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Gene: PRRX1 |
Gene summary for PRRX1 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | PRRX1 | Gene ID | 5396 |
| Gene name | paired related homeobox 1 | |
| Gene Alias | AGOTC | |
| Cytomap | 1q24.2 | |
| Gene Type | protein-coding | GO ID | GO:0000122 | UniProtAcc | P54821 |
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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 |
| 5396 | PRRX1 | AEH-subject1 | Human | Endometrium | AEH | 1.56e-16 | -3.90e-01 | -0.3059 |
| 5396 | PRRX1 | AEH-subject2 | Human | Endometrium | AEH | 7.22e-21 | -4.39e-01 | -0.2525 |
| 5396 | PRRX1 | AEH-subject3 | Human | Endometrium | AEH | 3.47e-16 | -4.16e-01 | -0.2576 |
| 5396 | PRRX1 | AEH-subject4 | Human | Endometrium | AEH | 2.24e-10 | -2.26e-01 | -0.2657 |
| 5396 | PRRX1 | AEH-subject5 | Human | Endometrium | AEH | 3.20e-26 | -5.04e-01 | -0.2953 |
| 5396 | PRRX1 | EEC-subject1 | Human | Endometrium | EEC | 2.39e-21 | -4.74e-01 | -0.2682 |
| 5396 | PRRX1 | EEC-subject2 | Human | Endometrium | EEC | 6.10e-31 | -5.25e-01 | -0.2607 |
| 5396 | PRRX1 | EEC-subject3 | Human | Endometrium | EEC | 1.96e-28 | -4.17e-01 | -0.2525 |
| 5396 | PRRX1 | EEC-subject4 | Human | Endometrium | EEC | 1.08e-15 | -4.10e-01 | -0.2571 |
| 5396 | PRRX1 | EEC-subject5 | Human | Endometrium | EEC | 1.49e-27 | -5.21e-01 | -0.249 |
| 5396 | PRRX1 | GSM5276934 | Human | Endometrium | EEC | 3.61e-13 | 6.57e-02 | -0.0913 |
| 5396 | PRRX1 | GSM5276935 | Human | Endometrium | EEC | 1.34e-08 | -3.56e-01 | -0.123 |
| 5396 | PRRX1 | GSM6177620_NYU_UCEC1_lib1_lib1 | Human | Endometrium | EEC | 3.70e-22 | -1.67e-01 | -0.1869 |
| 5396 | PRRX1 | GSM6177620_NYU_UCEC1_lib2_lib2 | Human | Endometrium | EEC | 1.77e-19 | -1.45e-01 | -0.1875 |
| 5396 | PRRX1 | GSM6177620_NYU_UCEC1_lib3_lib3 | Human | Endometrium | EEC | 6.52e-25 | -1.48e-01 | -0.1883 |
| 5396 | PRRX1 | GSM6177621_NYU_UCEC2_lib1_lib1 | Human | Endometrium | EEC | 4.87e-34 | 4.57e-01 | -0.1934 |
| 5396 | PRRX1 | GSM6177622_NYU_UCEC3_lib1_lib1 | Human | Endometrium | EEC | 1.38e-36 | -5.13e-01 | -0.1917 |
| 5396 | PRRX1 | GSM6177622_NYU_UCEC3_lib2_lib2 | Human | Endometrium | EEC | 4.24e-37 | -5.35e-01 | -0.1916 |
| 5396 | PRRX1 | GSM6177623_NYU_UCEC3_Vis | Human | Endometrium | EEC | 2.95e-08 | -3.54e-01 | -0.1269 |
| 5396 | PRRX1 | P2T-E | Human | Esophagus | ESCC | 1.58e-10 | 4.50e-01 | 0.1177 |
| Page: 1 2 3 4 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Endometrium |  | AEH: Atypical endometrial hyperplasia |
| EEC: Endometrioid Cancer | ||
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma | ||
| Skin |  | AK: Actinic keratosis |
| cSCC: Cutaneous squamous cell carcinoma | ||
| SCCIS:squamous cell carcinoma in situ | ||
| Thyroid |  | ATC: Anaplastic thyroid cancer |
| HT: Hashimoto's thyroiditis | ||
| PTC: Papillary thyroid cancer |
| ∗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). |
