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Gene: PGAP4 |
Gene summary for PGAP4 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | PGAP4 | Gene ID | 84302 |
| Gene name | post-GPI attachment to proteins GalNAc transferase 4 | |
| Gene Alias | C9orf125 | |
| Cytomap | 9q31.1 | |
| Gene Type | protein-coding | GO ID | GO:0006464 | UniProtAcc | A0A024R188 |
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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 |
| 84302 | PGAP4 | HTA11_2487_2000001011 | Human | Colorectum | SER | 2.44e-05 | 1.62e-01 | -0.1808 |
| 84302 | PGAP4 | HTA11_2951_2000001011 | Human | Colorectum | AD | 3.34e-04 | 2.52e-01 | 0.0216 |
| 84302 | PGAP4 | HTA11_1938_2000001011 | Human | Colorectum | AD | 6.59e-07 | 2.21e-01 | -0.0811 |
| 84302 | PGAP4 | HTA11_78_2000001011 | Human | Colorectum | AD | 8.38e-10 | 2.91e-01 | -0.1088 |
| 84302 | PGAP4 | HTA11_347_2000001011 | Human | Colorectum | AD | 1.45e-16 | 3.32e-01 | -0.1954 |
| 84302 | PGAP4 | HTA11_411_2000001011 | Human | Colorectum | SER | 4.01e-04 | 3.68e-01 | -0.2602 |
| 84302 | PGAP4 | HTA11_83_2000001011 | Human | Colorectum | SER | 2.04e-02 | 1.35e-01 | -0.1526 |
| 84302 | PGAP4 | HTA11_696_2000001011 | Human | Colorectum | AD | 9.36e-06 | 1.63e-01 | -0.1464 |
| 84302 | PGAP4 | HTA11_866_2000001011 | Human | Colorectum | AD | 4.25e-05 | 1.23e-01 | -0.1001 |
| 84302 | PGAP4 | HTA11_1391_2000001011 | Human | Colorectum | AD | 9.83e-03 | 1.24e-01 | -0.059 |
| 84302 | PGAP4 | HTA11_2992_2000001011 | Human | Colorectum | SER | 1.51e-04 | 2.87e-01 | -0.1706 |
| 84302 | PGAP4 | HTA11_5212_2000001011 | Human | Colorectum | AD | 3.03e-03 | 2.15e-01 | -0.2061 |
| 84302 | PGAP4 | HTA11_5216_2000001011 | Human | Colorectum | SER | 3.40e-03 | 2.52e-01 | -0.1462 |
| 84302 | PGAP4 | HTA11_7862_2000001011 | Human | Colorectum | AD | 1.96e-03 | 2.52e-01 | -0.0179 |
| 84302 | PGAP4 | HTA11_866_3004761011 | Human | Colorectum | AD | 2.51e-02 | 9.43e-02 | 0.096 |
| 84302 | PGAP4 | HTA11_6801_2000001011 | Human | Colorectum | SER | 1.41e-06 | 4.69e-01 | 0.0171 |
| 84302 | PGAP4 | HTA11_7696_3000711011 | Human | Colorectum | AD | 2.00e-05 | 1.44e-01 | 0.0674 |
| 84302 | PGAP4 | HTA11_7469_2000001011 | Human | Colorectum | AD | 1.27e-09 | 6.37e-01 | -0.0124 |
| Page: 1 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Colorectum (GSE201348) |  | FAP: Familial adenomatous polyposis |
| CRC: Colorectal cancer | ||
| Colorectum (HTA11) |  | AD: Adenomas |
| SER: Sessile serrated lesions | ||
| MSI-H: Microsatellite-high colorectal cancer | ||
| MSS: Microsatellite stable colorectal 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:0006650 | Colorectum | AD | glycerophospholipid metabolic process | 83/3918 | 306/18723 | 5.40e-03 | 3.55e-02 | 83 |
| GO:0006644 | Colorectum | AD | phospholipid metabolic process | 101/3918 | 383/18723 | 5.80e-03 | 3.67e-02 | 101 |
| GO:0045017 | Colorectum | AD | glycerolipid biosynthetic process | 69/3918 | 252/18723 | 8.33e-03 | 4.88e-02 | 69 |
| GO:0046486 | Colorectum | SER | glycerolipid metabolic process | 82/2897 | 392/18723 | 2.26e-03 | 2.17e-02 | 82 |
| GO:00066441 | Colorectum | SER | phospholipid metabolic process | 79/2897 | 383/18723 | 3.94e-03 | 3.24e-02 | 79 |
| GO:00450171 | Colorectum | SER | glycerolipid biosynthetic process | 55/2897 | 252/18723 | 4.47e-03 | 3.56e-02 | 55 |
| GO:00066501 | Colorectum | SER | glycerophospholipid metabolic process | 64/2897 | 306/18723 | 6.41e-03 | 4.60e-02 | 64 |
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| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
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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 |
| ∗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 |
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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 |
| Page: 1 |
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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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