Kristen Naegle (she/her)
@knaegle.bsky.social
Associate Professor of Biomedical Engineering, Computational and Systems biology research of how cells use biochemical networks to make decisions.
The NIH moving to only allowing 6 total applications per year will have a disproportionate effect on marginalized scientists.
“a Black applicant has to put in 9 proposals to get approximately the same 62% chance a white applicant achieves with only 5 applications”
drugmonkey.scientopia.org/2020/12/03/t...
drugmonkey.scientopia.org/2020/12/03/t...
The cumulative probability of getting NIH grants
One of the career strategies we have discussed numerous times in various contexts is how many grant applications one should be submitting to the NIH. I have been a consistent advocate for …mo…
drugmonkey.scientopia.org
January 28, 2026 at 4:03 PM
The NIH moving to only allowing 6 total applications per year will have a disproportionate effect on marginalized scientists.
Reposted by Kristen Naegle (she/her)
"P-Hacking with one prompt" by Shigeto Kawahara.
TL/DR: Ask LLMs to find a significant effect, and they will oblige.
www.researchgate.net/publication/...
TL/DR: Ask LLMs to find a significant effect, and they will oblige.
www.researchgate.net/publication/...
(PDF) P-hacking with one prompt
PDF | This brief note reports a mini-experiment, which tested whether major AI systems (Gemini, Claude, and ChatGPT) readily perform p-hacking when... | Find, read and cite all the research you need o...
www.researchgate.net
January 28, 2026 at 10:58 AM
"P-Hacking with one prompt" by Shigeto Kawahara.
TL/DR: Ask LLMs to find a significant effect, and they will oblige.
www.researchgate.net/publication/...
TL/DR: Ask LLMs to find a significant effect, and they will oblige.
www.researchgate.net/publication/...
Reposted by Kristen Naegle (she/her)
1. Did you know that Girl Scouts has, for a long time, accepted trans girls and nonbinary scouts?
Trans kids are under attack. Every year, I make a thread of trans and nonbinary girl scouts you can get your cookies from.
Lets get our cookies from them this year in solidarity!
Trans kids are under attack. Every year, I make a thread of trans and nonbinary girl scouts you can get your cookies from.
Lets get our cookies from them this year in solidarity!
2026 Trans Girl Scouts To Order Cookies From!
This year, consider ordering your Girl Scout cookies from a trans girl scout to make their day!
www.erininthemorning.com
January 6, 2026 at 4:16 PM
1. Did you know that Girl Scouts has, for a long time, accepted trans girls and nonbinary scouts?
Trans kids are under attack. Every year, I make a thread of trans and nonbinary girl scouts you can get your cookies from.
Lets get our cookies from them this year in solidarity!
Trans kids are under attack. Every year, I make a thread of trans and nonbinary girl scouts you can get your cookies from.
Lets get our cookies from them this year in solidarity!
Reposted by Kristen Naegle (she/her)
Once again, I implore media outlets to stop saying these are CDC decisions.
These are changes being made unilaterally by RFK Jr. against the expert advice of CDC scientists.
I note that RFK Jr. no longer recommends flu vaccine for kids in the midst of a horrible influenza year.
These are changes being made unilaterally by RFK Jr. against the expert advice of CDC scientists.
I note that RFK Jr. no longer recommends flu vaccine for kids in the midst of a horrible influenza year.
CDC overhauls childhood vaccine schedule to resemble Denmark in unprecedented move
The new U.S. guidelines recommend all children get vaccines for 11 diseases, compared with the 18 previously on the schedule.
www.nbcnews.com
January 5, 2026 at 7:34 PM
Once again, I implore media outlets to stop saying these are CDC decisions.
These are changes being made unilaterally by RFK Jr. against the expert advice of CDC scientists.
I note that RFK Jr. no longer recommends flu vaccine for kids in the midst of a horrible influenza year.
These are changes being made unilaterally by RFK Jr. against the expert advice of CDC scientists.
I note that RFK Jr. no longer recommends flu vaccine for kids in the midst of a horrible influenza year.
