The efficacy of prevention for colon cancer based on the microbiota therapy and the antitumor mechanisms with intervention of dietary Lactobacillus
-
Quality control
- Retracted paper
- Contamination issues suspected
- Batch effect issues suspected
- Uncontrolled confounding suspected
- Results are suspect (various reasons)
- Tags applied
Experiment 1
Empty strings are not accepted.
Curated date: 2024/03/15
Curator: Manisha28
Revision editor(s): WikiWorks, Svetlana up, Manisha28, Ifeanyisam
Subjects
- Location of subjects
- China
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Mus musculus
- 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
- Colorectal carcinoma
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Tumor control group (CK)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Living bacteria group (LB)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- BALB/c mice (male, 6 wk) purchased from Lanzhou Veterinary Research Institute, Chinese Academy of Agricultural Sciences. These mice were given oral administration of living Lactobacillus bacteria.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 30
- Group 1 sample size Number of subjects in the case (exposed) group
- 30
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V3-V4
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Illumina
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- LEfSe
- 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)?
- No
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2.0
- Matched on Factors on which subjects have been matched on in a case-control study
- age, sex
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Source: Figure 3g
Description: Effects of administration of Lactobacillus on living bacteria group(LB). The gut microbiota with the capacity of producing antitumor compounds are increased in living bacteria group.
Abundance in Group 1: increased abundance in Living bacteria group (LB)
Revision editor(s): Manisha28, Svetlana up, WikiWorks
Signature 2
Source: Figure 3g
Description: Effects of administration of Lactobacillus on living bacteria group(LB). Some gut microbiota are decreased in living bacteria group.
Abundance in Group 1: decreased abundance in Living bacteria group (LB)
NCBI | Quality Control | Links |
---|---|---|
Bacteroidales | ||
Butyricimonas | ||
Cyanobacteriota | ||
Rikenellaceae | ||
Sphingomonadaceae | ||
Sphingomonas | ||
Streptophyta |
Revision editor(s): Manisha28, Svetlana up, WikiWorks
Experiment 2
Empty strings are not accepted.
Curated date: 2024/03/17
Curator: Manisha28
Revision editor(s): WikiWorks, Svetlana up, Manisha28, Ifeanyisam
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Inactivated bacteria group (IB)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- BALB/c mice (male, 6 wk) purchased from Lanzhou Veterinary Research Institute, Chinese Academy of Agricultural Sciences. These mice were given oral administration of inactivated Lactobacillus bacteria.
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Source: Figure 3g
Description: Effects of administration of inactive Lactobacillus on inactivated bacteria group(IB). The abundance of microbial flora in inactivated bacteria group was significantly higher than that of the tumor control group (P < 0.001).
Abundance in Group 1: increased abundance in Inactivated bacteria group (IB)
NCBI | Quality Control | Links |
---|---|---|
Bacillota | ||
Caulobacteraceae | ||
Clostridia | ||
Coprococcus | ||
Eubacteriales |
Revision editor(s): Manisha28, Svetlana up, WikiWorks
Signature 2
Source: Figure 3g
Description: Effects of administration of inactive Lactobacillus on inactivated bacteria group(IB). The abundance of microbial flora in inactivated bacteria group was significantly higher than that of the tumor control group (P < 0.001). However, some bacteria groups decreased.
Abundance in Group 1: decreased abundance in Inactivated bacteria group (IB)
NCBI | Quality Control | Links |
---|---|---|
Bacteroidales | ||
Bacteroides | ||
Bacteroidia | ||
Prevotella | ||
Prevotellaceae |
Revision editor(s): Manisha28, Svetlana up, WikiWorks
Experiment 3
Empty strings are not accepted.
Curated date: 2024/04/06
Curator:
Revision editor(s):
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Inactivated bacteria group
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Living bacteria group
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- BALB/c mice (male, 6 wk) purchased from Lanzhou Veterinary Research Institute, Chinese Academy of Agricultural Sciences. These mice were given oral administration of living Lactobacillus bacteria.
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Source: Figure 3g
Description: LEfSe results of Inactivated vs Living Bacteria group
Abundance in Group 1: decreased abundance in
NCBI | Quality Control | Links |
---|---|---|
Alphaproteobacteria | ||
Cyanobacteriota | ||
Oscillospiraceae bacterium | ||
Rickettsiales | ||
Rikenellaceae |
Revision editor(s): Svetlana up, WikiWorks
Signature 2
Source: Figure 3g
Description: LEfSe results of Inactivated vs Living Bacteria group
Abundance in Group 1: increased abundance in
NCBI | Quality Control | Links |
---|---|---|
Bacilli | ||
Enterobacterales | ||
Enterobacteriaceae | ||
Escherichia | ||
Gammaproteobacteria | ||
Lactobacillaceae | ||
Lactobacillales | ||
Lactobacillus |
Revision editor(s): Svetlana up, WikiWorks