Diagnosis of Crohn's disease and ulcerative colitis using the microbiome

From BugSigDB
Reviewed Marked as Reviewed by ChiomaBlessing on 2024-3-23
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
URI
Authors
Kang DY, Park JL, Yeo MK, Kang SB, Kim JM, Kim JS, Kim SY
Journal
BMC microbiology
Year
2023
Keywords:
Crohn’s disease, Gut microbiome, Inflammatory bowel disease, Machine learning, Ulcerative colitis, Whole metagenome shotgun (WMS) sequencing
BACKGROUND: Inflammatory bowel disease (IBD) is a multifactorial chronic inflammatory disease resulting from dysregulation of the mucosal immune response and gut microbiota. Crohn's disease (CD) and ulcerative colitis (UC) are difficult to distinguish, and differential diagnosis is essential for establishing a long-term treatment plan for patients. Furthermore, the abundance of mucosal bacteria is associated with the severity of the disease. This study aimed to differentiate and diagnose these two diseases using the microbiome and identify specific biomarkers associated with disease activity. RESULTS: Differences in the abundance and composition of the microbiome between IBD patients and healthy controls (HC) were observed. Compared to HC, the diversity of the gut microbiome in patients with IBD decreased; the diversity of the gut microbiome in patients with CD was significantly lower. Sixty-eight microbiota members (28 for CD and 40 for UC) associated with these diseases were identified. Additionally, as the disease progressed through different stages, the diversity of the bacteria decreased. The abundances of Alistipes shahii and Pseudodesulfovibrio aespoeensis were negatively correlated with the severity of CD, whereas the abundance of Polynucleobacter wianus was positively correlated. The severity of UC was negatively correlated with the abundance of A. shahii, Porphyromonas asaccharolytica and Akkermansia muciniphilla, while it was positively correlated with the abundance of Pantoea candidatus pantoea carbekii. A regularized logistic regression model was used for the differential diagnosis of the two diseases. The area under the curve (AUC) was used to examine the performance of the model. The model discriminated UC and CD at an AUC of 0.873 (train set), 0.778 (test set), and 0.633 (validation set) and an area under the precision-recall curve (PRAUC) of 0.888 (train set), 0.806 (test set), and 0.474 (validation set). CONCLUSIONS: Based on fecal whole-metagenome shotgun (WMS) sequencing, CD and UC were diagnosed using a machine-learning predictive model. Microbiome biomarkers associated with disease activity (UC and CD) are also proposed.

Experiment 1


Reviewed Marked as Reviewed by ChiomaBlessing on 2024-3-23

Curated date: 2024/03/08

Curator: Samreen-19

Revision editor(s): Samreen-19, ChiomaBlessing, Victoria

Subjects

Location of subjects
South Korea
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
Crohn's disease Colitis, Granulomatous,CROHN DIS,Crohn Disease,Crohn disease,Crohn's associated gastritis,Crohn's disease,Crohn's disease of colon,Crohn's disease of large bowel,CROHNS DIS,Crohns Disease,Enteritis, Granulomatous,Enteritis, Regional,Gastritis Associated with Crohn Disease,Gastritis Associated with Crohn's Disease,granulomatous colitis,Ileitis, Regional,Ileitis, Terminal,Ileocolitis,pediatric Crohn's disease,regional enteritis,crohn disease,crohn's disease
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Healthy controls (HC)
Group 1 name Corresponds to the case (exposed) group for case-control studies
Crohn’s disease (CD) patients
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patients with Crohn's disease
Group 0 sample size Number of subjects in the control (unexposed) group
50
Group 1 sample size Number of subjects in the case (exposed) group
69
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
None.

Lab analysis

Sequencing type
WMS
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
Not specified
Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
MGISEQ-2000

Statistical Analysis

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
raw counts
Statistical test
Linear Regression
Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
0.0001
MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
Yes

Alpha Diversity

Chao1 Abundance-based estimator of species richness
decreased

Signature 1

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-3-23

Curated date: 2024/03/08

Curator: Samreen-19

Revision editor(s): Samreen-19, ChiomaBlessing

Source: Supplemental. file: Table S5

Description: Differences in the taxonomic composition of the gut microbiome in patients with Crohn's disease (CD) compared to healthy controls (HC)

