Katarzyna Wreczycka

The Curated Cancer Cell Atlas provides a comprehensive characterization of tumors at single-cell resolution nature.com/articles/s4301…

Turn cold tumors hot by reprogramming the tumor microenvironment go.nature.com/42Bo9lT

Combining spatial transcriptomics and ECM imaging in 3D for mapping cellular interactions in the tumor microenvironment: Cell Systems cell.com/cell-systems/f…

Feature selection methods affect the performance of scRNA-seq data integration and querying❤️ nature.com/articles/s4159…

I'm happy to announce our next computational genomics course for 2025. The deadline for application is January 30th 2025. We will cover: - AI-assisted data analysis - Spatial omics analysis - Multi-omics data analysis. More info is here: bioinformatics.mdc-berlin.de/compgen/2025/

Human Cell Atlas #HCA now enriched by integrated transcriptomic data on neural #organoids 🧠| In a @Nature study, researchers from @TreutleinLab @ETH_en and scientists @Roche @IHB_Research and @HelmholtzMunich present the Human Neural Organoid Cell Atlas u.ethz.ch/7bYsz

A scientist who successfully treated her own breast cancer by injecting the tumour with lab-grown viruses has sparked discussion about the ethics of self-experimentation go.nature.com/3NXqzEq

How can AI simplify cancer treatment? @AltunaAkalin and his team developed Onconaut, an AI tool that helps to find personalized therapies faster by analyzing genetic data. 💡🧬 #CancerResearch #AI #PrecisionMedicine mdc-berlin.de/news/news/navi…

5-minute crash course on 𝗗𝗼𝗰𝗸𝗲𝗿 for 𝗠𝗮𝗰𝗵𝗶𝗻𝗲 𝗟𝗲𝗮𝗿𝗻𝗶𝗻𝗴 🐳↓

I recently started EVOBYTE Digital Biology, which aims at enabling research teams to better manage, analyze and store their data. Have a look at evo-byte.com linkedin.com/company/evobyt…

𝐟𝐥𝐞𝐱𝐲𝐧𝐞𝐬𝐢𝐬, our new deep learning-based data integration tool for multi-omics. 1000s of deep learning workflows are available. Paper: biorxiv.org/content/10.110… Code: github.com/BIMSBbioinfo/f… Benchmarks: bimsbstatic.mdc-berlin.de/akalin/buyar/f… Tutorial/docs: bimsbstatic.mdc-berlin.de/akalin/buyar/f…

And it's out 🎉 Check out our updated paper & tweetorial on Open-ST, our DIY spatial transcriptomics method. Many, many thanks to everyone involved in this huge & exciting project! #OpenST #SpatialTranscriptomics

i am so excited about our open source inexpensive, sub-cellular capture, do-it-yourself Open-ST that transforms tissues into virtual tissue blocks in 3D - IDing pathways & gene programs driving phenotypes. a huge congratz to the team! cell.com/cell/abstract/…

Happy that CellRank2 is out @naturemethods! @PhilippWeiler7 & @MariusLange8 led this multimodal extension of CellRank, to allow study of cellular fate via multiview single-cell data of millions of cells in unified fashion. Text nature.com/articles/s4159… code github.com/theislab/cellr…

Thanks @NASAGeneLab for all the great work to get the data online!

A single-cell and spatial RNA-seq database for Alzheimer’s disease (ssREAD)👍 nature.com/articles/s4146…

@cledi_cj @N_Rajewsky Congrats! 👏

My first first-author paper is out!🥳 At the @N_Rajewsky Lab we studied the involvement of circRNA Cdr1as in neuronal stimulations, and the buffering action over miR-7 activity during the regulation of glutamatergic transmission. I break it down for you: embopress.org/doi/full/10.10…

Next week (June 5, 18:00) in Bioinformatics Social Meetings @comp_bio, we are hosting @TMPentimalli and @danilexn from Rajewsky lab at BIMSB whose work had tremendous impact in the field of Spatial Transcriptomics. @BIMSB_MDC @MPI_MolGen mdc-berlin.de/news/events/bi…

Excited to share our #SingleCell dissection of #Schizophrenia, out in @ScienceMagazine today, reporting 470k cells in 27 cell types across 140 individuals from 2 cohorts, revealing key insights on #ExcitatoryNeurons, #NeuroDevelopment, #Synapses, #1Cmetabolism, #Genetics, #Subtyping, #NetworkConvergence, #TFs, #DEGs, #GWAS, #RareVariants, and #DiseaseMechanism, with @Brad_Ruzicka @LabRoussos @ShahinMohammadi @_josedavila #PsychENCODE2 Paper: science.org/doi/10.1126/sc… Collection: science.org/collections/ps… Science tweet: x.com/sciencemagazin… Big thanks to @NIH, @NIMHgov, #PsychENCODE

Excited to share our Seurat update supporting VisiumHD data from @10xGenomics. We explore and validate the ability of HD to map the spatial localization of individual cell types: satijalab.org/seurat/article…