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| TissGeneSummary for SDS |
 Gene summary |
| Basic gene information | Gene symbol | SDS |
| Gene name | serine dehydratase | |
| Synonyms | SDH | |
| Cytomap | UCSC genome browser: 12q24.13 | |
| Type of gene | protein-coding | |
| RefGenes | NM_006843.2, | |
| Description | L-serine ammonia-lyaseL-serine deaminaseL-serine dehydrataseL-serine dehydratase/L-threonine deaminaseL-threonine dehydrataseTDH | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 182128 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000135094 | ||
| HPRD : 01633 | ||
| Vega : OTTHUMG00000169554 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_SDS | |
| BioGPS: 10993 | ||
| Pathway | NCI Pathway Interaction Database: SDS | |
| KEGG: SDS | ||
| REACTOME: SDS | ||
| Pathway Commons: SDS | ||
| Context | iHOP: SDS | |
| ligand binding site mutation search in PubMed: SDS | ||
| UCL Cancer Institute: SDS | ||
| Assigned class in TissGDB* | A | |
| 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 SDS | Subcellular distribution of superoxide dismutases (SOD) in rat liver: Cu,Zn-SOD in mitochondria. Okado-Matsumoto A, Fridovich I. J Biol Chem. 2001 Oct 19;276(42):38388-93. Epub 2001 Aug 15 (pmid:11507097) go to article | |
| Description by TissGene annotations | ||
| * 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:0006565 | L-serine catabolic process | 15689518 | GO:0042866 | pyruvate biosynthetic process | 15689518 | GO:0006565 | L-serine catabolic process | 15689518 | GO:0042866 | pyruvate biosynthetic process | 15689518 |
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| TissGeneExp for SDS |
| 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 |
| KIRP | 0.569924762 | -4.471350238 | 5.041275 | 1.17E-19 | 6.90E-18 |
| BRCA | 0.091671198 | -2.674997223 | 2.766668421 | 2.20E-34 | 4.00E-33 |
| STAD | 0.406609137 | -3.221100238 | 3.627709375 | 2.26E-11 | 3.63E-09 |
| KIRC | 0.109503581 | -4.731228363 | 4.840731944 | 6.55E-40 | 2.67E-38 |
| PRAD | -1.824022594 | -3.315689902 | 1.491667308 | 1.81E-06 | 1.22E-05 |
| KICH | -0.559415363 | -4.436179363 | 3.876764 | 1.99E-09 | 1.18E-08 |
| LIHC | 3.630520637 | 6.729160637 | -3.09864 | 1.57E-07 | 1.05E-06 |
| ESCA | -0.621312454 | -3.890357909 | 3.269045455 | 0.000167 | 0.0046982 |
| LUAD | -0.465294743 | -1.531132674 | 1.065837931 | 0.000611 | 0.00137736 |
| HNSC | -0.787814991 | -2.651028945 | 1.863213953 | 1.95E-05 | 0.000103479 |
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| TissGene-miRNA for SDS |
| 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 SDS |
| TissGeneSNV for SDS |
| 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.K215* | LUAD | 1 |
| p.G161R | SKCM | 1 |
| p.I163T | LIHC | 1 |
| p.G161E | SKCM | 1 |
| p.G56D | UCEC | 1 |
| p.V149M | THCA | 1 |
| p.W185* | SKCM | 1 |
| p.G170R | STAD | 1 |
| p.I42V | SARC | 1 |
| p.A162G | STAD | 1 |
| p.H59Y | ESCA | 1 |
| p.A104V | COAD | 1 |
| p.A207T | COAD | 1 |
| p.A253D | LUAD | 1 |
| p.I141M | CESC | 1 |
| p.A83T | LGG | 1 |
| p.K41N | BLCA | 1 |
| p.A253V | ESCA | 1 |
| p.P88S | PRAD | 1 |
| p.P128L | ACC | 1 |
| p.D138Y | HNSC | 1 |
| p.A311T | STAD | 1 |
| p.K100Q | LUAD | 1 |
| p.E288K | BLCA | 1 |
| p.D261N | LUAD | 1 |
| p.R314P | LUSC | 1 |
| p.P128T | ACC | 1 |
| p.K10N | LUSC | 1 |
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| TissGeneCNV for SDS |
| 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 SDS |
| 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 | AV645432 | SDS-GNA14 | chr12:113830890 | chr9:80136639 | |
