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#SCG2022 opening dinner with part of @humancellatlas analysis working group meeting up again 🤘@dana_peer @satijalab @MarioniLab

@AlexandervanOu1 kicking off #SCG2022 at beautiful Tivoli hall at Utrecht. No live-tweeting though, much unpublished work coming up…

Looking forward a lot to Single Cell Genomics 2022, starting tomorrow at Utrecht - thanks @AlexandervanOu1 & team! #SCG2022 weizmann.ac.il/conferences/SC…

Review on explainable AI to „obtain genetics insights from deep learning“by @sara_mostafavi & colleagues - great summary of ongoing approaches! One thing that could be added is meshing DL + mech models for interpretation. (see eg. nature.com/articles/s4159…) nature.com/articles/s4157…

@BjoernEskofier talking @UniFAU AIBE symposium about future of AI in healthcare, digital twins and in particular European health data spaces.

Just found the scampi package, a versatile pipeline for single RNA-seq analysis - name seems to ring a bell but not sure.. journals.plos.org/ploscompbiol/a…

Time resolved single-cell RNA-seq is increasingly becoming a thing - interesting review about scRNA-seq assays with metabolic RNA labelling by @AE_Saliba & @DolkenL, amongst others. Fun computational challenges, too: nature.com/articles/s4358…

Want to come & visit our @CompHealthMuc department? Please consider applying for @HIDAdigital visiting researcher grant, enabling fully-funded short-term research stays. Next deadline is Oct 15 - great opportunity to start fun+fruitful interactions! helmholtz-hida.de/en/new-horizon…

On way back from lab hackathon, had this random discussion turning into something quite memorable for me, talking about women education in Iran, the right & Tolkien in Italy, ways out of Russia and digitalization&limits in China…

Getting all people on a joint picture is a challenge but we made it. #lab #hackathon

Picturesque hike at our lab hackathon 🐴🗻🤩

Excited to share our collide-seq paper, just out @MolSystBiol. Led by Bob Hersbach & @davidsebfischer together with @LabStricker & Magdalena Götz, we setup a protocol & modeled effects of multiple cell fate conversions based on combinatorial TF expression. embopress.org/doi/full/10.15…

We have two papers accepted at #NeurIPS2022, one on adding graph priors to predict single-cell effects of unknown drugs and one on sparsity in continuous-depth neural networks. Congrats to lead authors @leon_het & @AlieeHana as well as our partners @k__niki & @guennemann!

Laleh Haghverdi @LH33837868 @BIMSB_MDC talking at #SCGmeetsML on a unified picture of diffusions, RNA velocity and optimal transport to quantify cell dynamics, see also biorxiv.org/content/10.110…

@MagnusRattray speaking at #SCGmeetsML on his Gaussian process methods for modeling gene expression changes, also allowing to add prior information such as periodicity, branching etc into the GP kernel.

@steinaerts presenting at #SCGmeetsML not only how to build cell-type specific gene-enhancer networks from scRNA+ATAC, but also how to explain regulation events via deep convolutions and how to design enhancers for specific targets. Cool stuff.

@ash_d_sanders talking at #SCGmeetsML about how to detect structural somatic mutations using strand-seq:"sequencing half the cell is often more informative than sequencing all of it“.

Just listened to an interview with @ReemAlabali, Government spokesperson for migration, @bayern2 talking about why starting in Germany is often not easy for foreigners. Many ideas but IMHO by far strongest move would be to reduce our ridiculous German migration bureaucracy.

Speakers’ drinks at #SCGmeetsML - very happy to hang out with colleagues and friends after a fun first conference day!

Conferences, to stream or not to stream? Some researchers won’t show their newest, unpolished research when streamed, others argue that their competition is on-site anyway - what do you think?

Julio @saezlab talking at #SCGmeetsML about gene regulatory networks and some of his recent cool tools, see eg review here: embopress.org/doi/full/10.15…

Omer @bayraktar_lab talking at #SCGmeetsML on his cell2location tool to map cell types in spatial omics, showing excellent performance in recent benchmarks, too: nature.com/articles/s4159…

Nir @YosefLab at #SCGmeetsML showing generative modeling with VAEs, scvi-tools and applications eg for Tabula Sapiens science.org/doi/10.1126/sc…, in particular how to generated normalized expressions.

@marenbuettner @LabSchultze showing at #SCGmeetsML how to work with distributed single-cell data by not sending around data matrices but using federated/swarm learning. Exciting vision on this summarized @NatRevImmunol nature.com/articles/s4157…

Christoph @BockLab talking at our #SCGmeetsML meeting about amongst others his appoaches for single-cell CRISPR sequencing at scale. Beautiful method primer and review by Christoph & colleagues Bock @DiseasePrimers nature.com/articles/s4358…

What are the biggest challenges in single cell analysis? Discussion at #SCGmeetsML. Please vote/specify here menti.com/zqv18ikhzj and look at the summary here mentimeter.com/app/presentati…

Not sure if RNA velocity works? Check out our VeloVI model, leveraging deep generative modeling for RNA velocity estimation. Led by @adamgayoso & @PhilippWeiler7 together with @YosefLab, we quantify state & uncertainty as well as overall applicability. biorxiv.org/content/10.110…

Playing computer protects against dementia - at least vs watching TV. Did everything right then in my teenage years :) pnas.org/doi/full/10.10…

Summer @CompHealthMuc ‚happy hour‘ in the backyard of our institute - now with renewed pingpong table 😅🥂🍸

Usually try not to post from vacation, but really wanted to share my road bike achievement yesterday - anyone knowing this ascent? 😊