RGD DISEASE ONTOLOGY - ANNOTATIONS
RGD uses the Human Disease Ontology (DO, https://disease-ontology.org/) for disease curation across species. RGD automatically downloads each new release of the ontology on a monthly basis. Some additional terms which are required for RGD's curation purposes but are not currently covered in the official version of DO have been added. As corresponding terms are added to DO, these custom terms are retired and the DO terms substituted in existing annotations and subsequently used for curation.
Term: extrahepatic cholestasis
Accession: DOID:13619
browse the term
Definition: A cholestasis resulting from causes located_in bile ducts outside the liver. (DO)
Synonyms: exact_synonym: extrahepatic bile duct obstruction; extrahepatic biliary stasis; extrahepatic obstructive biliary disease
primary_id: MESH:D001651
xref: EFO:1000933 ; NCI:C34420
For additional species annotation, visit the
Alliance of Genome Resources .
G
ABCA1
ATP binding cassette subfamily A member 1
ISO
mRNA,protein:increased expression:liver, basolateral plasma membrane (rat)
RGD
PMID:28660384
RGD:21203516
NCBI chr11:60,761,669...60,869,753
Ensembl chr11:60,761,655...60,890,496
G
ABCC4
ATP binding cassette subfamily C member 4
treatment
ISO
mRNA:increased expression:liver (rat)
RGD
PMID:29360226
RGD:14995480
NCBI chr22:45,767,033...46,013,577
Ensembl chr22:45,765,835...46,013,505
G
ACTA2
actin alpha 2, smooth muscle
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951 PMID:31932644
NCBI chr26:38,700,434...38,714,915
Ensembl chr26:38,700,480...38,711,753
G
ALB
albumin
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:30026087
NCBI chr13:62,133,747...62,169,349
Ensembl chr13:62,053,814...62,294,709
G
B9D2
B9 domain containing 2
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951 PMID:30026087 PMID:31932644
NCBI chr 1:112,621,832...112,627,726
Ensembl chr 1:112,621,633...112,643,885
G
CCN2
cellular communication network factor 2
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr 1:25,508,082...25,511,058
Ensembl chr 1:25,507,662...25,510,145
G
CD68
CD68 molecule
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr 5:32,500,899...32,503,355
Ensembl chr 5:32,501,380...32,503,183
G
COL1A1
collagen type I alpha 1 chain
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951 PMID:31932644
NCBI chr 9:26,183,852...26,199,927
Ensembl chr 9:26,183,852...26,199,927
G
COL3A1
collagen type III alpha 1 chain
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr36:30,488,250...30,526,367
Ensembl chr36:30,488,488...30,536,765
G
CRH
corticotropin releasing hormone
ISO
protein:decreased expression:hypothalamus (rat)
RGD
PMID:8387536
RGD:5490980
NCBI chr29:15,831,944...15,840,560
Ensembl chr29:15,831,944...15,834,384
G
CYGB
cytoglobin
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:30026087
NCBI chr 9:4,191,114...4,201,438
Ensembl chr 9:4,184,959...4,200,164
G
CYP27A1
cytochrome P450 family 27 subfamily A member 1
treatment
ISO
mRNA:decreased expression:liver (rat)
RGD
PMID:29360226
RGD:14995480
NCBI chr37:25,366,475...25,401,978
Ensembl chr37:25,366,472...25,401,509
G
CYP7A1
cytochrome P450 family 7 subfamily A member 1
treatment
ISO
mRNA:decreased expression:liver, nucleus (rat) mRNA:decreased expression:liver (rat)
RGD
PMID:28660384 PMID:29360226
RGD:14995480 RGD:21203516
NCBI chr29:9,285,315...9,295,895
Ensembl chr29:9,286,181...9,332,310
G
CYP8B1
cytochrome P450 family 8 subfamily B member 1
treatment
ISO
mRNA:decreased expression:liver (rat)
RGD
PMID:29360226
RGD:14995480
NCBI chr23:11,965,685...11,968,994
Ensembl chr23:11,967,341...11,968,846
G
FOS
Fos proto-oncogene, AP-1 transcription factor subunit
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr 8:48,330,856...48,334,273
Ensembl chr 8:48,331,026...48,333,467
G
GJB1
gap junction protein beta 1
ISO
mRNA,protein:decreased expression:liver:
RGD
PMID:7762611
RGD:7349397
NCBI chr X:55,565,995...55,575,332
Ensembl chr X:55,573,808...55,574,659
G
GJB2
gap junction protein beta 2
ISO
RGD
PMID:7762611
RGD:7349397
NCBI chr25:17,952,851...17,958,289
Ensembl chr25:17,952,851...17,958,289
G
HAMP
hepcidin antimicrobial peptide
ISO
mRNA:decreased expression:liver
RGD
PMID:19652645
RGD:11041639
NCBI chr 1:117,305,531...117,306,587
Ensembl chr 1:117,305,411...117,306,619
G
HMGB1
high mobility group box 1
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr25:9,431,223...9,558,167
Ensembl chr25:9,431,218...9,558,165
G
HMGCS2
3-hydroxy-3-methylglutaryl-CoA synthase 2
ISO
mRNA, protein:decreased expression:liver, mitochondrion (rat)
RGD
PMID:12399220
RGD:2326121
NCBI chr17:56,679,942...56,698,521
Ensembl chr17:56,680,301...56,698,419
G
HNF1A
HNF1 homeobox A
ISO
mRNA,protein,DNA:decreased expression, decreased binding, decreased expression:liver, nuclear (rat)
RGD
PMID:15723437
RGD:14700989
NCBI chr26:16,805,690...16,826,065
Ensembl chr26:16,805,690...16,824,790
G
IL1B
interleukin 1 beta
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr17:37,019,329...37,033,388
Ensembl chr17:37,019,329...37,024,458
G
IL6
interleukin 6
