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CTD Diseases (CD): Digestive System Diseases 
(show info)
Biomedical Ontology
Like Gene Ontology (GO), biomedical ontology such as phenotype ontology classifies and organizes gene-mutant/null phenotypic information from the very general at the top to more specific terms in the directed acyclic graph (DAG) by viewing an individual term as a node and its relations to parental terms (allowing for multiple parents) as directed edges. To navigate this hierarchy, we display all parental phenotypic terms to the current phenotypic term of interest ordered by their shortest distances to the current term. Also, only direct children phenotypic terms of the current phenotypic term are listed. Biomedical ontologies we have incorporated are as follows:
- Disease Ontology (DO) Ontology DO semantically integrates disease and medical vocabularies through extensive cross mapping of DO terms to MeSH, ICD, NCI’s thesaurus, SNOMED and OMIM.
- Human Phenotype (HP) Ontology HP captures phenotypic abnormalities that are described in OMIM, along with the corresponding disease-causing genes. It includes three complementary biological concepts: Mode_of_Inheritance (MI), ONset_and_clinical_course (ON), and Phenotypic_Abnormality (PA).
- Mouse Phenotype (MP) Ontology MP describes phenotypes of the mouse after a specific gene is genetically disrupted. Using it, Mouse Genome Informatics (MGI) provides high-coverate gene-level phenotypes for the mouse.
- Worm Phenotype (WP) Ontology WP classifies and organizes phenotype descriptions for C. elegans and other nematodes. Using it, WormBase provides primary resource for phenotype annotations for C. elegans.
- Yeast Phenotype (YP) Ontology Based on YP which is the major contributor to the ‘Ascomycete phenotype ontology’, Saccharomyces Genome Database (SGD) provides single mutant phenotypes for every gene in the yeast genome.
- Fly Phenotype (FP) Ontology FP refers to FlyBase controlled vocabulary. Specifically, a structured controlled vocabulary is used for the annotation of alleles (for their mutagen etc) in FlyBase.
- Fly Anatomy (FA) Ontology FA is a structured controlled vocabulary of the anatomy of Drosophila melanogaster, used for the description of phenotypes and where a gene is expressed.
- Zebrafish Anatomy (ZA) Ontology ZA displays anatomical terms of the zebrafish using standard anatomical nomenclature, together with affected genes.
- Xenopus Anatomy (XA) Ontology XA represents the lineage of tissues and the timing of development for frogs (Xenopus laevis and Xenopus tropicalis). It is used to annotate Xenopus gene expression patterns and mutant and morphant phenotypes.
- Arabidopsis Plant Ontology (AP) Ontology As a major contributor to Plant Ontology which describes plant anatomical and morphological structures (AN) and growth and developmental stages (DE), the Arabidopsis Information Resource (TAIR) provides arabidopsis plant ontology annotations for the model higher plant Arabidopsis thaliana.
- Enzyme Commission (EC) Ontology Each enzyme is allocated a four-digit EC number, the first three digits of which define the reaction catalysed and the fourth of which is a unique identifier (serial number). Each enzyme is also assigned a systematic name that uniquely defines the reaction catalysed.
- UniProtKB KeyWords (KW) Ontology Keywords in UniProtKB are controlled vocabulary, providing a summary of the entry content and are used to index UniProtKB/Swiss-Prot entries based on 10 categories (the category "Technical term" being excluded here). Each keyword is attributed manually to UniProtKB/Swiss-Prot entries and automatically to UniProtKB/TrEMBL entries (according to specific annotation rules).
- CTD Diseases (CD) Ontology CD is MEDIC disease vocabulary that is modified by CTD from the "Diseases" [C] branch of Medical Subject Headings (MeSH), combined with genetic disorders from the Online Mendelian Inheritance in OMIM database.
- CTD Chemicals (CC) Ontology CC is chemical vocabulary that is adapted by CTD from the "Chemicals and Drugs" category and Supplementary Concept Records of Medical Subject Headings (MeSH, a hierarchical vocabulary used to index articles for MEDLINE/PubMed).
Jump to [ Top · Hierarchy · Annotations ]
Root: CD Hierarchy (CTD diseases from Comparative Toxicogenomics Database)
Jump to [ Top · Hierarchy ]
Superfamily( show details)
Highlighted in gray are those with FDR_all>0.001
| SCOP term |
FDR (all) |
Annotation (direct or inherited) |
| Cu,Zn superoxide dismutase-like | 0 | DIRECT |
| FAD-linked oxidoreductase | 0 | DIRECT |
| Tryptophan synthase beta subunit-like PLP-dependent enzymes | 0 | DIRECT |
| Nitric oxide (NO) synthase oxygenase domain | 0 | DIRECT |
| Serum albumin-like | 0 | DIRECT |
| Pectin lyase-like | 0 | DIRECT |
| Bcl-2 inhibitors of programmed cell death | 0 | DIRECT |
| Thioesterase/thiol ester dehydrase-isomerase | 0 | DIRECT |
| Glutamine synthetase/guanido kinase | 0 | DIRECT |
| HMA, heavy metal-associated domain | 0 | DIRECT |
| DNA repair protein MutS, domain III | 0 | DIRECT |
| RGC domain-like | 0 | DIRECT |
| ABC transporter transmembrane region | 0.0001406 | DIRECT |
