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Patrick Cherry

@pcherry

MolBio, tech, & culture enthusiasm outlet. Drinking from the fire hose, shouting into the void. he/him๐Ÿ‘จโ€๐Ÿ”ฌ๐Ÿงฌ๐Ÿ‘จโ€๐Ÿ’ป๐Ÿง—โ€โ™‚๏ธ๐Ÿณ๏ธโ€๐ŸŒˆ Senior Scientist at BillionToOne in R&D, working on all things NGS, liquid biopsy, and bioinformatic https://pcherry.io/

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05.08.2023
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Latest posts by Patrick Cherry @pcherry

New paper showing that much of the apparent success of protein language models in predicting mutational effects is a mirage: These models mostly memorize sites. 1/
www.biorxiv.org/content/10.6...

11.03.2026 15:18 ๐Ÿ‘ 167 ๐Ÿ” 70 ๐Ÿ’ฌ 6 ๐Ÿ“Œ 5
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Wow convection over the Diablo range in...*checks calendar*.... February?

28.02.2026 22:42 ๐Ÿ‘ 23 ๐Ÿ” 4 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
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Color Game โ€” How Well Can You Remember Colors? We show you colors. You recreate them from memory. Challenge friends to beat your score. It's harder than you think. Play free at dialed.gg.

46.2/50. I remember colors better than I remember names. Come at me. dialed.gg?c=E965V4

21.02.2026 23:07 ๐Ÿ‘ 0 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
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A new systematic analysis of intermittent fasting from 22 randomized trials shows no advantage for weight loss or other outcomes compared with regular diet advice
www.cochranelibrary.com/cdsr/doi/10....

16.02.2026 01:02 ๐Ÿ‘ 277 ๐Ÿ” 80 ๐Ÿ’ฌ 9 ๐Ÿ“Œ 10
Joseph Cox (@josephcox@infosec.exchange) 404 Media just had an ad during the #SuperBowl! We Googled "smallest TV markets in the United States" and bought an ad for $2,550 that only ran in Ottumwa, Iowa, population 25,000. That still counts ...

@kairyssdal.bsky.social here is the second person ever to mention Ottumwa, Iowaโ€”everโ€”in my life.

infosec.exchange/@josephcox/1...

09.02.2026 07:54 ๐Ÿ‘ 0 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0

the cool part about the Dumbarton Bridge is you can bike from Union City BART along Alameda Creek and all the way out on the levee trails and just kind of be in the middle of the bay hanging out

09.02.2026 00:24 ๐Ÿ‘ 12 ๐Ÿ” 2 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0

Iโ€™m not actually watching but I cannot stop my self from saying this:

They should show the Dumbarton Bridge

08.02.2026 23:46 ๐Ÿ‘ 189 ๐Ÿ” 28 ๐Ÿ’ฌ 14 ๐Ÿ“Œ 3

Thereโ€™s a phenomenon rarely discussed or valued in American society that is worth its weight in figurative and literal gold: the practical benefits and advantages of being a Dependable, Pleasant, and Helpful person. I have and continue to reap tangible benefits from my dad being a good person

02.02.2026 20:35 ๐Ÿ‘ 6 ๐Ÿ” 1 ๐Ÿ’ฌ 1 ๐Ÿ“Œ 0
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Guinea worm on track to be 2nd eradicated human disease; only 10 cases in 2025 When the eradication program began in 1986, there were a 3.5 million cases.

When the Guinea worm eradication program began in 1986, there were an estimated 3.5 million cases across 21 countries in Africa and Asia.

02.02.2026 21:42 ๐Ÿ‘ 69 ๐Ÿ” 22 ๐Ÿ’ฌ 9 ๐Ÿ“Œ 4
There is far more outrage from tech leaders over a wealth tax than masked ICE agents terrorizing communities and executing civilians in the streets. 

Tells you what you need to know about the values of our industry.

There is far more outrage from tech leaders over a wealth tax than masked ICE agents terrorizing communities and executing civilians in the streets. Tells you what you need to know about the values of our industry.

OpenAI exec James Dyett calling out the cowardice

25.01.2026 19:11 ๐Ÿ‘ 9471 ๐Ÿ” 1737 ๐Ÿ’ฌ 158 ๐Ÿ“Œ 121
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From pandas 3.0.0, released 2 days ago.

