Annique Claringbould
Assistant Professor 👩🏼💻 at Erasmus Medical Center Rotterdam researching genetics & gene regulation 🧬🖥 in the context of disease 🥼💉📊
- Reposted by Annique ClaringbouldThe department of Philosophy and Moral Sciences at Ghent University is proud to present a lecture series on the topic of eugenics. As philosophers and ethicists, we are concerned about the revival and normalization of eugenic discourse. humanitiesacademie.ugent.be/eugenics
- Reposted by Annique ClaringbouldBig new blogpost! My guide to data visualization, which includes a very long table of contents, tons of charts, and more. --> Why data visualization matters and how to make charts more effective, clear, transparent, and sometimes, beautiful. www.scientificdiscovery.dev/p/salonis-gu...
- Reposted by Annique ClaringbouldFunders must recognise that great discoveries often come from studies that seeks to advance knowledge for its own sake go.nature.com/47zrzYZ
- Reposted by Annique Claringbould[Not loaded yet]
- Reposted by Annique ClaringbouldThe Open Targets Platform autumn release is out! 🍂 We have ingested the full dataset of over 13 million enhancer-gene regulatory interactions in the human genome across 1,458 DNase-seq experiments covering 369 cell types and tissues from the ENCODE-rE2G model blog.opentargets.org/open-targets...
- Reposted by Annique Claringbould📣 We are recruiting! Please share!! Are you a bioinformatician / computational scientist who wants to apply your skills to understanding regulatory biology and improving rare disease diagnosis and treatment? 🧠 💻 🧬 🩺 We have two roles available 👇 🧵 1/4
- Reposted by Annique ClaringbouldWhat a fantastic #ISMBECCB2025 conference it has been, with an outstanding #RegSys @iscb-regsys.bsky.social COSI track! Thanks, everyone, for submitting, attending, presenting, and organizing @iscb.bsky.social @eccb-europe.bsky.social
- Reposted by Annique ClaringbouldThe #RegSys @iscb-regsys.bsky.social track is gonna be outstanding again this year with a great selection of talks and keynotes @verapancaldi.bsky.social, Mafalda Dias, Roser Vento-Tormo, and @lucapinello.bsky.social ! www.iscb.org/ismbeccb2025...
- Reposted by Annique ClaringbouldExcited 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
- How do schizophrenia-linked transcription factors and chromatin regulators affect gene regulation in neurons? 🧬🧠 We assess the functional consequences of ❌knocking down❌ 65 SCZ genes and find that they disrupt neurodevelopmental timing ➡️🕐 See paper for GRNs 🖥️, validation screens ✅ & mechanisms 🧩
- High-throughput single-cell CRISPRi screens stratify neurodevelopmental functions of schizophrenia-associated genes biorxiv.org/content/10.1101/202…
- Reposted by Annique ClaringbouldTextbooks: “Enhancers are just a bunch of TFBSs” But how do they REALLY work? New paper with many contributors here @berkeleylab.lbl.gov, @anshulkundaje.bsky.social, @anusri.bsky.social A 🧵 (1/n) Free access link: rdcu.be/erD22
- Reposted by Annique ClaringbouldYour genome is not a blueprint. A thread about misleading metaphors in science communication. 🧬🧪 1/n
- Reposted by Annique ClaringbouldAnd read the News & Views highlighting this work, here: www.nature.com/articles/s41...
- Reposted by Annique ClaringbouldSUM-seq is an ultra-high-throughput method for co-profiling chromatin accessibility and gene expression in single nuclei. @anniquec.bsky.social www.nature.com/articles/s41...
- Justified standing ovation for Nobel laureate Katalin Karikó at #ESHG2025 She shared her adventurous scientific life and life lessons like "If you want to do something, you find a way. If not, you find excuses", and reminded us scientists to thank our near and dear because "they suffer a little bit"
- Reposted by Annique ClaringbouldThis was a long, fun project, which took the effort of many talented people (Sara Lobato, Umut Yildiz, @anniquec.bsky.social et al.) from the Zaugg and Noh labs! @embl.org @unibas.ch A detailed protocol is in the works for release. For now, check out the paper!
- SUM-seq is now out 🤩 See Mikael's thread below for paper highlights
- SUM-seq out @natmethods.nature.com ! 🚀 Ultra-high-throughput Multiplexed snATAC+RNA Used to: ⏳ link temporal macrophage GRNs to immune disease genetics 🩸 map T cell regulatory landscapes 🧬✂️ dissect TF function in hiPSC differentiation via CRISPRi/a screens doi.org/10.1038/s41592-025-02700-8 🧵
- For those who just attended my talk at #ESHG2025: embargo on SUM-seq has lifted! www.nature.com/articles/s41...
