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Peter Kraft

@peter-kraft.bsky.social
81 followers 42 following 56 posts

Cancer epidemiologist, statistical geneticist, biostatistician. National Cancer Institute, Harvard. Views my own.

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Peter Kraft @peter-kraft.bsky.social · 02/05/2026
Kodama: genotype compression and matrix multiplication leveraging genetic relatedness www.biorxiv.org/content/10.6...
Image of tree spirits from Miazaki’s Mononoke Hime.
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Center for Open Science @cos.io · 30/04/2026
Introducing the 𝐎𝐩𝐞𝐧 𝐒𝐜𝐡𝐨𝐥𝐚𝐫𝐬𝐡𝐢𝐩 𝐓𝐫𝐚𝐢𝐧𝐢𝐧𝐠 𝐟𝐨𝐫 𝐑𝐞𝐬𝐞𝐚𝐫𝐜𝐡𝐞𝐫𝐬 𝐒𝐞𝐫𝐢𝐞𝐬 We’re starting with 2 online courses, with more on the way: → Fundamentals of Open Scholarship > bit.ly/4vYZVjh → Preregistration and Reregistration Reports > bit.ly/48sPpXE 🧵 (1/6)
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Alicia Martin @genetisaur.bsky.social · 29/04/2026
📣 𝐖𝐞’𝐫𝐞 𝐡𝐢𝐫𝐢𝐧𝐠 𝐚 𝐩𝐨𝐬𝐭𝐝𝐨𝐜 𝐢𝐧 𝐩𝐨𝐩𝐮𝐥𝐚𝐭𝐢𝐨𝐧 & 𝐬𝐭𝐚𝐭𝐢𝐬𝐭𝐢𝐜𝐚𝐥 𝐠𝐞𝐧𝐞𝐭𝐢𝐜𝐬! 🌍📈🧬 If you’re finishing a PhD (or know someone who is) and want to work on complex trait biology + 𝑟𝑒𝑎𝑙-𝑤𝑜𝑟𝑙𝑑 𝑖𝑚𝑝𝑎𝑐𝑡, read on 👇
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xueyaowu.bsky.social @xueyaowu.bsky.social · 26/04/2026
Excited to share our new paper in @JNCI_Now! We integrated GWAS data from 11 solid cancers with ~1,500 cell type annotations to pinpoint WHERE in the body cancer risk variants actually act. A thread 👇 @peter-kraft.bsky.social
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Peter Kraft @peter-kraft.bsky.social · 25/04/2026
This👇 A key to any productive collaboration between computer scientists and epidemiologists (or clinicians or biologists or…) is to learn each others’ languages. Sometimes we use different words for the same concepts, sometimes we use the same words but mean very different things.
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Ying Wang @yingwangyw.bsky.social · 23/04/2026
🎉New preprint: Phenome-derived polygenic scores and social determinants jointly shape context-dependent disease risk. We evaluate disease risk along 2 complementary axes: • how genetic liability is represented • the social context in which it is expressed
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Peter Kraft @peter-kraft.bsky.social · 23/04/2026
Ooh sorry to miss in person but glad it will be recorded. Having embarrassed myself recently blathering on about how my one undergrad “Theater of Bertolt Brecht” class formed my perspective on AI (thanks umich rc!), it will be nice to hear from folks who’ve actually studied and thought about this.
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Peter Kraft @peter-kraft.bsky.social · 20/04/2026
Congrats and kudos to @xueyaowu.bsky.social for leading this collab with Joy Jiang, Graham Colditz, Rulla Tamimi & team—first of 🤞many projects to peek into the black box of AI mammogram risk models and see if they are telling us something about breast cancer epidemiology. 1/2
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Arrianna Marie Planey, PhD MA @arrianna-planey.bsky.social · 14/04/2026
So this is a really important point- using AI to "detect" IPV without patients' consent or willing disclosure raises issues - why screen for IPV without a patient-centered framework? - what are health systems doing with these data? - how are patients being protected?
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Peter Kraft @peter-kraft.bsky.social · 14/04/2026
No. No I am not. But I’m gonna steal that line: “from practice for practice.”
