Table 1.

List of airway microbiome and host transcriptome datasets included in the meta-analysis.

Dataset	Sample type	PMID	Sequencing reads per sample	Country	Platform	Data type	Samples
							COPD	Control
SRP102480	Sputum	29269441	54,100–355,368	UK	Miseq	V4	445	0
SRP102629	Sputum	29386298	37,359–155,862	UK	Miseq	V4	423	0
SRP073159	Sputum	29101284	10,636–220,475	UK	Miseq	V3–V4	134	0
SRP065072	Sputum	26917613	4231–31,326	UK	454	V3–V5	106	0
ERP108788	Sputum	31234826	9633–95,264	Spain	Miseq	V3–V4	95	0
Dyrad.5GC82	Sputum	28851370	10,210–150,821	Norway	Miseq	V3–V4	81	0
SRP066375	Sputum	NA	13,866–159,955	Peru, Nepal, China, Bangladesh	Miseq	V4	74	107
SRP136124	Sputum	31170986	85,087–343,461	UK	Miseq	V4	52	16
ERP003401	Sputum	25253795	6406–14,573	Spain	454	V1–V2	31	0
ERP014054	Sputum	NA	5566–15,687	UK	454	V6–V8	28	0
SRP124904	Sputum	29518088	24,172–106,899	USA	Miseq	V3–V4	26	0
SRP107187	Sputum	29579057	5859–12,506	Canada	454	V6–V8	14	0
SRP075523	Sputum	27428540	25,345–83,640	China	Miseq	V4	8	0
ERP010088	Sputum	26872143	5,291,496–100,983,368a	UK	Hiseq	MetaG	8	10
ERP110331	Sputum	NA	4,460,248–98,972,436a	Germany	NextSeq	MetaG	8	0
GSE47460	Lung	27609773	NA	USA	Agilent	HostT	219	108
GSE76925	Lung	28287180	NA	USA	Illuminab	HostT	111	40
GSE57148	Lung	25834810	8,888,399–22,119,664	South Korea	Hiseq	HostT	98	91
GSE37147	Bronchial	23471465	NA	Canada	Affy	HostT	87	82
GSE103174	Lung	NA	NA	Spain	Affy	HostT	37	10
GSE73395	BAL	30141961	NA	Germany, Italy, Belgium	Affy	HostT	29	28
GSE38974	Lung	21940491	NA	USA	Agilent	HostT	23	9
GSE11906	Small airways	19852842	NA	USA	Affy	HostT	20	72
GSE12472	Bronchial	20832896	NA	Netherlands	Agilent	HostT	18	10
GSE37768	Lung	NA	NA	Spain	Affy	HostT	18	9
GSE8581	Lung	18849563	NA	USA	Affy	HostT	16	19
GSE106986	Lung	NA	NA	Germany	Agilent	HostT	14	5
GSE86064	Large airways	29581847	12,623,264–24,609,574	USA	Hiseq	HostT	13	30
GSE13896	Alveolar macrophage	19635926	NA	USA	Affy	HostT	12	24
GSE56341	Small airways	24298892	NA	Canada	Affy	HostT	8	14
GSE11784	Small airways	21829517	NA	USA	Affy	HostT	7	31
GSE119040	Lung	NA	NA	Argentina	Affy	HostT	6	4
GSE16972	Alveolar macrophage	21430361	NA	Hungary	Affy	HostT	5	5
GSE112260	Sputum	30074017	NA	Poland	Affy	HostT	4	4

MetaG metagenome, HostT host transcriptome.

^aThe number of non-human reads.

^bIllumina Human HT-12 V4.0 microarray.