Submit Data |  Help |  Video Tutorials |  News |  Publications |  FTP Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References FTP Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) RatMine GViewer (Genome Viewer) Overgo Probe Designer ACP Haplotyper Genome Scanner
Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources

CHEBI ONTOLOGY - ANNOTATIONS

The Chemical Entities of Biological Interest (ChEBI) ontology is downloaded weekly from EMBL-EBI at http://www.ebi.ac.uk/chebi/. The data is made available under the Creative Commons License (CC BY 3.0, http://creativecommons.org/licenses/by/3.0/). For more information see: Degtyarenko et al. (2008) ChEBI: a database and ontology for chemical entities of biological interest. Nucleic Acids Res. 36, D344–D350.
Term:Bergenin
go back to main search page
Accession:CHEBI:69499 term browser browse the term
Definition:A trihydroxybenzoic acid that has formula C14H16O9.
Synonyms:related_synonym: (2R,3S,4S,4aR,10bS)-3,4,8,10-Tetrahydroxy-2-(hydroxymethyl)-9-methoxy-3,4,4a,10b-tetrahydropyrano[3,2-c]isochromen-6(2H)-one;   Cuscutin;   Formula=C14H16O9;   InChI=1S/C14H16O9/c1-21-11-5(16)2-4-7(9(11)18)12-13(23-14(4)20)10(19)8(17)6(3-15)22-12/h2,6,8,10,12-13,15-19H,3H2,1H3/t6-,8-,10+,12+,13-/m1/s1;   InChIKey=YWJXCIXBAKGUKZ-HJJNZUOJSA-N;   SMILES=[H][C@]12OC(=O)c3cc(O)c(OC)c(O)c3[C@]1([H])O[C@H](CO)[C@@H](O)[C@@H]2O
 alt_id: CHEBI:3069
 xref: CAS:477-90-7;   KEGG:C09919;   KEGG:D01040;   KNApSAcK:C00002981
 xref_mesh: MESH:C006741
 xref: PMID:21939182

show annotations for term's descendants           Sort by:
 
