HelixMind retweeted
A few weeks ago I saw a post from @undiagnosed_1 and inspired by it, I reached out - he told me about his rare disease, and how it was misdiagnosed for years, including seven short read genomes from top providers.
His gene was sitting in a sequence gap, the 8% that short reads drop, and long read finally found it.
He then got a telomere to telomere genome from Karen Miga, the person behind the first complete human genome. 6.93 terabytes, and he was looking to find somebody to analyze it.
I told him to post about it on X.
@Codaracodes commented. A self taught biologist who learned genomics in a year.
They agreed on a project plan and they are now posting in public on @openlabsbio .
New features are coming that will support JJ's work. Results will be published with Research to the People.
DeSci at its best.
If you are sitting on data and nobody will fund the analysis, my DMs are open.
HelixMind retweeted
So happy to work with this amazing team of brilliant visionaries. These are the types of people who disruptively change the world and expedite progress years ahead in the span of weeks/months. My Telomere-to-Telomere genome is in the right hands ✅
So glad we’re able to show how amazing this project means, it’s a passion project for @undiagnosed_1 and Im glad to handle such enormous responsibilities, there’s so much potential in this can’t wait to see where it goes
HelixMind retweeted
So glad we’re able to show how amazing this project means, it’s a passion project for @undiagnosed_1 and Im glad to handle such enormous responsibilities, there’s so much potential in this can’t wait to see where it goes
A few weeks ago I saw a post from @undiagnosed_1 and inspired by it, I reached out - he told me about his rare disease, and how it was misdiagnosed for years, including seven short read genomes from top providers.
His gene was sitting in a sequence gap, the 8% that short reads drop, and long read finally found it.
He then got a telomere to telomere genome from Karen Miga, the person behind the first complete human genome. 6.93 terabytes, and he was looking to find somebody to analyze it.
I told him to post about it on X.
@Codaracodes commented. A self taught biologist who learned genomics in a year.
They agreed on a project plan and they are now posting in public on @openlabsbio .
New features are coming that will support JJ's work. Results will be published with Research to the People.
DeSci at its best.
If you are sitting on data and nobody will fund the analysis, my DMs are open.
Most pathogenicity tools just give a score.
We plugged AlphaMissense straight into Mutation Simulator real model output, not a proxy. Biggest edge: disordered regions, where BLOSUM-style scores often guess.
Early days. Tracking where it matches published data and where it doesnt
HelixMind retweeted
A year ago i didn’t know shit in Bio and now I’m tackling genetic analysis, drug discovery, mutations of organisms over generations, now working on 9TB+ of Genetic Data
Pretty Awesome if you ask me!
HelixMind retweeted
T2T Genome Assembly — 6.93TB dataset, in progress. It’s amazing so let’s see where we go with this
@undiagnosed_1
@oxMichelangelo
@Research2People
@openlabsbio
@BioProtocol
openlabs.bio.xyz/post/7b5746…
HelixMind retweeted
New on OpenLabs: meet HelixMind
HelixMind aims to help researchers test ideas computationally and catch potential failures before experiments reach the lab bench.
Its first discussion explores a self-hosted pipeline for detecting antimicrobial resistance, combining ResFinder with additional sequence analysis to investigate whether it can reduce false positives while keeping genomic data local.
Explore the approach and join the discussion ↓
Made my first post on Open Labs 🤓
@BioProtocol
@oxMichelangelo
openlabs.bio.xyz/post/203913… #openlabs
HelixMind retweeted
We’re sitting on a quiet revolution in clinical medicine, and it isn't happening in a wet lab.
Generative AI is no longer just predicting protein folds - it’s actively designing new antibiotics from scratch and predicting individual immune responses to vaccines.
Here’s what’s changing, from a doctor to my fellow medicos and general public.🧵👇
HelixMind retweeted
Made my first post on Open Labs 🤓
@BioProtocol
@oxMichelangelo
openlabs.bio.xyz/post/203913… #openlabs
Most published AMR results are wrong by default.
It’s not bad biology more of zero pipeline cross-checks. A 2026 benchmark found up to 45× disagreement between RGI/CARD, ResFinder, AMRFinderPlus & DeepARG on the same genes (270M+ comparisons).
HelixMind retweeted
for the next 18-24 mo., the biggest bottleneck in AI drug discovery is experimental validation and verification
however it is increasingly clear that in 36 mo., the biggest bottleneck in AI drug discovery will be clinical trial scarcity
the challenge with US clinical trial infrastructure goes far beyond simply regulatory reform
in fact, outside of Australia, US FDA is the fastest in the world in getting INDs reviewed (30 day response time vs 60 in UK and Western Europe, and 60 working days in China)
Yet, median time to site activation after trial regulatory approval for oncology trials is:
US (academic oncology site) - 171 days (~6 mo)
Australia Phase 1 - 63 days (~1.5 mo)
China - as quick as 4 weeks
It gets worse. Based on July 2026 analysis, US sites not only take median 124 days to get sites activated, it takes *another* 93 days to get FPI (first patient in).
Australia sites can usually get from site activation to FPI in 2 weeks.
To top it off, it takes *309 days* on average for US trials to get 75% of sites in a trial activated
what's going on?
the challenge is multifactorial - in the US, drawn out budget negotiations at every clinical site, significant overlapping local ethics and protocol reviews (esp at high profile academic research centers), and extensive site contract negotiations lead to months / quarters / years of delays.
There is no magic bullet solution - no fell swoop of regulatory or policy change will address this - wholesale revamp is needed.
simultaneously, US and western biotechs (and frontier labs) can't just wait around for systemic change to unfold. They need to play the game on the ground in order to establish a human data edge
a new clinical execution paradigm + AI-native translational layer is sorely needed
HelixMind retweeted
Replying to @davidycli
Upstream computational triage (resistance prediction, mutation modeling) becomes essential when trial capacity is the bottleneck protecting scarce slots from weak candidates.
HelixMind retweeted
It’s a continuously evolving grind that brings out the best in you
Replying to @heyblake
Still the most honest description of early GTM for deep tech. We’re in that same loop while building AI tools that help labs anticipate antibiotic resistance. Founder-led conversations are how you find the scientists who actually feel the problem every day.
HelixMind retweeted
2 years ago: solo founder. left academia because a mouse can't even get alzheimer's and i couldn't spend another year measuring the dead.
today: hardware engineers from amazon, biologists from UCSF, a lab, a fab, a machine that records living cells in 4K while drugs work on them.
leanest biotech on earth. we just recorded something nobody in history has recorded before.
the bigger lab still lives in my dreams.
we're getting closer.
HelixMind retweeted
HelixMind ran unmodified MRSA mecA end-to-end:
Raw seq → gene call → 99.95% match → 14 antibiotics flagged → auto-linked Gill et al. 2005 → 21 CRISPR guides
Our models just compressed months of AMR work into minutes.
Advancing our ability to understand the present and perceive the future.
Here’s a first look at HelixMind.
HelixMind retweeted
"It has become part of the accepted wisdom to say that the twentieth century was the century of physics and the twenty-first century will be the century of biology.”
— Freeman Dyson





















