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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:berberine
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Accession:CHEBI:16118 term browser browse the term
Definition:A botanical anti-fungal agent that has formula C20H18NO4.
Synonyms:exact_synonym: 9,10-dimethoxy-5,6-dihydro[1,3]dioxolo[4,5-g]isoquino[3,2-a]isoquinolin-7-ium
 related_synonym: 5,6-dihydro-9,10-dimethoxy-1,3-benzodioxolo[5,6-a]benzo[g]quinolizinium;   7,8,13,13a-tetradehydro-9,10-dimethoxy-2,3-[methylenebis(oxy)]berbinium;   9,10-dimethoxy-2,3-(methylenedioxy)-7,8,13,13a-tetradehydroberbinium;   Berberin;   Formula=C20H18NO4;   InChI=1S/C20H18NO4/c1-22-17-4-3-12-7-16-14-9-19-18(24-11-25-19)8-13(14)5-6-21(16)10-15(12)20(17)23-2/h3-4,7-10H,5-6,11H2,1-2H3/q+1;   InChIKey=YBHILYKTIRIUTE-UHFFFAOYSA-N;   SMILES=COc1ccc2cc3-c4cc5OCOc5cc4CC[n+]3cc2c1OC;   Umbellatine
 alt_id: CHEBI:13893;   CHEBI:22753;   CHEBI:3066;   CHEBI:41098
 xref: Beilstein:3570374;   CAS:2086-83-1;   Chemspider:2263;   DrugBank:DB04115;   FooDB:FDB023165;   HMDB:HMDB0003409;   KEGG:C00757;   KNApSAcK:C00001819;   LINCS:LSM-6553
 xref_mesh: MESH:D001599
 xref: MetaCyc:BERBERINE;   PDBeChem:BER;   PMID:11860742;   PMID:12232209;   PMID:12428952;   PMID:12433089;   PMID:12468268;   PMID:15040083;   PMID:15531889;   PMID:15739507;   PMID:15768991;   PMID:16379555;   PMID:16448624;   PMID:16505103;   PMID:17089049;   PMID:17295371;   PMID:17531424;   PMID:18537696;   PMID:19014947;   PMID:19336898;   PMID:19640223;   PMID:19652370;   PMID:19704371;   PMID:20471843;   PMID:20847417;   PMID:21401114;   PMID:21420512;   PMID:21500372;   PMID:21661731;   PMID:23231038;   PMID:26167392;   PMID:8730735;   Pesticides:berberine;   Wikipedia:Berberine


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berberine term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Abca1 ATP binding cassette subfamily A member 1 increases expression ISO berberine increases expression of abca1 protein in mouse liver and human hepatocytes RGD PMID:29505790 RGD:19165131 NCBI chr 5:67,678,267...67,801,162
Ensembl chr 5:67,681,297...67,801,170 		JBrowse link
G Abcb1a ATP binding cassette subfamily B member 1A increases expression EXP Berberine results in increased expression of ABCB1A mRNA CTD PMID:20410605 NCBI chr 4:25,357,467...25,529,941
Ensembl chr 4:25,158,362...25,442,709 		JBrowse link
G Abcb1b ATP-binding cassette, sub-family B member 1B increases expression EXP Berberine results in increased expression of ABCB1B mRNA CTD PMID:20410605 NCBI chr 4:25,242,761...25,325,194
Ensembl chr 4:25,242,798...25,325,199 		JBrowse link
G Acadm acyl-CoA dehydrogenase medium chain multiple interactions ISO Berberine inhibits the reaction [Ethanol results in decreased expression of ACADM mRNA] CTD PMID:25455889 NCBI chr 2:242,858,865...242,883,036
Ensembl chr 2:242,858,865...242,883,147 		JBrowse link
G Acan aggrecan decreases expression ISO Berberine results in decreased expression of ACAN mRNA CTD PMID:26478571 NCBI chr 1:132,981,582...133,044,416
Ensembl chr 1:132,981,582...133,043,627 		JBrowse link
G Ache acetylcholinesterase multiple interactions
decreases activity		 EXP
ISO		 Berberine inhibits the reaction [[Cadmium co-treated with Aluminum co-treated with Fluorides] results in increased activity of ACHE protein]; Berberine inhibits the reaction [[Cadmium co-treated with Aluminum co-treated with Fluorides] results in increased expression of ACHE mRNA]; Berberine inhibits the reaction [acetamiprid results in increased activity of ACHE protein]
Berberine results in decreased activity of ACHE protein		 CTD PMID:29170048 PMID:33844597 PMID:37350525 NCBI chr12:19,406,133...19,413,713
Ensembl chr12:19,407,360...19,413,651 		JBrowse link
G Acox1 acyl-CoA oxidase 1 multiple interactions ISO Berberine inhibits the reaction [Ethanol results in decreased expression of ACOX1 mRNA] CTD PMID:25455889 NCBI chr10:101,406,197...101,431,252
Ensembl chr10:101,406,197...101,431,232 		JBrowse link
G Acta2 actin alpha 2, smooth muscle decreases expression
multiple interactions		 EXP
ISO		 Berberine results in decreased expression of ACTA2 protein
Berberine inhibits the reaction [Particulate Matter results in increased expression of ACTA2 mRNA]		 CTD PMID:17973934 PMID:37839514 NCBI chr 1:231,746,527...231,759,307
Ensembl chr 1:231,746,548...231,759,554 		JBrowse link
G Adipoq adiponectin, C1Q and collagen domain containing multiple interactions ISO Berberine inhibits the reaction [Clozapine results in increased expression of ADIPOQ mRNA]; Berberine inhibits the reaction [Risperidone results in increased expression of ADIPOQ mRNA] CTD PMID:20564506 NCBI chr11:77,721,912...77,735,644
Ensembl chr11:77,721,912...77,735,564 		JBrowse link
G Ager advanced glycosylation end product-specific receptor multiple interactions EXP Berberine inhibits the reaction [Bortezomib results in increased expression of AGER mRNA] CTD PMID:35121005 NCBI chr20:4,148,150...4,151,361
Ensembl chr20:4,147,890...4,151,078 		JBrowse link
G Ahr aryl hydrocarbon receptor increases activity EXP
ISO		 Berberine results in increased activity of AHR protein CTD PMID:16046213 NCBI chr 6:52,234,089...52,271,568
Ensembl chr 6:52,234,089...52,271,568 		JBrowse link
G Akt1 AKT serine/threonine kinase 1 multiple interactions
decreases phosphorylation
increases phosphorylation		 ISO
EXP		 Berberine inhibits the reaction [Glucose results in decreased phosphorylation of AKT1 protein]
Berberine results in decreased phosphorylation of AKT1 protein
Berberine inhibits the reaction [Thioacetamide results in increased phosphorylation of AKT1 protein]
Berberine results in increased phosphorylation of AKT1 protein		 CTD PMID:23954465 PMID:30138605 PMID:33325633 NCBI chr 6:131,713,716...131,735,319
Ensembl chr 6:131,713,720...131,733,921 		JBrowse link
G Akt2 AKT serine/threonine kinase 2 multiple interactions ISO Berberine inhibits the reaction [Dexamethasone results in decreased expression of AKT2 mRNA] CTD PMID:20462044 NCBI chr 1:82,877,228...82,933,828
Ensembl chr 1:82,883,547...82,933,817 		JBrowse link
G Alb albumin multiple interactions EXP Berberine inhibits the reaction [Thioacetamide results in decreased expression of ALB protein] CTD PMID:30138605 NCBI chr14:17,607,397...17,622,814
Ensembl chr14:17,607,381...17,622,836 		JBrowse link
G App amyloid beta precursor protein multiple interactions EXP Berberine inhibits the reaction [[Cadmium co-treated with Aluminum co-treated with Fluorides] results in increased expression of APP mRNA] CTD PMID:29170048 NCBI chr11:24,019,774...24,236,584
Ensembl chr11:24,019,778...24,236,561 		JBrowse link
G Aurkb aurora kinase B decreases expression ISO Berberine results in decreased expression of AURKB mRNA CTD PMID:27311644 NCBI chr10:53,744,290...53,750,831
Ensembl chr10:53,745,142...53,750,837 		JBrowse link
G Aurkc aurora kinase C increases expression ISO Berberine results in increased expression of AURKC mRNA CTD PMID:27311644 NCBI chr 1:66,843,653...66,849,775
Ensembl chr 1:66,843,653...66,864,386 		JBrowse link
G Bax BCL2 associated X, apoptosis regulator multiple interactions
increases expression		 EXP
ISO		 [Berberine co-treated with Thioacetamide] results in increased expression of BAX mRNA; Berberine inhibits the reaction [Chlorpyrifos results in increased expression of BAX mRNA]; Berberine inhibits the reaction [Mercuric Chloride results in increased expression of BAX protein]
Berberine results in increased expression of BAX mRNA; Berberine results in increased expression of BAX protein
[Berberine co-treated with Cisplatin] results in increased expression of BAX protein; [Berberine co-treated with Niacinamide] results in increased expression of BAX protein; Acetylcysteine inhibits the reaction [[Berberine co-treated with Cisplatin] results in increased expression of BAX protein]; SRT1720 inhibits the reaction [Berberine results in increased expression of BAX protein]		 CTD PMID:16505103 PMID:20656010 PMID:25600690 PMID:26712469 PMID:30138605 More... NCBI chr 1:95,940,001...95,945,407
Ensembl chr 1:95,938,808...95,945,368 		JBrowse link
G Bbc3 Bcl-2 binding component 3 increases expression
multiple interactions		 ISO Berberine results in increased expression of BBC3 mRNA
[Berberine co-treated with Niacinamide] results in increased expression of BBC3 mRNA		 CTD PMID:26712469 NCBI chr 1:77,013,281...77,022,509
Ensembl chr 1:77,014,543...77,022,509 		JBrowse link
G Bcl2 BCL2, apoptosis regulator decreases expression
increases expression
multiple interactions		 ISO
EXP		 Berberine results in decreased expression of BCL2 mRNA; Berberine results in decreased expression of BCL2 protein
Berberine results in increased expression of BCL2 protein
Berberine inhibits the reaction [Chlorpyrifos results in decreased expression of BCL2 mRNA]; Berberine inhibits the reaction [Mercuric Chloride results in decreased expression of BCL2 protein]; Berberine inhibits the reaction [Thioacetamide results in increased expression of BCL2 mRNA]
[Berberine co-treated with Cisplatin] results in decreased expression of BCL2 protein; [Berberine co-treated with Niacinamide] results in decreased expression of BCL2 protein; Berberine inhibits the reaction [Glucose results in decreased expression of BCL2 protein]		 CTD PMID:16505103 PMID:20656010 PMID:23954465 PMID:24751971 PMID:25600690 More... NCBI chr13:22,689,783...22,853,920
Ensembl chr13:22,684,989...22,853,743
Ensembl chr13:22,684,989...22,853,743 		JBrowse link
G Bcl2l1 Bcl2-like 1 decreases expression ISO Berberine results in decreased expression of BCL2L1 protein CTD PMID:16505103 NCBI chr 3:141,253,508...141,304,582
Ensembl chr 3:141,253,523...141,303,479 		JBrowse link
G Bcl2l11 Bcl2-like 11 multiple interactions
increases expression		 ISO [Berberine co-treated with Niacinamide] results in increased expression of BCL2L11 mRNA
Berberine results in increased expression of BCL2L11 mRNA		 CTD PMID:26712469 NCBI chr 3:115,366,783...115,404,068
Ensembl chr 3:115,366,646...115,404,068 		JBrowse link
G Becn1 beclin 1 multiple interactions EXP
ISO		 Berberine inhibits the reaction [Chlorpyrifos results in decreased expression of BECN1 mRNA]
Berberine promotes the reaction [[Water deficiency co-treated with NG-Nitroarginine Methyl Ester co-treated with Indomethacin co-treated with Iohexol] results in increased expression of BECN1 protein]		 CTD PMID:35439518 PMID:38705399 NCBI chr10:86,231,387...86,246,742
Ensembl chr10:86,231,388...86,246,742 		JBrowse link
G Bglap bone gamma-carboxyglutamate protein increases expression
multiple interactions		 ISO Berberine results in increased expression of BGLAP mRNA; Berberine results in increased expression of BGLAP protein
CTNNB1 mutant form inhibits the reaction [Berberine results in increased expression of BGLAP protein]; DKK1 protein inhibits the reaction [Berberine results in increased expression of BGLAP protein]		 CTD PMID:26478571 NCBI chr 2:173,838,518...173,839,495
Ensembl chr 2:173,838,518...173,839,495 		JBrowse link
G Birc5 baculoviral IAP repeat-containing 5 affects binding ISO Berberine binds to BIRC5 promoter CTD PMID:17968851 NCBI chr10:103,072,530...103,081,382
Ensembl chr10:103,073,408...103,081,380 		JBrowse link
G Bnip3 BCL2 interacting protein 3 multiple interactions
increases expression		 ISO [Cisplatin co-treated with Berberine] results in increased expression of BNIP3 protein
Berberine promotes the reaction [[Water deficiency co-treated with NG-Nitroarginine Methyl Ester co-treated with Indomethacin co-treated with Iohexol] results in increased expression of BNIP3 protein]
Berberine results in increased expression of BNIP3 protein		 CTD PMID:36070022 PMID:38705399 NCBI chr 1:193,708,164...193,725,348
Ensembl chr 1:193,708,167...193,725,359 		JBrowse link
G Bnip3l BCL2 interacting protein 3 like increases expression
multiple interactions		 ISO Berberine results in increased expression of BNIP3L protein
[Cisplatin co-treated with Berberine] results in increased expression of BNIP3L protein; BNIP3L protein affects the reaction [[Berberine co-treated with Cisplatin] results in increased lipidation of MAP1LC3B protein]		 CTD PMID:36070022 NCBI chr15:41,174,594...41,197,730
Ensembl chr15:41,174,594...41,197,803 		JBrowse link
G Casp1 caspase 1 multiple interactions ISO Berberine inhibits the reaction [[Water deficiency co-treated with NG-Nitroarginine Methyl Ester co-treated with Indomethacin co-treated with Iohexol] results in increased expression of and results in increased cleavage of CASP1 protein]; Berberine inhibits the reaction [[Water deficiency co-treated with NG-Nitroarginine Methyl Ester co-treated with Indomethacin co-treated with Iohexol] results in increased expression of CASP1 mRNA] CTD PMID:38705399 NCBI chr 8:2,587,812...2,597,403
Ensembl chr 8:2,587,831...2,597,383 		JBrowse link
G Casp3 caspase 3 multiple interactions
increases activity
increases cleavage
increases expression		 ISO
EXP		 [Berberine co-treated with Cisplatin] results in increased cleavage of CASP3 protein; [Berberine co-treated with Niacinamide] results in increased cleavage of CASP3 protein; Acetylcysteine inhibits the reaction [[Berberine co-treated with Cisplatin] results in increased cleavage of CASP3 protein]; Berberine results in increased cleavage of and results in increased activity of CASP3 protein
