| Literature DB >> 35506567 |
Hui Wang1, Zhi-Wei Li2, Qiuxiang Ou3, Xue Wu3, Misako Nagasaka4, Yang Shao3,5, Sai-Hong Ignatius Ou6, Yu Yang7.
Abstract
TRK fusions are rare but targetable mutations which occur across a wide variety of cancer types. We report the prevalence of approximately 0.7% for NTRK-positive colorectal cancer (CRC) by genetically profiling 2519 colonic and rectal tumors. The aberrations of APC and TP53 frequently co-occurred with NTRK gene fusions, whereas RAS/BRAF oncogenic alterations and NTRK fusions were almost always mutually exclusive. NTRK-driven colorectal cancer patients demonstrated increased TMB (median = 53 mut/MB, 95% CI: 36.8-68.0 mut/MB), high microsatellite instability, and an enrichment for POLE/POLD1 mutations when compared to molecularly unstratified colorectal cancer population. These data shed light on possible future approach of multimodality treatment regimen including TRK-targeted therapy and immune checkpoint inhibitor therapy in NTRK-positive CRCs.Entities:
Keywords: zzm321990POLE/POLD1zzm321990; NTRK; colorectal cancer; gene fusions; microsatellite instability; tumor mutation burden
Mesh:
Year: 2022 PMID: 35506567 PMCID: PMC9249987 DOI: 10.1002/cam4.4561
Source DB: PubMed Journal: Cancer Med ISSN: 2045-7634 Impact factor: 4.711
FIGURE 1fusions in colorectal cancer. (A). Colon tumor site. (B). Venn diagram of the relationships between colorectal cancer (CRC), high tumor mutational burden (TMB), and positive microsatellite instability status (MSI). (C). The comparison of TMB between CRC, molecularly unstratified CRC, non‐CRC, and CRC that carried other kinase fusions
Patient overview
| Characteristics |
|
|
|---|---|---|
| Age of onset, median, years | 65 (range: 38–76) | 67 (range: 52–76) |
| Sex, | ||
| Female | 9 (52.9%) | 8 (57.1%) |
| Male | 8 (47.1%) | 6 (42.9%) |
| Stage, | ||
| III‐IV | 5 (29.4%) | 4 (28.6%) |
| n.d. | 12 (70.6%) | 10 (71.4%) |
| NTRK kinases, | ||
|
| 14 (82.3%) | 14 (100%) |
|
| 3 (17.7%) | — |
| Tumor site, | ||
| Colon | ||
| Right‐sided | 11 (64.7%) | 9 (71.5%) |
| n.d. | 5 (29.4%) | 4 (28.5%) |
| Rectum | 1 (5.8%) | 0 |
| TMB, median, mut/MB | 53 (range: 2–108) | 53 (range: 2–108) |
| MSI‐positive, | 13 (76.5%) | 12 (85.7%) |
Abbreviation: n.d., not determined.
Clinical and demographic data of 17 NTRK+ colorectal cancer patients
| ID | Age | Sex | Stage | Site | Treatment history | TRK gene | Fusion partner | Fusion form | Breakpoint1 | Breakpoint2 | Allele frequency (P, plasma; F, FFPE) | Sample type | Molecular assay | TMB | MSI status | PD‐L1 (TPS, CPS) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| P1 | 74 | M | NA | Colon‐transverse | NA | NTRK1 | TPM3 | TPM3:exon10‐NTRK1:exon9 | 1:154139441 | 1:156843913 | 12.20% | Tissue | 422 gene panel | 56 | MSI | <1%, 2% |
| P2 | 67 | F | IV | Colon‐ascending | Chemotherapy (Capecitabine, 4 mo, PD) | NTRK1 | TPM3 | NTRK1:exon8‐TPM3:exon7 | 1:156843713 | 1:154132660 | 16.50% | FFPE | 422 gene panel | 53 | MSI | NA |
| TPM3:exon6‐NTRK1:exon8 | 1:154132662 | 1:15684371512.30% | ||||||||||||||
| P3 | 69 | F | NA | Colon‐ascending | NA | NTRK1 | TPM3 | TPM3:exon6‐NTRK1:exon8 | 1:154130478 | 1:156843696 | 23.57% | Tissue | 425 gene panel | 75 | MSI | 2%, 7% |
| P4 | 53 | M | NA | Colon‐site NA | Surgery | NTRK1 | LMNA | LMNA:exon7‐NTRK1:exon11 | 1:156106224 | 1:156844785 | 32.27% | FFPE | 425 gene panel | 2 | MSS | NA |
