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Yassine

@smiao.bsky.social
99 followers 697 following 33 posts

Evolutionary Medicine, bioinformatics, and aDNA. On a quest to sample the vast repertoire of shortbreads of the worlds. Giving social media another whirl after quitting all forms for 3 years.

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Madhu Pai, MD, PhD @madhupai.bsky.social · 21/12/2024
Lots to learn from Rwanda www.telegraph.co.uk/global-healt...
telegraph.co.uk
Rwanda’s Marburg response is a masterclass in how to prevent pandemics
Today marks the official end of the outbreak. Swift action saved many lives and helped protect the rest of the world from potential disaster
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Ryan Schuchard @ryanwithboulder.bsky.social · 15/12/2024
We have turned America into a parking lot—1.31 billion parking spots or 4.76 for every car, to be precise—and it has made us sick and poor. Public health policy has a real stake in parking policy. link.springer.com/article/10.1...
link.springer.com
Parking and Public Health - Current Environmental Health Reports
Purpose of Review Parking is a ubiquitous feature of the built environment, but its implications for public health are under-examined. This narrative review synthesizes literature to describe pathways...
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Yassine @smiao.bsky.social · 16/12/2024
Checkout our latest manuscript where we use kraken2, a k-mer based read classifier, to identify putative contaminants and endogenous reads prior to aligning with bwa-aln. 1/3
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Jamie Wood @larusnz.bsky.social · 15/12/2024
Congratulations @shyama-mama.bsky.social on a great piece of work! academic.oup.com/bib/article/...
academic.oup.com
Filtering out the noise: metagenomic classifiers optimize ancient DNA mapping
Abstract. Contamination with exogenous DNA presents a significant challenge in ancient DNA (aDNA) studies of single organisms. Failure to address contamina
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Mark Copelovitch @mcopelov.bsky.social · 15/12/2024
In re:
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Mondoweiss @mondoweiss.net · 15/12/2024
Columbia University staff are being suspended and terminated for participating in last Spring's Gaza Solidarity Encampment, even if they were off the clock at the time. Similar cases are being seen across the country. mondoweiss.net/2024/12/universities……
mondoweiss.net
Universities are continuing to retaliate against staff for participating in Gaza campus protests
Columbia University staff are being suspended and terminated for participating in last Spring’s Gaza Solidarity Encampment, even if they were off the clock at the time. Similar cases are being seen...
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MU-Peter Shimon 🀄 @mu-peter.bsky.social · 13/12/2024
Why did we think Neanderthals weren’t smart? 🏺🧪 Early studies of Neanderthals were fundamentally flawed with Paige Madison @fossilhistory.bsky.social www.vox.com/unexplainabl... Historically, our stories about Neanderthals have revealed a lot more about ourselves than about these early humans.
Illustration of a Neanderthal holding up and contemplating a skull
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Andreas De Block @andreasdeblock.bsky.social · 02/12/2024
Research thrives on innovation and the diversity of ideas, yet our funding system often penalizes both. In our new study published in PNAS, we explore the hidden costs of competition in allocating scarce research funds. (1/10) www.pnas.org/doi/10.1073/...
pnas.org
PNAS
Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...
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Kevin Mitchell @wiringthebrain.bsky.social · 12/12/2024
The tech bro fascination with eugenics is so on brand. The idea that you could make accurate, actionable predictions from individual genotypes (with all their complex, non-linear interactions) from averaged, linearly modeled population-level genomic statistics is just another big data fantasy
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Eddie Holmes @eddieholmes.bsky.social · 12/12/2024
Turns out that metatranscriptomic sequencing of animal gut contains can identify exotic plant viruses that are biosecurity threats. Work led by Jackie Mahar and Solomon Maina. www.biorxiv.org/content/10.1...
biorxiv.org
Detection of exotic biosecurity threat ribgrass mosaic virus and novel tobamoviruses through metatranscriptomic sequencing of animal gut content
Ribgrass mosaic virus (RMV) and related viruses of the genus Tobamovirus (Virgaviridae) are cruciferous plant pathogens that represent a threat to global horticultural systems. In Australia, they are ...
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Timothy Bredy @twbredy.bsky.social · 12/12/2024
It was only a matter of time. www.cell.com/cell/fulltex...
cell.com
Transposable element exonization generates a reservoir of evolving and functional protein isoforms
Transposable element exonization by unannotated splicing events produces stable protein isoforms with acquired functions that are subject to evolutionary selection.
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Joseph Howley @illdottore.bsky.social · 12/12/2024
The encampments are gone and with them the TV crews but some folks have spent the months since working overtime to criminalize every single thing about them and any possible association with them. The behind the scenes retribution and score settling would shock you.
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Lauren Leek @laurenleek.eu · 10/12/2024
Another week, another blog:) this one is for my academic friends entering the European postdoc job market. laurenleek.substack.com/p/the-postdo...
laurenleek.substack.com
The postdoc 'big mac plus' index
Which university in Europe has the best postdoc package? In order words, which university is perhaps 'undervalued'? This blog considers salary, cost of living, life satisfaction and uni reputation.