| 4-helical cytokines | 0.0002466 | DIRECT |
| Annexin | 0.0008456 | DIRECT |
| EGF/Laminin | 0.003885 | INHERITED FROM: Protoporphyria, Erythropoietic || Stomach Ulcer |
| Flavoproteins | 0.004573 | INHERITED FROM: Bile Duct Diseases || Cholestasis || Intestinal Diseases || Hepatic Insufficiency |
| Multidrug efflux transporter AcrB transmembrane domain | 0.004573 | INHERITED FROM: Digestive System Neoplasms || Gastrointestinal Stromal Tumors |
| Integrin beta tail domain | 0.01045 | INHERITED FROM: Liver Cirrhosis, Experimental |
| Notch domain | 0.02322 | INHERITED FROM: Pancreatic Diseases || Esophageal Diseases || Pancreatic Neoplasms || Esophageal Neoplasms |
| Thyroglobulin type-1 domain | 0.02325 | INHERITED FROM: Liver Cirrhosis, Experimental || Liver Cirrhosis |
| Growth factor receptor domain | 0.02672 | INHERITED FROM: Biliary Tract Neoplasms || Gallbladder Neoplasms |
| Metallothionein | 0.03327 | INHERITED FROM: Carcinoma, Hepatocellular |
| Nuclear receptor ligand-binding domain | 0.03597 | INHERITED FROM: Fatty Liver || Hepatomegaly |
| ALDH-like | 0.03749 | INHERITED FROM: Fatty Liver || Non-alcoholic Fatty Liver Disease |
| Riboflavin synthase domain-like | 0.03988 | INHERITED FROM: Intestinal Diseases || Hepatic Insufficiency |
| Ferredoxin reductase-like, C-terminal NADP-linked domain | 0.03988 | INHERITED FROM: Intestinal Diseases || Hepatic Insufficiency |
| MHC antigen-recognition domain | 0.0684 | INHERITED FROM: Hepatitis B, Chronic || Hepatitis, Viral, Human |
| SMAD MH1 domain | 0.07002 | INHERITED FROM: Rectal Diseases || Colonic Diseases || Intestinal Neoplasms || Colorectal Neoplasms |
| A DNA-binding domain in eukaryotic transcription factors | 0.07022 | INHERITED FROM: Cholestasis, Intrahepatic || Bile Duct Diseases || Cholestasis || Biliary Tract Diseases |
| TNF-like | 0.09247 | INHERITED FROM: Liver Failure |
| Frizzled cysteine-rich domain | 0.1051 | INHERITED FROM: Rectal Diseases || Colorectal Neoplasms |
| Leucine zipper domain | 0.1132 | INHERITED FROM: Cholestasis |
| GroES-like | 0.1133 | INHERITED FROM: Non-alcoholic Fatty Liver Disease |
| Class I glutamine amidotransferase-like | 0.1251 | INHERITED FROM: Chemical and Drug Induced Liver Injury |
| Glucocorticoid receptor-like (DNA-binding domain) | 0.1378 | INHERITED FROM: Hepatomegaly |
| Interleukin 8-like chemokines | 0.1685 | INHERITED FROM: Bile Duct Diseases || Cholestasis || Celiac Disease || Biliary Tract Diseases |
| Ribosomal protein S5 domain 2-like | 0.1857 | INHERITED FROM: Colorectal Neoplasms, Hereditary Nonpolyposis |
| Orange domain-like | 0.2161 | INHERITED FROM: Pancreatic Diseases || Pancreatic Neoplasms || Carcinoma, Pancreatic Ductal |
| SMAD/FHA domain | 0.2254 | INHERITED FROM: Colonic Diseases |
| ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | 0.2565 | INHERITED FROM: Colorectal Neoplasms, Hereditary Nonpolyposis |
| P-loop containing nucleoside triphosphate hydrolases | 0.4208 | INHERITED FROM: Intestinal Diseases |
| L domain-like | 0.6912 | INHERITED FROM: Biliary Tract Neoplasms || Gallbladder Neoplasms || Gallbladder Diseases |
| C2 domain (Calcium/lipid-binding domain, CaLB) | 0.7513 | INHERITED FROM: Non-alcoholic Fatty Liver Disease |
| p53-like transcription factors | 0.7803 | INHERITED FROM: Liver Cirrhosis, Biliary |
| RING/U-box | 0.7985 | INHERITED FROM: Zellweger Syndrome |
| Nicotinic receptor ligand binding domain-like | 1 | INHERITED FROM: Hepatic Encephalopathy || Liver Failure |
| Neurotransmitter-gated ion-channel transmembrane pore | 1 | INHERITED FROM: Hepatic Encephalopathy || Liver Failure |
| ARM repeat | 1 | INHERITED FROM: Adenocarcinoma Of Esophagus |
LINKTO: Domain2BO Download and Domain2BO Algorithm
Jump to [ Top · Hierarchy ]
Family( show details)
Highlighted in gray are those with FDR_all>0.001
| SCOP term |
FDR (all) |
Annotation (direct or inherited) |
| HMA, heavy metal-associated domain | 0 | DIRECT |
| DNA repair protein MutS, domain III | 0 | DIRECT |
| Bcl-2 inhibitors of programmed cell death | 0 | DIRECT |
| Tryptophan synthase beta subunit-like PLP-dependent enzymes | 0 | DIRECT |
| C5 cytosine-specific DNA methylase, DCM | 0 | DIRECT |
| Serum albumin-like | 0 | DIRECT |
| Multidrug efflux transporter AcrB transmembrane domain | 0 | DIRECT |
| Cu,Zn superoxide dismutase-like | 0 | DIRECT |
| Bactericidal permeability-increasing protein, BPI | 0 | DIRECT |
| RGC domain | 0 | DIRECT |
| Variant SAM domain | 0 | DIRECT |
| DEATH effector domain, DED | 0 | DIRECT |
| Nitric oxide (NO) synthase oxygenase domain | 0 | DIRECT |
| ABC transporter ATPase domain-like | 0.00000001517 | DIRECT |
| Growth factor receptor domain | 0.0001683 | DIRECT |
| ABC transporter transmembrane region | 0.000506 | DIRECT |
| Annexin | 0.0007553 | DIRECT |
| Glutathione S-transferase (GST), C-terminal domain | 0.002428 | INHERITED FROM: Chemical and Drug Induced Liver Injury || Non-alcoholic Fatty Liver Disease |
| Short-chain cytokines | 0.005004 | INHERITED FROM: Hepatitis, Autoimmune || Hepatitis || Non-alcoholic Fatty Liver Disease || Hepatitis, Chronic |
| EGF-type module | 0.007978 | INHERITED FROM: Protoporphyria, Erythropoietic || Stomach Ulcer || Duodenal Diseases || Porphyrias, Hepatic || Carcinoma, Pancreatic Ductal |
