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Gene: CYC1 |
Gene summary for CYC1 |
Gene summary. |
Gene information | Species | Human | Gene symbol | CYC1 | Gene ID | 1537 |
Gene name | cytochrome c1 | |
Gene Alias | MC3DN6 | |
Cytomap | 8q24.3 | |
Gene Type | protein-coding | GO ID | GO:0006091 | UniProtAcc | P08574 |
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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 |
1537 | CYC1 | GSM4909281 | Human | Breast | IDC | 5.62e-43 | 7.70e-01 | 0.21 |
1537 | CYC1 | GSM4909282 | Human | Breast | IDC | 4.89e-29 | 5.68e-01 | -0.0288 |
1537 | CYC1 | GSM4909285 | Human | Breast | IDC | 5.89e-32 | 7.48e-01 | 0.21 |
1537 | CYC1 | GSM4909294 | Human | Breast | IDC | 2.05e-02 | 6.77e-02 | 0.2022 |
1537 | CYC1 | GSM4909296 | Human | Breast | IDC | 9.31e-18 | 2.93e-01 | 0.1524 |
1537 | CYC1 | GSM4909297 | Human | Breast | IDC | 2.49e-15 | 3.85e-02 | 0.1517 |
1537 | CYC1 | GSM4909304 | Human | Breast | IDC | 6.39e-05 | 3.05e-01 | 0.1636 |
1537 | CYC1 | GSM4909306 | Human | Breast | IDC | 1.42e-20 | 5.52e-01 | 0.1564 |
1537 | CYC1 | GSM4909307 | Human | Breast | IDC | 4.23e-05 | 2.92e-01 | 0.1569 |
1537 | CYC1 | GSM4909308 | Human | Breast | IDC | 9.31e-04 | 3.69e-01 | 0.158 |
1537 | CYC1 | GSM4909309 | Human | Breast | IDC | 6.42e-08 | 2.39e-01 | 0.0483 |
1537 | CYC1 | GSM4909311 | Human | Breast | IDC | 6.68e-41 | 2.49e-01 | 0.1534 |
1537 | CYC1 | GSM4909312 | Human | Breast | IDC | 1.23e-20 | 3.52e-01 | 0.1552 |
1537 | CYC1 | GSM4909313 | Human | Breast | IDC | 1.26e-02 | -7.37e-02 | 0.0391 |
1537 | CYC1 | GSM4909317 | Human | Breast | IDC | 3.36e-06 | 4.22e-01 | 0.1355 |
1537 | CYC1 | GSM4909319 | Human | Breast | IDC | 1.67e-53 | 2.96e-01 | 0.1563 |
1537 | CYC1 | GSM4909320 | Human | Breast | IDC | 1.54e-07 | 1.69e-01 | 0.1575 |
1537 | CYC1 | GSM4909321 | Human | Breast | IDC | 3.68e-32 | 4.29e-01 | 0.1559 |
1537 | CYC1 | brca1 | Human | Breast | Precancer | 1.12e-28 | 6.19e-01 | -0.0338 |
1537 | CYC1 | brca2 | Human | Breast | Precancer | 6.13e-09 | 3.65e-01 | -0.024 |
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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:002290011 | Stomach | CAG with IM | electron transport chain | 41/1050 | 175/18723 | 2.81e-15 | 1.87e-12 | 41 |
GO:001964611 | Stomach | CAG with IM | aerobic electron transport chain | 28/1050 | 87/18723 | 1.34e-14 | 7.93e-12 | 28 |
GO:002290411 | Stomach | CAG with IM | respiratory electron transport chain | 31/1050 | 114/18723 | 9.31e-14 | 4.14e-11 | 31 |
GO:004277311 | Stomach | CAG with IM | ATP synthesis coupled electron transport | 28/1050 | 95/18723 | 1.62e-13 | 6.16e-11 | 28 |
GO:004277511 | Stomach | CAG with IM | mitochondrial ATP synthesis coupled electron transport | 28/1050 | 95/18723 | 1.62e-13 | 6.16e-11 | 28 |
GO:190260011 | Stomach | CAG with IM | proton transmembrane transport | 34/1050 | 157/18723 | 7.15e-12 | 2.38e-09 | 34 |
GO:000612211 | Stomach | CAG with IM | mitochondrial electron transport, ubiquinol to cytochrome c | 5/1050 | 11/18723 | 1.91e-04 | 3.61e-03 | 5 |