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Oded Rechavi @odedrechavi.bsky.social · 11/12/2024
Looking for reviewers before Christmas
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Kevin Daly @gingerhowley.bsky.social · 04/12/2024
Are you an Early Career Research (PhD, postdoc, new group leader) working in Animal Ancient DNA? Want to present your work to the @aarc-community.bsky.social community? Express your interest in participating in our AaRC TikTalk Seminar series with the link below! #aDNA
docs.google.com
AaRC TikTalk Seminars - Expression of Interest
Please let us know if you are interested in presenting at the AaRC TikTalks Seminars. The seminars are held on the last Friday of every month. Speakers are currently open to graduate students (PhDs an...
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Carl T. Bergstrom @carlbergstrom.com · 11/12/2024
I hate seeing Bluesky becoming overrun with follower-chasing accounts that post a mix of unattributed photos, AI dreck, and bad photoshop jobs. Fortunately, there are block lists: bsky.app/profile/maur...
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Jo Wolfe, PhD @jopabinia.bsky.social · 10/12/2024
And this is excluding marine...so the number eould be higher 🧪😭
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David Enard @denard.bsky.social · 10/12/2024
An interesting question that came up going over a comps proposal: do sweeps without introgression bias ABBA-BABA based D or F statistics?
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Mark A. Hanson @hansonmark.bsky.social · 08/12/2024
A message for the #AcademicChatter folks out there: at some point in their careers, all great artists suffer from impasto syndrome. You're doing fine. #NewPI #PhDchat
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Yassine @smiao.bsky.social · 04/12/2024
Congratulations to the #USA you brought back the bourgeoisie, let’s see how long it’ll take the proletariat to wake and do something about it.
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Laurits Skov @lauritsskov.bsky.social · 02/12/2024
Very excited (and a bit nervous) to announce that I will be hiring two Postdocs for my new group(!) in Copenhagen to study the Neanderthal and Denisovan DNA which survives in present-day humans. Retweet will be much appreciated :) Link for application: candidate.hr-manager.net/ApplicationI...
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Crystal Rogers, PhD @rogerslabucd.bsky.social · 29/11/2024
Awesome! This is a very cool book from a scientist, mom, colleague, and friend! She wrote it to help her kids understand that they are loved and normal. Really important in today’s climate that is becoming less tolerant of differences by the day. ❤️😍🤩
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Stephen Turner @stephenturner.us · 01/12/2024
Eleven quick tips for properly handling tabular data journals.plos.org/ploscompbiol/arti… 🧪 #Rstats
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Dr Alessio Veneziano @aveneziano.bsky.social · 30/11/2024
The Palestinian 🇵🇸 women achaeologists and fieldworkers who worked at the excavation of - and recognised - the Tabun 1 #Neanderthal skull! I'm an anthropologist, I didn't know! It's crucial to highlight the story of the people behind discoveries! #WomenInSTEM #WomenInPrehistory #PaleoAnth #science
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David Ho @davidho.bsky.social · 29/11/2024
I often show my students this visualization of how atmospheric CO₂ travels around the globe. Our attitude toward burning fossil fuels would change significantly if we could actually see CO₂. svs.gsfc.nasa.gov/goto?11719
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David Ho @davidho.bsky.social · 30/11/2024
When a car starts, the welcome message on the giant screen should say, “Don’t kill anyone!”
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Catharine.Aquino @catharineaquino.bsky.social · 30/11/2024
Check out this cool paper from the lab of Jacob Corn using @nanoporetech.com to look at large scale genomic alterations following genome editing. A big thank you for acknowledging the contributions of @fgcz-en.bsky.social team members #genomics www.nature.com/articles/s41...
nature.com
Genome editing with the HDR-enhancing DNA-PKcs inhibitor AZD7648 causes large-scale genomic alterations - Nature Biotechnology
A compound that enhances homology-directed repair in CRISPR editing leads to genome instability.
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William J. Brady @williambrady.bsky.social · 28/11/2024
New paper out in @ScienceMagazine! In 8 studies (multiple platforms, methods, time periods) we find: misinformation evokes more outrage than trustworthy news, when it does it's shared more + ppl are less likely to read before sharing. w/ @killianmcl1 @Klonick @mollycrockett 🧵👇
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NativeBio Data Consortium @nativebio.bsky.social · 28/11/2024
You may not know it from the looks of us, but NativeBio is in every space where we are needed to protect #DataSovereignty and #LocalBenefit We are happy to spread the word about the GIDA Conference and we especially hope to see you all there! www.gida-global.org/gidsc2025
gida-global.org
2025 Global Indigenous Data Sovereignty Conference. — Global Indigenous Data Alliance
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Huw Griffiths @huwiceandstuff.bsky.social · 27/11/2024
A #map of the world in the #Spilhaus projection with the global #ocean as the main focus. It includes arrows of the global currents (@oceanandice.bsky.social) and sea surface temperature & velocity (Niklas Röber). It shows the interconnectedness of the world's oceans with #Antarctica at the centre!