| P5 | 67 | M | NA | Colon‐site NA | NA | NTRK1 | TPM3 | TPM3:exon6‐NTRK1:exon10 | 1:154134168 | 1:156844322 | 27.80% | FFPE | 425 gene panel | 108 | MSI | NA |
| P6 | 67 | F | NA | Colon‐site NA | NA | NTRK1 | TPM3 | TPM3:exon10‐NTRK1:exon8 | 1:154138026 | 1:156843608 | 30.30% | FFPE | 425 gene panel | 49 | MSI | NA |
| P7 | 75 | F | III | Colon‐ascending | Surgery | NTRK1 | TPM3 | TPM3:exon10‐NTRK1:exon9 | 1:154139680 | 1:156844015 | 9.53% | FFPE | 425 gene panel | 80 | MSI | NA |
| P8 | 71 | F | NA | Colon‐ascending | Surgery | NTRK1 | TPM3 | TPM3:exon6‐NTRK1:exon9 | 1:154134245 | 1:156843862 | 22.75% | FFPE | 425 gene panel | 45 | MSI | NA |
| P9 | 63 | M | IV | Colon‐ascending | Chemotherapy (CAPOX, 5 mo, PD), surgery | NTRK1 | TPM3 | NTRK1:exon8‐TPM3:exon7 | 1:156844130 | 1:154134285 | 26.44% | FFPE | 425 gene panel | 60 | MSI | NA |
| P10 | 55 | M | NA | Rectum | Chemotherapy (CAPOX, 6 mo, PD) | NTRK3 | RUNX1 | RUNX1:exon4‐NTRK3:exon14 | 21:36258226 | 15:88668341 | 8.90% | FFPE | 425 gene panel | 11 | MSS | NA |
| P12 | 52 | F | NA | Colon‐ascending | Surgery | NTRK1 | LMNA | LMNA:exon8‐NTRK1:exon12 | 1:156106765 | 1:156844901 | 38.60% | FFPE | 425 gene panel | 51 | MSI | NA |
| P13 | 76 | F | NA | Colon‐site NA | NA | NTRK1 | TPM3 | TPM3:exon10‐NTRK1:exon12 | 1:154138749 | 1:156845155 | 3.4% (P), 9.7% (F) | FFPE & Plasma | 425 gene panel | 45 (F) | MSI | NA |
| TPM3:exon10‐NTRK1:exon12 | 1:154138750 | 1:156845151 | 1.8% (P), 11% (F) | |||||||||||||
| P14 | 63 | M | NA | Colon‐ascending | Surgery | NTRK1 | TPM3 | TPM3:exon10‐NTRK1:exon8 | 1:154134718 | 1:156843508 | 0.45% (P), 64.5% (F) | FFPE&Plasma | 425 gene panel | 12 (F) | MSI | NA |
| P15 | 57 | F | NA | Colon‐ascending | Surgery | NTRK3 | ETV6 | ETV6:exon5‐NTRK3:exon14 | 12:12035081 | 15:88484921 | 27.80% | FFPE | 425 gene panel | 73 | MSI | NA |
| NTRK3:exon13‐ETV6:exon6 | 15:88484917 | 12:12035083 | 10.40% | |||||||||||||
| P16 | 65 | M | III | Colon‐ascending | Chemotherapy (+bevacizumab, 3 yr, PD) | NTRK1 | TRP | TPR:exon21‐NTRK1:exon10 | 1:186317772 | 1:156844344 | 23.94% | Plasma | 425 gene panel | 4 (P) | MSS | NA |
| NTRK1:exon9‐TPR:exon22 | 1:156844343 | 1:186317771 | 3.04% | |||||||||||||
| P17 | 61 | F | NA | Colon‐ascending | NA | NTRK1 | TPM3 | TPM3:exon10‐NTRK1:exon9 | 1:154134606 | 1:156843950 | 21.37% | FFPE | 425 gene panel | 67 (F) | MSI | 25%, 30% |
| TPM3:exon10‐NTRK1:exon9 | 1:154134606 | 1:156843952 | 1.13% | Plasma | ||||||||||||
| P18 | 38 | M | IV | Colon‐site NA | NA | NTRK3 | CSNK1G1 | CSNK1G1:exon1‐NTRK3:exon14 | 15:64624388 | 15:88486523 | 5.00% | Plasma | 425 gene panel | 10 (P) | MSS | NA |
Abbreviations: F, female; M, male; NA, not available; CAPOX, capecitabine and oxaliplatin; MSI, microsatellite instability; MSS, microsatellite stable; TPS, tumor proportion score; CPS, combined positive score.
Indicates that TMB was calculated based on the number of non‐synonymous mutations in the coding region per megabase.
FIGURE 2Genomic features observed in NTRK+ colorectal cancers. (A) Co‐mutation plot illustrating alterations with the occurrence of at least one third of the NTRK+ cohort. Each column represents a NTRK‐fusion positive patient. Alteration types are color‐coded shown on the right panel. Patient's clinicopathological features and tumor mutation burden were shown on top of the co‐mutation plot. (B) The lollipop plot mapping identified mutations of POLD1 or POLE to protein sequences