Reposted by Kristen Naegle (she/her)
Wow
About that exclusive, "closed-to-press" MAHA summit last week with RFK and JD Vance: I got in.
Here's what I saw. 🧵 🧪
www.nature.com/articles/d41...
Here's what I saw. 🧵 🧪
www.nature.com/articles/d41...
November 21, 2025 at 5:31 PM
Wow
Reposted by Kristen Naegle (she/her)
I agree with EVERY SINGLE ONE of these rules. I came to most of them on my own because I never had any mentorship for my mentorship. And despite being published in PLOS Comp Bio, they apply to EVERY undergraduate and masters student project.
From @plos.org #Computational #Biology | Ten simple rules for early-career researchers supervising short-term student projects | #Education #Bioinformatics #OpenScience #PLOSCBTSR #ECR 🧪 🔓 CC/ @knaegle.bsky.social
⬇️
journals.plos.org/ploscompbiol...
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journals.plos.org/ploscompbiol...
Ten simple rules for early-career researchers supervising short-term student projects
Author summary Supervising undergraduate or master’s research projects is a vital aspect of academic life, offering opportunities for both student development and supervisor growth. For many early-car...
journals.plos.org
November 19, 2025 at 6:26 PM
I agree with EVERY SINGLE ONE of these rules. I came to most of them on my own because I never had any mentorship for my mentorship. And despite being published in PLOS Comp Bio, they apply to EVERY undergraduate and masters student project.
Reposted by Kristen Naegle (she/her)
Marching and protesting is great but real action is even better. If you can afford it, find and donate to a local food pantry in your area. The families that depend on SNAP benefits could really use the support over coming weeks to months.❤️🫂
give.feedingamerica.org/SnP--N8F9EuA...
give.feedingamerica.org/SnP--N8F9EuA...
Join me in ending hunger
I just donated to @FeedingAmerica to help make sure families and kids have the meals they need!
http://feeding.am/givemeals
give.feedingamerica.org
October 23, 2025 at 11:43 AM
Marching and protesting is great but real action is even better. If you can afford it, find and donate to a local food pantry in your area. The families that depend on SNAP benefits could really use the support over coming weeks to months.❤️🫂
give.feedingamerica.org/SnP--N8F9EuA...
give.feedingamerica.org/SnP--N8F9EuA...
Reposted by Kristen Naegle (she/her)
Hey guys... this is serious please go and opt out NOW!
August 12, 2025 at 8:00 PM
Hey guys... this is serious please go and opt out NOW!
Reposted by Kristen Naegle (she/her)
These are the most challenging times for early-career scientists and engineers.
My team is doing its bit to help by maintaining and even expanding our database of funding opportunities for early-career researchers.
We found 437 of them.
Download it freely here: research.jhu.edu/rdt/funding-...
My team is doing its bit to help by maintaining and even expanding our database of funding opportunities for early-career researchers.
We found 437 of them.
Download it freely here: research.jhu.edu/rdt/funding-...
August 11, 2025 at 11:54 AM
These are the most challenging times for early-career scientists and engineers.
My team is doing its bit to help by maintaining and even expanding our database of funding opportunities for early-career researchers.
We found 437 of them.
Download it freely here: research.jhu.edu/rdt/funding-...
My team is doing its bit to help by maintaining and even expanding our database of funding opportunities for early-career researchers.
We found 437 of them.
Download it freely here: research.jhu.edu/rdt/funding-...
Please give feedback. I know I'm considering the new NIH mandate that open access has to be immediately available, meaning that grantees are footing open access bills at journals to meet the mandate. That can mean $5-$12K a paper of taxpayers money.
NIH wants to hear from you. No really.
Request for Information on Maximizing Research Funds by Limiting Allowable Publishing Costs
grants.nih.gov/grants/guide...
Request for Information on Maximizing Research Funds by Limiting Allowable Publishing Costs
grants.nih.gov/grants/guide...
