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Gene: SDHB |
Gene summary for SDHB |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | SDHB | Gene ID | 6390 |
| Gene name | succinate dehydrogenase complex iron sulfur subunit B | |
| Gene Alias | CWS2 | |
| Cytomap | 1p36.13 | |
| Gene Type | protein-coding | GO ID | GO:0006082 | UniProtAcc | P21912 |
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Malignant transformation analysis |
| Identification of the aberrant gene expression in precancerous and cancerous lesions by comparing the gene expression of stem-like cells in diseased tissues with normal stem cells |
| Malignant transformation involving gene list. |
| Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
| 6390 | SDHB | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.36e-02 | 1.03e-01 | 0.0155 |
| 6390 | SDHB | HTA11_2487_2000001011 | Human | Colorectum | SER | 6.75e-05 | 4.60e-01 | -0.1808 |
| 6390 | SDHB | HTA11_1938_2000001011 | Human | Colorectum | AD | 2.62e-04 | 5.21e-01 | -0.0811 |
| 6390 | SDHB | HTA11_347_2000001011 | Human | Colorectum | AD | 1.72e-28 | 8.31e-01 | -0.1954 |
| 6390 | SDHB | HTA11_411_2000001011 | Human | Colorectum | SER | 6.20e-04 | 6.54e-01 | -0.2602 |
| 6390 | SDHB | HTA11_3361_2000001011 | Human | Colorectum | AD | 1.37e-02 | 3.26e-01 | -0.1207 |
| 6390 | SDHB | HTA11_83_2000001011 | Human | Colorectum | SER | 3.58e-14 | 8.62e-01 | -0.1526 |
| 6390 | SDHB | HTA11_696_2000001011 | Human | Colorectum | AD | 4.52e-15 | 6.42e-01 | -0.1464 |
| 6390 | SDHB | HTA11_866_2000001011 | Human | Colorectum | AD | 6.16e-04 | 3.54e-01 | -0.1001 |
| 6390 | SDHB | HTA11_1391_2000001011 | Human | Colorectum | AD | 7.51e-17 | 8.32e-01 | -0.059 |
| 6390 | SDHB | HTA11_5212_2000001011 | Human | Colorectum | AD | 4.13e-02 | 4.38e-01 | -0.2061 |
| 6390 | SDHB | HTA11_546_2000001011 | Human | Colorectum | AD | 1.07e-03 | 5.20e-01 | -0.0842 |
| 6390 | SDHB | HTA11_7862_2000001011 | Human | Colorectum | AD | 6.87e-03 | 4.86e-01 | -0.0179 |
| 6390 | SDHB | HTA11_866_3004761011 | Human | Colorectum | AD | 5.51e-07 | 3.56e-01 | 0.096 |
| 6390 | SDHB | HTA11_4255_2000001011 | Human | Colorectum | SER | 4.29e-02 | 4.86e-01 | 0.0446 |
| 6390 | SDHB | HTA11_7663_2000001011 | Human | Colorectum | SER | 9.01e-05 | 7.80e-01 | 0.0131 |
| 6390 | SDHB | HTA11_7696_3000711011 | Human | Colorectum | AD | 3.66e-03 | 3.71e-01 | 0.0674 |
| 6390 | SDHB | HTA11_99999970781_79442 | Human | Colorectum | MSS | 2.39e-05 | 5.00e-01 | 0.294 |
| 6390 | SDHB | HTA11_99999971662_82457 | Human | Colorectum | MSS | 4.29e-13 | 8.25e-01 | 0.3859 |
| 6390 | SDHB | A015-C-203 | Human | Colorectum | FAP | 2.21e-11 | -2.08e-01 | -0.1294 |
| Page: 1 2 3 4 5 6 7 8 9 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Colorectum (GSE201348) |  | FAP: Familial adenomatous polyposis |
| CRC: Colorectal cancer | ||
| Colorectum (HTA11) |  | AD: Adenomas |
| SER: Sessile serrated lesions | ||
| MSI-H: Microsatellite-high colorectal cancer | ||
| MSS: Microsatellite stable colorectal cancer | ||
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| Liver |  | HCC: Hepatocellular carcinoma |
| NAFLD: Non-alcoholic fatty liver disease | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma | ||
| Skin |  | AK: Actinic keratosis |
| cSCC: Cutaneous squamous cell carcinoma | ||
| SCCIS:squamous cell carcinoma in situ | ||
| Thyroid |  | ATC: Anaplastic thyroid cancer |
