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Gene: LAGE3 |
Gene summary for LAGE3 |
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Gene information | Species | Human | Gene symbol | LAGE3 | Gene ID | 8270 |
Gene name | L antigen family member 3 | |
Gene Alias | CVG5 | |
Cytomap | Xq28 | |
Gene Type | protein-coding | GO ID | GO:0006139 | UniProtAcc | Q14657 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
8270 | LAGE3 | P1_cSCC | Human | Skin | cSCC | 5.05e-23 | 1.09e+00 | 0.0292 |
8270 | LAGE3 | P2_cSCC | Human | Skin | cSCC | 9.73e-15 | 7.11e-01 | -0.024 |
8270 | LAGE3 | P4_cSCC | Human | Skin | cSCC | 6.18e-34 | 9.62e-01 | -0.00290000000000005 |
8270 | LAGE3 | P10_cSCC | Human | Skin | cSCC | 2.87e-24 | 9.30e-01 | 0.1017 |
8270 | LAGE3 | cSCC_p8 | Human | Skin | cSCC | 6.85e-05 | 1.05e-01 | -0.1971 |
8270 | LAGE3 | cSCC_p9 | Human | Skin | cSCC | 3.84e-05 | 4.71e-02 | -0.1991 |
8270 | LAGE3 | male-WTA | Human | Thyroid | PTC | 1.30e-17 | 1.31e-01 | 0.1037 |
8270 | LAGE3 | PTC01 | Human | Thyroid | PTC | 2.52e-17 | 4.36e-01 | 0.1899 |
8270 | LAGE3 | PTC04 | Human | Thyroid | PTC | 1.93e-04 | 1.65e-01 | 0.1927 |
8270 | LAGE3 | PTC05 | Human | Thyroid | PTC | 4.39e-19 | 6.75e-01 | 0.2065 |
8270 | LAGE3 | PTC06 | Human | Thyroid | PTC | 2.19e-22 | 5.52e-01 | 0.2057 |
8270 | LAGE3 | PTC07 | Human | Thyroid | PTC | 3.37e-30 | 6.09e-01 | 0.2044 |
8270 | LAGE3 | ATC09 | Human | Thyroid | ATC | 1.22e-07 | 3.17e-01 | 0.2871 |
8270 | LAGE3 | ATC11 | Human | Thyroid | ATC | 4.26e-09 | 5.98e-01 | 0.3386 |
8270 | LAGE3 | ATC12 | Human | Thyroid | ATC | 1.58e-27 | 5.87e-01 | 0.34 |
8270 | LAGE3 | ATC13 | Human | Thyroid | ATC | 2.10e-46 | 1.37e+00 | 0.34 |
8270 | LAGE3 | ATC1 | Human | Thyroid | ATC | 1.02e-06 | 3.34e-01 | 0.2878 |
8270 | LAGE3 | ATC2 | Human | Thyroid | ATC | 4.07e-16 | 1.07e+00 | 0.34 |
8270 | LAGE3 | ATC3 | Human | Thyroid | ATC | 1.17e-09 | 5.23e-01 | 0.338 |
8270 | LAGE3 | ATC4 | Human | Thyroid | ATC | 3.18e-34 | 7.67e-01 | 0.34 |
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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 |
GO:003447011 | Breast | DCIS | ncRNA processing | 44/1390 | 395/18723 | 4.56e-03 | 3.49e-02 | 44 |
GO:003447010 | Esophagus | HGIN | ncRNA processing | 97/2587 | 395/18723 | 5.92e-09 | 3.90e-07 | 97 |
GO:00346606 | Esophagus | HGIN | ncRNA metabolic process | 104/2587 | 485/18723 | 2.26e-06 | 8.23e-05 | 104 |
GO:003447015 | Esophagus | ESCC | ncRNA processing | 300/8552 | 395/18723 | 3.09e-35 | 3.26e-32 | 300 |
GO:003466012 | Esophagus | ESCC | ncRNA metabolic process | 346/8552 | 485/18723 | 4.35e-31 | 2.51e-28 | 346 |
GO:00080333 | Esophagus | ESCC | tRNA processing | 92/8552 | 127/18723 | 7.83e-10 | 1.93e-08 | 92 |
GO:00063992 | Esophagus | ESCC | tRNA metabolic process | 122/8552 | 179/18723 | 9.03e-10 | 2.19e-08 | 122 |
GO:00344701 | Liver | Cirrhotic | ncRNA processing | 158/4634 | 395/18723 | 1.09e-11 | 6.96e-10 | 158 |
GO:00346603 | Liver | Cirrhotic | ncRNA metabolic process | 173/4634 | 485/18723 | 3.64e-08 | 1.21e-06 | 173 |
GO:00344702 | Liver | HCC | ncRNA processing | 293/7958 | 395/18723 | 4.26e-38 | 6.76e-35 | 293 |
GO:00346601 | Liver | HCC | ncRNA metabolic process | 332/7958 | 485/18723 | 1.48e-31 | 7.80e-29 | 332 |
GO:0008033 | Liver | HCC | tRNA processing | 87/7958 | 127/18723 | 2.66e-09 | 7.23e-08 | 87 |
