Table 1.

Differentially regulated placental transcripts in preeclampsia and fetal growth restriction.

Type of transcript	Number of available transcripts		Number of differentially regulated transcripts
	Annotated or predicted	Filtereda	P value approachb			Fold change approachc
						Top 5%				Top 3%
			PE	FGR	Shared	PE & FGR each	Shared by PE and FGR			PE & FGR each	Shared by PE and FGR
							Same direction	Opposite direction	P valued		Same direction	Opposite direction	P valued
Protein-coding	19,808	15,257	785	32	3	250	92	3	30.9 × 10−62	150	57	1	20.2 × 10−52
Novel protein-coding	2783	2774	157	1	0	45	19	0	60.8 × 10−16	27	11	0	70.3 × 10−12
lincRNA	7672	1741	28	2	0	29	11	1	80.3 × 10−9	17	4	0	80.3 × 10−4
Novel lincRNA	133	131	6	0	0	7	3	0	30.0 × 10−3	4	2	0	40.1 × 10−3
circRNA	3279	1879	2	0	0	31	9	0	20.6 × 10−6	18	6	0	20.2 × 10−6
miRNA	2588	615	12	0	0	10	2	0	00.075	6	0	0	>0.99
Novel miRNA	141	26	0	0	0	1	0	0	>0.99	1	0	0	>0.99
piRNA	32,235	286	0	0	0	5	1	2	00.24	3	0	1	>0.99
sncRNA	2874	177	2	0	0	3	0	0	>0.99	2	0	0	>0.99
Novel small-RNA	18,511	706	43	0	0	12	1	0	00.42	7	1	0	00.16

^aTanscripts passing following filters: (1) RPM (Reads Per Million mapped reads) ≥0.2 for non-circRNA; count ≥ 5 for circRNA, (2) present in >10% of the cohort, (3) found in both the FGR and PE cohorts, and (4) genes not on chrY and chrMT.

^bP values were adjusted (Benjamini–Hochberg correction method at false discovery rate (FDR) ≤ 5%) based on the original two-sided P values reported from DESeq2.

^cFold changes were obtained from bootstrap sampling of cases and controls. The most abundant transcripts were used: the 5000 most abundant protein-coding transcripts were selected from 15,257 transcripts passing the filters described above and the same fraction (i.e., 5000/15257) was selected from the other transcript types.

^dBased on the Fisher’s exact test (two-sided).

Lists of differentially regulated transcripts in this table are available at https://www.obgyn.cam.ac.uk/placentome/.