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Gene: LIN52 |
Gene summary for LIN52 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | LIN52 | Gene ID | 91750 |
| Gene name | lin-52 DREAM MuvB core complex component | |
| Gene Alias | C14orf46 | |
| Cytomap | 14q24.3 | |
| Gene Type | protein-coding | GO ID | GO:0006139 | UniProtAcc | B3KN83 |
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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 |
| 91750 | LIN52 | LZE4T | Human | Esophagus | ESCC | 2.15e-05 | 1.67e-01 | 0.0811 |
| 91750 | LIN52 | LZE20T | Human | Esophagus | ESCC | 8.39e-03 | 1.93e-01 | 0.0662 |
| 91750 | LIN52 | LZE22T | Human | Esophagus | ESCC | 3.20e-03 | 2.83e-01 | 0.068 |
| 91750 | LIN52 | LZE24T | Human | Esophagus | ESCC | 4.42e-06 | 1.87e-01 | 0.0596 |
| 91750 | LIN52 | P1T-E | Human | Esophagus | ESCC | 6.96e-03 | 2.34e-01 | 0.0875 |
| 91750 | LIN52 | P2T-E | Human | Esophagus | ESCC | 9.00e-16 | 3.43e-01 | 0.1177 |
| 91750 | LIN52 | P4T-E | Human | Esophagus | ESCC | 7.11e-11 | 3.55e-01 | 0.1323 |
| 91750 | LIN52 | P5T-E | Human | Esophagus | ESCC | 3.66e-14 | 1.90e-01 | 0.1327 |
| 91750 | LIN52 | P8T-E | Human | Esophagus | ESCC | 7.58e-13 | 2.23e-01 | 0.0889 |
| 91750 | LIN52 | P10T-E | Human | Esophagus | ESCC | 9.71e-16 | 2.82e-01 | 0.116 |
| 91750 | LIN52 | P11T-E | Human | Esophagus | ESCC | 9.53e-06 | 3.24e-01 | 0.1426 |
| 91750 | LIN52 | P12T-E | Human | Esophagus | ESCC | 5.41e-12 | 3.51e-01 | 0.1122 |
| 91750 | LIN52 | P15T-E | Human | Esophagus | ESCC | 3.01e-18 | 3.85e-01 | 0.1149 |
| 91750 | LIN52 | P16T-E | Human | Esophagus | ESCC | 1.46e-10 | 2.10e-01 | 0.1153 |
| 91750 | LIN52 | P17T-E | Human | Esophagus | ESCC | 3.06e-02 | 1.48e-01 | 0.1278 |
| 91750 | LIN52 | P20T-E | Human | Esophagus | ESCC | 3.20e-10 | 2.59e-01 | 0.1124 |
| 91750 | LIN52 | P21T-E | Human | Esophagus | ESCC | 1.17e-03 | 1.28e-01 | 0.1617 |
| 91750 | LIN52 | P22T-E | Human | Esophagus | ESCC | 5.11e-06 | 8.53e-02 | 0.1236 |
| 91750 | LIN52 | P23T-E | Human | Esophagus | ESCC | 2.20e-09 | 2.24e-01 | 0.108 |
| 91750 | LIN52 | P24T-E | Human | Esophagus | ESCC | 1.65e-10 | 2.01e-01 | 0.1287 |
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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 |
| ∗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 |
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| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| hsa0421829 | Esophagus | ESCC | Cellular senescence | 119/4205 | 156/8465 | 5.89e-12 | 9.40e-11 | 4.81e-11 | 119 |
| hsa0421838 | Esophagus | ESCC | Cellular senescence | 119/4205 | 156/8465 | 5.89e-12 | 9.40e-11 | 4.81e-11 | 119 |
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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 |
| LIN52 | SNV | Missense_Mutation | c.73N>C | p.Asp25His | p.D25H | Q52LA3 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AC-A23H-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD | |
| LIN52 | SNV | Missense_Mutation | c.264G>T | p.Gln88His | p.Q88H | Q52LA3 | protein_coding | tolerated(0.37) | probably_damaging(0.989) | TCGA-AA-3982-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Unknown | Unknown | SD | |
| LIN52 | SNV | Missense_Mutation | c.116N>C | p.Val39Ala | p.V39A | Q52LA3 | protein_coding | deleterious(0) | probably_damaging(0.926) | TCGA-AM-5821-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| LIN52 | SNV | Missense_Mutation | novel | c.236A>G | p.Asn79Ser | p.N79S | Q52LA3 | protein_coding | tolerated(0.32) | benign(0.138) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR |
| LIN52 | SNV | Missense_Mutation | c.187N>T | p.Arg63Cys | p.R63C | Q52LA3 | protein_coding | deleterious(0.01) | possibly_damaging(0.663) | TCGA-A5-A0G9-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| LIN52 | SNV | Missense_Mutation | rs772735078 | c.199N>A | p.Asp67Asn | p.D67N | Q52LA3 | protein_coding | tolerated(0.37) | benign(0.27) | TCGA-AP-A1DV-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| LIN52 | SNV | Missense_Mutation | rs772735078 | c.199N>A | p.Asp67Asn | p.D67N | Q52LA3 | protein_coding | tolerated(0.37) | benign(0.27) | TCGA-EO-A3B0-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
| LIN52 | SNV | Missense_Mutation | novel | c.22N>G | p.Pro8Ala | p.P8A | Q52LA3 | protein_coding | tolerated(0.18) | benign(0.098) | TCGA-64-1677-01 | Lung | lung adenocarcinoma | Female | >=65 | III/IV | Chemotherapy | gemcitabine | PD |
| LIN52 | SNV | Missense_Mutation | novel | c.31N>A | p.Gly11Arg | p.G11R | Q52LA3 | protein_coding | tolerated(0.07) | benign(0.084) | TCGA-64-5815-01 | Lung | lung adenocarcinoma | Male | >=65 | I/II | Chemotherapy | gemcitabine | CR |
| LIN52 | SNV | Missense_Mutation | novel | c.310C>T | p.Arg104Trp | p.R104W | Q52LA3 | protein_coding | deleterious(0) | probably_damaging(0.991) | TCGA-BB-A6UM-01 | Oral cavity | head & neck squamous cell carcinoma | Male | <65 | III/IV | Chemotherapy | unknown | CR |
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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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