Berberine inhibits the reaction [Particulate Matter results in increased expression of CASP3 protein]
Berberine increases activity of CASP3 protein in colon epithelial cells
Berberine results in increased cleavage of CASP3 protein
[Berberine co-treated with Thioacetamide] results in increased expression of CASP3 mRNA; Berberine inhibits the reaction [Chlorpyrifos results in increased expression of CASP3 mRNA]; Berberine inhibits the reaction [Mercuric Chloride results in increased activity of CASP3 protein]; Berberine inhibits the reaction [Mercuric Chloride results in increased expression of CASP3 mRNA]
Berberine results in increased activity of CASP3 protein
Berberine results in increased expression of CASP3 mRNA		 CTD
RGD		 PMID:16505103 PMID:20656010 PMID:25600690 PMID:26712469 PMID:30138605 More... RGD:152995489 NCBI chr16:45,662,910...45,681,171
Ensembl chr16:45,662,910...45,684,648 		JBrowse link
G Casp8 caspase 8 increases activity ISO Berberine results in increased activity of CASP8 protein CTD PMID:20656010 NCBI chr 9:60,263,863...60,312,542
Ensembl chr 9:60,264,075...60,312,542 		JBrowse link
G Casp9 caspase 9 increases cleavage
multiple interactions		 ISO
EXP		 Berberine results in increased cleavage of CASP9 protein
Berberine inhibits the reaction [Particulate Matter results in increased expression of CASP9 protein]
[Berberine co-treated with Thioacetamide] results in increased expression of CASP9 mRNA
[Berberine co-treated with Niacinamide] results in increased cleavage of CASP9 protein		 CTD PMID:16505103 PMID:26712469 PMID:30138605 PMID:37839514 NCBI chr 5:154,108,872...154,126,628
Ensembl chr 5:154,109,046...154,126,626 		JBrowse link
G Cat catalase multiple interactions EXP
ISO		 Berberine affects the reaction [[Streptozocin co-treated with Dietary Carbohydrates co-treated with Dietary Fats] affects the activity of CAT protein]; Berberine inhibits the reaction [acetamiprid results in decreased activity of CAT protein]; Berberine inhibits the reaction [Bortezomib results in decreased expression of CAT protein]; Berberine inhibits the reaction [Chlorpyrifos results in decreased activity of CAT protein]; Berberine inhibits the reaction [Mercuric Chloride results in decreased activity of CAT protein]; Berberine inhibits the reaction [Thioacetamide results in decreased activity of CAT protein]
Berberine inhibits the reaction [[Lipopolysaccharides co-treated with Galactosamine] results in decreased expression of CAT protein]; Berberine inhibits the reaction [Particulate Matter results in decreased expression of CAT protein]		 CTD PMID:20828602 PMID:24751971 PMID:25600690 PMID:30138605 PMID:33460233 More... NCBI chr 3:89,842,393...89,874,577
Ensembl chr 3:89,842,399...89,874,478 		JBrowse link
G Ccl2 C-C motif chemokine ligand 2 multiple interactions ISO Berberine inhibits the reaction [IL1B protein results in increased expression of CCL2 mRNA]; Berberine inhibits the reaction [IL1B protein results in increased secretion of CCL2 protein]; Berberine inhibits the reaction [TNF protein results in increased expression of CCL2 mRNA]; Berberine inhibits the reaction [TNF protein results in increased secretion of CCL2 protein]
Berberine inhibits the reaction [[Lipopolysaccharides co-treated with Galactosamine] results in increased expression of CCL2 protein]; Berberine inhibits the reaction [[Water deficiency co-treated with NG-Nitroarginine Methyl Ester co-treated with Indomethacin co-treated with Iohexol] results in increased expression of CCL2 mRNA]		 CTD PMID:16391493 PMID:35691465 PMID:38705399 NCBI chr10:67,005,424...67,007,222
Ensembl chr10:67,005,424...67,007,226 		JBrowse link
G Ccnd1 cyclin D1 decreases expression
multiple interactions		 ISO Berberine results in decreased expression of CCND1 protein
Berberine inhibits the reaction [CDK4 mRNA binds to CCND1 mRNA]		 CTD PMID:16505103 PMID:33325633 PMID:36822301 NCBI chr 1:200,089,002...200,098,524
Ensembl chr 1:200,089,002...200,098,602 		JBrowse link
G Ccnd2 cyclin D2 decreases expression ISO Berberine results in decreased expression of CCND2 protein CTD PMID:16505103 NCBI chr 4:159,966,883...159,989,261
Ensembl chr 4:159,962,363...159,989,495 		JBrowse link
G Ccne1 cyclin E1 decreases expression ISO Berberine results in decreased expression of CCNE1 protein CTD PMID:16505103 NCBI chr 1:90,781,947...90,791,188
Ensembl chr 1:90,781,949...90,791,101 		JBrowse link
G Ccnt1 cyclin T1 multiple interactions EXP Berberine affects the reaction [[Streptozocin co-treated with Dietary Carbohydrates co-treated with Dietary Fats] affects the expression of CCNT1 mRNA]; Berberine affects the reaction [[Streptozocin co-treated with Dietary Carbohydrates co-treated with Dietary Fats] affects the expression of CCNT1 protein] CTD PMID:20828602 NCBI chr 7:129,687,146...129,718,080
Ensembl chr 7:129,691,209...129,717,871 		JBrowse link
G Cd36 CD36 molecule increases expression
multiple interactions		 ISO Berberine results in increased expression of CD36 mRNA
Berberine results in increased expression of CD36 mRNA; Berberine results in increased expression of CD36 protein
15-deoxyprostaglandin J2 promotes the reaction [Berberine results in increased expression of CD36 mRNA]; 2-(2-amino-3-methoxyphenyl)-4H-1-benzopyran-4-one inhibits the reaction [Berberine results in increased expression of CD36 protein]; Berberine promotes the reaction [15-deoxyprostaglandin J2 results in increased expression of CD36 mRNA]; Berberine results in increased expression of and affects the localization of CD36 protein; CEBPB protein promotes the reaction [Berberine results in increased expression of CD36 mRNA]		 CTD PMID:28038998 PMID:29408570 NCBI chr 4:17,317,343...17,410,084
Ensembl chr 4:17,354,466...17,513,903 		JBrowse link
G Cdh1 cadherin 1 multiple interactions ISO Berberine inhibits the reaction [Particulate Matter results in decreased expression of CDH1 mRNA] CTD PMID:37839514 NCBI chr19:34,492,371...34,561,775
Ensembl chr19:34,492,371...34,561,775 		JBrowse link
G Cdh2 cadherin 2 decreases expression ISO Berberine results in decreased expression of CDH2 mRNA CTD PMID:26478571 NCBI chr18:7,776,704...7,990,934
Ensembl chr18:7,776,704...7,990,167 		JBrowse link
G Cdk2 cyclin dependent kinase 2 decreases expression ISO Berberine results in decreased expression of CDK2 protein CTD PMID:16505103 NCBI chr 7:1,129,878...1,137,431
Ensembl chr 7:1,129,811...1,137,403 		JBrowse link
G Cdk4 cyclin-dependent kinase 4 decreases expression
multiple interactions		 ISO Berberine results in decreased expression of CDK4 protein
Berberine inhibits the reaction [CDK4 mRNA binds to CCND1 mRNA]		 CTD PMID:16505103 PMID:36822301 NCBI chr 7:62,886,124...62,889,562
Ensembl chr 7:62,883,105...62,942,403 		JBrowse link
G Cdk6 cyclin-dependent kinase 6 decreases expression ISO Berberine results in decreased expression of CDK6 protein CTD PMID:16505103 NCBI chr 4:30,637,650...30,829,688
Ensembl chr 4:30,646,460...30,829,634 		JBrowse link
G Cdk9 cyclin-dependent kinase 9 multiple interactions EXP Berberine affects the reaction [[Streptozocin co-treated with Dietary Carbohydrates co-treated with Dietary Fats] affects the expression of CDK9 mRNA]; Berberine affects the reaction [[Streptozocin co-treated with Dietary Carbohydrates co-treated with Dietary Fats] affects the expression of CDK9 protein] CTD PMID:20828602 NCBI chr 3:15,996,467...16,001,315
Ensembl chr 3:15,996,468...16,002,410 		JBrowse link
G Cdkn1a cyclin-dependent kinase inhibitor 1A increases expression ISO Berberine results in increased expression of CDKN1A protein CTD PMID:16505103 PMID:23747414 NCBI chr20:7,149,177...7,159,727
Ensembl chr20:7,149,217...7,159,585 		JBrowse link
G Cdkn1b cyclin-dependent kinase inhibitor 1B increases expression ISO Berberine results in increased expression of CDKN1B protein CTD PMID:16505103 NCBI chr 4:167,760,067...167,765,177
Ensembl chr 4:167,760,181...167,764,982 		JBrowse link
G Cdkn1c cyclin-dependent kinase inhibitor 1C increases expression ISO Berberine results in increased expression of CDKN1C mRNA CTD PMID:26478571 NCBI chr 1:198,655,394...198,658,097
Ensembl chr 1:198,655,407...198,658,048 		JBrowse link
G Cebpa CCAAT/enhancer binding protein alpha multiple interactions
decreases expression		 ISO Berberine inhibits the reaction [Clozapine results in increased expression of CEBPA mRNA]; Berberine inhibits the reaction [Clozapine results in increased expression of CEBPA protein]; Berberine inhibits the reaction [Risperidone results in increased expression of CEBPA mRNA]; Berberine inhibits the reaction [Risperidone results in increased expression of CEBPA protein]
Berberine results in decreased expression of CEBPA mRNA; Berberine results in decreased expression of CEBPA protein		 CTD PMID:20564506 PMID:26478571 PMID:37511356 NCBI chr 1:87,759,631...87,762,303
Ensembl chr 1:87,759,433...87,762,412 		JBrowse link
G Cebpb CCAAT/enhancer binding protein beta affects phosphorylation
multiple interactions
increases expression		 ISO Berberine affects the phosphorylation of CEBPB protein
2-(2-amino-3-methoxyphenyl)-4H-1-benzopyran-4-one inhibits the reaction [Berberine results in increased phosphorylation of CEBPB protein]; CEBPB protein promotes the reaction [Berberine results in increased expression of CD36 mRNA]
Berberine results in increased expression of CEBPB mRNA		 CTD PMID:28038998 NCBI chr 3:156,398,035...156,399,466
Ensembl chr 3:156,397,052...156,399,473 		JBrowse link
G Chek1 checkpoint kinase 1 increases expression ISO Berberine results in increased expression of CHEK1 protein modified form CTD PMID:23747414 NCBI chr 8:36,420,565...36,443,477
Ensembl chr 8:36,420,569...36,441,009 		JBrowse link
G Chek2 checkpoint kinase 2 increases expression ISO Berberine results in increased expression of CHEK2 protein modified form CTD PMID:23747414 NCBI chr12:45,788,823...45,821,382
Ensembl chr12:45,788,827...45,821,286 		JBrowse link
G Col10a1 collagen type X alpha 1 chain increases expression ISO Berberine results in increased expression of COL10A1 mRNA CTD PMID:26478571 NCBI chr20:38,183,103...38,189,488
Ensembl chr20:38,182,494...38,189,494 		JBrowse link
G Col1a1 collagen type I alpha 1 chain increases expression
multiple interactions		 ISO Berberine results in increased expression of COL1A1 mRNA
Berberine inhibits the reaction [Particulate Matter results in increased expression of COL1A1 mRNA]		 CTD PMID:26478571 PMID:37839514 NCBI chr10:79,883,622...79,900,625
Ensembl chr10:79,883,622...79,900,624 		JBrowse link
G Col2a1 collagen type II alpha 1 chain decreases expression ISO Berberine results in decreased expression of COL2A1 mRNA CTD PMID:26478571 NCBI chr 7:129,098,489...129,127,560
Ensembl chr 7:129,098,786...129,127,546 		JBrowse link
G Col3a1 collagen type III alpha 1 chain multiple interactions ISO Berberine inhibits the reaction [Particulate Matter results in increased expression of COL3A1 mRNA] CTD PMID:37839514 NCBI chr 9:47,374,611...47,410,547
Ensembl chr 9:47,374,593...47,410,547 		JBrowse link
G Cox4i1 cytochrome c oxidase subunit 4i1 multiple interactions EXP Berberine inhibits the reaction [acetamiprid results in decreased expression of COX4I1 mRNA] CTD PMID:37350525 NCBI chr19:48,721,680...48,727,920
Ensembl chr19:48,721,199...48,727,921 		JBrowse link
G Cpt1a carnitine palmitoyltransferase 1A multiple interactions ISO Berberine inhibits the reaction [Ethanol results in decreased expression of CPT1A mRNA] CTD PMID:25455889 NCBI chr 1:200,564,634...200,627,059
Ensembl chr 1:200,565,613...200,627,055 		JBrowse link
G Creb1 cAMP responsive element binding protein 1 multiple interactions EXP Berberine inhibits the reaction [Bortezomib results in decreased expression of CREB1 protein] CTD PMID:35121005 NCBI chr 9:65,903,511...65,972,562
Ensembl chr 9:65,903,547...65,970,816 		JBrowse link
G Crebbp CREB binding protein increases expression ISO Berberine results in increased expression of CREBBP mRNA CTD PMID:27311644 NCBI chr10:11,335,551...11,461,888
Ensembl chr10:11,335,953...11,461,888 		JBrowse link
G Cst3 cystatin C multiple interactions ISO Berberine inhibits the reaction [[Water deficiency co-treated with NG-Nitroarginine Methyl Ester co-treated with Indomethacin co-treated with Iohexol] results in increased expression of CST3 protein] CTD PMID:38705399 NCBI chr 3:136,336,923...136,340,796
Ensembl chr 3:136,336,920...136,340,822 		JBrowse link
G Ctnnb1 catenin beta 1 increases expression
multiple interactions		 ISO Berberine results in increased expression of CTNNB1 protein
CTNNB1 mutant form inhibits the reaction [Berberine results in increased expression of BGLAP protein]; CTNNB1 mutant form inhibits the reaction [Berberine results in increased expression of RUNX2 mRNA]; CTNNB1 mutant form inhibits the reaction [Berberine results in increased expression of SPP1 protein]; DKK1 protein inhibits the reaction [Berberine results in increased expression of CTNNB1 protein]		 CTD PMID:26478571 NCBI chr 8:120,640,008...120,667,110
Ensembl chr 8:120,639,995...120,667,111 		JBrowse link
G Ctsd cathepsin D multiple interactions
