Goeke Lab

This week our team joins the 5th Undiagnosed Hackathon in Singapore, hosted by KK Women's and Children's Hospital, pioneered by the Wilhelm Foundation. 🧬

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The hackathon aims to provide answers to the individuals and their families affected by rare diseases. Our group will be contributing our long-read sequencing expertise.

Find out more information on the hackathon here: undiagnosedhackathon.org Read about what past hackathons have achieved here: Pushing the boundaries of rare disease diagnostics with the help of the first Undiagnosed Hackathon. [Nature Genetics](rdcu.be/dXA1a).

This week our team joins the 5th Undiagnosed Hackathon in Singapore, hosted by KK Women's and Children's Hospital, pioneered by the Wilhelm Foundation. 🧬

About 60% of patients with rare diseases remain undiagnosed, even after comprehensive genomic testing. The Undiagnosed Hackathon is an opportunity for clinicians, geneticists, bioinformaticians and molecular biologists to work together.

github.comRelease xPore v2.2 · GoekeLab/xporeSummary This release adds: Genome-alignment support: xPore previously only worked with transcriptome-aligned reads. A new --kmer_source flag on dataprep allows genome-aligned input (handling rever...

2 Sept

We've released xPore v2.2. This version adds support for genome-aligned dRNA-seq reads (previously xPore required transcriptome aligned reads). This is a beta feature, feedback and bug reports via GitHub issues are very welcome! github.com/GoekeLab/xpo...

2 Sept

This feature is possible thanks to updates to f5c by Hasindu Gamaarachchi make sure to use f5c v1.7 to generate eventalign inputs for xPore!

18 Aug

Two more days until the Singapore RNA Salon mentorship event! There are still places left, a great opportunity to chat 1-on-1 with scientists about how they've built their careers! Event information: www.a-star.edu.sg/gis/news-eve... Registration here: form.gov.sg/6a754173a89c...

github.comGitHub - GoekeLab/awesome-genomic-skills: A curated list of awesome genomics and bioinformatics agentic skills, MCPs and benchmarks for Claude Code, Copilot, Codex, Cursor, Gemini CLI, etcA curated list of awesome genomics and bioinformatics agentic skills, MCPs and benchmarks for Claude Code, Copilot, Codex, Cursor, Gemini CLI, etc - GoekeLab/awesome-genomic-skills

5 Aug

New release of our Awesome Genomic Skills list is out! Now featuring roda-mcp (AWS dataset discovery), Kiro's life-sci skills, ClawBio's new MCP mode, and a community-contributed plant-genomics MCP. PRs welcome! github.com/GoekeLab/awesome-genomic-skills

Goeke Lab reposted

FEBS Letters

@febsletters.bsky.social

29 July

The complex life of RNA EMBO | EMBL Symposium is taking place 13 - 16 Oct 2026 in Heidelberg AND virtually! Register by 1 September for on-site attendance here: www.embl.org/about/info/c... #RNA #RNAbiology @events.embl.org @embo.org @embl.org

27 July

The 2nd Workshop of the Human RNome Project Consortium took place last week in sunny Toronto 🇨🇦 ☀️, and @clare-r.bsky.social from our team had the pleasure of attending and hearing about the fantastic work happening all over the globe on #RNA modifications.

27 July

Some really exciting science going on, a huge thank you to the organisers Vivian G. Cheung, Stefanie Kaiser & Ioannis Ragoussis!

humanrnomeproject.orgHuman RNome ProjectOur mission is to advance RNA science to impact human health, food security and boost biomanufacturing.

27 July

If this is the first time you're reading about the HRPC, have a look at what we're trying to achieve here: humanrnomeproject.org/history, and stay tuned for the first draft, data and code which is coming soon! #HumanRNomeProject #Epitranscriptomics

Goeke Lab reposted

Janusz M. Bujnicki

@jmbujnicki.bsky.social

25 Oct 2025

Exciting news for the RNA research community! The Human RNome Project has been launched: a global effort to map all human RNAs and their chemical modifications. Proud to support it and contribute to the article in Genome Biology doi.org/10.1186/s130... #RNA #bioinformatics #RNAstructure #modomics

genomebiology.biomedcentral.comUnlocking the regulatory code of RNA: launching the Human RNome Project - Genome BiologyThe human RNome, the complete set of RNA molecules in human cells, arises through complex processing and includes diverse molecular species. While research traditionally focuses on four canonical nucl...

