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The Immunotherapy Challenge: Moving from Preclinical Research to Clinical Practice

| Bio-IT World | Contributed Commentary | As personalized medicine opens up new possibilities in cancer immunotherapy, quantified image analysis is a promising route to discovering biomarkers that can meaningfully stratify patients for treatment.

The Latest Scoop on the MinION Portable Sequencer

| MIT Technology Review | Oxford Nanopore, and the early access users of its MinION nanopore sequencer, share details about the device's accuracy, read length, applications, and a forthcoming high throughput instrument.

gCell Gives Genentech Corporate Memory of Cell Line Experiments

| Bio-IT World | Genentech combed through its trove of thousands of cell lines to create a definitive phenotypic and genetic profile of each, making it possible to trace back preclinical experiments and share results company-wide. The project won the company its second straight Bio-IT World Best Practices Award for finding new efficiencies in its preclinical pipeline.

The Microbiome as a Source of Antibiotics

| Nature News | While the human microbiome has been mined as a source of novel therapies for years — through probiotics or fecal transplantation — a team at UC San Francisco is now exploring whether more traditional drugs could be found in the arsenals of our commensal bacteria.

Mount Sinai Opens New Genomics Lab with Bank of Ion Torrent Sequencers

| Bio-IT World | The old Roche 454 facility in Branford, Connecticut, will soon be returning to genomic science, as the Icahn Institute at Mount Sinai prepares to set up its second sequencing facility on grounds abandoned by Roche in its shutdown of 454 Life Sciences.

Bioengineer Sangeeta Bhatia Wins Lemelson-MIT Prize for Inventors

| BostInno | Sangeeta Bhatia, director of MIT's Laboratory for Multiscale Regenerative Technologies, today received the $500,000 Lemelson-MIT Prize awarded to mid-career inventors "who have developed a patented product or process of significant value to society."

Single-Celled Protist Has Extraordinary Fragmented Genome

| Bioscience Technology | The pond-dwelling protist Oxytricha Trifallax, already known for the genomic oddity of having roughly 16,000 chromosomes, has revealed an even more remarkable quirk in its native DNA.

Actionable Genome Consortium to Define Best Practices for Cancer Genetics

| Bio-IT World News Brief | Gene sequencing company Illumina has joined with four major cancer centers to found the Actionable Genome Consortium, an organization dedicated to publicizing standards for cancer genetics.

Washington University Rolls Out Open Source Epigenomics Browser

| Bio-IT World | Coinciding with the completion of an early phase of the NIH-funded Roadmap Epigenomics Project, a team at Washington University in St. Louis has created a genome browser with added capabilities to deal with epigenetic data.

Edico Genome Makes First Sale of NGS Processor

| Bio-IT World | Edico Genome, which claims its DRAGEN chip can assemble a whole human genome and call variants in as little as 20 minutes, has made its first sale of the device to prenatal testing company Sequenom, which will use the DRAGEN to search for genetic disorders in fetal DNA samples.

modENCODE Project Reveals Evolutionary Patterns of Gene Activation(2)

| New York Times | As the modENCODE project catalogues the transcription factors and other regulatory elements at work in fruit fly and worm cells at various stages of development, scientists are learning that many of the genetic regulatory elements at work in humans have deep evolutionary roots.

New NIH Genomic Data Sharing Policy Straddles a Fine Line

| Bio-IT World News Brief | This week, the NIH issued its long awaited Genomic Data Sharing Policy, which encourages researchers to obtain the broadest possible patient consent for open data sharing, while at the same time considering new privacy measures to protect vulnerable patient populations.

August News and Product Briefs

| Bio-IT World | News and product releases from around the industry, including a trial to support broad genotyping of tumors, and new annotation tools from Appistry.

Berg and the Pursuit of the Body's Hidden Drugs

| Bio-IT World | Berg, a Cambridge-based pharma company, believes human cells may be harboring compounds that could be used to treat diabetes, cancer, and neurological diseases. To find them, they're handing tissue samples over to their in-house data mining platform, Interrogative Biology.

DNA Barcoding to Combat Mass Food Fraud

| Chemical & Engineering News | Armed with new technologies to identify food products on a molecular level, regulators are combating the multi-billion dollar international practice of food fraud.

Updates from the Genome in a Bottle Consortium

| Bio-IT World | At the Next Generation Dx Summit in Washington, DC, Justin Zook of the National Institute of Standards and Technology discussed the pace of progress at the Genome in a Bottle Consortium, including new reference materials and the project's role in FDA evaluation of next-generation sequencing technologies.

Illumina to Support 'Companion Therapeutics' in Oncology

| Bio-IT World News Brief | Illumina today announced collaborations with AstraZeneca, Sanofi, and Janssen Biotech, to participate in patient stratification for the development of new cancer drugs by offering a multi-gene panel that covers key cancer mutations.

Seven Bridges Introduces Open Source Cancer Genomics Workflow

| Bio-IT World | After presenting an open source pipeline for analyzing cancer genomes at Cold Spring Harbor this May, Seven Bridges is seeking hospital and lab partners to test the system in a clinical setting.

GeneDx Seeks Invalidation of Myriad's BRCA Patents

| Bio-IT World News Brief | GeneDx, a commercial genetic diagnostics lab located in Gaithersburg, Maryland, this week filed eleven petitions to invalidate patent claims held by Myriad Genetics, adding another new thread to the increasingly complicated web of litigation surrounding Myriad.

A Sensitive Tool for Detecting Indels

| Bio-IT World News Brief | A team from Cold Spring Harbor Laboratory has released an open source algorithm, called Scalpel, for finding insertions and deletions in next generation sequencing data sets, and published a paper in Nature Methods using this tool to identify mutations in children affected by autism.
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