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Gene: PDLIM3 |
Gene summary for PDLIM3 |
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Gene information | Species | Human | Gene symbol | PDLIM3 | Gene ID | 27295 |
Gene name | PDZ and LIM domain 3 | |
Gene Alias | ALP | |
Cytomap | 4q35.1 | |
Gene Type | protein-coding | GO ID | GO:0006996 | UniProtAcc | Q53GG5 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
27295 | PDLIM3 | GSM4909281 | Human | Breast | IDC | 4.68e-03 | 1.90e-01 | 0.21 |
27295 | PDLIM3 | GSM4909286 | Human | Breast | IDC | 1.58e-05 | 1.74e-01 | 0.1081 |
27295 | PDLIM3 | GSM4909287 | Human | Breast | IDC | 2.99e-04 | -1.91e-01 | 0.2057 |
27295 | PDLIM3 | GSM4909297 | Human | Breast | IDC | 1.33e-08 | -1.94e-01 | 0.1517 |
27295 | PDLIM3 | GSM4909298 | Human | Breast | IDC | 3.31e-02 | -1.76e-01 | 0.1551 |
27295 | PDLIM3 | GSM4909300 | Human | Breast | IDC | 8.49e-05 | 5.01e-01 | 0.0334 |
27295 | PDLIM3 | GSM4909304 | Human | Breast | IDC | 8.23e-09 | -2.10e-01 | 0.1636 |
27295 | PDLIM3 | GSM4909311 | Human | Breast | IDC | 1.02e-06 | -1.90e-01 | 0.1534 |
27295 | PDLIM3 | GSM4909312 | Human | Breast | IDC | 3.88e-06 | -2.05e-01 | 0.1552 |
27295 | PDLIM3 | GSM4909319 | Human | Breast | IDC | 3.80e-09 | -2.05e-01 | 0.1563 |
27295 | PDLIM3 | GSM4909321 | Human | Breast | IDC | 8.67e-06 | -1.96e-01 | 0.1559 |
27295 | PDLIM3 | brca10 | Human | Breast | Precancer | 4.89e-02 | -1.73e-01 | -0.0029 |
27295 | PDLIM3 | NCCBC5 | Human | Breast | DCIS | 3.16e-05 | -1.97e-01 | 0.2046 |
27295 | PDLIM3 | P1 | Human | Breast | IDC | 2.92e-04 | -1.88e-01 | 0.1527 |
27295 | PDLIM3 | DCIS2 | Human | Breast | DCIS | 5.28e-55 | 6.68e-01 | 0.0085 |
27295 | PDLIM3 | LZE7T | Human | Esophagus | ESCC | 1.17e-02 | 1.79e-01 | 0.0667 |
27295 | PDLIM3 | P2T-E | Human | Esophagus | ESCC | 3.89e-09 | 2.39e-01 | 0.1177 |
27295 | PDLIM3 | P5T-E | Human | Esophagus | ESCC | 1.05e-30 | 1.02e+00 | 0.1327 |
27295 | PDLIM3 | P9T-E | Human | Esophagus | ESCC | 2.00e-16 | 1.50e+00 | 0.1131 |
27295 | PDLIM3 | P11T-E | Human | Esophagus | ESCC | 1.08e-05 | 7.95e-01 | 0.1426 |
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∗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 |
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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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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
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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 |
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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 |
PDLIM3 | SNV | Missense_Mutation | novel | c.938N>T | p.Arg313Leu | p.R313L | Q53GG5 | protein_coding | deleterious(0.01) | probably_damaging(1) | TCGA-55-6981-01 | Lung | lung adenocarcinoma | Female | <65 | III/IV | Chemotherapy | chemo | CR |
PDLIM3 | SNV | Missense_Mutation | novel | c.172G>A | p.Glu58Lys | p.E58K | Q53GG5 | protein_coding | tolerated(0.06) | benign(0.115) | TCGA-55-8089-01 | Lung | lung adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
PDLIM3 | SNV | Missense_Mutation | c.902N>C | p.Ile301Thr | p.I301T | Q53GG5 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-78-7150-01 | Lung | lung adenocarcinoma | Male | <65 | I/II | Chemotherapy | carboplatin | PD | |
PDLIM3 | SNV | Missense_Mutation | novel | c.602N>G | p.Asn201Ser | p.N201S | Q53GG5 | protein_coding | tolerated(0.08) | probably_damaging(0.97) | TCGA-78-7155-01 | Lung | lung adenocarcinoma | Male | >=65 | I/II | Chemotherapy | carboplatin | PD |
PDLIM3 | SNV | Missense_Mutation | c.799N>G | p.Arg267Gly | p.R267G | Q53GG5 | protein_coding | deleterious(0) | probably_damaging(0.983) | TCGA-78-8640-01 | Lung | lung adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
PDLIM3 | SNV | Missense_Mutation | rs761204525 | c.1052C>T | p.Pro351Leu | p.P351L | Q53GG5 | protein_coding | deleterious(0) | probably_damaging(0.986) | TCGA-56-7579-01 | Lung | lung squamous cell carcinoma | Male | <65 | III/IV | Chemotherapy | carboplatin | PD |
PDLIM3 | SNV | Missense_Mutation | novel | c.643G>T | p.Gly215Trp | p.G215W | Q53GG5 | protein_coding | deleterious(0.02) | possibly_damaging(0.812) | TCGA-66-2734-01 | Lung | lung squamous cell carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
PDLIM3 | SNV | Missense_Mutation | novel | c.904N>C | p.Val302Leu | p.V302L | Q53GG5 | protein_coding | deleterious(0.03) | benign(0.152) | TCGA-85-7950-01 | Lung | lung squamous cell carcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
PDLIM3 | SNV | Missense_Mutation | rs769091239 | c.194C>T | p.Ala65Val | p.A65V | Q53GG5 | protein_coding | deleterious(0) | probably_damaging(0.992) | TCGA-F7-7848-01 | Oral cavity | head & neck squamous cell carcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
PDLIM3 | SNV | Missense_Mutation | novel | c.167G>C | p.Gly56Ala | p.G56A | Q53GG5 | protein_coding | tolerated(0.18) | benign(0.044) | TCGA-MZ-A7D7-01 | Oral cavity | head & neck squamous cell carcinoma | Male | <65 | I/II | Chemotherapy | cisplatin | PD |
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Related drugs of malignant transformation related genes |
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(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
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