Table 1.
Patient Characteristics and number of samples before and after Roux-en-Y Gastric Bypass Surgery. a Four samples at three years after RYGB from the Assal study are not included in the downstream analysis. b Patient characteristics were not available in the associated metadata. c The Afshar study was part of Biomarkers of Colorectal cancer After Bariatric Surgery study (http://www.isrctn.com/ISRCTN95459522). No publication for this microbiome dataset is available. The time for the collection of post-RYGB samples was not specified in the metadata, however, based on Afshar et al 2018 patients were followed up at six months after surgery. Age and BMI (kg/m2) are presented as mean ± standard deviation
| Project # | Sequence type | Total # of samples |
Pre- surgery |
Post-surgery 1 month |
Post-surgery 3 months |
Post- surgery 6 months |
Post-surgery 1 year |
Post-surgery 2 years |
Post-surgery 3 years |
Publication | Dataset names | Age | BMI |
Sex (F/M) |
Site |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| PRJNA612042 | 16S rRNA gene | 22 | 9 | – | – | 7 | 6 | – | – | Ilhan et al 2020 | Ilhan | – b | – b | – b | Arizona, USA |
| PRJNA395660 | 16S rRNA gene | 71 | 25 | – | 20 | – | 14 | 8 | 4a | Assal et al 2019 | Assal | 45.8 ± 7.1 | 46.4 ± 5.5 | 25/25 | Sao Paulo, Brazil |
| PRJEB14082 | 16S rRNA gene | 38 | 19 | – | – | 19 c | – | – | – | BOCABS Afshar et al 2018 | Afsharc | – b | – b | – b | UK |
| PRJEB12947 | WGS | 33 | 13 | – | 12 | – | 33 | – | – | Palleja et al 2016 | Palleja | – b | – b | 8/5 | Denmark |
| This study | 16S rRNA gene | 61 | 30 | 21 | – | 10 | – | – | – | – - | BS | 43.5 ± 10.0 | 44.7 ± 7.1 | 26/4 | Fargo and Ohio, USA |
| This study | WGS | 135 | 52 | 38 | – | 27 | 18 | – | – | – - | BS | 42.8 ± 9.8 | 45.1 ± 6.1 | 46/6 | Fargo and Ohio, USA |