| HT: Hashimoto's thyroiditis | ||
| PTC: Papillary thyroid cancer |
| ∗log2FC in expression of this searched gene in stem-like cells from each diseased tissue sample relative to stem-like cells in normal samples in each tissue plotted against the malignancy continuum. Samples are colored based on if they are from different disease stage. |
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Malignant transformation related pathway analysis |
| Find out the enriched GO biological processes and KEGG pathways involved in transition from healthy to precancer to cancer |
| Figure of enriched GO biological processes. |
| Tissue | Disease Stage | Enriched GO biological Processes |
| Colorectum | AD |  |
| Colorectum | SER |  |
| Colorectum | MSS |  |
| Colorectum | MSI-H |  |
| Colorectum | FAP |  |
| ∗Top 15 enriched GO BP terms are showed in the bar plot of each disease state in each tissue. Each row represents a significant GO biological process which is colored according to the -log10(p.adjust). |
| Page: 1 2 3 4 5 6 7 8 9 |
| Enriched GO biological processes. |
| GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
| GO:0006091 | Colorectum | AD | generation of precursor metabolites and energy | 209/3918 | 490/18723 | 3.17e-28 | 6.61e-25 | 209 |
| GO:0009060 | Colorectum | AD | aerobic respiration | 108/3918 | 189/18723 | 9.14e-28 | 1.43e-24 | 108 |
| GO:0045333 | Colorectum | AD | cellular respiration | 119/3918 | 230/18723 | 3.21e-25 | 4.02e-22 | 119 |
| GO:0015980 | Colorectum | AD | energy derivation by oxidation of organic compounds | 143/3918 | 318/18723 | 2.78e-22 | 2.49e-19 | 143 |
| GO:0022900 | Colorectum | AD | electron transport chain | 89/3918 | 175/18723 | 1.42e-18 | 8.91e-16 | 89 |
| GO:0022904 | Colorectum | AD | respiratory electron transport chain | 63/3918 | 114/18723 | 8.23e-16 | 2.45e-13 | 63 |
| GO:0006099 | Colorectum | AD | tricarboxylic acid cycle | 19/3918 | 30/18723 | 5.82e-07 | 2.09e-05 | 19 |
| GO:0043648 | Colorectum | AD | dicarboxylic acid metabolic process | 34/3918 | 96/18723 | 7.22e-04 | 7.28e-03 | 34 |
| GO:00090601 | Colorectum | SER | aerobic respiration | 96/2897 | 189/18723 | 5.53e-30 | 1.70e-26 | 96 |
| GO:00453331 | Colorectum | SER | cellular respiration | 103/2897 | 230/18723 | 2.35e-26 | 3.61e-23 | 103 |
| GO:00060911 | Colorectum | SER | generation of precursor metabolites and energy | 168/2897 | 490/18723 | 1.39e-25 | 1.70e-22 | 168 |
| GO:00159801 | Colorectum | SER | energy derivation by oxidation of organic compounds | 119/2897 | 318/18723 | 5.28e-22 | 4.62e-19 | 119 |
| GO:00229001 | Colorectum | SER | electron transport chain | 77/2897 | 175/18723 | 1.77e-19 | 1.36e-16 | 77 |
| GO:00229041 | Colorectum | SER | respiratory electron transport chain | 56/2897 | 114/18723 | 3.34e-17 | 1.71e-14 | 56 |
| GO:00060991 | Colorectum | SER | tricarboxylic acid cycle | 15/2897 | 30/18723 | 1.02e-05 | 3.34e-04 | 15 |
| GO:00090602 | Colorectum | MSS | aerobic respiration | 98/3467 | 189/18723 | 3.35e-25 | 1.05e-21 | 98 |
| GO:00060912 | Colorectum | MSS | generation of precursor metabolites and energy | 186/3467 | 490/18723 | 1.14e-24 | 2.15e-21 | 186 |
| GO:00453332 | Colorectum | MSS | cellular respiration | 107/3467 | 230/18723 | 1.64e-22 | 2.05e-19 | 107 |
| GO:00159802 | Colorectum | MSS | energy derivation by oxidation of organic compounds | 131/3467 | 318/18723 | 2.60e-21 | 2.70e-18 | 131 |
