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Gene: NDUFC1 |
Gene summary for NDUFC1 |
Gene summary. |
Gene information | Species | Human | Gene symbol | NDUFC1 | Gene ID | 4717 |
Gene name | NADH:ubiquinone oxidoreductase subunit C1 | |
Gene Alias | KFYI | |
Cytomap | 4q31.1 | |
Gene Type | protein-coding | GO ID | GO:0006091 | UniProtAcc | O43677 |
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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 |
4717 | NDUFC1 | GSM4909285 | Human | Breast | IDC | 9.69e-03 | -1.35e-01 | 0.21 |
4717 | NDUFC1 | GSM4909286 | Human | Breast | IDC | 4.31e-07 | 1.80e-01 | 0.1081 |
4717 | NDUFC1 | GSM4909291 | Human | Breast | IDC | 7.41e-09 | 3.78e-01 | 0.1753 |
4717 | NDUFC1 | GSM4909294 | Human | Breast | IDC | 1.65e-14 | 1.78e-01 | 0.2022 |
4717 | NDUFC1 | GSM4909296 | Human | Breast | IDC | 8.73e-15 | 4.57e-02 | 0.1524 |
4717 | NDUFC1 | GSM4909297 | Human | Breast | IDC | 2.17e-18 | -1.37e-01 | 0.1517 |
4717 | NDUFC1 | GSM4909298 | Human | Breast | IDC | 1.05e-02 | 2.53e-01 | 0.1551 |
4717 | NDUFC1 | GSM4909306 | Human | Breast | IDC | 1.21e-03 | 2.91e-01 | 0.1564 |
4717 | NDUFC1 | GSM4909309 | Human | Breast | IDC | 8.42e-04 | -4.60e-03 | 0.0483 |
4717 | NDUFC1 | GSM4909311 | Human | Breast | IDC | 2.60e-48 | -4.35e-02 | 0.1534 |
4717 | NDUFC1 | GSM4909312 | Human | Breast | IDC | 9.92e-16 | 6.03e-02 | 0.1552 |
4717 | NDUFC1 | GSM4909313 | Human | Breast | IDC | 1.88e-06 | 2.51e-02 | 0.0391 |
4717 | NDUFC1 | GSM4909315 | Human | Breast | IDC | 2.35e-60 | 8.62e-01 | 0.21 |
4717 | NDUFC1 | GSM4909316 | Human | Breast | IDC | 3.64e-33 | 8.26e-01 | 0.21 |
4717 | NDUFC1 | GSM4909318 | Human | Breast | IDC | 7.75e-05 | 2.90e-01 | 0.2031 |
4717 | NDUFC1 | GSM4909319 | Human | Breast | IDC | 3.54e-67 | 7.35e-02 | 0.1563 |
4717 | NDUFC1 | GSM4909320 | Human | Breast | IDC | 3.20e-15 | 2.16e-01 | 0.1575 |
4717 | NDUFC1 | GSM4909321 | Human | Breast | IDC | 1.16e-19 | -1.11e-01 | 0.1559 |
4717 | NDUFC1 | brca2 | Human | Breast | Precancer | 6.58e-03 | 1.56e-01 | -0.024 |
4717 | NDUFC1 | M2 | Human | Breast | IDC | 1.65e-02 | -8.47e-02 | 0.21 |
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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 |
hsa0501036 | Prostate | Tumor | Alzheimer disease | 166/1791 | 384/8465 | 1.64e-23 | 6.79e-22 | 4.21e-22 | 166 |
hsa0520837 | Prostate | Tumor | Chemical carcinogenesis - reactive oxygen species | 113/1791 | 223/8465 | 5.17e-23 | 1.90e-21 | 1.18e-21 | 113 |
hsa0501436 | Prostate | Tumor | Amyotrophic lateral sclerosis | 155/1791 | 364/8465 | 3.41e-21 | 1.13e-19 | 6.99e-20 | 155 |
hsa0541536 | Prostate | Tumor | Diabetic cardiomyopathy | 103/1791 | 203/8465 | 4.04e-21 | 1.22e-19 | 7.54e-20 | 103 |
hsa0493236 | Prostate | Tumor | Non-alcoholic fatty liver disease | 85/1791 | 155/8465 | 1.86e-20 | 5.14e-19 | 3.19e-19 | 85 |
hsa0471437 | Prostate | Tumor | Thermogenesis | 110/1791 | 232/8465 | 1.56e-19 | 3.96e-18 | 2.46e-18 | 110 |
hsa0502236 | Prostate | Tumor | Pathways of neurodegeneration - multiple diseases | 182/1791 | 476/8465 | 1.34e-18 | 3.16e-17 | 1.96e-17 | 182 |
hsa0472335 | Prostate | Tumor | Retrograde endocannabinoid signaling | 51/1791 | 148/8465 | 1.12e-04 | 7.25e-04 | 4.49e-04 | 51 |
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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 |
NDUFC1 | SNV | Missense_Mutation | rs781664915 | c.221N>A | p.Gly74Glu | p.G74E | O43677 | protein_coding | deleterious(0.02) | benign(0.383) | TCGA-G4-6320-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Chemotherapy | oxaliplatin | 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 |
4717 | NDUFC1 | ENZYME | inhibitor | CHEMBL3545320 | ME-344 | |
4717 | NDUFC1 | ENZYME | inhibitor | CHEMBL3545135 | NV-128 | |
4717 | NDUFC1 | ENZYME | inhibitor | CHEMBL1703 | METFORMIN HYDROCHLORIDE |
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