Proto Bioengineering
@protobio.bsky.social
Learn to code for science.
"Everything simple is false. Everything complex is unusable." - Paul Valery
Learn at https://medium.com/@protobioengineering
(Banner: Nicolas Thomas, Unsplash)
"Everything simple is false. Everything complex is unusable." - Paul Valery
Learn at https://medium.com/@protobioengineering
(Banner: Nicolas Thomas, Unsplash)
Reposted by Proto Bioengineering
Hybrid modeling of Parkinsons disease integrating zebrafish neurobiology with in silico predictive analytics #NeuroDegeneration 🧪🧠
https://www.researchsquare.com/article/rs-8426422/latest
https://www.researchsquare.com/article/rs-8426422/latest
January 16, 2026 at 5:02 PM
Hybrid modeling of Parkinsons disease integrating zebrafish neurobiology with in silico predictive analytics #NeuroDegeneration 🧪🧠
https://www.researchsquare.com/article/rs-8426422/latest
https://www.researchsquare.com/article/rs-8426422/latest
Reposted by Proto Bioengineering
States, health organizations reject new CDC vaccine guidelines on reducing the number of vaccinations for children.
👉At least 19 states have announced that they will follow the American Academy of Pediatrics' guidance on immunizations instead. buff.ly/QH2e2x5
#medsky #pedsky 🛟😷🧪
👉At least 19 states have announced that they will follow the American Academy of Pediatrics' guidance on immunizations instead. buff.ly/QH2e2x5
#medsky #pedsky 🛟😷🧪
January 15, 2026 at 9:31 PM
States, health organizations reject new CDC vaccine guidelines on reducing the number of vaccinations for children.
👉At least 19 states have announced that they will follow the American Academy of Pediatrics' guidance on immunizations instead. buff.ly/QH2e2x5
#medsky #pedsky 🛟😷🧪
👉At least 19 states have announced that they will follow the American Academy of Pediatrics' guidance on immunizations instead. buff.ly/QH2e2x5
#medsky #pedsky 🛟😷🧪
Practice reading X-rays, MRIs, CT scans, and ultrasound from beginner to advanced with CaseStacks. Their free subscription tier lets you try a few lessons in each category! #radiology #medicine #biomedicalengineering #science #medstudent
www.casestacks.com
www.casestacks.com
CaseStacks.com | Learn & Practice Radiology
www.casestacks.com
January 15, 2026 at 3:17 PM
Practice reading X-rays, MRIs, CT scans, and ultrasound from beginner to advanced with CaseStacks. Their free subscription tier lets you try a few lessons in each category! #radiology #medicine #biomedicalengineering #science #medstudent
www.casestacks.com
www.casestacks.com
My mom just passed away from a battle with an aggressive and unfair cancer. In her honor, I made this article of resources for getting started on learning how to analyze medical images with code. MRIs, CT scans, MEG/EEG, and more. #loveyoumom #biomedicalengineering
medium.com/@protobioeng...
medium.com/@protobioeng...
A Dozen Resources for Learning How to Analyze Medical Images with Code
Learn how to analyze MRIs, CTs, and X-rays with Python and more.
medium.com
January 15, 2026 at 6:08 AM
My mom just passed away from a battle with an aggressive and unfair cancer. In her honor, I made this article of resources for getting started on learning how to analyze medical images with code. MRIs, CT scans, MEG/EEG, and more. #loveyoumom #biomedicalengineering
medium.com/@protobioeng...
medium.com/@protobioeng...
Having trouble with understanding how to use statistics for research? Check out "Very Normal"! Succint videos on all the confusing shit about statistics that your professor probably did not explain. #statistics #datascience #science #research #biology #engineering
www.youtube.com/watch?v=cXfq...
www.youtube.com/watch?v=cXfq...
You've never seen hypothesis tests like this
YouTube video by Very Normal
www.youtube.com
January 14, 2026 at 5:46 PM
Having trouble with understanding how to use statistics for research? Check out "Very Normal"! Succint videos on all the confusing shit about statistics that your professor probably did not explain. #statistics #datascience #science #research #biology #engineering
www.youtube.com/watch?v=cXfq...
www.youtube.com/watch?v=cXfq...
Did you know that Kaggle has "starter" machine learning competitions? Try out beginner machine learning algorithms on their datasets for free. Regular competitions have up to $50,000 in prizes, too. www.kaggle.com/competitions...
#learntocode #machinelearning #python #r #engineering
#learntocode #machinelearning #python #r #engineering
Kaggle Competitions
Kaggle is the world’s largest data science community with powerful tools and resources to help you achieve your data science goals.
www.kaggle.com
January 11, 2026 at 6:36 PM
Did you know that Kaggle has "starter" machine learning competitions? Try out beginner machine learning algorithms on their datasets for free. Regular competitions have up to $50,000 in prizes, too. www.kaggle.com/competitions...
