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Gene: CLTB |
Gene summary for CLTB |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | CLTB | Gene ID | 1212 |
| Gene name | clathrin light chain B | |
| Gene Alias | LCB | |
| Cytomap | 5q35.2 | |
| Gene Type | protein-coding | GO ID | GO:0006810 | UniProtAcc | A0A024R7S3 |
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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 |
| 1212 | CLTB | GSM4909282 | Human | Breast | IDC | 3.62e-32 | 6.20e-01 | -0.0288 |
| 1212 | CLTB | GSM4909286 | Human | Breast | IDC | 1.55e-08 | -3.89e-01 | 0.1081 |
| 1212 | CLTB | GSM4909290 | Human | Breast | IDC | 8.37e-03 | -3.35e-01 | 0.2096 |
| 1212 | CLTB | GSM4909293 | Human | Breast | IDC | 4.29e-03 | -2.76e-01 | 0.1581 |
| 1212 | CLTB | GSM4909294 | Human | Breast | IDC | 3.02e-06 | -2.83e-01 | 0.2022 |
| 1212 | CLTB | GSM4909296 | Human | Breast | IDC | 4.62e-08 | -2.20e-01 | 0.1524 |
| 1212 | CLTB | GSM4909297 | Human | Breast | IDC | 2.47e-10 | -1.69e-01 | 0.1517 |
| 1212 | CLTB | GSM4909311 | Human | Breast | IDC | 1.41e-29 | -3.89e-01 | 0.1534 |
| 1212 | CLTB | GSM4909312 | Human | Breast | IDC | 2.35e-14 | -3.59e-01 | 0.1552 |
| 1212 | CLTB | GSM4909319 | Human | Breast | IDC | 6.22e-38 | -2.71e-01 | 0.1563 |
| 1212 | CLTB | GSM4909320 | Human | Breast | IDC | 4.78e-03 | -2.48e-01 | 0.1575 |
| 1212 | CLTB | GSM4909321 | Human | Breast | IDC | 8.35e-15 | -2.71e-01 | 0.1559 |
| 1212 | CLTB | brca1 | Human | Breast | Precancer | 4.61e-29 | 6.60e-01 | -0.0338 |
| 1212 | CLTB | brca2 | Human | Breast | Precancer | 4.81e-02 | 2.28e-01 | -0.024 |
| 1212 | CLTB | brca3 | Human | Breast | Precancer | 4.87e-05 | 3.34e-01 | -0.0263 |
| 1212 | CLTB | brca10 | Human | Breast | Precancer | 5.36e-08 | 4.16e-01 | -0.0029 |
| 1212 | CLTB | NCCBC14 | Human | Breast | DCIS | 1.95e-05 | -2.50e-01 | 0.2021 |
| 1212 | CLTB | NCCBC2 | Human | Breast | DCIS | 1.05e-02 | -4.65e-01 | 0.1554 |
| 1212 | CLTB | NCCBC5 | Human | Breast | DCIS | 2.38e-09 | -2.33e-01 | 0.2046 |
| 1212 | CLTB | P1 | Human | Breast | IDC | 1.54e-18 | -4.32e-01 | 0.1527 |
| Page: 1 2 3 4 5 6 7 8 9 10 11 12 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Breast |  | IDC: Invasive ductal carcinoma |
| DCIS: Ductal carcinoma in situ | ||
| Precancer(BRCA1-mut): Precancerous lesion from BRCA1 mutation carriers | ||
| 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 | ||
| Endometrium |  | AEH: Atypical endometrial hyperplasia |
| EEC: Endometrioid Cancer | ||
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| GC |  | CAG: Chronic atrophic gastritis |
| CAG with IM: Chronic atrophic gastritis with intestinal metaplasia | ||
| CSG: Chronic superficial gastritis | ||
| GC: Gastric cancer | ||
| SIM: Severe intestinal metaplasia | ||
| WIM: Wild intestinal metaplasia | ||
| 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:00068986 | Breast | Precancer | receptor-mediated endocytosis | 27/1080 | 244/18723 | 9.01e-04 | 1.03e-02 | 27 |
| GO:00482685 | Breast | Precancer | clathrin coat assembly | 5/1080 | 18/18723 | 2.88e-03 | 2.49e-02 | 5 |
| GO:000689813 | Breast | IDC | receptor-mediated endocytosis | 35/1434 | 244/18723 | 2.38e-04 | 3.75e-03 | 35 |
| GO:000689823 | Breast | DCIS | receptor-mediated endocytosis | 35/1390 | 244/18723 | 1.31e-04 | 2.25e-03 | 35 |
| GO:0072583 | Colorectum | AD | clathrin-dependent endocytosis | 24/3918 | 47/18723 | 4.60e-06 | 1.22e-04 | 24 |