Goeke Lab reposted

A*STAR Genome Institute of Singapore (A*STAR GIS)

@astar-gis.bsky.social

23 July

Congratulations to Dr @jonathangoeke.bsky.social on being awarded the National Research Foundation (NRF) Investigatorship 2026! Presented by NRF Singapore, the award supports outstanding scientists and researchers in pursuing groundbreaking, high-risk research. @goekelab.bsky.social

23 June

New in Bambu-Pipe: batch effect correction now integrated into clustering for long-read single-cell & spatial RNA-seq Integrate samples across ONT & PacBio, combine 10x 3'/5' chemistries, and get clusters that reflect biology, not technical artifacts. github.com/GoekeLab/bambu-pipe

16 June

The 2nd Singapore RNA Salon is just 2 days away! We'll have talks from Early Career Researchers, snacks for networking and a *shuttle bus* to help transport attendees from NUS & A*STAR to NTU! Make sure to register to secure your spot (and receive the bus details!): form.gov.sg/69c0965ce982...

@jonathangoeke.bsky.social

16 June

Organised with help from: The RNA Society @astar-gis.bsky.social National University of Singapore Nanyang Technological University

Goeke Lab reposted

Jonathan Göke

12 June

Applications are open for the Singapore Open Research Awards 2026. The awards recognise researchers for open, transparent, and reusable research with meaningful impact. Nominate someone or apply here libguides.ntu.edu.sg/SGORawards2026

11 June

We'll be at the NIRBA RNA Science Conference 2026! 🧬 🗓️ 22–23 Oct 2026 | 📍 Singapore Our lab is part of @NIRBA_sg Cluster 2 — RNA modifications & host immunity. Looking forward to the science and the community! #RNAScience #NIRBA #SaveTheDate

github.comGitHub - GoekeLab/awesome-nanopore: A curated list of awesome nanopore analysis tools.A curated list of awesome nanopore analysis tools. - GoekeLab/awesome-nanopore

9 June

We’ve updated our awesome-nanopore list! The list is a community-curated list of ONT software tools, please feel free to check it out & contribute: github.com/GoekeLab/awesome-nanopore #Nanopore #Bioinformatics #LongReadSequencing

3 June

2 weeks until the 2nd Singapore RNA Salon! Abstracts for the talks are below ⬇️ The event is open to everyone, from undergrads to PIs, hope to see you there! Registration: form.gov.sg/69c0965ce982...

Goeke Lab reposted

29 May

AI is changing how science (& genomics!) gets done. 🧬 Check out our new "awesome" repo - a curated list of skills, MCP servers & benchmarks for AI agents in bioinformatics. Open source & open for contributions! github.com/GoekeLab/awe...

29 May

@jonathangoeke.bsky.social

25 May

🙌 Excited to share Bambu and our findings on the new long-read cDNA kit from Oxford Nanopore Technologies — featured at London Calling 2026. Full story at the RNA 2026 Pre-Meeting Workshop, Montreal! 🇨🇦 @nanoporetech.com @rnasociety.bsky.social #RNA2026 #OxfordNanopore #Bambu

Goeke Lab reposted

Jonathan Göke

22 May

The new long read cDNA kit by @nanoporetech.com is a major upgrade (and improvement!), substantially increasing read length, with a strong impact on transcript discovery and quantification. We @goekelab.bsky.social have tested this in the beta release, more updates soon #nanoporeconf

form.gov.sgRegistration: Singapore RNA Salon: 18th June 16:00 - 18:00, NTU, School of Biological Sciences

21 May

🧬 Join us for the 2nd Singapore RNA Salon! 📅 June 18th, 4–6 PM📍 NTU 3 talks from ECRs covering mitochondrial dsRNA & inflammation, engineered CasRx RNA editing and long-read single-cell & spatial RNA-seq followed by snacks and networking, all are welcome! ⭐ Link & more info in comments

a-star.edu.sgRNA Salon SingaporeRegular cross-institutional meetings to discuss RNA-related research and foster community at all levels.

21 May

More information: www.a-star.edu.sg/gis/news-eve...

13 May

Great trip to Fukuoka with PacBio! 🚀 Sui Yue is on-site, presenting bambu and representing the lab. Hands-on feedback always welcome — let’s discuss!💡 🔗 GitHub: github.com/GoekeLab/bambu 🔗 GitHub: github.com/GoekeLab/bambu-pipe 📄 Preprint: doi.org/10.1101/2024.12.30.630828

github.comGitHub - GoekeLab/bambu-pipe: Transcript discovery and quantification for long read single cell and spatial transcriptomics data using BambuTranscript discovery and quantification for long read single cell and spatial transcriptomics data using Bambu - GoekeLab/bambu-pipe

11 May

We are thrilled to release Bambu-pipe 🧬 🚀 A Nextflow pipeline built for speed, scalability, and precision — unlocking isoform-level insights from long-read single-cell and spatial RNA-seq data💡 🔗 GitHub: github.com/GoekeLab/bambu-pipe 📄 Preprint: doi.org/10.1101/2024.12.30.630828