#learntocode #machinelearning #python #r #engineering
#learntocode #machinelearning #python #r #engineering
New, free neuroscience article, bb.
medium.com/@protobioeng...
#neuroscience #biomedicalengineering #learntocode #biology #science #python #r
medium.com/@protobioeng...
#neuroscience #biomedicalengineering #learntocode #biology #science #python #r
A Dozen Resources for Learning to Code For Neuroscience
Learn how to analyze MRIs, EEGs, CT scans, images of neurons, and more with code.
medium.com
January 11, 2026 at 5:45 PM
New, free neuroscience article, bb.
medium.com/@protobioeng...
#neuroscience #biomedicalengineering #learntocode #biology #science #python #r
medium.com/@protobioeng...
#neuroscience #biomedicalengineering #learntocode #biology #science #python #r
Reposted by Proto Bioengineering
🎓Part of the current #ScientificCrisis is the cult of the #LoneGenius myth. Great scientists are not isolated geniuses but a cultural phenomena, product of education systems, funding structures, social capital, historical paradigms - and lots of privilege and invisible labor.
1/🧵
#AcademicSky
1/🧵
#AcademicSky
June 3, 2025 at 9:06 PM
🎓Part of the current #ScientificCrisis is the cult of the #LoneGenius myth. Great scientists are not isolated geniuses but a cultural phenomena, product of education systems, funding structures, social capital, historical paradigms - and lots of privilege and invisible labor.
1/🧵
#AcademicSky
1/🧵
#AcademicSky
Reposted by Proto Bioengineering
My first editorial in @science.org was published today: what to do (and, importantly, what NOT to do) when your grants are suddenly cut or research funding is uncertain. Please read and share!
#AcademicSky #Science #Astronomy
www.science.org/doi/10.1126/...
#AcademicSky #Science #Astronomy
www.science.org/doi/10.1126/...
Weathering budget cuts: Lessons from NASA
The current uncertainty and cuts to science funding affect universities, research facilities, and laboratories across the United States, but this situation is not unprecedented. Under pressure to fund...
www.science.org
January 8, 2026 at 11:28 PM
My first editorial in @science.org was published today: what to do (and, importantly, what NOT to do) when your grants are suddenly cut or research funding is uncertain. Please read and share!
#AcademicSky #Science #Astronomy
www.science.org/doi/10.1126/...
#AcademicSky #Science #Astronomy
www.science.org/doi/10.1126/...
Reposted by Proto Bioengineering
Celebrating 25 years of Xenbase—the world’s largest database for African clawed frog (Xenopus laevis) and tadpole research. Learn how Aaron Zorn, PhD, and team are driving breakthroughs in genetics and regenerative medicine: scienceblog.cincinnatichildrens.org/25-years-lat...
@xenbase.bsky.social
@xenbase.bsky.social
25 Years Later, Xenbase Still Supporting Scientific Leaps - Research Horizons
scienceblog.cincinnatichildrens.org
January 6, 2026 at 9:19 PM
Celebrating 25 years of Xenbase—the world’s largest database for African clawed frog (Xenopus laevis) and tadpole research. Learn how Aaron Zorn, PhD, and team are driving breakthroughs in genetics and regenerative medicine: scienceblog.cincinnatichildrens.org/25-years-lat...
@xenbase.bsky.social
@xenbase.bsky.social
Reposted by Proto Bioengineering
⏰ Apply to Summer by Design 2026!
This program for Ph.D. students and postdocs, running June 8–17 in Toronto, explores the full technology translation continuum in #RegenerativeMedicine.
Gain the skills to take innovations from the lab to patient impact. ✨
🔗 stemcellnetwork.ca/training/wor...
This program for Ph.D. students and postdocs, running June 8–17 in Toronto, explores the full technology translation continuum in #RegenerativeMedicine.
Gain the skills to take innovations from the lab to patient impact. ✨
🔗 stemcellnetwork.ca/training/wor...
January 6, 2026 at 7:52 PM
⏰ Apply to Summer by Design 2026!
This program for Ph.D. students and postdocs, running June 8–17 in Toronto, explores the full technology translation continuum in #RegenerativeMedicine.
Gain the skills to take innovations from the lab to patient impact. ✨
🔗 stemcellnetwork.ca/training/wor...
This program for Ph.D. students and postdocs, running June 8–17 in Toronto, explores the full technology translation continuum in #RegenerativeMedicine.
Gain the skills to take innovations from the lab to patient impact. ✨
🔗 stemcellnetwork.ca/training/wor...
