Reposted by Luca Pinellodanielevanbauer.bsky.social @danielevanbauer.bsky.social · 16/09/2026Inspired by Gibson cloning, we describe prime assembly, now published, for in cellulo targeted integration of gene-sized DNA fragments using prime editing. www.nature.com/articles/s41... 163
Reposted by Luca PinelloISCB News @iscb.bsky.social · 14/08/2026🚨DUE TODAY: Abstract submissions to NECB 2026! Submit your abstract to the NECB symposium by Friday, August 14 at 11:59 PM ET to be considered for a talk or poster presentation! 📥 Submit: newenglandcompbio.org 021
Luca Pinello @lucapinello.bsky.social · 14/08/2026Last call! Tomorrow, Aug 14, is the deadline for NECB 2026 abstracts. Want to present a poster or selected talk this October at Microsoft Research New England? Submit now at newenglandcompbio.org. I hope you can join us! #NECB2026 #ComputationalBiology #Bioinformaticsnewenglandcompbio.orgNECB 2026 — New England Computational Biology SymposiumNew England Computational Biology Symposium 2026 — Oct 1–2, Cambridge, MA 051
Luca Pinello @lucapinello.bsky.social · 17/07/20261/ I'm excited to share that we're launching NECB 2026, the inaugural New England Computational Biology Symposium. Oct 1-2 at Microsoft Research New England, Cambridge. Two days of keynotes,talks, and posters to bring our community together across institutions.Space is limited. newenglandcompbio.org 11710
Luca Pinello @lucapinello.bsky.social · 24/12/20251/ Thrilled to share our DNA-Diffusion paper, co-led by Lucas Ferreira and @ssenan.bsky.social is now out in @NatureGenet! New experimental results: STARR-Seq validation across 3 cell types (episomal) and EXTRA-Seq for endogenous activation of AXIN2, a leukemia protective gene! x.com/lucapinello/... 1133
Reposted by Luca PinelloAaron Quinlan (he/him) @aaronquinlan.bsky.social · 02/12/2025We are thrilled to announce the first official release (v0.1.8) of #𝗯𝗲𝗱𝗱𝗲𝗿, the successor to one of our flagship tool, #𝗯𝗲𝗱𝘁𝗼𝗼𝗹𝘀! Based on ideas we conceived of long ago (!), this was achieved thanks to the dedication of Brent Pedersen. 1/nquinlanlab.orgIntro to Bedder – The Quinlan Lab 5298151
Reposted by Luca PinelloJulia Zeitlinger @juliazeitlinger.bsky.social · 19/11/2025Very proud of our new paper! Great job @mweilert.bsky.social, our experimentalists and modeling collaborator Rosa Martinez-Corral. It was fun to see the story grow and get feedback from various experts. Thank you all! 1237
Luca Pinello @lucapinello.bsky.social · 22/10/2025🚨 Exciting opportunity! The Eric and Wendy Schmidt Center at the Broad Institute of MIT and Harvard is recruiting exceptional postdocs for 2026 at the intersection of ML/math and biomedicine. Shape the future of computational biology 🧵👇 182
Reposted by Luca PinelloAvantika Lal @avantikalal.bsky.social · 15/10/2025I'm happy to share that our gReLU package is now published in Nature Methods! www.nature.com/articles/s41...nature.comgReLU: a comprehensive framework for DNA sequence modeling and design - Nature MethodsgReLU advances deep-learning-based modeling and analysis of DNA sequences with comprehensive toolsets and versatile applications. 0206
Luca Pinello @lucapinello.bsky.social · 15/10/2025🧬Excited to be at #ASHG2025! My lab is presenting 5 studies this week. Join us for talks and posters on #SingleCell #CRISPR, #DeepLearning & more! Thread below with all presentation details 👇 2253
Reposted by Luca PinelloAnne Carpenter @drannecarpenter.bsky.social · 10/10/202515 years in the making, we confirmed that mitochondria - the powerhouse of the cell - have an unusual localization in patients who experience psychosis (including schizophrenia and bipolar disorders). You’ll never guess what kind of patient cells we used to make this discovery… 🧵 25415152
Reposted by Luca PinelloSasha Gusev @sashagusevposts.bsky.social · 27/08/2025I 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.comBeneath the surface of the sumWhen genetic interactions matter and when they don't 114447
Reposted by Luca PinelloSaez-Rodriguez Group @saezlab.bsky.social · 22/07/2025🎉 The revised version of CORNETO, our unified Python framework for knowledge-driven network inference from omics data, is published in peer reviewed form 🔗 Paper: www.nature.com/articles/s42... 📖 News & Views: www.nature.com/articles/s42... 💻 Code: corneto.org 🧵 Thread 👇 16129
Reposted by Luca PinelloDoug Fowler @dougfowler.bsky.social · 21/07/2025Interested in using functional data to understand clinical variants? Been hunting for a good review of the topic? We just wrote one! rdcu.be/exaEUnature.comMultiplexed assays of variant effect for clinical variant interpretationNature Reviews Genetics - Multiplexed assays of variant effect (MAVEs) are highly scalable experimental approaches used to generate functional data for genetic variants. In this Review, McEwen et... 06932
