Kevin Bonham
@kevinbonham.com
Assistant Professor at Tufts Medicine studying microbes, brains, and the immune system 🚽🦠🧠
Fermenter, gardener, Zen Buddhist. Ask me about #julialang!
🎙️: https://audiommunity.org
🌎: https://blog.bonham.ch
💻: https://GitHub.com/kescobo
Fermenter, gardener, Zen Buddhist. Ask me about #julialang!
🎙️: https://audiommunity.org
🌎: https://blog.bonham.ch
💻: https://GitHub.com/kescobo
Reposted by Kevin Bonham
Join JuliaHealth @juliacon.bsky.social 2026 in Mainz, Germany this summer! 🌍
Submit your #julialang poster & talk proposals by Feb 28! We would love to see you there! 🤗
See @cncastillo.bsky.social announcement's for topics & details! 🤓
Post or DM if you have ❓'s!
#opensource #academicsky 🧪 🛟 📊🩺
Submit your #julialang poster & talk proposals by Feb 28! We would love to see you there! 🤗
See @cncastillo.bsky.social announcement's for topics & details! 🤓
Post or DM if you have ❓'s!
#opensource #academicsky 🧪 🛟 📊🩺
JuliaCon 2026 Health Mini-Symposium
If you are using Julia for health, medicine, or biomedical research, consider submitting an abstract to the 🩺 Health Mini-Symposium at JuliaCon 2026 (10–15 August 2026, Mainz, Germany). Abstract J...
discourse.julialang.org
January 22, 2026 at 1:13 AM
Join JuliaHealth @juliacon.bsky.social 2026 in Mainz, Germany this summer! 🌍
Submit your #julialang poster & talk proposals by Feb 28! We would love to see you there! 🤗
See @cncastillo.bsky.social announcement's for topics & details! 🤓
Post or DM if you have ❓'s!
#opensource #academicsky 🧪 🛟 📊🩺
Submit your #julialang poster & talk proposals by Feb 28! We would love to see you there! 🤗
See @cncastillo.bsky.social announcement's for topics & details! 🤓
Post or DM if you have ❓'s!
#opensource #academicsky 🧪 🛟 📊🩺
Are you a life scientist? Do you use code in your work? Then this conference is for you! Come find out why julia should power your next project
And don't forget to check out the Health-sciences and Pharma-focused minisymposia too! 🧪
bsky.app/profile/thec...
And don't forget to check out the Health-sciences and Pharma-focused minisymposia too! 🧪
bsky.app/profile/thec...
@kevinbonham.com, Rasmus Henningsson, Elisabeth Rösch, and Jakob Nybo Andersen are running a minisymposium on "Julia for Biology" at JuliaCon 2026!
Find out more at pretalx.com/juliacon-202... and submit your talk to juliacon.org/2026/cfp
#julialang #biology
Find out more at pretalx.com/juliacon-202... and submit your talk to juliacon.org/2026/cfp
#julialang #biology
February 6, 2026 at 1:41 PM
Are you a life scientist? Do you use code in your work? Then this conference is for you! Come find out why julia should power your next project
And don't forget to check out the Health-sciences and Pharma-focused minisymposia too! 🧪
bsky.app/profile/thec...
And don't forget to check out the Health-sciences and Pharma-focused minisymposia too! 🧪
bsky.app/profile/thec...
Reposted by Kevin Bonham
I am doing a short workshop in this symposium (quoted below) for folks in and around Leipzig. Here's the abstract. I really indulged myself with this one.
A Guerilla Approach to Scientific Workflow:
A Guerilla Approach to Scientific Workflow:
February 4, 2026 at 12:05 PM
I am doing a short workshop in this symposium (quoted below) for folks in and around Leipzig. Here's the abstract. I really indulged myself with this one.
A Guerilla Approach to Scientific Workflow:
A Guerilla Approach to Scientific Workflow:
Macrophages in your glands! Or are they dendritic cells? @woodrufflab.bsky.social and I discuss a new paper coining a new cell type - "adenophages" 🧪
open.substack.com/pub/audiommu...
open.substack.com/pub/audiommu...
