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Gene: RPSAP58 |
Gene summary for RPSAP58 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | RPSAP58 | Gene ID | 388524 |
| Gene name | ribosomal protein SA pseudogene 58 | |
| Gene Alias | RPSA_30_1642 | |
| Cytomap | 19p12 | |
| Gene Type | protein-coding | GO ID | NA | UniProtAcc | NA |
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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 |
| 388524 | RPSAP58 | Pat26-A | Human | Stomach | CSG | 9.13e-06 | -3.17e-01 | -0.2402 |
| 388524 | RPSAP58 | Pat28-A | Human | Stomach | CSG | 1.76e-02 | -3.17e-01 | -0.2594 |
| 388524 | RPSAP58 | NAG_1 | Human | Stomach | CSG | 2.00e-13 | 7.50e-01 | -0.3534 |
| 388524 | RPSAP58 | NAG_2 | Human | Stomach | CSG | 5.28e-09 | 5.33e-01 | -0.3324 |
| 388524 | RPSAP58 | NAG_3 | Human | Stomach | CSG | 3.89e-02 | 4.26e-01 | -0.2816 |
| 388524 | RPSAP58 | CAG_1 | Human | Stomach | CAG | 4.98e-07 | 8.82e-01 | -0.3206 |
| 388524 | RPSAP58 | CAG_2 | Human | Stomach | CAG | 2.65e-17 | 6.98e-01 | -0.2831 |
| 388524 | RPSAP58 | CAG_3 | Human | Stomach | CAG | 2.12e-29 | 9.06e-01 | -0.2766 |
| 388524 | RPSAP58 | WIM_2 | Human | Stomach | WIM | 1.09e-02 | 4.44e-01 | 0.1159 |
| 388524 | RPSAP58 | SIM_2 | Human | Stomach | SIM | 4.65e-04 | 1.34e-01 | 0.3139 |
| 388524 | RPSAP58 | SIM_3 | Human | Stomach | SIM | 2.12e-12 | 6.95e-01 | 0.0345 |
| 388524 | RPSAP58 | EGC | Human | Stomach | GC | 1.11e-06 | 3.11e-01 | 0.1683 |
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| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| GC |  | CAG: Chronic atrophic gastritis |
| CAG with IM: Chronic atrophic gastritis with intestinal metaplasia | ||
| CSG: Chronic superficial gastritis | ||
| GC: Gastric cancer | ||
| SIM: Severe intestinal metaplasia | ||
| WIM: Wild intestinal metaplasia | ||
| Liver |  | HCC: Hepatocellular carcinoma |
| NAFLD: Non-alcoholic fatty liver disease | ||
| Skin |  | AK: Actinic keratosis |
| cSCC: Cutaneous squamous cell carcinoma | ||
| SCCIS:squamous cell carcinoma in situ |
| ∗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 |
| Page: 1 |
| 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 |
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