Table 2 Abundance of CAFs and CDFs in different patients in mesothelioma samples.
From: Fibroblast-like cells in mesothelioma can derive from tumor cells
Patient ID | Sex | Histological type | BAP1 at diagnosis | BAP1 molecular status by Numbat | MTAP molecular status by Numbat | Number of tumor clones detected by Numbat | Total number of cells | Number of mesothelioma cells | Mesothelioma/total cell ratio | Number of CAFs | CAF/mesothelioma cell ratio | Number of CDFs | % of CDFs in total CAFs | Notes |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
scRNAseq, this study | ||||||||||||||
MOSR3 | Male | Epithelioid | Lost | NA | NA | 1 | 2282 | 2025 | 0.89 | 29 | 0.01 | 24 | 83 | |
MOSR8 | Male | Epithelioid | Lost | NA | NA | 1 | 69 | 42 | 0.61 | 2 | 0.05 | 0 | 0 | there are too few cells for Numbat |
MOSR9 | Male | Biphasic | Retained | NA | NA | 1 | 1172 | 363 | 0.31 | 95 | 0.26 | 67 | 70 | |
MOSR10 | Female | Epithelioid | Lost | NA | NA | 1 | 1270 | 634 | 0.50 | 49 | 0.08 | 2 | 4 | |
MOSR12 | Male | Epithelioid | Retained | NA | NA | 1 | 3212 | 3017 | 0.94 | 7 | 0.002 | 7 | 100 | |
scRNAseq, Giotti et al. 2024 | ||||||||||||||
P1 | Male | Sarcomatoid | Retained | NA | NA | 1 | 10738 | 166 | 0.02 | 1662 | 10 | 25 | 2 | |
P2 | Female | Epithelioid | Lost | NA | NA | NA | 6131 | 5672 | 0.93 | 0 | 0 | 0 | – | No fibroblasts |
P3 | Male | Biphasic | Lost | NA | NA | 1 | 1564 | 38 | 0.02 | 31 | 0.8 | 0 | 0 | |
P4 | Female | Epithelioid | Lost | NA | NA | 2 | 13610 | 10926 | 0.80 | 325 | 0.03 | 29 | 9 | |
P5 | Male | Epithelioid | Lost | NA | NA | 1 | 7491 | 3359 | 0.45 | 138 | 0.04 | 0 | 0 | |
P6 | Male | Epithelioid | NA | NA | NA | NA | 8876 | 2280 | 0.26 | 0 | 0 | 0 | – | No fibroblasts |
P7 | Male | Epithelioid | Lost | NA | NA | 1 | 7755 | 295 | 0.04 | 199 | 0.7 | 4 | 2 | |
P8 | Male | Epithelioid | Lost | NA | NA | 3 | 4550 | 3976 | 0.87 | 43 | 0.01 | 2 | 5 | |
P9 | Female | Epithelioid | Lost | NA | NA | NA | 8496 | 207 | 0.02 | 0 | 0 | 0 | - | No fibroblasts |
P10 | Male | Epithelioid | Lost | NA | NA | NA | 4625 | 0 | 0.00 | 0 | NA | NA | NA | no mesothelioma cells |
P11 | Male | Epithelioid | Retained | NA | NA | 2 | 2720 | 1084 | 0.40 | 275 | 0.25 | 18 | 7 | one clone BAP1-; 1 clone MTAP- |
P12 | Female | Biphasic | Retained | NA | NA | NA | 2616 | 1143 | 0.44 | 9 | 0.008 | NA | NA | few fibroblasts, not reanalyzed |
P13 | Female | Sarcomatoid | Retained | NA | NA | 1 | 4816 | 116 | 0.02 | 613 | 5 | 110 | 18 | |
Patient ID | Sex | Histological type | BAP1 at diagnosis | BAP1 by IHC | MTAP by IHC | Number of cells in ROIs | Number of mesothelioma cells | Mesothelioma/total cell ratio | Number of CAFs | CAF/Mesothelioma cell ratio | Number of CDFs | % of CDFs in total CAFs |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
Multiplex IHC, this study | ||||||||||||
MOMC1 | Female | Sarcomatoid | pos | neg | 494 | 232 | 0.47 | 203 | 0.88 | 63 | 31 | |
MOMC2 | Male | Sarcomatoid | pos | neg | 941 | 835 | 0.89 | 195 | 0.23 | 167 | 86 | |
MOSR3 | Male | Epithelioid | neg | neg, focally | 2396 | 1027 | 0.43 | 174 | 0.17 | 96 | 55 | |
MOSR85 | Male | Sarcomatoid | pos | neg | 8123 | 4166 | 0.51 | 894 | 0.21 | 175 | 20 | |
MOSR86 | Female | Biphasic | pos | neg | 8623 | 4426 | 0.51 | 2885 | 0.65 | 1827 | 63 | |