A map of the world in the Spilhaus projection with the global ocean as the main focus. It includes arrows of the global currents overlaid onto sea surface temperature & velocity. Spilhaus is a projection that emphasizes the interconnectedness of the world's oceans. The map features a centered and enlarged southern ocean that is surrounded by land masses, creating a continuous east-west expanse of ocean around the world.
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Francesco Garzon @garzonfrancesco.bsky.social · 27/11/2024
What do you do when an orca eats your research project? Why, you continue tracking of course! #trackingNotSlacking 🌊 New paper describes how orcas catch bluefin tuna, and shows the longest high-resolution tracking of an orca ever! @exetermarine.bsky.social 🦑🐠🧪 www.nature.com/articles/s41...
nature.com
High-resolution biologging of an Atlantic bluefin tuna captured and eaten by a supposed orca - Scientific Reports
Scientific Reports - High-resolution biologging of an Atlantic bluefin tuna captured and eaten by a supposed orca
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Madhu Pai, MD, PhD @madhupai.bsky.social · 25/11/2024
"Non-White scientists appear on fewer editorial boards, spend more time under review, and receive fewer citations" www.pnas.org/doi/abs/10.1...
pnas.org
Non-White scientists appear on fewer editorial boards, spend more time under review, and receive fewer citations | PNAS
Disparities continue to pose major challenges in various aspects of science. One such aspect is editorial board composition, which has been shown t...
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ANU NCIG (National Centre for Indigenous Genomics) @ncig2013.bsky.social · 27/11/2024
Yesterday, our leadership team Alex Brown and Azure Hermes joined IAPP (International Association of Privacy Professionals) Adam Ford at #ANZ24 to discuss #privacy, data protection, and Indigenous data sovereignty. Thanks to IAPP for inviting these critical conversations. #IndigenousDataSovereignty
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Nathan Jankowski @inthedarklab.bsky.social · 27/11/2024
This seems strangely familiar and equally as short sighted
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John Wiswell @wiswell.bsky.social · 26/11/2024
The expected outcome of brand allyship. Nevertheless, it sucks to see it happening to rapidly. Remember to show up for our trans siblings. Protest for them. Treasure them at Pride. Your ire belongs to brand floats.
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James Vincent @jjvincent.bsky.social · 26/11/2024
a haunting front page, and rightfully so: we should be haunted by this. www.nytimes.com/live/2024/11...
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Yassine @smiao.bsky.social · 26/11/2024
Unbelievable work
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Adam M Novak @adamnovak.graphs.vg · 26/11/2024
videocast.nih.gov/watch=55379
videocast.nih.gov
Native American Heritage Month Event: “I am the data, the data is me!”: Centering Culture and Indigenist Ethics and Principles in Building an Indigenous Reference Genome
In honor of Native American Heritage Month, the NIH Tribal Health Research Office invites you to a distinguished panel presentation featuring world renown Indigenous genomic researchers and bioethicis...
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Yassine @smiao.bsky.social · 26/11/2024
It’s been 20+ years since most public #Universities started running like businesses, with VCs getting huge salaries. But somehow, they are all in financial trouble? Am I missing something? 🤔
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Altmetric @altmetric.com · 25/11/2024
“I know of no time in human history where ignorance was better than knowledge.” - Neil deGrasse Tyson #AcademicSky #Altmetrics #HigherEd
Blue Altmetric badge with an 8 in the centre
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David Ho @davidho.bsky.social · 25/11/2024
Your bicycle is not surveilling you.
theconversation.com
Modern cars are surveillance devices on wheels with major privacy risks – new report
If your car connects to the internet, what personal data could it be sharing – and even selling? A new report on Australia’s 15 most popular car brands reveals these privacy concerns.
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Su-In Lee @suinlee.bsky.social · 24/11/2024
Here’s the updated Computational Biology Starter Pack! Let me know if you'd like to be included. go.bsky.app/QVPoZXp
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Sandra Newman @sannewman.bsky.social · 12/02/2024
Humans share 70% of our DNA with zebrafish. So when you're having difficulty getting anything done, it's usually because a zebrafish is using the DNA.
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Sherry Pagoto, PhD @drsherrypagoto.bsky.social · 12/11/2024
I have been on Promotion and Tenure Committees for several years now. Here are some things I wish candidates knew. A thread! Complete with ridiculous gifs 😀 PTR committee members, please add to this thread! 1/x
media.tenor.com
a cartoon of spongebob saying i 'm ready for promotion
ALT: a cartoon of spongebob saying i 'm ready for promotion
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Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 07/11/2024
We now have openondemand.org live on the @ucdavis.bsky.social cluster Hive. I predict it'll be game changing in providing HPC access for folks not at ease w/ the unix commandline. Need to run Rstudio w/ 100 cores? No prob. Want to launch a desktop to run a GUI w/ 1Tb of RAM? We've got you covered.
openondemand.org
Open OnDemand | Connecting Computing Power With Powerful Minds
Open OnDemand empowers students, researchers, and industry professionals with remote web access to supercomputers.
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Stephen Turner @stephenturner.us · 15/11/2024
A thread with some new starter packs in genomics and bioinformatics 🧵 1/13...
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