| GO:0006898 | Colorectum | AD | receptor-mediated endocytosis | 76/3918 | 244/18723 | 1.07e-04 | 1.59e-03 | 76 |
| GO:0048268 | Colorectum | AD | clathrin coat assembly | 10/3918 | 18/18723 | 1.31e-03 | 1.15e-02 | 10 |
| GO:00725831 | Colorectum | MSS | clathrin-dependent endocytosis | 22/3467 | 47/18723 | 8.74e-06 | 2.16e-04 | 22 |
| GO:00068981 | Colorectum | MSS | receptor-mediated endocytosis | 69/3467 | 244/18723 | 1.18e-04 | 1.82e-03 | 69 |
| GO:00482681 | Colorectum | MSS | clathrin coat assembly | 10/3467 | 18/18723 | 4.76e-04 | 5.58e-03 | 10 |
| GO:00068988 | Endometrium | AEH | receptor-mediated endocytosis | 49/2100 | 244/18723 | 3.54e-05 | 6.24e-04 | 49 |
| GO:00482687 | Endometrium | AEH | clathrin coat assembly | 7/2100 | 18/18723 | 2.29e-03 | 1.74e-02 | 7 |
| GO:00725837 | Endometrium | AEH | clathrin-dependent endocytosis | 12/2100 | 47/18723 | 4.72e-03 | 3.00e-02 | 12 |
| GO:000689815 | Endometrium | EEC | receptor-mediated endocytosis | 51/2168 | 244/18723 | 1.89e-05 | 3.50e-04 | 51 |
| GO:004826811 | Endometrium | EEC | clathrin coat assembly | 7/2168 | 18/18723 | 2.76e-03 | 1.97e-02 | 7 |
| GO:00725839 | Esophagus | HGIN | clathrin-dependent endocytosis | 15/2587 | 47/18723 | 1.17e-03 | 1.42e-02 | 15 |
| GO:000689818 | Esophagus | ESCC | receptor-mediated endocytosis | 142/8552 | 244/18723 | 5.22e-05 | 4.05e-04 | 142 |
| GO:007258314 | Esophagus | ESCC | clathrin-dependent endocytosis | 34/8552 | 47/18723 | 1.91e-04 | 1.21e-03 | 34 |
| GO:000689811 | Liver | Cirrhotic | receptor-mediated endocytosis | 91/4634 | 244/18723 | 8.13e-06 | 1.22e-04 | 91 |
| GO:000689821 | Liver | HCC | receptor-mediated endocytosis | 134/7958 | 244/18723 | 5.73e-05 | 5.31e-04 | 134 |
| Page: 1 2 3 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| hsa0501616 | Breast | Precancer | Huntington disease | 98/684 | 306/8465 | 2.85e-35 | 2.25e-33 | 1.72e-33 | 98 |
| hsa0510018 | Breast | Precancer | Bacterial invasion of epithelial cells | 16/684 | 77/8465 | 3.55e-04 | 2.80e-03 | 2.15e-03 | 16 |
| hsa0496110 | Breast | Precancer | Endocrine and other factor-regulated calcium reabsorption | 11/684 | 53/8465 | 2.92e-03 | 1.81e-02 | 1.39e-02 | 11 |
| hsa0501617 | Breast | Precancer | Huntington disease | 98/684 | 306/8465 | 2.85e-35 | 2.25e-33 | 1.72e-33 | 98 |
| hsa0510019 | Breast | Precancer | Bacterial invasion of epithelial cells | 16/684 | 77/8465 | 3.55e-04 | 2.80e-03 | 2.15e-03 | 16 |
| hsa0496111 | Breast | Precancer | Endocrine and other factor-regulated calcium reabsorption | 11/684 | 53/8465 | 2.92e-03 | 1.81e-02 | 1.39e-02 | 11 |
| hsa0501623 | Breast | IDC | Huntington disease | 103/867 | 306/8465 | 5.14e-30 | 4.17e-28 | 3.12e-28 | 103 |
| hsa0510024 | Breast | IDC | Bacterial invasion of epithelial cells | 17/867 | 77/8465 | 1.69e-03 | 1.19e-02 | 8.93e-03 | 17 |
| hsa0496121 | Breast | IDC | Endocrine and other factor-regulated calcium reabsorption | 12/867 | 53/8465 | 6.29e-03 | 3.30e-02 | 2.47e-02 | 12 |
| hsa0501633 | Breast | IDC | Huntington disease | 103/867 | 306/8465 | 5.14e-30 | 4.17e-28 | 3.12e-28 | 103 |
| hsa0510034 | Breast | IDC | Bacterial invasion of epithelial cells | 17/867 | 77/8465 | 1.69e-03 | 1.19e-02 | 8.93e-03 | 17 |
| hsa0496131 | Breast | IDC | Endocrine and other factor-regulated calcium reabsorption | 12/867 | 53/8465 | 6.29e-03 | 3.30e-02 | 2.47e-02 | 12 |
