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Gene: COX6C |
Gene summary for COX6C |
Gene summary. |
Gene information | Species | Human | Gene symbol | COX6C | Gene ID | 1345 |
Gene name | cytochrome c oxidase subunit 6C | |
Gene Alias | COX6C | |
Cytomap | 8q22.2 | |
Gene Type | protein-coding | GO ID | GO:0006091 | UniProtAcc | A0A024R9B7 |
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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 |
1345 | COX6C | GSM4909280 | Human | Breast | Precancer | 2.69e-06 | -7.59e-01 | 0.0305 |
1345 | COX6C | GSM4909281 | Human | Breast | IDC | 2.02e-137 | 8.78e-01 | 0.21 |
1345 | COX6C | GSM4909282 | Human | Breast | IDC | 7.16e-12 | 3.14e-01 | -0.0288 |
1345 | COX6C | GSM4909286 | Human | Breast | IDC | 3.17e-29 | 4.44e-01 | 0.1081 |
1345 | COX6C | GSM4909287 | Human | Breast | IDC | 5.15e-80 | 6.59e-01 | 0.2057 |
1345 | COX6C | GSM4909288 | Human | Breast | IDC | 1.96e-04 | 1.66e-01 | 0.0988 |
1345 | COX6C | GSM4909289 | Human | Breast | IDC | 2.07e-20 | 6.67e-01 | 0.1064 |
1345 | COX6C | GSM4909290 | Human | Breast | IDC | 2.12e-87 | 7.67e-01 | 0.2096 |
1345 | COX6C | GSM4909291 | Human | Breast | IDC | 3.99e-09 | 3.07e-01 | 0.1753 |
1345 | COX6C | GSM4909293 | Human | Breast | IDC | 2.78e-12 | 2.67e-01 | 0.1581 |
1345 | COX6C | GSM4909294 | Human | Breast | IDC | 1.32e-49 | 3.94e-01 | 0.2022 |
1345 | COX6C | GSM4909295 | Human | Breast | IDC | 9.55e-08 | 2.49e-01 | 0.0898 |
1345 | COX6C | GSM4909296 | Human | Breast | IDC | 4.19e-29 | 3.10e-01 | 0.1524 |
1345 | COX6C | GSM4909297 | Human | Breast | IDC | 4.05e-107 | 9.49e-01 | 0.1517 |
1345 | COX6C | GSM4909298 | Human | Breast | IDC | 6.45e-11 | 2.87e-01 | 0.1551 |
1345 | COX6C | GSM4909301 | Human | Breast | IDC | 2.85e-147 | 1.06e+00 | 0.1577 |
1345 | COX6C | GSM4909302 | Human | Breast | IDC | 5.38e-50 | 4.83e-01 | 0.1545 |
1345 | COX6C | GSM4909303 | Human | Breast | IDC | 4.97e-12 | 3.91e-01 | 0.0438 |
1345 | COX6C | GSM4909304 | Human | Breast | IDC | 1.53e-81 | 6.77e-01 | 0.1636 |
1345 | COX6C | GSM4909305 | Human | Breast | IDC | 3.10e-06 | 2.95e-01 | 0.0436 |
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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:00061238 | Breast | Precancer | mitochondrial electron transport, cytochrome c to oxygen | 8/1080 | 21/18723 | 1.24e-05 | 3.18e-04 | 8 |
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 |
GO:004277313 | Breast | IDC | ATP synthesis coupled electron transport | 38/1434 | 95/18723 | 1.65e-18 | 9.36e-16 | 38 |
GO:004277513 | Breast | IDC | mitochondrial ATP synthesis coupled electron transport | 38/1434 | 95/18723 | 1.65e-18 | 9.36e-16 | 38 |
GO:001964613 | Breast | IDC | aerobic electron transport chain | 36/1434 | 87/18723 | 3.48e-18 | 1.80e-15 | 36 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0501033 | Breast | IDC | Alzheimer disease | 107/867 | 384/8465 | 1.70e-23 | 7.88e-22 | 5.90e-22 | 107 |
hsa0501433 | Breast | IDC | Amyotrophic lateral sclerosis | 102/867 | 364/8465 | 1.29e-22 | 5.22e-21 | 3.91e-21 | 102 |
hsa0471434 | Breast | IDC | Thermogenesis | 75/867 | 232/8465 | 8.41e-21 | 3.04e-19 | 2.27e-19 | 75 |
hsa0502233 | Breast | IDC | Pathways of neurodegeneration - multiple diseases | 116/867 | 476/8465 | 3.63e-20 | 1.18e-18 | 8.82e-19 | 116 |
hsa0520834 | Breast | IDC | Chemical carcinogenesis - reactive oxygen species | 71/867 | 223/8465 | 2.55e-19 | 7.53e-18 | 5.63e-18 | 71 |
hsa0541533 | Breast | IDC | Diabetic cardiomyopathy | 67/867 | 203/8465 | 3.17e-19 | 8.59e-18 | 6.43e-18 | 67 |
hsa0493233 | Breast | IDC | Non-alcoholic fatty liver disease | 50/867 | 155/8465 | 3.48e-14 | 8.08e-13 | 6.05e-13 | 50 |
hsa0426032 | Breast | IDC | Cardiac muscle contraction | 23/867 | 87/8465 | 1.39e-05 | 1.61e-04 | 1.21e-04 | 23 |