decreases cleavage		 ISO GSK2795039 affects the reaction [Berberine results in decreased cleavage of CTSD protein] CTD PMID:36070022 NCBI chr 1:197,527,467...197,539,343
Ensembl chr 1:197,527,467...197,539,488 		JBrowse link
G Ctsl cathepsin L decreases cleavage
multiple interactions		 ISO Berberine results in decreased cleavage of CTSL protein
Acetylcysteine inhibits the reaction [Berberine results in decreased cleavage of CTSL protein]; GSK2795039 affects the reaction [Berberine results in decreased cleavage of CTSL protein]		 CTD PMID:36070022 NCBI chr17:764,370...770,533
Ensembl chr17:764,309...770,548 		JBrowse link
G Cybb cytochrome b-245 beta chain multiple interactions ISO Berberine promotes the reaction [CYBB protein binds to NCF1 protein binds to NCF2 protein binds to RAC2 protein]; Berberine promotes the reaction [CYBB protein binds to NCF1 protein]; Berberine promotes the reaction [CYBB protein binds to NCF2 protein]; Berberine promotes the reaction [CYBB protein binds to RAC2 protein] CTD PMID:36070022 NCBI chr  X:13,358,101...13,392,570
Ensembl chr  X:13,359,430...13,392,586 		JBrowse link
G Cycs cytochrome c, somatic affects localization
multiple interactions		 ISO Berberine affects the localization of CYCS protein
[Berberine co-treated with Cisplatin] results in increased expression of CYCS protein		 CTD PMID:16505103 PMID:36070022 NCBI chr 4:79,651,894...79,653,994
Ensembl chr 4:79,651,378...79,654,054
Ensembl chr18:79,651,378...79,654,054 		JBrowse link
G Cyp17a1 cytochrome P450, family 17, subfamily a, polypeptide 1 multiple interactions ISO Berberine inhibits the reaction [Dexamethasone results in increased expression of CYP17A1 mRNA] CTD PMID:20462044 NCBI chr 1:245,535,462...245,543,148
Ensembl chr 1:245,535,462...245,541,573 		JBrowse link
G Cyp1a1 cytochrome P450, family 1, subfamily a, polypeptide 1 decreases activity
increases expression
multiple interactions		 ISO
EXP		 Berberine results in decreased activity of CYP1A1 protein
Berberine results in increased expression of CYP1A1 mRNA
Berberine inhibits the reaction [beta-Naphthoflavone results in increased expression of CYP1A1 mRNA]		 CTD PMID:16046213 PMID:22342832 PMID:24583342 NCBI chr 8:58,096,021...58,102,130
Ensembl chr 8:58,096,077...58,102,125 		JBrowse link
G Cyp1a2 cytochrome P450, family 1, subfamily a, polypeptide 2 multiple interactions ISO Berberine inhibits the reaction [beta-Naphthoflavone results in increased expression of CYP1A2 mRNA] CTD PMID:22342832 NCBI chr 8:58,075,367...58,082,255
Ensembl chr 8:58,075,367...58,082,312 		JBrowse link
G Cyp2b3 cytochrome P450, family 2, subfamily b, polypeptide 3 increases expression
multiple interactions		 ISO Berberine results in increased expression of CYP2B10 mRNA
Berberine inhibits the reaction [Streptozocin results in increased expression of CYP2B10 mRNA]; Berberine promotes the reaction [Phenobarbital results in increased expression of CYP2B10 mRNA]		 CTD PMID:22342832 NCBI chr 1:81,652,762...81,732,153
Ensembl chr 1:81,652,787...81,732,143 		JBrowse link
G Cyp2e1 cytochrome P450, family 2, subfamily e, polypeptide 1 decreases expression
multiple interactions		 ISO Berberine results in decreased expression of CYP2E1 mRNA
Berberine inhibits the reaction [Ethanol results in increased expression of CYP2E1 protein]; Berberine inhibits the reaction [Isoniazid results in increased expression of CYP2E1 mRNA]		 CTD PMID:22342832 PMID:25455889 NCBI chr 1:195,840,330...195,850,728
Ensembl chr 1:195,840,058...195,864,023 		JBrowse link
G Cyp3a2 cytochrome P450, family 3, subfamily a, polypeptide 2 decreases expression
multiple interactions
decreases activity		 EXP
ISO		 Berberine results in decreased expression of CYP3A4 mRNA; Berberine results in decreased expression of CYP3A4 protein
[Berberine results in increased activity of NR1I2 protein] which results in increased expression of CYP3A4 mRNA
Berberine results in decreased activity of CYP3A4 protein
Atorvastatin promotes the reaction [Berberine results in decreased activity of CYP3A4 protein]; Berberine promotes the reaction [Atorvastatin results in decreased activity of CYP3A4 protein]; Berberine promotes the reaction [Atorvastatin results in decreased expression of CYP3A4 mRNA]; Berberine promotes the reaction [Atorvastatin results in decreased expression of CYP3A4 protein]; Berberine promotes the reaction [Simvastatin results in decreased activity of CYP3A4 protein]; Berberine promotes the reaction [Simvastatin results in decreased expression of CYP3A4 protein]; Simvastatin promotes the reaction [Berberine results in decreased activity of CYP3A4 protein]		 CTD PMID:21524698 PMID:30086269 NCBI chr12:9,207,978...9,230,064
Ensembl chr12:9,015,383...9,285,008 		JBrowse link
G Dkk1 dickkopf WNT signaling pathway inhibitor 1 multiple interactions ISO DKK1 protein inhibits the reaction [Berberine results in increased expression of BGLAP protein]; DKK1 protein inhibits the reaction [Berberine results in increased expression of CTNNB1 protein]; DKK1 protein inhibits the reaction [Berberine results in increased expression of RUNX2 mRNA]; DKK1 protein inhibits the reaction [Berberine results in increased expression of SPP1 protein] CTD PMID:26478571 NCBI chr 1:228,381,521...228,385,202
Ensembl chr 1:228,381,521...228,385,202 		JBrowse link
G Dnmt1 DNA methyltransferase 1 decreases expression ISO Berberine results in decreased expression of DNMT1 mRNA CTD PMID:27311644 NCBI chr 8:19,440,611...19,486,659
Ensembl chr 8:19,440,611...19,486,659 		JBrowse link
G Dnmt3b DNA methyltransferase 3 beta decreases expression ISO Berberine results in decreased expression of DNMT3B mRNA CTD PMID:27311644 NCBI chr 3:142,130,588...142,169,128
Ensembl chr 3:142,130,592...142,169,124 		JBrowse link
G Dzip3 DAZ interacting zinc finger protein 3 increases expression ISO Berberine results in increased expression of DZIP3 mRNA CTD PMID:27311644 NCBI chr11:51,823,235...51,893,353
Ensembl chr11:51,823,231...51,893,353 		JBrowse link
G Egf epidermal growth factor multiple interactions ISO 2-(4-morpholinyl)-8-phenyl-4H-1-benzopyran-4-one inhibits the reaction [EGF protein inhibits the reaction [Berberine results in decreased activity of MMP2 protein]]; 2-(4-morpholinyl)-8-phenyl-4H-1-benzopyran-4-one inhibits the reaction [EGF protein inhibits the reaction [Berberine results in decreased activity of MMP9 protein]]; EGF protein inhibits the reaction [Berberine results in decreased activity of MMP2 protein]; EGF protein inhibits the reaction [Berberine results in decreased activity of MMP9 protein] CTD PMID:33325633 NCBI chr 2:218,219,408...218,302,359
Ensembl chr 2:218,219,415...218,302,064 		JBrowse link
G Egfr epidermal growth factor receptor decreases expression ISO Berberine results in decreased expression of EGFR protein CTD PMID:33325633 NCBI chr14:91,176,979...91,349,722
Ensembl chr14:91,177,067...91,344,382 		JBrowse link
G Eif4ebp1 eukaryotic translation initiation factor 4E binding protein 1 multiple interactions ISO Berberine results in decreased phosphorylation of and results in increased expression of EIF4EBP1 protein CTD PMID:23363784 NCBI chr16:64,792,595...64,805,984
Ensembl chr16:64,790,226...64,805,984 		JBrowse link
G Ep300 E1A binding protein p300 increases expression ISO Berberine results in increased expression of EP300 mRNA CTD PMID:27311644 NCBI chr 7:113,108,476...113,178,529
Ensembl chr 7:113,106,247...113,136,088
Ensembl chr 7:113,106,247...113,136,088 		JBrowse link
G Erbb2 erb-b2 receptor tyrosine kinase 2 multiple interactions ISO benzyloxycarbonylleucyl-leucyl-leucine aldehyde inhibits the reaction [Berberine results in decreased expression of ERBB2 protein]; Berberine results in decreased expression of and results in increased ubiquitination of ERBB2 protein CTD PMID:33325633 NCBI chr10:83,411,197...83,435,078
Ensembl chr10:83,411,313...83,435,078 		JBrowse link
G Esr1 estrogen receptor 1 multiple interactions ISO Berberine inhibits the reaction [Estradiol results in increased activity of ESR1 protein] CTD PMID:30818834 NCBI chr 1:41,106,335...41,499,104
Ensembl chr 1:41,210,475...41,495,002 		JBrowse link
G Esrra estrogen related receptor, alpha multiple interactions ISO Berberine inhibits the reaction [XCT790 results in decreased activity of ESRRA protein] CTD PMID:30818834 NCBI chr 1:204,104,100...204,114,182
Ensembl chr 1:204,104,101...204,114,268 		JBrowse link
G Fabp4 fatty acid binding protein 4 decreases expression
multiple interactions
increases expression		 ISO Berberine results in decreased expression of FABP4 mRNA
15-deoxyprostaglandin J2 promotes the reaction [Berberine results in increased expression of FABP4 mRNA]; Berberine promotes the reaction [15-deoxyprostaglandin J2 results in increased expression of FABP4 mRNA]		 CTD PMID:26478571 PMID:29408570 NCBI chr 2:91,580,879...91,585,567
Ensembl chr 2:91,580,885...91,585,578 		JBrowse link
G Fas Fas cell surface death receptor multiple interactions
increases expression		 ISO [Clozapine co-treated with Berberine] results in decreased expression of FAS mRNA; Berberine inhibits the reaction [Risperidone results in increased expression of FAS mRNA]
Berberine results in increased expression of FAS mRNA; Berberine results in increased expression of FAS protein		 CTD PMID:20564506 PMID:20656010 NCBI chr 1:231,798,963...231,832,591
Ensembl chr 1:231,798,960...231,832,591 		JBrowse link
G Faslg Fas ligand increases expression ISO Berberine results in increased expression of FASLG mRNA; Berberine results in increased expression of FASLG protein CTD PMID:20656010 NCBI chr13:74,151,519...74,172,760
Ensembl chr13:74,154,954...74,162,215 		JBrowse link
G Fn1 fibronectin 1 multiple interactions EXP
ISO		 Berberine inhibits the reaction [Thioacetamide results in increased expression of FN1 mRNA]
Berberine inhibits the reaction [Particulate Matter results in increased expression of FN1 mRNA]		 CTD PMID:30138605 PMID:37839514 NCBI chr 9:73,196,044...73,264,695
Ensembl chr 9:73,196,044...73,264,678 		JBrowse link
G Foxo1 forkhead box O1 multiple interactions ISO [Berberine co-treated with Niacinamide] results in increased expression of and results in increased acetylation of FOXO1 protein; Berberine results in increased expression of and results in increased acetylation of FOXO1 protein CTD PMID:26712469 NCBI chr 2:136,312,168...136,390,603
Ensembl chr 2:136,312,168...136,387,790 		JBrowse link
G Foxo3 forkhead box O3 multiple interactions ISO [Berberine co-treated with Niacinamide] results in increased expression of and results in increased acetylation of FOXO3 protein; Berberine results in increased expression of and results in increased acetylation of FOXO3 protein CTD PMID:26712469 NCBI chr20:45,669,708...45,764,606
Ensembl chr20:45,672,995...45,764,561 		JBrowse link
G Fundc1 FUN14 domain containing 1 increases expression
multiple interactions		 ISO Berberine results in increased expression of FUNDC1 protein
[Cisplatin co-treated with Berberine] results in increased expression of FUNDC1 protein; FUNDC1 protein affects the reaction [[Berberine co-treated with Cisplatin] results in increased lipidation of MAP1LC3B protein]		 CTD PMID:36070022 NCBI chr  X:5,083,635...5,100,293
Ensembl chr  X:5,083,617...5,100,284 		JBrowse link
G Gata2 GATA binding protein 2 increases expression ISO Berberine results in increased expression of GATA2 mRNA CTD PMID:37511356 NCBI chr 4:120,654,205...120,667,763
Ensembl chr 4:120,658,986...120,667,761 		JBrowse link
G Gata3 GATA binding protein 3 increases expression ISO Berberine results in increased expression of GATA3 mRNA CTD PMID:37511356 NCBI chr17:68,643,760...68,666,000
Ensembl chr17:68,643,873...68,665,391 		JBrowse link
G Gclc glutamate-cysteine ligase, catalytic subunit multiple interactions EXP Berberine inhibits the reaction [Bortezomib results in increased expression of GCLC mRNA] CTD PMID:35121005 NCBI chr 8:78,629,899...78,668,547
Ensembl chr 8:78,630,127...78,668,544 		JBrowse link
G Gclm glutamate cysteine ligase, modifier subunit multiple interactions EXP Berberine inhibits the reaction [Bortezomib results in increased expression of GCLM mRNA] CTD PMID:35121005 NCBI chr 2:210,347,482...210,367,537
Ensembl chr 2:210,347,482...210,367,535 		JBrowse link
G Gdf5 growth differentiation factor 5 decreases expression ISO Berberine results in decreased expression of GDF5 mRNA CTD PMID:26478571 NCBI chr 3:144,454,316...144,458,508
Ensembl chr 3:144,454,338...144,458,612 		JBrowse link
G Gfap glial fibrillary acidic protein multiple interactions EXP Berberine inhibits the reaction [Bortezomib results in increased expression of GFAP mRNA] CTD PMID:35121005 NCBI chr10:87,852,891...87,861,631
Ensembl chr10:87,852,890...87,861,589 		JBrowse link
G Gpt glutamic--pyruvic transaminase multiple interactions ISO
EXP		 Berberine inhibits the reaction [Ethanol results in increased activity of GPT protein]
Berberine inhibits the reaction [Mercuric Chloride results in increased activity of GPT protein]; Berberine inhibits the reaction [Thioacetamide results in increased activity of GPT protein]		 CTD PMID:24751971 PMID:25455889 PMID:30138605 NCBI chr 7:108,416,646...108,419,495
Ensembl chr 7:108,416,642...108,419,494 		JBrowse link
