Archive for the 'x78qt' Category

Genetic predisposition, modifiable lifestyles, and their joint effects on human lifespan: evidence from multiple cohort studies | BMJ Evidence-Based Medicine

April 30, 2024

https://ebm.bmj.com/content/early/2024/04/16/bmjebm-2023-112583

QT:{{”
Interesting that “alcohol consumption” didn’t rank in the study’s “top 4” lifestyle features. Wonder if this is because it potentially overlaps somewhat with two of the other features (diet & body shape). “}}

Genetic predisposition, modifiable lifestyles, and their joint effects on human lifespan: evidence from multiple cohort studies FREE

http://orcid.org/0000-0002-2628-7535Zilong Bian1,2, Lijuan Wang1,3, Rong Fan1,2, Jing Sun1, Lili Yu1, Meihong Xu4, Paul R H J Timmers3,5, Xia Shen6, James F Wilson3,5, Evropi Theodoratou3,7, Xifeng Wu1,8, Xue Li1,3

How to Train a Biomedical Data Scientist < Yale School of Medicine

March 24, 2024

https://medicine.yale.edu/news-article/how-to-train-a-biomedical-data-scientist/

Emmett Shear ’05 briefly appointed OpenAI CEO amid chaotic turnover – Yale Daily News

December 11, 2023

https://yaledailynews.com/blog/2023/11/28/emmett-shear-05-briefly-appointed-openai-ceo-amid-chaotic-turnover/

QT:{{”
“The appointment, even if temporary, is significant both for Yale’s reputation and the tech community as a whole,” computer science professor Mark Gerstein wrote to the News. “Leaders in the tech industry serve as pivotal role models and inspirational figures for those pursuing technical professions.”

Gerstein said that Shear’s brief stint as OpenAI CEO is especially notable given Yale’s “limited presence in tech leadership” compared to peer schools such as Stanford University and Harvard University. “}}

Mark bio

October 22, 2023

https://academic.oup.com/bioinformatics/article/39/Supplement_1/i9/7210511

2023 ISCB accomplishments by a senior scientist award: Mark Gerstein Christiana N Fogg, Diane E Kovats, Martin Vingron
Bioinformatics, Volume 39, Issue Supplement_1, June 2023, Pages i9–i10, https://doi.org/10.1093/bioinformatics/btad316
Published: 30 June 2023

Yale News on ISMB Award

August 27, 2023

https://news.yale.edu/2023/08/01/mark-gerstein-receives-iscb-accomplishments-senior-scientist-award

Hospital and Drugmaker Move to Build Vast Database of New Yorkers’ DNA – The New York Times

August 13, 2022

QT:{{”
Mark Gerstein, a professor of Biomedical Informatics at Yale University, said there was no question that genomic datasets were driving great medical discoveries. But he said he still would not participate in one himself, and he urged people to consider whether adding their DNA to a database might someday affect their
grandchildren.

“I tend to be a worrier,” he said.

Our collective knowledge of mutations and what illnesses they are associated with — whether Alzheimer’s or schizophrenia — would only increase in the years ahead, he said. “If the datasets leaked some day, the information might be used to discriminate against the children or grandchildren of current participants,” Dr. Gerstein said. They might be teased or denied insurance, he added.

He noted that even if the data was anonymous and secure today, that could change. “Securing the information over long periods of time gets much harder,” he said, noting that Regeneron might not even exist in 50 years. “The risk of the data being hacked over such a long period of time becomes magnified,” he said.
“}}

…request | Mapping cis-regulatory elements in neurons

July 2, 2022

link to the article about cis-regulatory elements:
https://www.spectrumnews.org/news/toolbox/new-resource-maps-gene-expression-regulation-in-neuron-subtypes/

New resource maps gene expression, regulation in neuron subtypes BY CHLOE WILLIAMS / 1 JULY 2022

