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Gene: POP4 |
Gene summary for POP4 |
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Gene information | Species | Human | Gene symbol | POP4 | Gene ID | 10775 |
Gene name | POP4 homolog, ribonuclease P/MRP subunit | |
Gene Alias | RPP29 | |
Cytomap | 19q12 | |
Gene Type | protein-coding | GO ID | GO:0000966 | UniProtAcc | O95707 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
10775 | POP4 | LZE4T | Human | Esophagus | ESCC | 5.38e-07 | 2.12e-01 | 0.0811 |
10775 | POP4 | LZE7T | Human | Esophagus | ESCC | 2.15e-05 | 4.67e-01 | 0.0667 |
10775 | POP4 | LZE8T | Human | Esophagus | ESCC | 9.50e-10 | 2.10e-01 | 0.067 |
10775 | POP4 | LZE20T | Human | Esophagus | ESCC | 4.95e-07 | 2.25e-01 | 0.0662 |
10775 | POP4 | LZE24T | Human | Esophagus | ESCC | 2.35e-21 | 3.93e-01 | 0.0596 |
10775 | POP4 | LZE21T | Human | Esophagus | ESCC | 4.53e-04 | 2.69e-01 | 0.0655 |
10775 | POP4 | LZE6T | Human | Esophagus | ESCC | 2.05e-05 | 3.41e-01 | 0.0845 |
10775 | POP4 | P1T-E | Human | Esophagus | ESCC | 3.48e-12 | 5.87e-01 | 0.0875 |
10775 | POP4 | P2T-E | Human | Esophagus | ESCC | 2.16e-26 | 3.56e-01 | 0.1177 |
10775 | POP4 | P4T-E | Human | Esophagus | ESCC | 1.74e-22 | 5.47e-01 | 0.1323 |
10775 | POP4 | P5T-E | Human | Esophagus | ESCC | 2.60e-25 | 5.25e-01 | 0.1327 |
10775 | POP4 | P8T-E | Human | Esophagus | ESCC | 4.89e-39 | 7.12e-01 | 0.0889 |
10775 | POP4 | P9T-E | Human | Esophagus | ESCC | 8.47e-13 | 4.61e-01 | 0.1131 |
10775 | POP4 | P10T-E | Human | Esophagus | ESCC | 9.40e-24 | 5.68e-01 | 0.116 |
10775 | POP4 | P11T-E | Human | Esophagus | ESCC | 4.52e-11 | 6.61e-01 | 0.1426 |
10775 | POP4 | P12T-E | Human | Esophagus | ESCC | 1.37e-26 | 4.58e-01 | 0.1122 |
10775 | POP4 | P15T-E | Human | Esophagus | ESCC | 2.14e-20 | 4.52e-01 | 0.1149 |
10775 | POP4 | P16T-E | Human | Esophagus | ESCC | 9.79e-17 | 2.82e-01 | 0.1153 |
10775 | POP4 | P17T-E | Human | Esophagus | ESCC | 2.76e-10 | 4.51e-01 | 0.1278 |
10775 | POP4 | P19T-E | Human | Esophagus | ESCC | 4.81e-11 | 8.23e-01 | 0.1662 |
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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). |
Page: 1 2 3 4 5 6 7 8 9 |
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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:0022613111 | Esophagus | ESCC | ribonucleoprotein complex biogenesis | 365/8552 | 463/18723 | 1.74e-49 | 1.11e-45 | 365 |
GO:0042254111 | Esophagus | ESCC | ribosome biogenesis | 252/8552 | 299/18723 | 3.27e-44 | 1.04e-40 | 252 |
GO:003447015 | Esophagus | ESCC | ncRNA processing | 300/8552 | 395/18723 | 3.09e-35 | 3.26e-32 | 300 |
GO:0016072110 | Esophagus | ESCC | rRNA metabolic process | 197/8552 | 236/18723 | 1.31e-33 | 1.18e-30 | 197 |
GO:0006364110 | Esophagus | ESCC | rRNA processing | 189/8552 | 225/18723 | 4.88e-33 | 3.87e-30 | 189 |
GO:003466012 | Esophagus | ESCC | ncRNA metabolic process | 346/8552 | 485/18723 | 4.35e-31 | 2.51e-28 | 346 |
GO:00905013 | Esophagus | ESCC | RNA phosphodiester bond hydrolysis | 110/8552 | 152/18723 | 1.95e-11 | 6.81e-10 | 110 |
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:00903053 | Esophagus | ESCC | nucleic acid phosphodiester bond hydrolysis | 163/8552 | 261/18723 | 3.07e-08 | 5.73e-07 | 163 |
GO:00905023 | Esophagus | ESCC | RNA phosphodiester bond hydrolysis, endonucleolytic | 55/8552 | 82/18723 | 7.34e-05 | 5.51e-04 | 55 |
