You can join us over there! docs.google.com/forms/d/e/1FAI…

Happy to share this paper which provides more detail about the process we use to assign haplotypes to long reads on-the-fly, which enabled us to speed up the DeepVariant release at v1.4. Implementation by Alexey Kolesnikov, Lead for collaboration, writing, figures Kishwar

Our new method GASTON learns a “topographic map” of a tissue slice, enabling simultaneous identification of spatial domains and gene expression gradients in spatial transcriptomics biorxiv.org/content/10.110… Led by @UthsavC w/ Brian John Arnold Hirak Sarkar @[email protected] Cong Ma Sereno + Kohei (1/7)

Our computational biology island just got a wee bit bigger

Congratulations Dr Yilei Fu ! Been great tour across the years Todd J Treangen Rice Computer Science !

F1 2023 Season Montage! youtu.be/fvCrRY3edOI?si…

🔔 Join the #JetBrainsAI launch event online! December 6, 5:00 pm (CET) | 8:00 am (PST) Learn more about JetBrains AI and AI Assistant from the creators themselves. 👉jb.gg/aihere

our new paper led by Ilia Minkin describes how we used a very large multi-genome alignment to discover a striking degree of conservation among most splice sites in protein-coding genes. The paper is now out in bioRxiv

Modkit for all of your modified base downstream processing. Now including differential methylation and hemi-methylation (from duplex reads) analysis! nanoporetech.github.io/modkit/

Brilliant talk by Yilei Fu on MethPhaser. Using single molecule methylation detection for phasing is one of the most exciting recent ideas in Nanopore Sequencing. #nanoporeconf

Happy for CONIPHER available to all! ⚠️Remember ALL related TRACERx 421 processed data are publicly avail: 👉doi.org/10.5281/zenodo… Explore them following the oustanding wiki in Python or R by Lucrezia Patruno and Maria in my and Nicholas McGranahan group 👉github.com/McGranahanLab/…

We've had a busy few months at Oxford Nanopore ! * 99% Indel F1 & Q50 Nanopore assemblies * Hemi-methylation base calling * T2T simplex-only assembly * a Q30 1Mb read (!!) * 20% faster basecalling * Increasing basecalling accuracy * Increasing Direct RNA throughput & accuracy

Journal version! With nanopore sequencing we zoomed in on breakage-fusion-bridge amplifications in cervical cancer. We found new structural details that are hard to see with short reads + interesting recurrences. sciencedirect.com/science/articl…

A bit late but I am super excited to welcome Yilei Fu as a new Postdoc in my group BCM HGSC ! Very excited about all the adventures around methylation and long reads!! :)

One more opening in my group at Oxford Nanopore. This time in our New York office! ejnh.fa.em2.oraclecloud.com/hcmUI/Candidat…

JupyterLab 4.1 and Notebook 7.1 Released bit.ly/48CdrMX

Ultralong + duplex data are emerging as an incredibly powerful combination! biorxiv.org/content/10.110…

Notification of tenure! So many people to thank, my wife and foundation Simone, family, members of the lab: Soyeon Ahn, Jingwen Ren, Robel Dagnew, Tsung-Yu Lu, Quentin Yang, Keon Rabbani, Walfred Ma, Ishaan Thota, Seung-Jae Kim, and Dhaivat Joshi, the USC Dept. of Quantitative & Computational Biology

They say it changes when the sun goes down, around here 👀 #DataAfterDark #Nanoporeconf

Are you wrapping up your PhD in the coming month, or are you currently a postdoc? Looking to dive deeper into cutting-edge research in cancer genomics, AI, and computational biology? Our lab (boevalab.inf.ethz.ch) is seeking passionate, ambitious researchers to join us through