Kaido Lepik
@kaidolepik
Followers
75
Following
185
Media
2
Statuses
46
Postdoctoral researcher in statistical genetics at the University of Lausanne. Developing causal methods.
Tartu, Estonia
Joined December 2013
NEW PREPRINT! We have a new MR method called MR-link-2, which we validated extensively. Interested in Mendelian randomization? A🪡 below https://t.co/4l0Or9iA2u
2
41
121
New year, new paper! 💫📄 Our study on the role of #CNVs as #pleiotropic modulators of #CommonDisease susceptibility is out in @GenomeMedicine: https://t.co/sbCq8eYXCl Major findings (👉🏻 https://t.co/UJDasiQIn5) + 3 of my favorite new insights based on reviewer’s comments in 🧵
📢 New CNV-#GWAS preprint! Excited to share the 2nd chapter of my PhD! 🥳 After previously showing that #CNVs affect continuous traits in the @uk_biobank, we asked whether they also modulate susceptibility to 60 common diseases? 👇🏻🧵 https://t.co/NcrdhilgdP
1
17
57
Very happy to announce that our work “Multi-layered genetic approaches to identify approved drug targets” is now published @CellGenomics
https://t.co/t4PkK25vae Many thanks to all co-authors @zkutalik @cauwerx @PatrickDeelen for their precious contribution! 1/10
10
44
134
Our pre-print is out 🎉! Read below on how we performed informative clustering of BMI SNPs using PheWAS data of 400+ traits, this revealed several SNP groups that were enriched for distinct trait themes like body lean mass, job type and education, nutritional supplements..🧵👇1/4
PheWAS-based clustering of Mendelian Randomisation instruments reveals distinct mechanism-specific causal effects between obesity and educational attainment https://t.co/zTWlMc6jg3
#medRxiv
1
15
46
Most promising method to identify drug targets? 🎯 - #GWAS - #eQTL-GWAS - #pQTL-GWAS - #exome Excited to share our new preprint where we compare all methods including #network approaches ( https://t.co/xMvhqSmUv6) Very grateful to all co-authors @zkutalik @cauwerx @PatrickDeelen
medrxiv.org
Drugs targeting genes that harbor natural variations associated with the disease the drug is in-dicated for have increased odds to be approved. Various approaches have been proposed to iden-tify...
3
56
188
Excited to share our attempt to detect stabilising selection acting on metabolites (from GWAS) and linking its strength with cross-species conservation score and also with their causal effect strength on multiple cardio-metabolic traits.
2
14
48
Excited to share that our paper about DNAm mediation through transcript levels is now published @NatureComms! https://t.co/RNjLcjGGsl Very grateful to all co-authors @CAuwerx @kaidolepik @ElePorcu @zkutalik for their precious contribution! #omics #GWAS #MendelianRandomization
1
25
61
1
10
30
Just out! 📢 📢 📢 The largest study on stroke genetics 🧬 with more than 2M individuals (incl. >200,000 cases) just published in @Nature! Have a look here 👉 https://t.co/narkzZwWp9 🧵1/7
4
90
189
Much of the knowledge on the 22q11.2 deletion syndrome stems from clinical cohorts. 🏥 Can we learn more by studying 22q11.2 CNVs in a population-based cohort such as the @uk_biobank? 🌍 Find out in our new preprint by Malú Zamariolli! ⬇️ https://t.co/gjBJJwG5dF
medrxiv.org
While extensively studied in clinical cohorts, the phenotypic consequences of 22q11.2 copy number variants (CNVs) in the general population remain understudied. To address this gap, we performed a...
0
5
21
🔔New pre-print out!!! With @CAuwerx @smarie_smarie Alexandre Reymond and @zkutalik we combined eQTL, mQTL and GWAS data in a multi-omics Mendelian Randomization approach to identify metabolites mediating transcript-trait associations. https://t.co/1L5f7INDuS
1
19
71
Happy to see how a seed planted at a "write a review" course by @cdessimoz under the gifted hands of @CAuwerx & @smarie_smarie turned into such a great publication!
New! @CAuwerx , Marie Sadler & colleagues review pharmacogenomics and outline strategies for future development & clinical implementation #OA @cig_unil
1
11
35
Happy to share this highly collaborative work led by @MaarjaLepamets (w @CAuwerx, @LudeFranke, @kaidolepik etc) on omics-informed CNV confidence assessment and its translation to improved association signals.
biorxiv.org
Copy number variations (CNV) are believed to play an important role in a wide range of complex traits but discovering such associations remains challenging. Whilst whole genome sequencing (WGS) is...
0
6
16
Estimating heritability of low prevalence traits in biobanks can lead to unstable and unrealistic results due to high estimator variance. We are very happy to share a correction that increases the estimation accuracy of low prevalence trait heritability.
medrxiv.org
Theory for liability-scale models of the underlying genetic basis of complex disease provides an important way to interpret, compare and understand results generated from biological studies. In...
1
25
59
Hi everyone, Today, our paper on microbiome host genetics (🧬) is published in Nature Genetics! 🎉🎉🎉 A 🧵 on what we found with @SashaZhernakova, @serenasanna1, @ealopera14, @AKurilshikov and @Shixian00000
https://t.co/6ks3jufdwl
nature.com
Nature Genetics - A genome-wide association study of 207 taxa and 205 pathways representing gut microbial composition and function from 7,738 individuals of the Dutch Microbiome Project identifies...
1
33
105
Really nice example of GWAS to drug targets. First, confirm overlap of approved drugs with genetic phenotype; Second, fine-map to show direction of effect for drug perturbation; Third, confirm causality with MR; and Fourth, perform PheWAS to estimate ADEs. https://t.co/bkuIfk4gbD
0
32
154
Fresh off the press: Latent Heritable Confounder-MR has found a home at https://t.co/HMkXdshFas 🙌🥳 Very proud of this work, couldn't have done it without @zkutalik and @Nin0nM !
This is how we married LD score regression & MR to learn about genetic architecture and causality at the same time via harnessing information on all markers genome-wide.
3
13
70
Very happy to see BayesRR-RC, a statistical approach we developed for GWAS to improve SNP-heritability estimation, discovery, fine-mapping and genomic prediction, published in @NatureComms 🎉! https://t.co/kKtqBSm1ep
@dbc_unil @unil @ISTAustria
0
24
90
So happy to say this: our paper looking at the relationships between dietary patterns and blood metabolites is published! https://t.co/ugXbY67RhU Thank you so much to everybody involved (@NPirastu, @kristafischer16, Hanna-Kristel Valge, @EskoTonu, @MetspaluAndres, Jim Wilson)!
frontiersin.org
Nutrition plays an important role in the development and progress of several health conditions, but the exact mechanism is often still unclear. Blood metabol...
0
3
17
Super informative user story from @23andMe about scaling Nextflow on AWS Batch. Processed ~1 mln individuals per day using up to 10k CPUs per compute environment! 🚀🚀👍 Thanks for sharing! https://t.co/EyBPDAJCwG
medium.com
Build data-intensive computational pipelines where you can string together command-line tools and code artifacts!
1
38
88