Accelerating research to curb the spread of metastatic cancers

Harnessing supercomputers to understand the molecular and cellular processes of metastatic cancers and to develop novel therapeutics targeting the disease.
"While single-cell sequencing is a very powerful tool for us to interrogate the cellular heterogeneity of cancers, it generates large amounts of sequencing data, which makes it impractical to perform the upstream data processing and analysis on our typical workstation. Being able to process the large amounts of sequencing data generated on NSCC's supercomputing resources has benefited us greatly. We were able to run memory intensive and/or multiple analysis in parallel, which sped up our workflow and the reliability of the cluster is much appreciated."
Loo Jia Min
Senior Research Fellow
Genome Institute of Singapore,
A*STAR
Niranjan Shirgaonkar
Bioinformatics Specialist
Genome Institute of Singapore,
A*STAR

Metastasis, which is the spread of cancer cells from its originating organ to distal organs, is the main cause of death in cancer patients. The World Health Organization (WHO) had projected colorectal and pancreatic cancers to be among the top ten contributors to mortality by 2030, with metastatic disease to be the main contributing factor to patient mortality in these cancers.

 

Metastatic diseases are usually refractory to standard-of-care therapeutics and not-amenable to surgical resection. Therefore, the five-year survival rate of patients with metastatic disease is dismal, with less than 15% of such patients expected to survive beyond five years. This points to an urgent need to identify therapeutic vulnerabilities in metastatic colorectal and pancreatic cancers.

 

A team of researchers from A*STAR’s Genome Institute of Singapore is utilising NSCC’s high performance computing resources to understand the underlying molecular and cellular processes of metastasis in order to develop novel therapeutics targeting metastatic disease. In recent years, single-cell sequencing technology has matured, which allowed for high resolution transcriptomic interrogation of the complex cellular milieu of metastatic cancers. Such sequencing efforts allowed researchers to identify the cellular heterogeneity inherent in cancers and understand how diverse cell types can interact cooperatively with each other to drive cancer progression despite treatment. Additionally, single-cell sequencing can also allow researchers to identify rare cancer cells that are inherently resistant to therapy and can initiate metastasis. By understanding the biology and source of metastatic relapse, new therapeutics can then be developed which either disrupt the synergistic inter-cellular interactions driving cancer progression or by specifically targeting metastasis-initiating cells.

"While single-cell sequencing is a very powerful tool for us to interrogate the cellular heterogeneity of cancers, it generates large amounts of sequencing data, which makes it impractical to perform the upstream data processing and analysis on our typical workstation. Being able to process the large amounts of sequencing data generated on NSCC's supercomputing resources has benefited us greatly. We were able to run memory intensive and/or multiple analysis in parallel, which sped up our workflow and the reliability of the cluster is much appreciated."
Loo Jia Min
Senior Research Fellow
Genome Institute of Singapore,
A*STAR
Niranjan Shirgaonkar
Bioinformatics Specialist
Genome Institute of Singapore,
A*STAR

To find out more about how NSCC’s HPC resources can help you, please contact [email protected].

 

NSCC NewsBytes October 2021

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