1. Supplemental Figure 1
Tumor samples
Normal samples
Chromosome

2. Supplemental Figure 2 A B Number of protein altering mutations Percent
Number of mutations*
SNV
198
Indel 11
Total
209
Percent
Number of protein altering mutations
G>T,C>A
G>C,C>G
G>A,C>T
A>T,T>A
A>G,T>C
A>C,T>G
Samples

3. PIK3CA PTEN Supplemental Figure 3 N202Y T313R E545K **Y155H V317-
p85 binding domain
Ras binding domain
C2 domain
Helical domain
Kinase domain
**Y155H
V317-
PTEN
S287*
Phos-
phatase domain
C2 domain

4. Supplemental Figure 4 Rev. Rev. Rev. SCLC 042 PIK3CA (Vf*: 46.7%) SCLC
genome_mut_syntax: g.3: A>T
aa_mut_syntax: p.N202Y (Substitution-Missense)
SCLC
038
Rev.
PIK3CA COSMICid: 764 (Vf*: 60.7%)
genome_mut_syntax: g.3: G>A
aa_mut_syntax: p.E545K (Substitution-Missense)
SCLC
058
ROS1 (Vf*: 41.2%)
genome_mut_syntax: g.6: C>T
aa_mut_syntax: p.V1965A (Substitution-Missense)
SCLC
018
Rev.
ROS1 (Vf*: 11.5%)
genome_mut_syntax: g.6: C>A
aa_mut_syntax: p.R2118I (Substitution-Missense)
SCLC
024
KIT (Vf*: 60.0%)
genome_mut_syntax: g.4: _3 ACG del
aa_mut_syntax: p.Y418del (Deletion-In frame)

5. Supplemental Figure 5 A B Chromosome Chromosome GISTIC q score

6. Supplemental Figure 6 copy number loss nonsense mutation
　frame-shift indel
in-frame indel
missense mutation
copy number gain

7. Supplemental Figure 7 A B C

8. Supplemental Figure 8 A B C PIK3CA p-AKT AKT p-S6RP S6RP GAPDH
siNC #1 #2 #3
siPIK3CA