QT:{{”
“That’s interesting,” says Mark Gerstein, professor of biomedical informatics at Yale University, who was not involved in the research. The findings might imply that autism affects subtypes of neurons equally, but classifying excitatory and inhibitory neurons into even smaller groups could lead to different results, he says.
“}}

How ‘Trustless’ Is Bitcoin, Really? – The New York Times

June 18, 2022

QT:{{”
Mark Gerstein, a professor of bioinformatics at Yale University, found in the research implications for data privacy. He recently stored a genome on a private blockchain, which allowed for a secure and tamperproof record. But he noted that in a public setting, as with Bitcoin’s blockchain, a data set’s size and subtle patterns made it susceptible to breaches, even as the data remained immutable. (Ms. Blackburn wasn’t tampering with the Bitcoin blockchain’s records.)

“That’s the amazing thing about big data,” Dr. Gerstein said. “If you have a big enough data set, it starts to leak information in unexpected ways.” Even more so when data from different sources are connected, he said: “When you combine one data set with another to make a bigger data set, nonobvious linkages can arise.”
“}}

https://www.nytimes.com/2022/06/06/science/bitcoin-nakamoto-blackburn-crypto.html

2022-06-08-09.34.24.NY-Times-story-on-bitcoin.x78qt.jpg
2022-06-08-09.36.23.NY-Times-story-on-bitcoin.x78qt.jpg

Hybrid labs piece went up on Friday

March 14, 2022

https://twitter.com/KendallSciWrite/status/1503508908085760000

CAREER FEATURE
11 March 2022

How hybrid working took hold in science

Two years since COVID-19 forced labs to shut down, group leaders describe how academic research has changed, perhaps forever. Kendall Powell

https://www.nature.com/articles/d41586-022-00729-9

QT:{{”

Principal investigators (PIs), including those who started research groups during the pandemic, are now incorporating the best parts of pandemic flexibility into the future of research. “It’s hard to see any good when we are heading toward six million deaths,” says Mark Gerstein, a computational biologist at Yale University in New Haven, Connecticut. “But the pandemic has taught us new ways of thinking about things.”

For example, Gerstein has learnt that some group members work most efficiently at home, whereas others really need to come in to work. “I have been a little surprised that the tails of that spectrum have been so wide.”

Gerstein says that increased flexibility should also help to ease some of the thorniest problems that early-career researchers can face, such as childcare support and the two-body problem — the challenge of two partners needing to find a job in the same geographical location. “I want to be very flexible,” Gerstein says. “That’s what talented people want in their workplace.”
….

Hybrid lab working has also changed the dynamics of groups. Gerstein’s weekly Zoom meeting with his 40-strong team can last for several hours, but he’s fine with a healthy dose of zoning out, turning cameras off and multitasking for those who don’t need to engage in the main conversation. His group uses a Google Doc to draw up the agenda and the members share screens to annotate it in real time. He then saves the final document to the lab’s Dropbox account.

Science-ing from home

“It is efficient and works even better than in-person meetings,” says Gerstein, who plans to retain video meetings to accommodate childcare responsibilities, illness and scheduling conflicts. “Now, everyone is equal, even our collaborators in Europe or China. I don’t think we’ll ever go back to a large in-person lab meeting.”

Gerstein has also been rethinking his computational group’s workspace. “Do we want that same traditional look where people come in every day and sit at desks?” he asks. “I’m sceptical — no one wants to be in open-plan cubes.”

Instead, he sees his lab of the future as being one in which, ideally, researchers have their own office and can close the door when they need to think, code or write. There also needs to be a room big enough for three or four people, to host meetings or conference calls. Hybrid working could mean a lot of unoccupied space on certain days. He’s considering a ‘hotelling’ option, with lab members booking larger office spaces in advance as needed, alongside everyone having a smaller dedicated workstation in the group’s shared space.

“}}

Stanford press release on IGVF

November 24, 2021

mentioned in the 2nd to the last paragraph.
https://med.stanford.edu/news/all-news/2021/11/researchers-grants-genome-variations.html