| GO:00229002 | Colorectum | MSS | electron transport chain | 83/3467 | 175/18723 | 2.06e-18 | 1.17e-15 | 83 |
| Page: 1 2 3 4 5 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| hsa05012 | Colorectum | AD | Parkinson disease | 147/2092 | 266/8465 | 2.53e-27 | 8.48e-25 | 5.41e-25 | 147 |
| hsa05208 | Colorectum | AD | Chemical carcinogenesis - reactive oxygen species | 126/2092 | 223/8465 | 1.01e-24 | 1.68e-22 | 1.07e-22 | 126 |
| hsa00190 | Colorectum | AD | Oxidative phosphorylation | 86/2092 | 134/8465 | 2.47e-22 | 2.76e-20 | 1.76e-20 | 86 |
| hsa05415 | Colorectum | AD | Diabetic cardiomyopathy | 114/2092 | 203/8465 | 3.65e-22 | 3.06e-20 | 1.95e-20 | 114 |
| hsa05010 | Colorectum | AD | Alzheimer disease | 174/2092 | 384/8465 | 1.82e-19 | 9.26e-18 | 5.91e-18 | 174 |
| hsa05016 | Colorectum | AD | Huntington disease | 147/2092 | 306/8465 | 1.93e-19 | 9.26e-18 | 5.91e-18 | 147 |
| hsa04714 | Colorectum | AD | Thermogenesis | 120/2092 | 232/8465 | 2.76e-19 | 1.16e-17 | 7.37e-18 | 120 |
| hsa04932 | Colorectum | AD | Non-alcoholic fatty liver disease | 90/2092 | 155/8465 | 4.83e-19 | 1.80e-17 | 1.15e-17 | 90 |
| hsa05020 | Colorectum | AD | Prion disease | 133/2092 | 273/8465 | 2.47e-18 | 8.29e-17 | 5.29e-17 | 133 |
| hsa05014 | Colorectum | AD | Amyotrophic lateral sclerosis | 164/2092 | 364/8465 | 4.28e-18 | 1.27e-16 | 8.09e-17 | 164 |
| hsa05022 | Colorectum | AD | Pathways of neurodegeneration - multiple diseases | 201/2092 | 476/8465 | 4.54e-18 | 1.27e-16 | 8.09e-17 | 201 |
| hsa01200 | Colorectum | AD | Carbon metabolism | 55/2092 | 115/8465 | 5.53e-08 | 8.42e-07 | 5.37e-07 | 55 |
| hsa00020 | Colorectum | AD | Citrate cycle (TCA cycle) | 20/2092 | 30/8465 | 1.43e-06 | 1.77e-05 | 1.13e-05 | 20 |
| hsa050121 | Colorectum | AD | Parkinson disease | 147/2092 | 266/8465 | 2.53e-27 | 8.48e-25 | 5.41e-25 | 147 |
| hsa052081 | Colorectum | AD | Chemical carcinogenesis - reactive oxygen species | 126/2092 | 223/8465 | 1.01e-24 | 1.68e-22 | 1.07e-22 | 126 |
| hsa001901 | Colorectum | AD | Oxidative phosphorylation | 86/2092 | 134/8465 | 2.47e-22 | 2.76e-20 | 1.76e-20 | 86 |
| hsa054151 | Colorectum | AD | Diabetic cardiomyopathy | 114/2092 | 203/8465 | 3.65e-22 | 3.06e-20 | 1.95e-20 | 114 |
| hsa050101 | Colorectum | AD | Alzheimer disease | 174/2092 | 384/8465 | 1.82e-19 | 9.26e-18 | 5.91e-18 | 174 |
| hsa050161 | Colorectum | AD | Huntington disease | 147/2092 | 306/8465 | 1.93e-19 | 9.26e-18 | 5.91e-18 | 147 |
| hsa047141 | Colorectum | AD | Thermogenesis | 120/2092 | 232/8465 | 2.76e-19 | 1.16e-17 | 7.37e-18 | 120 |
| Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 |
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Cell-cell communication analysis |
| Identification of potential cell-cell interactions between two cell types and their ligand-receptor pairs for different disease states |
| Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
| Page: 1 |
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Single-cell gene regulatory network inference analysis |
| Find out the significant the regulons (TFs) and the target genes of each regulon across cell types for different disease states |
| TF | Cell Type | Tissue | Disease Stage | Target Gene | RSS | Regulon Activity |
| ∗The dot plots of a searched regulon are shown for all cell subpopulations in each disease state of each tissue based on the regulon specific score inferred using pySCENIC and by calculating the average expression. |