Bergenin term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Acp5 acid phosphatase 5, tartrate resistant multiple interactions ISO bergenin inhibits the reaction [[TNFSF11 protein co-treated with Pyruvaldehyde] results in decreased activity of ACP5 protein] CTD PMID:31369791 NCBI chr 8:23,142,733...23,149,067
Ensembl chr 8:23,142,734...23,148,396 		JBrowse link
G Ager advanced glycosylation end product-specific receptor multiple interactions ISO bergenin inhibits the reaction [Pyruvaldehyde results in increased cleavage of AGER protein] CTD PMID:29148590 NCBI chr20:4,363,152...4,366,079
Ensembl chr20:4,363,152...4,366,079 		JBrowse link
G Akt2 AKT serine/threonine kinase 2 multiple interactions ISO bergenin inhibits the reaction [[TNFSF11 protein co-treated with Pyruvaldehyde] results in increased expression of AKT2 mRNA] CTD PMID:31369791 NCBI chr 1:84,400,939...84,451,223
Ensembl chr 1:84,411,726...84,450,162 		JBrowse link
G Casp1 caspase 1 multiple interactions EXP bergenin inhibits the reaction [Trinitrobenzenesulfonic Acid results in increased expression of and results in increased cleavage of CASP1 protein] CTD PMID:30365937 NCBI chr 8:2,605,743...2,614,637
Ensembl chr 8:2,604,962...2,614,631 		JBrowse link
G Casp4 caspase 4 multiple interactions EXP bergenin inhibits the reaction [Trinitrobenzenesulfonic Acid results in increased expression of and results in increased cleavage of CASP4 protein] CTD PMID:30365937 NCBI chr 8:2,616,391...2,651,682
Ensembl chr 8:2,635,851...2,651,652 		JBrowse link
G Glo1 glyoxalase 1 multiple interactions ISO bergenin inhibits the reaction [[TNFSF11 protein co-treated with Pyruvaldehyde] results in decreased expression of GLO1 protein]; bergenin inhibits the reaction [Pyruvaldehyde results in decreased activity of GLO1 protein] CTD PMID:29148590, PMID:31369791 NCBI chr20:9,273,589...9,291,608
Ensembl chr20:9,273,594...9,291,610 		JBrowse link
G Hmox1 heme oxygenase 1 multiple interactions ISO bergenin inhibits the reaction [Pyruvaldehyde results in decreased expression of HMOX1 protein] CTD PMID:29148590 NCBI chr19:14,508,634...14,515,455
Ensembl chr19:14,508,616...14,515,456 		JBrowse link
G Ifng interferon gamma multiple interactions EXP bergenin inhibits the reaction [Trinitrobenzenesulfonic Acid results in increased expression of IFNG protein] CTD PMID:30365937 NCBI chr 7:61,337,383...61,341,419
Ensembl chr 7:61,337,381...61,341,419 		JBrowse link
G Il10 interleukin 10 multiple interactions EXP bergenin inhibits the reaction [Trinitrobenzenesulfonic Acid results in increased expression of IL10 protein] CTD PMID:30365937 NCBI chr13:47,738,933...47,743,392
Ensembl chr13:47,739,526...47,743,392 		JBrowse link
G Il18 interleukin 18 multiple interactions EXP bergenin inhibits the reaction [Trinitrobenzenesulfonic Acid results in increased expression of IL18 protein] CTD PMID:30365937 NCBI chr 8:55,009,666...55,016,286
Ensembl chr 8:54,993,859...55,016,299 		JBrowse link
G Il1b interleukin 1 beta multiple interactions EXP bergenin inhibits the reaction [Trinitrobenzenesulfonic Acid results in increased expression of IL1B protein] CTD PMID:30365937 NCBI chr 3:121,876,256...121,882,637
Ensembl chr 3:121,876,263...121,882,726 		JBrowse link
G Il6 interleukin 6 multiple interactions ISO bergenin inhibits the reaction [Pyruvaldehyde results in increased expression of IL6 protein] CTD PMID:29148590 NCBI chr 4:3,043,231...3,047,807
Ensembl chr 4:3,043,231...3,047,807 		JBrowse link
G Mapk3 mitogen activated protein kinase 3 multiple interactions ISO bergenin inhibits the reaction [[TNFSF11 protein co-treated with Pyruvaldehyde] results in increased expression of MAPK3 mRNA] CTD PMID:31369791 NCBI chr 1:198,192,773...198,198,975
Ensembl chr 1:198,192,773...198,198,975 		JBrowse link
G Mmp9 matrix metallopeptidase 9 multiple interactions ISO [TNFSF11 protein co-treated with Pyruvaldehyde co-treated with bergenin] results in decreased expression of MMP9 mRNA CTD PMID:31369791 NCBI chr 3:161,413,410...161,421,473
Ensembl chr 3:161,413,298...161,421,520 		JBrowse link
G Mpo myeloperoxidase multiple interactions EXP bergenin inhibits the reaction [Trinitrobenzenesulfonic Acid results in increased activity of MPO protein] CTD PMID:30365937 NCBI chr10:75,087,892...75,098,260
Ensembl chr10:75,087,892...75,098,260 		JBrowse link
G Nfe2l2 nuclear factor, erythroid 2-like 2 multiple interactions ISO bergenin affects the reaction [Pyruvaldehyde affects the expression of NFE2L2 protein] CTD PMID:29148590 NCBI chr 3:62,497,568...62,525,146
Ensembl chr 3:62,497,571...62,524,996 		JBrowse link
