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Gene: PROX1 |
Gene summary for PROX1 |
Gene summary. |
Gene information | Species | Human | Gene symbol | PROX1 | Gene ID | 5629 |
Gene name | prospero homeobox 1 | |
Gene Alias | PROX1 | |
Cytomap | 1q32.3 | |
Gene Type | protein-coding | GO ID | GO:0000075 | UniProtAcc | Q92786 |
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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 |
5629 | PROX1 | HTA11_866_3004761011 | Human | Colorectum | AD | 7.47e-08 | 4.54e-01 | 0.096 |
5629 | PROX1 | HTA11_7696_3000711011 | Human | Colorectum | AD | 1.01e-10 | 4.53e-01 | 0.0674 |
5629 | PROX1 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 5.19e-10 | 4.18e-01 | 0.294 |
5629 | PROX1 | HTA11_99999965062_69753 | Human | Colorectum | MSI-H | 9.16e-10 | 1.80e+00 | 0.3487 |
5629 | PROX1 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 1.63e-08 | 6.30e-01 | 0.281 |
5629 | PROX1 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 8.41e-08 | 4.73e-01 | 0.3859 |
5629 | PROX1 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 3.92e-04 | 2.48e-01 | 0.3005 |
5629 | PROX1 | A001-C-119 | Human | Colorectum | FAP | 1.33e-02 | 4.88e-01 | -0.1557 |
5629 | PROX1 | A002-C-021 | Human | Colorectum | FAP | 5.21e-19 | 6.84e-01 | 0.1171 |
5629 | PROX1 | CRC-1-8810 | Human | Colorectum | CRC | 7.08e-18 | 7.51e-01 | 0.6257 |
5629 | PROX1 | CRC-3-11773 | Human | Colorectum | CRC | 1.15e-02 | 4.47e-01 | 0.2564 |
5629 | PROX1 | NAFLD1 | Human | Liver | NAFLD | 2.52e-05 | 8.90e-01 | -0.04 |
5629 | PROX1 | S43 | Human | Liver | Cirrhotic | 1.08e-12 | -1.83e-01 | -0.0187 |
5629 | PROX1 | HCC1_Meng | Human | Liver | HCC | 4.48e-90 | -9.78e-02 | 0.0246 |
5629 | PROX1 | HCC2_Meng | Human | Liver | HCC | 1.54e-15 | -5.45e-01 | 0.0107 |
5629 | PROX1 | cirrhotic1 | Human | Liver | Cirrhotic | 1.97e-11 | -1.52e-01 | 0.0202 |
5629 | PROX1 | cirrhotic2 | Human | Liver | Cirrhotic | 5.19e-22 | 5.85e-02 | 0.0201 |
5629 | PROX1 | cirrhotic3 | Human | Liver | Cirrhotic | 7.02e-10 | -2.49e-01 | 0.0215 |
5629 | PROX1 | HCC1 | Human | Liver | HCC | 4.71e-11 | 5.27e+00 | 0.5336 |
5629 | PROX1 | Pt13.a | Human | Liver | HCC | 7.00e-08 | -3.10e-01 | 0.021 |
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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:0016032 | Colorectum | AD | viral process | 168/3918 | 415/18723 | 4.67e-20 | 3.66e-17 | 168 |
GO:0007015 | Colorectum | AD | actin filament organization | 167/3918 | 442/18723 | 1.65e-16 | 7.94e-14 | 167 |
GO:1902903 | Colorectum | AD | regulation of supramolecular fiber organization | 139/3918 | 383/18723 | 2.01e-12 | 3.19e-10 | 139 |
GO:0032970 | Colorectum | AD | regulation of actin filament-based process | 142/3918 | 397/18723 | 4.05e-12 | 5.90e-10 | 142 |
GO:0019058 | Colorectum | AD | viral life cycle | 119/3918 | 317/18723 | 6.18e-12 | 8.23e-10 | 119 |
GO:0002064 | Colorectum | AD | epithelial cell development | 89/3918 | 220/18723 | 2.98e-11 | 3.52e-09 | 89 |
GO:1902905 | Colorectum | AD | positive regulation of supramolecular fiber organization | 85/3918 | 209/18723 | 5.95e-11 | 6.33e-09 | 85 |
GO:0048732 | Colorectum | AD | gland development | 149/3918 | 436/18723 | 6.07e-11 | 6.33e-09 | 149 |
GO:0032956 | Colorectum | AD | regulation of actin cytoskeleton organization | 127/3918 | 358/18723 | 1.03e-10 | 1.04e-08 | 127 |
GO:0051495 | Colorectum | AD | positive regulation of cytoskeleton organization | 89/3918 | 226/18723 | 1.61e-10 | 1.56e-08 | 89 |