| Page: 1 |
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Somatic mutation of malignant transformation related genes |
| Annotation of somatic variants for genes involved in malignant transformation |
| Hugo Symbol | Variant Class | Variant Classification | dbSNP RS | HGVSc | HGVSp | HGVSp Short | SWISSPROT | BIOTYPE | SIFT | PolyPhen | Tumor Sample Barcode | Tissue | Histology | Sex | Age | Stage | Therapy Types | Drugs | Outcome |
| SDHB | SNV | Missense_Mutation | c.317A>G | p.Asn106Ser | p.N106S | P21912 | protein_coding | deleterious(0.05) | benign(0.062) | TCGA-E2-A1B4-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Hormone Therapy | arimidex | SD | |
| SDHB | SNV | Missense_Mutation | c.793N>C | p.Glu265Gln | p.E265Q | P21912 | protein_coding | tolerated(0.09) | benign(0.037) | TCGA-DR-A0ZM-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Unspecific | Cisplatin | SD | |
| SDHB | SNV | Missense_Mutation | novel | c.687G>C | p.Glu229Asp | p.E229D | P21912 | protein_coding | tolerated(0.06) | benign(0.011) | TCGA-DS-A1OB-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | carboplatin | PD |
| SDHB | SNV | Missense_Mutation | c.90N>C | p.Gln30His | p.Q30H | P21912 | protein_coding | tolerated_low_confidence(0.25) | benign(0.428) | TCGA-FU-A3HY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR | |
| SDHB | SNV | Missense_Mutation | novel | c.86N>T | p.Ala29Val | p.A29V | P21912 | protein_coding | tolerated_low_confidence(0.17) | benign(0) | TCGA-VS-A9UC-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | SD |
| SDHB | insertion | Frame_Shift_Ins | c.688_689insA | p.Arg230GlnfsTer26 | p.R230Qfs*26 | P21912 | protein_coding | TCGA-DS-A1OB-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | carboplatin | PD | |||
| SDHB | SNV | Missense_Mutation | rs138996609 | c.688N>T | p.Arg230Cys | p.R230C | P21912 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AA-3713-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Chemotherapy | 5-fluorouracil | PR |
| SDHB | SNV | Missense_Mutation | c.626N>A | p.Pro209His | p.P209H | P21912 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AA-A01R-01 | Colorectum | colon adenocarcinoma | Male | <65 | III/IV | Chemotherapy | 5-fluorouracil | PD | |
| SDHB | SNV | Missense_Mutation | rs201517260 | c.607G>A | p.Gly203Arg | p.G203R | P21912 | protein_coding | deleterious(0) | possibly_damaging(0.842) | TCGA-WS-AB45-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| SDHB | SNV | Missense_Mutation | c.74C>T | p.Ala25Val | p.A25V | P21912 | protein_coding | tolerated_low_confidence(0.31) | benign(0) | TCGA-EI-6507-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| Page: 1 2 3 |
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Related drugs of malignant transformation related genes |
| Identification of chemicals and drugs interact with genes involved in malignant transfromation |
| (DGIdb 4.0) |
| Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
| 6390 | SDHB | ENZYME, CLINICALLY ACTIONABLE | ANTIBIOTIC | ANTIBIOTIC | 6277242 | |
| 6390 | SDHB | ENZYME, CLINICALLY ACTIONABLE | CORTICOSTEROIDS | 1537729 | ||
| 6390 | SDHB | ENZYME, CLINICALLY ACTIONABLE | DOXORUBICIN | DOXORUBICIN | 6672210,16278810 | |
| 6390 | SDHB | ENZYME, CLINICALLY ACTIONABLE | GENTAMYCIN | CHEMBL329592 | 11477914 |
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