Episode 52 - Close to the squeezey part
Glaaaands - In this episode, Matt and Kevin talk about a new paper describing a new kind of macrophage. Or is it a dendritic cell? Or are categories meaningless?
open.substack.com
February 2, 2026 at 3:16 PM
Macrophages in your glands! Or are they dendritic cells? @woodrufflab.bsky.social and I discuss a new paper coining a new cell type - "adenophages" 🧪
open.substack.com/pub/audiommu...
open.substack.com/pub/audiommu...
Reposted by Kevin Bonham
🚨 Requesting help:
I am looking for an agent who can facilitate more speaking gigs, podcast appearances, and interviews with journalists
I want to more widely share my story and expertise as a trans geneticist who understands the reality and complexity of "biological sex" 🏳️⚧️🧬
Please signal boost?
I am looking for an agent who can facilitate more speaking gigs, podcast appearances, and interviews with journalists
I want to more widely share my story and expertise as a trans geneticist who understands the reality and complexity of "biological sex" 🏳️⚧️🧬
Please signal boost?
January 28, 2026 at 9:03 PM
🚨 Requesting help:
I am looking for an agent who can facilitate more speaking gigs, podcast appearances, and interviews with journalists
I want to more widely share my story and expertise as a trans geneticist who understands the reality and complexity of "biological sex" 🏳️⚧️🧬
Please signal boost?
I am looking for an agent who can facilitate more speaking gigs, podcast appearances, and interviews with journalists
I want to more widely share my story and expertise as a trans geneticist who understands the reality and complexity of "biological sex" 🏳️⚧️🧬
Please signal boost?
Git branches - you should be using them. But how?
Part 2 in an on-going series introducing git for wetlab scientists 🧪
emptymodels.substack.com/p/git-for-sc...
Part 2 in an on-going series introducing git for wetlab scientists 🧪
emptymodels.substack.com/p/git-for-sc...
Git for scientists 2 - How to use branches
Branches are arguably one of the most important features of git - they allow you to keep multiple histories of your repository at the same time. Start using them early and often!
emptymodels.substack.com
January 28, 2026 at 9:08 PM
Git branches - you should be using them. But how?
Part 2 in an on-going series introducing git for wetlab scientists 🧪
emptymodels.substack.com/p/git-for-sc...
Part 2 in an on-going series introducing git for wetlab scientists 🧪
emptymodels.substack.com/p/git-for-sc...
Reposted by Kevin Bonham
1. The thing about science that these jokers don't understand is that science cannot be vibe-coded.
Whatever its flaws, the point with vibe coding is that you're trying to quickly make something that sorta works, where you can immediately sorta see if it sorta works and then sorta use it.
Whatever its flaws, the point with vibe coding is that you're trying to quickly make something that sorta works, where you can immediately sorta see if it sorta works and then sorta use it.
“The idea is to put ChatGPT front and center inside software that scientists use to write up their work in much the same way that chatbots are now embedded into popular programming editors.
It’s vibe coding, but for science.”
It’s vibe coding, but for science.”
OpenAI’s latest product lets you vibe code science
Prism is a ChatGPT-powered text editor that automates much of the work involved in writing scientific papers.
www.technologyreview.com
January 27, 2026 at 10:09 PM
1. The thing about science that these jokers don't understand is that science cannot be vibe-coded.
Whatever its flaws, the point with vibe coding is that you're trying to quickly make something that sorta works, where you can immediately sorta see if it sorta works and then sorta use it.
Whatever its flaws, the point with vibe coding is that you're trying to quickly make something that sorta works, where you can immediately sorta see if it sorta works and then sorta use it.
The idea is to put an improv comedy group front and center inside software that scientists use to write up their work in much the same way that improve comedy groups are now embedded into popular programming editors
@anthonymoser.com
@anthonymoser.com
“The idea is to put ChatGPT front and center inside software that scientists use to write up their work in much the same way that chatbots are now embedded into popular programming editors.