| Integrin beta tail domain | 0.009331 | INHERITED FROM: Liver Cirrhosis, Experimental |
| DNA gyrase/MutL, second domain | 0.009331 | INHERITED FROM: Rectal Diseases || Digestive System Neoplasms || Colorectal Neoplasms, Hereditary Nonpolyposis || Colonic Diseases || Intestinal Diseases || Intestinal Neoplasms || Colorectal Neoplasms |
| DNA gyrase/MutL, N-terminal domain | 0.009331 | INHERITED FROM: Rectal Diseases || Digestive System Neoplasms || Colorectal Neoplasms, Hereditary Nonpolyposis || Colonic Diseases || Intestinal Diseases || Intestinal Neoplasms || Colorectal Neoplasms |
| Interferons/interleukin-10 (IL-10) | 0.01 | INHERITED FROM: Hepatitis, Autoimmune || Hepatitis || Pancreatic Diseases || Colonic Diseases || Intestinal Neoplasms || Hepatitis B || Pancreatic Neoplasms || Hepatitis, Viral, Human |
| Fibronectin type II module | 0.0154 | INHERITED FROM: Liver Neoplasms |
| NADPH-cytochrome p450 reductase FAD-binding domain-like | 0.02075 | INHERITED FROM: Intestinal Diseases || Hepatic Insufficiency || Gastrointestinal Diseases |
| NADPH-cytochrome p450 reductase-like | 0.02075 | INHERITED FROM: Intestinal Diseases || Hepatic Insufficiency || Gastrointestinal Diseases |
| Notch domain | 0.02075 | INHERITED FROM: Pancreatic Diseases || Esophageal Diseases || Pancreatic Neoplasms || Esophageal Neoplasms |
| Thyroglobulin type-1 domain | 0.02267 | INHERITED FROM: Liver Cirrhosis, Experimental || Liver Cirrhosis |
| Glutathione S-transferase (GST), N-terminal domain | 0.02296 | INHERITED FROM: Chemical and Drug Induced Liver Injury |
| Metallothionein | 0.03064 | INHERITED FROM: Carcinoma, Hepatocellular |
| L domain | 0.03064 | INHERITED FROM: Biliary Tract Neoplasms || Gallbladder Neoplasms || Gallbladder Diseases || Biliary Tract Diseases |
| Alcohol dehydrogenase-like, C-terminal domain | 0.03561 | INHERITED FROM: Non-alcoholic Fatty Liver Disease |
| C2 set domains | 0.03561 | INHERITED FROM: Cholestasis, Intrahepatic || Bile Duct Diseases || Cholestasis || Biliary Tract Diseases |
| ALDH-like | 0.03725 | INHERITED FROM: Fatty Liver || Non-alcoholic Fatty Liver Disease |
| Nuclear receptor ligand-binding domain | 0.04071 | INHERITED FROM: Fatty Liver || Hepatomegaly |
| Nuclear receptor | 0.04421 | INHERITED FROM: Fatty Liver || Hepatomegaly |
| Cytochrome p450 reductase N-terminal domain-like | 0.04466 | INHERITED FROM: Intestinal Diseases || Hepatic Insufficiency |
| DNA polymerase I | 0.04466 | INHERITED FROM: Intestinal Diseases |
| Prefoldin | 0.06034 | INHERITED FROM: Esophageal Squamous Cell Carcinoma || Esophageal Neoplasms |
| Cytochrome b5 | 0.06034 | INHERITED FROM: Chemical and Drug Induced Liver Injury |
| SMAD MH1 domain | 0.06583 | INHERITED FROM: Rectal Diseases || Colonic Diseases || Intestinal Neoplasms || Colorectal Neoplasms |
| SMAD domain | 0.06583 | INHERITED FROM: Rectal Diseases || Colonic Diseases || Intestinal Neoplasms || Colorectal Neoplasms |
| Alcohol dehydrogenase-like, N-terminal domain | 0.06699 | INHERITED FROM: Non-alcoholic Fatty Liver Disease |
| A DNA-binding domain in eukaryotic transcription factors | 0.06699 | INHERITED FROM: Cholestasis, Intrahepatic || Bile Duct Diseases || Cholestasis || Biliary Tract Diseases |
| MHC antigen-recognition domain | 0.07046 | INHERITED FROM: Hepatitis B, Chronic || Hepatitis, Viral, Human |
| TNF-like | 0.09554 | INHERITED FROM: Liver Failure |
| Frizzled cysteine-rich domain | 0.1036 | INHERITED FROM: Rectal Diseases || Colorectal Neoplasms |
| C1 set domains (antibody constant domain-like) | 0.1047 | INHERITED FROM: Hepatitis || Hepatitis B, Chronic || Hepatitis, Viral, Human |
| Sir2 family of transcriptional regulators | 0.1161 | INHERITED FROM: Fatty Liver |
| Leucine zipper domain | 0.1193 | INHERITED FROM: Cholestasis |
| Interleukin 8-like chemokines | 0.1792 | INHERITED FROM: Bile Duct Diseases || Cholestasis || Celiac Disease || Biliary Tract Diseases |
| Hairy Orange domain | 0.2069 | INHERITED FROM: Pancreatic Diseases || Pancreatic Neoplasms || Carcinoma, Pancreatic Ductal |
| Protein kinases, catalytic subunit | 0.4619 | INHERITED FROM: Biliary Tract Neoplasms |
| Neurotransmitter-gated ion-channel transmembrane pore | 1 | INHERITED FROM: Hepatic Encephalopathy || Liver Failure |
| Nicotinic receptor ligand binding domain-like | 1 | INHERITED FROM: Hepatic Encephalopathy || Liver Failure |
| SCOP term |
FDR (all) |
Annotation (direct or inherited) |
| HMA, heavy metal-associated domain | 0 | Direct |
| DNA repair protein MutS, domain III | 0 | Direct |
| Bcl-2 inhibitors of programmed cell death | 0 | Direct |
| Tryptophan synthase beta subunit-like PLP-dependent enzymes | 0 | Direct |
| C5 cytosine-specific DNA methylase, DCM | 0 | Direct |
| Serum albumin-like | 0 | Direct |
| Multidrug efflux transporter AcrB transmembrane domain | 0 | Direct |
| Cu,Zn superoxide dismutase-like | 0 | Direct |
| Bactericidal permeability-increasing protein, BPI | 0 | Direct |
| RGC domain | 0 | Direct |
| Variant SAM domain | 0 | Direct |
| DEATH effector domain, DED | 0 | Direct |
| Nitric oxide (NO) synthase oxygenase domain | 0 | Direct |
| ABC transporter ATPase domain-like | 0.00000001517 | Direct |
