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Excited to share IsoTV, a tool I developed at the Mayer Laboratory along with Martyna Gajos! IsoTV predicts and visualizes functional features of transcript isoforms. Read more about it here: isotv.readthedocs.io

Our manuscript on widespread DNA sequence induced transcriptional pausing is now published. In this study, we also developed a new NET-seq protocol variant and a peak caller for nucleotide-resolution occupancy data. You can find the manuscript here: doi.org/10.1093/nar/gk…

Do you know that reverse #transcription artifacts in your #sequencing data may prevent you from true #discoveries? Do you know that you can remove artifacts by using simple tweaks during library preparation? Check how we did it in #NETseq 👉

The preprint from the Singapore Nanopore Expression Project (SG-NEx) is online! The SG-NEx data is a systematic resource for Oxford Nanopore long read RNA-Sequencing, including direct RNA, cDNA, and PCR cDNA with matched short read data and spike-in RNAs. 1/n biorxiv.org/content/10.110…

#EMBLChromatin Here is my flash-talk for the conference starting tomorrow. I am very excited to hear about new research in the field! PEP-NET Marie Skłodowska-Curie Actions

I'm very happy to finally share Annkatrin Bressin's & my work on an unexpected role of BRD4 in transcription termination! authors.elsevier.com/c/1dUFc3vVUPGK… Congrats & thanks to all involved, especially Andreas Mayer, Olga Jasnovidova, PhD, David Meierhofer!

Ever wanted to intersect cell types, epigenomics, ML, human genetics, and addiction together? Check out new publication: doi.org/10.1523/JNEURO… Thanks to much work from Chai and coauthors Alyssa Lawler Andreas Pfenning morgan wirthlin Easwaran Ramamurthy Michael Kleyman 🇺🇦

Tag 9⃣ im #mdcBerlin-#Adventskalender: Die #PhD-Studentinnen Brigitte & Valérie nehmen uns heute mit in die AG Haghverdi 👇 Day 9⃣ of the #mdcChristmas21 calendar: today, #PhDstudent Brigitte & Valérie (Haghverdi Lab) show us their territory 👇 #Weihnachten #Christmas MDC-BIMSB

So excited to announce the first preprint from the Haghverdi lab is out!👑 Check out the wonderful work of Valérie Marot-L. , Brigitte Bouman and Fearghal Donaghy “Towards reliable quantification of cell state velocities” doi.org/10.1101/2022.0…

Super exciting work out now! We trained ML models to predict tissue-specific regulatory function across hundreds of mammalian genomes, outperforming leading models. Key finding? Evolutionary information is critical for accurate ML predictions 🧬🐵🐭🖥️ bmcgenomics.biomedcentral.com/articles/10.11…

Check out our latest review on the R language! Federico Giorgi, @Notorious_D_ and I had a lot of fun writing it and I hope you will enjoy reading it! 😊 mdpi.com/1606768

Our manuscript, summarizing the second part of my PhD work, is out! We present Association Plots, a tool for visualization of #markergenes, adapted to #SingleCell data. sciencedirect.com/science/articl… Big thanks to Clemens Kohl, Bita Sokhandan Fadakar, and Martin Vingron VingronLab!

We are beyond excited to announce that our first #preprint has been published! Check it out! journal.medicine.berlinexchange.de/pub/5tfvqurj/r…

Hello from the Haghverdi Lab ! We are a computational group at the MDC-BIMSB and are interested in method development for analysis of high-throughput biological data! Follow us for updates about our lab 🧬💻

📍Posting live from the grounds of Charité - Universitätsmedizin Berlin in Mitte! We @compcancer are showcasing the importance of computational tools in cancer research at the Long Night of Science @lndwberlin. Sid Annaldasula Javier Marchena-Hurtado

Compound-SNE is out in Bioinformatics: a tSNE-based embedding method for visual alignments of single-cell data in embedding space that is applicable across different samples, data modalities and experimental timepoints. Congrats, Colin Cess & Laleh Haghverdi! academic.oup.com/bioinformatics…