It’s vibe coding, but for science.”
It’s vibe coding, but for science.”
OpenAI’s latest product lets you vibe code science
Prism is a ChatGPT-powered text editor that automates much of the work involved in writing scientific papers.
www.technologyreview.com
January 27, 2026 at 10:06 PM
The idea is to put an improv comedy group front and center inside software that scientists use to write up their work in much the same way that improve comedy groups are now embedded into popular programming editors
@anthonymoser.com
@anthonymoser.com
Reposted by Kevin Bonham
I’m excited to recruit a postdoc to join my lab at NIAID (Rocky Mountain Labs). We study mucosal immunity and vaccine responses to respiratory viruses in a collaborative, supportive environment.
Details & apply: www.training.nih.gov/jobs/pdf-miv...
#Postdoc #Immunology #Virology #NIHJobs
Details & apply: www.training.nih.gov/jobs/pdf-miv...
#Postdoc #Immunology #Virology #NIHJobs
www.training.nih.gov
January 24, 2026 at 2:52 AM
I’m excited to recruit a postdoc to join my lab at NIAID (Rocky Mountain Labs). We study mucosal immunity and vaccine responses to respiratory viruses in a collaborative, supportive environment.
Details & apply: www.training.nih.gov/jobs/pdf-miv...
#Postdoc #Immunology #Virology #NIHJobs
Details & apply: www.training.nih.gov/jobs/pdf-miv...
#Postdoc #Immunology #Virology #NIHJobs
Reposted by Kevin Bonham
Do you honestly think people in the civil rights movement and other nonviolent movements faced no violence themselves? They practiced nonviolence because it works, because the oppressor wants a shooting war, which is the war it will win
How's your non-violent working Mr Gandhi stancil? They will kill each and everyone of you right if they had the chance and you will still be writing Kumbaya.
Observers have been working day and night to protect these neighborhoods from ICE, make the streets safe so kids can go to school and people can go to their jobs. Burning down the street undoes all our work. The people setting fires haven’t been putting in long hours watching plates or doors.
January 24, 2026 at 7:11 PM
Do you honestly think people in the civil rights movement and other nonviolent movements faced no violence themselves? They practiced nonviolence because it works, because the oppressor wants a shooting war, which is the war it will win
Reposted by Kevin Bonham
🥁 NEW
Our study on infant gut microbiome and #straintransmission is now published in @nature.com:
doi.org/10.1038/s415...
1/10
Our study on infant gut microbiome and #straintransmission is now published in @nature.com:
doi.org/10.1038/s415...
1/10
Baby-to-baby strain transmission shapes the developing gut microbiome - Nature
A metagenomic survey of babies attending the first year of nursery detected extensive baby-to-baby microbial strain transmission, pointing to social interactions in infancy as crucial drivers of infan...
doi.org
January 21, 2026 at 6:24 PM
🥁 NEW
Our study on infant gut microbiome and #straintransmission is now published in @nature.com:
doi.org/10.1038/s415...
1/10
Our study on infant gut microbiome and #straintransmission is now published in @nature.com:
doi.org/10.1038/s415...
1/10
Are you a wetlab scientist with some code you know you *should* be tracking with git, but you're not sure where to start? Been there! Don't keep putting it off - the sooner you start, the sooner you'll see what all the fuss is about! 🧪
emptymodels.substack.com/p/intro-to-g...
emptymodels.substack.com/p/intro-to-g...
Intro to git and github for wetlab scientists
Git is a powerful tool for keeping track of code, but it can also be used for anything text-based which, let's face it, is a lot what scientists need to keep track of.
emptymodels.substack.com
January 21, 2026 at 7:35 PM
Are you a wetlab scientist with some code you know you *should* be tracking with git, but you're not sure where to start? Been there! Don't keep putting it off - the sooner you start, the sooner you'll see what all the fuss is about! 🧪
emptymodels.substack.com/p/intro-to-g...
emptymodels.substack.com/p/intro-to-g...
