Reposted by Kartik ChundruJames Fasham @jamesfasham.bsky.social · 16/06/2026🧬 Leigh Jackson (Exeter) presents multiple papers (see EJHG Special Issue ☝️ ) #ESHG2026 Penetrance of TSC, PCD, OI & RB1 across ~900,000 individuals Careful variant & phenotype curation matters In clinically unselected populations, disease risk can be ⬇️ than traditional estimates. #Genomics 2115
Kartik Chundru @chundru.bsky.social · 14/06/2026Whoop! Very proud to see how far Mwenda has come in such a short space of time 🤩 040
Reposted by Kartik ChundruJames Fasham @jamesfasham.bsky.social · 13/06/2026Caroline Wright (Exeter) sharing fundamental knowledge What does the "average" human genome look like?" >900k 🧬 #UKB / #AllofUs / Genome: 1️⃣ ~4.4–5.5 million variants 2️⃣ 2–3 ClinVar P/LP (mostly AR) 3️⃣ ~62–70 de novo variants 4️⃣ ~1 in 5 people in top 1% of PRS for ≥1 disease 02513
Reposted by Kartik ChundruCaroline Wright @carolinefwright.bsky.social · 12/06/2026Exeter genomics out in force at #ESHG2026 in Gothenburg! Multiple talks and posters every day... 0155
Kartik Chundru @chundru.bsky.social · 07/02/2026I love that movie. There’s something very satisfying about watching people do crazy amazing things from the safety of your sofa 100
Kartik Chundru @chundru.bsky.social · 06/02/2026Woo!!! @hiwwright.bsky.social bamboozles us with his All of Us mastery! This is the result of lot of hard work and some brilliance from one of the most talented ECRs I’ve worked with A very important message which will reduce a lot of noise in aggregate associations, and improve interpretability 040
Reposted by Kartik ChundruMichael Hoffman @michaelhoffman.bsky.social · 10/01/2026What genetic change to Indian wheat led to superior baking in a tandoor? A naan sense mutation 1717125
Reposted by Kartik ChundruEloise Beer Wells @eloisewells.bsky.social · 10/12/2025*A new pre-print on increasing gene expression!* 🧬📈 doi.org/10.64898/202...doi.orgModulating splicing in five prime untranslated regions to treat rare haploinsufficient diseaseRare genetic disorders collectively impact over 300 million people worldwide, yet around 95% have no specific treatments. For the many rare disorders caused by haploinsufficiency, effective therapies ... 1259
Reposted by Kartik ChundruJames Fasham @jamesfasham.bsky.social · 08/12/2025Our new study defines a distinct #neurogenetic condition arising from recurrent structural variants at 16p13.3 palindrome. Individuals show progressive ataxia, cognitive decline, and a characteristic MRI pattern with caudate & cerebellar atrophy. #Genomics #RareDisease 🧵1/3 2147
Kartik Chundru @chundru.bsky.social · 06/12/2025“Herasight claims to deliver an average gain of six IQ points for a couple with five embryos” Probably with a sd of 20 😂 Paying £40k for that is insanity 010
Kartik Chundru @chundru.bsky.social · 02/12/2025Early Christmas present! Thank you Father Quistmas!🎅 030
Reposted by Kartik ChundrumedRxivpreprint @medrxivpreprint.bsky.social · 25/11/2025Domain-wide Mapping of Peer-reviewed Literature for Genetic Developmental Disorders using Machine Learning and Gene2Phenotype www.medrxiv.org/content/10.1101/202… 032
Reposted by Kartik ChundruExeter Rare Disease @rdexeter.bsky.social · 27/11/2025It was a privilege to be part of this important international effort. How should we determine the value of genomics in healthcare? 062
Kartik Chundru @chundru.bsky.social · 17/11/2025Please forward this to any you know who could be interested! The incredible @drghawkes.bsky.social will be leading a course on analysis of genome sequence data, functional annotation of the genome, and using the very, very exciting AlphaGenome tool 021
Kartik Chundru @chundru.bsky.social · 17/11/2025Great work Alex and team! Have been following with interest for a while. I’m still in team “2nd tier test” 😅 but all of your work has made me think about it more. Do you think you will make much gain using pangenome assembly, in particular for complex gene/regions? 000
Kartik Chundru @chundru.bsky.social · 13/11/2025Thank you 🙂 I’m looking forward to reading your flexRV paper and giving it a try! 000
Reposted by Kartik ChundruTim Frayling @timfrayling.bsky.social · 08/11/2025Rarely in the entire history of science, has QC been a topic of such passion, importance and impact. If only the French and Americans had adopted such rigor when they messed up the design of that multi billion $ telescope because one was using the metric system, the other the imperial system. 073
Reposted by Kartik ChundruRuby Dawes @ruebenadawes.bsky.social · 10/11/2025hell yes! (another quote for you kartik) 131