| hsa0501643 | Breast | DCIS | Huntington disease | 101/846 | 306/8465 | 1.54e-29 | 1.24e-27 | 9.13e-28 | 101 |
| hsa0510042 | Breast | DCIS | Bacterial invasion of epithelial cells | 16/846 | 77/8465 | 3.41e-03 | 1.98e-02 | 1.46e-02 | 16 |
| hsa0496141 | Breast | DCIS | Endocrine and other factor-regulated calcium reabsorption | 12/846 | 53/8465 | 5.17e-03 | 2.69e-02 | 1.98e-02 | 12 |
| hsa0414416 | Breast | DCIS | Endocytosis | 37/846 | 251/8465 | 9.92e-03 | 4.40e-02 | 3.24e-02 | 37 |
| hsa0501653 | Breast | DCIS | Huntington disease | 101/846 | 306/8465 | 1.54e-29 | 1.24e-27 | 9.13e-28 | 101 |
| hsa0510052 | Breast | DCIS | Bacterial invasion of epithelial cells | 16/846 | 77/8465 | 3.41e-03 | 1.98e-02 | 1.46e-02 | 16 |
| hsa0496151 | Breast | DCIS | Endocrine and other factor-regulated calcium reabsorption | 12/846 | 53/8465 | 5.17e-03 | 2.69e-02 | 1.98e-02 | 12 |
| hsa0414417 | Breast | DCIS | Endocytosis | 37/846 | 251/8465 | 9.92e-03 | 4.40e-02 | 3.24e-02 | 37 |
| Page: 1 2 3 4 5 6 7 8 |
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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 |
| CLTB | SNV | Missense_Mutation | novel | c.12C>A | p.Asp4Glu | p.D4E | P09497 | protein_coding | tolerated(0.36) | benign(0.152) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| CLTB | SNV | Missense_Mutation | c.526G>A | p.Glu176Lys | p.E176K | P09497 | protein_coding | deleterious(0) | probably_damaging(0.972) | TCGA-C5-A7X3-01 | Cervix | cervical & endocervical cancer | Female | >=65 | III/IV | Chemotherapy | cisplatin | SD | |
| CLTB | SNV | Missense_Mutation | rs570423413 | c.371C>T | p.Thr124Met | p.T124M | P09497 | protein_coding | tolerated(0.15) | benign(0.034) | TCGA-EA-A410-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
| CLTB | SNV | Missense_Mutation | novel | c.384N>C | p.Trp128Cys | p.W128C | P09497 | protein_coding | deleterious(0) | probably_damaging(0.975) | TCGA-VS-A9UO-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| CLTB | SNV | Missense_Mutation | rs757930059 | c.646C>T | p.Arg216Cys | p.R216C | P09497 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AD-6895-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Unknown | Unknown | SD |
| CLTB | SNV | Missense_Mutation | rs372564708 | c.311G>A | p.Arg104His | p.R104H | P09497 | protein_coding | deleterious(0.05) | probably_damaging(0.984) | TCGA-CA-6718-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | PD |
| CLTB | SNV | Missense_Mutation | novel | c.271N>A | p.Ala91Thr | p.A91T | P09497 | protein_coding | deleterious(0.02) | probably_damaging(0.977) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
| CLTB | SNV | Missense_Mutation | novel | c.17G>T | p.Gly6Val | p.G6V | P09497 | protein_coding | deleterious(0.01) | possibly_damaging(0.786) | TCGA-AJ-A8CW-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| CLTB | SNV | Missense_Mutation | c.555N>T | p.Glu185Asp | p.E185D | P09497 | protein_coding | tolerated(0.16) | benign(0.078) | TCGA-AP-A059-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| CLTB | SNV | Missense_Mutation | c.453G>T | p.Lys151Asn | p.K151N | P09497 | protein_coding | deleterious(0) | possibly_damaging(0.696) | TCGA-AP-A0LM-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | cisplatin | SD |
| Page: 1 2 3 |
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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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