GO:0019079 | Colorectum | AD | viral genome replication | 51/3918 | 131/18723 | 1.83e-06 | 5.51e-05 | 51 |
GO:0007623 | Colorectum | AD | circadian rhythm | 72/3918 | 210/18723 | 4.50e-06 | 1.21e-04 | 72 |
GO:0050792 | Colorectum | AD | regulation of viral process | 59/3918 | 164/18723 | 5.95e-06 | 1.52e-04 | 59 |
GO:0061008 | Colorectum | AD | hepaticobiliary system development | 55/3918 | 150/18723 | 6.34e-06 | 1.59e-04 | 55 |
GO:0001889 | Colorectum | AD | liver development | 54/3918 | 147/18723 | 7.20e-06 | 1.77e-04 | 54 |
GO:0048511 | Colorectum | AD | rhythmic process | 94/3918 | 298/18723 | 1.00e-05 | 2.34e-04 | 94 |
GO:0031667 | Colorectum | AD | response to nutrient levels | 138/3918 | 474/18723 | 1.22e-05 | 2.68e-04 | 138 |
GO:0001667 | Colorectum | AD | ameboidal-type cell migration | 137/3918 | 475/18723 | 2.17e-05 | 4.33e-04 | 137 |
GO:0031032 | Colorectum | AD | actomyosin structure organization | 65/3918 | 196/18723 | 4.17e-05 | 7.37e-04 | 65 |
GO:1903900 | Colorectum | AD | regulation of viral life cycle | 51/3918 | 148/18723 | 9.01e-05 | 1.38e-03 | 51 |
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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 |
∗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 |
PROX1 | SNV | Missense_Mutation | c.2126C>A | p.Ala709Asp | p.A709D | Q92786 | protein_coding | deleterious(0.01) | possibly_damaging(0.577) | TCGA-AJ-A3BH-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | Unknown | I/II | Unknown | Unknown | SD | |
PROX1 | SNV | Missense_Mutation | c.1715N>T | p.Ser572Leu | p.S572L | Q92786 | protein_coding | deleterious(0.04) | possibly_damaging(0.854) | TCGA-AJ-A3EL-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
PROX1 | SNV | Missense_Mutation | novel | c.683N>A | p.Arg228Gln | p.R228Q | Q92786 | protein_coding | tolerated(0.1) | probably_damaging(0.994) | TCGA-AJ-A5DW-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
PROX1 | SNV | Missense_Mutation | novel | c.1279G>A | p.Val427Met | p.V427M | Q92786 | protein_coding | tolerated(0.14) | benign(0.001) | TCGA-AP-A051-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
PROX1 | SNV | Missense_Mutation | c.466C>T | p.Arg156Cys | p.R156C | Q92786 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-AP-A056-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
PROX1 | SNV | Missense_Mutation | c.467G>A | p.Arg156His | p.R156H | Q92786 | protein_coding | tolerated(0.24) | probably_damaging(0.998) | TCGA-AP-A056-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
PROX1 | SNV | Missense_Mutation | c.149N>A | p.Ser50Tyr | p.S50Y | Q92786 | protein_coding | deleterious(0.01) | possibly_damaging(0.883) | TCGA-AP-A059-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
PROX1 | SNV | Missense_Mutation | c.561T>A | p.Asn187Lys | p.N187K | Q92786 | protein_coding | tolerated(0.59) | benign(0.067) | TCGA-AP-A0LI-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | III/IV | Chemotherapy | paclitaxel | SD | |
PROX1 | SNV | Missense_Mutation | c.520N>T | p.Arg174Trp | p.R174W | Q92786 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-AP-A0LM-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | cisplatin | SD | |
PROX1 | SNV | Missense_Mutation | novel | c.85N>G | p.Thr29Ala | p.T29A | Q92786 | protein_coding | deleterious_low_confidence(0.04) | benign(0.017) | TCGA-AP-A1DK-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | 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 |
5629 | PROX1 | TRANSCRIPTION FACTOR | atenolol | ATENOLOL |
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