Intrinsically disordered protein regions can do much more than just hanging out together in liquid droplets. Check out the review with Akis Papantonis on RNA polymerase II subcompartments: authors.elsevier.com/a/1edsw3PA3sRC…

All organisms form methane!🎉 Driven by reactive oxygen species and iron, CH4 is formed from methylated organosulfur compounds, e.g. methionine. This Fenton-like reaction thus correlates with metabolic activity and is further enhanced by oxidative stress. nature.com/articles/s4158…

Just found the spiralize paper and the InteractiveComplexHeatmap paper were published on the same issue of Bioinformatics.

Excited to be at the start of our first spatially resolved transcriptomics run with Stephan Tirier on the Resolve Biosciences system. It will work for us over the weekend and we'll see the results on Monday...

Does the formation of liquid-like transcription factor droplets enhance transcription? Our study headed by Jorge Trojanowski and @LukasFrank91 is now out authors.elsevier.com/a/1f2S33vVUPK7… and (among other things) finds no increase in transcription activation if droplets form.

Please contact me directly to discuss potential research projects in my group for an application within the DKFZ postdoc program and/or for projects with external funding.

In this blog post, I use simulations to demonstrate the difference between clustering vs deconvolution #bioinformatics analysis using STdeconvolve when applied to multi-cellular pixel-resolution #spatialtranscriptomics data: jef.works/blog/2022/07/1… #RStats #dataanalysis #dataviz

Very excited to share that I recently started my lab in The Halvorsen Center for Computational Oncology at Memorial Sloan Kettering Cancer Center! Looking for postdocs and graduate students interested in cell fate decisions/cancer evolution/computational single-cell genomics. Come join us in NYC! Spread the word & please #RT. Thanks!

If your at #ASH2022, watch out for this presentation by Simon Steiger on the multiple myeloma bone marrow microenvironment and treatment outcome: ash.confex.com/ash/2022/webpr…

Great work by Paola Reni. TCE therapies revealed in responders a selective expansion of clonotypic CD8 T cells with a clonal replacement of BM exhausted clonotypes by non-dysfunctional circulating CD8+ T cells.#ASH2022. #Immunotherapy

Thank you for this wonderful opportunity to present our great research that has come together by multiinstitutional efforts between the Universitätsklinikum Heidelberg and the DKFZ . Especially I would like to thank Prof. Marc Raab and Karsten Rippe for the great support along the way. #ASH2022

CONGRESS | #ASH22 Abstract 860: 'Bone Marrow Immune Signatures in Multiple Myeloma Are Linked to Tumour Heterogeneity and Treatment Outcome' presented by Simon Steiger was selected as one of the Best of ASH for the theme of: Niche & Microenvironment #myeloma #mmsm

The pre-existing T cell landscape determines the response to bispecific T cell engagers in multiple myeloma patients: Cancer Cell cell.com/cancer-cell/fu…

Have a look at our recent work @BloodJournal that points towards multi-factorial resistance mechanisms and new options for common treatment vulnerabilities of individual tumor subclones in #mmsm doi.org/10.1182/blood.….

Methods for imaging-based #spatialtranscriptomics (iST) incl. MERFISH, MolecularCartography, Xenium… are promising techs, but it feels like there is no discussion about their limitations and QC metrics. As this has been bothering me for quite some time now, I´d like to start👇

Here is the free reprint link authors.elsevier.com/a/1hmJL,LqArQC… of our Current Opinion/Research in Structural Biology review on approaches for chromatin subcompartment analysis for the special issue "3D Genome Chromatin Organization and Regulation" tinyurl.com/mwbaajdk

Enjoying the work with Isabelle Seufert and Philipp to increase the coverage of scATAC-seq for co-accessibility analysis and other applications frontiersin.org/articles/10.33…. Our latest data are at 150k unique fragments/cell. Stay tuned...

Which of the different spatial transcriptomics (ST) technologies should you use for your research? The lessons we have learnt from comparing RNAscope, Molecular Cartography (MC), Merscope, Xenium and Visium are now on bioRxiv doi.org/10.1101/2024.0… 🧵

Do you want to pursue your ideas in computational biology independently, running your group in EMBL ‘s uniquely collaborative environment, next to world’s most comprehensive molecular data resources + with top-notch infrastructure EMBL-EBI? Apply to join us & pls RT

1/ 🤔 Do #chromatinlooping-mediated promoter-#enhancer interactions drive gene expression? Or is the local enrichment of transcription factors into hubs/#condensates the key factor? Our AC/DC model of gene regulation at bioRxiv doi.org/10.1101/2024.0… provides a new view on this.