Table 1.
Characteristics of supra-carcinoids
| LNEN005 | LNEN012 | LNEN021 | LNEN022 | S01513 | S01522 | |
|---|---|---|---|---|---|---|
| Classification | ||||||
| Histopathology | Atypical | Atypical | Atypical | Atypical | Atypical | Atypical |
| Morphological characteristics | Carcinoid morph. 2 mitoses/2 mm2 No necrosis | Carcinoid morph. 2 mitoses/2 mm2 No necrosis | LCNEC morph. 4 mitoses/2 mm2 No necrosis | NA | NA | NA |
| Machine learning | LCNEC | LCNEC | Unclassified | Unclassified | Atypical | Unclassified |
| Clinical data | ||||||
| Sex | Male | Female | Female | Female | Male | Male |
| Age at diagnosis | 80 | 70 | 83 | 58 | 58 | 63 |
| TNM Stage | IB | IIIC | IA1 | IIB | IIIA | IV |
| Overall survival (months) | 144.6 | 111.7 | 29.8 | 36.1 | 59 | 7 |
| Epidemiology | ||||||
| Smoking status | Former | NA | NA | NA | Never | Current |
| Other known exposure | Asbestos | NA | NA | NA | NA | NA |
| Multi-omics data | ||||||
| Data available | WES, RNAseq, Epic 850K | RNAseq | Epic 850K | Epic 850K | WGS, RNAseq | WES, Epic 850K |
| Cluster MOFA LNEN | LCNEC | LCNEC | LCNEC | LCNEC | LCNEC | LCNEC |
| Cluster MOFA LNET | Carcinoid A1 | Carcinoid A1 | Carcinoid A1 | Carcinoid A1 | Carcinoid A1 | Carcinoid A1 |
| Selected mutated genes | JMJD1C, KDM5C, BAP1 | NA | NA | NA | DNAH17 | TP53 |
| Mean FPKM of IC genesa | 8.12 | 10.32 | NA | NA | 3.15 | NA |
| MKI67 FPKM | 2.6 | 7.3 | NA | NA | 1.9 | NA |
FPKM refers to Fragments Per Kilobase per Million reads. The median FPKM of immune checkpoint (IC) genes was calculated based on the genes included in Fig. 2e, excluding HLA genes because of their very large expression levels
aIC genes median FPKM values for pulmonary carcinoids, LCNEC and SCLC are 1.0, 3.5, and 3.2, respectively