G Nfkbia NFKB inhibitor alpha multiple interactions EXP bergenin inhibits the reaction [Trinitrobenzenesulfonic Acid results in decreased expression of NFKBIA protein] CTD PMID:30365937 NCBI chr 6:76,267,227...76,270,457
Ensembl chr 6:76,267,228...76,270,457 		JBrowse link
G Nlrp3 NLR family, pyrin domain containing 3 multiple interactions EXP bergenin inhibits the reaction [Trinitrobenzenesulfonic Acid results in increased expression of NLRP3 protein] CTD PMID:30365937 NCBI chr10:45,884,324...45,918,290
Ensembl chr10:45,893,018...45,918,254 		JBrowse link
G Nos2 nitric oxide synthase 2 multiple interactions EXP bergenin inhibits the reaction [Trinitrobenzenesulfonic Acid results in increased expression of NOS2 protein] CTD PMID:30365937 NCBI chr10:66,188,290...66,221,621
Ensembl chr10:66,189,786...66,313,190 		JBrowse link
G Ostm1 osteoclastogenesis associated transmembrane protein 1 multiple interactions ISO bergenin inhibits the reaction [[TNFSF11 protein co-treated with Pyruvaldehyde] results in increased expression of OSTM1 mRNA] CTD PMID:31369791 NCBI chr20:47,394,979...47,430,304
Ensembl chr20:47,395,014...47,430,284 		JBrowse link
G Ptgs2 prostaglandin-endoperoxide synthase 2 multiple interactions EXP bergenin inhibits the reaction [Trinitrobenzenesulfonic Acid results in increased expression of PTGS2 protein] CTD PMID:30365937 NCBI chr13:67,351,230...67,356,920
Ensembl chr13:67,351,087...67,359,335 		JBrowse link
G Stat3 signal transducer and activator of transcription 3 multiple interactions EXP bergenin inhibits the reaction [Trinitrobenzenesulfonic Acid results in increased phosphorylation of STAT3 protein] CTD PMID:30365937 NCBI chr10:88,790,401...88,842,263
Ensembl chr10:88,790,408...88,842,233 		JBrowse link
G Tnfsf11 TNF superfamily member 11 multiple interactions ISO [TNFSF11 protein co-treated with Pyruvaldehyde co-treated with bergenin] results in decreased expression of MMP9 mRNA; bergenin inhibits the reaction [[TNFSF11 protein co-treated with Pyruvaldehyde] results in decreased activity of ACP5 protein]; bergenin inhibits the reaction [[TNFSF11 protein co-treated with Pyruvaldehyde] results in decreased expression of GLO1 protein]; bergenin inhibits the reaction [[TNFSF11 protein co-treated with Pyruvaldehyde] results in increased expression of AKT2 mRNA]; bergenin inhibits the reaction [[TNFSF11 protein co-treated with Pyruvaldehyde] results in increased expression of MAPK3 mRNA]; bergenin inhibits the reaction [[TNFSF11 protein co-treated with Pyruvaldehyde] results in increased expression of OSTM1 mRNA] CTD PMID:31369791 NCBI chr15:60,482,527...60,512,704
Ensembl chr15:60,482,527...60,512,704 		JBrowse link
G Trip4 thyroid hormone receptor interactor 4 multiple interactions EXP bergenin inhibits the reaction [Trinitrobenzenesulfonic Acid results in increased expression of TRIP4 protein] CTD PMID:30365937 NCBI chr 8:71,369,121...71,533,281
Ensembl chr 8:71,371,370...71,533,459 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  CHEBI ontology 19810
    role 19758
      biological role 19758
        biochemical role 19304
          metabolite 19285
            Bergenin 24
Path 2
Term Annotations click to browse term
  CHEBI ontology 19810
    subatomic particle 19808
      composite particle 19808
        hadron 19808
          baryon 19808
            nucleon 19808
              atomic nucleus 19808
                atom 19808
                  main group element atom 19696
                    p-block element atom 19696
                      carbon group element atom 19599
                        carbon atom 19588
                          organic molecular entity 19588
                            organic group 18527
                              organic divalent group 18520
                                organodiyl group 18520
                                  carbonyl group 18427
                                    carbonyl compound 18427
                                      carboxylic acid 18108
                                        aromatic carboxylic acid 10901
                                          benzoic acids 10870
                                            benzoic acid 3841
                                              hydroxybenzoic acid 3231
                                                trihydroxybenzoic acid 2307
                                                  Bergenin 24
paths to the root

Contact Us |  About Us |  License CC BY 4.0 |  Legal Disclaimer |  © Medical College of Wisconsin
NHLBI Logo

RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.