Don't be fooled by people saying "other agencies do multi year funding (True), it'll be fine! (False)"
If NIH had been doing multi-year funding for the last 20 years, yeah, it would be fine, but switching now basically sucks up the budget without funding new grants.
(1/n)
If NIH had been doing multi-year funding for the last 20 years, yeah, it would be fine, but switching now basically sucks up the budget without funding new grants.
(1/n)
Don’t let Russell Vought trick Congress into destroying science by removing multiyear funding limits from the NIH funding bill.
January 17, 2026 at 6:46 PM
Don't be fooled by people saying "other agencies do multi year funding (True), it'll be fine! (False)"
If NIH had been doing multi-year funding for the last 20 years, yeah, it would be fine, but switching now basically sucks up the budget without funding new grants.
(1/n)
If NIH had been doing multi-year funding for the last 20 years, yeah, it would be fine, but switching now basically sucks up the budget without funding new grants.
(1/n)
Reposted by Kevin Bonham
The NIH's new multi-year funding plan will harm many institutions, scientists, and health outcomes.
Help us stop it! Call your representatives in the U.S. Congress!
#NIH
Help us stop it! Call your representatives in the U.S. Congress!
#NIH
Don’t let Russell Vought trick Congress into destroying science by removing multiyear funding limits from the NIH funding bill.
January 17, 2026 at 4:05 PM
The NIH's new multi-year funding plan will harm many institutions, scientists, and health outcomes.
Help us stop it! Call your representatives in the U.S. Congress!
#NIH
Help us stop it! Call your representatives in the U.S. Congress!
#NIH
Reposted by Kevin Bonham
Photo by Pierre Lavie. Yes this is me. And I threw my Leica. It landed on the bass plate with hardly a scratch. Another Photographer grabbed it along with my phone and I was able to track him later. I was held face down tear gas deployed right in front of me and pepper sprayed directly into the eye.
January 17, 2026 at 2:57 PM
Photo by Pierre Lavie. Yes this is me. And I threw my Leica. It landed on the bass plate with hardly a scratch. Another Photographer grabbed it along with my phone and I was able to track him later. I was held face down tear gas deployed right in front of me and pepper sprayed directly into the eye.
Been hearing some horrifying chatter about dealing with the new #NIH common form and #ScienCV system, so I put together a short video with some tricks for mitigating some of those pain points.
Hope it helps? 🧪
open.substack.com/pub/emptymod...
Hope it helps? 🧪
open.substack.com/pub/emptymod...
Dealing with ScienCV formatting
Some tips for composing and making your new NIH biosketch not look like garbage
open.substack.com
January 17, 2026 at 3:28 AM
Been hearing some horrifying chatter about dealing with the new #NIH common form and #ScienCV system, so I put together a short video with some tricks for mitigating some of those pain points.
Hope it helps? 🧪
open.substack.com/pub/emptymod...
Hope it helps? 🧪
open.substack.com/pub/emptymod...
Reposted by Kevin Bonham
Six medical organizations plan to ask the courts to throw out the revisions to the childhood vaccination schedule released by the CDC.
The revisions aren’t based on scientific evidence, they based on misinformation.
Public health is at risk.
🧪🎁🔗 www.nytimes.com/2026/01/13/h...
The revisions aren’t based on scientific evidence, they based on misinformation.
Public health is at risk.
🧪🎁🔗 www.nytimes.com/2026/01/13/h...
Medical Groups Will Try to Block Childhood Vaccine Recommendations
www.nytimes.com
January 14, 2026 at 2:53 AM
Six medical organizations plan to ask the courts to throw out the revisions to the childhood vaccination schedule released by the CDC.
The revisions aren’t based on scientific evidence, they based on misinformation.
Public health is at risk.
🧪🎁🔗 www.nytimes.com/2026/01/13/h...
The revisions aren’t based on scientific evidence, they based on misinformation.
Public health is at risk.
🧪🎁🔗 www.nytimes.com/2026/01/13/h...
Reposted by Kevin Bonham
Fellow faculty - I don't know about you but I'm beyond stressed about starting the semester right now
I bet it's even harder for our students.
