RT Journal Article
SR Electronic
T1 Fingerprints of cancer by persistent homology
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 777169
DO 10.1101/777169
A1 A. Carpio
A1 L. L. Bonilla
A1 J. C. Mathews
A1 A. R. Tannenbaum
YR 2019
UL http://biorxiv.org/content/early/2019/09/23/777169.abstract
AB We have carried out a topological data analysis of gene expressions for different databases based on the Fermat distance between the z scores of different tissue samples. There is a critical value of the filtration parameter at which all clusters collapse in a single one. This critical value for healthy samples is gapless and smaller than that for cancerous ones. After collapse in a single cluster, topological holes persist for larger filtration parameter values in cancerous samples. Barcodes, persistence diagrams and Betti numbers as functions of the filtration parameter are different for different types of cancer and constitute fingerprints thereof.