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Gene: NDUFB9 |
Gene summary for NDUFB9 |
Gene summary. |
Gene information | Species | Human | Gene symbol | NDUFB9 | Gene ID | 4715 |
Gene name | NADH:ubiquinone oxidoreductase subunit B9 | |
Gene Alias | B22 | |
Cytomap | 8q24.13 | |
Gene Type | protein-coding | GO ID | GO:0003008 | UniProtAcc | E9PH64 |
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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 |
4715 | NDUFB9 | GSM4909281 | Human | Breast | IDC | 3.21e-114 | 1.12e+00 | 0.21 |
4715 | NDUFB9 | GSM4909282 | Human | Breast | IDC | 1.58e-08 | 3.42e-01 | -0.0288 |
4715 | NDUFB9 | GSM4909285 | Human | Breast | IDC | 1.53e-14 | 4.77e-01 | 0.21 |
4715 | NDUFB9 | GSM4909286 | Human | Breast | IDC | 9.18e-29 | 5.78e-01 | 0.1081 |
4715 | NDUFB9 | GSM4909287 | Human | Breast | IDC | 1.72e-07 | 2.96e-01 | 0.2057 |
4715 | NDUFB9 | GSM4909290 | Human | Breast | IDC | 1.45e-60 | 8.71e-01 | 0.2096 |
4715 | NDUFB9 | GSM4909291 | Human | Breast | IDC | 1.72e-38 | 7.75e-01 | 0.1753 |
4715 | NDUFB9 | GSM4909293 | Human | Breast | IDC | 4.19e-02 | -2.06e-01 | 0.1581 |
4715 | NDUFB9 | GSM4909294 | Human | Breast | IDC | 1.37e-07 | -1.52e-01 | 0.2022 |
4715 | NDUFB9 | GSM4909296 | Human | Breast | IDC | 1.40e-24 | 2.37e-01 | 0.1524 |
4715 | NDUFB9 | GSM4909297 | Human | Breast | IDC | 1.16e-27 | -8.18e-02 | 0.1517 |
4715 | NDUFB9 | GSM4909298 | Human | Breast | IDC | 4.17e-03 | 2.78e-01 | 0.1551 |
4715 | NDUFB9 | GSM4909301 | Human | Breast | IDC | 8.11e-11 | 2.71e-01 | 0.1577 |
4715 | NDUFB9 | GSM4909305 | Human | Breast | IDC | 8.71e-13 | 4.75e-01 | 0.0436 |
4715 | NDUFB9 | GSM4909306 | Human | Breast | IDC | 4.25e-31 | 6.13e-01 | 0.1564 |
4715 | NDUFB9 | GSM4909307 | Human | Breast | IDC | 2.17e-06 | 2.62e-01 | 0.1569 |
4715 | NDUFB9 | GSM4909308 | Human | Breast | IDC | 7.89e-10 | 3.80e-01 | 0.158 |
4715 | NDUFB9 | GSM4909309 | Human | Breast | IDC | 3.00e-10 | 2.31e-01 | 0.0483 |
4715 | NDUFB9 | GSM4909311 | Human | Breast | IDC | 4.62e-69 | 3.74e-01 | 0.1534 |
4715 | NDUFB9 | GSM4909312 | Human | Breast | IDC | 8.83e-50 | 6.09e-01 | 0.1552 |
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Transcriptomic changes along malignancy continuum. |
∗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). |
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Enriched GO biological processes. |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:00460349 | Breast | Precancer | ATP metabolic process | 82/1080 | 277/18723 | 1.94e-36 | 5.19e-33 | 82 |
GO:00061199 | Breast | Precancer | oxidative phosphorylation | 53/1080 | 141/18723 | 1.15e-29 | 2.04e-26 | 53 |
GO:00090608 | Breast | Precancer | aerobic respiration | 58/1080 | 189/18723 | 5.69e-27 | 7.62e-24 | 58 |
GO:00060918 | Breast | Precancer | generation of precursor metabolites and energy | 94/1080 | 490/18723 | 1.54e-25 | 1.64e-22 | 94 |
GO:00453338 | Breast | Precancer | cellular respiration | 59/1080 | 230/18723 | 5.97e-23 | 5.32e-20 | 59 |
GO:00159808 | Breast | Precancer | energy derivation by oxidation of organic compounds | 70/1080 | 318/18723 | 8.33e-23 | 6.37e-20 | 70 |
GO:00196468 | Breast | Precancer | aerobic electron transport chain | 34/1080 | 87/18723 | 3.95e-20 | 2.64e-17 | 34 |
GO:00427738 | Breast | Precancer | ATP synthesis coupled electron transport | 35/1080 | 95/18723 | 1.08e-19 | 5.76e-17 | 35 |