| Growth factor receptor domain | 0.0001683 | Direct |
| ABC transporter transmembrane region | 0.000506 | Direct |
| Annexin | 0.0007553 | Direct |
| Glutathione S-transferase (GST), C-terminal domain | 0.002428 | Inherited |
| Short-chain cytokines | 0.005004 | Inherited |
| EGF-type module | 0.007978 | Inherited |
| Integrin beta tail domain | 0.009331 | Inherited |
| DNA gyrase/MutL, second domain | 0.009331 | Inherited |
| DNA gyrase/MutL, N-terminal domain | 0.009331 | Inherited |
| Interferons/interleukin-10 (IL-10) | 0.01 | Inherited |
| Fibronectin type II module | 0.0154 | Inherited |
| NADPH-cytochrome p450 reductase FAD-binding domain-like | 0.02075 | Inherited |
| NADPH-cytochrome p450 reductase-like | 0.02075 | Inherited |
| Notch domain | 0.02075 | Inherited |
| Thyroglobulin type-1 domain | 0.02267 | Inherited |
| Glutathione S-transferase (GST), N-terminal domain | 0.02296 | Inherited |
| Metallothionein | 0.03064 | Inherited |
| L domain | 0.03064 | Inherited |
| Alcohol dehydrogenase-like, C-terminal domain | 0.03561 | Inherited |
| C2 set domains | 0.03561 | Inherited |
| ALDH-like | 0.03725 | Inherited |
| Nuclear receptor ligand-binding domain | 0.04071 | Inherited |
| Nuclear receptor | 0.04421 | Inherited |
| Cytochrome p450 reductase N-terminal domain-like | 0.04466 | Inherited |
| DNA polymerase I | 0.04466 | Inherited |
| Prefoldin | 0.06034 | Inherited |
| Cytochrome b5 | 0.06034 | Inherited |
| SMAD MH1 domain | 0.06583 | Inherited |
| SMAD domain | 0.06583 | Inherited |
| Alcohol dehydrogenase-like, N-terminal domain | 0.06699 | Inherited |
| A DNA-binding domain in eukaryotic transcription factors | 0.06699 | Inherited |
| MHC antigen-recognition domain | 0.07046 | Inherited |
| TNF-like | 0.09554 | Inherited |
| Frizzled cysteine-rich domain | 0.1036 | Inherited |
| C1 set domains (antibody constant domain-like) | 0.1047 | Inherited |
| Sir2 family of transcriptional regulators | 0.1161 | Inherited |
| Leucine zipper domain | 0.1193 | Inherited |
| Interleukin 8-like chemokines | 0.1792 | Inherited |
| Hairy Orange domain | 0.2069 | Inherited |
| Protein kinases, catalytic subunit | 0.4619 | Inherited |
| Neurotransmitter-gated ion-channel transmembrane pore | 1 | Inherited |
| Nicotinic receptor ligand binding domain-like | 1 | Inherited |
LINKTO: Domain2BO Download and Domain2BO Algorithm
Jump to [ Top · Hierarchy ]
Supra-domain (Single)( show details)
Highlighted in gray are those with FDR>0.001
| Supra-domain (Single) |
FDR (all) |
Annotation (direct or inherited) |
| Nitric oxide (NO) synthase oxygenase domain | 0 | DIRECT |
| Serum albumin-like | 0 | DIRECT |
| Pectin lyase-like | 0 | DIRECT |
| Cu,Zn superoxide dismutase-like | 0 | DIRECT |
| Glutamine synthetase/guanido kinase | 0 | DIRECT |
| Bcl-2 inhibitors of programmed cell death | 0 | DIRECT |
| DNA repair protein MutS, domain III | 0 | DIRECT |
| FAD-linked oxidoreductase | 0 | DIRECT |
| HMA, heavy metal-associated domain | 0 | DIRECT |
| Thioesterase/thiol ester dehydrase-isomerase | 0 | DIRECT |
| RGC domain-like | 0 | DIRECT |
| Tryptophan synthase beta subunit-like PLP-dependent enzymes | 0 | DIRECT |
| ABC transporter transmembrane region | 0.00008 | DIRECT |
| 4-helical cytokines | 0.0001457 | DIRECT |
| Annexin | 0.0005407 | DIRECT |
| Thioredoxin-like | 0.0007151 | DIRECT |
| PGBD-like | 0.002232 | INHERITED FROM: Colorectal Neoplasms |
| EGF/Laminin | 0.002711 | INHERITED FROM: Stomach Ulcer || Protoporphyria, Erythropoietic |
| GST C-terminal domain-like | 0.003099 | INHERITED FROM: Non-alcoholic Fatty Liver Disease || Chemical and Drug Induced Liver Injury |
| Flavoproteins | 0.003236 | INHERITED FROM: Cholestasis || Bile Duct Diseases || Intestinal Diseases || Hepatic Insufficiency |
| Multidrug efflux transporter AcrB transmembrane domain | 0.003236 | INHERITED FROM: Digestive System Neoplasms || Gastrointestinal Stromal Tumors |
| FnI-like domain | 0.005551 | INHERITED FROM: Cholestasis |
| Integrin beta tail domain | 0.007582 | INHERITED FROM: Liver Cirrhosis || Liver Cirrhosis, Experimental |
| Notch domain | 0.01769 | INHERITED FROM: Pancreatic Diseases || Esophageal Neoplasms || Esophageal Diseases || Pancreatic Neoplasms |
| Thyroglobulin type-1 domain | 0.01772 | INHERITED FROM: Liver Cirrhosis || Liver Cirrhosis, Experimental |
| Growth factor receptor domain | 0.02063 | INHERITED FROM: Biliary Tract Neoplasms || Gallbladder Neoplasms |
| Metallothionein | 0.02599 | INHERITED FROM: Carcinoma, Hepatocellular |
| Nuclear receptor ligand-binding domain | 0.02813 | INHERITED FROM: Fatty Liver || Hepatomegaly |
| ALDH-like | 0.02943 | INHERITED FROM: Fatty Liver || Non-alcoholic Fatty Liver Disease |
| Riboflavin synthase domain-like | 0.03139 | INHERITED FROM: Intestinal Diseases || Hepatic Insufficiency |
| Ferredoxin reductase-like, C-terminal NADP-linked domain | 0.03139 | INHERITED FROM: Intestinal Diseases || Hepatic Insufficiency |
| MHC antigen-recognition domain | 0.05561 | INHERITED FROM: Hepatitis, Viral, Human || Hepatitis B, Chronic || Hepatitis |
| SMAD MH1 domain | 0.05699 | INHERITED FROM: Colonic Diseases || Rectal Diseases || Colorectal Neoplasms || Intestinal Neoplasms |
