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Gene: CLIC5 |
Gene summary for CLIC5 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | CLIC5 | Gene ID | 53405 |
| Gene name | chloride intracellular channel 5 | |
| Gene Alias | DFNB102 | |
| Cytomap | 6p21.1 | |
| Gene Type | protein-coding | GO ID | GO:0000003 | UniProtAcc | Q53G01 |
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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 |
| 53405 | CLIC5 | HTA11_2487_2000001011 | Human | Colorectum | SER | 6.00e-08 | 7.02e-01 | -0.1808 |
| 53405 | CLIC5 | HTA11_1938_2000001011 | Human | Colorectum | AD | 6.31e-06 | 5.73e-01 | -0.0811 |
| 53405 | CLIC5 | HTA11_78_2000001011 | Human | Colorectum | AD | 2.11e-03 | 5.26e-01 | -0.1088 |
| 53405 | CLIC5 | HTA11_347_2000001011 | Human | Colorectum | AD | 2.00e-15 | 6.78e-01 | -0.1954 |
| 53405 | CLIC5 | HTA11_411_2000001011 | Human | Colorectum | SER | 4.27e-04 | 9.86e-01 | -0.2602 |
| 53405 | CLIC5 | HTA11_696_2000001011 | Human | Colorectum | AD | 1.01e-06 | 4.80e-01 | -0.1464 |
| 53405 | CLIC5 | HTA11_2992_2000001011 | Human | Colorectum | SER | 2.29e-02 | 7.12e-01 | -0.1706 |
| 53405 | CLIC5 | HTA11_5212_2000001011 | Human | Colorectum | AD | 4.19e-02 | 6.19e-01 | -0.2061 |
| 53405 | CLIC5 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 4.29e-12 | 4.37e-01 | 0.294 |
| 53405 | CLIC5 | A015-C-203 | Human | Colorectum | FAP | 2.88e-03 | -1.88e-01 | -0.1294 |
| 53405 | CLIC5 | A002-C-205 | Human | Colorectum | FAP | 8.98e-03 | -2.06e-01 | -0.1236 |
| 53405 | CLIC5 | A015-C-104 | Human | Colorectum | FAP | 1.58e-03 | -1.92e-01 | -0.1899 |
| 53405 | CLIC5 | A002-C-116 | Human | Colorectum | FAP | 2.48e-02 | -1.23e-01 | -0.0452 |
| 53405 | CLIC5 | A008-E-015 | Human | Colorectum | FAP | 6.05e-03 | 2.91e-01 | 0.0177 |
| Page: 1 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Colorectum (GSE201348) |  | FAP: Familial adenomatous polyposis |
| CRC: Colorectal cancer | ||
| Colorectum (HTA11) |  | AD: Adenomas |
| SER: Sessile serrated lesions | ||
| MSI-H: Microsatellite-high colorectal cancer | ||
| MSS: Microsatellite stable colorectal 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 |
| GO:0006790 | Colorectum | AD | sulfur compound metabolic process | 101/3918 | 339/18723 | 6.46e-05 | 1.07e-03 | 101 |
| GO:0006575 | Colorectum | AD | cellular modified amino acid metabolic process | 59/3918 | 188/18723 | 4.80e-04 | 5.27e-03 | 59 |
| GO:0015698 | Colorectum | AD | inorganic anion transport | 52/3918 | 180/18723 | 6.83e-03 | 4.22e-02 | 52 |
| GO:00067901 | Colorectum | SER | sulfur compound metabolic process | 73/2897 | 339/18723 | 1.75e-03 | 1.81e-02 | 73 |
| GO:00065751 | Colorectum | MSS | cellular modified amino acid metabolic process | 55/3467 | 188/18723 | 2.16e-04 | 3.01e-03 | 55 |
| GO:00067902 | Colorectum | MSS | sulfur compound metabolic process | 85/3467 | 339/18723 | 1.52e-03 | 1.39e-02 | 85 |
| GO:00156981 | Colorectum | FAP | inorganic anion transport | 38/2622 | 180/18723 | 5.73e-03 | 3.67e-02 | 38 |
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| 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 |
| CLIC5 | SNV | Missense_Mutation | c.100G>A | p.Asp34Asn | p.D34N | Q9NZA1 | protein_coding | tolerated_low_confidence(0.07) | benign(0.006) | TCGA-A2-A04X-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | SD | |
| CLIC5 | SNV | Missense_Mutation | novel | c.420C>A | p.Ser140Arg | p.S140R | Q9NZA1 | protein_coding | tolerated_low_confidence(0.19) | benign(0) | TCGA-AC-A3W5-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | docetaxel | CR |
| CLIC5 | SNV | Missense_Mutation | novel | c.385N>G | p.Ser129Gly | p.S129G | Q9NZA1 | protein_coding | tolerated_low_confidence(0.23) | benign(0) | TCGA-OL-A66P-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | cytoxan | CR |
| CLIC5 | insertion | Frame_Shift_Ins | novel | c.66_67insCC | p.Asp23ProfsTer19 | p.D23Pfs*19 | Q9NZA1 | protein_coding | TCGA-C8-A1HM-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | doxorubicin | CR | ||
| CLIC5 | insertion | Frame_Shift_Ins | novel | c.65_66insCG | p.Asp23GlufsTer19 | p.D23Efs*19 | Q9NZA1 | protein_coding | TCGA-C8-A1HM-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | doxorubicin | CR | ||
| CLIC5 | deletion | Frame_Shift_Del | c.681delN | p.Gly228AlafsTer7 | p.G228Afs*7 | Q9NZA1 | protein_coding | TCGA-D8-A27V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | |||
| CLIC5 | SNV | Missense_Mutation | c.359N>A | p.Cys120Tyr | p.C120Y | Q9NZA1 | protein_coding | tolerated_low_confidence(1) | benign(0) | TCGA-EK-A2RK-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Unknown | Unknown | SD | |
| CLIC5 | SNV | Missense_Mutation | novel | c.400N>C | p.Asp134His | p.D134H | Q9NZA1 | protein_coding | deleterious_low_confidence(0.03) | benign(0.007) | TCGA-ZJ-AAXU-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
| CLIC5 | SNV | Missense_Mutation | rs202022202 | c.1216N>T | p.Arg406Cys | p.R406C | Q9NZA1 | protein_coding | deleterious(0) | probably_damaging(0.992) | TCGA-AG-A02N-01 | Colorectum | rectum adenocarcinoma | Male | >=65 | I/II | Chemotherapy | folinic | CR |
| CLIC5 | SNV | Missense_Mutation | novel | c.204N>C | p.Glu68Asp | p.E68D | Q9NZA1 | protein_coding | tolerated_low_confidence(0.16) | benign(0.001) | TCGA-A5-A0R8-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
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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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