Stephan Cordogan

Abdel Abdellaoui@dr_appie

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UK Biobank@uk_biobank·10 Şub

✅ The UK Government has today granted access to half a million UK Biobank participants' coded GP data for health research. This change will dramatically increase the power of UK Biobank's dataset to advance the diagnosis, treatment and management of conditions handled by GPs.

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Veera Rajagopal @doctorveera·3 Oca

An interesting preprint from Alkes Price's lab shows that GWAS effect sizes' relationship with minor allele frequency (MAF) is better explained by African MAF than European MAF. We know that rare variants have larger effect sizes, which is a reflection of negative selection. Disease-causing deleterious variants are kept at lower frequencies by natural selection. However, allele frequency of a variant is influenced not only by natural selection, but also by other factors like genetic drift caused bottleneck events. MAFs of all non-African populations are influenced by out-of-Africa bottleneck effects. Such frequency changes reflect drift, not disease biology. In this work, Rossen et al. empirically show that in fact African MAF estimates better explain GWAS effect sizes than European MAF, even when the GWAS is performed in European populations. These results suggest that many downstream GWAS analyses—such as heritability estimation, fine-mapping, and polygenic risk prediction—may be systematically misspecified when relying solely on European-derived MAFs. Incorporating African MAFs is likely to yield more accurate effect-size modeling, even for GWAS performed entirely in European populations. Rossen et al. medRxiv 2026 medrxiv.org/content/10.648…

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Abdel Abdellaoui@dr_appie·11 Ara

Here is another version of the Figure I made to summarize the study, showing both trait-level and factor-level genetic correlations

New @Nature study maps the genetic risk shared across psychiatric disorders. In News & Views, I discuss what it means when that genetic risk overlaps with normal traits, including education-related outcomes. News & Views: nature.com/articles/d4158… Study: nature.com/articles/s4158…

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Boyang Fu@Boyang1995·9 Ara

🧬 Do genetic variants interact in humans? For years, the answer was “probably, but we lacked solid statistical evidence.” We now bring one of the strongest pieces of evidence to date. Thrilled to share our latest work, FAME, now at Nature Genetics: nature.com/articles/s4158…

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Stephan Cordogan@stephan_cdgn·24 Kas

They don't provide details on how the scores are validated. Their Liability R2 confidence intervals are of similar size across all diseases regardless of disease frequency, which is impossible without extreme cherrypicking of individuals (which would certainly introduce bias). The CIs of common diseases like Hypertension should be much smaller than rare diseases like Alzheimers, and we address this as well. Their models aren't public either, so there's no way to test.

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Sichu Lu@lu_sichu·24 Kas

@KianSadeghi5 @herasight oh this is spicy you know what i don't know if i looked at this white paper but i had thought maybe the herasight did this(authors confirmed to me they didn't but i am confused about how functional priors are used in bayesrc and i did not follow up on that myself)

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Sichu Lu@lu_sichu·24 Kas

Honestly I don't see why it matters one way or another(you can't qt your friends post? Is your only defense from the allegations that your opponents are wicked and being paid. You can show you didn't copy the herasight pgs easily enough. Provide the code or at least the results of the analysis then? Let a third party test your pgs under a confidentiality agreement(I think most labs can do this)

Crémieux@cremieuxrecueil

Kian is now engaging in slander by alleging that I've been paid to promote my friend's post showing that Nucleus has engaged in fraud. I haven't. I just genuinely hate fraud. And I have a long history on this account of calling it out. No one would ever need to pay me to do it.

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Stephan Cordogan@stephan_cdgn·24 Kas

@josiezayner @cremieuxrecueil Hi Josie, please read our response here: x.com/stephan_cdgn/s…

I'm the lead author on Nucleus Origin. All substantive technical claims about the Nucleus Origin preprint made by @sichuan_mala are false. I outline why, point-by-point, in the link below.

