Archive for the 'x78qt' Category

‘Sanitizing’ functional genomics data may prevent privacy breaches | Spectrum | Autism Research News

January 16, 2021

QT:{{”

The new data ‘sanitization’ technique obscures regions of a
participant’s genome in a dataset to secure her privacy, and may encourage more people to participate in genetic studies, says lead investigator Mark Gerstein, professor of biomedical informatics at Yale University.

“If someone hacks into your email, you can get a new email address; or if someone hacks your credit card, you can get a new credit card,” Gerstein says. “If someone hacks your genome, you can’t get a new one.”

To determine which information and how much of it should remain private to prevent a linkage attack, Gerstein and his colleagues performed linkage attacks on existing genetic datasets. In one sample attack, they compared two publicly available databases and RNA sequencing results to successfully identify 421 individuals.

In another linkage attack, Gerstein’s team sequenced the RNA of two volunteers and shuffled these data into a larger dataset. They then obtained DNA samples from the volunteers’ used coffee cups and sequenced their genomes. Again, they could link the two individuals to their genomes with a high degree of certainty.

Based on what they learned from the mock linkage attacks, Gerstein’s team developed a technique to mask some variants from a person’s genetic data while preserving where those variants are located in the genome. To do this, they replace the genetic variant of concern with one from a reference genome; which variants are removed depend on the genetic conditions or predispositions someone’s genetic data reveals.

Introducing too many of these privacy-masking variants can decrease the usefulness of the data. But Gerstein’s team struck a balance that enables researchers to obtain data on gene-expression values but also enables study participants to dictate how much of their genetic information they wish to keep hidden.

“}}

https://www.spectrumnews.org/news/sanitizing-functional-genomics-data-may-prevent-privacy-breaches/

BBC Media Request = Data Sanitisation

December 22, 2020

The Naked Scientists

Data sanitisation tool plugs privacy gap

Functional genomics data is vulnerable to de-anonymising attacks… 17 December 2020
Interview with
Mark Gerstein, Yale University

Part of the show RNA Vaccines, Privacy, and Penguins

part of the Naked Genetics podcast, on all podcast platforms and o
site here: https://www.thenakedscientists.com/podcasts/naked-genetics/rna-vaccines-privacy-and-penguins

direct link: https://www.thenakedscientists.com/articles/interviews/data-sanitisation-tool-plugs-privacy-gap

Researchers Use AI to Predict the Frequencies of Drug Side Effects

September 20, 2020

https://edgy.app/researchers-use-ai-to-predict-the-frequencies-of-drug-side-effects

Massive encyclopedia catalogs genome’s regulatory regions | Spectrum | Autism Research News

August 26, 2020

https://www.spectrumnews.org/news/toolbox/massive-encyclopedia-catalogs-genomes-regulatory-regions/

$15M NIDA Grant Awarded to Serena Spudich, Mark Gerstein, and Yuval Kluger < Yale School of Medicine

August 9, 2020

https://medicine.yale.edu/news-article/26310/

Cancer Genomics and Precision Medicine < Yale Cancer Center

June 2, 2020

https://www.dropbox.com/s/759dkp3l2alnkna/6a83d77e-30de-4b41-81b3-dc91c5b63d4a.Interview-at-Yale-Cancer-Center.x57k.mp4?dl=0

https://www.yalecancercenter.org/media-player/4956/

Scientists find ‘drivers’ of cancer, but warn: Don’t ignore ‘passengers’ | YaleNews

February 23, 2020

https://news.yale.edu/2020/02/20/scientists-find-drivers-cancer-warn-dont-ignore-passengers

Pan-Cancer Analysis Points to Possible Functional Effects of Passenger Mutations | GenomeWeb

February 23, 2020

Pan-Cancer Analysis Points to Possible Functional Effects of Passenger Mutations _ GenomeWeb.pdf

Passengers, noncoding genome affect how cancers play out | 2020-02-20 | BioWorld

February 23, 2020

https://www.bioworld.com/articles/433183-passengers-noncoding-genome-affect-how-cancers-play-out?v=preview

You Can Soon Get Your DNA Sequenced Anonymously | WIRED

September 24, 2019

https://www.wired.com/story/you-can-soon-get-your-dna-sequenced-anonymously/

also
https://nebula.org/anonymous-sequencing

Data privacy in the age of personal genomics
Dennis Grishin, Kamal Obbad & George M. Church
Nature Biotechnology (2019)
https://www.nature.com/articles/s41587-019-0271-3

nat-biotech-privacy
in labdropbox