Browse - MDPD

1. Disease-wise BioProjects

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2. Disease subgroup-wise BioProjects

COPD
Asthma
Cystic Fibrosis
Lung Cancer
Pneumonia
Tuberculosis

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3. Disease-wise taxonomic profile (Krona plot) across isolation sources

Disease	Assay type	Isolation sources
Asthma	Amplicon	BAL (22), Bronchial mucosa (24), Sputum (118), Stool (174)
Asthma	WMS	Sputum (5), Stool (25)
COPD	Amplicon	BAL (4), Lung tissue (18), Sputum (1077)^**, Stool (28)
COPD	WMS	Sputum (15), Stool (44)
COVID-19	Amplicon	BAL (57), Stool (202)
COVID-19	WMS	Stool (58)
Cystic Fibrosis	Amplicon	BAL (96), Colon mucus (13), Sputum (188), Stool (309)
Cystic Fibrosis	WMS	Sputum (124), Stool (19)
Pneumonia	Amplicon	BAL (42), Endotracheal Aspirate (150), Stool (413)
Tuberculosis	Amplicon	Sputum (58), Stool (149)
Tuberculosis	WMS	Stool (48)
Healthy	Amplicon	BAL (19), Colon mucus (12), Sputum (11), Stool (392)
Healthy	WMS	Sputum (4), Stool (119)

^** - Large Krona files. May take longer time to load.

4. Disease-wise similarity analysis across Gut-Lung biome (UpSet plot and Likert plot)

Disease	Assay Type	Lung isolation source	Gut isolation source
Asthma	Amplicon	Sputum (118)	Stool (172)
Asthma	WMS	Sputum (5)	Stool (25)
COPD	Amplicon	Sputum (1077)	Stool (28)
COPD	WMS	Sputum (15)	Stool (44)
COVID-19 ^*	Amplicon	BAL (57)	Stool (202)
Cystic Fibrosis	Amplicon	Sputum (187)	Stool (309)
Cystic Fibrosis	WMS	Sputum (124)	Stool (19)
Pneumonia ^*	Amplicon	Endotracheal Aspirate (150)	Stool (413)
Tuberculosis ^*	Amplicon	Sputum (58)	Stool (149)
Healthy	Amplicon	BAL (19)	Stool (392)
Healthy	WMS	Sputum (4)	Stool (119)

^* No WMS data available for COVID-19, Pneumonia and Tuberculosis lung microbiome.

5. Differential analysis of disease pairs (LDA plot and heatmap)

	Asthma	COPD	COVID-19	Cystic Fibrosis	Pneumonia	Tuberculosis
COPD
COVID-19
Cystic Fibrosis
Pneumonia
Tuberculosis
Healthy

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Disease pair: Asthma - COPD

Disease-pair	Assay type	Biome	Isolation source	LDA plot	Heatmap
Asthma - COPD	Amplicon	Lung	Sputum
		Lung	BAL	No plot !! SVD error.
		Gut	Stool
	WMS	Lung	Sputum		No plot !! SVD error.
	WMS	Gut	Stool

Disease pair: Asthma - COVID-19

Disease-pair	Assay type	Biome	Isolation source
Asthma - COVID-19	Amplicon	Lung	BAL
	Amplicon	Gut	Stool
	WMS	Gut	Stool

N.B. - No Lung WMS data available for COVID-19.

Disease pair: Asthma - Cystic Fibrosis

Disease-pair	Assay type	Biome	Isolation source
Asthma - Cystic Fibrosis	Amplicon	Lung	Sputum
		Lung	BAL
		Gut	Stool
	WMS	Lung	Sputum
	WMS	Gut	Stool

Disease pair: Asthma - Pneumonia

Disease-pair	Assay type	Biome	Isolation source	LDA plot	Heatmap
Asthma - Pneumonia	Amplicon	Lung	BAL
Asthma - Pneumonia	Amplicon	Gut	Stool

N.B. - No WMS data available for Pneumonia.

Disease pair: Asthma - Tuberculosis

Disease-pair	Assay type	Biome	Isolation source
Asthma - Tuberculosis	Amplicon	Lung	Sputum
	Amplicon	Gut	Stool
	WMS	Gut	Stool

N.B. - No Lung WMS data available for Tuberculosis.

Disease pair: Asthma - Healthy

Disease-pair	Assay type	Biome	Isolation source	LDA plot
Asthma - Healthy	Amplicon	Lung	BAL
		Lung	Sputum
		Gut	Stool
	WMS	Lung	Sputum	No markers found.
	WMS	Gut	Stool

Disease pair: COPD - COVID-19

Disease-pair	Assay type	Biome	Isolation source	LDA plot
COPD - COVID-19	Amplicon	Lung	BAL	No plot !! SVD error.
	Amplicon	Gut	Stool
	WMS	Gut	Stool

N.B. - No Lung WMS data available for COVID-19.

