reSeArcH Article
Extended Data Fig. 3 | Patient-reported, molecular, and microbial
disease activity measures. a, Relationships between six measures of
disease activity: the patient-reported HBI in CD, patient-reported SCCAI
in UC, faecal calprotectin, the fractions of human reads from stool MGX
and MTX, and a dysbiosis score defined here as departures from control
population microbiome configurations (Fig. 2c). Rho values are Spearman
correlations with ties broken randomly. Linear regression is shown (red
line) with 95% confidence bound (shaded). Sample counts are presented
in the title bar, though sample counts for a particular correlation may be
less as samples must be paired. b, c, PCoA based on metagenomic species-
level Bray–Curtis dissimilarities (n = 1,595 samples from 130 subjects),
indicating dysbiosis score (b) and whether the sample was defined as
dysbiotic (c). d, Number of dysbiotic samples per participant. Colour
scheme as in c. e, Relationship between the dysbiosis score, when using the
HMP1-II gut data set as reference (n = 553 from 249 subjects), compared
to the non-IBD data set. The threshold for the dysbiosis classification is
also shown (black lines). The two scores are highly correlated (Pearson
ρ = 0.86; two-sided P < 2.2 × 10 −^16 ), as are the resulting dysbiosis
classifications (odds ratio of 56; Fisher’s exact test P < 2.2 × 10 −^16 ).
n = 1,595 samples from 130 subjects.