Screenshot of email subject line: Are you the Peter Kraft who wrote “NLP handbuch für anwender: nlp aus der praxis für die praxis”
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Peter Kraft @peter-kraft.bsky.social · 13/04/2026
Hey, cancer epi folks: I’m organizing an informal morning run/walk meet up at #AACR26. If you’d like to join, DM me for details!
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Peter Kraft @peter-kraft.bsky.social · 13/04/2026
Looking forward to #AACR26 in San Diego in less than a week! Check out these presentations from our team, including the largest ever GWAS of breast cancer & AML and a hot-off-the-presses study of mutational patterns in triple-negative breast cancer.
List of abstracts, including times and program numbers.
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Apr. 19, 2026, 4:35 PM - 4:50 PM
1381: The Confluence Project: Largest multi-ancestry genome-wide association study of breast cancer identifies 469 susceptibility loci in over two million participants African-ancestry Breast Cancer Genetic Consortium, Breast Cancer Association Consortium. Consortium of Investigators of Modifiers of BRCA1/2, Latin America Genomics of Breast Cancer Consortium, Male Breast Cancer Genetics Consortium, National Cancer Inst. Div. of Cancer Epidemiology & Genetics
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Apr. 20, 2026, 9:00 AM - 12:00 PM
1481:	Integrative analysis identifies potential proteomic intermediates associated with renal cell carcinoma and its risk factors. Ibrahim Hossain Sajal, Andrew J. Song, Kevin M. Brown, Mitchell J. Machiela, Peter Kraft, Stephen J. Chanock, Mark P. Purdue, Diptavo Dutta
2090:	Modifiable lifestyle factors and immune gene expression in breast tumor and normal-adjacent tissue. Kristen D. Brantley, Cheng Peng, Clara Bodelon, Deborah A. Tadesse, Peter Kraft, Rulla M. Tamimi

Apr. 21, 2026, 2:00 PM - 5:00 PM
LB387: Genome-wide association study identifies germline susceptibility loci for acute myeloid leukemia. Xueyao Wu, Filip Pirsl, Gabrielle Schmidt, Maryam Rafati, Aurélie Vogt, Herbert Higson, Jia Liu, Jiahui Wang, Shilpa Gaddam, Shengchao Li, Wael Saber, Yung-Tsi Bolon, Steven Moore, Sharon A. Savage, Stephen Chanock, Stephen Spellman, Peter Kraft, Shahinaz M. Gadalla
LB391: Pre-diagnostic exposures, mutational signatures, and immune profiles in triple-negative breast cancer: An overview of the PREMISE-TN project. Deborah A. Tadesse, Clara Bodelon, Cheng Peng, Kristen D. Brantley, Margaux Delporte, Yujing J. Heng, Lauren Teras, Rulla M. Tamimi, Peter Kraft
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Peter Kraft @peter-kraft.bsky.social · 11/04/2026
A propos moon bases and Mars colonies: “there will be ample provision for the elite,” Dennis Brutus, 1978.
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Linda Kachuri @lindakachuri.bsky.social · 18/03/2026
I’m honored and excited to join the Board of Directors! IGES is home to such a vibrant and welcoming scientific community, I look forward to helping it continue to thrive! 💟🧬 Join us for IGES 2026 in beautiful Estérel, QC 🍁 Abstract submission is open until May 30 www.geneticepi.org/2026-annual-...
geneticepi.org
2026 Annual Meeting
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George Davey Smith @mendelrandom.bsky.social · 17/03/2026
Failure to understand that the fundamental principle of Mendelian randomization (MR) is of gene-environment equivalence contributes to the flood of nonsense MR papers that are appearing; Shah Ebrahim, Gib Hemani and I explain why in this short commentary. journals.plos.org/plosmedicine...
journals.plos.org
Gene-environment equivalence: The fundamental principle of Mendelian randomization
In this Perspective, George Davey Smith and colleagues outline how and why gene-environment equivalence, the fundamental principle of Mendelian Randomization (MR), must be properly applied and critica...