G Gpx1 glutathione peroxidase 1 multiple interactions EXP Berberine inhibits the reaction [Mercuric Chloride results in decreased expression of GPX1 mRNA] CTD PMID:24751971 PMID:33460233 NCBI chr 8:109,026,905...109,028,031
Ensembl chr 8:109,026,905...109,028,024 		JBrowse link
G Gsk3b glycogen synthase kinase 3 beta multiple interactions
increases phosphorylation		 ISO Berberine inhibits the reaction [Dexamethasone results in decreased expression of GSK3B mRNA]
Berberine results in increased phosphorylation of GSK3B protein
Berberine inhibits the reaction [Glucose results in decreased phosphorylation of GSK3B protein]		 CTD PMID:20462044 PMID:23954465 NCBI chr11:62,498,997...62,648,665
Ensembl chr11:62,504,316...62,648,646 		JBrowse link
G Gsr glutathione-disulfide reductase multiple interactions EXP Berberine inhibits the reaction [Chlorpyrifos results in decreased activity of GSR protein]; Berberine inhibits the reaction [Mercuric Chloride results in decreased activity of GSR protein] CTD PMID:24751971 PMID:25600690 PMID:33460233 PMID:35439518 NCBI chr16:58,482,209...58,525,256
Ensembl chr16:58,482,505...58,525,661 		JBrowse link
G H2ac12 H2A clustered histone 12 decreases expression ISO Berberine results in decreased expression of H2AC12 mRNA CTD PMID:27311644 NCBI chr17:42,486,415...42,486,880
Ensembl chr17:42,486,415...42,486,941 		JBrowse link
G H2ac18 H2A clustered histone 18 decreases expression ISO Berberine results in decreased expression of H2AC18 mRNA CTD PMID:27311644 NCBI chr 2:183,808,398...183,808,992 JBrowse link
G H2ac25 H2A clustered histone 25 decreases expression ISO Berberine results in decreased expression of H2AC25 mRNA CTD PMID:27311644 NCBI chr10:43,733,702...43,735,254
Ensembl chr10:43,733,668...43,744,874 		JBrowse link
G H2ac4 H2A clustered histone 4 decreases expression ISO Berberine results in decreased expression of H2AC4 mRNA CTD PMID:27311644 NCBI chr17:42,799,884...42,800,387
Ensembl chr17:42,799,652...42,800,381 		JBrowse link
G H2ax H2A.X variant histone increases expression
decreases expression
multiple interactions		 ISO Berberine results in increased expression of H2AX protein modified form
Berberine results in decreased expression of H2AX mRNA; Berberine results in decreased expression of H2AX protein
TOP2A protein affects the reaction [Berberine results in increased expression of H2AX protein modified form]		 CTD PMID:23363784 PMID:23747414 PMID:27311644 NCBI chr 8:44,671,907...44,673,262
Ensembl chr 8:44,671,786...44,673,239 		JBrowse link
G H2bc12 H2B clustered histone 12 decreases expression ISO Berberine results in decreased expression of H2BC12 mRNA CTD PMID:27311644 NCBI chr17:42,485,699...42,486,162 JBrowse link
G H2bc6 H2B clustered histone 6 decreases expression ISO Berberine results in decreased expression of H2BC6 mRNA CTD PMID:27311644 NCBI chr17:41,520,775...41,521,238 JBrowse link
G H2bc8 H2B clustered histone 8 decreases expression ISO Berberine results in decreased expression of H2BC8 mRNA CTD PMID:27311644 NCBI chr17:42,708,658...42,709,408 JBrowse link
G H2bc9 H2B clustered histone 9 decreases expression ISO Berberine results in decreased expression of H2BC9 mRNA CTD PMID:27311644 NCBI chr17:42,470,593...42,478,590 JBrowse link
G H3c1 H3 clustered histone 1 decreases expression ISO Berberine results in decreased expression of H3C1 mRNA CTD PMID:27311644 NCBI chr17:41,368,379...41,368,902
Ensembl chr17:41,368,386...41,368,856
Ensembl chr17:41,368,386...41,368,856
Ensembl chr17:41,368,386...41,368,856
Ensembl chr17:41,368,386...41,368,856 		JBrowse link
G H3f3a H3.3 histone A decreases expression ISO Berberine results in decreased expression of H3-3A mRNA CTD PMID:27311644 NCBI chr13:92,533,289...92,544,902
Ensembl chr13:92,533,298...92,544,908 		JBrowse link
G H3f4 H3.4 histone, cluster member decreases expression ISO Berberine results in decreased expression of H3-4 mRNA CTD PMID:27311644 NCBI chr10:43,740,702...43,741,262 JBrowse link
G H4c14 H4 clustered histone 14 decreases expression ISO Berberine results in decreased expression of H4C2 mRNA CTD PMID:27311644 NCBI chr 2:183,831,601...183,831,996
Ensembl chr 2:183,825,994...183,832,048 		JBrowse link
G Hat1 histone acetyltransferase 1 increases expression ISO Berberine results in increased expression of HAT1 mRNA CTD PMID:27311644 NCBI chr 3:56,217,344...56,265,021
Ensembl chr 3:56,217,342...56,275,517 		JBrowse link
G Hdac2 histone deacetylase 2 decreases expression ISO Berberine results in decreased expression of HDAC2 mRNA CTD PMID:27311644 NCBI chr20:40,548,244...40,571,609
Ensembl chr20:40,548,250...40,571,609 		JBrowse link
G Hdac5 histone deacetylase 5 increases expression ISO Berberine results in increased expression of HDAC5 mRNA CTD PMID:27311644 NCBI chr10:87,152,978...87,187,921
Ensembl chr10:87,152,978...87,188,235 		JBrowse link
G Hdac8 histone deacetylase 8 decreases expression ISO Berberine results in decreased expression of HDAC8 mRNA CTD PMID:27311644 NCBI chr  X:67,385,288...67,593,014
Ensembl chr  X:67,385,289...67,592,923 		JBrowse link
G Hdac9 histone deacetylase 9 decreases expression
increases expression		 ISO Berberine results in decreased expression of HDAC9 mRNA
Berberine results in increased expression of HDAC9 mRNA		 CTD PMID:27311644 NCBI chr 6:50,762,074...51,624,311
Ensembl chr 6:50,763,590...51,625,333 		JBrowse link
G Hgf hepatocyte growth factor increases expression
multiple interactions		 ISO Berberine results in increased expression of HGF mRNA; Berberine results in increased expression of HGF protein
Berberine inhibits the reaction [Bleomycin results in decreased expression of HGF mRNA]
15-deoxyprostaglandin J2 promotes the reaction [Berberine results in increased expression of HGF mRNA]; 15-deoxyprostaglandin J2 promotes the reaction [Berberine results in increased expression of HGF protein]; 2-chloro-5-nitrobenzanilide inhibits the reaction [Berberine results in increased expression of HGF protein]; Berberine promotes the reaction [15-deoxyprostaglandin J2 results in increased expression of HGF mRNA]; Berberine promotes the reaction [15-deoxyprostaglandin J2 results in increased expression of HGF protein]; Dactinomycin inhibits the reaction [Berberine results in increased expression of HGF protein]; PPARG mRNA promotes the reaction [Berberine results in increased expression of HGF protein]		 CTD PMID:29408570 NCBI chr 4:18,673,736...18,745,582
Ensembl chr 4:18,677,101...18,745,409 		JBrowse link
G Hist1h2af histone cluster 1 H2A family member F decreases expression ISO Berberine results in decreased expression of H2AC8 mRNA CTD PMID:27311644 NCBI chr17:41,379,404...41,379,796
Ensembl chr17:41,379,404...41,379,796 		JBrowse link
G Hist1h2ah histone cluster 1 H2A family member H decreases expression ISO Berberine results in decreased expression of H2AC11 mRNA CTD PMID:27311644 NCBI chr17:41,384,521...41,385,018 JBrowse link
G Hist1h2al1 histone cluster 1 H2A family like 1 decreases expression ISO Berberine results in decreased expression of H2AC6 mRNA CTD PMID:27311644 NCBI chr17:42,707,954...42,708,420 JBrowse link
G Hist1h2bd histone cluster 1 H2B family member D decreases expression ISO Berberine results in decreased expression of H2BC5 mRNA CTD PMID:27311644 NCBI chr17:42,792,887...42,793,268 JBrowse link
G Hist1h2bq histone cluster 1 H2B family member Q decreases expression ISO Berberine results in decreased expression of H2BC7 mRNA CTD PMID:27311644 NCBI chr17:41,432,100...41,441,487
Ensembl chr17:41,429,164...41,442,153 		JBrowse link
G Hist1h4b histone cluster 1 H4 family member B decreases expression ISO Berberine results in decreased expression of H4C9 mRNA CTD PMID:27311644 NCBI chr17:42,480,467...42,484,912
Ensembl chr17:42,480,313...42,485,370 		JBrowse link
G Hist2h2be histone cluster 2 H2B family member E decreases expression ISO Berberine results in decreased expression of H2BC11 mRNA CTD PMID:27311644 NCBI chr 2:183,780,583...183,783,030 JBrowse link
G Hmgb1 high mobility group box 1 multiple interactions ISO Berberine inhibits the reaction [[Water deficiency co-treated with NG-Nitroarginine Methyl Ester co-treated with Indomethacin co-treated with Iohexol] results in increased expression of HMGB1 protein] CTD PMID:38705399 NCBI chr12:5,972,950...5,979,658
Ensembl chr12:5,901,586...5,978,565
Ensembl chr16:5,901,586...5,978,565 		JBrowse link
G Hmox1 heme oxygenase 1 increases expression
multiple interactions		 ISO
EXP		 Berberine results in increased expression of HMOX1 protein
Berberine results in increased expression of HMOX1 mRNA; Berberine results in increased expression of HMOX1 protein
Berberine inhibits the reaction [Particulate Matter results in decreased expression of HMOX1 protein]
Berberine inhibits the reaction [Bortezomib results in increased expression of HMOX1 mRNA]
Berberine promotes the reaction [Glucose results in increased expression of HMOX1 protein]; NFE2L2 mutant form inhibits the reaction [Berberine results in increased expression of HMOX1 protein]		 CTD PMID:23954465 PMID:35121005 PMID:37511356 PMID:37839514 NCBI chr19:13,466,287...13,474,082
Ensembl chr19:13,467,244...13,474,079 		JBrowse link
G Hnf4a hepatocyte nuclear factor 4, alpha multiple interactions EXP
ISO		 Berberine inhibits the reaction [Fructose results in decreased expression of HNF4A mRNA]; Berberine inhibits the reaction [Fructose results in decreased expression of HNF4A protein]
Berberine inhibits the reaction [Ethanol results in decreased expression of HNF4 protein]		 CTD PMID:18563319 PMID:25455889 NCBI chr 3:152,186,787...152,248,320
Ensembl chr 3:152,186,787...152,248,320 		JBrowse link
G Idh3a isocitrate dehydrogenase (NAD(+)) 3 catalytic subunit alpha decreases expression ISO Berberine results in decreased expression of IDH3A mRNA CTD PMID:30818834 NCBI chr 8:54,971,694...54,991,085
Ensembl chr 8:54,971,740...54,991,084 		JBrowse link
G Ifng interferon gamma multiple interactions EXP Berberine inhibits the reaction [Thioacetamide results in increased expression of IFNG mRNA] CTD PMID:30138605 NCBI chr 7:53,903,339...53,907,375
Ensembl chr 7:53,903,337...53,907,375 		JBrowse link
G Igf1r insulin-like growth factor 1 receptor multiple interactions
increases expression		 ISO Berberine inhibits the reaction [Glucose results in decreased expression of IGF1R protein]
Berberine results in increased expression of IGF1R protein		 CTD PMID:23954465 NCBI chr 1:121,549,831...121,838,548
Ensembl chr 1:121,550,743...121,831,777 		JBrowse link
G Igf2bp3 insulin-like growth factor 2 mRNA binding protein 3 multiple interactions
decreases expression		 ISO Berberine inhibits the reaction [[Dextran Sulfate co-treated with azomethane] results in increased expression of IGF2BP3 protein]
[Chloroquine co-treated with Berberine] results in decreased expression of IGF2BP3 protein; Berberine promotes the reaction [IGF2BP3 protein binds to TRIM21 protein]; Cycloheximide promotes the reaction [Berberine results in decreased expression of IGF2BP3 protein]		 CTD PMID:36822301 NCBI chr 4:78,060,494...78,195,007
Ensembl chr 4:78,060,494...78,194,865 		JBrowse link
G Il10 interleukin 10 multiple interactions
increases expression		 ISO
EXP		 Berberine affects the reaction [Lipopolysaccharides affects the expression of IL10 mRNA]
[Berberine co-treated with Thioacetamide] results in increased expression of IL10 mRNA
Berberine results in increased expression of IL10 mRNA		 CTD PMID:21867779 PMID:30138605 NCBI chr13:42,472,625...42,477,308
Ensembl chr13:42,472,839...42,477,313 		JBrowse link
G Il1b interleukin 1 beta multiple interactions ISO
EXP		 Berberine inhibits the reaction [IL1B protein results in increased expression of CCL2 mRNA]; Berberine inhibits the reaction [IL1B protein results in increased expression of CXCL8 mRNA]; Berberine inhibits the reaction [IL1B protein results in increased secretion of CCL2 protein]; Berberine inhibits the reaction [IL1B protein results in increased secretion of CXCL8 protein]
Berberine inhibits the reaction [[Lipopolysaccharides co-treated with Galactosamine] results in increased expression of IL1B mRNA]; Berberine inhibits the reaction [[Lipopolysaccharides co-treated with Galactosamine] results in increased expression of IL1B protein]; Berberine inhibits the reaction [[Water deficiency co-treated with NG-Nitroarginine Methyl Ester co-treated with Indomethacin co-treated with Iohexol] results in increased expression of IL1B mRNA]; Berberine inhibits the reaction [[Water deficiency co-treated with NG-Nitroarginine Methyl Ester co-treated with Indomethacin co-treated with Iohexol] results in increased expression of IL1B protein]; Berberine inhibits the reaction [Particulate Matter results in increased expression of IL1B protein]
Berberine inhibits the reaction [[Cadmium co-treated with Aluminum co-treated with Fluorides] results in increased expression of IL1B protein]; Berberine inhibits the reaction [Bortezomib results in increased expression of IL1B mRNA]; Berberine inhibits the reaction [Thioacetamide results in increased expression of IL1B mRNA]		 CTD PMID:16391493 PMID:29170048 PMID:30138605 PMID:35121005 PMID:35691465 More... NCBI chr 3:116,577,005...116,583,386