NOT-OD-25-138: Request for Information on Maximizing Research Funds by Limiting Allowable Publishing Costs
NIH Funding Opportunities and Notices in the NIH Guide for Grants and Contracts: Request for Information on Maximizing Research Funds by Limiting Allowable Publishing Costs NOT-OD-25-138. NIH
grants.nih.gov
July 31, 2025 at 12:27 PM
Please give feedback. I know I'm considering the new NIH mandate that open access has to be immediately available, meaning that grantees are footing open access bills at journals to meet the mandate. That can mean $5-$12K a paper of taxpayers money.
No, no, this is all wrong. The quote is actually supposed to be "let them eat cake".
Apropos of nothing, Happy Bastille day to all those who celebrate.
Apropos of nothing, Happy Bastille day to all those who celebrate.
“Don’t eat carrot cake. Eat real food,” said Medicaid and Medicare Administrator Mehmet Oz to people who are concerned about Medicaid cuts, after bringing Fox host Stuart Varney a carrot cake as a gift.
Dr. Oz Tells Americans Who Are Concerned About Medicaid Cuts to Eat Less Cake
Millions of Americans will lose health care coverage due to the Medicaid cuts in Trump’s “Big Beautiful Bill.”…
buff.ly
July 14, 2025 at 10:32 PM
No, no, this is all wrong. The quote is actually supposed to be "let them eat cake".
Apropos of nothing, Happy Bastille day to all those who celebrate.
Apropos of nothing, Happy Bastille day to all those who celebrate.
Reposted by Kristen Naegle (she/her)
There are currently more kids in Texas with measles than there are transgender collegiate athletes in all of America.
Guess which one they want you to focus on.
Guess which one they want you to focus on.
July 12, 2025 at 4:00 PM
There are currently more kids in Texas with measles than there are transgender collegiate athletes in all of America.
Guess which one they want you to focus on.
Guess which one they want you to focus on.
$123,536,510 of federally appropriated funding has been stolen from Virginia schools
The Trump administration is currently holding hostage nearly $7B in federal funding for K-12 schools--funding that was supposed to be distributed yesterday.
They've stolen $80M from Wisconsin students and teachers alone. How much have they stolen from your state?
www.edweek.org/policy-polit...
They've stolen $80M from Wisconsin students and teachers alone. How much have they stolen from your state?
www.edweek.org/policy-polit...
See How Much School Funding Trump Is Holding Back From Your State
The administration is holding back nearly $7 billion for English learners, after-school programs, professional development, and more.
www.edweek.org
July 2, 2025 at 2:23 PM
$123,536,510 of federally appropriated funding has been stolen from Virginia schools
Reposted by Kristen Naegle (she/her)
On just one Friday the Supreme Court brought my citizenship into question and the Trump administration gutted my employer and possibly threaten my career. I could only write about one of those things. newrepublic.com/article/1973...
UVA President James Ryan Caved to MAGA—and They Forced Him Out Anyway
Ryan had not fought Trump on DEI and other matters. His forced ouster proves that no capitulation is enough.
newrepublic.com
June 28, 2025 at 1:24 PM
On just one Friday the Supreme Court brought my citizenship into question and the Trump administration gutted my employer and possibly threaten my career. I could only write about one of those things. newrepublic.com/article/1973...
Reposted by Kristen Naegle (she/her)
In the fallout of James Ryan resigning from UVA, @sivav.bsky.social provides a clear argument of what higher ed is facing & why capitulation will not save you. newrepublic.com/article/1973...
June 28, 2025 at 11:18 AM
In the fallout of James Ryan resigning from UVA, @sivav.bsky.social provides a clear argument of what higher ed is facing & why capitulation will not save you. newrepublic.com/article/1973...
Reposted by Kristen Naegle (she/her)
thank you, @sivav.bsky.social, for putting a lot of what I’m furious about in plain language. newrepublic.com/article/1973...
UVA President James Ryan Caved to MAGA—and They Forced Him Out Anyway
Ryan had not fought Trump on DEI and other matters. His forced ouster proves that no capitulation is enough.
newrepublic.com
June 28, 2025 at 9:48 AM
thank you, @sivav.bsky.social, for putting a lot of what I’m furious about in plain language. newrepublic.com/article/1973...
