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Gene: CHGA |
Gene summary for CHGA |
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Gene information | Species | Human | Gene symbol | CHGA | Gene ID | 1113 |
Gene name | chromogranin A | |
Gene Alias | CGA | |
Cytomap | 14q32.12 | |
Gene Type | protein-coding | GO ID | GO:0001775 | UniProtAcc | P10645 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
1113 | CHGA | HTA11_411_2000001011 | Human | Colorectum | SER | 1.77e-14 | 3.35e+00 | -0.2602 |
1113 | CHGA | HTA11_696_2000001011 | Human | Colorectum | AD | 1.56e-02 | 2.06e-01 | -0.1464 |
1113 | CHGA | S014 | Human | Liver | HCC | 5.79e-11 | 9.43e-01 | 0.2254 |
1113 | CHGA | S015 | Human | Liver | HCC | 1.51e-25 | 2.02e+00 | 0.2375 |
1113 | CHGA | S016 | Human | Liver | HCC | 1.22e-38 | 1.86e+00 | 0.2243 |
1113 | CHGA | HTA12-15-2 | Human | Pancreas | PDAC | 3.94e-10 | 7.08e-01 | 0.2315 |
1113 | CHGA | HTA12-26-1 | Human | Pancreas | PDAC | 1.36e-11 | 6.40e-01 | 0.3728 |
1113 | CHGA | HTA12-29-1 | Human | Pancreas | PDAC | 1.81e-16 | 5.17e-01 | 0.3722 |
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∗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 |
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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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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:0051656 | Colorectum | AD | establishment of organelle localization | 131/3918 | 390/18723 | 3.00e-09 | 2.06e-07 | 131 |
GO:0070997 | Colorectum | AD | neuron death | 114/3918 | 361/18723 | 1.13e-06 | 3.72e-05 | 114 |
GO:1901214 | Colorectum | AD | regulation of neuron death | 99/3918 | 319/18723 | 1.26e-05 | 2.76e-04 | 99 |
GO:0050708 | Colorectum | AD | regulation of protein secretion | 83/3918 | 268/18723 | 6.59e-05 | 1.07e-03 | 83 |
GO:1901215 | Colorectum | AD | negative regulation of neuron death | 67/3918 | 208/18723 | 8.81e-05 | 1.35e-03 | 67 |
GO:0009306 | Colorectum | AD | protein secretion | 105/3918 | 359/18723 | 1.05e-04 | 1.57e-03 | 105 |
GO:0035592 | Colorectum | AD | establishment of protein localization to extracellular region | 105/3918 | 360/18723 | 1.18e-04 | 1.73e-03 | 105 |
GO:0071692 | Colorectum | AD | protein localization to extracellular region | 106/3918 | 368/18723 | 1.86e-04 | 2.49e-03 | 106 |
GO:0050796 | Colorectum | AD | regulation of insulin secretion | 54/3918 | 165/18723 | 2.60e-04 | 3.25e-03 | 54 |
GO:0030073 | Colorectum | AD | insulin secretion | 61/3918 | 195/18723 | 4.28e-04 | 4.81e-03 | 61 |
GO:0015833 | Colorectum | AD | peptide transport | 77/3918 | 264/18723 | 8.90e-04 | 8.60e-03 | 77 |
GO:0090257 | Colorectum | AD | regulation of muscle system process | 73/3918 | 252/18723 | 1.46e-03 | 1.24e-02 | 73 |
GO:0090087 | Colorectum | AD | regulation of peptide transport | 60/3918 | 202/18723 | 1.94e-03 | 1.58e-02 | 60 |
GO:0030072 | Colorectum | AD | peptide hormone secretion | 68/3918 | 236/18723 | 2.39e-03 | 1.85e-02 | 68 |
GO:0006887 | Colorectum | AD | exocytosis | 96/3918 | 352/18723 | 2.48e-03 | 1.90e-02 | 96 |
GO:0002791 | Colorectum | AD | regulation of peptide secretion | 59/3918 | 200/18723 | 2.50e-03 | 1.92e-02 | 59 |
GO:0090276 | Colorectum | AD | regulation of peptide hormone secretion | 58/3918 | 196/18723 | 2.51e-03 | 1.92e-02 | 58 |
GO:0002790 | Colorectum | AD | peptide secretion | 69/3918 | 242/18723 | 2.97e-03 | 2.22e-02 | 69 |
GO:0042886 | Colorectum | AD | amide transport | 83/3918 | 301/18723 | 3.37e-03 | 2.46e-02 | 83 |
GO:0002792 | Colorectum | AD | negative regulation of peptide secretion | 17/3918 | 44/18723 | 5.46e-03 | 3.56e-02 | 17 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
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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 |
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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 |
CHGA | SNV | Missense_Mutation | c.250N>G | p.Leu84Val | p.L84V | P10645 | protein_coding | tolerated(0.1) | benign(0.334) | TCGA-C5-A3HD-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | SD | |
CHGA | SNV | Missense_Mutation | rs552215557 | c.992N>A | p.Arg331Gln | p.R331Q | P10645 | protein_coding | tolerated(0.42) | benign(0.013) | TCGA-A6-2681-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
CHGA | SNV | Missense_Mutation | rs147517274 | c.124N>A | p.Asp42Asn | p.D42N | P10645 | protein_coding | deleterious(0) | probably_damaging(0.994) | TCGA-AA-3510-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
CHGA | SNV | Missense_Mutation | rs200937569 | c.259G>A | p.Ala87Thr | p.A87T | P10645 | protein_coding | tolerated(0.08) | benign(0.324) | TCGA-AZ-6601-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
CHGA | SNV | Missense_Mutation | rs150244309 | c.442N>A | p.Gly148Arg | p.G148R | P10645 | protein_coding | tolerated(0.22) | benign(0.08) | TCGA-G4-6628-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
CHGA | SNV | Missense_Mutation | rs780810744 | c.805G>A | p.Glu269Lys | p.E269K | P10645 | protein_coding | tolerated(0.21) | benign(0.009) | TCGA-DC-5869-01 | Colorectum | rectum adenocarcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
CHGA | SNV | Missense_Mutation | c.212N>T | p.Arg71Ile | p.R71I | P10645 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-F5-6814-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
CHGA | SNV | Missense_Mutation | novel | c.398N>T | p.Arg133Ile | p.R133I | P10645 | protein_coding | deleterious(0) | probably_damaging(0.966) | TCGA-F5-6814-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
CHGA | SNV | Missense_Mutation | rs371137176 | c.874G>A | p.Glu292Lys | p.E292K | P10645 | protein_coding | tolerated(0.26) | benign(0.012) | TCGA-A5-A0G1-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
CHGA | SNV | Missense_Mutation | novel | c.1004A>G | p.Glu335Gly | p.E335G | P10645 | protein_coding | deleterious(0) | possibly_damaging(0.874) | TCGA-A5-A1OF-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
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Related drugs of malignant transformation related genes |
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(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
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