Abundance in Group 1: increased abundance in Crohn’s disease (CD) patients

NCBI Quality ControlLinks
Actinomyces oris
Actinomyces pacaensis
Actinomyces sp. oral taxon 414
Aurantimicrobium minutum
Bacillus sp. WP8
Bartonella clarridgeiae
Bartonella tribocorum
Bifidobacterium breve
Blattella germanica
Blautia argi
Campylobacter porcelli
Candidatus Johnevansia muelleri
Candidatus Liberibacter americanus
Candidatus Midichloria mitochondrii
Candidatus Thioglobus autotrophicus
Carnobacterium maltaromaticum
Clostridioides difficile
Clostridium butyricum
Clostridium perfringens
Cutibacterium acnes
Enterococcus durans
Enterococcus faecalis
Enterococcus faecium
Enterococcus gilvus
Enterococcus mundtii
Erysipelotrichaceae bacterium
Escherichia albertii
Escherichia coli
Escherichia fergusonii
Escherichia marmotae
Gemella morbillorum
Jeotgalibaca dankookensis
Klebsiella aerogenes
Klebsiella oxytoca
Lactobacillus johnsonii
Lancefieldella parvula
Marinobacter sp. CP1
Mycobacterium sp. PYR15
Mycoplasma wenyonii
Pediococcus acidilactici
Proteus mirabilis
Salmonella enterica
Staphylococcus warneri
Streptococcus anginosus
Streptococcus australis
Streptococcus cristatus
Streptococcus dysgalactiae
Streptococcus gordonii
Streptococcus intermedius
Streptococcus marmotae
Streptococcus oralis
Streptococcus pasteurianus
Streptococcus pluranimalium
Streptococcus respiraculi
Streptococcus sanguinis
Streptococcus sp. A12
Streptococcus sp. oral taxon 431
Synechococcus sp. KORDI-52
Lachnoclostridium sp. YL32
Companilactobacillus zhachilii
Exiguobacterium sp. ZWU0009
Citrobacter werkmanii

Revision editor(s): Samreen-19, ChiomaBlessing

Signature 2

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-3-23

Curated date: 2024/03/09

Curator: Samreen-19

Revision editor(s): Samreen-19, ChiomaBlessing

Source: Supplemental. file: Table S5

Description: Differences in the taxonomic composition of the gut microbiome in patients with Crohn's disease (CD) compared to healthy controls (HC)

Abundance in Group 1: decreased abundance in Crohn’s disease (CD) patients

NCBI Quality ControlLinks
Alistipes finegoldii
Alistipes shahii

Revision editor(s): Samreen-19, ChiomaBlessing

Experiment 2


Reviewed Marked as Reviewed by ChiomaBlessing on 2024-3-23

Curated date: 2024/03/09

Curator: Samreen-19

Revision editor(s): Samreen-19, ChiomaBlessing, Victoria

Differences from previous experiment shown

Subjects

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Ulcerative colitis colitis ulcerative,Colitis, Ulcerative,Left-sided ulcerative (chronic) colitis,Left-sided ulcerative colitis,left-sided ulcerative colitis,Other ulcerative colitis,Other ulcerative colitis (disorder),UC - ulcerative colitis,ulcerative colitis,ulcerative colitis (disease),ulcerative colitis (disorder),Ulcerative colitis, unspecified,ULCERATVE COLITIS UNSPCF,Ulcerative colitis
Group 1 name Corresponds to the case (exposed) group for case-control studies
Ulcerative colitis (UC) patients
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patients with ulcerative colitis
Group 1 sample size Number of subjects in the case (exposed) group
198

Lab analysis

Statistical Analysis

Alpha Diversity

Chao1 Abundance-based estimator of species richness
decreased

Signature 1

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-3-23

Curated date: 2024/03/09

Curator: Samreen-19

Revision editor(s): Samreen-19, ChiomaBlessing

Source: Supplemental. file: Table S8

Description: Differences in the taxonomic composition of the gut microbiome in patients with Ulcerative colitis disease (UC) compared to healthy controls (HC)

Abundance in Group 1: increased abundance in Ulcerative colitis (UC) patients

NCBI Quality ControlLinks
Rothia mucilaginosa
Actinomyces pacaensis
Streptococcus gordonii
Streptococcus cristatus
Streptococcus sanguinis
Streptococcus sp. oral taxon 431
Streptococcus respiraculi
Bifidobacterium breve
Cutibacterium acnes
Streptococcus australis
Streptococcus sp. A12
Lelliottia nimipressuralis
Streptococcus salivarius
Veillonella parvula
Streptococcus parasanguinis
Pediococcus acidilactici

