Table I.

Studies selected for data extraction for meta-analysis after the systematic literature search.

Authors	Controls/patients with endometriosis (sample size)	Array/sequencing platform	Cycle phase	Signif. threshold	FC threshold	Up-regulated transcripts	Down- regulated transcripts
Ahn et al. (2016)	Controls (n = 8): Healthy women undergoing tubal ligation. No hormonal therapy for 3 months before sampling.	nCounter human Immunology v2 panel	Sec.*	P ≤ 0.05	>1.5	60	31
	Patients (n = 8): Stage III–IV endometriosis with infertility and/or pelvic pain. No hormonal therapy for 3 months before sampling.
Burney et al. (2007)	Controls (n = 8): Normally cycling women, volunteers to donate sample, no endometrial inflammation. No hormonal treatment for 3 months before sampling.	Affymetrix Human U133-Plus 2.0	MS	FDR <0.05	>1.5	428	293
	Patients (n = 9): Surgically documented and histologically validated moderate/severe-stage endometriosis. No hormonal treatment in preceeding 3 months.
Kao et al. (2003)	Controls (n = 7): Normally cycling women. Surgically confirmed without endometriosis. No medication.	Affymetrix Genechip Hu95A	MS	P < 0.05	>2	63	86
	Patients (n = 8): Surgically documented mild/moderate endometriosis. No medication.
Matsuzaki et al. (2005)	Controls (n = 3): Fertile women with regular cycles undergoing tubal ligation or sterilization. No hormonal treatment in preceeding 6 months.	Clontech Atlashuman 1.2 cDNA expression array	MS	P < 0.05	>3	6**	20**
	Patients (n = 3): Surgically confirmed deep endometriosis. No hormonal treatment for 6 months before surgery.
Tamaresis et al. (2014)	Controls (n = 8): No uterine/pelvic pathology, healthy volunteers for tubal ligation or endometrial biopsy. No hormonal treatment in preceeding 3 months.	Affymetrix Human U133-Plus 2.0	MS	No threshold	>1.5	4020	6438
	Patients (n = 28): Laparoscopically confirmed endometriosis and pelvic pain and/or infertility. No hormonal treatment in preceeding 3 months.
Zhao et al. (2017)	Controls (n = 5): Laparoscopic surgery for examination or hydrotubation. No hormonal therapy.	Illumina HiSeq4000 system	Sec.*	FDR ≤0.05	≥2 (up) ≤0.5 (down)	66	6
	Patients (n = 8): Endometriosis confirmed by histology, stage III–IV. No hormonal therapy.
Da Broi et al. (2019)	Controls (n = 5): Fertile healthy women with regular cycles, undergoing tubal ligation. No medication.	Illumina HiSeq2500 System	MS	adj P < 0.05	log2 > 1 log2 < 1	0	0
	Patients (n = 6): Infertility exclusively associated to endometriosis (diagnosed by laparoscopy). No medication.
Joshi et al. (2021)	Controls (n = 3): Healthy endometriosis-free women. Regular cycles. No hormonal therapy for 3 months before sampling.	Affymetrix Human Gene 1.0 ST Arrays	MS	FDR ≤0.05	>1.5	0	0
	Patients (n = 8): Endometriosis confirmed with laparoscopy and pathology. No hormonal therapy in preceding 3 months.
	Total number of samples:	Total number of differentially expressed genes (with duplicates)				4643	6874
	Controls n = 47; Endometriosis n = 78
		Total differentially expressed genes (with real symbol and FC)				4286	6465
		Total number of unique differentially expressed genes				3496	4283

adj P: adjusted P-value; FC, fold change; FDR, false discovery rate; MS, mid-secretory phase; Sec.: secretory phase.

^*Secretory phase not specified but the focus on the study was on receptive phase.

^**Gene lists from epithelial and stromal cells were merged.