| TCGAfusionPortal | PRADA | GBM | TCGA-06-0129-01A | NOC4L-SDS | CDS-5UTR | Chr12:132629150 | Chr12:113837515 |
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| TissGeneNet for SDS |
| 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 SDS |
| 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 SDS |
| TissGeneDrug for SDS |
| 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 SDS |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0030421 | Paraganglioma | 40 | BeFree |
| umls:C0031511 | Pheochromocytoma | 22 | BeFree |
| umls:C0013336 | Dwarfism | 16 | BeFree |
| umls:C0028754 | Obesity | 10 | BeFree |
| umls:C0238198 | Gastrointestinal Stromal Tumors | 9 | BeFree |
| umls:C1333944 | Paragangliomas, head and neck | 6 | BeFree |
| umls:C0032002 | Pituitary Diseases | 5 | BeFree |
| umls:C0037889 | Hereditary spherocytosis | 5 | BeFree |
| umls:C0497406 | Overweight | 5 | BeFree |
| umls:C2674218 | SPHEROCYTOSIS, TYPE 1 (disorder) | 5 | BeFree |
| umls:C0007134 | Renal Cell Carcinoma | 4 | BeFree |
| umls:C0011854 | Diabetes Mellitus, Insulin-Dependent | 4 | BeFree |
| umls:C0015544 | Failure to Thrive | 4 | BeFree |
| umls:C1333993 | Hereditary Paraganglioma | 4 | BeFree |
| umls:C0003873 | Rheumatoid Arthritis | 3 | BeFree |
| umls:C0007570 | Celiac Disease | 3 | BeFree |
| umls:C0010674 | Cystic Fibrosis | 3 | BeFree |
| umls:C0011884 | Diabetic Retinopathy | 3 | BeFree,GAD |
| umls:C0013338 | Pituitary dwarfism | 3 | BeFree |
| umls:C0025202 | melanoma | 3 | BeFree |
| umls:C0041408 | Turner Syndrome | 3 | BeFree |
| umls:C0272170 | Shwachman syndrome | 3 | BeFree |
| umls:C0878787 | Growth failure | 3 | BeFree |
| umls:C0007102 | Malignant tumor of colon | 2 | BeFree |
| umls:C0011860 | Diabetes Mellitus, Non-Insulin-Dependent | 2 | BeFree,GAD |
| umls:C0011991 | Diarrhea | 2 | BeFree |
| umls:C0013902 | Elliptocytosis, Hereditary | 2 | BeFree |
| umls:C0015230 | Exanthema | 2 | BeFree |
| umls:C0018553 | Hamartoma Syndrome, Multiple | 2 | BeFree |
| umls:C0019562 | Von Hippel-Lindau Syndrome | 2 | BeFree |
| umls:C0020538 | Hypertensive disease | 2 | BeFree |
| umls:C0021400 | Influenza | 2 | BeFree |
| umls:C0022665 | Kidney Neoplasm | 2 | BeFree |
| umls:C0026764 | Multiple Myeloma | 2 | BeFree |
| umls:C0026837 | Muscle Rigidity | 2 | BeFree |
| umls:C0036421 | Systemic Scleroderma | 2 | BeFree |
| umls:C0042974 | von Willebrand Disease | 2 | BeFree |
| umls:C0271561 | Somatotropin deficiency | 2 | BeFree |
| umls:C0271568 | Laron Syndrome | 2 | BeFree |
| umls:C0282666 | Very Low Birth Weight | 2 | BeFree |
| umls:C0596263 | Carcinogenesis | 2 | BeFree |
| umls:C0699790 | Colon Carcinoma | 2 | BeFree |
| umls:C0740457 | Malignant neoplasm of kidney | 2 | BeFree |
| umls:C0751651 | Mitochondrial Diseases | 2 | BeFree |
| umls:C0848332 | Spots on skin | 2 | BeFree |
| umls:C1257877 | Pheochromocytoma, Extra-Adrenal | 2 | BeFree |
| umls:C1333768 | Gastric Gastrointestinal Stromal Tumor | 2 | BeFree |
| umls:C1855008 | Mitochondrial Complex II Deficiency | 2 | BeFree |
| umls:C1956346 | Coronary Artery Disease | 2 | BeFree |
| umls:C3714796 | Isolated somatotropin deficiency | 2 | BeFree |
| umls:C0001418 | Adenocarcinoma | 1 | BeFree |
| umls:C0002395 | Alzheimer's Disease | 1 | BeFree |
| umls:C0003872 | Arthritis, Psoriatic | 1 | BeFree |
| umls:C0004364 | Autoimmune Diseases | 1 | BeFree |
| umls:C0005684 | Malignant neoplasm of urinary bladder | 1 | BeFree |
| umls:C0007137 | Squamous cell carcinoma | 1 | BeFree |