| Page: 1 2 3 4 5 6 7 8 9 |
| Enriched GO biological processes. |
| GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
| GO:00310997 | Endometrium | AEH | regeneration | 41/2100 | 198/18723 | 7.29e-05 | 1.11e-03 | 41 |
| GO:00109758 | Endometrium | AEH | regulation of neuron projection development | 75/2100 | 445/18723 | 2.01e-04 | 2.54e-03 | 75 |
| GO:00351073 | Endometrium | AEH | appendage morphogenesis | 29/2100 | 138/18723 | 6.06e-04 | 5.94e-03 | 29 |
| GO:00351083 | Endometrium | AEH | limb morphogenesis | 29/2100 | 138/18723 | 6.06e-04 | 5.94e-03 | 29 |
| GO:00487366 | Endometrium | AEH | appendage development | 33/2100 | 172/18723 | 1.41e-03 | 1.18e-02 | 33 |
| GO:00601736 | Endometrium | AEH | limb development | 33/2100 | 172/18723 | 1.41e-03 | 1.18e-02 | 33 |
| GO:0061448 | Endometrium | AEH | connective tissue development | 44/2100 | 252/18723 | 1.92e-03 | 1.51e-02 | 44 |
| GO:0030326 | Endometrium | AEH | embryonic limb morphogenesis | 23/2100 | 116/18723 | 4.58e-03 | 2.95e-02 | 23 |
| GO:0035113 | Endometrium | AEH | embryonic appendage morphogenesis | 23/2100 | 116/18723 | 4.58e-03 | 2.95e-02 | 23 |
| GO:003109914 | Endometrium | EEC | regeneration | 45/2168 | 198/18723 | 6.19e-06 | 1.49e-04 | 45 |
| GO:001097513 | Endometrium | EEC | regulation of neuron projection development | 79/2168 | 445/18723 | 6.80e-05 | 1.01e-03 | 79 |
| GO:003510711 | Endometrium | EEC | appendage morphogenesis | 29/2168 | 138/18723 | 1.01e-03 | 8.89e-03 | 29 |
| GO:003510811 | Endometrium | EEC | limb morphogenesis | 29/2168 | 138/18723 | 1.01e-03 | 8.89e-03 | 29 |
| GO:004873611 | Endometrium | EEC | appendage development | 33/2168 | 172/18723 | 2.38e-03 | 1.75e-02 | 33 |
| GO:006017311 | Endometrium | EEC | limb development | 33/2168 | 172/18723 | 2.38e-03 | 1.75e-02 | 33 |
| GO:0031102 | Endometrium | EEC | neuron projection regeneration | 15/2168 | 60/18723 | 2.88e-03 | 2.03e-02 | 15 |
| GO:00614481 | Endometrium | EEC | connective tissue development | 44/2168 | 252/18723 | 3.51e-03 | 2.36e-02 | 44 |
| GO:00303261 | Endometrium | EEC | embryonic limb morphogenesis | 23/2168 | 116/18723 | 6.73e-03 | 3.93e-02 | 23 |
| GO:00351131 | Endometrium | EEC | embryonic appendage morphogenesis | 23/2168 | 116/18723 | 6.73e-03 | 3.93e-02 | 23 |
| GO:009872714 | Esophagus | ESCC | maintenance of cell number | 90/8552 | 134/18723 | 3.94e-07 | 5.43e-06 | 90 |
| Page: 1 2 3 4 5 |
| 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 |
| Page: 1 |
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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 |
| PRRX1 | INCAF | Cervix | N_HPV | SERPING1,AEBP1,COL6A2, etc. | 7.94e-01 |  |
| PRRX1 | HSC | Liver | Cirrhotic | CD44,CYTOR,KCNJ8, etc. | 4.17e-01 |  |
| PRRX1 | PERI | Liver | HCC | CD44,CYTOR,KCNJ8, etc. | 3.26e-01 |  |
| PRRX1 | CAF | Liver | HCC | CD44,CYTOR,KCNJ8, etc. | 4.55e-02 | |
| PRRX1 | MEGA | Liver | Healthy | CD44,CYTOR,KCNJ8, etc. | 9.61e-03 |  |
