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Gene: CLINT1 |
Gene summary for CLINT1 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | CLINT1 | Gene ID | 9685 |
| Gene name | clathrin interactor 1 | |
| Gene Alias | CLINT | |
| Cytomap | 5q33.3 | |
| Gene Type | protein-coding | GO ID | GO:0006810 | UniProtAcc | A0A0S2Z5H3 |
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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 |
| 9685 | CLINT1 | HTA11_3410_2000001011 | Human | Colorectum | AD | 5.78e-18 | -6.39e-01 | 0.0155 |
| 9685 | CLINT1 | HTA11_3361_2000001011 | Human | Colorectum | AD | 5.36e-05 | -5.34e-01 | -0.1207 |
| 9685 | CLINT1 | HTA11_7696_3000711011 | Human | Colorectum | AD | 1.73e-11 | -4.75e-01 | 0.0674 |
| 9685 | CLINT1 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 1.19e-05 | -3.11e-01 | 0.3859 |
| 9685 | CLINT1 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 4.75e-25 | -6.28e-01 | 0.3005 |
| 9685 | CLINT1 | F007 | Human | Colorectum | FAP | 6.01e-11 | -6.55e-01 | 0.1176 |
| 9685 | CLINT1 | A002-C-010 | Human | Colorectum | FAP | 1.47e-08 | -3.67e-01 | 0.242 |
| 9685 | CLINT1 | A001-C-207 | Human | Colorectum | FAP | 3.39e-12 | -5.72e-01 | 0.1278 |
| 9685 | CLINT1 | A015-C-203 | Human | Colorectum | FAP | 8.99e-41 | -6.41e-01 | -0.1294 |
| 9685 | CLINT1 | A015-C-204 | Human | Colorectum | FAP | 5.44e-14 | -5.73e-01 | -0.0228 |
| 9685 | CLINT1 | A014-C-040 | Human | Colorectum | FAP | 1.37e-08 | -6.69e-01 | -0.1184 |
| 9685 | CLINT1 | A002-C-201 | Human | Colorectum | FAP | 1.59e-20 | -5.64e-01 | 0.0324 |
| 9685 | CLINT1 | A002-C-203 | Human | Colorectum | FAP | 7.49e-09 | -3.09e-01 | 0.2786 |
| 9685 | CLINT1 | A001-C-119 | Human | Colorectum | FAP | 5.96e-13 | -6.12e-01 | -0.1557 |
| 9685 | CLINT1 | A001-C-108 | Human | Colorectum | FAP | 4.13e-26 | -4.84e-01 | -0.0272 |
| 9685 | CLINT1 | A002-C-205 | Human | Colorectum | FAP | 1.05e-29 | -6.20e-01 | -0.1236 |
| 9685 | CLINT1 | A001-C-104 | Human | Colorectum | FAP | 7.21e-08 | -3.35e-01 | 0.0184 |
| 9685 | CLINT1 | A015-C-005 | Human | Colorectum | FAP | 1.75e-06 | -3.64e-01 | -0.0336 |
| 9685 | CLINT1 | A015-C-006 | Human | Colorectum | FAP | 5.68e-20 | -6.48e-01 | -0.0994 |
| 9685 | CLINT1 | A015-C-106 | Human | Colorectum | FAP | 3.77e-19 | -4.54e-01 | -0.0511 |
| Page: 1 2 3 4 5 6 7 8 9 |
| 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 | ||
| 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 | ||
| Prostate |  | BPH: Benign Prostatic Hyperplasia |
| 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 |
| GO:0048268 | Colorectum | AD | clathrin coat assembly | 10/3918 | 18/18723 | 1.31e-03 | 1.15e-02 | 10 |
| GO:00482681 | Colorectum | MSS | clathrin coat assembly | 10/3467 | 18/18723 | 4.76e-04 | 5.58e-03 | 10 |
| GO:00482682 | Colorectum | FAP | clathrin coat assembly | 8/2622 | 18/18723 | 1.72e-03 | 1.51e-02 | 8 |
| GO:00482683 | Colorectum | CRC | clathrin coat assembly | 7/2078 | 18/18723 | 2.16e-03 | 2.11e-02 | 7 |
| GO:00482689 | Oral cavity | EOLP | clathrin coat assembly | 8/2218 | 18/18723 | 5.58e-04 | 4.74e-03 | 8 |