Reposted by Kristen Naegle (she/her)
PLEASE SHARE 🧪‼️
Vaccination schedules on the CDC website have already started changing under RFK Jr.
Scientific American has published a guide to the EVIDENCE-BASED vaccine recommendations in place BEFORE ACIP members were removed by the administration.
www.scientificamerican.com/article/see-...
Vaccination schedules on the CDC website have already started changing under RFK Jr.
Scientific American has published a guide to the EVIDENCE-BASED vaccine recommendations in place BEFORE ACIP members were removed by the administration.
www.scientificamerican.com/article/see-...
Here’s Your Cheat Sheet for Vaccine Recommendations Backed by Science
These graphics will guide you through science-based vaccine guidelines for children and adults
www.scientificamerican.com
June 25, 2025 at 4:00 PM
PLEASE SHARE 🧪‼️
Vaccination schedules on the CDC website have already started changing under RFK Jr.
Scientific American has published a guide to the EVIDENCE-BASED vaccine recommendations in place BEFORE ACIP members were removed by the administration.
www.scientificamerican.com/article/see-...
Vaccination schedules on the CDC website have already started changing under RFK Jr.
Scientific American has published a guide to the EVIDENCE-BASED vaccine recommendations in place BEFORE ACIP members were removed by the administration.
www.scientificamerican.com/article/see-...
So happy to see this work is out and I hope it helps people find their best lab fit!
From @knaegle.bsky.social & colleagues in @plos.org #Computational #Biology | Ten simple rules for effectively assessing lab environments | I like all of the rules, but particularly Rule 10: Know the emergency exits | #Education #PLOSCBTSR 🧬 🖥️ 🧪 🔓
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journals.plos.org/ploscompbiol...
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journals.plos.org/ploscompbiol...
Ten simple rules for effectively assessing lab environments
journals.plos.org
June 25, 2025 at 7:04 PM
So happy to see this work is out and I hope it helps people find their best lab fit!
Reposted by Kristen Naegle (she/her)
Charlottesville is turning into an e-bike city!
Great article from @nathanalderman.bsky.social on the @cvillecityhall.bsky.social e-bike voucher program, which is one piece of the city’s efforts to create a better transportation system.
c-ville.com/citys-e-bike...
Great article from @nathanalderman.bsky.social on the @cvillecityhall.bsky.social e-bike voucher program, which is one piece of the city’s efforts to create a better transportation system.
c-ville.com/citys-e-bike...
City’s e-bike voucher program provides some extra pedal power - C-VILLE Weekly
UVA doctoral candidate T.C.A. Achintya needed a better way to get around. A new program from the City of Charlottesville made it happen. “I had contemplated buying a regular bike, since I don’t own a ...
c-ville.com
June 21, 2025 at 10:49 AM
Charlottesville is turning into an e-bike city!
Great article from @nathanalderman.bsky.social on the @cvillecityhall.bsky.social e-bike voucher program, which is one piece of the city’s efforts to create a better transportation system.
c-ville.com/citys-e-bike...
Great article from @nathanalderman.bsky.social on the @cvillecityhall.bsky.social e-bike voucher program, which is one piece of the city’s efforts to create a better transportation system.
c-ville.com/citys-e-bike...
Reposted by Kristen Naegle (she/her)
Almost all Nobel Prizes are awarded for work that is exploratory, or absolutely basic science with no obvious commercial or medical benefit.
You cannot predict where advancements come from, so you have to invest in science and scientists.
Targeted (corporate) science investment will never do this.
You cannot predict where advancements come from, so you have to invest in science and scientists.
Targeted (corporate) science investment will never do this.
Reminder: Nobel-prize winning PCR (1983), used in basically all genetic tech today, was only possible because of extremophile bacterium discovered in 1964 in Yellowstone funded by a small ~$80k NSF grant with no obvious application at the time. #science 🧪
www.richmondscientific.com/how-a-discov...
www.richmondscientific.com/how-a-discov...