- Reposted by Annique ClaringbouldAnnique Claringbould @anniquec.bsky.social is talking about CRISPR interference in primary CD4 T cells for ~1000 GWAS-implicated enhancers, reading out ~2000 genes. Interfering with some key enhancers (CD28, IL2RA) impact basically every CD4-expressed gene. #eshg2025
- Today I'm presenting some unpublished work of a CRISPRi screen targeting T-cell-specific enhancers that overlap immune disease GWAS hits in session S14 at #ESHG2025 - hope to see you there!
- Ciao Milano! Looking forward to #eshg2025 these next days
- Wonderful resource if you're looking to catch up on sequence language models in genomics!
- 🚨 I just released the alpha-version of my AI in Genomics textbook! It covers (so far!) sequence language models & deep learning for DNA/RNA/proteins. Check it out: biobook.michel.science
- Reposted by Annique ClaringbouldChoose Science. Choose Europe. A new Marie Skłodowska-Curie Actions Postdoctoral Fellowships 2025 call is now open. With a budget of €404.3 million, it will support around 1,650 researchers from Europe and beyond. Apply by 10 September → europa.eu/!fBTMgF
- Reposted by Annique ClaringbouldOur new contribution to the quest to find causal GWAS genes! Sam Ghatan from my lab at @nygenome.org led a systematic comparison of eQTLs and CRISPRi+scRNA-seq screens. TL;DR: they provide highly complementary insights, with ortogonal pros and cons. 🧵👇 www.biorxiv.org/content/10.1...
- Reposted by Annique Claringbould📣📣 New postdoc in biomedical data science available in our lab!! www.jobs.cam.ac.uk/job/50966/ Flexible funding - many research areas in scope + ideas welcome Check out our group www.inouyelab.org/home And the awesome Cambridge research environment! @vpd-hlri.bsky.social @uniofcam.bsky.social
- Reposted by Annique ClaringbouldJust out! Our manuscript (led by Pauline Lanting and @robertwarmerdam.bsky.social) on the generation of pharmacogenetic passports from low-cost GSA oligonucleotide array data.
- I want to share some observations from a recent recruitment process for a PhD position that may be interesting for other future candidates 🧵
- I want to preface it by saying I've seen many great, well thought through applications, and making decisions in this process was hard because of the 💯 quality 💯 of the candidates
- I posted an open vacancy for a PhD position, asked people to apply with a CV and motivation letter, and published about it here and on some other platforms - all standard stuff
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View full threadMy recommendations 💡 add some personality or info to your letter that is not obvious from your CV 💡 use AI tools for brainstorming, drafting, and improving flow and grammar, but DO NOT let it write the entire letter 💡 remember that vacancies are about people, and hiring committees want to see you 👉
- Reposted by Annique ClaringbouldIn every civilization, people end up sorted into levels of socio-economic status (SES). We explore the history, present, and future of scientific research on the complicated relationship between SES and DNA in @naturehumbehav.bsky.social💰🧬🎓 Link: rdcu.be/efacK Thread below 👇🏽
- Exciting day! It's the opening of the Netherlands Women's Health Research and Innovation Center @erasmusmc.bsky.social
- Reposted by Annique ClaringbouldLet me tell you a story about 2 patients we identified, both with a rare variant in TNNT2; NM_001001430.3: c.571-1G>A. Both had cardiac phenotypes and both had Oceanian ancestry Our latest in EHJ! @alexbutters25.bsky.social @escardio.bsky.social #medsky #genechat #cardiosky doi.org/10.1093/eurh...
- Reposted by Annique Claringbould📣 New from the lab: The contribution of genetic determinants of blood gene expression and splicing to molecular phenotypes and health outcomes www.nature.com/articles/s41... Check out the INTERVAL RNAseq portal www.intervalrna.org.uk Led by @alextokolyi.bsky.social & Elodie Persyn!
- Reposted by Annique ClaringbouldRecruitment for the EMBL International PhD Programme is officially open! 🔊 At EMBL, we train young scientists to become skilled and creative future leaders in academia, industry & other sectors. Start your career in the life sciences with us! www.embl.org/about/info/e... 🧪 #AcademicSky #careers
- One more week to apply! 🧬💻
- Come do a PhD with me! 🖥️🧬 We've got very exciting multiomics data coming in, you get to shape the project and there are lots of opportunities to collaborate and learn. Reach out here or via email if you have questions Please reskeet 🙏 www.werkenbijerasmusmc.nl/en/vacancy/1...