| GO:004826813 | Oral cavity | NEOLP | clathrin coat assembly | 9/2005 | 18/18723 | 3.59e-05 | 5.21e-04 | 9 |
| GO:00482688 | Prostate | BPH | clathrin coat assembly | 10/3107 | 18/18723 | 1.87e-04 | 1.55e-03 | 10 |
| GO:004826812 | Prostate | Tumor | clathrin coat assembly | 10/3246 | 18/18723 | 2.72e-04 | 2.24e-03 | 10 |
| GO:004826810 | Skin | AK | clathrin coat assembly | 6/1910 | 18/18723 | 7.04e-03 | 3.63e-02 | 6 |
| GO:004826814 | Skin | cSCC | clathrin coat assembly | 10/4864 | 18/18723 | 7.25e-03 | 3.44e-02 | 10 |
| GO:004826815 | Thyroid | PTC | clathrin coat assembly | 12/5968 | 18/18723 | 2.55e-03 | 1.31e-02 | 12 |
| GO:004826816 | Thyroid | ATC | clathrin coat assembly | 12/6293 | 18/18723 | 4.22e-03 | 1.79e-02 | 12 |
| 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 |
| CLINT1 | SNV | Missense_Mutation | novel | c.1521A>C | p.Leu507Phe | p.L507F | Q14677 | protein_coding | deleterious(0.01) | probably_damaging(0.999) | TCGA-AC-A8OP-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| CLINT1 | SNV | Missense_Mutation | rs764235760 | c.95N>T | p.Thr32Met | p.T32M | Q14677 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AR-A0TZ-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Unspecific | Doxorubicin | PD |
| CLINT1 | SNV | Missense_Mutation | novel | c.968C>T | p.Ser323Phe | p.S323F | Q14677 | protein_coding | tolerated(0.53) | probably_damaging(0.969) | TCGA-BH-A42U-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| CLINT1 | SNV | Missense_Mutation | rs751842472 | c.1696N>T | p.Pro566Ser | p.P566S | Q14677 | protein_coding | tolerated_low_confidence(0.48) | benign(0.001) | TCGA-EW-A1IZ-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | taxotere | SD |
| CLINT1 | insertion | Frame_Shift_Ins | novel | c.1807_1808insATGCAAAATTAATTGTTTTACCCTCA | p.Met603AsnfsTer17 | p.M603Nfs*17 | Q14677 | protein_coding | TCGA-AR-A0TY-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unspecific | Paclitaxel | PD | ||
| CLINT1 | deletion | Frame_Shift_Del | novel | c.1668delN | p.Gln558LysfsTer5 | p.Q558Kfs*5 | Q14677 | protein_coding | TCGA-D8-A27V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | ||
| CLINT1 | deletion | Frame_Shift_Del | novel | c.886delN | p.Asp296ThrfsTer68 | p.D296Tfs*68 | Q14677 | protein_coding | TCGA-D8-A27V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | ||
| CLINT1 | SNV | Missense_Mutation | novel | c.1843G>A | p.Gly615Arg | p.G615R | Q14677 | protein_coding | tolerated(0.07) | benign(0.08) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| CLINT1 | SNV | Missense_Mutation | c.932N>G | p.Ser311Cys | p.S311C | Q14677 | protein_coding | deleterious(0.05) | possibly_damaging(0.479) | TCGA-Q1-A6DV-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
| CLINT1 | SNV | Missense_Mutation | c.431G>T | p.Arg144Met | p.R144M | Q14677 | protein_coding | deleterious(0) | probably_damaging(0.912) | TCGA-AA-3492-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| Page: 1 2 3 4 5 6 |
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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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