Revision editor(s): Samreen-19, ChiomaBlessing

Signature 2

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-3-23

Curated date: 2024/03/09

Curator: Samreen-19

Revision editor(s): Samreen-19, ChiomaBlessing

Source: Supplemental. file: Table S8

Description: Differences in the taxonomic composition of the gut microbiome in patients with Ulcerative colitis disease (UC) compared to healthy controls (HC)

Abundance in Group 1: decreased abundance in Ulcerative colitis (UC) patients

NCBI Quality ControlLinks
Alistipes shahii
Desulfovibrio sp. G11
Victivallales bacterium CCUG 44730
Odoribacter splanchnicus
Bradyrhizobium sp. ORS 278
Akkermansia muciniphila

Revision editor(s): Samreen-19, ChiomaBlessing

Experiment 3


Reviewed Marked as Reviewed by ChiomaBlessing on 2024-3-23

Curated date: 2024/03/09

Curator: Samreen-19

Revision editor(s): Samreen-19, ChiomaBlessing, Victoria

Differences from previous experiment shown

Subjects

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Gut microbiome measurement Gut microbiome measurement,gut microbiome measurement
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Ulcerative colitis (UC) patients
Group 1 name Corresponds to the case (exposed) group for case-control studies
Crohn's disease (CD) patients
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patients with Crohn's disease
Group 0 sample size Number of subjects in the control (unexposed) group
198
Group 1 sample size Number of subjects in the case (exposed) group
69

Lab analysis

Statistical Analysis

Alpha Diversity

Chao1 Abundance-based estimator of species richness
decreased

Signature 1

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-3-23

Curated date: 2024/03/09

Curator: Samreen-19

Revision editor(s): Samreen-19, ChiomaBlessing

Source: Supplemental. file: Table S2

Description: Differences in the taxonomic composition of the gut microbiome in patients with Crohn's disease (CD) compared to Ulcerative colitis (UC)

Abundance in Group 1: increased abundance in Crohn's disease (CD) patients

NCBI Quality ControlLinks
Citrobacter werkmanii
Escherichia albertii
Escherichia coli
Escherichia fergusonii
Escherichia marmotae
Salmonella enterica
Shigella dysenteriae
Shigella flexneri
Enterobacteriaceae bacterium strain FGI 57

Revision editor(s): Samreen-19, ChiomaBlessing

Signature 2

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-3-23

Curated date: 2024/03/09

Curator: Samreen-19

Revision editor(s): Samreen-19, ChiomaBlessing

Source: Supplemental. file: Table S2

Description: Differences in the taxonomic composition of the gut microbiome in patients with Crohn's disease (CD) compared to Ulcerative colitis (UC)

Abundance in Group 1: decreased abundance in Crohn's disease (CD) patients

NCBI Quality ControlLinks
Faecalibacterium prausnitzii
Lachnospira eligens
Ligilactobacillus ruminis
Alicycliphilus denitrificans
Stigmatella aurantiaca

Revision editor(s): Samreen-19, ChiomaBlessing

Experiment 4


Reviewed Marked as Reviewed by ChiomaBlessing on 2024-4-1

Curated date: 2024/03/25

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Differences from previous experiment shown

Subjects

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Crohn's disease Colitis, Granulomatous,CROHN DIS,Crohn Disease,Crohn disease,Crohn's associated gastritis,Crohn's disease,Crohn's disease of colon,Crohn's disease of large bowel,CROHNS DIS,Crohns Disease,Enteritis, Granulomatous,Enteritis, Regional,Gastritis Associated with Crohn Disease,Gastritis Associated with Crohn's Disease,granulomatous colitis,Ileitis, Regional,Ileitis, Terminal,Ileocolitis,pediatric Crohn's disease,regional enteritis,crohn disease,crohn's disease
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Health controls (HC)
Group 1 name Corresponds to the case (exposed) group for case-control studies
Crohn's disease patients- Mild group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patients with Crohn's disease in the mild group according to disease activity
Group 0 sample size Number of subjects in the control (unexposed) group
50
Group 1 sample size Number of subjects in the case (exposed) group
49

