NEMoE: a nutrition aware regularized mixture of experts model to identify heterogeneous diet-microbiome-host health interactions

Table 2 Summary of eight publicly available Parkinson’s disease microbiome studies used for validation of the NEMoE model

Study	Design	Country	Sample size	Sampling	DNA extraction	16S region	ENA Accession Number
Lubomski_0 [19, 39] Lubomski_6 Lubomski_12	Longitudinal	Australia	74PD, 74HC	Home collection, stored at −80 °C	MP Biomedicals FastDNATM SPIN Kit	V3-V4	PRJNA808166
Wallen_1 [36]	Cross-sectional	USA	323PD, 184HC	Home collection, swabs, stored at −20 °C	MoBio PowerSoil DNA Isolation Kit	V4	PRJNA601994
Wallen_2 [36, 43]	Cross-sectional	USA	197PD, 130HC	Swabs, delivered at RT	MoBio PowerMag Soil kit	V4	PRJNA601994
Aho (baseline) [44] Aho (follow-up)	Longitudinal	Finland	64PD, 64HC	Home collection, DNA stabilizer, stored in fridge	PSP-Spin Stool Kit	V3-V4	PRJEB27564
Weis [45]	Cross-sectional	Germany	34PD, 25HC	MED AUXIL fecal collector set	FastDNA Spin Kit	V4-V5	PRJEB30615
Pietrucci [46]	Cross-sectional	Italy	80PD, 72HC	Home collection, DNA stabilizer	PSP-Spin Stool Kit	V3-V4	PRJNA510730
Scheperjans [47]	Cross-sectional	Finland	72PD, 72HC	Home collection, DNA stabilizer, stored in fridge	PSP-Spin Stool Kit	V1-V3	PRJEB4927
Jin [48]	Cross-sectional	China	72PD, 68HC	NA	NA	V3-V4	PRJEB588834

Studies Lubomski_0, Lubomski_6, and Lubomski_12 were part of the same longitudinal data set by Lubomski and colleagues [2] and they represent samples that were measured at 0, 6, and 12 months, respectively
Studies Aho (baseline) and Aho (follow-up) were part of the same longitudinal data set by Aho and colleagues [44]. The same subjects were measured twice, at baseline and then later at follow-up, which was on average 2.25 years apart
Studies Wallen_1 and Wallen_2 were part of two large cohort studies set by Wallen and colleagues [38]

ISSN: 2049-2618