GO:00344713 | Esophagus | ESCC | ncRNA 5'-end processing | 18/8552 | 21/18723 | 1.81e-04 | 1.16e-03 | 18 |
GO:00009663 | Esophagus | ESCC | RNA 5'-end processing | 19/8552 | 23/18723 | 3.12e-04 | 1.85e-03 | 19 |
GO:00991163 | Esophagus | ESCC | tRNA 5'-end processing | 14/8552 | 16/18723 | 6.78e-04 | 3.56e-03 | 14 |
GO:00016823 | Esophagus | ESCC | tRNA 5'-leader removal | 11/8552 | 13/18723 | 4.76e-03 | 1.85e-02 | 11 |
GO:002261312 | Liver | Cirrhotic | ribonucleoprotein complex biogenesis | 231/4634 | 463/18723 | 3.28e-32 | 6.86e-29 | 231 |
GO:004225412 | Liver | Cirrhotic | ribosome biogenesis | 154/4634 | 299/18723 | 1.18e-23 | 6.72e-21 | 154 |
GO:000636412 | Liver | Cirrhotic | rRNA processing | 115/4634 | 225/18723 | 1.12e-17 | 1.64e-15 | 115 |
GO:00160724 | Liver | Cirrhotic | rRNA metabolic process | 119/4634 | 236/18723 | 1.19e-17 | 1.70e-15 | 119 |
GO:00344701 | Liver | Cirrhotic | ncRNA processing | 158/4634 | 395/18723 | 1.09e-11 | 6.96e-10 | 158 |
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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 |
POP4 | SNV | Missense_Mutation | novel | c.590N>A | p.Gly197Glu | p.G197E | O95707 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-D1-A175-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Chemotherapy | paclitaxel | SD |
POP4 | SNV | Missense_Mutation | novel | c.329N>G | p.Ile110Ser | p.I110S | O95707 | protein_coding | deleterious(0) | possibly_damaging(0.701) | TCGA-DF-A2KU-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | Unknown | I/II | Unknown | Unknown | SD |
POP4 | SNV | Missense_Mutation | c.403N>A | p.Leu135Ile | p.L135I | O95707 | protein_coding | deleterious(0.01) | possibly_damaging(0.718) | TCGA-E6-A1LX-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
POP4 | SNV | Missense_Mutation | novel | c.501N>G | p.Ile167Met | p.I167M | O95707 | protein_coding | deleterious(0) | probably_damaging(0.931) | TCGA-E6-A1LX-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
POP4 | SNV | Missense_Mutation | rs779780512 | c.142G>A | p.Glu48Lys | p.E48K | O95707 | protein_coding | tolerated(0.25) | benign(0.001) | TCGA-EC-A24G-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD |
POP4 | deletion | Frame_Shift_Del | novel | c.523delN | p.Val176LeufsTer5 | p.V176Lfs*5 | O95707 | protein_coding | TCGA-AX-A3FS-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | ||
POP4 | SNV | Missense_Mutation | novel | c.158N>A | p.Arg53His | p.R53H | O95707 | protein_coding | tolerated(0.37) | benign(0.003) | TCGA-4R-AA8I-01 | Liver | liver hepatocellular carcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
POP4 | SNV | Missense_Mutation | novel | c.23N>T | p.Ala8Val | p.A8V | O95707 | protein_coding | tolerated(0.05) | benign(0.036) | TCGA-DD-AAW3-01 | Liver | liver hepatocellular carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
POP4 | SNV | Missense_Mutation | novel | c.292C>G | p.Leu98Val | p.L98V | O95707 | protein_coding | tolerated(0.07) | benign(0.104) | TCGA-05-4249-01 | Lung | lung adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
POP4 | SNV | Missense_Mutation | c.52G>T | p.Asp18Tyr | p.D18Y | O95707 | protein_coding | deleterious(0.02) | possibly_damaging(0.706) | TCGA-05-4382-01 | Lung | lung adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | 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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