| PRRX1 | HSC | Liver | NAFLD | CD44,CYTOR,KCNJ8, etc. | 4.08e-02 |  |
| PRRX1 | CAF | Oral cavity | ADJ | COL14A1,VCAN,SOD3, etc. | 3.30e-02 |  |
| PRRX1 | INCAF | Oral cavity | Healthy | COL14A1,VCAN,SOD3, etc. | 4.90e-01 |  |
| PRRX1 | INCAF | Oral cavity | NEOLP | COL14A1,VCAN,SOD3, etc. | 7.97e-01 |  |
| PRRX1 | ICAF | Pancreas | ADJ | COL6A2,COL6A3,COL1A2, etc. | 6.21e-01 |  |
| ∗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. |
| Page: 1 2 |
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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 |
| PRRX1 | SNV | Missense_Mutation | c.587N>T | p.Ala196Val | p.A196V | P54821 | protein_coding | tolerated(0.06) | benign(0.142) | TCGA-A8-A096-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| PRRX1 | SNV | Missense_Mutation | c.96G>T | p.Lys32Asn | p.K32N | P54821 | protein_coding | deleterious(0.01) | probably_damaging(0.981) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| PRRX1 | SNV | Missense_Mutation | c.284N>A | p.Arg95Gln | p.R95Q | P54821 | protein_coding | deleterious(0.01) | probably_damaging(0.988) | TCGA-BH-A18F-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | taxotere | CR | |
| PRRX1 | SNV | Missense_Mutation | c.526G>C | p.Glu176Gln | p.E176Q | P54821 | protein_coding | deleterious(0) | probably_damaging(0.932) | TCGA-E2-A10C-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | SD | |
| PRRX1 | SNV | Missense_Mutation | novel | c.434N>A | p.Arg145Gln | p.R145Q | P54821 | protein_coding | deleterious(0) | probably_damaging(0.988) | TCGA-E2-A154-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | arimidex | SD |
| PRRX1 | SNV | Missense_Mutation | rs761253714 | c.484N>A | p.Ala162Thr | p.A162T | P54821 | protein_coding | tolerated(0.07) | benign(0.236) | TCGA-E2-A1LH-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | SD |
| PRRX1 | SNV | Missense_Mutation | c.587C>T | p.Ala196Val | p.A196V | P54821 | protein_coding | tolerated(0.06) | benign(0.142) | TCGA-E9-A1RE-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Hormone Therapy | tamoxiphen | SD | |
| PRRX1 | SNV | Missense_Mutation | c.257N>T | p.Ser86Leu | p.S86L | P54821 | protein_coding | tolerated(0.08) | benign(0.011) | TCGA-C5-A7CL-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Chemotherapy | cisplatin | PD | |
| PRRX1 | SNV | Missense_Mutation | novel | c.434N>A | p.Arg145Gln | p.R145Q | P54821 | protein_coding | deleterious(0) | probably_damaging(0.988) | TCGA-EA-A3HS-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
| PRRX1 | SNV | Missense_Mutation | novel | c.445T>C | p.Phe149Leu | p.F149L | P54821 | protein_coding | deleterious(0) | possibly_damaging(0.757) | TCGA-AA-3510-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
| Page: 1 2 3 4 5 |
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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 |
| Page: 1 |
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