Katharina Imkeller

Katharina Imkeller

@imkeller.bsky.social

Biophysicist interested in immunology. Professor at Goethe University Frankfurt | Frankfurt Cancer Institute. https://agimkeller.github.io

191 followers272 following11 posts

Katharina Imkeller
@imkeller.bsky.social

New preprint on spatial AIRR here 👇 Great accomplishment by @schuckjonas.bsky.social and many others. This is the bioinformatic basis for ongoing biological discovery projects in tumor immunology. @loewe-fci.bsky.social @trr417.bsky.social

Jonas Schuck@schuckjonas.bsky.social

🚀 Excited to share our LongAIRR preprint on bioRxiv! LongAIRR is an open-source toolbox for consistent annotation of spatially resolved long-read adaptive immune receptor repertoires, supporting Visium V1 and Visium HD 3' datasets. 📄 www.biorxiv.org/content/10.6... 💻 github.com/AGImkeller/L...

biorxiv.orgConsistent consensus-based annotation of spatial adaptive immune receptor repertoires from long-read sequencing using LongAIRRThe combination of spatial transcriptomics with long-read sequencing enables spatial characterization of full-length transcripts within solid tissue sections. However, standardized computational analy...
Katharina Imkeller
@imkeller.bsky.social

Thank you for inviting me to this wonderful retreat! I enjoyed the scientific exchange!

Frankfurt Cancer Institute@loewe-fci.bsky.social

✨FCI at the GSH Retreat! It was great to see so many FCI colleagues taking part in two days of inspiring scientific exchange and networking. Thanks to Martin Sebastian and Katharina Imkeller for their excellent presentations, and to the Georg-Speyer-Haus for organizing such a wonderful retreat!

Katharina Imkeller reposted

Julius Enssle
@jenssle.bsky.social

🎉🚀 We're excited to share our latest insights on #DLBCL www.cell.com/cancer-cell/...! 🧵 How can we understand its clinical & molecular heterogeneity by incorporating the proteome?

cell.comPathogenesis of diffuse large B cell lymphoma proteogenotypesEnssle et al. perform transcriptomic and proteomic profiling of diffuse large B cell lymphoma (DLBCL), revealing seven proteogenotypes (PGs) that reflect molecular and tumor microenvironment features ...

Katharina Imkeller reposted

Wolfgang Huber
@wkhuber.bsky.social

For PhD students or postdocs who start out wanting to analyse their own high-throughput data:

Wolfgang Huber@wkhuber.bsky.social

CSAMA 2026 - Biological Data Science Summer School Bressanone-Brixen, South Tyrol / Italy 24-29 May 2026 csama2026.bioconductor.eu Statistical & computational methods for single cell and spatial omics, with lectures and hands-on exercises in R/Bioconductor.

Katharina Imkeller reposted

Immunity
@cp-immunity.bsky.social

Online now: Ultra-high-throughput IGH genotyping of 25 global populations reveals population-biased allelic diversity and homozygous V and D gene deletions

dlvr.itUltra-high-throughput IGH genotyping of 25 global populations reveals population-biased allelic diversity and homozygous V and D gene deletionsThe genes that encode our antibodies display extensive variation between individuals. Corcoran et al. developed a high-throughput sequence-based method for identifying variations in antibody genes (ImmuneDiscover). This enabled the sequencing of 2,486 individuals with 25 different population ancestries, identifying variations that are population specific and may underlie differences in disease susceptibility and vaccine response at both an individual and population level.

Katharina Imkeller reposted

Claus Wilke
@clauswilke.com

AI agent goes nuts on open source maintainer after having its pull request denied. This is a pretty insane story. Open source development as we've been used to for the last few decades is likely over. 1/ theshamblog.com/an-ai-agent-...

theshamblog.comAn AI Agent Published a Hit Piece on MeSummary: An AI agent of unknown ownership autonomously wrote and published a personalized hit piece about me after I rejected its code, attempting to damage my reputation and shame me into acceptin…