GO:004343411 | Stomach | CAG with IM | response to peptide hormone | 39/1050 | 414/18723 | 1.09e-03 | 1.33e-02 | 39 |
GO:004603421 | Stomach | CSG | ATP metabolic process | 70/1034 | 277/18723 | 9.81e-28 | 2.60e-24 | 70 |
GO:000611921 | Stomach | CSG | oxidative phosphorylation | 46/1034 | 141/18723 | 1.12e-23 | 1.97e-20 | 46 |
GO:000906021 | Stomach | CSG | aerobic respiration | 49/1034 | 189/18723 | 2.82e-20 | 3.12e-17 | 49 |
GO:000609121 | Stomach | CSG | generation of precursor metabolites and energy | 83/1034 | 490/18723 | 2.95e-20 | 3.12e-17 | 83 |
GO:004533321 | Stomach | CSG | cellular respiration | 54/1034 | 230/18723 | 4.69e-20 | 4.13e-17 | 54 |
GO:001598021 | Stomach | CSG | energy derivation by oxidation of organic compounds | 63/1034 | 318/18723 | 4.03e-19 | 3.05e-16 | 63 |
GO:002290021 | Stomach | CSG | electron transport chain | 41/1034 | 175/18723 | 1.66e-15 | 1.10e-12 | 41 |
GO:001964621 | Stomach | CSG | aerobic electron transport chain | 28/1034 | 87/18723 | 9.12e-15 | 5.36e-12 | 28 |
GO:002290421 | Stomach | CSG | respiratory electron transport chain | 31/1034 | 114/18723 | 6.18e-14 | 2.72e-11 | 31 |
GO:004277321 | Stomach | CSG | ATP synthesis coupled electron transport | 28/1034 | 95/18723 | 1.11e-13 | 4.19e-11 | 28 |
GO:004277521 | Stomach | CSG | mitochondrial ATP synthesis coupled electron transport | 28/1034 | 95/18723 | 1.11e-13 | 4.19e-11 | 28 |
GO:190260021 | Stomach | CSG | proton transmembrane transport | 34/1034 | 157/18723 | 4.69e-12 | 1.55e-09 | 34 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0501218 | Breast | Precancer | Parkinson disease | 99/684 | 266/8465 | 3.58e-42 | 5.65e-40 | 4.33e-40 | 99 |
hsa0502016 | Breast | Precancer | Prion disease | 95/684 | 273/8465 | 1.39e-37 | 1.46e-35 | 1.12e-35 | 95 |
hsa0501616 | Breast | Precancer | Huntington disease | 98/684 | 306/8465 | 2.85e-35 | 2.25e-33 | 1.72e-33 | 98 |
hsa0019016 | Breast | Precancer | Oxidative phosphorylation | 59/684 | 134/8465 | 6.15e-30 | 3.24e-28 | 2.48e-28 | 59 |
hsa0501016 | Breast | Precancer | Alzheimer disease | 103/684 | 384/8465 | 1.03e-29 | 4.66e-28 | 3.57e-28 | 103 |
hsa0501416 | Breast | Precancer | Amyotrophic lateral sclerosis | 98/684 | 364/8465 | 2.13e-28 | 8.41e-27 | 6.44e-27 | 98 |
hsa0502216 | Breast | Precancer | Pathways of neurodegeneration - multiple diseases | 112/684 | 476/8465 | 6.96e-27 | 2.44e-25 | 1.87e-25 | 112 |
hsa0520818 | Breast | Precancer | Chemical carcinogenesis - reactive oxygen species | 68/684 | 223/8465 | 3.61e-23 | 1.14e-21 | 8.73e-22 | 68 |
hsa0471418 | Breast | Precancer | Thermogenesis | 68/684 | 232/8465 | 4.40e-22 | 1.26e-20 | 9.69e-21 | 68 |
hsa0541518 | Breast | Precancer | Diabetic cardiomyopathy | 63/684 | 203/8465 | 5.63e-22 | 1.48e-20 | 1.14e-20 | 63 |
hsa0493216 | Breast | Precancer | Non-alcoholic fatty liver disease | 48/684 | 155/8465 | 6.16e-17 | 1.50e-15 | 1.15e-15 | 48 |
hsa0426016 | Breast | Precancer | Cardiac muscle contraction | 22/684 | 87/8465 | 9.72e-07 | 1.62e-05 | 1.24e-05 | 22 |
hsa0501219 | Breast | Precancer | Parkinson disease | 99/684 | 266/8465 | 3.58e-42 | 5.65e-40 | 4.33e-40 | 99 |