Now is time to double down on efforts to center empathy in our classrooms
How do you center empathy in your pedagogy? Share tips & best practices please!
I bet it's even harder for our students.
Now is time to double down on efforts to center empathy in our classrooms
How do you center empathy in your pedagogy? Share tips & best practices please!
January 14, 2026 at 3:06 AM
Fellow faculty - I don't know about you but I'm beyond stressed about starting the semester right now
I bet it's even harder for our students.
Now is time to double down on efforts to center empathy in our classrooms
How do you center empathy in your pedagogy? Share tips & best practices please!
I bet it's even harder for our students.
Now is time to double down on efforts to center empathy in our classrooms
How do you center empathy in your pedagogy? Share tips & best practices please!
What's your favorite emerging model organism? I don't know bunch about it, but A. baumanii seems like it's rather important and gaining some steam... 🧪
It's that time of year again! I'm looking for suggestions of 'emerging' model organisms for my #CellBio course's final proj:
Organism nomination form here (links to blog on proj info): forms.office.com/r/v8zYgqVe8W
#cellbiology #biology #academicsky #microsky #archaeasky #protistsonsky 🧪 (1/n)
Organism nomination form here (links to blog on proj info): forms.office.com/r/v8zYgqVe8W
#cellbiology #biology #academicsky #microsky #archaeasky #protistsonsky 🧪 (1/n)
January 11, 2026 at 7:16 PM
What's your favorite emerging model organism? I don't know bunch about it, but A. baumanii seems like it's rather important and gaining some steam... 🧪
Reposted by Kevin Bonham
ALERT: Congress may flat-fund science, but Vought, Bhattacharya, Memoli & RFK still have a bag of dirty tricks: impoundment, multi-year funding, termination of programs, appointment of cronies to leadership, changes in scientific review to ratfuck research in America. www.nytimes.com/2026/01/10/s...
Congress Is Reversing Trump’s Steep Budget Cuts to Science
www.nytimes.com
January 11, 2026 at 10:50 AM
ALERT: Congress may flat-fund science, but Vought, Bhattacharya, Memoli & RFK still have a bag of dirty tricks: impoundment, multi-year funding, termination of programs, appointment of cronies to leadership, changes in scientific review to ratfuck research in America. www.nytimes.com/2026/01/10/s...
Reposted by Kevin Bonham
Excited to share our new study out in Nature Communications. We mapped the composition of the human breast #milk #microbiome and showed that microbes present in breast milk directly contribute to the assembly of the #infant gut microbiome in the first months of life.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Client Challenge
www.nature.com
January 9, 2026 at 10:28 AM
Excited to share our new study out in Nature Communications. We mapped the composition of the human breast #milk #microbiome and showed that microbes present in breast milk directly contribute to the assembly of the #infant gut microbiome in the first months of life.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
This is undoubtedly a good thing. But a big part of me wonders if it matters when they're trying to put a bigger thumb on in the review process 🧪
Trump Administration Cannot Slash NIH Research Funding, Court Rules #SciPol www.reuters.com/world/trump-...
Trump administration cannot slash NIH research funding, court rules
District Judge Angel Kelley last year blocked the cuts, and on Monday the appeals court agreed.
www.reuters.com
January 9, 2026 at 10:36 AM
This is undoubtedly a good thing. But a big part of me wonders if it matters when they're trying to put a bigger thumb on in the review process 🧪
Reposted by Kevin Bonham
Has anyone managed to generate a new form biosketch for NIH? Hearing a lot about the issues with sciencv, and wondering what the nature of the digital verification on the generated PDFs is 🧪
January 8, 2026 at 3:23 AM
Has anyone managed to generate a new form biosketch for NIH? Hearing a lot about the issues with sciencv, and wondering what the nature of the digital verification on the generated PDFs is 🧪
Reposted by Kevin Bonham
It might be a lot of tedious work, but at least it doesn’t solve a real problem.
January 7, 2026 at 1:15 AM
It might be a lot of tedious work, but at least it doesn’t solve a real problem.