GO:00427758 | Breast | Precancer | mitochondrial ATP synthesis coupled electron transport | 35/1080 | 95/18723 | 1.08e-19 | 5.76e-17 | 35 |
GO:00229048 | Breast | Precancer | respiratory electron transport chain | 35/1080 | 114/18723 | 8.51e-17 | 3.26e-14 | 35 |
GO:00229008 | Breast | Precancer | electron transport chain | 42/1080 | 175/18723 | 1.37e-15 | 4.59e-13 | 42 |
GO:00061208 | Breast | Precancer | mitochondrial electron transport, NADH to ubiquinone | 19/1080 | 51/18723 | 2.05e-11 | 2.49e-09 | 19 |
GO:00102578 | Breast | Precancer | NADH dehydrogenase complex assembly | 19/1080 | 57/18723 | 1.93e-10 | 1.92e-08 | 19 |
GO:00329818 | Breast | Precancer | mitochondrial respiratory chain complex I assembly | 19/1080 | 57/18723 | 1.93e-10 | 1.92e-08 | 19 |
GO:00331088 | Breast | Precancer | mitochondrial respiratory chain complex assembly | 24/1080 | 93/18723 | 3.39e-10 | 3.16e-08 | 24 |
GO:004603414 | Breast | IDC | ATP metabolic process | 85/1434 | 277/18723 | 6.42e-30 | 1.82e-26 | 85 |
GO:000611913 | Breast | IDC | oxidative phosphorylation | 56/1434 | 141/18723 | 1.87e-26 | 3.53e-23 | 56 |
GO:000906013 | Breast | IDC | aerobic respiration | 61/1434 | 189/18723 | 4.42e-23 | 6.27e-20 | 61 |
GO:000609113 | Breast | IDC | generation of precursor metabolites and energy | 103/1434 | 490/18723 | 1.53e-21 | 1.74e-18 | 103 |
GO:004533313 | Breast | IDC | cellular respiration | 62/1434 | 230/18723 | 5.98e-19 | 4.25e-16 | 62 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0501420 | Endometrium | AEH | Amyotrophic lateral sclerosis | 123/1197 | 364/8465 | 2.17e-22 | 7.82e-21 | 5.72e-21 | 123 |
hsa0501020 | Endometrium | AEH | Alzheimer disease | 124/1197 | 384/8465 | 1.20e-20 | 3.91e-19 | 2.86e-19 | 124 |
hsa0493220 | Endometrium | AEH | Non-alcoholic fatty liver disease | 67/1197 | 155/8465 | 5.91e-19 | 1.75e-17 | 1.28e-17 | 67 |
hsa0471426 | Endometrium | AEH | Thermogenesis | 85/1197 | 232/8465 | 3.44e-18 | 9.33e-17 | 6.83e-17 | 85 |
hsa0502220 | Endometrium | AEH | Pathways of neurodegeneration - multiple diseases | 137/1197 | 476/8465 | 9.27e-18 | 2.32e-16 | 1.70e-16 | 137 |
hsa0472320 | Endometrium | AEH | Retrograde endocannabinoid signaling | 39/1197 | 148/8465 | 5.89e-05 | 5.80e-04 | 4.24e-04 | 39 |
hsa05012111 | Endometrium | AEH | Parkinson disease | 115/1197 | 266/8465 | 6.24e-32 | 1.01e-29 | 7.42e-30 | 115 |
hsa05020110 | Endometrium | AEH | Prion disease | 110/1197 | 273/8465 | 2.39e-27 | 2.44e-25 | 1.78e-25 | 110 |
hsa05016110 | Endometrium | AEH | Huntington disease | 118/1197 | 306/8465 | 3.00e-27 | 2.44e-25 | 1.78e-25 | 118 |
hsa00190110 | Endometrium | AEH | Oxidative phosphorylation | 69/1197 | 134/8465 | 5.80e-25 | 3.14e-23 | 2.30e-23 | 69 |
hsa05415111 | Endometrium | AEH | Diabetic cardiomyopathy | 86/1197 | 203/8465 | 2.62e-23 | 1.22e-21 | 8.90e-22 | 86 |
hsa05208112 | Endometrium | AEH | Chemical carcinogenesis - reactive oxygen species | 91/1197 | 223/8465 | 3.28e-23 | 1.33e-21 | 9.76e-22 | 91 |
hsa05014110 | Endometrium | AEH | Amyotrophic lateral sclerosis | 123/1197 | 364/8465 | 2.17e-22 | 7.82e-21 | 5.72e-21 | 123 |
hsa05010110 | Endometrium | AEH | Alzheimer disease | 124/1197 | 384/8465 | 1.20e-20 | 3.91e-19 | 2.86e-19 | 124 |
hsa04932110 | Endometrium | AEH | Non-alcoholic fatty liver disease | 67/1197 | 155/8465 | 5.91e-19 | 1.75e-17 | 1.28e-17 | 67 |