| A DNA-binding domain in eukaryotic transcription factors | 0.05715 | INHERITED FROM: Cholestasis, Intrahepatic || Cholestasis || Bile Duct Diseases || Biliary Tract Diseases |
| TNF-like | 0.07647 | INHERITED FROM: Liver Failure |
| Frizzled cysteine-rich domain | 0.08789 | INHERITED FROM: Colonic Diseases || Rectal Diseases || Colorectal Neoplasms |
| Leucine zipper domain | 0.0953 | INHERITED FROM: Cholestasis || Bile Duct Diseases |
| GroES-like | 0.09537 | INHERITED FROM: Non-alcoholic Fatty Liver Disease |
| Single hybrid motif | 0.1022 | INHERITED FROM: Chemical and Drug Induced Liver Injury |
| Class I glutamine amidotransferase-like | 0.106 | INHERITED FROM: Chemical and Drug Induced Liver Injury |
| Cytochrome b5-like heme/steroid binding domain | 0.1062 | INHERITED FROM: Chemical and Drug Induced Liver Injury |
| Glucocorticoid receptor-like (DNA-binding domain) | 0.1172 | INHERITED FROM: Fatty Liver || Hepatomegaly |
| RNI-like | 0.1448 | INHERITED FROM: Crohn Disease |
| Interleukin 8-like chemokines | 0.1448 | INHERITED FROM: Cholestasis || Bile Duct Diseases || Biliary Tract Diseases || Celiac Disease |
| Fibronectin type III | 0.1576 | INHERITED FROM: Hepatitis, Viral, Human |
| Ribosomal protein S5 domain 2-like | 0.1609 | INHERITED FROM: Colorectal Neoplasms, Hereditary Nonpolyposis |
| Orange domain-like | 0.1897 | INHERITED FROM: Pancreatic Diseases || Carcinoma, Pancreatic Ductal || Pancreatic Neoplasms |
| SMAD/FHA domain | 0.1987 | INHERITED FROM: Colonic Diseases |
| ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | 0.2281 | INHERITED FROM: Colorectal Neoplasms, Hereditary Nonpolyposis |
| Protein kinase-like (PK-like) | 0.3655 | INHERITED FROM: Biliary Tract Neoplasms |
| P-loop containing nucleoside triphosphate hydrolases | 0.3862 | INHERITED FROM: Intestinal Diseases |
| Lipase/lipooxygenase domain (PLAT/LH2 domain) | 0.4911 | INHERITED FROM: Colonic Neoplasms |
| L domain-like | 0.6591 | INHERITED FROM: Biliary Tract Neoplasms || Gallbladder Neoplasms || Gallbladder Diseases |
| C2 domain (Calcium/lipid-binding domain, CaLB) | 0.721 | INHERITED FROM: Non-alcoholic Fatty Liver Disease |
| p53-like transcription factors | 0.7514 | INHERITED FROM: Liver Cirrhosis, Biliary || Pancreatic Neoplasms |
| RING/U-box | 0.7706 | INHERITED FROM: Zellweger Syndrome |
| Nicotinic receptor ligand binding domain-like | 0.9978 | INHERITED FROM: Liver Failure || Hepatic Encephalopathy |
| Neurotransmitter-gated ion-channel transmembrane pore | 0.9978 | INHERITED FROM: Liver Failure || Hepatic Encephalopathy |
| ARM repeat | 1 | INHERITED FROM: Adenocarcinoma Of Esophagus |
LINKTO: Supra-domain2BO Download and Supra-domain2BO Algorithm
Jump to [ Top · Hierarchy ]
Supra-domain (Duplex) in N- to C-terminal order( show details)
Highlighted in gray are those with FDR>0.001
| Supra-domain (Duplex) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
90193,90193
90193 - Notch domain
90193 - Notch domain | 0 | DIRECT |
57440,57440
57440 - Kringle-like
57440 - Kringle-like | 0 | DIRECT |
53300,49265
53300 - vWA-like
49265 - Fibronectin type III | 0 | DIRECT |
57196,90193
57196 - EGF/Laminin
90193 - Notch domain | 0 | DIRECT |
57414,57440
57414 - Hairpin loop containing domain-like
57440 - Kringle-like | 0 | DIRECT |
48552,48552
48552 - Serum albumin-like
48552 - Serum albumin-like | 0 | DIRECT |
55394,55394
55394 - Bactericidal permeability-increasing protein, BPI
55394 - Bactericidal permeability-increasing protein, BPI | 0 | DIRECT |
52058,52047
52058 - L domain-like
52047 - RNI-like | 0 | DIRECT |
57924,57924
57924 - Inhibitor of apoptosis (IAP) repeat
57924 - Inhibitor of apoptosis (IAP) repeat | 0 | DIRECT |
48350,55961
48350 - GTPase activation domain, GAP
55961 - Bet v1-like | 0 | DIRECT |
49265,53300
49265 - Fibronectin type III
53300 - vWA-like | 0 | DIRECT |
48334,52540
48334 - DNA repair protein MutS, domain III
52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | DIRECT |
54826,51604
54826 - Enolase N-terminal domain-like
51604 - Enolase C-terminal domain-like | 0 | DIRECT |
90123,52540
90123 - ABC transporter transmembrane region
52540 - P-loop containing nucleoside triphosphate hydrolases | 0.00008 | DIRECT |
57440,50494
57440 - Kringle-like
50494 - Trypsin-like serine proteases | 0.0005407 | DIRECT |
52833,47616
52833 - Thioredoxin-like
47616 - GST C-terminal domain-like | 0.00159 | INHERITED FROM: Non-alcoholic Fatty Liver Disease || Chemical and Drug Induced Liver Injury |
47090,55486
47090 - PGBD-like
55486 - Metalloproteases ("zincins"), catalytic domain | 0.002232 | INHERITED FROM: Colorectal Neoplasms |
55874,54211
55874 - ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
54211 - Ribosomal protein S5 domain 2-like | 0.003236 | INHERITED FROM: Colonic Diseases || Colorectal Neoplasms, Hereditary Nonpolyposis || Digestive System Neoplasms || Rectal Diseases || Colorectal Neoplasms |
52540,90123
52540 - P-loop containing nucleoside triphosphate hydrolases
90123 - ABC transporter transmembrane region | 0.00581 | INHERITED FROM: Colonic Diseases || Rectal Diseases || Colorectal Neoplasms || Intestinal Neoplasms || Gastrointestinal Diseases || Gastrointestinal Neoplasms || Intestinal Diseases |