Reposted by Kartik ChundruDr Gareth Hawkes @drghawkes.bsky.social · 10/11/2025Genomic superstar @chundru.bsky.social taking on fake-news genotypes in >900k individuals. He shows allele-level filtering is rarely suffifient, and makes the brave choice to properly tackle chrX! We’ll be providing our filtered AoU WGS plink pgens for all registered users: watch this space 074
Kartik Chundru @chundru.bsky.social · 10/11/2025Ha! Thanks, I'll file right under "Even reviewer 3 was speechless" 020
Kartik Chundru @chundru.bsky.social · 08/11/2025Thank you to other co-authors @carolinefwright.bsky.social, @mnweedon.bsky.social, @timfrayling.bsky.social, and @drarwood.bsky.social, @nihrexeterbrc.bsky.social, biobanks @ukbiobank.bsky.social and All of Us, and all of the participants of the studies 141
Kartik Chundru @chundru.bsky.social · 08/11/2025A massive, massive thank you to @hiwwright.bsky.social, @rnbeaumont.bsky.social, @drghawkes.bsky.social who all really drove this project to completion. Without them I would still be twiddling my thumbs shouting to the clouds about QC (I still will, but now you can read about it too!) 152
Kartik Chundru @chundru.bsky.social · 08/11/2025Using our DNANexus applet it is fast and not too expensive to QC and convert the entire UK Biobank WGS files to pgens! github.com/chundruv/ukb... And for All of Us v8, we will provide you with the QC’ed pgen files on publication in a public workspace available to registered users.github.comGitHub - chundruv/ukbb_pvcf2pgen: UKBB pVCF to plink pgen conversionUKBB pVCF to plink pgen conversion. Contribute to chundruv/ukbb_pvcf2pgen development by creating an account on GitHub. 141
Kartik Chundru @chundru.bsky.social · 08/11/2025“Ok fine, but what about the X chromosome, you always forget that” This time we didn’t ignore the X chromosome! We show that you should pay special attention to non-pseudoautosomal X chromosome where QC should be more lenient for haploid males. 131
Kartik Chundru @chundru.bsky.social · 08/11/2025“But Kartik, how do we know the genotypes are wrong?” Trios! Both cohorts have ~1k parent-offspring trios that were recruited incidentally. Applying genotype-level QC reduces Mendelian errors by ~60-80% (even in All of Us where they already did genotype-level QC on hom-refs!) 132
Kartik Chundru @chundru.bsky.social · 08/11/2025“Bah humbug! How bad could it be?” After genotype-level QC and a 10% missingness cut-off, we remove ~100 million (~9%) variants! Most genotypes removed are homozygote reference (which were filtered in All of Us already) 151
Kartik Chundru @chundru.bsky.social · 08/11/2025We caution that the released data in UK Biobank and All of Us is not as clean as you may believe! Here, we show how we determine data quality in WGS data, provide a really fast way of doing so on biobank data, and we will release QC’ed plink files for All of Us upon publication 131
Kartik Chundru @chundru.bsky.social · 08/11/2025New paper on everyone’s favourite topic, QC! We show why you should do genotype-level QC on your WGS data www.biorxiv.org/content/10.1... Very real quotes about this paper - “The most exciting, mind-blowing paper of the year!” “On a par with Fisher 1918” “I read it every night. Just so beautiful”biorxiv.orgGenotype-level quality control substantially reduces error rates in population-scale whole-genome sequencingPopulation-scale whole-genome sequencing data will contain many individual-level genotype errors, even after allele-level quality control (QC). We establish the need for genotype-level QC using UK Bio... 24619
Kartik Chundru @chundru.bsky.social · 09/09/2025Really cool work from @jacquesml.bsky.social and @kash-a-patel.bsky.social 🥳 24% common variant heritability for a rare disease (MODY)! This very elegantly shows the overlap between MODY and T2D, and hints at some potential MODY phenocopies 041
Reposted by Kartik ChundruJacques Murray Leech @jacquesml.bsky.social · 11/08/2025New preprint out now! We show polygenic background shapes GCK-MODY clinical presentation. In >1,000 cases, higher polygenic risk increased the chance of exceeding diagnostic diabetes thresholds, highlighting how monogenic & polygenic factors jointly shape disease. #Genetics 196
Reposted by Kartik ChundruNechama Wieder @nechamawieder.bsky.social · 04/07/2025Super excited to share our new review paper - The role of untranslated region variants in Mendelian disease! www.nature.com/articles/s41...nature.comThe role of untranslated region variants in Mendelian disease: a review - European Journal of Human GeneticsEuropean Journal of Human Genetics - The role of untranslated region variants in Mendelian disease: a review 1216
