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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 | novel | c.710N>A | p.Ala237Asp | p.A237D | P10645 | protein_coding | tolerated(0.38) | benign(0.096) | TCGA-PG-A6IB-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
CHGA | SNV | Missense_Mutation | novel | c.695A>C | p.Glu232Ala | p.E232A | P10645 | protein_coding | tolerated(0.08) | possibly_damaging(0.746) | TCGA-4R-AA8I-01 | Liver | liver hepatocellular carcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
CHGA | SNV | Missense_Mutation | novel | c.1098N>A | p.Asp366Glu | p.D366E | P10645 | protein_coding | tolerated(0.21) | benign(0.003) | TCGA-CC-A8HV-01 | Liver | liver hepatocellular carcinoma | Female | <65 | I/II | Targeted Molecular therapy | sorafenib | PD |
CHGA | SNV | Missense_Mutation | c.1174N>G | p.Arg392Gly | p.R392G | P10645 | protein_coding | deleterious(0) | possibly_damaging(0.851) | TCGA-93-A4JN-01 | Lung | lung adenocarcinoma | Male | >=65 | III/IV | Chemotherapy | belinostat | SD | |
CHGA | SNV | Missense_Mutation | c.829G>A | p.Val277Met | p.V277M | P10645 | protein_coding | tolerated(0.16) | benign(0.138) | TCGA-NJ-A4YI-01 | Lung | lung adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD | |
CHGA | SNV | Missense_Mutation | c.388N>G | p.Met130Val | p.M130V | P10645 | protein_coding | tolerated(0.97) | benign(0) | TCGA-66-2770-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
CHGA | SNV | Missense_Mutation | novel | c.478G>A | p.Glu160Lys | p.E160K | P10645 | protein_coding | tolerated(0.3) | benign(0.399) | TCGA-CR-7404-01 | Oral cavity | head & neck squamous cell carcinoma | Male | <65 | I/II | Chemotherapy | paclitaxel | PD |
CHGA | SNV | Missense_Mutation | novel | c.457N>A | p.Ala153Thr | p.A153T | P10645 | protein_coding | deleterious(0.01) | probably_damaging(0.994) | TCGA-EJ-5501-01 | Prostate | prostate adenocarcinoma | Male | <65 | 7 | Unknown | Unknown | SD |
CHGA | SNV | Missense_Mutation | novel | c.1005N>C | p.Glu335Asp | p.E335D | P10645 | protein_coding | tolerated(0.07) | benign(0.104) | TCGA-BR-4267-01 | Stomach | stomach adenocarcinoma | Male | <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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