57196,69687
57196 - EGF/Laminin
69687 - Integrin beta tail domain | 0.007582 | INHERITED FROM: Liver Cirrhosis || Liver Cirrhosis, Experimental |
53300,69179
53300 - vWA-like
69179 - Integrin domains | 0.007582 | INHERITED FROM: Liver Cirrhosis || Liver Cirrhosis, Experimental |
57196,57196
57196 - EGF/Laminin
57196 - EGF/Laminin | 0.01074 | INHERITED FROM: Carcinoma, Pancreatic Ductal |
57196,57184
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0.01684 | INHERITED FROM: Pancreatic Diseases || Carcinoma, Pancreatic Ductal || Pancreatic Neoplasms |
63501,50242
63501 - Frizzled cysteine-rich domain
50242 - TIMP-like | 0.01769 | INHERITED FROM: Colonic Diseases || Rectal Diseases || Colorectal Neoplasms || Intestinal Neoplasms || Gastrointestinal Diseases || Gastrointestinal Neoplasms || Intestinal Diseases |
51735,50129
51735 - NAD(P)-binding Rossmann-fold domains
50129 - GroES-like | 0.01769 | INHERITED FROM: Fatty Liver || Non-alcoholic Fatty Liver Disease |
57716,48508
57716 - Glucocorticoid receptor-like (DNA-binding domain)
48508 - Nuclear receptor ligand-binding domain | 0.02121 | INHERITED FROM: Hepatomegaly |
52058,57184
52058 - L domain-like
57184 - Growth factor receptor domain | 0.02599 | INHERITED FROM: Biliary Tract Neoplasms || Gallbladder Neoplasms || Gallbladder Diseases || Biliary Tract Diseases |
57184,52058
57184 - Growth factor receptor domain
52058 - L domain-like | 0.02599 | INHERITED FROM: Biliary Tract Neoplasms || Gallbladder Neoplasms || Gallbladder Diseases || Biliary Tract Diseases |
47986,47986
47986 - DEATH domain
47986 - DEATH domain | 0.02599 | INHERITED FROM: Stomach Neoplasms |
57184,57196
57184 - Growth factor receptor domain
57196 - EGF/Laminin | 0.0279 | INHERITED FROM: Carcinoma, Pancreatic Ductal |
47986,52540
47986 - DEATH domain
52540 - P-loop containing nucleoside triphosphate hydrolases | 0.05298 | INHERITED FROM: Gastroenteritis |
50129,51735
50129 - GroES-like
51735 - NAD(P)-binding Rossmann-fold domains | 0.05715 | INHERITED FROM: Non-alcoholic Fatty Liver Disease |
47454,57959
47454 - A DNA-binding domain in eukaryotic transcription factors
57959 - Leucine zipper domain | 0.05715 | INHERITED FROM: Cholestasis, Intrahepatic || Cholestasis || Bile Duct Diseases || Biliary Tract Diseases |
49265,49265
49265 - Fibronectin type III
49265 - Fibronectin type III | 0.06478 | INHERITED FROM: Hepatitis B |
54452,48726
54452 - MHC antigen-recognition domain
48726 - Immunoglobulin | 0.06728 | INHERITED FROM: Hepatitis, Viral, Human || Hepatitis B, Chronic || Hepatitis |
49899,57196
49899 - Concanavalin A-like lectins/glucanases
57196 - EGF/Laminin | 0.1276 | INHERITED FROM: Esophageal Squamous Cell Carcinoma || Esophageal Neoplasms || Esophageal Diseases |
47459,158457
47459 - HLH, helix-loop-helix DNA-binding domain
158457 - Orange domain-like | 0.1897 | INHERITED FROM: Pancreatic Diseases || Carcinoma, Pancreatic Ductal || Pancreatic Neoplasms |
57889,57889
57889 - Cysteine-rich domain
57889 - Cysteine-rich domain | 0.5639 | INHERITED FROM: Fatty Liver || Non-alcoholic Fatty Liver Disease |
63712,90112
63712 - Nicotinic receptor ligand binding domain-like
90112 - Neurotransmitter-gated ion-channel transmembrane pore | 0.9978 | INHERITED FROM: Liver Failure || Hepatic Encephalopathy |
| Supra-domain (Duplex) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
90193,90193
90193 - Notch domain
90193 - Notch domain | 0 | Direct |
57440,57440
57440 - Kringle-like
57440 - Kringle-like | 0 | Direct |
53300,49265
53300 - vWA-like
49265 - Fibronectin type III | 0 | Direct |
57196,90193
57196 - EGF/Laminin
90193 - Notch domain | 0 | Direct |
57414,57440
57414 - Hairpin loop containing domain-like
57440 - Kringle-like | 0 | Direct |
48552,48552
48552 - Serum albumin-like
48552 - Serum albumin-like | 0 | Direct |
55394,55394
55394 - Bactericidal permeability-increasing protein, BPI
55394 - Bactericidal permeability-increasing protein, BPI | 0 | Direct |
52058,52047
52058 - L domain-like
52047 - RNI-like | 0 | Direct |
57924,57924
57924 - Inhibitor of apoptosis (IAP) repeat
57924 - Inhibitor of apoptosis (IAP) repeat | 0 | Direct |
48350,55961
48350 - GTPase activation domain, GAP
55961 - Bet v1-like | 0 | Direct |
49265,53300
49265 - Fibronectin type III
53300 - vWA-like | 0 | Direct |
48334,52540
48334 - DNA repair protein MutS, domain III
52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | Direct |
54826,51604
54826 - Enolase N-terminal domain-like
51604 - Enolase C-terminal domain-like | 0 | Direct |
90123,52540
90123 - ABC transporter transmembrane region
52540 - P-loop containing nucleoside triphosphate hydrolases | 0.00008 | Direct |
57440,50494
57440 - Kringle-like
50494 - Trypsin-like serine proteases | 0.0005407 | Direct |
52833,47616
52833 - Thioredoxin-like
47616 - GST C-terminal domain-like | 0.00159 | Inherited |
47090,55486
47090 - PGBD-like
55486 - Metalloproteases ("zincins"), catalytic domain | 0.002232 | Inherited |
55874,54211
55874 - ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
54211 - Ribosomal protein S5 domain 2-like | 0.003236 | Inherited |
52540,90123
52540 - P-loop containing nucleoside triphosphate hydrolases