| umls:C0007279 | Carotid Body Paraganglioma | 1 | BeFree |
| umls:C0007847 | Malignant tumor of cervix | 1 | BeFree |
| umls:C0007894 | Cestode Infections | 1 | BeFree |
| umls:C0008626 | Congenital chromosomal disease | 1 | BeFree |
| umls:C0009663 | Condylomata Acuminata | 1 | BeFree |
| umls:C0011570 | Mental Depression | 1 | BeFree |
| umls:C0011581 | Depressive disorder | 1 | BeFree |
| umls:C0011644 | Scleroderma | 1 | BeFree |
| umls:C0014038 | Encephalitis | 1 | BeFree |
| umls:C0020456 | Hyperglycemia | 1 | BeFree |
| umls:C0021670 | insulinoma | 1 | BeFree |
| umls:C0023267 | Fibroid Tumor | 1 | BeFree |
| umls:C0023364 | Leptospirosis | 1 | BeFree |
| umls:C0023434 | Chronic Lymphocytic Leukemia | 1 | BeFree |
| umls:C0023467 | Leukemia, Myelocytic, Acute | 1 | BeFree |
| umls:C0024141 | Lupus Erythematosus, Systemic | 1 | BeFree |
| umls:C0024299 | Lymphoma | 1 | BeFree |
| umls:C0027627 | Neoplasm Metastasis | 1 | BeFree |
| umls:C0027662 | Multiple Endocrine Neoplasia | 1 | BeFree |
| umls:C0027831 | Neurofibromatosis 1 | 1 | BeFree |
| umls:C0030422 | Extra-Adrenal Paraganglioma | 1 | BeFree |
| umls:C0030805 | Bullous pemphigoid | 1 | BeFree |
| umls:C0031212 | Personality Disorders | 1 | BeFree |
| umls:C0032000 | Pituitary Adenoma | 1 | BeFree |
| umls:C0036341 | Schizophrenia | 1 | BeFree |
| umls:C0039984 | Thoracic Outlet Syndrome | 1 | BeFree |
| umls:C0040015 | Thrombasthenia | 1 | BeFree |
| umls:C0042133 | Uterine Fibroids | 1 | BeFree |
| umls:C0042755 | Virilism | 1 | BeFree |
| umls:C0085400 | Neurofibrillary degeneration (morphologic abnormality) | 1 | BeFree |
| umls:C0086132 | Depressive Symptoms | 1 | BeFree |
| umls:C0154830 | Proliferative diabetic retinopathy | 1 | BeFree |
| umls:C0175693 | Russell-Silver syndrome | 1 | BeFree |
| umls:C0206157 | Myopathies, Nemaline | 1 | BeFree |
| umls:C0221155 | Systolic hypertension | 1 | BeFree |
| umls:C0235222 | Diastolic hypertension | 1 | BeFree |
| umls:C0235946 | Cerebral atrophy | 1 | BeFree |
| umls:C0268164 | Primary hyperoxaluria, type I | 1 | BeFree |
| umls:C0270612 | Leukoencephalopathies | 1 | BeFree |
| umls:C0282577 | Congenital Disorders of Glycosylation | 1 | BeFree |
| umls:C0302592 | Cervix carcinoma | 1 | BeFree |
| umls:C0333463 | Senile Plaques | 1 | BeFree |
| umls:C0342538 | Constitutional delay of growth and puberty | 1 | BeFree |
| umls:C0376358 | Malignant neoplasm of prostate | 1 | BeFree |
| umls:C0424790 | Rigor - Temperature-associated observation | 1 | BeFree |
| umls:C0524851 | Neurodegenerative Disorders | 1 | BeFree |
| umls:C0600139 | Prostate carcinoma | 1 | BeFree |
| umls:C0699885 | Carcinoma of bladder | 1 | BeFree |
| umls:C0729233 | Dissecting aneurysm of the thoracic aorta | 1 | BeFree |
| umls:C0747102 | Ovarian failure | 1 | BeFree |
| umls:C0878544 | Cardiomyopathies | 1 | BeFree |
| umls:C1263846 | Attention deficit hyperactivity disorder | 1 | BeFree |
| umls:C1334699 | Mesenchymal Cell Neoplasm | 1 | BeFree |
| umls:C1378703 | Renal carcinoma | 1 | BeFree |
| umls:C1559093 | Bruising in the Absence of Grade 3 or Grade 4 Thrombocytopenia Adverse Event | 1 | BeFree |
| umls:C1832588 | Chromosome 11p11.2 Deletion Syndrome | 1 | BeFree |
| umls:C1849193 | PEELING SKIN SYNDROME | 1 | BeFree |
| umls:C1854520 | SEBASTIAN SYNDROME | 1 | BeFree |
| umls:C1858592 | Carney Triad | 1 | BeFree |
| umls:C2936349 | Plaque, Amyloid | 1 | BeFree |
| umls:C2986691 | Inherited bone marrow failure syndrome | 1 | BeFree |
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