Extended Data Figure 4: ALKATI is transcribed from a genomically intact ALK locus.
From: Alternative transcription initiation leads to expression of a novel ALK isoform in cancer
a, Interphase FISH with ALK flanking probes demonstrates juxtaposed green and orange signals indicating no ALK rearrangement in MM-15. Scale bar, 10 µm. b, Interphase FISH in MM-74 shows 3 green/orange fusion signals in the majority of nuclei indicating a trisomy 2, but no ALK rearrangement. Scale bar, 10 µm. c, The top panel shows the genome-wide array CGH profile of MM-15 with numerous chromosomal gains and losses across the entire genome. The chromosomes are aligned along the x axis. The blue line illustrates the relative copy number (log2 ratio) and the blue bars highlight copy number gains and losses. The middle panel illustrates the relative copy number (blue line) of chromosome 2. Distal to the ALK locus, a loss on the short (p) arm of chromosome 2 is indicated. The lower panel illustrates the relative copy number across the ALK locus. The red and green squares represent the log2 ratio of individual array CGH probes (green, positive log2 ratio; red, negative log2 ratio). No disruption or selective gains or losses are found at the ALK locus. d, The genome-wide array CGH profile of MM-74 shows numerous chromosomal gains and losses across the entire genome in the top panel. The middle panel displays a relative copy number gain of the entire chromosome 2, which is in line with the trisomy of chromosome 2 as indicated by FISH. The lower panel also displays trisomy of chromosome 2, but indicates no focal gains and losses at the ALK locus.