90123 - ABC transporter transmembrane region | 0.00581 | Inherited |
57196,69687
57196 - EGF/Laminin
69687 - Integrin beta tail domain | 0.007582 | Inherited |
53300,69179
53300 - vWA-like
69179 - Integrin domains | 0.007582 | Inherited |
57196,57196
57196 - EGF/Laminin
57196 - EGF/Laminin | 0.01074 | Inherited |
57196,57184
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0.01684 | Inherited |
63501,50242
63501 - Frizzled cysteine-rich domain
50242 - TIMP-like | 0.01769 | Inherited |
51735,50129
51735 - NAD(P)-binding Rossmann-fold domains
50129 - GroES-like | 0.01769 | Inherited |
57716,48508
57716 - Glucocorticoid receptor-like (DNA-binding domain)
48508 - Nuclear receptor ligand-binding domain | 0.02121 | Inherited |
52058,57184
52058 - L domain-like
57184 - Growth factor receptor domain | 0.02599 | Inherited |
57184,52058
57184 - Growth factor receptor domain
52058 - L domain-like | 0.02599 | Inherited |
47986,47986
47986 - DEATH domain
47986 - DEATH domain | 0.02599 | Inherited |
57184,57196
57184 - Growth factor receptor domain
57196 - EGF/Laminin | 0.0279 | Inherited |
47986,52540
47986 - DEATH domain
52540 - P-loop containing nucleoside triphosphate hydrolases | 0.05298 | Inherited |
50129,51735
50129 - GroES-like
51735 - NAD(P)-binding Rossmann-fold domains | 0.05715 | Inherited |
47454,57959
47454 - A DNA-binding domain in eukaryotic transcription factors
57959 - Leucine zipper domain | 0.05715 | Inherited |
49265,49265
49265 - Fibronectin type III
49265 - Fibronectin type III | 0.06478 | Inherited |
54452,48726
54452 - MHC antigen-recognition domain
48726 - Immunoglobulin | 0.06728 | Inherited |
49899,57196
49899 - Concanavalin A-like lectins/glucanases
57196 - EGF/Laminin | 0.1276 | Inherited |
47459,158457
47459 - HLH, helix-loop-helix DNA-binding domain
158457 - Orange domain-like | 0.1897 | Inherited |
57889,57889
57889 - Cysteine-rich domain
57889 - Cysteine-rich domain | 0.5639 | Inherited |
63712,90112
63712 - Nicotinic receptor ligand binding domain-like
90112 - Neurotransmitter-gated ion-channel transmembrane pore | 0.9978 | Inherited |
LINKTO: Supra-domain2BO Download and Supra-domain2BO Algorithm
Jump to [ Top · Hierarchy ]
Supra-domain (Triple) in N- to C-terminal order( show details)
Highlighted in gray are those with FDR>0.001
| Supra-domain (Triple) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
57924,57924,57924
57924 - Inhibitor of apoptosis (IAP) repeat
57924 - Inhibitor of apoptosis (IAP) repeat
57924 - Inhibitor of apoptosis (IAP) repeat | 0 | DIRECT |
57184,52058,57184
57184 - Growth factor receptor domain
52058 - L domain-like
57184 - Growth factor receptor domain | 0 | DIRECT |
48552,48552,48552
48552 - Serum albumin-like
48552 - Serum albumin-like
48552 - Serum albumin-like | 0 | DIRECT |
49265,49265,53300
49265 - Fibronectin type III
49265 - Fibronectin type III
53300 - vWA-like | 0 | DIRECT |
47986,47986,52129
47986 - DEATH domain
47986 - DEATH domain
52129 - Caspase-like | 0 | DIRECT |
57440,57440,50494
57440 - Kringle-like
57440 - Kringle-like
50494 - Trypsin-like serine proteases | 0 | DIRECT |
57440,57440,57440
57440 - Kringle-like
57440 - Kringle-like
57440 - Kringle-like | 0 | DIRECT |
57196,57196,90193
57196 - EGF/Laminin
57196 - EGF/Laminin
90193 - Notch domain | 0 | DIRECT |
57414,57440,57440
57414 - Hairpin loop containing domain-like
57440 - Kringle-like
57440 - Kringle-like | 0 | DIRECT |
57184,57196,57184
57184 - Growth factor receptor domain
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0 | DIRECT |
57196,57184,57196
57196 - EGF/Laminin
57184 - Growth factor receptor domain
57196 - EGF/Laminin | 0.002653 | INHERITED FROM: Carcinoma, Pancreatic Ductal |
90123,52540,90123
90123 - ABC transporter transmembrane region
52540 - P-loop containing nucleoside triphosphate hydrolases
90123 - ABC transporter transmembrane region | 0.00581 | INHERITED FROM: Colonic Diseases || Rectal Diseases || Colorectal Neoplasms || Intestinal Neoplasms || Gastrointestinal Diseases || Gastrointestinal Neoplasms || Intestinal Diseases |
57196,57184,57184
57196 - EGF/Laminin
57184 - Growth factor receptor domain
57184 - Growth factor receptor domain | 0.00581 | INHERITED FROM: Pancreatic Diseases || Intestinal Neoplasms || Pancreatic Neoplasms |
52540,90123,52540
52540 - P-loop containing nucleoside triphosphate hydrolases
90123 - ABC transporter transmembrane region
52540 - P-loop containing nucleoside triphosphate hydrolases | 0.00581 | INHERITED FROM: Colonic Diseases || Rectal Diseases || Colorectal Neoplasms || Intestinal Neoplasms || Gastrointestinal Diseases || Gastrointestinal Neoplasms || Intestinal Diseases |
57196,57196,69687
57196 - EGF/Laminin
57196 - EGF/Laminin
69687 - Integrin beta tail domain | 0.007582 | INHERITED FROM: Liver Cirrhosis || Liver Cirrhosis, Experimental |
50129,51735,50129
50129 - GroES-like
51735 - NAD(P)-binding Rossmann-fold domains
50129 - GroES-like | 0.01769 | INHERITED FROM: Fatty Liver || Non-alcoholic Fatty Liver Disease |
52058,57184,52058
52058 - L domain-like
57184 - Growth factor receptor domain
52058 - L domain-like | 0.02599 | INHERITED FROM: Biliary Tract Neoplasms || Gallbladder Neoplasms || Gallbladder Diseases || Biliary Tract Diseases |
