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Hassan uz Zaman @hassanzaman.bsky.social · 12d

After testing virtually all reasonable permutations of sample prep, spectra acquisition, database selection, data processing...

This team (convincingly, I think) demonstrates that ~85% of the small, *annotated* bacterial proteins are undetectable by mass spec—much less non-annotated ones. (1/4) 🧵

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Anne-Ruxandra Carvunis @carvunis.bsky.social · Jul 12

Yes!!

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Jeremy Berg @jeremymberg.bsky.social · Jun 18

The findings at the recent trial and today's Columbia chaos is pushing me to the edge.

I just sent the following email...

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Jason Moore @moorejh.bsky.social · Jun 14

I heard this morning that my informatics colleague Dr. Atul Butte passed after a battle with cancer. He was a giant in the field & inspired many of us over his distinguished career. He was a passionate champion of the power of big data & his impact on our field is immeasurable. RIP Atul & thanks.

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Carl T. Bergstrom @carlbergstrom.com · Jun 6

Very smart, high ROI initiative from the Spencer Foundation.

Providing bridge funding for canceled NSF grants:

1) directs funds to projects already screened by a top-noch review process.
2) avoids imposing proposal prep costs on researchers.
3) ameliorates the disruption from GOP sabotage.

Rapid Response Bridge Funding Program

In the face of recent abrupt shifts in federal funding for education research, including large-scale terminations of National Science Foundation (NSF) research grant awards, we have developed a rap...

www.spencer.org

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Jeremy Berg @jeremymberg.bsky.social · May 27

Interview with a Harvard graduate student from Harvard about some of the consequences of the administration's current policies.

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Jeremy Berg @jeremymberg.bsky.social · May 23

Senator Durbin noted that some (I believe Republican Senators) had indicated the US had been doing more than its share of biomedical research and it was time for other countries take a turn.

I felt I had to interrupt to respond...

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Michael Baym @baym.lol · May 24

I appreciate the offers from other scientists to help Harvard (students, labs, etc) through this attack, but what would be most helpful is for you to use your position to contact your elected representatives and make it clear this fight isn't just Harvard, it will affect you, and their districts too

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Teresa O'Meara @teresaomeara.bsky.social · May 16

I'm so excited to share a new preprint on exploring sequence, structure, and function relationships and how we can use evolutionary information to help us design new proteins that work in the native context of a cell
www.biorxiv.org/content/10.1...

Deep homology and design of proteasome chaperone proteins in Candida auris

A central tenet of biology is that protein structure mediates the sequence-function relationship. Recently, there has been excitement about the promise of advances in protein structure modeling to gen...

www.biorxiv.org

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Dan Garisto @dangaristo.bsky.social · May 7

An NSF PO on its upcoming 75th anniversary: "In nature, systems evolve towards minimum of energy, following the laws of physics. In the US today things evolve to a location of maximum pain, violating the laws of the land." www.linkedin.com/posts/tomasz...

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Jeremy Berg @jeremymberg.bsky.social · May 6

As a follow-up to the Kaiser interview, here is my exchange with Dr. Bhattacharya starting Sunday evening...

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A letter from Jeremy Berg to NIH Director Jayanta Bhattacharya about the need to award grants promptly.

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Gen Wojcik @genandgenes.bsky.social · Apr 24

I wrote about how we must stand and fight against the threat of eugenics.

Fueled by white nationalism and scientific racism, these beliefs are factually wrong and ethically abhorrent.

This fight includes supporting efforts to diversify our workforce & science. To stop now would be a deep betrayal.

Eugenics is on the rise again: human geneticists must take a stand

Scientists must push back against the threat of rising white nationalism and the dangerous and pseudoscientific ideas of eugenics.

www.nature.com

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Erna Magnúsdóttir @e-rna.bsky.social · Apr 22

Join our lab to study transcriptional regulation in mouse germ cells and embryonic stem cells at @haskoliislands.bsky.social in beautiful Reykjavík!
Apply here: tinyurl.com/34y6jcrd
#epigenetics #TranscriptionFactors #transcriptomics #stemCells #pluripotency

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Jeremy Berg @jeremymberg.bsky.social · Apr 22

ATTENTION

I am hearing from several sources that "NIH" sent out termination notices for most or all "diversity" awards yesterday to coincide with the new Notice.