How a discovery in Yellowstone National Park led to the development of PCR - Richmond Scientific
A discovery in Yellowstone National Park led to the development of PCR, the gold-standard COVID-19 tests used to fight the global pandemic.
www.richmondscientific.com
June 8, 2025 at 10:26 PM
Almost all Nobel Prizes are awarded for work that is exploratory, or absolutely basic science with no obvious commercial or medical benefit.
You cannot predict where advancements come from, so you have to invest in science and scientists.
Targeted (corporate) science investment will never do this.
You cannot predict where advancements come from, so you have to invest in science and scientists.
Targeted (corporate) science investment will never do this.
Reposted by Kristen Naegle (she/her)
Grant freezes versus terminations feel different, but they have the same practical effect.
We should start treating freezes as terminations, both of which can be undone by HHS / NIH whenever they want—or by court order if they refuse. They’re all illegal.
We should start treating freezes as terminations, both of which can be undone by HHS / NIH whenever they want—or by court order if they refuse. They’re all illegal.
Northwestern has not received any NIH funds since March. No written communication about why or what can be done. Thank you Ben Singer for raising awareness at #ATS2025
May 19, 2025 at 11:40 AM
Grant freezes versus terminations feel different, but they have the same practical effect.
We should start treating freezes as terminations, both of which can be undone by HHS / NIH whenever they want—or by court order if they refuse. They’re all illegal.
We should start treating freezes as terminations, both of which can be undone by HHS / NIH whenever they want—or by court order if they refuse. They’re all illegal.
Reposted by Kristen Naegle (she/her)
say it again:
4 million people work in higher ed, the largest employer in 10 states, second largest employer in 10 more, and in 60 of the 100 biggest cities
ROI for NIH and NSF for local economies is conservatively 4x, often close to 10x
demolishing higher education is economic sabotage
4 million people work in higher ed, the largest employer in 10 states, second largest employer in 10 more, and in 60 of the 100 biggest cities
ROI for NIH and NSF for local economies is conservatively 4x, often close to 10x
demolishing higher education is economic sabotage
There is a false dichotomy drawn between "the ivory tower" and "the real world," and I'm here to report that in a post-industrial society, your real-world economy absolutely hinges on the university.
University towns are factory towns. Universities drive economic activity, not the other way around.
University towns are factory towns. Universities drive economic activity, not the other way around.
A must read
May 18, 2025 at 1:45 PM
say it again:
4 million people work in higher ed, the largest employer in 10 states, second largest employer in 10 more, and in 60 of the 100 biggest cities
ROI for NIH and NSF for local economies is conservatively 4x, often close to 10x
demolishing higher education is economic sabotage
4 million people work in higher ed, the largest employer in 10 states, second largest employer in 10 more, and in 60 of the 100 biggest cities
ROI for NIH and NSF for local economies is conservatively 4x, often close to 10x
demolishing higher education is economic sabotage
This is devastating for American science, health, technology, and the economy.
Yesterday, the NIH R35 “Outstanding Investigator” grant to fund scientists in my lab studying antibiotic resistance was terminated for reasons not related to the content of the science, or any actions taken by me or members of my lab
May 14, 2025 at 11:33 AM
This is devastating for American science, health, technology, and the economy.
Reposted by Kristen Naegle (she/her)
We updated the reporting form today to clarify that we're also collecting info on "stop-work orders, unexpected non-renewals, or effective termination through updated notice of award." grant-watch.us/submit-nih.h...
If you're at one of the targeted institutions and have an active NIH grant you might want to check ERA Commons immediately for an "updated" NoA
May 13, 2025 at 2:40 AM
We updated the reporting form today to clarify that we're also collecting info on "stop-work orders, unexpected non-renewals, or effective termination through updated notice of award." grant-watch.us/submit-nih.h...
Reposted by Kristen Naegle (she/her)
We’ve become so desensitized to corruption that the Attorney General who spent years lobbying on behalf of Qatar approved a private jet gift from Qatar and it’s not even in the top 10 scandals of the week.
May 11, 2025 at 7:07 PM
We’ve become so desensitized to corruption that the Attorney General who spent years lobbying on behalf of Qatar approved a private jet gift from Qatar and it’s not even in the top 10 scandals of the week.