Shaon Chakrabarti
shaonchakrabarti.bsky.social
Shaon Chakrabarti
@shaonchakrabarti.bsky.social
Assistant Professor @NCBS, Bangalore. Combining theory and experiments to understand cancer and circadian clocks from single cell fluctuations.
We demonstrated that memory genes discovered from many independent samples of a melanoma cell line (Memory-Seq), are recovered using Power-Seek, but with just one scRNA-seq dataset. Excitingly, we also demonstrate its applicability in human breast cancer tissue. Many ECM and EMT genes showed up.
January 20, 2025 at 10:50 AM
We showed that single samples will also exhibit power laws in the presence of memory genes. We developed a simple and easy to use algorithm, 'Power-Seek' (all puns intended). This detects memory genes using variations in power-law upon removing genes one at a time from a single scRNA-seq dataset.
January 20, 2025 at 10:50 AM
While seemingly impossible, this can indeed be done due to a beautiful underlying theoretical result that we show: memory genes, which give rise to lineage correlations, generate detectable Power-Laws in the eigenspectrum of the cell-covariance matrix of a scRNA-seq dataset.
January 20, 2025 at 10:50 AM
Covering theory and experiments in chronobiology (including hands-on wet lab sessions), ranging from historical perspectives to more modern aspects of high-dimensional data analysis of bio-clocks, the workshop promises to be very exciting. Do apply by 31st December!
December 21, 2024 at 3:44 PM