hsa04714111 | Endometrium | AEH | Thermogenesis | 85/1197 | 232/8465 | 3.44e-18 | 9.33e-17 | 6.83e-17 | 85 |
hsa05022110 | Endometrium | AEH | Pathways of neurodegeneration - multiple diseases | 137/1197 | 476/8465 | 9.27e-18 | 2.32e-16 | 1.70e-16 | 137 |
hsa04723110 | Endometrium | AEH | Retrograde endocannabinoid signaling | 39/1197 | 148/8465 | 5.89e-05 | 5.80e-04 | 4.24e-04 | 39 |
hsa0501227 | Endometrium | EEC | Parkinson disease | 117/1237 | 266/8465 | 5.97e-32 | 9.82e-30 | 7.32e-30 | 117 |
hsa0501625 | Endometrium | EEC | Huntington disease | 120/1237 | 306/8465 | 3.86e-27 | 4.23e-25 | 3.15e-25 | 120 |
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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 |
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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. |
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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 |
NDUFB9 | SNV | Missense_Mutation | novel | c.321N>T | p.Trp107Cys | p.W107C | Q9Y6M9 | protein_coding | deleterious(0.03) | probably_damaging(0.996) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
NDUFB9 | SNV | Missense_Mutation | c.20G>T | p.Gly7Val | p.G7V | Q9Y6M9 | protein_coding | tolerated(0.11) | benign(0) | TCGA-BH-A18V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
NDUFB9 | SNV | Missense_Mutation | c.152A>G | p.His51Arg | p.H51R | Q9Y6M9 | protein_coding | deleterious(0.05) | benign(0.055) | TCGA-E9-A24A-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | tamoxiphen | SD | |
NDUFB9 | deletion | Frame_Shift_Del | novel | c.374delN | p.Trp125Ter | p.W125* | Q9Y6M9 | protein_coding | TCGA-D8-A27V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | ||
NDUFB9 | SNV | Missense_Mutation | c.385N>T | p.Arg129Trp | p.R129W | Q9Y6M9 | protein_coding | tolerated(0.16) | possibly_damaging(0.632) | TCGA-AA-3977-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
NDUFB9 | SNV | Missense_Mutation | c.173N>T | p.Ala58Val | p.A58V | Q9Y6M9 | protein_coding | tolerated(0.68) | benign(0) | TCGA-F4-6703-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
NDUFB9 | SNV | Missense_Mutation | c.506A>G | p.Tyr169Cys | p.Y169C | Q9Y6M9 | protein_coding | deleterious_low_confidence(0) | benign(0.112) | TCGA-AG-4001-01 | Colorectum | rectum adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
NDUFB9 | insertion | Frame_Shift_Ins | novel | c.519_520insC | p.Arg175ProfsTer33 | p.R175Pfs*33 | Q9Y6M9 | protein_coding | TCGA-D5-6928-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | ||
NDUFB9 | SNV | Missense_Mutation | novel | c.509N>G | p.Ile170Ser | p.I170S | Q9Y6M9 | protein_coding | tolerated_low_confidence(0.2) | benign(0.015) | TCGA-B5-A3FA-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
NDUFB9 | SNV | Missense_Mutation | rs774728394 | c.171G>A | p.Met57Ile | p.M57I | Q9Y6M9 | protein_coding | tolerated(0.14) | benign(0.143) | TCGA-05-4382-01 | Lung | lung adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
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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 |
4715 | NDUFB9 | ENZYME | inhibitor | CHEMBL3545135 | NV-128 | |
4715 | NDUFB9 | ENZYME | inhibitor | CHEMBL3545320 | ME-344 | |
4715 | NDUFB9 | ENZYME | inhibitor | CHEMBL1703 | METFORMIN HYDROCHLORIDE |
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