Temporal changes in gut microbiota profile in children with acute lymphoblastic leukemia prior to commencement-, during-, and post-cessation of chemotherapy
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Quality control
- Retracted paper
- Contamination issues suspected
- Batch effect issues suspected
- Uncontrolled confounding suspected
- Results are suspect (various reasons)
- Tags applied
Experiment 1
Subjects
- Location of subjects
- Malaysia
- Host species Species from which microbiome was sampled (if applicable)
- 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
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- leukemia blood (leukemia),leukemia,leukemia (disease),leukemia, disease,leukemia, malignant,leukemias,leukemias, general
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- healthy control
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Acute Lymphoblastic Leukemia diagnosis and Pre- Chemotherapy treatment
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- children (ages 2-6 years old) diagnosed with and treated for Acute Lymphoblastic Leukemia
- Group 0 sample size Number of subjects in the control (unexposed) group
- 7
- Group 1 sample size Number of subjects in the case (exposed) group
- 7
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
- Illumina
Statistical Analysis
- Statistical test
- DESeq2
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.1
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- Yes
- Matched on Factors on which subjects have been matched on in a case-control study
- Matched on: "Age" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.Age, ethnic group
Signature 1
Source: Figure 3a
Description: Differentially abundant bacteria were identified between Acute Lymphoblastic Leukemia (ALL) patients pre-chemotherapy and healthy controls
Abundance in Group 1: increased abundance in Acute Lymphoblastic Leukemia diagnosis and Pre- Chemotherapy treatment
NCBI | Links |
---|---|
Bacteroides | |
Bacteroides uniformis | |
Bacteroides fragilis |
Revision editor(s): WikiWorks
Signature 2
Source: Figure 3a
Description: Differentially abundant bacteria were identified between Acute Lymphoblastic Leukemia (ALL) patients pre-chemotherapy and healthy controls
Abundance in Group 1: decreased abundance in Acute Lymphoblastic Leukemia diagnosis and Pre- Chemotherapy treatment
NCBI | Links |
---|---|
Campylobacter | |
Veillonellaceae | |
Corynebacterium | |
Bifidobacterium | |
Atopobium | |
Peptoniphilus ⚠ | |
Staphylococcus | |
Prevotella | |
Anaerococcus ⚠ | |
Porphyromonas |
Revision editor(s): WikiWorks
Signature 3
Source: Figure 3b
Description: Differentially abundant bacteria were identified between Acute Lymphoblastic Leukemia (ALL) patients post-chemotherapy and healthy controls
Abundance in Group 1: increased abundance in Acute Lymphoblastic Leukemia diagnosis and Pre- Chemotherapy treatment
NCBI | Links |
---|---|
Bifidobacterium |
Revision editor(s): WikiWorks
Signature 4
Source: Figure 3b
Description: Differentially abundant bacteria were identified between Acute Lymphoblastic Leukemia (ALL) patients post-chemotherapy and healthy controls
Abundance in Group 1: decreased abundance in Acute Lymphoblastic Leukemia diagnosis and Pre- Chemotherapy treatment
NCBI | Links |
---|---|
Atopobium | |
Bacteroides | |
Prevotella | |
Fusobacterium | |
Corynebacterium |
Revision editor(s): WikiWorks