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Kian Sadeghi@KianSadeghi5

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Josie Zayner@josiezayner·24 Kas

This is not what you do when accusations are leveed against your biotech company. Instead of responding to actual claims they slander my homie @cremieuxrecueil because he retweeted something? Many of us retweeted the takedown because we think that your company is sketchy

Everything levied unto Nucleus by @sichuan_mala is false. Worse than false, it appears to be architected by a competitor that has repeatedly published misstatements and inaccuracies. Sichuan is compromised. But it gets worse. I have been informed that @cremieuxrecueil — race “scientist” in chief — has been paid off by the competitor to promote this nonsense against Nucleus. For the independent scientists repeating this libel, I would encourage you to do more diligence on who you are aligning yourself with. Our scientific team will issue a point by point response. Unfortunately, though, this isn’t about science. It’s a concerted attempt to cancel Nucleus on the backs of our successful campaign and efforts to build + advance the industry, which benefits the very people who are attacking us. To the the mob trying to cancel Nucleus: Keep tweeting. Stay mad. We’ll keep building and serving patients. P.S. We won the injunction. Link below.

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Stephan Cordogan@stephan_cdgn·24 Kas

@MGalvosas @pitdesi Hi Mindaugas, please read our response: x.com/stephan_cdgn/s…

I'm the lead author on Nucleus Origin. All substantive technical claims about the Nucleus Origin preprint made by @sichuan_mala are false. I outline why, point-by-point, in the link below.

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Mindaugas Galvosas, MD@MGalvosas·23 Kas

@pitdesi One of the deep dives into nucleus you might find interesting x.com/sichuan_mala/s…

四川麻辣燙@sichuan_mala

I've just written a new post raising a series of concerns about Nucleus Genomics, a company that offers embryo selection services based on polygenic scores for couples undergoing IVF. I was shocked by the degree to which Nucleus's work is obviously plagiarized or simply wrong.

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Sheel Mohnot@pitdesi·22 Kas

This… is not eugenics

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Stephan Cordogan@stephan_cdgn·24 Kas

@TensorTwerker @nucleusgenomics Hi nabbo, please read our response here: x.com/stephan_cdgn/s…

I'm the lead author on Nucleus Origin. All substantive technical claims about the Nucleus Origin preprint made by @sichuan_mala are false. I outline why, point-by-point, in the link below.

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nabbo (bio/acc)@TensorTwerker·23 Kas

Designer babies by @nucleusgenomics, feels like a Black Mirror episode

四川麻辣燙@sichuan_mala

I've just written a new post raising a series of concerns about Nucleus Genomics, a company that offers embryo selection services based on polygenic scores for couples undergoing IVF. I was shocked by the degree to which Nucleus's work is obviously plagiarized or simply wrong.

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Stephan Cordogan@stephan_cdgn·24 Kas

@RuxandraTeslo If you don't like to pile on, why did you uncritically endorse the post by @sichuan_mala? A simple Google or UK-Biobank showcase search would have disproven many of his technical points, and the rest are addressed here: x.com/stephan_cdgn/s…

I'm the lead author on Nucleus Origin. All substantive technical claims about the Nucleus Origin preprint made by @sichuan_mala are false. I outline why, point-by-point, in the link below.

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Ruxandra Teslo 🧬@RuxandraTeslo·24 Kas

I don't like to pile on people, but, as someone writing abt fertility and IVF, I believe this is a particularly sensitive area of biotech, with parents putting all their hopes for their future child. Taking advantage of these dreams is particularly bad.

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Stephan Cordogan@stephan_cdgn·24 Kas

@anshulkundaje @eade_bengard @RTNJO3 I've written a detailed response to this post. Also, our PRS are available for download if you would like to investigate technical claims yourself. Please read: x.com/stephan_cdgn/s…

I'm the lead author on Nucleus Origin. All substantive technical claims about the Nucleus Origin preprint made by @sichuan_mala are false. I outline why, point-by-point, in the link below.

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Anshul Kundaje@anshulkundaje·23 Kas

@eade_bengard @RTNJO3 Their science is much stronger, novel and open than anything Nucleus has released + I have raised questions I had about Herasight's work here & they have actively responded.