Ensembl chr 3:116,577,010...116,583,415 		JBrowse link
G Il2 interleukin 2 increases expression ISO Berberine results in increased expression of IL2 mRNA CTD PMID:21867779 NCBI chr 2:120,004,862...120,009,566
Ensembl chr 2:120,004,862...120,009,566 		JBrowse link
G Il23a interleukin 23 subunit alpha multiple interactions ISO Berberine inhibits the reaction [[lipopolysaccharide, Escherichia coli O111 B4 co-treated with TNF protein] results in increased expression of IL23A mRNA]; Berberine inhibits the reaction [[lipopolysaccharide, Escherichia coli O111 B4 co-treated with TNF protein] results in increased secretion of IL23A protein] CTD PMID:30240693 NCBI chr 7:721,809...723,923
Ensembl chr 7:721,809...723,923 		JBrowse link
G Il4 interleukin 4 multiple interactions
increases expression		 ISO Berberine inhibits the reaction [Lipopolysaccharides results in decreased expression of IL4 mRNA]
Berberine results in increased expression of IL4 mRNA		 CTD PMID:21867779 NCBI chr10:37,771,203...37,776,750
Ensembl chr10:37,771,203...37,776,750 		JBrowse link
G Il6 interleukin 6 multiple interactions EXP
ISO		 Berberine inhibits the reaction [[Cadmium co-treated with Aluminum co-treated with Fluorides] results in increased expression of IL6 protein]; Berberine inhibits the reaction [Bortezomib results in increased expression of IL6 mRNA]; Berberine inhibits the reaction [Thioacetamide results in increased expression of IL6 mRNA]; Berberine inhibits the reaction [Thioacetamide results in increased expression of IL6 protein]
Berberine inhibits the reaction [[lipopolysaccharide, Escherichia coli O111 B4 co-treated with TNF protein] results in increased expression of IL6 mRNA]; Berberine inhibits the reaction [[lipopolysaccharide, Escherichia coli O111 B4 co-treated with TNF protein] results in increased secretion of IL6 protein]; Berberine inhibits the reaction [[Lipopolysaccharides co-treated with Galactosamine] results in increased expression of IL6 mRNA]; Berberine inhibits the reaction [[Lipopolysaccharides co-treated with Galactosamine] results in increased expression of IL6 protein]; Berberine inhibits the reaction [[Water deficiency co-treated with NG-Nitroarginine Methyl Ester co-treated with Indomethacin co-treated with Iohexol] results in increased expression of IL6 mRNA]; Berberine inhibits the reaction [Particulate Matter results in increased expression of IL6 protein]
Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased expression of IL6 protein]; Berberine inhibits the reaction [Mustard Gas results in increased secretion of IL6 protein]; KPNA4 protein inhibits the reaction [Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased expression of IL6 protein]]; LINC00943 inhibits the reaction [Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased expression of IL6 protein]]; MIR142 affects the reaction [Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased expression of IL6 protein]]		 CTD PMID:28916288 PMID:29170048 PMID:30138605 PMID:30240693 PMID:34427876 More... NCBI chr 4:5,214,602...5,219,178
Ensembl chr 4:5,213,394...5,219,178 		JBrowse link
G Ins2 insulin 2 multiple interactions EXP [Berberine co-treated with Streptozocin] results in increased secretion of INS protein CTD PMID:15066220 NCBI chr 1:197,843,277...197,992,522
Ensembl chr 1:197,843,281...197,864,775 		JBrowse link
G Itga1 integrin subunit alpha 1 increases expression ISO Berberine results in increased expression of ITGA1 mRNA CTD PMID:26478571 NCBI chr 2:46,646,125...46,812,237
Ensembl chr 2:46,653,193...46,812,238 		JBrowse link
G Itgb4 integrin subunit beta 4 increases expression ISO berberine increases expression of ITGB4 protein in colon epithelial cells RGD PMID:29564000 RGD:152995489 NCBI chr10:101,206,657...101,243,012
Ensembl chr10:101,206,665...101,243,012 		JBrowse link
G Jun Jun proto-oncogene, AP-1 transcription factor subunit affects localization
multiple interactions		 EXP Berberine affects the localization of JUN protein
arsenic trioxide promotes the reaction [Berberine affects the localization of JUN protein]		 CTD PMID:18294404 NCBI chr 5:109,894,175...109,897,268
Ensembl chr 5:109,893,145...109,897,656 		JBrowse link
G Kcnh2 potassium voltage-gated channel subfamily H member 2 decreases activity
multiple interactions		 EXP Berberine results in decreased activity of KCNH2 protein
Berberine promotes the reaction [Atorvastatin results in decreased activity of KCNH2 protein]; Berberine promotes the reaction [Simvastatin results in decreased activity of KCNH2 protein]		 CTD PMID:30086269 NCBI chr 4:10,826,834...10,859,009
Ensembl chr 4:10,826,928...10,859,008 		JBrowse link
G Kdm1a lysine demethylase 1A increases expression ISO Berberine results in increased expression of KDM1A mRNA CTD PMID:27311644 NCBI chr 5:148,782,976...148,838,319
Ensembl chr 5:148,782,976...148,838,319 		JBrowse link
G Kdm4a lysine demethylase 4A increases expression ISO Berberine results in increased expression of KDM4A mRNA CTD PMID:27311644 NCBI chr 5:131,672,754...131,719,534
Ensembl chr 5:131,672,754...131,719,501 		JBrowse link
G Kdm5b lysine demethylase 5B increases expression ISO Berberine results in increased expression of KDM5B mRNA CTD PMID:27311644 NCBI chr13:46,001,589...46,073,868
Ensembl chr13:46,002,542...46,073,872 		JBrowse link
G Kdm6a lysine demethylase 6A increases expression ISO Berberine results in increased expression of KDM6A mRNA CTD PMID:27311644 NCBI chr  X:4,337,466...4,477,100
Ensembl chr  X:4,337,750...4,477,062 		JBrowse link
G Kdm6b lysine demethylase 6B increases expression ISO Berberine results in increased expression of KDM6B mRNA CTD PMID:27311644 NCBI chr10:54,120,716...54,142,212
Ensembl chr10:54,121,848...54,130,794 		JBrowse link
G Kmt5a lysine methyltransferase 5A increases expression ISO Berberine results in increased expression of KMT5A mRNA CTD PMID:27311644 NCBI chr12:32,139,353...32,167,777
Ensembl chr12:32,139,178...32,162,711 		JBrowse link
G Kpna4 karyopherin subunit alpha 4 multiple interactions ISO Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased expression of KPNA4 protein]; KPNA4 protein inhibits the reaction [Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased expression of IL6 protein]]; KPNA4 protein inhibits the reaction [Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased expression of KPNA4 protein]]; KPNA4 protein inhibits the reaction [Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased expression of TNF protein]]; KPNA4 protein inhibits the reaction [Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased phosphorylation of NFKBIA protein]]; KPNA4 protein inhibits the reaction [Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased phosphorylation of RELA protein]]; LINC00943 inhibits the reaction [Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased expression of KPNA4 protein]]; MIR142 affects the reaction [Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased expression of KPNA4 protein]] CTD PMID:34427876 NCBI chr 2:153,319,380...153,381,085
Ensembl chr 2:153,324,273...153,381,081 		JBrowse link
G Ldlr low density lipoprotein receptor multiple interactions
increases expression		 ISO
EXP		 Berberine inhibits the reaction [Clozapine results in increased expression of LDLR mRNA]; Berberine inhibits the reaction [Risperidone results in increased expression of LDLR mRNA]
Berberine results in increased expression of LDLR mRNA
Berberine promotes the reaction [Simvastatin results in increased expression of LDLR mRNA]; Simvastatin promotes the reaction [Berberine results in increased expression of LDLR mRNA]		 CTD PMID:18640378 PMID:20564506 NCBI chr 8:20,270,020...20,292,981
Ensembl chr 8:20,270,041...20,294,580 		JBrowse link
G Map1lc3b microtubule-associated protein 1 light chain 3 beta multiple interactions
increases localization		 ISO
EXP		 [Berberine co-treated with Cisplatin] results in increased lipidation of MAP1LC3B protein; Berberine results in increased expression of and results in increased lipidation of MAP1LC3B protein; BNIP3L protein affects the reaction [[Berberine co-treated with Cisplatin] results in increased lipidation of MAP1LC3B protein]; FUNDC1 protein affects the reaction [[Berberine co-treated with Cisplatin] results in increased lipidation of MAP1LC3B protein]
Berberine results in increased localization of MAP1LC3B protein
Berberine inhibits the reaction [Chlorpyrifos results in decreased expression of MAP1LC3B mRNA]		 CTD PMID:35439518 PMID:36070022 NCBI chr19:49,665,795...49,673,655
Ensembl chr19:49,665,791...49,677,690 		JBrowse link
G Map3k5 mitogen-activated protein kinase kinase kinase 5 multiple interactions ISO Berberine inhibits the reaction [[lipopolysaccharide, Escherichia coli O111 B4 co-treated with TNF protein] results in decreased expression of and results in increased phosphorylation of MAP3K5 protein] CTD PMID:30240693 NCBI chr 1:14,685,776...14,904,935
Ensembl chr 1:14,685,492...14,904,800 		JBrowse link
G Mapk1 mitogen activated protein kinase 1 decreases phosphorylation EXP Berberine results in decreased phosphorylation of MAPK1 protein CTD PMID:18294404 NCBI chr11:83,957,813...84,023,629
Ensembl chr11:83,957,813...84,023,616 		JBrowse link
G Mapk3 mitogen activated protein kinase 3 decreases phosphorylation
multiple interactions		 EXP
ISO		 Berberine results in decreased phosphorylation of MAPK3 protein
Berberine inhibits the reaction [Dexamethasone results in decreased expression of MAPK3 mRNA]		 CTD PMID:18294404 PMID:20462044 NCBI chr 1:181,366,646...181,372,863
Ensembl chr 1:181,366,637...181,372,863 		JBrowse link
G Mapk8 mitogen-activated protein kinase 8 multiple interactions ISO [Berberine co-treated with Cisplatin] results in increased phosphorylation of MAPK8 protein; Acetylcysteine inhibits the reaction [[Berberine co-treated with Cisplatin] results in increased phosphorylation of MAPK8 protein] CTD PMID:36070022 NCBI chr16:8,638,897...8,721,960
Ensembl chr16:8,638,924...8,721,981 		JBrowse link
G Mapt microtubule-associated protein tau multiple interactions EXP Berberine inhibits the reaction [[Cadmium co-treated with Aluminum co-treated with Fluorides] results in increased expression of MAPT mRNA] CTD PMID:29170048 NCBI chr10:89,138,644...89,236,137
Ensembl chr10:89,138,627...89,236,129 		JBrowse link
G Mcm2 minichromosome maintenance complex component 2 multiple interactions ISO Berberine inhibits the reaction [Dexamethasone results in increased expression of MCM2 mRNA] CTD PMID:20462044 NCBI chr 4:121,346,434...121,360,962
Ensembl chr 4:121,346,434...121,360,847 		JBrowse link
G Mir142 microRNA 142 multiple interactions ISO Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in decreased expression of MIR142 mRNA]; MIR142 affects the reaction [Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased expression of IL6 protein]]; MIR142 affects the reaction [Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased expression of KPNA4 protein]]; MIR142 affects the reaction [Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased expression of TNF protein]] CTD PMID:34427876 NCBI chr10:72,557,864...72,557,950
Ensembl chr10:72,557,857...72,557,967 		JBrowse link
G Mir19a microRNA 19a decreases expression ISO Berberine results in decreased expression of MIR19A mRNA CTD PMID:29687521 NCBI chr15:92,180,912...92,180,993
Ensembl chr15:92,180,912...92,180,993 		JBrowse link
G Mir21 microRNA 21 decreases expression ISO berberine decreases expression of MIR21 RNA in colon epithelial cell RGD PMID:29564000 RGD:152995489 NCBI chr10:71,405,257...71,405,348
Ensembl chr10:71,405,257...71,405,348 		JBrowse link
G Mir92a1 microRNA 92a-1 decreases expression ISO Berberine results in decreased expression of MIR92A1 mRNA CTD PMID:29687521 NCBI chr15:92,181,336...92,181,413
Ensembl chr15:92,181,336...92,181,413 		JBrowse link
G Mmp13 matrix metallopeptidase 13 increases expression ISO Berberine results in increased expression of MMP13 mRNA CTD PMID:26478571 NCBI chr 8:4,497,960...4,508,239
Ensembl chr 8:4,497,960...4,508,239 		JBrowse link
G Mmp14 matrix metallopeptidase 14 multiple interactions
decreases expression		 EXP arsenic trioxide promotes the reaction [Berberine results in decreased expression of MMP14 protein] CTD PMID:18294404 NCBI chr15:27,887,795...27,897,020
Ensembl chr15:27,887,727...27,899,864 		JBrowse link
G Mmp2 matrix metallopeptidase 2 multiple interactions
decreases activity
decreases expression		 ISO
EXP		 2-(4-morpholinyl)-8-phenyl-4H-1-benzopyran-4-one inhibits the reaction [EGF protein inhibits the reaction [Berberine results in decreased activity of MMP2 protein]]; Arsenic Trioxide promotes the reaction [Berberine results in decreased activity of MMP2 protein]; Berberine promotes the reaction [Arsenic Trioxide results in decreased activity of MMP2 protein]; EGF protein inhibits the reaction [Berberine results in decreased activity of MMP2 protein]
Berberine results in decreased expression of MMP2 protein
arsenic trioxide promotes the reaction [Berberine results in decreased activity of MMP2 protein]; arsenic trioxide promotes the reaction [Berberine results in decreased expression of MMP2 protein]; Berberine promotes the reaction [arsenic trioxide results in decreased activity of MMP2 protein]		 CTD PMID:18294404 PMID:33325633 NCBI chr19:14,154,657...14,182,870
