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Gene: SCAMP4 |
Gene summary for SCAMP4 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | SCAMP4 | Gene ID | 113178 |
| Gene name | secretory carrier membrane protein 4 | |
| Gene Alias | SCAMP-4 | |
| Cytomap | 19p13.3 | |
| Gene Type | protein-coding | GO ID | GO:0006810 | UniProtAcc | Q969E2 |
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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 |
| 113178 | SCAMP4 | LZE8T | Human | Esophagus | ESCC | 1.58e-08 | 1.97e-01 | 0.067 |
| 113178 | SCAMP4 | LZE20T | Human | Esophagus | ESCC | 5.12e-05 | 1.41e-01 | 0.0662 |
| 113178 | SCAMP4 | LZE22T | Human | Esophagus | ESCC | 1.32e-02 | 3.00e-01 | 0.068 |
| 113178 | SCAMP4 | LZE24T | Human | Esophagus | ESCC | 6.18e-21 | 5.45e-01 | 0.0596 |
| 113178 | SCAMP4 | P1T-E | Human | Esophagus | ESCC | 1.14e-14 | 7.74e-01 | 0.0875 |
| 113178 | SCAMP4 | P2T-E | Human | Esophagus | ESCC | 2.68e-35 | 4.66e-01 | 0.1177 |
| 113178 | SCAMP4 | P4T-E | Human | Esophagus | ESCC | 8.11e-23 | 4.96e-01 | 0.1323 |
| 113178 | SCAMP4 | P5T-E | Human | Esophagus | ESCC | 4.66e-06 | 1.24e-01 | 0.1327 |
| 113178 | SCAMP4 | P8T-E | Human | Esophagus | ESCC | 1.54e-20 | 2.73e-01 | 0.0889 |
| 113178 | SCAMP4 | P9T-E | Human | Esophagus | ESCC | 1.18e-19 | 3.25e-01 | 0.1131 |
| 113178 | SCAMP4 | P10T-E | Human | Esophagus | ESCC | 1.01e-35 | 5.67e-01 | 0.116 |
| 113178 | SCAMP4 | P11T-E | Human | Esophagus | ESCC | 1.92e-21 | 8.41e-01 | 0.1426 |
| 113178 | SCAMP4 | P12T-E | Human | Esophagus | ESCC | 9.53e-38 | 6.26e-01 | 0.1122 |
| 113178 | SCAMP4 | P15T-E | Human | Esophagus | ESCC | 9.50e-21 | 4.29e-01 | 0.1149 |
| 113178 | SCAMP4 | P16T-E | Human | Esophagus | ESCC | 2.65e-25 | 4.82e-01 | 0.1153 |
| 113178 | SCAMP4 | P17T-E | Human | Esophagus | ESCC | 6.28e-05 | 3.26e-01 | 0.1278 |
| 113178 | SCAMP4 | P19T-E | Human | Esophagus | ESCC | 2.28e-03 | 5.60e-01 | 0.1662 |
| 113178 | SCAMP4 | P20T-E | Human | Esophagus | ESCC | 1.55e-11 | 2.80e-01 | 0.1124 |
| 113178 | SCAMP4 | P21T-E | Human | Esophagus | ESCC | 4.16e-22 | 5.03e-01 | 0.1617 |
| 113178 | SCAMP4 | P22T-E | Human | Esophagus | ESCC | 1.98e-31 | 4.89e-01 | 0.1236 |
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| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| Liver |  | HCC: Hepatocellular carcinoma |
| NAFLD: Non-alcoholic fatty liver disease | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma | ||
| Skin |  | AK: Actinic keratosis |
| cSCC: Cutaneous squamous cell carcinoma | ||
| SCCIS:squamous cell carcinoma in situ | ||
| Thyroid |  | ATC: Anaplastic thyroid cancer |
| HT: Hashimoto's thyroiditis | ||
| PTC: Papillary thyroid cancer |
| ∗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). |
| Page: 1 2 3 4 5 6 7 8 9 |
| Enriched GO biological processes. |
| GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
| Page: 1 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
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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 |
| Page: 1 |
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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. |
| Page: 1 |
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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 |
| SCAMP4 | SNV | Missense_Mutation | rs772989300 | c.125N>A | p.Arg42Gln | p.R42Q | Q969E2 | protein_coding | deleterious(0.03) | benign(0.009) | TCGA-A6-2686-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| SCAMP4 | SNV | Missense_Mutation | rs766830264 | c.272N>A | p.Arg91Gln | p.R91Q | Q969E2 | protein_coding | deleterious(0.01) | benign(0.273) | TCGA-AA-3710-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| SCAMP4 | SNV | Missense_Mutation | novel | c.499N>G | p.Ile167Val | p.I167V | Q969E2 | protein_coding | tolerated(0.59) | benign(0.006) | TCGA-AA-3845-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
| SCAMP4 | SNV | Missense_Mutation | rs77329316 | c.445G>A | p.Val149Met | p.V149M | Q969E2 | protein_coding | deleterious(0) | probably_damaging(0.918) | TCGA-AJ-A3BH-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | Unknown | I/II | Unknown | Unknown | SD |
| SCAMP4 | SNV | Missense_Mutation | rs547180326 | c.320C>T | p.Ala107Val | p.A107V | Q969E2 | protein_coding | tolerated(1) | possibly_damaging(0.746) | TCGA-B5-A11E-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| SCAMP4 | SNV | Missense_Mutation | novel | c.323N>A | p.Phe108Tyr | p.F108Y | Q969E2 | protein_coding | deleterious(0.04) | probably_damaging(0.999) | TCGA-E6-A1LX-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| SCAMP4 | SNV | Missense_Mutation | novel | c.604N>C | p.Glu202Gln | p.E202Q | Q969E2 | protein_coding | tolerated(0.28) | benign(0.057) | TCGA-CC-A9FS-01 | Liver | liver hepatocellular carcinoma | Male | <65 | I/II | Unknown | Unknown | PD |
| SCAMP4 | deletion | Frame_Shift_Del | novel | c.639_649delGCCCGAGTACC | p.Pro214HisfsTer148 | p.P214Hfs*148 | Q969E2 | protein_coding | TCGA-G3-A3CK-01 | Liver | liver hepatocellular carcinoma | Male | <65 | I/II | Unknown | Unknown | SD | ||
| SCAMP4 | SNV | Missense_Mutation | novel | c.96N>C | p.Glu32Asp | p.E32D | Q969E2 | protein_coding | tolerated(0.53) | benign(0.012) | TCGA-83-5908-01 | Lung | lung adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| SCAMP4 | SNV | Missense_Mutation | rs199600249 | c.191N>A | p.Gly64Asp | p.G64D | Q969E2 | protein_coding | tolerated(0.46) | probably_damaging(0.962) | TCGA-BR-8591-01 | Stomach | stomach adenocarcinoma | Male | >=65 | III/IV | 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 |
| Page: 1 |
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