23.01.2026 20:55 ๐Ÿ‘ 8 ๐Ÿ” 1 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
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Zach Weinersmith (@zachweinersmith.bsky.social) Full wicked burn here: http://www.smbc-comics.com/comic/unified-2 #smbc

๐Ÿ”ฅ๐Ÿ”ฅ๐Ÿ”ฅ

fed.brid.gy/r/https://bs...

22.01.2026 19:54 ๐Ÿ‘ 0 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
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Millions of people imperiled through sign-in links sent by SMS Even well-known services with millions of users are exposing sensitive data.

Stop authenticating by SMS. It is insecure for multiple reasons.

If your website / service does this, give users the option to disable it for their account.

arstechnica.com/security/202...

22.01.2026 00:07 ๐Ÿ‘ 0 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0

The choice that matters isn't Tamiflu vs Xofluza. It's today vs tomorrow. Same-day flu treatment was associated with 64% lower mortality. Drug selection? Similar outcomes.

11.01.2026 17:30 ๐Ÿ‘ 1 ๐Ÿ” 1 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
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Orhun Parmaksฤฑz ๐Ÿ‘พ (@orhun@fosstodon.org) Attached: 1 image Working with biological sequencesโ€ฆ in the terminal ๐Ÿ”ฅ ๐Ÿงช **SeqTUI** โ€” A terminal-based sequence data viewer & toolkit. ๐Ÿงฌ View, translate, convert to FASTA, extract SNPs & combine hu...

fosstodon.org/@orhun/11582...

03.01.2026 07:46 ๐Ÿ‘ 0 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0

More than 48 hours into the PG&E meltdown & most of the Muni subway is still down. Right as people get ready for the holiday.

Itโ€™s outrageous & unacceptable. Itโ€™s time for serious accountability. Itโ€™s time for San Francisco to break away from PG&E & create a public utility.

23.12.2025 01:59 ๐Ÿ‘ 261 ๐Ÿ” 25 ๐Ÿ’ฌ 12 ๐Ÿ“Œ 7
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The Sunset is dark & quiet during the blackout.

Pedestrians are using flashlights to get around & restaurants have closed early. Kitchen staff are taking the bus or scootering home.

Patrons are dining by candlelight.

Elsewhere, Waymos are stuck, snarling traffic.

21.12.2025 03:13 ๐Ÿ‘ 43 ๐Ÿ” 15 ๐Ÿ’ฌ 5 ๐Ÿ“Œ 6
Jim Gardner (@jimgar@hachyderm.io) Ok I think I get it. numpy is base R

hachyderm.io/@jimgar/1157...

20.12.2025 06:06 ๐Ÿ‘ 0 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
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Wash, rise, repeat. ๐ŸŒซ๏ธ

Tule fog blankets Central Valley, Bay Area. What day is this now?

09.12.2025 17:15 ๐Ÿ‘ 40 ๐Ÿ” 3 ๐Ÿ’ฌ 1 ๐Ÿ“Œ 1

Love how waymos will just like block the bus for 5 minutes

22.11.2025 20:35 ๐Ÿ‘ 9 ๐Ÿ” 2 ๐Ÿ’ฌ 2 ๐Ÿ“Œ 0
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Open enrolllment: re-evaluating a high-deductible health plan โ€“ Frameshift A blog of indeterminate subject matter and publication frequency from a bioinformatician and data scientist by way of molecular biology.

Quick update on #openenrollment HDHPs / HSAs: benefits from employers seem to be broadly getting worse. And this has implications for whether an HDHP will pay off.
pcherry.io/posts/2025_1...

15.11.2025 22:54 ๐Ÿ‘ 0 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
The R Data Scientist (@rstatsblazeemail@mastodon.social) Python is not a great language for data science. Part 1: The experience https://blog.genesmindsmachines.com/p/python-is-not-a-great-language-for #rstats #datascience

mastodon.social/@rstatsblaze...

15.11.2025 03:04 ๐Ÿ‘ 0 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
Email from Capital One:

If youโ€™re traveling internationally, here are a few things you can do to prepare.
 