Speaking of AI, check out AlphaFold, a database of protein structures that have been successfully guessed by AI (and regular experiments). One obstacle in science is knowing how the trillions of proteins in us do their jobs or how they're shaped. AI is helping with that. #ai
alphafold.ebi.ac.uk
alphafold.ebi.ac.uk
AlphaFold Protein Structure Database
AlphaFold Protein Structure Database
alphafold.ebi.ac.uk
January 6, 2026 at 8:55 PM
Speaking of AI, check out AlphaFold, a database of protein structures that have been successfully guessed by AI (and regular experiments). One obstacle in science is knowing how the trillions of proteins in us do their jobs or how they're shaped. AI is helping with that. #ai
alphafold.ebi.ac.uk
alphafold.ebi.ac.uk
We're going to steal ML and AI back from the grifters and actually use it for science, so help me, God. #science #learntocode #biomedicalengineering #bioinformatics
AI guys are like we can’t use it to cure cancer but we can suck all the joy and purpose out of life so that dying isn’t sad
January 6, 2026 at 8:29 PM
We're going to steal ML and AI back from the grifters and actually use it for science, so help me, God. #science #learntocode #biomedicalengineering #bioinformatics
Reposted by Proto Bioengineering
A modular organ-on-a-chip system enables precise simulation of drug-induced muscle and kidney injury, allowing real-time observation of inter-organ interactions and toxic responses in a lab setting. doi.org/hbhxsq
Organ-on-a-chip simulates drug-triggered muscle and kidney injury
Rhabdomyolysis is a condition in which muscle damage—often caused by drug intake—can lead to impaired kidney function and acute kidney failure.
medicalxpress.com
January 6, 2026 at 4:30 PM
A modular organ-on-a-chip system enables precise simulation of drug-induced muscle and kidney injury, allowing real-time observation of inter-organ interactions and toxic responses in a lab setting. doi.org/hbhxsq
Free online textbook for learning computation genomics in R. Covers beginner R, ChIP-seq, RNA-seq, DNA methylation, and more.
compgenomr.github.io/book/
#genomics #r #learntocode #biomedicalengineering #dna #rna
compgenomr.github.io/book/
#genomics #r #learntocode #biomedicalengineering #dna #rna
Computational Genomics with R
A guide to computationa genomics using R. The book covers fundemental topics with practical examples for an interdisciplinery audience
compgenomr.github.io
January 6, 2026 at 7:24 PM
Free online textbook for learning computation genomics in R. Covers beginner R, ChIP-seq, RNA-seq, DNA methylation, and more.
compgenomr.github.io/book/
#genomics #r #learntocode #biomedicalengineering #dna #rna
compgenomr.github.io/book/
#genomics #r #learntocode #biomedicalengineering #dna #rna
Which programming language should you actually learn? This is like asking whether you should learn Spanish, French, or Cantonese. It is all relative, but this article will help you finally decide.
medium.com/@protobioeng...
#learntocode #biomedicalengineering #science #gradschool
medium.com/@protobioeng...
#learntocode #biomedicalengineering #science #gradschool
Which Programming Language Should You Actually Learn?
The final article to settle the argument.
medium.com
January 5, 2026 at 5:35 PM
Which programming language should you actually learn? This is like asking whether you should learn Spanish, French, or Cantonese. It is all relative, but this article will help you finally decide.
medium.com/@protobioeng...
#learntocode #biomedicalengineering #science #gradschool
medium.com/@protobioeng...
#learntocode #biomedicalengineering #science #gradschool
Hey, yo, you can shoot lasers at cancer to tell if its cancer or not. Between this and MR spectroscopy, there are avenues for getting better at detecting cancer without even opening a person up. #medicine #medicalimaging #oncology #biomedicalengineering
How do melanomas vs non-melanoma carcinomas reflect laser signals? New research shows each produces distinguishable patterns.
Free access til Feb 1: www.dl.begellhouse.com/journals/648...
#SkinCancerDetection #BiomedicalOptics
Free access til Feb 1: www.dl.begellhouse.com/journals/648...
#SkinCancerDetection #BiomedicalOptics
January 5, 2026 at 5:27 PM
Hey, yo, you can shoot lasers at cancer to tell if its cancer or not. Between this and MR spectroscopy, there are avenues for getting better at detecting cancer without even opening a person up. #medicine #medicalimaging #oncology #biomedicalengineering
Reposted by Proto Bioengineering
This was thought provoking 🧠
Doesn't invalidate computational approaches but a clear-eyed view of the limits/assumptions, and an eloquent description of why neurobiology is endlessly fascinating
Doesn't invalidate computational approaches but a clear-eyed view of the limits/assumptions, and an eloquent description of why neurobiology is endlessly fascinating
When we try to formalize a neuron computationally, we don't translate biology into code—we perform a violent collapse.
www.ocrampal.com/what-a-neuro...
