The commensal microbiome is associated with anti-PD-1 efficacy in metastatic melanoma patients/Experiment 2

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Reviewed Marked as Reviewed by Fatima on 2022/08/24

Curated date: 2022/08/24

Curator: Fatima

Revision editor(s): Fatima, Sharmilac, Victoria

Subjects

Location of subjects

United States of America

Host species Species from which microbiome was sampled. Contact us to have more species added.

Homo sapiens

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology

Feces Cow dung,Cow pat,Droppings,Dung,Excrement,Excreta,Faeces,Fecal material,Fecal matter,Fewmet,Frass,Guano,Matières fécales@fr,Merde@fr,Ordure,Partie de la merde@fr,Piece of shit,Porción de mierda@es,Portion of dung,Portion of excrement,Portion of faeces,Portion of fecal material,Portion of fecal matter,Portion of feces,Portion of guano,Portion of scat,Portionem cacas,Scat,Spoor,Spraint,Stool,Teil der fäkalien@de,Feces,feces

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology

Response to immunochemotherapy Response to immunochemotherapy,response to immunochemotherapy

Group 0 name Corresponds to the control (unexposed) group for case-control studies

Non-responders

Group 1 name Corresponds to the case (exposed) group for case-control studies

Responders

Group 0 sample size Number of subjects in the control (unexposed) group

26

Group 1 sample size Number of subjects in the case (exposed) group

16

Lab analysis

Sequencing type

16S

16S variable region One or more hypervariable region(s) of the bacterial 16S gene

V4

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance

RT-qPCR

Statistical Analysis

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).

relative abundances

Statistical test

Mann-Whitney (Wilcoxon)

Significance threshold p-value or FDR threshold used for differential abundance testing (if any)

0.05

MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?

Yes

Signature 1

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Reviewed Marked as Reviewed by Fatima on 2022/08/24

Curated date: 2022/08/24

Curator: Fatima

Revision editor(s): Fatima

Source: text, Figure 2

Description: Quantitative PCR score representing aggregate data for the relative abundances of 10 species

Abundance in Group 1: increased abundance in Responders

NCBI	Quality Control	Links
Parabacteroides
Enterococcus faecium
Collinsella aerofaciens
Bifidobacterium adolescentis
Klebsiella pneumoniae
Veillonella parvula
Parabacteroides merdae
Lactobacillus sp.
Bifidobacterium longum

Revision editor(s): Fatima

Signature 2

EditHistoryDelete

Flag for review

Your review change was submitted

Reviewed Marked as Reviewed by Fatima on 2022/08/24

Curated date: 2022/08/24

Curator: Fatima

Revision editor(s): Fatima

Source: text, Figure 2

Description: Quantitative PCR score representing aggregate data for the relative abundances of 10 species

Abundance in Group 1: decreased abundance in Responders

NCBI	Quality Control	Links
Blautia obeum CAG:39
Roseburia intestinalis

Revision editor(s): Fatima