Ensembl chr19:14,154,657...14,182,870 		JBrowse link
G Mmp9 matrix metallopeptidase 9 decreases activity
multiple interactions		 ISO Berberine results in decreased activity of MMP9 protein
2-(4-morpholinyl)-8-phenyl-4H-1-benzopyran-4-one inhibits the reaction [EGF protein inhibits the reaction [Berberine results in decreased activity of MMP9 protein]]; EGF protein inhibits the reaction [Berberine results in decreased activity of MMP9 protein]		 CTD PMID:33325633 NCBI chr 3:153,684,158...153,692,118
Ensembl chr 3:153,683,858...153,692,120 		JBrowse link
G Mpo myeloperoxidase multiple interactions ISO Berberine inhibits the reaction [Lipopolysaccharides results in increased expression of MPO protein] CTD PMID:21963898 NCBI chr10:72,594,883...72,608,862
Ensembl chr10:72,594,661...72,604,819 		JBrowse link
G Mt-co1 mitochondrially encoded cytochrome c oxidase I multiple interactions EXP Berberine inhibits the reaction [acetamiprid results in decreased expression of COX1 mRNA] CTD PMID:37350525 NCBI chr MT:5,323...6,867
NCBI chr MT:5,323...6,867
NCBI chr MT:5,323...6,867
NCBI chr MT:5,323...6,867
NCBI chr MT:5,323...6,867
NCBI chr MT:5,323...6,867
NCBI chr MT:5,323...6,867
Ensembl chr MT:5,323...6,867 		JBrowse link
G Mt-nd1 mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 1 multiple interactions EXP Berberine inhibits the reaction [acetamiprid results in decreased expression of ND1 mRNA] CTD PMID:37350525 NCBI chr MT:2,740...3,694
NCBI chr MT:2,740...3,694
NCBI chr MT:2,740...3,694
NCBI chr MT:2,740...3,694
NCBI chr MT:2,740...3,694
NCBI chr MT:2,740...3,694
NCBI chr MT:2,740...3,694
NCBI chr MT:2,740...3,694
NCBI chr MT:2,740...3,694
Ensembl chr MT:2,740...3,694 		JBrowse link
G Mt-nd2 mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 2 multiple interactions EXP Berberine inhibits the reaction [acetamiprid results in decreased expression of ND2 mRNA] CTD PMID:37350525 NCBI chr MT:3,904...4,942
NCBI chr MT:3,904...4,942
NCBI chr MT:3,904...4,942
NCBI chr MT:3,904...4,942
NCBI chr MT:3,904...4,942
NCBI chr MT:3,904...4,942
NCBI chr MT:3,904...4,942
NCBI chr MT:3,904...4,942
NCBI chr MT:3,904...4,942
Ensembl chr MT:3,904...4,942 		JBrowse link
G Mtor mechanistic target of rapamycin kinase multiple interactions EXP Berberine inhibits the reaction [Chlorpyrifos results in increased expression of MTOR mRNA]; Berberine inhibits the reaction [Chlorpyrifos results in increased expression of MTOR protein] CTD PMID:35439518 NCBI chr 5:158,884,856...158,994,311
Ensembl chr 5:158,884,804...158,994,311 		JBrowse link
G Mttp microsomal triglyceride transfer protein multiple interactions ISO Berberine inhibits the reaction [Ethanol results in decreased expression of MTTP protein] CTD PMID:25455889 NCBI chr 2:226,613,090...226,654,239
Ensembl chr 2:226,613,090...226,654,239 		JBrowse link
G Myc MYC proto-oncogene, bHLH transcription factor multiple interactions
affects localization		 EXP arsenic trioxide promotes the reaction [Berberine affects the localization of MYC protein] CTD PMID:18294404 NCBI chr 7:93,593,705...93,598,633
Ensembl chr 7:93,593,705...93,598,630 		JBrowse link
G Nampt nicotinamide phosphoribosyltransferase multiple interactions
decreases expression		 ISO [Berberine co-treated with Niacinamide] results in decreased expression of NAMPT protein; SRT1720 inhibits the reaction [Berberine results in decreased expression of NAMPT protein] CTD PMID:26712469 NCBI chr 6:49,425,316...49,462,109
Ensembl chr 6:49,424,332...49,462,100 		JBrowse link
G Ncf1 neutrophil cytosolic factor 1 multiple interactions ISO Berberine promotes the reaction [CYBB protein binds to NCF1 protein binds to NCF2 protein binds to RAC2 protein]; Berberine promotes the reaction [CYBB protein binds to NCF1 protein] CTD PMID:36070022 NCBI chr12:22,485,382...22,494,647
Ensembl chr12:22,485,451...22,494,646 		JBrowse link
G Ncf2 neutrophil cytosolic factor 2 multiple interactions ISO Berberine promotes the reaction [CYBB protein binds to NCF1 protein binds to NCF2 protein binds to RAC2 protein]; Berberine promotes the reaction [CYBB protein binds to NCF2 protein] CTD PMID:36070022 NCBI chr13:64,955,622...64,986,144
Ensembl chr13:64,955,503...64,986,277 		JBrowse link
G Nfe2l2 NFE2 like bZIP transcription factor 2 increases expression
multiple interactions
increases activity		 ISO
EXP		 Berberine results in increased expression of NFE2L2 protein
Berberine inhibits the reaction [Particulate Matter results in decreased expression of NFE2L2 protein]
Berberine results in increased activity of NFE2L2 protein
Berberine inhibits the reaction [Bortezomib results in increased expression of NFE2L2 mRNA]; Berberine promotes the reaction [Bleomycin results in increased expression of NFE2L2 protein]
NFE2L2 mutant form inhibits the reaction [Berberine inhibits the reaction [Glucose results in increased abundance of Reactive Oxygen Species]]; NFE2L2 mutant form inhibits the reaction [Berberine results in increased expression of HMOX1 protein]; NFE2L2 mutant form inhibits the reaction [Berberine results in increased expression of NGF protein]		 CTD PMID:23523906 PMID:23954465 PMID:30818834 PMID:35121005 PMID:37839514 NCBI chr 3:60,594,239...60,621,712
Ensembl chr 3:60,594,242...60,621,737 		JBrowse link
G Nfkb1 nuclear factor kappa B subunit 1 multiple interactions EXP Berberine inhibits the reaction [Bortezomib results in increased expression of NFKB1 mRNA] CTD PMID:35121005 NCBI chr 2:224,016,214...224,132,135
Ensembl chr 2:224,016,214...224,110,404 		JBrowse link
G Nfkbia NFKB inhibitor alpha multiple interactions ISO Berberine inhibits the reaction [Lipopolysaccharides results in increased phosphorylation of NFKBIA protein]
Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased phosphorylation of NFKBIA protein]; KPNA4 protein inhibits the reaction [Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased phosphorylation of NFKBIA protein]]		 CTD PMID:21963898 PMID:34427876 NCBI chr 6:72,858,713...72,861,941
Ensembl chr 6:72,858,712...72,861,941 		JBrowse link
G Ngf nerve growth factor multiple interactions ISO Berberine inhibits the reaction [Glucose results in decreased expression of NGF protein]; NFE2L2 mutant form inhibits the reaction [Berberine results in increased expression of NGF protein] CTD PMID:23954465 NCBI chr 2:189,901,058...189,954,452
Ensembl chr 2:189,901,058...189,954,452 		JBrowse link
G Nlrp3 NLR family, pyrin domain containing 3 multiple interactions EXP
ISO		 Berberine inhibits the reaction [Bortezomib results in increased expression of NLRP3 mRNA]
Berberine inhibits the reaction [[Water deficiency co-treated with NG-Nitroarginine Methyl Ester co-treated with Indomethacin co-treated with Iohexol] results in increased expression of NLRP3 mRNA]; Berberine inhibits the reaction [[Water deficiency co-treated with NG-Nitroarginine Methyl Ester co-treated with Indomethacin co-treated with Iohexol] results in increased expression of NLRP3 protein]		 CTD PMID:35121005 PMID:38705399 NCBI chr10:44,326,770...44,353,814
Ensembl chr10:44,328,566...44,352,811 		JBrowse link
G Nos2 nitric oxide synthase 2 multiple interactions ISO
EXP		 Berberine inhibits the reaction [Carbon Tetrachloride results in increased expression of NOS2 protein]
Berberine inhibits the reaction [Bleomycin results in increased expression of NOS2 protein]		 CTD PMID:21095217 PMID:23523906 NCBI chr10:63,815,308...63,851,208
Ensembl chr10:63,815,308...63,851,210 		JBrowse link
G Nqo1 NAD(P)H quinone dehydrogenase 1 multiple interactions IEP
EXP		 Berberine reverses reaction [Carbon tetrachloride decreases Nqo1 mRNA in liver]
Berberine inhibits the reaction [Bortezomib results in increased expression of NQO1 mRNA]		 CTD
RGD		 PMID:35121005 PMID:31432116 RGD:25823187 NCBI chr19:35,295,633...35,310,528
Ensembl chr19:35,295,573...35,310,557 		JBrowse link
G Nr1h3 nuclear receptor subfamily 1, group H, member 3 increases localization ISO Berberine increases localization of NR1H3 protein in macrophage nucleus RGD PMID:20506155 RGD:401827279 NCBI chr 3:77,158,808...77,168,907
Ensembl chr 3:77,158,808...77,168,722 		JBrowse link
G Nr1i2 nuclear receptor subfamily 1, group I, member 2 increases activity
multiple interactions		 ISO Berberine results in increased activity of NR1I2 protein
[Berberine results in increased activity of NR1I2 protein] which results in increased expression of CYP3A4 mRNA		 CTD PMID:21524698 NCBI chr11:62,460,213...62,496,665
Ensembl chr11:62,460,213...62,496,658 		JBrowse link
G Nr1i3 nuclear receptor subfamily 1, group I, member 3 increases activity ISO Berberine results in increased activity of NR1I3 protein CTD PMID:30818834 NCBI chr13:83,632,940...83,638,193
Ensembl chr13:83,632,899...83,637,906 		JBrowse link
G Nsd2 nuclear receptor binding SET domain protein 2 decreases expression ISO Berberine results in decreased expression of NSD2 mRNA CTD PMID:27311644 NCBI chr14:76,833,179...76,911,304
Ensembl chr14:76,835,637...76,913,641 		JBrowse link
G Odc1 ornithine decarboxylase 1 multiple interactions
decreases expression		 EXP arsenic trioxide promotes the reaction [Berberine results in decreased expression of ODC1 protein] CTD PMID:18294404 NCBI chr 6:40,329,831...40,336,444
Ensembl chr 6:40,329,964...40,336,440 		JBrowse link
G Omd osteomodulin increases expression ISO Berberine results in increased expression of OMD mRNA CTD PMID:26478571 NCBI chr17:15,060,217...15,068,441
Ensembl chr17:15,060,217...15,068,441 		JBrowse link
G P2rx7 purinergic receptor P2X 7 multiple interactions ISO Berberine affects the reaction [3'-O-(4-benzoyl)benzoyladenosine 5'-triphosphate results in increased activity of P2RX7 protein] CTD PMID:21320518 NCBI chr12:33,889,709...33,934,168
Ensembl chr12:33,879,745...33,934,619 		JBrowse link
G Parp1 poly (ADP-ribose) polymerase 1 increases cleavage
multiple interactions		 ISO Berberine results in increased cleavage of PARP1 protein
[Berberine co-treated with Cisplatin] results in increased cleavage of PARP1 protein; [Berberine co-treated with Niacinamide] results in increased cleavage of PARP1 protein; Acetylcysteine inhibits the reaction [[Berberine co-treated with Cisplatin] results in increased cleavage of PARP1 protein]		 CTD PMID:16505103 PMID:26712469 PMID:36070022 NCBI chr13:92,307,593...92,339,406
Ensembl chr13:92,307,586...92,339,404 		JBrowse link
G Pdcd4 programmed cell death 4 increases expression ISO Berberine increases expression of PDCD4 protein in colon epithelial cells RGD PMID:29564000 RGD:152995489 NCBI chr 1:252,921,342...252,944,278
Ensembl chr 1:252,921,392...252,944,275 		JBrowse link
G Pdk4 pyruvate dehydrogenase kinase 4 increases expression ISO Berberine results in increased expression of PDK4 mRNA CTD PMID:37511356 NCBI chr 4:33,591,796...33,601,798
Ensembl chr 4:33,589,799...33,601,850 		JBrowse link
G Ppara peroxisome proliferator activated receptor alpha multiple interactions ISO
EXP		 Berberine inhibits the reaction [Ethanol results in decreased expression of PPARA mRNA]
Berberine inhibits the reaction [[Streptozocin co-treated with Dietary Fats co-treated with Dietary Carbohydrates] results in increased expression of PPARA protein]		 CTD PMID:18338635 PMID:25455889 NCBI chr 7:116,832,405...116,900,878
Ensembl chr 7:116,832,756...116,895,346 		JBrowse link
G Ppard peroxisome proliferator-activated receptor delta increases activity
multiple interactions
increases expression		 ISO
EXP		 Berberine results in increased activity of PPARD protein
Berberine inhibits the reaction [[Streptozocin co-treated with Dietary Fats co-treated with Dietary Carbohydrates] results in increased expression of PPARD protein]
Berberine results in increased expression of PPARD mRNA; Berberine results in increased expression of PPARD protein		 CTD PMID:18338635 PMID:37511356 NCBI chr20:6,298,785...6,363,970
Ensembl chr20:6,298,785...6,363,968 		JBrowse link
G Pparg peroxisome proliferator-activated receptor gamma multiple interactions
decreases expression
increases response to substance
increases expression		 ISO
EXP		 Berberine inhibits the reaction [Clozapine results in increased expression of PPARG mRNA]; Berberine inhibits the reaction [Clozapine results in increased expression of PPARG protein]; Berberine inhibits the reaction [Particulate Matter results in decreased expression of PPARG mRNA]; Berberine inhibits the reaction [Risperidone results in increased expression of PPARG mRNA]; Berberine inhibits the reaction [Risperidone results in increased expression of PPARG protein]
Berberine inhibits the reaction [[Streptozocin co-treated with Dietary Fats co-treated with Dietary Carbohydrates] results in decreased expression of PPARG protein]
Berberine results in decreased expression of PPARG mRNA; Berberine results in decreased expression of PPARG protein
15-deoxyprostaglandin J2 promotes the reaction [Berberine affects the localization of and results in increased activity of PPARG protein]; Berberine inhibits the reaction [Bleomycin binds to PPARG protein]; Berberine promotes the reaction [15-deoxyprostaglandin J2 affects the localization of and results in increased activity of PPARG protein]; Berberine results in increased activity of and affects the localization of PPARG protein; PPARG mRNA promotes the reaction [Berberine results in increased expression of HGF protein]