#philosophy #science #psychology #AI #intelligence #physics #biology #philmind #philsci #philsky #philpsy #neurosky #neuroskyence
www.ocrampal.com/what-a-neuro...
#philosophy #science #psychology #AI #intelligence #physics #biology #philmind #philsci #philsky #philpsy #neurosky #neuroskyence
What a Neuron Teaches Us About Computation's Limits
When we try to formalize a neuron computationally, we don't translate biology into code—we perform a violent collapse. We lock causation into fixed arrows when biology lives in causal ambiguity. We sy...
www.ocrampal.com
January 4, 2026 at 5:02 PM
This was thought provoking 🧠
Doesn't invalidate computational approaches but a clear-eyed view of the limits/assumptions, and an eloquent description of why neurobiology is endlessly fascinating
Doesn't invalidate computational approaches but a clear-eyed view of the limits/assumptions, and an eloquent description of why neurobiology is endlessly fascinating
When we teach, we multiply not only the people around us but ourselves. #scienceeducation #teaching #biology #biomedicalengineering
January 4, 2026 at 4:35 PM
When we teach, we multiply not only the people around us but ourselves. #scienceeducation #teaching #biology #biomedicalengineering
People in mosh pits end up behaving like particles in fluids, with vortices and other stereotyped patterns. #fluiddynamics #neuroscience #engineering #psychology
www.youtube.com/shorts/1weOV...
www.youtube.com/shorts/1weOV...
The physics of mosh pits
YouTube video by The Rest Is Science
www.youtube.com
January 3, 2026 at 10:14 PM
People in mosh pits end up behaving like particles in fluids, with vortices and other stereotyped patterns. #fluiddynamics #neuroscience #engineering #psychology
www.youtube.com/shorts/1weOV...
www.youtube.com/shorts/1weOV...
Reposted by Proto Bioengineering
I have been exploring neural circuits of emotion in the brain lately, which led me to write this primer on the amygdala over the holidays!
Amygdala Structure, Function, and Clinically Relevant Pathways
This content is also available on my website: https://logancollinsblog.com/2026/01/02/amygdala-structure-function-and-clinically-relevant-pathways/
substack.com
January 3, 2026 at 12:32 AM
I have been exploring neural circuits of emotion in the brain lately, which led me to write this primer on the amygdala over the holidays!
AI that speeds up science > AI that replaces artists
#biology #biomedicalengineering #ai #machinelearning
#biology #biomedicalengineering #ai #machinelearning
BioTrouble: A Multi-Agent Workflow for Troubleshooting Molecular Biology Techniques [new]
AI workflow aids researchers in resolving molecular biology experimental issues, leveraging RAG and learning from user interactions.
AI workflow aids researchers in resolving molecular biology experimental issues, leveraging RAG and learning from user interactions.
January 3, 2026 at 4:25 PM
AI that speeds up science > AI that replaces artists
#biology #biomedicalengineering #ai #machinelearning
#biology #biomedicalengineering #ai #machinelearning
What keeps the world spinning is the niche little work done day to day. Chipping away at problems, big or small, makes us and our world better. If it seems like a waste of time, remember that "our work works on us more than we work on it" (Alex Hormozi, paraphrased). #work
medium.com/westenberg/t...
medium.com/westenberg/t...
The Rime of the Ancient Maintainer
Why Maintenance Culture Matters
medium.com
January 1, 2026 at 8:50 PM
What keeps the world spinning is the niche little work done day to day. Chipping away at problems, big or small, makes us and our world better. If it seems like a waste of time, remember that "our work works on us more than we work on it" (Alex Hormozi, paraphrased). #work
medium.com/westenberg/t...
medium.com/westenberg/t...
Reposted by Proto Bioengineering
Have genome data that needs assembling? The Galaxy Training Network offers a comprehensive collection of tutorials to guide you through every step in an accessible, browser-based environment.
training.galaxyproject.org/training-mat...
training.galaxyproject.org/training-mat...
Assembly / Tutorial List
DNA sequence data has become an indispensable tool for Molecular Biology & Evolutionary Biology. Study in these fields now require a genome sequence to work from. We call this a 'Reference Sequence.' ...
training.galaxyproject.org
December 9, 2025 at 12:43 PM
Have genome data that needs assembling? The Galaxy Training Network offers a comprehensive collection of tutorials to guide you through every step in an accessible, browser-based environment.
training.galaxyproject.org/training-mat...
training.galaxyproject.org/training-mat...