If you were affected by this and are willing to share, please DM me or reach me on Signal (jeremymberg.78)

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a person is holding a red object in their hand .

ALT: a person is holding a red object in their hand .

media.tenor.com

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Lucia Peixoto @sciencenlucia.bsky.social · Apr 21

April is #Autism Awareness Month. This is a month to accept, understand and love those in the Autism Spectrum. Above all accepting that someone is different and respecting their differences is the most important thing we can do. Here are some facts to help understand (a thread):

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Jeremy Berg @jeremymberg.bsky.social · Apr 18

Another moment of WTF...

The evolution of the www.covid.gov site...

Warning: May be jarring!

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a man with curly hair and glasses is making a funny face and saying huh .

ALT: a man with curly hair and glasses is making a funny face and saying huh .

media.tenor.com

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Kevin Hall @kevinh-phd.bsky.social · Apr 16

After 21 years at my dream job, I’m very sad to announce my early retirement from the National Institutes of Health. My life’s work has been to scientifically study how our food environment affects what we eat, and how what we eat affects our physiology.

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c0nc0rdance @c0nc0rdance.bsky.social · Apr 11

All snails have tentacles. Some have 1 pair, other 2 pair. In some (but not all) snails, the eyes are placed at the end of one of these pairs of tentacles, called an 'ommatophore' or eyestalk.

And, as you can see, they can fully RETRACT (evert) them at will.

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Anne-Ruxandra Carvunis @carvunis.bsky.social · Apr 11

What?!?!? @jeremymberg.bsky.social I'm so sorry. Still faculty i hope?

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Tera Levin @teralevin.bsky.social · Mar 28

💐 To NIH and NSF program officers, and anyone else trying to keep those institutions alive:

Thank you for trying to do an impossible job in an impossible time. I’m sorry for all of us that this is the world we’re living in. 1/n

Jeremy Berg @jeremymberg.bsky.social · Mar 28

Just before bedtime last night I got a message from inside NIH which read:

“It’s so, so bad and no one cares (who has any influence)”

I asked “What, in particular?”

My friend responded “Everything”

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Jeremy Berg @jeremymberg.bsky.social · Mar 26

New story about grant terminations in Pittsburgh

www.post-gazette.com/business/hea...

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Three more Pitt researchers lose NIH funding

‘I don’t understand the politics.’

www.post-gazette.com

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Tom Kindlon @tomkindlon.bsky.social · Mar 20

🧵
From Medscape (widely read by health professionals):

"What Not to Say to People With Complex Chronic Illness"

www.medscape.com/viewarticle/...
(may require free registration)

#MEcfs #LongCovid

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Medscape Medical News

What Not to Say to People With Complex Chronic Illness
Miriam E. Tucker
March 18, 2025

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For people with complex chronic diseases such as long COVID, myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS), and dysautonomia, a clinician’s inadvertently hurtful language can compound suffering and derail effective communication.

photo of Dr Svetlana Blitschteyn
Svetlana Blitshteyn, MD
To address this, Svetlana Blitshteyn, MD, a neurologist who is the director of Dysautonomia Clinic at Jacobs School of Medicine and Biomedical Sciences, University of Buffalo, and Nancy J. Smyth, PhD, professor and former dean at the School of Social Work, University at Buffalo, both in Buffalo, New York, co-authored a paper entitled Language Matters: What Not to Say to Patients with Long COVID, Myalgic Encephalomyelitis/Chronic Fatigue Syndrome, and Other Complex Chronic Disorders. In it, they provided a table of 16 “never words” that clinicians should avoid saying to patients, explanations of why the phrases are problematic, and proposed alternatives for more effective and empathetic communication.

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Anne-Ruxandra Carvunis @carvunis.bsky.social · Mar 20

That's great, thank you!

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Jake Wintermute @synbio1.bsky.social · Mar 3

I know that the mRNA is larger than the protein it codes for but I don't believe it

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Jeremy Berg @jeremymberg.bsky.social · Mar 17

If you are wondering why universities and academic medical centers seem so stressed, one major reason is these imposed cash flow challenges.

These funds were expected in good faith (and based on past practices), but have not been forthcoming.

12/n

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