Temporal changes in gut microbiota profile in children with acute lymphoblastic leukemia prior to commencement-, during-, and post-cessation of chemotherapy/Experiment 1

From BugSigDB


Needs review

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Atrayees, ChiomaBlessing

Subjects

Location of subjects
Malaysia
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
Leukemia blood (leukemia),leukemia,leukemia (disease),leukemia, disease,leukemia, malignant,leukemias,leukemias, general,Leukemia
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

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
raw counts
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
age, ethnic group


Signature 1

Needs review

Curated date: 2021/01/10

Curator: William Lam

Revision editor(s): WikiWorks

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 Quality ControlLinks
Bacteroides
Bacteroides uniformis
Bacteroides fragilis

Revision editor(s): WikiWorks

Signature 2

Needs review

Curated date: 2021/01/10

Curator: William Lam

Revision editor(s): WikiWorks

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 Quality ControlLinks
Campylobacter
Veillonellaceae
Corynebacterium
Bifidobacterium
Atopobium
Peptoniphilus
Staphylococcus
Prevotella
Anaerococcus
Porphyromonas

Revision editor(s): WikiWorks

Signature 3

Needs review

Curated date: 2021/01/10

Curator: William Lam

Revision editor(s): WikiWorks

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 Quality ControlLinks
Bifidobacterium

Revision editor(s): WikiWorks

Signature 4

Needs review

Curated date: 2021/01/10

Curator: William Lam

Revision editor(s): WikiWorks

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 Quality ControlLinks
Atopobium
Bacteroides
Prevotella
Fusobacterium
Corynebacterium

Revision editor(s): WikiWorks