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| TissGeneSummary for NODAL |
 Gene summary |
| Basic gene information | Gene symbol | NODAL |
| Gene name | nodal growth differentiation factor | |
| Synonyms | HTX5 | |
| Cytomap | UCSC genome browser: 10q22.1 | |
| Type of gene | protein-coding | |
| RefGenes | NM_018055.4, | |
| Description | nodal homolog | |
| Modification date | 20141219 | |
| dbXrefs | MIM : 601265 | |
| HGNC : HGNC | ||
| HPRD : 08370 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_NODAL | |
| BioGPS: 4838 | ||
| Pathway | NCI Pathway Interaction Database: NODAL | |
| KEGG: NODAL | ||
| REACTOME: NODAL | ||
| Pathway Commons: NODAL | ||
| Context | iHOP: NODAL | |
| ligand binding site mutation search in PubMed: NODAL | ||
| UCL Cancer Institute: NODAL | ||
| Assigned class in TissGDB* | C | |
| Included tissue-specific gene expression resources | TiGER,GTEx | |
| Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | BrainTestis | |
| Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | GBM,LGGTGCT | |
| Reference showing the relevant tissue of NODAL | ||
| Description by TissGene annotations | TissgsKTS CNV lost TissGeneKTS | |
| * 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 | GO:0043280 | positive regulation of cysteine-type endopeptidase activity involved in apoptotic process | 15150278 | GO:0050679 | positive regulation of epithelial cell proliferation | 21656830 | GO:0060766 | negative regulation of androgen receptor signaling pathway | 21656830 | GO:1901164 | negative regulation of trophoblast cell migration | 21356369 | GO:1901383 | negative regulation of chorionic trophoblast cell proliferation | 15150278 | GO:0043280 | positive regulation of cysteine-type endopeptidase activity involved in apoptotic process | 15150278 | GO:0050679 | positive regulation of epithelial cell proliferation | 21656830 | GO:0060766 | negative regulation of androgen receptor signaling pathway | 21656830 | GO:1901164 | negative regulation of trophoblast cell migration | 21356369 | GO:1901383 | negative regulation of chorionic trophoblast cell proliferation | 15150278 |
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| TissGeneExp for NODAL |
| 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) |
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| 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) |
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| 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. |
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| 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) |
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| - 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 |
| BRCA | -0.487759331 | 0.998189792 | -1.485949123 | 2.80E-29 | 3.51E-28 |
| KIRC | 0.218083797 | -0.788409258 | 1.006493056 | 4.84E-13 | 2.12E-12 |
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| TissGene-miRNA for NODAL |
| 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 NODAL |
| TissGeneSNV for NODAL |
| 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. |
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| 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) |
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| - nsSNVs sorted by frequency. |
| AAchange | Cancer type | # samples |
| p.A314V | BLCA | 1 |
| p.A273V | READ | 1 |
| p.E215K | SKCM | 1 |
| p.H165R | COAD | 1 |
| p.R183Q | PAAD | 1 |
| p.E170V | KIRP | 1 |
| p.R307* | UCEC | 1 |
| p.T121K | LUSC | 1 |
| p.A124T | LUAD | 1 |
| p.P268A | LUSC | 1 |
| p.M134I | SKCM | 1 |
| p.E279K | UCEC | 1 |
| p.E203K | THCA | 1 |
| p.P100A | BLCA | 1 |
| p.A222D | THYM | 1 |
| p.P182L | OV | 1 |
| p.W214X | SKCM | 1 |
| p.G149S | HNSC | 1 |
| p.W264C | CESC | 1 |
| p.W214* | SKCM | 1 |
| p.E203K | SKCM | 1 |
| p.P315R | BLCA | 1 |
| p.R183W | ESCA | 1 |
| p.C128Y | COAD | 1 |
| p.S99R | LUSC | 1 |
| p.C312R | PRAD | 1 |
| p.R175G | LIHC | 1 |
| p.P182T | LUAD | 1 |
| p.G107C | UCEC | 1 |
| p.T145I | SKCM | 1 |
| p.R243T | CESC | 1 |
| p.R237Q | UCEC | 1 |
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| TissGeneCNV for NODAL |
| 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 NODAL |
| 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 |
| TCGAfusionPortal | PRADA | BRCA | TCGA-A8-A09N-01A | LRRC20-NODAL | In-frame | Chr10:72100309 | Chr10:72195739 |
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| TissGeneNet for NODAL |
| 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 NODAL |
| 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. |
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| 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. |
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| 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. |
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| 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 NODAL |
| TissGeneDrug for NODAL |
| 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 NODAL |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0010068 | Coronary heart disease | 3 | BeFree |
| umls:C0079541 | Holoprosencephaly | 3 | BeFree,CTD_human,LHGDN |
| umls:C0025202 | melanoma | 2 | BeFree,LHGDN |
| umls:C0029408 | Degenerative polyarthritis | 2 | BeFree |
| umls:C1384584 | Generalized osteoarthritis | 2 | BeFree |
| umls:C2239176 | Liver carcinoma | 2 | BeFree |
| umls:C3495537 | Heterotaxy, Visceral, 5, Autosomal | 2 | CLINVAR,CTD_human,UNIPROT |
| umls:C0000768 | Congenital Abnormality | 1 | BeFree |
| umls:C0017638 | Glioma | 1 | BeFree |
| umls:C0018671 | Head and Neck Neoplasms | 1 | GAD |
| umls:C0027627 | Neoplasm Metastasis | 1 | BeFree |
| umls:C0027643 | Neoplasm Recurrence, Local | 1 | GAD |
| umls:C0085183 | Neoplasms, Second Primary | 1 | GAD |
| umls:C0242855 | Congenital atresia of pulmonary valve | 1 | BeFree |
| umls:C0243050 | Cardiovascular Abnormalities | 1 | GAD |
| umls:C0266642 | Situs ambiguus | 1 | BeFree,ORPHANET |
| umls:C0376358 | Malignant neoplasm of prostate | 1 | BeFree |
| umls:C0600139 | Prostate carcinoma | 1 | BeFree |
| umls:C0678222 | Breast Carcinoma | 1 | BeFree |
| umls:C0431362 | Lobar Holoprosencephaly | 0 | ORPHANET |
| umls:C0431363 | Alobar Holoprosencephaly | 0 | ORPHANET |
| umls:C0751617 | Semilobar Holoprosencephaly | 0 | ORPHANET |
| umls:C1167664 | Situs ambiguous | 0 | ORPHANET |
| umls:C1840235 | SOLITARY MEDIAN MAXILLARY CENTRAL INCISOR | 0 | ORPHANET |
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