hsa0501243 | Breast | DCIS | Parkinson disease | 106/846 | 266/8465 | 1.64e-39 | 5.29e-37 | 3.90e-37 | 106 |
hsa0502043 | Breast | DCIS | Prion disease | 100/846 | 273/8465 | 1.44e-33 | 1.55e-31 | 1.14e-31 | 100 |
hsa0501643 | Breast | DCIS | Huntington disease | 101/846 | 306/8465 | 1.54e-29 | 1.24e-27 | 9.13e-28 | 101 |
hsa0019043 | Breast | DCIS | Oxidative phosphorylation | 61/846 | 134/8465 | 9.84e-27 | 5.30e-25 | 3.90e-25 | 61 |
hsa0501043 | Breast | DCIS | Alzheimer disease | 105/846 | 384/8465 | 3.23e-23 | 1.49e-21 | 1.10e-21 | 105 |
hsa0501443 | Breast | DCIS | Amyotrophic lateral sclerosis | 101/846 | 364/8465 | 7.14e-23 | 2.88e-21 | 2.12e-21 | 101 |
hsa0471443 | Breast | DCIS | Thermogenesis | 74/846 | 232/8465 | 8.72e-21 | 3.13e-19 | 2.30e-19 | 74 |
hsa0502243 | Breast | DCIS | Pathways of neurodegeneration - multiple diseases | 114/846 | 476/8465 | 4.74e-20 | 1.53e-18 | 1.13e-18 | 114 |
hsa0520843 | Breast | DCIS | Chemical carcinogenesis - reactive oxygen species | 70/846 | 223/8465 | 2.82e-19 | 8.29e-18 | 6.10e-18 | 70 |
hsa0541543 | Breast | DCIS | Diabetic cardiomyopathy | 65/846 | 203/8465 | 1.81e-18 | 4.87e-17 | 3.59e-17 | 65 |
hsa0493243 | Breast | DCIS | Non-alcoholic fatty liver disease | 49/846 | 155/8465 | 5.87e-14 | 1.35e-12 | 9.97e-13 | 49 |
hsa0426042 | Breast | DCIS | Cardiac muscle contraction | 22/846 | 87/8465 | 3.08e-05 | 3.43e-04 | 2.53e-04 | 22 |
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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 |
COX6C | SNV | Missense_Mutation | c.169G>T | p.Asp57Tyr | p.D57Y | P09669 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-A8-A08X-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | doxorubicin | PD | |
COX6C | SNV | Missense_Mutation | c.181N>T | p.Asp61Tyr | p.D61Y | P09669 | protein_coding | deleterious(0.01) | benign(0.33) | TCGA-AA-3977-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
COX6C | SNV | Missense_Mutation | rs746221706 | c.119N>A | p.Arg40His | p.R40H | P09669 | protein_coding | tolerated(0.14) | benign(0.105) | TCGA-AD-5900-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
COX6C | SNV | Missense_Mutation | rs201229067 | c.59G>A | p.Arg20Gln | p.R20Q | P09669 | protein_coding | tolerated(0.19) | benign(0.079) | TCGA-EI-6917-01 | Colorectum | rectum adenocarcinoma | Male | <65 | III/IV | Chemotherapy | 5fluorouracil+oxaciplatina+l-folinian | SD |
COX6C | SNV | Missense_Mutation | rs376349848 | c.148N>A | p.Ala50Thr | p.A50T | P09669 | protein_coding | tolerated(0.07) | benign(0.182) | TCGA-AX-A0J1-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
COX6C | SNV | Missense_Mutation | rs766823907 | c.118N>T | p.Arg40Cys | p.R40C | P09669 | protein_coding | tolerated(0.09) | benign(0.155) | TCGA-AX-A1C9-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
COX6C | SNV | Missense_Mutation | novel | c.163N>C | p.Asn55His | p.N55H | P09669 | protein_coding | deleterious(0.04) | probably_damaging(0.985) | TCGA-AX-A2HC-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | paclitaxel | PD |
COX6C | SNV | Missense_Mutation | rs201229067 | c.59N>A | p.Arg20Gln | p.R20Q | P09669 | protein_coding | tolerated(0.19) | benign(0.079) | TCGA-D1-A16X-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
COX6C | SNV | Missense_Mutation | c.181N>T | p.Asp61Tyr | p.D61Y | P09669 | protein_coding | deleterious(0.01) | benign(0.33) | TCGA-E6-A1LX-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
COX6C | SNV | Missense_Mutation | novel | c.151N>T | p.Asp51Tyr | p.D51Y | P09669 | protein_coding | deleterious(0.02) | probably_damaging(0.994) | TCGA-EO-A22R-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
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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 |
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