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Gene: PA2G4 |
Gene summary for PA2G4 |
Gene summary. |
Gene information | Species | Human | Gene symbol | PA2G4 | Gene ID | 5036 |
Gene name | proliferation-associated 2G4 | |
Gene Alias | EBP1 | |
Cytomap | 12q13.2 | |
Gene Type | protein-coding | GO ID | GO:0006139 | UniProtAcc | A0A024RB85 |
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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 |
5036 | PA2G4 | CA_HPV_1 | Human | Cervix | CC | 3.98e-07 | -7.83e-02 | 0.0264 |
5036 | PA2G4 | CA_HPV_3 | Human | Cervix | CC | 3.80e-02 | 1.59e-01 | 0.0414 |
5036 | PA2G4 | N_HPV_2 | Human | Cervix | N_HPV | 1.08e-02 | 3.00e-01 | -0.0131 |
5036 | PA2G4 | CCI_3 | Human | Cervix | CC | 4.13e-07 | -5.62e-01 | 0.516 |
5036 | PA2G4 | CCII_1 | Human | Cervix | CC | 7.33e-11 | -5.68e-01 | 0.3249 |
5036 | PA2G4 | L1 | Human | Cervix | CC | 2.14e-11 | -2.33e-01 | 0.0802 |
5036 | PA2G4 | HTA11_3410_2000001011 | Human | Colorectum | AD | 9.70e-15 | 3.42e-01 | 0.0155 |
5036 | PA2G4 | HTA11_2487_2000001011 | Human | Colorectum | SER | 9.29e-12 | 4.88e-01 | -0.1808 |
5036 | PA2G4 | HTA11_1938_2000001011 | Human | Colorectum | AD | 1.04e-18 | 6.90e-01 | -0.0811 |
5036 | PA2G4 | HTA11_78_2000001011 | Human | Colorectum | AD | 1.08e-16 | 6.29e-01 | -0.1088 |
5036 | PA2G4 | HTA11_347_2000001011 | Human | Colorectum | AD | 5.49e-27 | 5.64e-01 | -0.1954 |
5036 | PA2G4 | HTA11_3361_2000001011 | Human | Colorectum | AD | 1.36e-06 | 4.02e-01 | -0.1207 |
5036 | PA2G4 | HTA11_83_2000001011 | Human | Colorectum | SER | 1.12e-09 | 5.50e-01 | -0.1526 |
5036 | PA2G4 | HTA11_696_2000001011 | Human | Colorectum | AD | 1.54e-14 | 5.37e-01 | -0.1464 |
5036 | PA2G4 | HTA11_866_2000001011 | Human | Colorectum | AD | 3.04e-05 | 3.72e-01 | -0.1001 |
5036 | PA2G4 | HTA11_1391_2000001011 | Human | Colorectum | AD | 5.20e-27 | 9.26e-01 | -0.059 |
5036 | PA2G4 | HTA11_2992_2000001011 | Human | Colorectum | SER | 8.96e-06 | 4.96e-01 | -0.1706 |
5036 | PA2G4 | HTA11_546_2000001011 | Human | Colorectum | AD | 1.31e-13 | 6.42e-01 | -0.0842 |
5036 | PA2G4 | HTA11_866_3004761011 | Human | Colorectum | AD | 7.08e-12 | 3.87e-01 | 0.096 |
5036 | PA2G4 | HTA11_7663_2000001011 | Human | Colorectum | SER | 3.08e-07 | 5.20e-01 | 0.0131 |
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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 |
GO:000641710 | Cervix | CC | regulation of translation | 89/2311 | 468/18723 | 1.86e-05 | 3.46e-04 | 89 |
GO:002261310 | Cervix | CC | ribonucleoprotein complex biogenesis | 88/2311 | 463/18723 | 2.11e-05 | 3.82e-04 | 88 |
GO:004225410 | Cervix | CC | ribosome biogenesis | 62/2311 | 299/18723 | 2.48e-05 | 4.27e-04 | 62 |
GO:00160727 | Cervix | CC | rRNA metabolic process | 42/2311 | 236/18723 | 9.12e-03 | 4.60e-02 | 42 |
GO:002261325 | Cervix | N_HPV | ribonucleoprotein complex biogenesis | 30/534 | 463/18723 | 2.78e-05 | 7.49e-04 | 30 |
GO:004225424 | Cervix | N_HPV | ribosome biogenesis | 21/534 | 299/18723 | 1.46e-04 | 2.68e-03 | 21 |
GO:000641725 | Cervix | N_HPV | regulation of translation | 26/534 | 468/18723 | 9.95e-04 | 1.18e-02 | 26 |
GO:000636415 | Cervix | N_HPV | rRNA processing | 14/534 | 225/18723 | 5.35e-03 | 3.84e-02 | 14 |
GO:0022613 | Colorectum | AD | ribonucleoprotein complex biogenesis | 151/3918 | 463/18723 | 1.96e-09 | 1.39e-07 | 151 |
GO:0006417 | Colorectum | AD | regulation of translation | 141/3918 | 468/18723 | 1.32e-06 | 4.22e-05 | 141 |
GO:0042254 | Colorectum | AD | ribosome biogenesis | 84/3918 | 299/18723 | 1.82e-03 | 1.50e-02 | 84 |