Disease pair: COPD - Cystic Fibrosis

Disease-pair	Assay type	Biome	Isolation source
COPD - Cystic Fibrosis	Amplicon	Lung	Sputum
	Amplicon	Gut	Stool
	WMS	Lung	Sputum
	WMS	Gut	Stool

Disease pair: COPD - Pneumonia

Disease-pair	Assay type	Biome	Isolation source	LDA plot	Heatmap
COPD - Pneumonia	Amplicon	Lung	BAL	No plot !! SVD error.
COPD - Pneumonia	Amplicon	Gut	Stool

N.B. - No WMS data available for Pneumonia.

Disease pair: COPD - Tuberculosis

Disease-pair	Assay type	Biome	Isolation source
COPD - Tuberculosis	Amplicon	Lung	Sputum
	Amplicon	Gut	Stool
	WMS	Gut	Stool

N.B. - No Lung WMS data available for Tuberculosis.

Disease pair: COPD - Healthy

Disease-pair	Assay type	Biome	Isolation source
COPD - Healthy	Amplicon	Lung	BAL
		Lung	Sputum
		Gut	Stool
	WMS	Lung	Sputum
	WMS	Gut	Stool

Disease pair: COVID-19 - Cystic Fibrosis

Disease-pair	Assay type	Biome	Isolation source
COVID-19 - Cystic Fibrosis	Amplicon	Lung	BAL
	Amplicon	Gut	Stool
	WMS	Gut	Stool

N.B. - No Lung WMS data available for COVID-19.

Disease pair: COVID-19 - Pneumonia

Disease-pair	Assay type	Biome	Isolation source	LDA plot	Heatmap
COVID-19 - Pneumonia	Amplicon	Lung	BAL
COVID-19 - Pneumonia	Amplicon	Gut	Stool

N.B. -
1. No WMS data available for Pneumonia.
2. No Lung WMS data available for COVID-19.

Disease pair: COVID-19 - Tuberculosis

Disease-pair	Assay type	Biome	Isolation source	LDA plot	Heatmap
COVID-19 - Tuberculosis	Amplicon	Gut	Stool
COVID-19 - Tuberculosis	WMS	Gut	Stool

N.B. -
1. No Lung Amplicon data available of same isolation sources for COVID-19 and Tuberculosis.
2. No Lung WMS data available for both COVID-19 and Tuberculosis.

Disease pair: COVID-19 - Healthy

Disease-pair	Assay type	Biome	Isolation source
COVID-19 - Healthy	Amplicon	Lung	BAL
	Amplicon	Gut	Stool
	WMS	Gut	Stool

N.B. - No Lung WMS data available for COVID-19.

Disease pair: Cystic Fibrosis - Pneumonia

Disease-pair	Assay type	Biome	Isolation source	LDA plot	Heatmap
Cystic Fibrosis - Pneumonia	Amplicon	Lung	BAL
Cystic Fibrosis - Pneumonia	Amplicon	Gut	Stool

N.B. - No WMS data available for Pneumonia.

Disease pair: Cystic Fibrosis - Tuberculosis

Disease-pair	Assay type	Biome	Isolation source	LDA plot
Cystic Fibrosis - Tuberculosis	Amplicon	Lung	Sputum	No plot !! SVD error.
	Amplicon	Gut	Stool
	WMS	Gut	Stool

N.B. - No Lung WMS data available for Tuberculosis.

Disease pair: Cystic Fibrosis - Healthy

Disease-pair	Assay type	Biome	Isolation source
Cystic Fibrosis - Healthy	Amplicon	Lung	BAL
		Lung	Sputum
		Gut	Colon mucus
		Gut	Stool
	WMS	Lung	Sputum
	WMS	Gut	Stool

Disease pair: Pneumonia - Tuberculosis

Disease-pair	Assay type	Biome	Isolation source	LDA plot	Heatmap
Pneumonia - Tuberculosis	Amplicon	Gut	Stool

N.B. -
1. No WMS data available for both Pneumonia
2. No Lung WMS data available for Tuberculosis.
3. No Lung Amplicon data available of same isolation sources for Pneumonia and Tuberculosis.

Disease pair: Pneumonia - Healthy

Disease-pair	Assay type	Biome	Isolation source	LDA plot	Heatmap
Pneumonia - Healthy	Amplicon	Lung	BAL
Pneumonia - Healthy	Amplicon	Gut	Stool

N.B. - No WMS data available for Pneumonia.

Disease pair: Tuberculosis - Healthy

Disease-pair	Assay type	Biome	Isolation source
Tuberculosis - Healthy	Amplicon	Lung	Sputum
	Amplicon	Gut	Stool
	WMS	Gut	Stool

N.B. - No Lung WMS data available for Tuberculosis.