Katharina Imkeller reposted

Wolfgang Huber
@wkhuber.bsky.social

There are two complementary views of scientific advance: the "heroes" view, individual geniuses driving unique one-of-a-kind advances, and the "multiple discovery" or zeitgeist view, that the time is ripe for a discovery, and the details of who makes it first, where, and how are, well, details.(1/3)

Katharina Imkeller reposted

Junyan Lu
@junyanlu.bsky.social

🚀 Postdoc / Bioinformatician in Computational Multi-Omics for Precision Oncology at Heidelberg University Hospital: karriere.klinikum.uni-heidelberg.de/index.php?ac... A great short-term opportunity for anyone looking for a bridge position between PhD, postdoc, or the next career step.

karriere.klinikum.uni-heidelberg.dePostdoc / Bioinformatician – Computational Multi-Omics for Precision Oncology (m/f/d)Pflichtfelder sind mit einem (*) markiert.

Katharina Imkeller reposted

Bioconductor
@bioconductor.bsky.social

EuroBioC2025 is in full swing here in Barcelona! Day 1 was full of great talks, conversations, and that amazing Bioconductor community energy. Excited for what’s ahead today and tomorrow! #EuroBioC2025 #Bioconductor #OpenScience #Community

Katharina Imkeller reposted

James Bonfield
@jbonfield.bsky.social

Heads up: ignore samtools dot org, similarly minimap2 dot com and likely others. It's owned by a known phishing site and while the binaries they offer look valid currently (but note they may be serving us different binaries to others), that could change. Ie: it's not us (Samtools team)! Be warned

Katharina Imkeller reposted

Dr. Jean Fan
@jef.works

Our paper identifying evidence of off-target probe binding in the 10x Genomics Xenium Breast Gene Panel is now available as a reviewed preprint at #eLife elifesciences.org/reviewed-pre... We look forward to revising the paper to incorporate reviewer recommendations and other updates 🧵👇

Katharina Imkeller reposted

Johannes Rainer
@jorainer.bsky.social

Reminder 📣 still time to apply to the position in my team! - statistical modeling - large scale #metabolomics and #proteomics data - #rstats , #python 📍 Bolzano, ⛰️, 🇮🇹 🔗https://eurac.onboard.org/jobs/Q4301nGV

Katharina Imkeller reposted

Junyan Lu
@junyanlu.bsky.social

🔬 PhD Position in Bioinformatics! Join my group at Heidelberg University (lu-group-ukhd.github.io) to study AML dormancy & therapy resistance using multi-omics & single-cell data. 👉Apply or share: www.jobvector.de/job/bioinfor...

jobvector.dePhD Student Bioinformatics, Computational Biology (m/f/d)Analyze bulk and single-cell multi-omics data generated from in vivo AML models Curate and integrate public datasets (eg scRNA-seq) to derive prior knowledge on AML dormancy Develop and apply integrat...

Katharina Imkeller reposted

Elisa Rosati Scalchi
@elisarosix.bsky.social

1/6 🧬 NEW COMMENTARY 🧬 Let’s talk about the challenges in immunoglobulin (IG) & T cell receptor (TR) gene nomenclature in the era of modern genomics. A 🧵 on why it’s time to rethink how we name these genes—and what it means for immunogenetics. #IGTR #Genomics #Immunology

Katharina Imkeller reposted

Lisa Buchauer
@libuchauer.bsky.social

We are currently recruiting a bioinformatics/computational biology postdoc to join the infrastructure project of a newly funded large research consortium (SFB-TRR) on Circadian Medicine between Charité - Universitätsmedizin Berlin and Universität zu Lübeck ⌚ ⏰ ⏱️ 🕰️ !

Katharina Imkeller reposted

Francesca Finotello 🖥️🧬
@francescafinotello.bsky.social

🧬🖥️ #iHet code is available at: github.com/Computationa...

github.comGitHub - ComputationalBiomedicineGroup/iHetContribute to ComputationalBiomedicineGroup/iHet development by creating an account on GitHub.
Francesca Finotello 🖥️🧬@francescafinotello.bsky.social

🧬 🖥️ Thrilled to share our recent work on TME heterogeneity, published on iScience: t.co/whajXd0SjU A joint effort with Federica Eduati's lab Follow the thread for more🧵👇 1/

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