Lab analysis

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)
T-Test
Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
0.05

Alpha Diversity

Chao1 Abundance-based estimator of species richness
decreased

Signature 1

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-4-1

Curated date: 2024/04/01

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Source: Figure 2J

Description: Differences in the taxonomic composition of the gut microbiome in patients with Crohn's disease (CD)- mild group compared to Healthy controls (HC)

Abundance in Group 1: decreased abundance in Crohn's disease patients- Mild group

NCBI Quality ControlLinks
Pseudodesulfovibrio aespoeensis
Alistipes shahii

Revision editor(s): ChiomaBlessing

Experiment 5


Reviewed Marked as Reviewed by ChiomaBlessing on 2024-4-1

Curated date: 2024/03/25

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Differences from previous experiment shown

Subjects

Group 1 name Corresponds to the case (exposed) group for case-control studies
Crohn's disease patients- Moderate group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patients with Crohn's disease in the moderate group according to disease activity
Group 1 sample size Number of subjects in the case (exposed) group
19

Lab analysis

Statistical Analysis

Alpha Diversity

Chao1 Abundance-based estimator of species richness
decreased

Signature 1

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-4-1

Curated date: 2024/04/01

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Source: Figure 2J

Description: Differences in the taxonomic composition of the gut microbiome in patients with Crohn's disease (CD)- moderate group compared to Healthy controls (HC)

Abundance in Group 1: decreased abundance in Crohn's disease patients- Moderate group

NCBI Quality ControlLinks
Pseudodesulfovibrio aespoeensis
Alistipes shahii

Revision editor(s): ChiomaBlessing

Signature 2

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-4-1

Curated date: 2024/04/01

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Source: Figure 2J

Description: Differences in the taxonomic composition of the gut microbiome in patients with Crohn's disease (CD)- moderate group compared to Healthy controls (HC)

Abundance in Group 1: increased abundance in Crohn's disease patients- Moderate group

NCBI Quality ControlLinks
Polynucleobacter wuianus

Revision editor(s): ChiomaBlessing

Experiment 6


Reviewed Marked as Reviewed by ChiomaBlessing on 2024-4-1

Curated date: 2024/03/26

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Differences from previous experiment shown

Subjects

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Ulcerative colitis colitis ulcerative,Colitis, Ulcerative,Left-sided ulcerative (chronic) colitis,Left-sided ulcerative colitis,left-sided ulcerative colitis,Other ulcerative colitis,Other ulcerative colitis (disorder),UC - ulcerative colitis,ulcerative colitis,ulcerative colitis (disease),ulcerative colitis (disorder),Ulcerative colitis, unspecified,ULCERATVE COLITIS UNSPCF,Ulcerative colitis
Group 1 name Corresponds to the case (exposed) group for case-control studies
Ulcerative colitis disease patients- Mild, moderate and severe groups
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patients with Ulcerative colitis disease in the mild, moderate and severe groups according to disease activity
Group 1 sample size Number of subjects in the case (exposed) group
Not specified

Lab analysis

Statistical Analysis

Alpha Diversity

Chao1 Abundance-based estimator of species richness
decreased

Signature 1

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-4-1

Curated date: 2024/04/01

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Source: Figure 3J

Description: Differences in the taxonomic composition of the gut microbiome in patients with Ulcerative colitis disease (UC)- mild, moderate and severe groups compared to Healthy controls (HC)

Abundance in Group 1: decreased abundance in Ulcerative colitis disease patients- Mild, moderate and severe groups

NCBI Quality ControlLinks
Akkermansia muciniphila
Porphyromonas asaccharolytica
Alistipes shahii

Revision editor(s): ChiomaBlessing

Signature 2

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-4-1

Curated date: 2024/04/01

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Source: Figure 3J

Description: Differences in the taxonomic composition of the gut microbiome in patients with Ulcerative colitis disease (UC)- mild, moderate and severe groups compared to Healthy controls (HC)

Abundance in Group 1: increased abundance in Ulcerative colitis disease patients- Mild, moderate and severe groups

NCBI Quality ControlLinks
Candidatus Pantoea carbekii

Revision editor(s): ChiomaBlessing

Experiment 7


Reviewed Marked as Reviewed by ChiomaBlessing on 2024-4-1

Curated date: 2024/03/26

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Differences from previous experiment shown