PPARG mRNA results in increased susceptibility to Berberine
Berberine results in increased expression of PPARG mRNA		 CTD PMID:18338635 PMID:20564506 PMID:26478571 PMID:29408570 PMID:37511356 More... NCBI chr 4:148,423,102...148,548,471
Ensembl chr 4:148,423,194...148,548,468 		JBrowse link
G Ppargc1a PPARG coactivator 1 alpha multiple interactions ISO Berberine inhibits the reaction [Ethanol results in decreased expression of PPARGC1A mRNA] CTD PMID:25455889 NCBI chr14:58,860,752...59,516,525
Ensembl chr14:58,861,144...59,512,656 		JBrowse link
G Prg4 proteoglycan 4 decreases expression ISO Berberine results in decreased expression of PRG4 mRNA CTD PMID:26478571 NCBI chr13:62,487,257...62,504,657
Ensembl chr13:62,487,257...62,504,119 		JBrowse link
G Prkaa1 protein kinase AMP-activated catalytic subunit alpha 1 increases phosphorylation ISO Berberine results in increased phosphorylation of PRKAA1 protein CTD PMID:28298333 NCBI chr 2:54,240,298...54,275,978
Ensembl chr 2:54,240,137...54,275,978 		JBrowse link
G Prkca protein kinase C, alpha multiple interactions EXP arsenic trioxide promotes the reaction [Berberine results in decreased activity of PRKCA protein]; Berberine results in decreased activity of and affects the localization of PRKCA protein CTD PMID:18294404 NCBI chr10:92,889,390...93,288,013
Ensembl chr10:92,894,012...93,288,012 		JBrowse link
G Prkce protein kinase C, epsilon multiple interactions
decreases activity		 EXP arsenic trioxide promotes the reaction [Berberine results in decreased activity of PRKCE protein]; Berberine results in decreased activity of and affects the localization of PRKCE protein CTD PMID:18294404 NCBI chr 6:7,965,048...8,451,966
Ensembl chr 6:7,965,048...8,451,719 		JBrowse link
G Prmt1 protein arginine methyltransferase 1 decreases expression ISO Berberine results in decreased expression of PRMT1 mRNA CTD PMID:27311644 NCBI chr 1:95,458,853...95,468,176
Ensembl chr 1:95,458,850...95,468,345 		JBrowse link
G Prmt2 protein arginine methyltransferase 2 increases expression ISO Berberine results in increased expression of PRMT2 mRNA CTD PMID:27311644 NCBI chr20:12,394,748...12,420,643
Ensembl chr20:12,394,798...12,420,643 		JBrowse link
G Prmt5 protein arginine methyltransferase 5 increases expression ISO Berberine results in increased expression of PRMT5 mRNA CTD PMID:27311644 NCBI chr15:27,968,893...27,978,291
Ensembl chr15:27,968,910...27,978,296 		JBrowse link
G Prmt6 protein arginine methyltransferase 6 increases expression ISO Berberine results in increased expression of PRMT6 mRNA CTD PMID:27311644 NCBI chr 2:197,927,750...197,932,760
Ensembl chr 2:197,927,220...197,933,648 		JBrowse link
G Prmt7 protein arginine methyltransferase 7 increases expression ISO Berberine results in increased expression of PRMT7 mRNA CTD PMID:27311644 NCBI chr19:34,110,724...34,161,531
Ensembl chr19:34,110,747...34,162,577 		JBrowse link
G Prmt8 protein arginine methyltransferase 8 increases expression ISO Berberine results in increased expression of PRMT8 mRNA CTD PMID:27311644 NCBI chr 4:160,535,813...160,618,193
Ensembl chr 4:160,535,813...160,617,930 		JBrowse link
G Pten phosphatase and tensin homolog multiple interactions
increases expression		 ISO ((3Z)-N-(3-chlorophenyl)-3-((3,5-dimethyl-4-((4-methylpiperazin-1-yl)carbonyl)-1H-pyrrol-2-yl)methylene)-N-methyl-2-oxo-2,3-dihydro-1H-indole-5-sulfonamide) inhibits the reaction [Berberine inhibits the reaction [Bleomycin results in decreased expression of PTEN mRNA]]; Berberine inhibits the reaction [Bleomycin results in decreased expression of PTEN mRNA]; Berberine inhibits the reaction [Bleomycin results in decreased expression of PTEN protein]
Berberine results in increased expression of PTEN protein		 CTD PMID:29408570 NCBI chr 1:230,630,443...230,697,070
Ensembl chr 1:230,630,338...230,696,838 		JBrowse link
G Ptgs2 prostaglandin-endoperoxide synthase 2 multiple interactions ISO Berberine inhibits the reaction [Carbon Tetrachloride results in increased expression of PTGS2 protein] CTD PMID:21095217 NCBI chr13:62,163,936...62,172,193
Ensembl chr13:62,163,932...62,172,188 		JBrowse link
G Pycard PYD and CARD domain containing multiple interactions ISO Berberine inhibits the reaction [[Water deficiency co-treated with NG-Nitroarginine Methyl Ester co-treated with Indomethacin co-treated with Iohexol] results in increased expression of PYCARD mRNA] CTD PMID:38705399 NCBI chr 1:182,601,657...182,603,013
Ensembl chr 1:182,601,174...182,602,955 		JBrowse link
G Rac2 Rac family small GTPase 2 multiple interactions ISO Berberine promotes the reaction [CYBB protein binds to NCF1 protein binds to NCF2 protein binds to RAC2 protein]; Berberine promotes the reaction [CYBB protein binds to RAC2 protein]; Berberine results in increased expression of and results in increased activity of RAC2 protein CTD PMID:36070022 NCBI chr 7:110,101,344...110,128,718
Ensembl chr 7:110,116,260...110,128,720 		JBrowse link
G Rbp4 retinol binding protein 4 multiple interactions EXP Berberine inhibits the reaction [[Dietary Fats co-treated with Streptozocin] results in increased secretion of RBP4 protein] CTD PMID:19080170 NCBI chr 1:235,893,917...235,901,315
Ensembl chr 1:235,893,917...235,901,399 		JBrowse link
G Rela RELA proto-oncogene, NF-kB subunit multiple interactions EXP
ISO		 Berberine inhibits the reaction [Bleomycin affects the localization of and results in increased expression of RELA protein]
Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased phosphorylation of RELA protein]; KPNA4 protein inhibits the reaction [Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased phosphorylation of RELA protein]]		 CTD PMID:23523906 PMID:34427876 NCBI chr 1:202,925,001...202,935,484
Ensembl chr 1:202,924,945...202,935,484 		JBrowse link
G Rln1 relaxin 1 affects binding
increases expression
multiple interactions		 EXP Berberine binds to RLN1 promoter
Berberine results in increased expression of RLN1 mRNA
[Berberine binds to RLN1 promoter] which results in increased expression of RLN1 mRNA		 CTD PMID:22363579 NCBI chr 1:227,079,960...227,082,960
Ensembl chr 1:227,079,966...227,082,882 		JBrowse link
G Rps6 ribosomal protein S6 decreases phosphorylation ISO Berberine results in decreased phosphorylation of RPS6 protein CTD PMID:23363784 NCBI chr 5:101,371,716...101,374,576
Ensembl chr 5:101,371,136...101,374,602
Ensembl chr 5:101,371,136...101,374,602 		JBrowse link
G Runx2 RUNX family transcription factor 2 multiple interactions
increases expression		 ISO CTNNB1 mutant form inhibits the reaction [Berberine results in increased expression of RUNX2 mRNA]; DKK1 protein inhibits the reaction [Berberine results in increased expression of RUNX2 mRNA] CTD PMID:26478571 NCBI chr 9:16,167,504...16,492,826
Ensembl chr 9:16,167,482...16,492,167 		JBrowse link
G Setd1b SET domain containing 1B, histone lysine methyltransferase increases expression ISO Berberine results in increased expression of SETD1B mRNA CTD PMID:27311644 NCBI chr12:33,395,963...33,421,671
Ensembl chr12:33,396,120...33,426,934 		JBrowse link
G Setd2 SET domain containing 2, histone lysine methyltransferase increases expression ISO Berberine results in increased expression of SETD2 mRNA CTD PMID:27311644 NCBI chr 8:110,511,808...110,597,475
Ensembl chr 8:110,511,772...110,597,489 		JBrowse link
G Setd3 SET domain containing 3, actin N3(tau)-histidine methyltransferase increases expression ISO Berberine results in increased expression of SETD3 mRNA CTD PMID:27311644 NCBI chr 6:127,023,058...127,090,020
Ensembl chr 6:127,023,058...127,090,008 		JBrowse link
G Setd5 SET domain containing 5 increases expression ISO Berberine results in increased expression of SETD5 mRNA CTD PMID:27311644 NCBI chr 4:146,217,172...146,294,896
Ensembl chr 4:146,217,180...146,294,894 		JBrowse link
G Setd6 SET domain containing 6, protein lysine methyltransferase increases expression ISO Berberine results in increased expression of SETD6 mRNA CTD PMID:27311644 NCBI chr19:9,343,309...9,350,477
Ensembl chr19:9,347,458...9,350,453 		JBrowse link
G Setd7 SET domain containing 7, histone lysine methyltransferase increases expression ISO Berberine results in increased expression of SETD7 mRNA CTD PMID:27311644 NCBI chr 2:135,562,683...135,605,468
Ensembl chr 2:135,562,683...135,605,468 		JBrowse link
G Setdb1 SET domain bifurcated histone lysine methyltransferase 1 increases expression ISO Berberine results in increased expression of SETDB1 mRNA CTD PMID:27311644 NCBI chr 2:182,898,738...182,930,283
Ensembl chr 2:182,898,738...182,930,506 		JBrowse link
G Setdb2 SET domain bifurcated histone lysine methyltransferase 2 increases expression ISO Berberine results in increased expression of SETDB2 mRNA CTD PMID:27311644 NCBI chr15:33,553,657...33,606,586
Ensembl chr15:33,453,952...33,606,470 		JBrowse link
G Si sucrase-isomaltase decreases expression
multiple interactions		 ISO
EXP		 Berberine results in decreased expression of SI mRNA
N-(2-(4-bromocinnamylamino)ethyl)-5-isoquinolinesulfonamide inhibits the reaction [Berberine results in decreased expression of SI mRNA]		 CTD PMID:20229011 NCBI chr 2:157,505,893...157,586,228
Ensembl chr 2:157,506,342...157,585,260 		JBrowse link
G Sirt1 sirtuin 1 decreases expression
multiple interactions		 ISO
EXP		 Berberine results in decreased expression of SIRT1 mRNA; Berberine results in decreased expression of SIRT1 protein
Berberine inhibits the reaction [Bortezomib results in decreased expression of SIRT1 protein]
[Berberine co-treated with Niacinamide] results in decreased expression of SIRT1 protein; SRT1720 inhibits the reaction [Berberine results in decreased expression of SIRT1 protein]		 CTD PMID:26712469 PMID:35121005 NCBI chr20:25,307,225...25,329,273
Ensembl chr20:25,306,917...25,329,260 		JBrowse link
G Sirt2 sirtuin 2 multiple interactions ISO [Berberine co-treated with Niacinamide] results in decreased expression of SIRT2 protein CTD PMID:26712469 NCBI chr 1:84,053,883...84,076,975
Ensembl chr 1:84,052,903...84,076,975 		JBrowse link
G Sirt3 sirtuin 3 multiple interactions
increases expression
decreases expression		 ISO [Berberine co-treated with Niacinamide] results in decreased expression of SIRT3 protein
Berberine results in increased expression of SIRT3 mRNA
Berberine results in decreased expression of SIRT3 mRNA; Berberine results in decreased expression of SIRT3 protein		 CTD PMID:26712469 PMID:27311644 NCBI chr 1:195,942,066...195,964,472
Ensembl chr 1:195,942,073...195,964,808 		JBrowse link
G Slc27a5 solute carrier family 27 member 5 decreases expression ISO Berberine results in decreased expression of SLC27A5 mRNA CTD PMID:28038998 NCBI chr 1:73,616,556...73,627,149
Ensembl chr 1:73,616,564...73,627,172 		JBrowse link
G Slc2a4 solute carrier family 2 member 4 multiple interactions EXP Berberine inhibits the reaction [[Dietary Fats co-treated with Streptozocin] results in decreased expression of SLC2A4 protein] CTD PMID:19080170 NCBI chr10:54,666,015...54,671,581
Ensembl chr10:54,666,015...54,671,565 		JBrowse link
G Slc6a19 solute carrier family 6 member 19 multiple interactions EXP Berberine affects the reaction [Lipopolysaccharides affects the expression of SLC6A19 mRNA]; Berberine affects the reaction [Lipopolysaccharides affects the expression of SLC6A19 protein] CTD PMID:21073932 NCBI chr 1:29,586,191...29,604,964
Ensembl chr 1:29,586,195...29,604,962 		JBrowse link
G Smyd3 SET and MYND domain containing 3 affects expression ISO Berberine affects the expression of SMYD3 mRNA CTD PMID:27311644 NCBI chr13:90,709,263...91,266,209
Ensembl chr13:90,709,270...91,266,253 		JBrowse link
G Socs3 suppressor of cytokine signaling 3 multiple interactions ISO Berberine inhibits the reaction [Particulate Matter results in decreased expression of SOCS3 mRNA]; Berberine inhibits the reaction [Particulate Matter results in decreased expression of SOCS3 protein] CTD PMID:37839514 NCBI chr10:103,193,909...103,197,322
Ensembl chr10:103,193,537...103,197,787 		JBrowse link
G Sod1 superoxide dismutase 1 multiple interactions ISO
EXP		 Berberine inhibits the reaction [Carbon Tetrachloride results in decreased activity of SOD1 protein]; Berberine inhibits the reaction [Particulate Matter results in decreased expression of SOD1 protein]; Berberine inhibits the reaction [Streptozocin affects the expression of SOD1 mRNA]
Berberine inhibits the reaction [Chlorpyrifos results in decreased activity of SOD1 protein]		 CTD PMID:21095217 PMID:22775417 PMID:35439518 PMID:37839514 NCBI chr11:29,456,673...29,462,249
Ensembl chr11:29,456,558...29,462,249 		JBrowse link
G Sod2 superoxide dismutase 2 multiple interactions ISO
EXP		 Berberine inhibits the reaction [Streptozocin affects the expression of SOD2 mRNA]
Berberine inhibits the reaction [acetamiprid results in decreased expression of SOD2 mRNA]; Berberine inhibits the reaction [Mercuric Chloride results in decreased expression of SOD2 mRNA]		 CTD PMID:22775417 PMID:24751971 PMID:33460233 PMID:37350525 NCBI chr 1:47,638,318...47,645,163