Reposted by Kartik ChundruSickKids Cardiac Precision Medicine @skcardprecisionmed.bsky.social · 27/06/2025⌛Just over a week left! Submit your abstract for the Cardiac Precision Medicine in the 21st Century Conference 🫀 📅 Oct 29–31, 2025 | Toronto Showcase your research + compete for Best Abstract Award! 🔗 cardiacprecisionmedicine.com #CardiacPrecision #Genomics #callforabstracts 022
Reposted by Kartik ChundruŽiga Avsec @avsecz.bsky.social · 25/06/2025Excited to launch our AlphaGenome API goo.gle/3ZPUeFX along with the preprint goo.gle/45AkUyc describing and evaluating our latest DNA sequence model powering the API. Looking forward to seeing how scientists use it! @googledeepmind 521982
Reposted by Kartik ChundruAparajita Sriram @aparajita-sriram.bsky.social · 04/06/2025Excited to share the preprint of our paper (my first paper!) looking at limited evidence MODY genes. We use rare variant burden testing and one of the largest MODY cohorts to evaluate the pathogenicity of these genes. This evidence can help inform clinical guidelines in MODY genetic testing! 034
Reposted by Kartik ChundruCaroline Wright @carolinefwright.bsky.social · 27/05/2025Last day of #ESHG25 #ESHG2025, make sure to catch two fantastic back-to-back talks from @hls.exeter.ac.uk @drghawkes.bsky.social describing whole genome association analysis and meta-analysis across >500,000 people (Tuesday 11:15 & 11:30, C32) 0123
Reposted by Kartik ChundruDr Gareth Hawkes @drghawkes.bsky.social · 27/05/2025Come along today and see me and Harry begin to tackle the exponentially increasing population scale WGS data! #ESHG2025 #ESHG25 083
Kartik Chundru @chundru.bsky.social · 26/05/2025I missed Hyung Chul’s poster! I’ll have to go see it later today 000
Reposted by Kartik ChundruNicky Whiffin @nickywhiffin.bsky.social · 26/05/2025The team have all done their job beautifully #proudPI - now it is my turn. Join us in the late breaking session to hear about collaborative work with @gregfindlay.bsky.social on saturation genome editing of RNU4-2 (at 11:30). You will also get to hear the awesome @chundru.bsky.social! #eshg2025 1112
Reposted by Kartik ChundruCaroline Wright @carolinefwright.bsky.social · 26/05/2025At #ESHG25, make sure to hear the fantastic @chundru.bsky.social speak about characterizing genome-wide de novo mutations in control populations versus rare disease cases (Monday 11:15, C29), part of the work we're doing in paradigmgenomics.org 0125
Kartik Chundru @chundru.bsky.social · 26/05/2025I will be talking today in Space 3. The session starts at 10:30, my talk will be at 11:15 Come join if you are interested in de novo mutations, non-coding genome, rare disease, or just up for seeing @nickywhiffin.bsky.social talk about RNU4-2 saturation mutagenesis after me 😂 #ESHG2025 171
Reposted by Kartik ChundruJames Fasham @jamesfasham.bsky.social · 23/05/2025Thanks Gareth! I'm speaking at Workshops W10 and W19. Also please do see Leigh's poster that has some our data on low penetrance of TS in biobank - keen for feedback! #ESHG2025 062
Kartik Chundru @chundru.bsky.social · 23/05/2025Do come see some of these talks and posters! These are all incredible scientists (and @drghawkes.bsky.social), I can’t recommend them and their research enough #ESHG2025 030
Kartik Chundru @chundru.bsky.social · 23/05/2025maps.app.goo.gl/3mVcfCo2WWtc... Courtesy of @jamesfasham.bsky.socialmaps.app.goo.gl 010
Kartik Chundru @chundru.bsky.social · 23/05/2025I’m mostly excited about the food, but the people and science will be fun too 😂 000
Kartik Chundru @chundru.bsky.social · 23/05/2025I’m really looking forward to #ESHG2025! Hopefully it goes better than my start, I dropped my laptop bag first thing this morning 😅 luckily no damage 100
Reposted by Kartik Chundrudeciphergenomics.bsky.social @deciphergenomics.bsky.social · 07/05/2025Human Developmental Cell Atlas (HDCA) expression data is now displayed. Expression is displayed in 12 sections of a 6-7 post-conception week human embryo, alongside a sagittal view which displays the region of the embryo represented by each section @mhaniffa.bsky.social 0177
Reposted by Kartik ChundruIsaac García @isaacgs94.bsky.social · 16/05/2025It's finally out people ✅🗞️! Check out the final version of our work exploring factors influencing the germline mutation rate and spectra on ~10,000 WGS family trios 🧬👨👩👦! www.nature.com/articles/s41...nature.comThe impact of ancestral, genetic, and environmental influences on germline de novo mutation rates and spectra - Nature CommunicationsHere the authors analyze de novo mutations in >10,000 parent-offspring trios and find that ancestry and smoking independently associate with mutation rate, but that common genetic variants likely c... 22210