Extended Data Fig. 5: Seismic amplification at chromosome 11 in CK349. | Nature Genetics

Extended Data Fig. 5: Seismic amplification at chromosome 11 in CK349.

From: Single-cell multiomics analysis reveals dynamic clonal evolution and targetable phenotypes in acute myeloid leukemia with complex karyotype

Extended Data Fig. 5

a Strand-specific read depth of all single cells from CK349 showing differing amplification signals at chromosome 11 representing seismic amplifications, and a representative cell with a normal chromosome 11 (top, major clone). Reads denoting somatic structural variants, discovered using scTRIP, mapped to the Watson (W; orange) or Crick (C; green) strand. Grey: single cell IDs. b Strand-specific read depth of seismic amplification (left) separated into read depth and phase (right) of a representative CK349 cell. Reads overlapping single nucleotide polymorphisms were assigned to haplotypes H1 (red lollipops) or H2 (blue lollipops). Grey: single cell ID. c Multiplex fluorescence in situ hybridization (M-FISH) of a cell with normal chromosome 11 and a linearized marker chromosome containing segments from chromosome 15, 13, 11 and Y obtained from the secondary patient-derived xenograft (PDX) of CK349. Chr: Chromosome, InvDup: Inverted Duplication, Del: Deletion, Ter: Terminal, t: Translocation.

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