57196,57196,57196
57196 - EGF/Laminin
57196 - EGF/Laminin
57196 - EGF/Laminin | 0.07382 | INHERITED FROM: Pancreatic Diseases || Carcinoma, Pancreatic Ductal || Pancreatic Neoplasms |
57196,57196,57184
57196 - EGF/Laminin
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0.1276 | INHERITED FROM: Pancreatic Diseases || Esophageal Squamous Cell Carcinoma || Carcinoma, Pancreatic Ductal || Pancreatic Neoplasms |
49899,57196,57196
49899 - Concanavalin A-like lectins/glucanases
57196 - EGF/Laminin
57196 - EGF/Laminin | 0.1727 | INHERITED FROM: Esophageal Squamous Cell Carcinoma || Esophageal Neoplasms || Esophageal Diseases |
57667,57667,57667
57667 - beta-beta-alpha zinc fingers
57667 - beta-beta-alpha zinc fingers
57667 - beta-beta-alpha zinc fingers | 0.7739 | INHERITED FROM: Gastrointestinal Stromal Tumors |
| Supra-domain (Triple) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
57924,57924,57924
57924 - Inhibitor of apoptosis (IAP) repeat
57924 - Inhibitor of apoptosis (IAP) repeat
57924 - Inhibitor of apoptosis (IAP) repeat | 0 | Direct |
57184,52058,57184
57184 - Growth factor receptor domain
52058 - L domain-like
57184 - Growth factor receptor domain | 0 | Direct |
48552,48552,48552
48552 - Serum albumin-like
48552 - Serum albumin-like
48552 - Serum albumin-like | 0 | Direct |
49265,49265,53300
49265 - Fibronectin type III
49265 - Fibronectin type III
53300 - vWA-like | 0 | Direct |
47986,47986,52129
47986 - DEATH domain
47986 - DEATH domain
52129 - Caspase-like | 0 | Direct |
57440,57440,50494
57440 - Kringle-like
57440 - Kringle-like
50494 - Trypsin-like serine proteases | 0 | Direct |
57440,57440,57440
57440 - Kringle-like
57440 - Kringle-like
57440 - Kringle-like | 0 | Direct |
57196,57196,90193
57196 - EGF/Laminin
57196 - EGF/Laminin
90193 - Notch domain | 0 | Direct |
57414,57440,57440
57414 - Hairpin loop containing domain-like
57440 - Kringle-like
57440 - Kringle-like | 0 | Direct |
57184,57196,57184
57184 - Growth factor receptor domain
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0 | Direct |
57196,57184,57196
57196 - EGF/Laminin
57184 - Growth factor receptor domain
57196 - EGF/Laminin | 0.002653 | Inherited |
90123,52540,90123
90123 - ABC transporter transmembrane region
52540 - P-loop containing nucleoside triphosphate hydrolases
90123 - ABC transporter transmembrane region | 0.00581 | Inherited |
57196,57184,57184
57196 - EGF/Laminin
57184 - Growth factor receptor domain
57184 - Growth factor receptor domain | 0.00581 | Inherited |
52540,90123,52540
52540 - P-loop containing nucleoside triphosphate hydrolases
90123 - ABC transporter transmembrane region
52540 - P-loop containing nucleoside triphosphate hydrolases | 0.00581 | Inherited |
57196,57196,69687
57196 - EGF/Laminin
57196 - EGF/Laminin
69687 - Integrin beta tail domain | 0.007582 | Inherited |
50129,51735,50129
50129 - GroES-like
51735 - NAD(P)-binding Rossmann-fold domains
50129 - GroES-like | 0.01769 | Inherited |
52058,57184,52058
52058 - L domain-like
57184 - Growth factor receptor domain
52058 - L domain-like | 0.02599 | Inherited |
57196,57196,57196
57196 - EGF/Laminin
57196 - EGF/Laminin
57196 - EGF/Laminin | 0.07382 | Inherited |
57196,57196,57184
57196 - EGF/Laminin
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0.1276 | Inherited |
49899,57196,57196
49899 - Concanavalin A-like lectins/glucanases
57196 - EGF/Laminin
57196 - EGF/Laminin | 0.1727 | Inherited |
57667,57667,57667
57667 - beta-beta-alpha zinc fingers
57667 - beta-beta-alpha zinc fingers
57667 - beta-beta-alpha zinc fingers | 0.7739 | Inherited |
LINKTO: Supra-domain2BO Download and Supra-domain2BO Algorithm
Plot distribution on species Tree Of Life (sTOL) for Superfamily and/or Family domains annotated by this CD term
 |
Plot tree as:
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Download Newick format tree:
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( show help)
Trees by TreeVector
A presence/absence matrix is generated using protein domain
architecture data for all genomes in SUPERFAMILY. The PAUP
software is used to produce a single, large tree topology using
heuristic parsimony methods. Genome combinations, or specific clades, can be displayed as
if individual trees had been produced. However, this data is extracted from the single
large tree. This produces a higher quality topology than if the trees had been produced
on their own, and allows the trees to be displayed instantly.
Plot distribution on species Tree Of Life (sTOL) for single supra-domains annotated by this CD term
|
Plot tree as:
| |
Download Newick format tree:
| |
Browsing in TREE OF LIFE:
|
( show help)
Trees by TreeVector
A presence/absence matrix is generated using protein domains and supradomains
for all genomes in SUPERFAMILY. The RAxML
software is used to produce a single, large tree topology using
heuristic parsimony methods. Genome combinations, or specific clades, can be displayed as
if individual trees had been produced. However, this data is extracted from the single
large tree. This produces a higher quality topology than if the trees had been produced
on their own, and allows the trees to be displayed instantly.
|
|
> BO Hierarchy > Digestive System Diseases
