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Gene: CLIC4 |
Gene summary for CLIC4 |
Gene summary. |
Gene information | Species | Human | Gene symbol | CLIC4 | Gene ID | 25932 |
Gene name | chloride intracellular channel 4 | |
Gene Alias | CLIC4L | |
Cytomap | 1p36.11 | |
Gene Type | protein-coding | GO ID | GO:0000003 | UniProtAcc | Q6FIC5 |
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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 |
25932 | CLIC4 | LZE2T | Human | Esophagus | ESCC | 2.30e-02 | 3.06e-01 | 0.082 |
25932 | CLIC4 | LZE4T | Human | Esophagus | ESCC | 1.72e-08 | 1.72e-01 | 0.0811 |
25932 | CLIC4 | LZE7T | Human | Esophagus | ESCC | 3.31e-06 | 7.16e-01 | 0.0667 |
25932 | CLIC4 | LZE8T | Human | Esophagus | ESCC | 2.52e-03 | -3.04e-02 | 0.067 |
25932 | CLIC4 | LZE20T | Human | Esophagus | ESCC | 4.73e-05 | 2.28e-01 | 0.0662 |
25932 | CLIC4 | LZE22T | Human | Esophagus | ESCC | 1.93e-07 | 4.43e-01 | 0.068 |
25932 | CLIC4 | LZE24T | Human | Esophagus | ESCC | 4.01e-19 | 5.98e-01 | 0.0596 |
25932 | CLIC4 | LZE6T | Human | Esophagus | ESCC | 3.65e-07 | 2.69e-01 | 0.0845 |
25932 | CLIC4 | P1T-E | Human | Esophagus | ESCC | 8.16e-07 | 6.66e-01 | 0.0875 |
25932 | CLIC4 | P2T-E | Human | Esophagus | ESCC | 2.04e-83 | 1.52e+00 | 0.1177 |
25932 | CLIC4 | P4T-E | Human | Esophagus | ESCC | 1.92e-40 | 1.04e+00 | 0.1323 |
25932 | CLIC4 | P5T-E | Human | Esophagus | ESCC | 2.67e-60 | 1.28e+00 | 0.1327 |
25932 | CLIC4 | P8T-E | Human | Esophagus | ESCC | 8.76e-11 | 3.63e-01 | 0.0889 |
25932 | CLIC4 | P9T-E | Human | Esophagus | ESCC | 3.92e-14 | 6.62e-01 | 0.1131 |
25932 | CLIC4 | P10T-E | Human | Esophagus | ESCC | 2.55e-32 | 8.49e-01 | 0.116 |
25932 | CLIC4 | P11T-E | Human | Esophagus | ESCC | 1.56e-30 | 1.53e+00 | 0.1426 |
25932 | CLIC4 | P12T-E | Human | Esophagus | ESCC | 1.31e-26 | 7.34e-01 | 0.1122 |
25932 | CLIC4 | P15T-E | Human | Esophagus | ESCC | 1.77e-23 | 8.07e-01 | 0.1149 |
25932 | CLIC4 | P16T-E | Human | Esophagus | ESCC | 1.51e-35 | 7.77e-01 | 0.1153 |
25932 | CLIC4 | P17T-E | Human | Esophagus | ESCC | 4.37e-14 | 1.29e+00 | 0.1278 |
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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:003033616 | Thyroid | ATC | negative regulation of cell migration | 142/6293 | 344/18723 | 1.64e-03 | 8.22e-03 | 142 |
GO:003526414 | Thyroid | ATC | multicellular organism growth | 61/6293 | 132/18723 | 1.73e-03 | 8.66e-03 | 61 |
GO:005127117 | Thyroid | ATC | negative regulation of cellular component movement | 150/6293 | 367/18723 | 1.99e-03 | 9.54e-03 | 150 |
GO:200014617 | Thyroid | ATC | negative regulation of cell motility | 147/6293 | 359/18723 | 2.01e-03 | 9.60e-03 | 147 |
GO:0061298 | Thyroid | ATC | retina vasculature development in camera-type eye | 12/6293 | 17/18723 | 2.02e-03 | 9.60e-03 | 12 |
GO:000703512 | Thyroid | ATC | vacuolar acidification | 15/6293 | 24/18723 | 3.52e-03 | 1.56e-02 | 15 |
GO:007124823 | Thyroid | ATC | cellular response to metal ion | 82/6293 | 197/18723 | 1.11e-02 | 3.99e-02 | 82 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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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 |
CLIC4 | SNV | Missense_Mutation | rs779954576 | c.257N>T | p.Thr86Met | p.T86M | Q9Y696 | protein_coding | deleterious(0.02) | probably_damaging(0.999) | TCGA-A8-A09Z-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
CLIC4 | SNV | Missense_Mutation | novel | c.16N>A | p.Pro6Thr | p.P6T | Q9Y696 | protein_coding | deleterious_low_confidence(0.03) | benign(0.151) | TCGA-Q1-A5R2-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | PR |
CLIC4 | SNV | Missense_Mutation | c.647G>A | p.Gly216Asp | p.G216D | Q9Y696 | protein_coding | deleterious(0) | possibly_damaging(0.826) | TCGA-CK-5913-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
CLIC4 | SNV | Missense_Mutation | c.283C>A | p.Leu95Ile | p.L95I | Q9Y696 | protein_coding | deleterious(0.04) | probably_damaging(0.997) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
CLIC4 | SNV | Missense_Mutation | novel | c.468N>G | p.Asn156Lys | p.N156K | Q9Y696 | protein_coding | tolerated(0.29) | benign(0.054) | TCGA-EI-6917-01 | Colorectum | rectum adenocarcinoma | Male | <65 | III/IV | Chemotherapy | 5fluorouracil+oxaciplatina+l-folinian | SD |
CLIC4 | SNV | Missense_Mutation | rs144375143 | c.617G>A | p.Arg206His | p.R206H | Q9Y696 | protein_coding | tolerated(0.06) | benign(0.009) | TCGA-AJ-A3EK-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Chemotherapy | carboplatin | CR |
CLIC4 | SNV | Missense_Mutation | c.375N>A | p.Phe125Leu | p.F125L | Q9Y696 | protein_coding | deleterious(0.04) | benign(0.166) | TCGA-AX-A05Z-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | adriamycin | SD | |
CLIC4 | SNV | Missense_Mutation | c.109T>C | p.Phe37Leu | p.F37L | Q9Y696 | protein_coding | deleterious(0.04) | probably_damaging(0.92) | TCGA-D1-A167-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
CLIC4 | SNV | Missense_Mutation | novel | c.307N>G | p.Lys103Glu | p.K103E | Q9Y696 | protein_coding | tolerated(0.11) | possibly_damaging(0.795) | TCGA-E6-A1LX-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
CLIC4 | deletion | Frame_Shift_Del | c.612delA | p.Lys204AsnfsTer11 | p.K204Nfs*11 | Q9Y696 | protein_coding | TCGA-AX-A3FT-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | 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 |
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