GO:00226131 | Colorectum | SER | ribonucleoprotein complex biogenesis | 112/2897 | 463/18723 | 5.01e-07 | 2.48e-05 | 112 |
GO:00064171 | Colorectum | SER | regulation of translation | 100/2897 | 468/18723 | 3.76e-04 | 5.74e-03 | 100 |
GO:00422541 | Colorectum | SER | ribosome biogenesis | 66/2897 | 299/18723 | 1.48e-03 | 1.60e-02 | 66 |
GO:00226132 | Colorectum | MSS | ribonucleoprotein complex biogenesis | 144/3467 | 463/18723 | 2.76e-11 | 3.67e-09 | 144 |
GO:00064172 | Colorectum | MSS | regulation of translation | 134/3467 | 468/18723 | 4.43e-08 | 2.38e-06 | 134 |
GO:00422542 | Colorectum | MSS | ribosome biogenesis | 79/3467 | 299/18723 | 4.32e-04 | 5.23e-03 | 79 |
GO:0006364 | Colorectum | MSS | rRNA processing | 58/3467 | 225/18723 | 4.17e-03 | 3.03e-02 | 58 |
GO:0016072 | Colorectum | MSS | rRNA metabolic process | 60/3467 | 236/18723 | 5.01e-03 | 3.46e-02 | 60 |
GO:00226133 | Colorectum | MSI-H | ribonucleoprotein complex biogenesis | 95/1319 | 463/18723 | 1.04e-21 | 8.32e-19 | 95 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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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 |
PA2G4 | SNV | Missense_Mutation | c.728N>A | p.Arg243Lys | p.R243K | Q9UQ80 | protein_coding | tolerated(0.29) | possibly_damaging(0.528) | TCGA-A2-A0CT-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | cytoxan | SD | |
PA2G4 | SNV | Missense_Mutation | c.795C>G | p.Phe265Leu | p.F265L | Q9UQ80 | protein_coding | tolerated(0.32) | benign(0.025) | TCGA-D8-A1JA-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | adriamycin | PD | |
PA2G4 | SNV | Missense_Mutation | c.599N>A | p.Thr200Asn | p.T200N | Q9UQ80 | protein_coding | tolerated(0.15) | benign(0.029) | TCGA-EW-A1J6-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | femara | SD | |
PA2G4 | SNV | Missense_Mutation | c.868N>G | p.Arg290Gly | p.R290G | Q9UQ80 | protein_coding | deleterious(0) | possibly_damaging(0.859) | TCGA-OL-A5D7-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | cytoxan | CR | |
PA2G4 | SNV | Missense_Mutation | novel | c.968N>G | p.Val323Gly | p.V323G | Q9UQ80 | protein_coding | deleterious(0.01) | probably_damaging(0.998) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
PA2G4 | SNV | Missense_Mutation | c.590N>C | p.Gly197Ala | p.G197A | Q9UQ80 | protein_coding | tolerated(0.09) | possibly_damaging(0.791) | TCGA-IR-A3LK-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Chemotherapy | cisplatin | PD | |
PA2G4 | SNV | Missense_Mutation | c.752N>T | p.Pro251Leu | p.P251L | Q9UQ80 | protein_coding | tolerated(0.3) | benign(0.01) | TCGA-IR-A3LK-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Chemotherapy | cisplatin | PD | |
PA2G4 | SNV | Missense_Mutation | c.1034C>T | p.Ser345Phe | p.S345F | Q9UQ80 | protein_coding | deleterious(0) | probably_damaging(0.992) | TCGA-AG-A02G-01 | Colorectum | rectum adenocarcinoma | Male | >=65 | III/IV | Chemotherapy | folinic | PD | |
PA2G4 | SNV | Missense_Mutation | c.728G>T | p.Arg243Ile | p.R243I | Q9UQ80 | protein_coding | deleterious(0) | probably_damaging(0.995) | TCGA-EI-6917-01 | Colorectum | rectum adenocarcinoma | Male | <65 | III/IV | Chemotherapy | 5fluorouracil+oxaciplatina+l-folinian | SD | |
PA2G4 | deletion | Frame_Shift_Del | c.598delA | p.Thr200ProfsTer58 | p.T200Pfs*58 | Q9UQ80 | protein_coding | TCGA-AA-3672-01 | Colorectum | colon adenocarcinoma | 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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