TissGeneSummary for ORM1 |
Gene summary |
Basic gene information | Gene symbol | ORM1 |
Gene name | orosomucoid 1 | |
Synonyms | AGP-A|AGP1|HEL-S-153w|ORM | |
Cytomap | UCSC genome browser: 9q32 | |
Type of gene | protein-coding | |
RefGenes | NM_000607.2, | |
Description | AGP 1OMD 1alpha-1-acid glycoprotein 1epididymis secretory sperm binding protein Li 153worosomucoid-1 | |
Modification date | 20141207 | |
dbXrefs | MIM : 138600 | |
HGNC : HGNC | ||
Ensembl : ENSG00000229314 | ||
HPRD : 00724 | ||
Vega : OTTHUMG00000021012 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_ORM1 | |
BioGPS: 5004 | ||
Pathway | NCI Pathway Interaction Database: ORM1 | |
KEGG: ORM1 | ||
REACTOME: ORM1 | ||
Pathway Commons: ORM1 | ||
Context | iHOP: ORM1 | |
ligand binding site mutation search in PubMed: ORM1 | ||
UCL Cancer Institute: ORM1 | ||
Assigned class in TissGDB* | B | |
Included tissue-specific gene expression resources | HPA,TiGER,GTEx | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | Liver | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | LIHC | |
Reference showing the relevant tissue of ORM1 | ||
Description by TissGene annotations | TissgsKTS CNV lost TissGeneKTS Fused withOncogene Fused withTSGene |
* Class A consists of genes with literature evidence and is part of the cTissGenes. Class B consists of only cTissGenes without additional evidence. The remaining genes belong to Class C. |
Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
GO ID | GO term | PubMed ID |
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TissGeneExp for ORM1 |
Gene expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) |
Gene isoform expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA pan-cancer tcga_rsem_isoform_tpm, version 2016-09-01) |
Gene expressions across normal tissues of GTEx data (GTEx GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_rpkm.gct) - Here, we shows the matched tissue types only among our 28 cancer types. |
Different expressions across 14 cancer types with more than 10 samples between matched tumors and normals (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) |
- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05) |
Cancer type | Mean(exp) in tumor | Mean(exp) in matched normal | Log2FC | P-val. | FDR |
LIHC | 11.64248628 | 13.99848228 | -2.355996 | 4.56E-09 | 4.35E-08 |
BRCA | -1.178102773 | -3.205710668 | 2.027607895 | 1.21E-08 | 3.95E-08 |
LUSC | -0.492537603 | 2.771613377 | -3.26415098 | 3.45E-12 | 1.52E-11 |
COAD | -2.710797105 | -3.778408644 | 1.067611538 | 0.0179 | 0.036347451 |
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TissGene-miRNA for ORM1 |
Significantly anti-correlated miRNAs of TissGene across 28 cancer types (Gene-miRNA relations from TargetScanHuman Relsease 7.1, Conserved_Site_Context_Scores.txt.zip, 06.01.2016) (TCGA IlluminaHiSeq_miRNASeq, log2(RPM+1) data, version 2016-11-21) (TCGA IlluminaHiSeq_RNASeqV2, log2(normalized_count+1) data, version 2016-08-16) (Spearman’s Rank Correlation (p-value<0.05 and coefficient<-0.25)) |
Cancer type | miRNA id | miRNA accession | P-val. | Coeff. | # samples |
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TissGeneMut for ORM1 |
TissGeneSNV for ORM1 |
nsSNV counts per each loci. Different colors of circles represent different cancer types. Circle size denotes number of samples. (TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25) * Click on the image to enlarge it in a new window. |
Somatic nucleotide variants of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of mutated samples) The numbers in parentheses are numbers of samples with mutation (nsSNVs). (TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25) |
- nsSNVs sorted by frequency. |