- Come do a PhD with me! 🖥️🧬 We've got very exciting multiomics data coming in, you get to shape the project and there are lots of opportunities to collaborate and learn. Reach out here or via email if you have questions Please reskeet 🙏 www.werkenbijerasmusmc.nl/en/vacancy/1...
- Reposted by Annique ClaringbouldWe present Gene Regulatory nETwork Analsyis (GRETA), a framework to infer, compare and evaluate gene regulatory networks #GRNs. With it, we have benchmarked multimodal and unimodal GRN inference methods. Check the results here 👇 Paper: doi.org/10.1101/2024.12.20.629764 Code: github.com/saezlab/greta
- Reposted by Annique Claringbould🌟 Exciting news: The Leena Peltonen School of Human Genetics returns in 2025! We're excited to bring PhD students together with an all-star list of leaders in human genetics. 📅 July 27-31, 2025 📍 Wellcome Genome Campus, UK 📝 Apply by March 7 at www.lpshg.com
- Reposted by Annique ClaringbouldFrom next spring, the Open Targets Platform will incorporate the best of Open Targets Genetics into an integrated drug discovery platform 🧵
- Reposted by Annique ClaringbouldFrom GWAS variants⚡️to key-genes🧬: Downstreamer is your tool! This tool developed by (former) colleagues @patrickdeelen.bsky.social, @anniquec.bsky.social and Olivier Bakker incorporates GWAS Variants and tissue specific co-regulation to identify key genes for common diseases 👇Explainer
- Downstreamer is now available: www.nature.com/articles/s41... We used 57 tissue specific gene expression networks to identify key genes of common diseases. 78% of these key genes are located outside of GWAS loci. 1/4
- Proud to share my final PhD work! 🧬🖥️ This article is about finding KEY DISEASE GENES using GWAS and gene expression patterns, nicely explained in Patrick's thread below. But it's also a story about perseverence and team work across institutions, thanks to Olivier, Lude and Patrick 🙏
- Downstreamer is now available: www.nature.com/articles/s41... We used 57 tissue specific gene expression networks to identify key genes of common diseases. 78% of these key genes are located outside of GWAS loci. 1/4
- Reposted by Annique ClaringbouldDoes my mutation have the same impact as yours? Population genetics 🤠 🥸 🤓 🤡 meets single cell CRISPRi ⚡ ! www.biorxiv.org/content/10.1... Led by Claudia Feng, Oliver Stegle, Britta Velten, @sangerinstitute.bsky.social .
- Reposted by Annique Claringbould🚨 This will become a curated list of awesome tools for complex trait genetics, **add yours**! it may become a review in which case those who contribute are invited as co-authors.
- Reposted by Annique ClaringbouldMeanwhile in the Netherlands… An already hyper competitive milieu that will see its biggest cuts of recourses seen in years www.nature.com/articles/d41...
- Reposted by Annique ClaringbouldFor „fun with numbers“ there’s www.graphs.world …where you guess what the underlying dataset is for a daily chart.
- Reposted by Annique Claringbould🎉 New blog post! Choosing colors for a #dataviz on race, ethnicity or continents can be tricky. I collected lots of examples and wrote down 6 guidelines to help ensure all your readers feel respected by your color choices: blog.datawrapper.de/colors-for-r...
- Let's use Bluesky in hopes of leaving the other place I'll be discussing my recent work in the early-career scientist Variant Effects Seminar Series! 🧬🖥️ "Leveraging single-cell transcriptomics to study complex diseases" Tomorrow 9am PDT / 6pm CEST varianteffect.org/seminar-series
- I am very happy to share that I’ve been awarded the Dutch Diabetes Foundation Junior Fellowship! I will study how polygenic risk for T2D impacts gene regulation in iPSC-derived pancreatic beta cells. I am looking forward to this new step in my research! www.diabetesfonds.nl/over-diabete...
- Right before the end of the year the Zaugg and Noh teams at EMBL shared SUM-seq: a scalable single cell ATAC+RNA method. Perfect if you want to scale up time course, drug/CRISPR screen or atlas projects! 🖥️ 🧬 www.biorxiv.org/content/10.1...