Luca Pinello @lucapinello.bsky.social · 20/07/2025Excited to be at #ISMBECCB2025! I'll be presenting at RegSys on "Learning the Regulatory Genome by Destruction and Creation" (Thursday 3:15PM in Room 11BC). I'm looking forward to connecting with both new and old friends throughout the conference! 🧬 #CRISPR #Genomics #Diffusion 030
Luca Pinello @lucapinello.bsky.social · 08/06/2025🧵 It's raining outside, perfect for some vibe coding... ☔ So I built something cool with @anthropic.com's Claude Desktop! Introducing Claude Text Editor - edit ANY text, ANYWHERE on macOS with Claude's help. No more copy-paste gymnastics! 🚀 121
Luca Pinello @lucapinello.bsky.social · 24/04/2025Great to see it finally out —such a fantastic collaboration with @bkleinstiver.bsky.social , @rachelsilverstein9.bsky.social and team! 050
Reposted by Luca PinelloAnders Sejr Hansen @andersshansen.bsky.social · 16/01/2025Excited to share James Jusuf's preprint: By integrating Micro-C with SuperRes Live-Imaging we can calibrate genomics&imaging to perform absolute quantification of looping (e.g. this loop is present 3%) We quantify mESC 36k loops: <loops> are generally rare (2.3%) www.biorxiv.org/content/10.1... 615364
Reposted by Luca PinelloCaleb Lareau @caleblareau.bsky.social · 08/01/2025Out today in @naturegenet.bsky.social -- PERFF-seq! With @tsionabay.bsky.social , @ronanchaligne.bsky.social, Bob Stickels, Meril Takizawa, + Ansu Satpathy, we describe this new assay to study rare populations with programmable nucleic acid cytometry. 1/n www.nature.com/articles/s41...nature.comTranscript-specific enrichment enables profiling of rare cell states via single-cell RNA sequencing - Nature GeneticsProgrammable Enrichment via RNA FlowFISH by sequencing (PERFF-seq) isolates rare cells based on RNA marker transcripts for single-cell RNA sequencing profiling of complex tissues, with applicability t... 416545
Luca Pinello @lucapinello.bsky.social · 23/12/20241/ 🎄 What’s the best gift under the tree for a computational biologist? 🎁 A new experimental assay that refines our view of gene regulation: ACCESS-ATAC! This creative idea from Richard Sherwood was developed collaboratively between his lab and mine. #Genomics www.biorxiv.org/content/10.1... 210431
Luca Pinello @lucapinello.bsky.social · 18/12/2024Excited to be visiting Duke University to share insights on computational methods for single-cell genomics and CRISPR genome editing! Thank you for hosting me @yi-zhang-compbio.bsky.social 🙏 192
Luca Pinello @lucapinello.bsky.social · 17/12/2024Amazing new assay that allows testing of multiple DNA sequences, similar to MPRA, but in an endogenous setting. Incredible potential! Congrats @jk-swietek.bsky.social , @bartdeplancke.bsky.social and the entire team – grateful and lucky to be an early adopter. Check it out! 080
Luca Pinello @lucapinello.bsky.social · 10/12/2024Attending #NeurIPS2024 this week and excited to connect with anyone exploring the intersection of #GenerativeAI, #DeepLearning, and #Genomics! I’m presenting our DNA-diffusion work at the LatinX in AI workshop today at 2:30—drop by if you’re around. Looking forward to meeting and learning from you! 0100
Luca Pinello @lucapinello.bsky.social · 02/12/2024Excited to visit the @humantechnopole.bsky.social 🇮🇹today to share our work on computational approaches in functional genomics! Looking forward to discussions with amazing scientists about #singlecell, #CRISPR, and #syntheticbiology. 🧬Special thanks to @nicolesoranzo for the invitation 🙏 0150
Luca Pinello @lucapinello.bsky.social · 21/11/2024Hello World! Very glad to be here and see the scientific community growing 🌱. It’s so refreshing to scroll through a feed full of exciting science! Looking forward to reconnecting with old friends and collaborators and meeting new ones. Let’s keep the science flowing! 🌟 1212
Reposted by Luca PinelloGioele La Manno @gioelelamanno.bsky.social · 19/11/2024Interested in #singlecell and #spatial #metabolomics? Then book your calendar for December 10th! – Our online, free event will summarize major achievements of the field in 2024. #metabolism #omics #MALDI #EPFL With Giovanni D'Angelo and our #PhD students we prepared for you a fantastic lineup. 🧵 1/5 26533
Reposted by Luca PinelloItai Yanai @itaiyanai.bsky.social · 19/11/2024There are ~40k postdocs in the US, according to the NIH. While PhD students generally have good support (their committees, external advisors, and classmates), the postdocs do not. To help with this, we're starting the 'Postdoc Night Science' club in Boston this Thursday! (1/3) 27711