Table 1.
List of the V3-V4 16S colon microbiota sourced amplicon datasets analysed in this study
| References | SRA BioProject | Kit used for DNA extraction | Collected tissue | Focus | Sequences downloaded |
|---|---|---|---|---|---|
| Russo et al. (2023) | PRJNA899104 | DNeasy PowerSoil | Mucosa | CRC (samples from saliva, stool, and colon) | 53 |
| Ryan et al. (2020) | PRJNA398187 | AllPrep DNA/RNA Mini kit | Mucosa | IBD, Healthy tissues | 371 |
| Choi et al. (2021) | PRJNA743150 | Unspecified | Unspecified | CRC, Healthy tissues | 104 |
| Borgognone et al. (2021) | PRJEB46353 | DNeasy Blood and Tissue | Mucosa | CRC (comparison between frozen samples and paraffin) | 10 |
| Debelius et al. (2023) | PRJEB57580 | ZR–96 Genomic DNA MagPrep | Unspecified | CRC, Healthy tissues | 203 |
| Saffarian et al. (2019) | PRJNA507548 | PicoPure DNA extraction | Mucosa and Crypt | CRC, healthy tissues, healthy subjects | 229 |
| Park et al. (2024) | PRJNA995580 | Chemical | Mucosa | CRC, healthy tissues | 230 |
| Drewes et al. (2017) | PRJNA325650 | MasterPure DNA Purification Kit | Mucosa | CRC, healthy tissues | 51 |
| Niccolai et al. (2022) | PRJNA840857 | DNeasy PowerSoil | Mucosa | Churg–Strauss | 7 |
| Lu et al. (2016) | PRJNA298957 | E. Z. N. A.® Soil DNA Kit | Mucosa | CRC, healthy tissues, healthy subjects | 99 |
Note: The term “Unspecified” indicates that the related information was not explicitly stated in the publication associated with the dataset.