How can different cell types arise from the same genome? What discriminates a normal cell from a cancer cell? How can genomics data help to understand, model, diagnose, and treat human diseases?
Welcome to the website of Jonathan Göke’s team at the Genome Institute of Singapore!
We are a team of computer scientist, statisticians, and biologists that study how RNA can help to find answers to these questions. We develop algorithms and machine learning methods and investigate genomics and transcriptomics data to better understand human diseases. Our group specifically works on long read RNA sequencing, we develop methods for transcript discovery, quantification, and identification of RNA modifications. We work together with experimental teams and clinicians to apply these methods to cell lines, model systems and patient samples to study the role of RNA expression and modifications in cancer and neurodegenerative diseases such as Alzheimer’s disease.
We are located at the Genome Institute of Singapore. Read more about us, our research and publications, or available scholarships (PhD, internships) and positions. You can find more information about methods from the team on our GitHub page.
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Recent lab news
23/07/2025: Jonathan Göke presents as keynote speaker at ISMB/HitSeq 2025 (Liverpool/UK)
20/01/2025: Our collaboration with Marlies E. Oomen and Maria-Elena Torres-Padilla using Bambu and ProActiv for single cell RNA-Seq data was published in Cell! Congratulations!
05/01/2025: The pre-print that describes bambu-clump for analysing single cell and spatial long read RNA-Seq data is online on BioRxiv
27/11/2024: Congratulations Chen Ying for receiving the Edison Liu Award for Scientific Excellence!
01/10/2024: Jonathan received the Young Scientist Award at the President’s Science and Technology Awards “For his pioneering work in developing computational methods for long read RNA sequencing data that have enabled the profiling of RNA transcription and modifications at unprecedented resolution and accuracy.” View the video of the YSA winners here
15/08/2024: Jonathan was selected as a A*STAR Fellow 2024, congratulations!
27/02/2024: Our collaboration with Violetta Karwacki-Neisius and Yang Shi from Harvard Medical School is now published in Nature
10/01/2024: Congratulations Chen Ying for the Postdoc Award at the RNA Symposium: Nature’s Unsolved Puzzles!
27/09/2023: Meet us at the Nanopore Community Meeting in Singapore! Watch out for posters from Andre Sim (Bambu), Chen Ying (SG-NEx), and a presentation from Jonathan (m6Anet).
24/07/2023: Jonathan will present about our work on RNA modification detection using direct RNA Sequencing at the Epitranscriptomics Virtual Symposium. Free registration!
12/06/2023: Our method (Bambu) that uses a machine learning framework to identify and quantify transcript expression from long read RNA-Seq data is now published in Nature Methods (full text link)! Congratulations to the first authors Chen Ying and Andre Sim, and all other team members.
01/06/2023: You can meet our team at the RNA Society Meeting 2023! Yuk Kei presents a poster about nanoseq, Chen Ying presents a poster about bambu, and Jonathan gives a talk about m6anet.
10/11/2022: m6Anet is published in Nature Methods! You can read the article here and a short summary here. Congratulations to PhD student Christopher Hendra! Here is the link to the method: https://github.com/GoekeLab/m6anet
09/03/2022: Our review on machine learning methods for analysing Nanopore signal data is featured on the cover of Trends in Genetics! Congratulations Yuk Kei, Christopher, and Ploy! (open access: link)
Find more news in our News Archive.
Göke Lab 