BEFORE YOU GO:
Research which payment methods are most common in your travel destinationโ€”acceptance may vary from before.
Check out these resources to help you plan.
Bring a second form of paymentโ€”cash or a credit cardโ€”just in case.
 
 
WHILE ABROAD:
Look for the Discoverยฎ, PULSEยฎ or Diners Club Internationalยฎ logo at merchants and ATMs. Your debit card should work at any of these locations.
Try your cardโ€”even if you donโ€™t see a logo, your card may still work.

Email from Capital One: If youโ€™re traveling internationally, here are a few things you can do to prepare. BEFORE YOU GO: Research which payment methods are most common in your travel destinationโ€”acceptance may vary from before. Check out these resources to help you plan. Bring a second form of paymentโ€”cash or a credit cardโ€”just in case. WHILE ABROAD: Look for the Discoverยฎ, PULSEยฎ or Diners Club Internationalยฎ logo at merchants and ATMs. Your debit card should work at any of these locations. Try your cardโ€”even if you donโ€™t see a logo, your card may still work.

Imagine buying a payment card network that has a low acceptance rate, especially abroad, and explaining to customers that they should lower the expectations but try anyway

14.11.2025 06:16 ๐Ÿ‘ 2 ๐Ÿ” 3 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0

โ€˜Nicknameโ€™ is not โ€˜nickโ€™ + โ€˜name.โ€™

It was originally โ€˜ekename.โ€™

โ€˜Ekeโ€™ was the Middle English word for โ€œalsoโ€ or โ€œin addition.โ€

Since โ€˜ekenameโ€™ began with a vowel, people used โ€˜anโ€™ before it.

Over time, 'an ekename' became 'a nickname.'

11.11.2025 19:05 ๐Ÿ‘ 1593 ๐Ÿ” 364 ๐Ÿ’ฌ 30 ๐Ÿ“Œ 48
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Why you should elect a high-deductible health plan โ€“ Frameshift A blog of indeterminate subject matter and publication frequency from a bioinformatician and data scientist by way of molecular biology.

As you all know, I have written about the utility of HSAs (health savings accounts): https://pcherry.io/posts/2024_01_02-why_you_should_elect_a_hdhp

07.11.2025 19:42 ๐Ÿ‘ 0 ๐Ÿ” 1 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0

Also, NYT has reported on new healthcare costs that are eligible for payment from an HSA: https://archive.ph/oY5b6

07.11.2025 19:41 ๐Ÿ‘ 0 ๐Ÿ” 1 ๐Ÿ’ฌ 1 ๐Ÿ“Œ 0
Original post on hachyderm.io

PSA: as you think about open enrollment for next year, Morningstar published a review of the common HSA (health savings account) providers [โ€ฆ]

07.11.2025 19:39 ๐Ÿ‘ 0 ๐Ÿ” 1 ๐Ÿ’ฌ 1 ๐Ÿ“Œ 0
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GitHub - Cookie-AutoDelete/Cookie-AutoDelete: Firefox and Chrome WebExtension that deletes cookies and other browsing site data as soon as the tab closes, domain changes, browser restarts, or a combin... Firefox and Chrome WebExtension that deletes cookies and other browsing site data as soon as the tab closes, domain changes, browser restarts, or a combination of those events. - Cookie-AutoDelete/...

For general purpose tidying up the web, I use CookieAutoDelete, which has great setting to keep or discard cookies based on website, patterns, etc.

For all other web nonsense, I use uBlock Origin in Waterfox browser to stop them from displaying.

github.com/Cookie-AutoD...

23.10.2025 15:09 ๐Ÿ‘ 0 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
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GitHub - cavi-au/Consent-O-Matic: Browser extension that automatically fills out cookie popups based on your preferences Browser extension that automatically fills out cookie popups based on your preferences - cavi-au/Consent-O-Matic

+1 for Consent-O-Matic for auto GDPR cookie and provacy pop-over completion. It works effectively and wicked fast on most websites.
github.com/cavi-au/Cons...

23.10.2025 15:03 ๐Ÿ‘ 0 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
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From a new @thelancet.com article today entitled "Health care in the USA: money has become the mission" www.thelancet.com/journals/lan...

21.10.2025 22:49 ๐Ÿ‘ 191 ๐Ÿ” 80 ๐Ÿ’ฌ 12 ๐Ÿ“Œ 8