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Gene: PXMP2 |
Gene summary for PXMP2 |
Gene summary. |
Gene information | Species | Human | Gene symbol | PXMP2 | Gene ID | 5827 |
Gene name | peroxisomal membrane protein 2 | |
Gene Alias | MPV17L3 | |
Cytomap | 12q24.33 | |
Gene Type | protein-coding | GO ID | GO:0008150 | UniProtAcc | Q9NR77 |
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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 |
5827 | PXMP2 | LZE20T | Human | Esophagus | ESCC | 4.76e-03 | 1.34e-01 | 0.0662 |
5827 | PXMP2 | LZE22T | Human | Esophagus | ESCC | 1.27e-02 | 3.70e-01 | 0.068 |
5827 | PXMP2 | LZE24T | Human | Esophagus | ESCC | 7.39e-11 | 2.98e-01 | 0.0596 |
5827 | PXMP2 | P1T-E | Human | Esophagus | ESCC | 8.50e-07 | 3.29e-01 | 0.0875 |
5827 | PXMP2 | P2T-E | Human | Esophagus | ESCC | 2.00e-57 | 1.23e+00 | 0.1177 |
5827 | PXMP2 | P4T-E | Human | Esophagus | ESCC | 6.60e-33 | 7.45e-01 | 0.1323 |
5827 | PXMP2 | P5T-E | Human | Esophagus | ESCC | 1.37e-25 | 5.65e-01 | 0.1327 |
5827 | PXMP2 | P8T-E | Human | Esophagus | ESCC | 3.58e-25 | 4.24e-01 | 0.0889 |
5827 | PXMP2 | P10T-E | Human | Esophagus | ESCC | 1.61e-32 | 5.48e-01 | 0.116 |
5827 | PXMP2 | P11T-E | Human | Esophagus | ESCC | 5.21e-11 | 4.72e-01 | 0.1426 |
5827 | PXMP2 | P12T-E | Human | Esophagus | ESCC | 1.43e-20 | 3.48e-01 | 0.1122 |
5827 | PXMP2 | P15T-E | Human | Esophagus | ESCC | 5.44e-13 | 2.86e-01 | 0.1149 |
5827 | PXMP2 | P16T-E | Human | Esophagus | ESCC | 2.68e-26 | 5.74e-01 | 0.1153 |
5827 | PXMP2 | P17T-E | Human | Esophagus | ESCC | 8.26e-12 | 4.24e-01 | 0.1278 |
5827 | PXMP2 | P19T-E | Human | Esophagus | ESCC | 4.24e-05 | 4.72e-01 | 0.1662 |
5827 | PXMP2 | P20T-E | Human | Esophagus | ESCC | 2.41e-15 | 3.50e-01 | 0.1124 |
5827 | PXMP2 | P21T-E | Human | Esophagus | ESCC | 7.92e-69 | 1.36e+00 | 0.1617 |
5827 | PXMP2 | P22T-E | Human | Esophagus | ESCC | 3.44e-23 | 4.53e-01 | 0.1236 |
5827 | PXMP2 | P23T-E | Human | Esophagus | ESCC | 5.71e-21 | 5.13e-01 | 0.108 |
5827 | PXMP2 | P24T-E | Human | Esophagus | ESCC | 1.22e-17 | 3.08e-01 | 0.1287 |
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Transcriptomic changes along malignancy continuum. |
∗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 |
hsa041467 | Esophagus | ESCC | Peroxisome | 55/4205 | 82/8465 | 1.04e-03 | 3.27e-03 | 1.68e-03 | 55 |
hsa0414612 | Esophagus | ESCC | Peroxisome | 55/4205 | 82/8465 | 1.04e-03 | 3.27e-03 | 1.68e-03 | 55 |
hsa041462 | Liver | Cirrhotic | Peroxisome | 36/2530 | 82/8465 | 4.79e-03 | 1.74e-02 | 1.07e-02 | 36 |
hsa041463 | Liver | Cirrhotic | Peroxisome | 36/2530 | 82/8465 | 4.79e-03 | 1.74e-02 | 1.07e-02 | 36 |
hsa041464 | Liver | HCC | Peroxisome | 58/4020 | 82/8465 | 1.57e-05 | 1.05e-04 | 5.85e-05 | 58 |
hsa041465 | Liver | HCC | Peroxisome | 58/4020 | 82/8465 | 1.57e-05 | 1.05e-04 | 5.85e-05 | 58 |
hsa041466 | Oral cavity | OSCC | Peroxisome | 47/3704 | 82/8465 | 9.01e-03 | 2.01e-02 | 1.03e-02 | 47 |
hsa0414611 | Oral cavity | OSCC | Peroxisome | 47/3704 | 82/8465 | 9.01e-03 | 2.01e-02 | 1.03e-02 | 47 |
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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 |
PXMP2 | SNV | Missense_Mutation | novel | c.355N>A | p.Pro119Thr | p.P119T | Q9NR77 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AP-A1DK-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
PXMP2 | SNV | Missense_Mutation | rs752950369 | c.229G>A | p.Val77Ile | p.V77I | Q9NR77 | protein_coding | tolerated(1) | benign(0) | TCGA-AP-A1DV-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
PXMP2 | SNV | Missense_Mutation | novel | c.429N>T | p.Lys143Asn | p.K143N | Q9NR77 | protein_coding | deleterious(0.01) | possibly_damaging(0.906) | TCGA-EO-A22X-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unspecific | Carboplatin | Complete Response |
PXMP2 | SNV | Missense_Mutation | novel | c.171G>T | p.Lys57Asn | p.K57N | Q9NR77 | protein_coding | tolerated(0.05) | benign(0.17) | TCGA-EO-A3B0-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
PXMP2 | SNV | Missense_Mutation | rs201569782 | c.535N>A | p.Ala179Thr | p.A179T | Q9NR77 | protein_coding | deleterious(0) | probably_damaging(0.964) | TCGA-SJ-A6ZI-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
PXMP2 | SNV | Missense_Mutation | novel | c.485T>A | p.Leu162Gln | p.L162Q | Q9NR77 | protein_coding | deleterious(0.02) | possibly_damaging(0.77) | TCGA-86-6851-01 | Lung | lung adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
PXMP2 | SNV | Missense_Mutation | rs373882774 | c.401N>A | p.Gly134Glu | p.G134E | Q9NR77 | protein_coding | deleterious(0.01) | probably_damaging(0.919) | TCGA-CR-7394-01 | Oral cavity | head & neck squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
PXMP2 | deletion | Frame_Shift_Del | novel | c.229delN | p.Val77PhefsTer10 | p.V77Ffs*10 | Q9NR77 | protein_coding | TCGA-BJ-A28V-01 | Thyroid | thyroid carcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
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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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