AAchange | Cancer type | # samples |
p.E102V | LUAD | 2 |
p.R185C | SKCM | 2 |
p.G41D | SKCM | 1 |
p.R81T | CESC | 1 |
p.Q60L | LIHC | 1 |
p.R123T | LUAD | 1 |
p.E150Q | BLCA | 1 |
p.K148N | LUSC | 1 |
p.Q84H | CESC | 1 |
p.G157R | SKCM | 1 |
p.Q180H | SKCM | 1 |
p.S58A | LUAD | 1 |
p.E154D | UCEC | 1 |
p.V110E | COAD | 1 |
p.T176I | SKCM | 1 |
p.V174M | DLBC | 1 |
p.R108G | CHOL | 1 |
p.K126E | STAD | 1 |
p.D136N | SKCM | 1 |
p.T152N | UCEC | 1 |
p.K138N | HNSC | 1 |
p.R123M | ESCA | 1 |
p.V134L | LUAD | 1 |
p.K148T | SKCM | 1 |
p.R51Q | STAD | 1 |
p.H115Q | STAD | 1 |
p.R191* | CESC | 1 |
p.W179* | SKCM | 1 |
p.T85I | UCEC | 1 |
p.V193A | STAD | 1 |
p.E200K | KICH | 1 |
p.G104R | SKCM | 1 |
p.M129T | UCEC | 1 |
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TissGeneCNV for ORM1 |
Copy number variations of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of CNV samples) (TCGA Gistic2_CopyNumber_Gistic2_all_data_by_genes, Gistic2 copy number data, version 2016-08-16) |
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TissGeneFusions for ORM1 |
Fusion genes including TissGene (ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01) |
Database | Src | Cancer type | Sample | Fusion gene | ORF | 5'-gene BP | 3'-gene BP |
Chimerdb3.0 | ChiTaRs | NA | AA659179 | ORM1-ORM1 | chr9:117087389 | chr9:117087379 | |
Chimerdb3.0 | ChiTaRs | NA | BI020125 | ORM1-TIMP2 | chr9:117086366 | chr17:76850170 | |
Chimerdb3.0 | ChiTaRs | NA | AV718491 | RIC8A-ORM1 | chr11:215113 | chr9:117092741 | |
Chimerdb3.0 | ChiTaRs | NA | BM684983 | SMARCB1-ORM1 | chr22:24176694 | chr9:117087108 | |
Chimerdb3.0 | FusionScan | DLBC | TCGA-G8-6325-01A | ARHGEF10L-ORM1 | Out-of-Frame | chr1:17966797 | chr9:117088571 |
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TissGeneNet for ORM1 |
Co-expressed gene networks based on protein-protein interaction data (CePIN) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (PINA2 ppi data) |
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TissGeneProg for ORM1 |
Kaplan-Meier plots with logrank tests of overall survival (OS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image to enlarge it in a new window. |
Kaplan-Meier plots with logrank test of relapse free survival (RFS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
Forest plot of Cox proportional hazard ratio (HR) and 95% CI of overall survival (OS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
Forest plot of Cox proportional hazard ratio (HR) and 95% CI of relapse free survival (RFS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
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TissGeneClin for ORM1 |
TissGeneDrug for ORM1 |
Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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TissGeneDisease for ORM1 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0264408 | Childhood asthma | 7 | BeFree |
umls:C0004096 | Asthma | 5 | BeFree |
umls:C0023473 | Myeloid Leukemia, Chronic | 3 | GAD,LHGDN |
umls:C0036202 | Sarcoidosis | 3 | BeFree |
umls:C0028754 | Obesity | 2 | BeFree |
umls:C0011570 | Mental Depression | 1 | BeFree |
umls:C0011581 | Depressive disorder | 1 | BeFree |
umls:C0011854 | Diabetes Mellitus, Insulin-Dependent | 1 | BeFree |
umls:C0027686 | Pathologic Neovascularization | 1 | GAD |
umls:C0040053 | Thrombosis | 1 | GAD |
umls:C0080233 | Tooth Loss | 1 | BeFree |
umls:C0085605 | Liver Failure | 1 | CTD_human |
umls:C0155877 | Allergic asthma | 1 | BeFree |
umls:C0238198 | Gastrointestinal Stromal Tumors | 1 | GAD |
umls:C0525045 | Mood Disorders | 1 | BeFree |
umls:C0993582 | Arthritis, Experimental | 1 | RGD |
umls:C1269683 | Major Depressive Disorder | 1 | GAD |
umls:C2608079 | WARFARIN SENSITIVITY (disorder) | 1 | GAD |