hsa0502017 | Breast | Precancer | Prion disease | 95/684 | 273/8465 | 1.39e-37 | 1.46e-35 | 1.12e-35 | 95 |
hsa0501617 | Breast | Precancer | Huntington disease | 98/684 | 306/8465 | 2.85e-35 | 2.25e-33 | 1.72e-33 | 98 |
hsa0019017 | Breast | Precancer | Oxidative phosphorylation | 59/684 | 134/8465 | 6.15e-30 | 3.24e-28 | 2.48e-28 | 59 |
hsa0501017 | Breast | Precancer | Alzheimer disease | 103/684 | 384/8465 | 1.03e-29 | 4.66e-28 | 3.57e-28 | 103 |
hsa0501417 | Breast | Precancer | Amyotrophic lateral sclerosis | 98/684 | 364/8465 | 2.13e-28 | 8.41e-27 | 6.44e-27 | 98 |
hsa0502217 | Breast | Precancer | Pathways of neurodegeneration - multiple diseases | 112/684 | 476/8465 | 6.96e-27 | 2.44e-25 | 1.87e-25 | 112 |
hsa0520819 | Breast | Precancer | Chemical carcinogenesis - reactive oxygen species | 68/684 | 223/8465 | 3.61e-23 | 1.14e-21 | 8.73e-22 | 68 |
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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 |
CYC1 | SNV | Missense_Mutation | c.854N>A | p.Arg285Gln | p.R285Q | P08574 | protein_coding | deleterious(0.01) | probably_damaging(1) | TCGA-AA-3984-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
CYC1 | SNV | Missense_Mutation | c.488A>C | p.Glu163Ala | p.E163A | P08574 | protein_coding | tolerated(0.05) | benign(0.031) | TCGA-AZ-4313-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
CYC1 | SNV | Missense_Mutation | novel | c.357G>T | p.Gln119His | p.Q119H | P08574 | protein_coding | deleterious(0) | probably_damaging(0.95) | TCGA-D5-6530-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
CYC1 | deletion | Frame_Shift_Del | c.276delC | p.Ser93AlafsTer161 | p.S93Afs*161 | P08574 | protein_coding | TCGA-AD-6889-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Chemotherapy | xeloda | PD | |||
CYC1 | insertion | Frame_Shift_Ins | novel | c.758_759insA | p.Glu254ArgfsTer3 | p.E254Rfs*3 | P08574 | protein_coding | TCGA-CA-6719-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | ||
CYC1 | deletion | Frame_Shift_Del | c.270delN | p.Ser93AlafsTer161 | p.S93Afs*161 | P08574 | protein_coding | TCGA-CM-6171-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |||
CYC1 | insertion | Frame_Shift_Ins | rs756254049 | c.269_270insC | p.Ser93GlnfsTer26 | p.S93Qfs*26 | P08574 | protein_coding | TCGA-G4-6586-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | ||
CYC1 | deletion | Frame_Shift_Del | c.276delC | p.Ser93AlafsTer161 | p.S93Afs*161 | P08574 | protein_coding | TCGA-NH-A5IV-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |||
CYC1 | SNV | Missense_Mutation | c.608N>T | p.Ala203Val | p.A203V | P08574 | protein_coding | deleterious(0) | probably_damaging(0.992) | TCGA-AP-A059-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
CYC1 | SNV | Missense_Mutation | rs749437250 | c.601N>A | p.Val201Met | p.V201M | P08574 | protein_coding | deleterious(0.01) | benign(0.281) | TCGA-AP-A0LM-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | cisplatin | 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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