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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 Y 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 !

🔔 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 @IliaMinkin 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

Proud to share our work using DNA methylation signatures to predict brain metastasis development from lung adenocarcinoma in Nature Medicine nature.com/articles/s4159… We are committed to improving care and outcomes for patients with cancer