Ensembl chr 1:47,636,528...47,645,189 		JBrowse link
G Sox9 SRY-box transcription factor 9 decreases expression ISO Berberine results in decreased expression of SOX9 mRNA CTD PMID:26478571 NCBI chr10:97,806,485...97,811,994
Ensembl chr10:97,806,485...97,811,994 		JBrowse link
G Sp7 Sp7 transcription factor increases expression ISO Berberine results in increased expression of SP7 mRNA CTD PMID:26478571 NCBI chr 7:133,484,609...133,494,788
Ensembl chr 7:133,484,609...133,494,847 		JBrowse link
G Sparc secreted protein acidic and cysteine rich increases expression ISO Berberine results in increased expression of SPARC mRNA CTD PMID:26478571 NCBI chr10:39,516,394...39,538,252
Ensembl chr10:39,516,406...39,538,396 		JBrowse link
G Spp1 secreted phosphoprotein 1 increases expression
multiple interactions		 ISO Berberine results in increased expression of SPP1 mRNA; Berberine results in increased expression of SPP1 protein
CTNNB1 mutant form inhibits the reaction [Berberine results in increased expression of SPP1 protein]; DKK1 protein inhibits the reaction [Berberine results in increased expression of SPP1 protein]		 CTD PMID:26478571 NCBI chr14:5,308,885...5,315,120
Ensembl chr14:5,308,885...5,315,162 		JBrowse link
G Sqstm1 sequestosome 1 increases expression
multiple interactions		 ISO Berberine results in increased expression of SQSTM1 protein
[Berberine co-treated with Water deficiency co-treated with NG-Nitroarginine Methyl Ester co-treated with Indomethacin co-treated with Iohexol] results in increased expression of SQSTM1 protein		 CTD PMID:36070022 PMID:38705399 NCBI chr10:34,525,517...34,536,670
Ensembl chr10:34,525,519...34,536,673 		JBrowse link
G Srebf1 sterol regulatory element binding transcription factor 1 multiple interactions
decreases expression		 ISO Berberine inhibits the reaction [Clozapine results in increased expression of SREBF1 mRNA]; Berberine inhibits the reaction [Clozapine results in increased expression of SREBF1 protein]; Berberine inhibits the reaction [Risperidone results in increased expression of SREBF1 mRNA]; Berberine inhibits the reaction [Risperidone results in increased expression of SREBF1 protein]
Berberine results in decreased expression of SREBF1 mRNA		 CTD PMID:20564506 PMID:26478571 NCBI chr10:45,007,637...45,029,650
Ensembl chr10:45,007,637...45,029,650 		JBrowse link
G Stat3 signal transducer and activator of transcription 3 multiple interactions EXP
ISO		 Berberine inhibits the reaction [Bortezomib results in increased expression of STAT3 mRNA]
Berberine inhibits the reaction [Particulate Matter results in increased expression of STAT3 mRNA]		 CTD PMID:35121005 PMID:37839514 NCBI chr10:85,811,206...85,863,057
Ensembl chr10:85,811,218...85,863,057 		JBrowse link
G Tert telomerase reverse transcriptase decreases activity ISO Berberine results in decreased activity of TERT protein CTD PMID:25265580 NCBI chr 1:29,637,213...29,659,561
Ensembl chr 1:29,637,506...29,659,561 		JBrowse link
G Tgfb1 transforming growth factor, beta 1 decreases expression
multiple interactions		 EXP
ISO		 Berberine results in decreased expression of TGFB1 protein
Berberine inhibits the reaction [Particulate Matter results in increased expression of TGFB1 mRNA]
Berberine inhibits the reaction [Bleomycin results in increased expression of TGFB1 protein]; Berberine inhibits the reaction [Thioacetamide results in increased expression of TGFB1 mRNA]		 CTD PMID:17973934 PMID:23523906 PMID:30138605 PMID:37839514 NCBI chr 1:81,196,532...81,212,848
Ensembl chr 1:81,196,532...81,212,847 		JBrowse link
G Tlr4 toll-like receptor 4 multiple interactions ISO
EXP		 Berberine inhibits the reaction [[lipopolysaccharide, Escherichia coli O111 B4 co-treated with TNF protein] results in increased expression of TLR4 mRNA]; Berberine inhibits the reaction [[lipopolysaccharide, Escherichia coli O111 B4 co-treated with TNF protein] results in increased secretion of TLR4 protein]; Berberine inhibits the reaction [Lipopolysaccharides results in increased expression of TLR4 mRNA]
Berberine inhibits the reaction [Bortezomib results in increased expression of TLR4 protein]		 CTD PMID:21963898 PMID:30240693 PMID:35121005 NCBI chr 5:80,145,867...80,159,501
Ensembl chr 5:80,145,826...80,159,628 		JBrowse link
G Tnf tumor necrosis factor multiple interactions
increases secretion
increases expression		 ISO
EXP		 Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased expression of TNF protein]; Berberine inhibits the reaction [TNF protein results in increased expression of CCL2 mRNA]; Berberine inhibits the reaction [TNF protein results in increased expression of CXCL8 mRNA]; Berberine inhibits the reaction [TNF protein results in increased secretion of CCL2 protein]; Berberine inhibits the reaction [TNF protein results in increased secretion of CXCL8 protein]; KPNA4 protein inhibits the reaction [Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased expression of TNF protein]]; LINC00943 inhibits the reaction [Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased expression of TNF protein]]; MIR142 affects the reaction [Berberine inhibits the reaction [1-Methyl-4-phenylpyridinium results in increased expression of TNF protein]]
Berberine inhibits the reaction [[Cadmium co-treated with Aluminum co-treated with Fluorides] results in increased expression of TNF mRNA]; Berberine inhibits the reaction [[Cadmium co-treated with Aluminum co-treated with Fluorides] results in increased expression of TNF protein]; Berberine inhibits the reaction [Bleomycin results in increased expression of TNF protein]; Berberine inhibits the reaction [Bortezomib results in increased expression of TNF mRNA]; Berberine inhibits the reaction [Mercuric Chloride results in increased expression of TNF protein]
Berberine results in increased secretion of TNF protein
Berberine results in increased expression of TNF mRNA
Berberine inhibits the reaction [[lipopolysaccharide, Escherichia coli O111 B4 co-treated with TNF protein] results in decreased expression of and results in increased phosphorylation of MAP3K5 protein]; Berberine inhibits the reaction [[lipopolysaccharide, Escherichia coli O111 B4 co-treated with TNF protein] results in increased expression of IL23A mRNA]; Berberine inhibits the reaction [[lipopolysaccharide, Escherichia coli O111 B4 co-treated with TNF protein] results in increased expression of IL6 mRNA]; Berberine inhibits the reaction [[lipopolysaccharide, Escherichia coli O111 B4 co-treated with TNF protein] results in increased expression of TLR4 mRNA]; Berberine inhibits the reaction [[lipopolysaccharide, Escherichia coli O111 B4 co-treated with TNF protein] results in increased expression of TRAF2 mRNA]; Berberine inhibits the reaction [[lipopolysaccharide, Escherichia coli O111 B4 co-treated with TNF protein] results in increased secretion of IL23A protein]; Berberine inhibits the reaction [[lipopolysaccharide, Escherichia coli O111 B4 co-treated with TNF protein] results in increased secretion of IL6 protein]; Berberine inhibits the reaction [[lipopolysaccharide, Escherichia coli O111 B4 co-treated with TNF protein] results in increased secretion of TLR4 protein]; Berberine inhibits the reaction [[lipopolysaccharide, Escherichia coli O111 B4 co-treated with TNF protein] results in increased secretion of TRAF2 protein]; Berberine inhibits the reaction [[Lipopolysaccharides co-treated with Galactosamine] results in increased expression of TNF mRNA]; Berberine inhibits the reaction [[Lipopolysaccharides co-treated with Galactosamine] results in increased expression of TNF protein]; Berberine inhibits the reaction [[Water deficiency co-treated with NG-Nitroarginine Methyl Ester co-treated with Indomethacin co-treated with Iohexol] results in increased expression of TNF mRNA]; Berberine inhibits the reaction [Benzo(a)pyrene results in increased expression of TNF mRNA]; Berberine inhibits the reaction [Carbon Tetrachloride results in increased expression of TNF protein]; Berberine inhibits the reaction [Dietary Fats results in increased secretion of TNF protein]; Berberine inhibits the reaction [Lipopolysaccharides results in increased expression of TNF mRNA]; Berberine inhibits the reaction [Particulate Matter results in increased expression of TNF protein]		 CTD PMID:16391493 PMID:20656010 PMID:21095217 PMID:21867779 PMID:23523906 More... NCBI chr20:3,622,011...3,624,629
Ensembl chr20:3,622,011...3,624,629 		JBrowse link
G Top1 DNA topoisomerase I decreases activity ISO Berberine results in decreased activity of TOP1 protein CTD PMID:23747414 NCBI chr 3:149,293,469...149,376,618
Ensembl chr 3:149,293,403...149,376,623 		JBrowse link
G Top2a DNA topoisomerase II alpha multiple interactions
affects response to substance		 ISO TOP2A protein affects the reaction [Berberine results in increased expression of H2AX protein modified form]
TOP2A protein affects the susceptibility to Berberine		 CTD PMID:23747414 NCBI chr10:83,945,731...83,976,874
Ensembl chr10:83,945,735...83,976,874 		JBrowse link
G Tp53 tumor protein p53 increases expression
multiple interactions		 ISO Berberine results in increased expression of TP53 mRNA; Berberine results in increased expression of TP53 protein
[Berberine co-treated with Niacinamide] results in increased expression of and results in increased acetylation of TP53 protein; Berberine results in increased phosphorylation of and results in increased acetylation of TP53 protein		 CTD PMID:20656010 PMID:26712469 NCBI chr10:54,300,070...54,311,525
Ensembl chr10:54,300,048...54,311,524 		JBrowse link
G Traf1 TNF receptor-associated factor 1 increases expression ISO Berberine results in increased expression of TRAF1 protein CTD PMID:20656010 NCBI chr 3:18,222,024...18,242,163
Ensembl chr 3:18,222,054...18,241,807 		JBrowse link
G Traf2 Tnf receptor-associated factor 2 multiple interactions ISO Berberine inhibits the reaction [[lipopolysaccharide, Escherichia coli O111 B4 co-treated with TNF protein] results in increased expression of TRAF2 mRNA]; Berberine inhibits the reaction [[lipopolysaccharide, Escherichia coli O111 B4 co-treated with TNF protein] results in increased secretion of TRAF2 protein] CTD PMID:30240693 NCBI chr 3:8,341,950...8,366,609
Ensembl chr 3:8,341,951...8,366,538 		JBrowse link
G Trim21 tripartite motif-containing 21 multiple interactions ISO Berberine promotes the reaction [IGF2BP3 protein binds to TRIM21 protein] CTD PMID:36822301 NCBI chr 1:156,964,896...156,987,504
Ensembl chr 1:156,964,913...156,987,440 		JBrowse link
G Tstd1 thiosulfate sulfurtransferase like domain containing 1 increases expression ISO Berberine results in increased expression of TSTD1 mRNA CTD PMID:27311644 NCBI chr13:83,853,421...83,854,875
Ensembl chr13:83,822,035...83,854,885 		JBrowse link
G Ube2a ubiquitin-conjugating enzyme E2A decreases expression ISO Berberine results in decreased expression of UBE2A mRNA CTD PMID:27311644 NCBI chr  X:116,114,339...116,125,076
Ensembl chr  X:116,113,875...116,125,070 		JBrowse link
G Ube2b ubiquitin-conjugating enzyme E2B decreases expression ISO Berberine results in decreased expression of UBE2B mRNA CTD PMID:27311644 NCBI chr10:36,248,434...36,263,379
Ensembl chr10:36,248,438...36,264,665 		JBrowse link
G Ucp2 uncoupling protein 2 multiple interactions
increases expression		 ISO Berberine inhibits the reaction [Benzo(a)pyrene results in increased expression of UCP2 mRNA]
Berberine results in increased expression of UCP2 mRNA		 CTD PMID:28533128 PMID:37511356 NCBI chr 1:154,839,242...154,845,612
Ensembl chr 1:154,839,209...154,845,611 		JBrowse link
G Vegfa vascular endothelial growth factor A decreases expression ISO Berberine results in decreased expression of VEGFA protein CTD PMID:33325633 NCBI chr 9:14,955,300...14,970,641
Ensembl chr 9:14,955,300...14,970,641 		JBrowse link
G Vegfc vascular endothelial growth factor C increases expression ISO Berberine results in increased expression of VEGFC mRNA CTD PMID:26478571 NCBI chr16:37,712,251...37,827,845
Ensembl chr16:37,712,262...37,827,848 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  CHEBI ontology 19917
    role 19887
      chemical role 19514
        antioxidant 16167
          berberine 258
Path 2
Term Annotations click to browse term
  CHEBI ontology 19917
    subatomic particle 19915
      composite particle 19915
        hadron 19915
          baryon 19915
            nucleon 19915
              atomic nucleus 19915
                atom 19915
                  main group element atom 19855
                    p-block element atom 19855
                      carbon group element atom 19774
                        carbon atom 19790
                          organic molecular entity 19790
                            organic molecule 19743
                              organic cyclic compound 19533
                                organic heterocyclic compound 18903
                                  organonitrogen heterocyclic compound 18182
                                    dibenzoquinolizine 414
                                      berberine alkaloid 414
                                        berberine 258
paths to the root