GO:0006399 | Liver | HCC | tRNA metabolic process | 108/7958 | 179/18723 | 1.07e-06 | 1.59e-05 | 108 |
GO:00344709 | Oral cavity | OSCC | ncRNA processing | 263/7305 | 395/18723 | 4.38e-29 | 2.78e-26 | 263 |
GO:00346605 | Oral cavity | OSCC | ncRNA metabolic process | 296/7305 | 485/18723 | 2.94e-23 | 6.65e-21 | 296 |
GO:00080332 | Oral cavity | OSCC | tRNA processing | 78/7305 | 127/18723 | 2.56e-07 | 4.00e-06 | 78 |
GO:00063991 | Oral cavity | OSCC | tRNA metabolic process | 101/7305 | 179/18723 | 1.65e-06 | 2.15e-05 | 101 |
GO:003447014 | Oral cavity | LP | ncRNA processing | 184/4623 | 395/18723 | 1.20e-21 | 3.12e-19 | 184 |
GO:003466011 | Oral cavity | LP | ncRNA metabolic process | 205/4623 | 485/18723 | 6.46e-18 | 1.09e-15 | 205 |
GO:00080331 | Oral cavity | LP | tRNA processing | 44/4623 | 127/18723 | 7.50e-03 | 4.15e-02 | 44 |
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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 |
LAGE3 | SNV | Missense_Mutation | rs142157546 | c.421G>A | p.Val141Ile | p.V141I | Q14657 | protein_coding | tolerated(0.18) | benign(0.041) | TCGA-EW-A1J5-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | SD |
LAGE3 | insertion | Frame_Shift_Ins | novel | c.210_211insGTTCTTAAATGTTTGTTACTACAGAAAATAAAACTGCGCTACTATTC | p.Thr71ValfsTer45 | p.T71Vfs*45 | Q14657 | protein_coding | TCGA-B6-A0IK-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Unknown | Unknown | PD | ||
LAGE3 | SNV | Missense_Mutation | c.272N>T | p.Arg91Met | p.R91M | Q14657 | protein_coding | tolerated(0.08) | possibly_damaging(0.62) | TCGA-AA-3663-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
LAGE3 | SNV | Missense_Mutation | c.341N>A | p.Arg114His | p.R114H | Q14657 | protein_coding | tolerated(0.16) | benign(0.049) | TCGA-AM-5821-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
LAGE3 | SNV | Missense_Mutation | c.224C>T | p.Ala75Val | p.A75V | Q14657 | protein_coding | deleterious(0.05) | probably_damaging(0.994) | TCGA-AG-3885-01 | Colorectum | rectum adenocarcinoma | Female | >=65 | III/IV | Ancillary | zoledronic | SD | |
LAGE3 | SNV | Missense_Mutation | rs146248216 | c.350N>A | p.Arg117Gln | p.R117Q | Q14657 | protein_coding | tolerated(0.08) | benign(0.223) | TCGA-B5-A11E-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
LAGE3 | SNV | Missense_Mutation | rs782404075 | c.319N>T | p.Arg107Cys | p.R107C | Q14657 | protein_coding | tolerated(0.06) | benign(0.25) | TCGA-DF-A2KU-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | Unknown | I/II | Unknown | Unknown | SD |
LAGE3 | SNV | Missense_Mutation | rs146248216 | c.350N>A | p.Arg117Gln | p.R117Q | Q14657 | protein_coding | tolerated(0.08) | benign(0.223) | TCGA-EO-A3B0-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
LAGE3 | SNV | Missense_Mutation | novel | c.238G>T | p.Gly80Trp | p.G80W | Q14657 | protein_coding | deleterious(0) | benign(0.173) | TCGA-49-6761-01 | Lung | lung adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
LAGE3 | SNV | Missense_Mutation | c.145N>C | p.Ala49Pro | p.A49P | Q14657 | protein_coding | tolerated(0.25) | benign(0.026) | TCGA-97-7547-01 | Lung | lung adenocarcinoma | Female | >=65 | I/II | Chemotherapy | vinorelbine | 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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