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr14:36,474,268...36,478,519
Ensembl chr14:36,473,394...36,478,519
G
JUN
Jun proto-oncogene, AP-1 transcription factor subunit
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr 5:50,966,698...50,968,939
G
KEAP1
kelch like ECH associated protein 1
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:30026087
NCBI chr20:50,651,070...50,661,178
Ensembl chr20:50,650,711...50,658,496
G
LGALS1
galectin 1
ISO
mRNA:increased expression:liver (rat)
RGD
PMID:18225978
RGD:2316551
NCBI chr10:26,932,351...26,935,580
Ensembl chr10:26,932,301...26,935,646
G
MAP3K7
mitogen-activated protein kinase kinase kinase 7
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr12:49,669,849...49,740,039
Ensembl chr12:49,672,389...49,739,850
G
MAPK1
mitogen-activated protein kinase 1
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr26:31,013,607...31,132,998
Ensembl chr26:31,013,607...31,132,998
G
MAPK14
mitogen-activated protein kinase 14
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:30026087
NCBI chr12:5,145,647...5,221,558
Ensembl chr12:5,146,037...5,220,603
G
MAPK3
mitogen-activated protein kinase 3
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr 6:18,109,184...18,115,728
Ensembl chr 6:18,109,222...18,114,425
G
MAPK8
mitogen-activated protein kinase 8
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr28:323,361...410,367
Ensembl chr28:368,513...406,401
G
MAPK9
mitogen-activated protein kinase 9
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr11:1,443,528...1,480,501
Ensembl chr11:1,443,547...1,478,119
G
MMP2
matrix metallopeptidase 2
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr 2:60,471,092...60,492,991
Ensembl chr 2:60,471,257...60,494,113
G
MMP9
matrix metallopeptidase 9
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr24:33,274,260...33,281,116
Ensembl chr24:33,274,268...33,281,293
G
MPO
myeloperoxidase
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr 9:32,927,483...32,938,007
Ensembl chr 9:32,927,483...32,937,820
G
MYD88
MYD88 innate immune signal transduction adaptor
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr23:7,901,578...7,905,274
Ensembl chr23:7,901,250...7,904,534
G
NFE2L2
NFE2 like bZIP transcription factor 2
treatment
ISO
CTD Direct Evidence: marker/mechanism
RGD CTD
PMID:30026087 PMID:31900718
RGD:21201303
NCBI chr36:20,989,205...21,087,044
Ensembl chr36:20,989,360...21,012,524
G
NOS2
nitric oxide synthase 2
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:30026087
NCBI chr 9:42,171,821...42,210,217
Ensembl chr 9:42,171,821...42,208,588
G
NOS3
nitric oxide synthase 3
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:30026087
NCBI chr16:15,054,196...15,072,454
Ensembl chr16:15,011,344...15,072,277
G
NR1H4
nuclear receptor subfamily 1 group H member 4
disease_progression treatment
ISO
protein:increased expression:liver (rat) human gene in mouse model mRNA:increased expression:liver (rat)
RGD
PMID:14623915 PMID:22057115 PMID:29138817 PMID:29360226
RGD:14928333 RGD:14995480 RGD:15042871 RGD:1625205
NCBI chr15:39,497,313...39,608,120
Ensembl chr15:39,536,290...39,608,116
G
OPRM1
opioid receptor mu 1
ISO
mRNA:decreased expression:hypothalamus, hippocampus
RGD
PMID:25290008
RGD:401842371
NCBI chr 1:43,972,915...44,037,477
Ensembl chr 1:43,972,219...44,141,238
G
PDGFRB
platelet derived growth factor receptor beta
treatment
ISO
RGD
PMID:18466260
RGD:10449503
NCBI chr 4:58,925,922...58,963,639
Ensembl chr 4:58,926,351...58,962,283
G
PTN
pleiotrophin
ISO
mRNA:increased expression:liver (rat)
RGD
PMID:18225978
RGD:2316551
NCBI chr16:11,283,078...11,382,820
Ensembl chr16:11,283,077...11,382,814
G
RELA
RELA proto-oncogene, NF-kB subunit
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951 PMID:30026087
NCBI chr18:51,550,003...51,558,861
Ensembl chr18:51,550,040...51,558,875
G
SETD7
SET domain containing 7, histone lysine methyltransferase
treatment
ISO
RGD
PMID:24097032
RGD:9491846
NCBI chr19:3,186,620...3,229,305
Ensembl chr19:3,186,906...3,224,113
G
SLC22A1
solute carrier family 22 member 1
ISO
protein:decreased expression:kidney
RGD
PMID:20814153
RGD:7243879
NCBI chr 1:49,268,978...49,296,522
G
SLC22A2
solute carrier family 22 member 2
ISO
protein:increased expression:kidney
RGD
PMID:20814153
RGD:7243879
NCBI chr 1:49,327,621...49,348,435
Ensembl chr 1:49,327,296...49,348,435
G
TIMP1
TIMP metallopeptidase inhibitor 1
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr X:41,201,623...41,205,314
Ensembl chr X:41,201,638...41,205,310
G
TIMP2
TIMP metallopeptidase inhibitor 2
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr 9:2,521,882...2,533,883
Ensembl chr 9:2,521,882...2,533,989
G
TLR4
toll like receptor 4
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr11:71,356,390...71,367,166
Ensembl chr11:71,356,390...71,367,165
G
TNF
tumor necrosis factor
ISO
CTD Direct Evidence: marker/mechanism
CTD
PMID:28789951
NCBI chr12:1,074,561...1,076,425
Ensembl chr12:1,074,552...1,076,425
Term paths to the root one shortest all shortest one longest all longest one shortest and longest all