Table 1.
Mutations and splice variants in organoids, detected by NGS, and basic pathology data of originating tumors. Oncogenic and truncating mutations of oncosuppressor genes with known activity are reported in red bold.
| ID | Set | Loc | MS Status | Stage UICC | T | N | M | G | Molecular Diagnostic of Tumor Tissue | Mutation Status by NGS | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| CTNNB1 | FBXW7 | MET | ERBB2 | KRAS | NRAS | BRAF | DDR2 | PIK3CA | PTEN | ALK | SMAD4 | TP53 | ||||||||||
| OMCR17-062TK | Exp | T | MSS | III | 3 | 2a | 3 | Q61R | 3236T>C | R248Q | ||||||||||||
| OMCR17-068TK | Exp | L | MSS | III | 3 | 1b | 2 | TACTT->A | R273C | |||||||||||||
| OMCR18-016TK | Exp | T | MSI | II | 3 | 0 | 2 | R465H | L755S | |||||||||||||
| OMCR18-021TK | Exp | S | MSS | IV | 3 | 2a | 1a | 2 | KRAS G12V | G12V | ||||||||||||
| OMCR18-025TK | Exp | R | MSS | I | 2 | 0 | 2 | G34E | R505C | V600E | ||||||||||||
| OMCR18-035TK | Exp | R | MSS | II | 4b | 0 | 2 | S241 fs*22 | ||||||||||||||
| OMCR18-059TK | Exp | RT | MSS | I | 2 | 0 | 2 | G60V | V471dup | N131 del | ||||||||||||
| OMCR18-060TK | Exp | RT | MSS | II | 3 | 0 | 2 | KRAS/BRAF/NRAS WT | ||||||||||||||
| OMCR19-003TK | Val | R | MSS | III | 2 | 1b | 3 | KRAS G12A | N873G | G12A | R282W | |||||||||||
| OMCR19-006TK | Val | RT | MSS | I | 2 | 0 | 2 | 1418+1G>A | A59T | R1212H | R196P | |||||||||||
| OMCR19-009TK | Val | R | MSS | III | 4a | 2a | 3 | KRAS G12R; PIK3CA Q546K | G12R | Q546K | R273C | |||||||||||
| OMCR19-010TK | Val | T | MSS | II | 3 | 0 | 1 | T232N fsTer11; N323M fsTer21 | L1165H | R181H | ||||||||||||
| OMCR19-011TK | Val | R | MSS | III | 3 | 1b | 3 | A146P | G469V | M1043V | R282W | |||||||||||
| OMCR19-015TK | Val | S | MSS | III | 3 | 1b | 2 | KRAS G12A | R988C | G12A | ||||||||||||
| OMCR19-016TK | Val | R | MSI | II | 3 | 0 | 3 | BRAF wt | T41A | E545K | 801+2T>C | P152R fsTer18 | ||||||||||
| OMCR19-017TK | Val | RT | MSS | II | 3 | 0 | 2 | |||||||||||||||
| OMCR19-024TK | Val | T | MSS | II | 3 | 0 | 2 | G12C | M441I | |||||||||||||
| OMCR19-030TK | Val | T | MSS | III | 3 | 2a | 2 | KRAS G12D | G12D | R135 Ter | Q104R fsTer19 | |||||||||||
| OMCR19-034TK | Val | R | MSS | IV | 3 | 2b | 1a | 2 | KRAS G13V | G13V | E542K | R175H | ||||||||||
| OMCR19-040TK | Val | R | MSS | III | 3 | 2a | 2 | G12A | R175H | |||||||||||||
| OMCR19-041TK | Val | R | MSS | III | 3 | 2a | 3 | R505C | G12V | G1049R | S178 Ter | R213 Ter | ||||||||||
| OMCR20-002TK | Val | R | MSS | II | 3 | 0 | 2 | G12D | ||||||||||||||
| OMCR13-011TK | Ad | R | MSS | III | 4a | 2b | 3 | BRAF K601E | K601E | |||||||||||||
| OMCR15-045TK | Ad | R | MSS | II | 3 | 0 | 2 | N375S | G12V | R282W | ||||||||||||
| OMCR16-005TK | Ad | R | MSS | IV | 4a | 2a | 1b | 4 | BRAF V600E | S23N | V600E | G244S | ||||||||||
Table legend: Exp, experimental set; Val, validation set; Ad, added cases. Loc, localization of primary tumor; R, right colon; T, transverse colon; L, left colon; S, sigma; RT, rectum. MS, microsatellite; MSS, microsatellite-stable tumor; MSI, microsatellite-unstable tumor.