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Kian Sadeghi@KianSadeghi5

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Anshul Kundaje@anshulkundaje·20 Eki

Speaking of science grifters, here's one of the leading candidates for science grifter of the year.

Some doctors see themselves as gatekeepers of genetic information. They have decided what parents can and can’t know about their future child. Nucleus believes that it's up to the parents to decide. From cancer risk to IQ to schizophrenia, the insights belong to families.

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Stephan Cordogan@stephan_cdgn·24 Kas

@harshv_0314 I've written a detailed response to this post. Please read: x.com/stephan_cdgn/s…

I'm the lead author on Nucleus Origin. All substantive technical claims about the Nucleus Origin preprint made by @sichuan_mala are false. I outline why, point-by-point, in the link below.

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Harsh Sharma@harshv_0314·23 Kas

I'm hopeful for a future where we can get rid of genetic disease, but all of what Nucleus Genomics is described as doing in this article just sets the entire field + scientific community back several years. Worth reading.

四川麻辣燙@sichuan_mala

I've just written a new post raising a series of concerns about Nucleus Genomics, a company that offers embryo selection services based on polygenic scores for couples undergoing IVF. I was shocked by the degree to which Nucleus's work is obviously plagiarized or simply wrong.

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Stephan Cordogan@stephan_cdgn·24 Kas

@scordogan/p-179755476" target="_blank" rel="nofollow noopener">substack.com/@scordogan/p-1…

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Stephan Cordogan@stephan_cdgn·24 Kas

I'm the lead author on Nucleus Origin. All substantive technical claims about the Nucleus Origin preprint made by @sichuan_mala are false. I outline why, point-by-point, in the link below.

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Kian Sadeghi@KianSadeghi5·23 Kas

Everything levied unto Nucleus by @sichuan_mala is false. Worse than false, it appears to be architected by a competitor that has repeatedly published misstatements and inaccuracies. Sichuan is compromised. But it gets worse. I have been informed that @cremieuxrecueil — race “scientist” in chief — has been paid off by the competitor to promote this nonsense against Nucleus. For the independent scientists repeating this libel, I would encourage you to do more diligence on who you are aligning yourself with. Our scientific team will issue a point by point response. Unfortunately, though, this isn’t about science. It’s a concerted attempt to cancel Nucleus on the backs of our successful campaign and efforts to build + advance the industry, which benefits the very people who are attacking us. To the the mob trying to cancel Nucleus: Keep tweeting. Stay mad. We’ll keep building and serving patients. P.S. We won the injunction. Link below.

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Kian Sadeghi@KianSadeghi5·17 Kas

BREAKING Have your best baby. Today, @nucleusgenomics announces the largest genetic optimization campaign ever. > Full station-blitz of Broadway Lafayette > 1,000+ street ads across NYC > 1,000+ subway car ads > Dozens of Urban panels throughout Soho

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Nucleus Genomics@nucleusgenomics·17 Kas

Anyone can have a taller, smarter, and healthier baby with IVF+. But the broader public is not yet aware what is now possible with advanced genetics. So we've launched the "Have Your Best Baby" campaign to bridge that gap. The future of modern family planning is here.

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Stephan Cordogan@stephan_cdgn·14 Kas

If you bothered to look, you'd find that most providers have detailed validations which report the variance explained by polygenic scores in large test cohorts, and the corresponding disease risk reductions from selecting embryos with favorable scores. Sometimes, they address claims by critical scientific bodies directly-

Emma Waters@emlwaters

This is misleading. I’ve not seen an article, including the WSJ, claim that you cannot predict disease risks from DNA alone. The question is *how accurate* is it? Also, it’s well-known that it’s largely and only really reliably studied among those with European ancestry (including your computational data paper you cited). Accuracy rates are much lower for other minority groups. It is also worth asking what percentage of the time does a polygenic risk score actually result in that person getting that disease or condition? Height, the genetic relationship understood best, has only been able to successfully predict at the embryonic stage which sibling would end up being the tallest 1 IN 5 times. Again, doesn’t sound ready for clinical use. // I’d also happily read any of the studies you think best represent the field if you’ll share them with me.

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