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Alicia Martin @genetisaur.bsky.social · 28/11/2025
Interested in pleiotropy dissection but not sure where to start, which methods are useful, which studies offer illustrative examples, or how to robustly validate your results? Look no further 👀 rdcu.be/eSfAZ
rdcu.be
Dissecting pleiotropy to gain mechanistic insights into human disease
Nature Reviews Genetics - Genome-wide association studies of increasing scale have revealed the prevalence of pleiotropic genetic variants that affect multiple traits. In this Review, the authors...
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American Society of Human Genetics (ASHG) @geneticssociety.bsky.social · 06/10/2025
@ajhgnews.bsky.social sat with Julie-Alexia Dias, MSc, in the latest "Inside AJHG" to discuss her recently published paper, “Evaluating multi-ancestry genome-wide association methods: statistical power, population structure, and practical implications.”➡️ ashg.org/ajhg/inside-... #ASHG #humangenetics
Julie-Alexia Dias, MSc
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Peter Kraft @peter-kraft.bsky.social · 08/09/2025
This was neat work by @nmancuso.bsky.social et al developing and benchmarking a new multi-ancestry fine-mapping method (“SuShiE”). I learned something about the performance of pooled v stratified analyses but still have some Qs. 1/n
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James Pirruccello 🎃🦇🧹 @jamespirruccello.com · 02/09/2025
The observation that joint analysis can safely improve power strikes me as being a similar observation to that of @genandgenes.bsky.social et al in their Nature 2019 manuscript: www.nature.com/articles/s41...
nature.com
Genetic analyses of diverse populations improves discovery for complex traits - Nature
Genetic analyses of ancestrally diverse populations show evidence of heterogeneity across ancestries and provide insights into clinical implications, highlighting the importance of including ancestral...
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Peter Kraft @peter-kraft.bsky.social · 02/09/2025
Multi-ancestry GWAS can increase power and precision, but how should we analyze them? Pooled or stratified? We answer that question in a paper out today in AJHG, led by Julie Dias and Haoyu Zhang. 1/7 www.cell.com/ajhg/fulltex...
cell.com
Evaluating multi-ancestry genome-wide association methods: Statistical power, population structure, and practical implications
Multi-ancestry GWASs enhance discovery in diverse populations, but optimal methods remain debated. Using theory, simulations, and analyses from the UK Biobank and All of Us, we show that pooled analys...
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Ewan Birney @ewanbirney.bsky.social · 29/08/2025
An evergreen thread: Race/Ethnicity is *not the same* as genetics, and you can't use Race/Ethnicity as a sort of stand-in for genetics. These two concepts are connected via aspects like skin colour, but the connection is alot less profound and categorical than most people think.
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Ewan Birney @ewanbirney.bsky.social · 28/08/2025
Nice blog and good to see this also from the twins/shared environment side. We (with my colleagues in @wittbrodtlab.bsky.social) have tried to tackle the non-additive in experimental settings (in medaka fish) which we can map to human (as the medaka fish are "wild") www.biorxiv.org/content/10.1...
biorxiv.org
Discovery and characterisation of gene by environment and epistatic genetic effects in a vertebrate model
Phenotypic variation arises from the interplay between genetic and environmental factors. However, disentangling these interactions for complex traits remains challenging in observational cohorts such...
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Sasha Gusev @sashagusevposts.bsky.social · 27/08/2025
I wrote about gene-gene interactions (epistasis) and the implications for heritability, trait definitions, natural selection, and therapeutic interventions. Biology is clearly full of causal interactions, so why don't we see them in the data? A 🧵:
open.substack.com
Beneath the surface of the sum
When genetic interactions matter and when they don't
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Peter Kraft @peter-kraft.bsky.social · 27/08/2025
Upvoting this response to the NIH RFI on limiting publishing fees, and highlighting two points. 1/3
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Peter Kraft @peter-kraft.bsky.social · 26/08/2025
Congrats to Yuxi Liu & co. for showing adherence to a Mediterranean diet lowers dementia risk—especially for those who inherited risky genes. (1/4)
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