A deeper dive with Federico Gaiti
Uncovering mechanisms of tumor diversity and evolution
“There are various layers of changes that cancer cells go through over time, and specifically the one we think is very relevant, especially to reconstruct phylogenies, is DNA Methylation…because it is a very heritable epigenetic mark.”Federico Gaiti Assistant Professor, Princess Margaret Cancer Centre
Top-level highlights
>12K
Nuclei for methylation analysis
>10X
More nuclei than in previous glioma data sets
3 days
Total processing time
Epigenetic hijacking of developmental programs
Dr. Gaiti's team discovered that brain infiltrating glioblastoma (GBM) tumor cells show epigenetic resemblance to oligodendrocyte progenitor cell neurodevelopmental programs.
Multi-modal validation
By combining scMET with scRNA-seq and scATAC-seq, the research provided comprehensive evidence that infiltrating tumor cells hijack developmental programs at both transcriptional and epigenetic levels, with methylation data confirming and extending findings from other modalities to reveal the full scope of cellular reprogramming.
Inferring cancer phylogenies
Single cell methylation also offers a powerful method for analyzing tumor cell lineages and can be used to characterize tumor cell dynamics before and after treatment.
Publication
Neurodevelopmental hijacking of oligodendrocyte lineage programs drives glioblastoma infiltration
Yiyan Wu, Benson Z. Wu, Yosef Ellenbogen, Joan B.Y. Kant, Pengcheng Yu, Xuyao Li, Loïc Caloren, Valentin Sotov, Christine Tran, Michelle Restrepo, Michelle Kushida, Shamini Ayyadhury, Pathum Kossinna, Ruth Lau, Parnian Habibi, Sheila Mansouri, Johanna Regala, Tanja Durbic, Farzaneh Aboualizadeh, Julissa Tsao, Federico Gaiti
Webinar snapshot
Inferring clonal evolution and phylogenetic history from scMethylation data in cancer
With Federico Gaiti
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