 30, 2015
Screen of Human Genome Reveals Set of Genes Essential for Cellular Viability
Using two complementary analytical approaches, scientists at Whitehead Institute and Broad Institute of MIT and Harvard have for the first time identified the universe of genes in the human genome essential for the survival and proliferation of human cell lines or cultured human cells.
Monday, October 19, 2015
DARPA Awards $32 Million Contract to MIT, Broad Institute Foundry
A facility at the Broad Institute of MIT and Harvard and MIT that aims to achieve the full potential of engineering biology has received a five-year, $32 million contract from the Defense Advanced Research Projects Agency (DARPA).
Monday, September 28, 2015
Diagnostics Breakthrough Brings Viral Sequencing to Doctors’ Toolkit
New screening tool produces up to 10,000-fold improvement in viral matches compared with traditional high-throughput methods.
Monday, September 28, 2015
Scientists Discover New System For Human Genome Editing
CRISPR-Cpf1 system could disrupt both scientific and commercial landscape.
Monday, September 28, 2015
Researchers Develop a New Means of Killing Harmful Bacteria
Engineered particles are capable of producing toxins that are deadly to targeted bacteria.
Friday, June 26, 2015
Broad Institute & Google Genomics Combine Bioinformatics and Computing Expertise
Both companies explore how to break down major technical barriers that increasingly hinder biomedical research.
Thursday, June 25, 2015
CRISP-Disp Leverages CRISPR-Cas9 to Deliver RNA Structures to Targets in the Genome
A team of researchers from the Broad Institute and the Harvard Stem Cell Institute has developed CRISP-Disp, a method that expands on the CRISPR-Cas9 system, allowing researchers to display multiple, large RNA structures on the Cas9 protein.
Wednesday, June 10, 2015
GTEx: Useful Expression For Cancer Research
GTEx Project has recently published several papers reporting on findings from its two-year pilot phase.
Tuesday, May 26, 2015
Single-cell Analysis Hits its Stride
Advances in technology and computational analysis enable scale and affordability, paving the way for translational studies.
Saturday, May 23, 2015
Scientific News
Big Genetics in BC: The American Society for Human Genetics 2016 Meeting
Themes at this year's meeting ranged from the verification, validation, and sharing of data, to the translation of laboratory findings into actionable clinical results.
Stem Cells in Drug Discovery
Potential Source of Unlimited Human Test Cells, but Roadblocks Remain.
Automated Low Volume Dispensing Trends
Gain a better understanding of the current and future market requirements for fully automated LVD systems.
Cancer Genetics: Key to Diagnosis, Therapy
When applied judiciously, cancer genetics directs caregivers to the right drug at the right time, while sparing patients of unnecessary or harmful treatments.
Diabetes Missing Link Discovered
Researchers from the University of Auckland have shown that beta catenin plays a vital role in the control of insulin release from the pancreas.
Study Reveals New Role for Hippo Pathway in Suppressing Cancer Immunity
Hippo pathway signaling regulates organ size by moderating cell growth, apoptosis and stem cell renewal, but dysregulation contributes to cancer development.
Biological Link between the Gut Microbiome and Parkinson’s Disease
The findings suggest that targeting the gut microbiome may provide a new approach for diagnosing and treating Parkinson’s disease.
How the Brain Recognizes Faces
Machine-learning system spontaneously reproduces aspects of human neurology.
Boosting Effectiveness of Asthma Therapy
A team of scientists from UCSF has developed a new treatment to dampen bronchospasm.
Improved Stability, Shelf Life of Protein Drugs
Study improves protein drug stability and extend their shelf life by tested a novel route for non-covalent protein modification.
Scroll Up
Scroll Down
Skyscraper Banner

SELECTBIO Market Reports
Go to LabTube
Go to eposters
 
Access to the latest scientific news
Exclusive articles
Upload and share your posters on ePosters
Latest presentations and webinars
View a library of 1,800+ scientific and medical posters
4,000+ scientific and medical posters
A library of 2,500+ scientific videos on LabTube
5,300+ scientific videos
Close
Premium CrownJOIN TECHNOLOGY NETWORKS PREMIUM FOR FREE!