(A) Oncoprint showing mutational landscape of 30 LM samples sequenced. (B) Lollipop plot showing spectrum of PIK3CA and NRAS mutations in this cohort. (C) Schema showing details of GOPC–ROS1 fusion …
(A) Baseline CT abdomen scan at the time of presentation demonstrating a large retroperitoneal/pancreatic LM. (B) CT abdomen scan 6 weeks after the initiation of alpelisib. (C) CT abdomen scan 1 …
(A) Logarithmic dose–response curve of alpelisib was performed using the xCELLigence RTCA system. 1, 3, 10, 30, and 100 nM (n = 5 replicates) of alpelisib were used to determine the …
(A) The heatmap summarizes the results of the differential gene expression analysis. Up- and downregulated genes are shaded red and blue, respectively. (B) The volcano plot summarizes the …
(A) The majority of LMs have driver mutations that are potentially targetable. (B) LMs with NRAS mutations had kaposiform histopathology. (C) An N-of-1 clinical trial is reported in a patient with a …
Patient | Age(years) | Sex | Submitted clinical syndrome | Localized vs. multifocal | Location of LM(s) | Specimen type | LM histology | PIK3CA or NRAS alteration | % VAF |
---|---|---|---|---|---|---|---|---|---|
1 | 9 | M | CLOVES | Multifocal | Superficial soft tissues | Excision | Conventional | PIK3CA E542K | 14 |
2 | 4 | F | Localized | Superficial soft tissues | Excision | Conventional | PIK3CA E542K | 7 | |
3 | 1 | F | Localized | Superficial soft tissues | Excision | Conventional | PIK3CA H1047R | 11 | |
4 | 17 | M | Localized | Superficial soft tissues | Excision | Conventional | PIK3CA H1047R | 4 | |
5 | 18 | M | Localized | Superficial soft tissues | Excision | Conventional | PIK3CA H1047L | 4 | |
6 | 8 | F | Klippel–Trenaunay | Localized | Superficial soft tissues | Excision | Conventional | PIK3CA H1047R | 9 |
7 | 9 | M | Localized | Visceral | Core biopsy | Conventional | PIK3CA E545K | 7 | |
8 | 3 | F | Localized | Superficial soft tissues | Excision | Conventional | PIK3CA C420R | 5 | |
9 | 23 | M | Localized | Visceral | Incisional biopsy | Conventional | PIK3CA H1047R | 4 | |
10 | 16 | F | PTEN-like hamartoma | Localized | Superficial soft tissues | Excision | Conventional | PIK3CA H1047R | 3 |
11 | 3 | F | CLOVES | Multifocal | Superficial soft tissues | Excision | Conventional | PIK3CA E545K | 12 |
12 | 1 | M | Multifocal | Superficial soft tissues | Excision | Conventional | PIK3CA H1047R | 2 | |
13 | 4 | F | Localized | Superficial soft tissues | Excision | Conventional | PIK3CA E542K | 6 | |
14 | 5 | M | Localized | Superficial soft tissues | Excision | Conventional | PIK3CA H1047R | 5 | |
15 | 1 | F | Localized | Superficial soft tissues | Excision | Conventional | PIK3CA E545K | 1 | |
16 | 14 | F | Multifocal | Visceral | Excision | Conventional | PIK3CA C420R | 14 | |
17 | 2 | F | CLOVES | Multifocal | Superficial soft tissues | Excision | Conventional | PIK3CA C420R | 38 |
18 | 16 | F | CLOVES | Localized | Superficial soft tissues | Excision | Conventional | PIK3CA E453K | 32 |
19 | 10 | F | CLOVES | Multifocal | Superficial soft tissues | Excision | Conventional | PIK3CA H1047L | 15 |
20 | 9 | M | Localized | Superficial soft tissues | Excision | Conventional | PIK3CA H1047R | 5 | |
21 | 9 | F | Multifocal | Visceral | Excision | Kaposiform | NRAS Q61R | 5 | |
22 | 8 | M | Multifocal | Superficial soft tissues | Excision | Kaposiform | NRAS Q61R | 5 | |
23 | 9 | F | Multifocal | Visceral | Excision | Kaposiform | NRAS Q61R | 1 | |
24 | 45 | M | Multifocal | Visceral | Core biopsy | Conventional | NRAS Q61R | 6 | |
25 | 10 | F | Localized | Superficial soft tissues | Core biopsy | Kaposiform | NRAS Q61R | 14 | |
26 | 17 | M | Multifocal | Superficial soft tissues | Excision | Conventional | WT | NA | |
27 | 24 | M | Localized | Bone | Core biopsy | Conventional | WT | NA | |
28 | 3 | M | Multifocal | Superficial soft tissues | Excision | Conventional | WT | NA | |
29 | 11 | F | Localized | Superficial soft tissues | Excision | Conventional | WT | NA | |
30 | 9 | F | Localized | Superficial soft tissues, bone | Biopsy | Conventional | WT | NA |
CLOVES – congenital lipomatous overgrowth, vascular anomalies, epidermal nevi, and skeletal anomalies; NA – not applicable; VAF – variant allele frequency of PIK3CA or NRAS.
Somatic coding mutations identified from whole-genome sequencing.
The genetic coding variants that exist in lymphatic malformation (LM) but do not exist in germline DNA. These pass MuTect2 quality filters (designed to call somatic variants only) and have three or more alternate reads. VAF, variant allele frequency; COSMIC, Catalogue Of Somatic Mutations In Cancer.