Subjects

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Gut microbiome measurement Gut microbiome measurement,gut microbiome measurement
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Ulcerative colitis disease patients- Mild group
Group 1 name Corresponds to the case (exposed) group for case-control studies
Ulcerative colitis disease patients- Severe group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patients with Ulcerative colitis disease in the severe group according to disease activity
Group 0 sample size Number of subjects in the control (unexposed) group
162
Group 1 sample size Number of subjects in the case (exposed) group
11

Lab analysis

Statistical Analysis

Alpha Diversity

Chao1 Abundance-based estimator of species richness
decreased

Signature 1

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-4-1

Curated date: 2024/04/01

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Source: Figure 3J

Description: Differences in the taxonomic composition of the gut microbiome in patients with Ulcerative colitis disease (UC)- severe group compared to Ulcerative colitis disease (UC)- mild group (Mann-Whitney and T-test)

Abundance in Group 1: decreased abundance in Ulcerative colitis disease patients- Severe group

NCBI Quality ControlLinks
Akkermansia muciniphila
Porphyromonas asaccharolytica
Alistipes shahii

Revision editor(s): ChiomaBlessing

Signature 2

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-4-1

Curated date: 2024/04/01

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Source: Figure 3J

Description: Differences in the taxonomic composition of the gut microbiome in patients with Ulcerative colitis disease (UC)- severe group compared to Ulcerative colitis disease (UC)- mild group (Mann-Whitney and T-test)

Abundance in Group 1: increased abundance in Ulcerative colitis disease patients- Severe group

NCBI Quality ControlLinks
Candidatus Pantoea carbekii

Revision editor(s): ChiomaBlessing

Experiment 8


Reviewed Marked as Reviewed by ChiomaBlessing on 2024-4-1

Curated date: 2024/03/26

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Ulcerative colitis disease patients- Moderate group
Group 0 sample size Number of subjects in the control (unexposed) group
25

Lab analysis

Statistical Analysis

Alpha Diversity

Chao1 Abundance-based estimator of species richness
unchanged

Signature 1

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-4-1

Curated date: 2024/04/01

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Source: Figure 3J

Description: Differences in the taxonomic composition of the gut microbiome in patients with Ulcerative colitis disease (UC)- severe group compared to Ulcerative colitis disease (UC)- moderate group

Abundance in Group 1: decreased abundance in Ulcerative colitis disease patients- Severe group

NCBI Quality ControlLinks
Alistipes shahii

Revision editor(s): ChiomaBlessing

Signature 2

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-4-1

Curated date: 2024/04/01

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Source: Figure 3J

Description: Differences in the taxonomic composition of the gut microbiome in patients with Ulcerative colitis disease (UC)- severe group compared to Ulcerative colitis disease (UC)- moderate group

Abundance in Group 1: increased abundance in Ulcerative colitis disease patients- Severe group

NCBI Quality ControlLinks
Candidatus Pantoea carbekii

Revision editor(s): ChiomaBlessing

Experiment 9


Reviewed Marked as Reviewed by ChiomaBlessing on 2024-4-1

Curated date: 2024/03/26

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Ulcerative colitis disease patients- Mild group
Group 0 sample size Number of subjects in the control (unexposed) group
162

Lab analysis

Statistical Analysis

Statistical test
Linear Regression
Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
0.01

Alpha Diversity

Chao1 Abundance-based estimator of species richness
decreased

Signature 1

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-4-1

Curated date: 2024/04/01

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Source: Supplemental. Table S9

Description: Differences in the taxonomic composition of the gut microbiome in patients with Ulcerative colitis disease (UC)- severe group compared to Ulcerative colitis disease (UC)- mild group

Abundance in Group 1: decreased abundance in Ulcerative colitis disease patients- Severe group

NCBI Quality ControlLinks
Desulfarculus baarsii
Denitrobacterium detoxificans

Revision editor(s): ChiomaBlessing

Signature 2

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-4-1

Curated date: 2024/04/01

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Source: Supplemental. Table S9

Description: Differences in the taxonomic composition of the gut microbiome in patients with Ulcerative colitis disease (UC)- severe group compared to Ulcerative colitis disease (UC)- mild group

Abundance in Group 1: increased abundance in Ulcerative colitis disease patients- Severe group

NCBI Quality ControlLinks
Bacillus sp. SJ-10
Blattella germanica

Revision editor(s): ChiomaBlessing