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Gene: RPS28 |
Gene summary for RPS28 |
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Gene information | Species | Human | Gene symbol | RPS28 | Gene ID | 6234 |
Gene name | ribosomal protein S28 | |
Gene Alias | DBA15 | |
Cytomap | 19p13.2 | |
Gene Type | protein-coding | GO ID | GO:0000028 | UniProtAcc | B2R4R9 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
6234 | RPS28 | GSM4909280 | Human | Breast | Precancer | 1.31e-02 | -3.03e-01 | 0.0305 |
6234 | RPS28 | GSM4909281 | Human | Breast | IDC | 8.70e-41 | -3.69e-01 | 0.21 |
6234 | RPS28 | GSM4909282 | Human | Breast | IDC | 1.19e-13 | -1.74e-01 | -0.0288 |
6234 | RPS28 | GSM4909285 | Human | Breast | IDC | 2.26e-31 | -2.71e-01 | 0.21 |
6234 | RPS28 | GSM4909290 | Human | Breast | IDC | 3.28e-11 | -2.42e-01 | 0.2096 |
6234 | RPS28 | GSM4909295 | Human | Breast | IDC | 5.51e-07 | -2.83e-01 | 0.0898 |
6234 | RPS28 | GSM4909304 | Human | Breast | IDC | 3.56e-10 | 1.44e-01 | 0.1636 |
6234 | RPS28 | GSM4909306 | Human | Breast | IDC | 3.02e-03 | -1.04e-01 | 0.1564 |
6234 | RPS28 | GSM4909308 | Human | Breast | IDC | 9.24e-08 | -1.78e-01 | 0.158 |
6234 | RPS28 | GSM4909315 | Human | Breast | IDC | 4.87e-22 | 1.96e-01 | 0.21 |
6234 | RPS28 | GSM4909316 | Human | Breast | IDC | 1.09e-08 | 1.60e-01 | 0.21 |
6234 | RPS28 | GSM4909317 | Human | Breast | IDC | 1.07e-11 | -2.34e-01 | 0.1355 |
6234 | RPS28 | GSM4909318 | Human | Breast | IDC | 4.73e-06 | -4.16e-01 | 0.2031 |
6234 | RPS28 | GSM4909319 | Human | Breast | IDC | 9.49e-18 | -3.33e-01 | 0.1563 |
6234 | RPS28 | GSM4909321 | Human | Breast | IDC | 7.21e-42 | -4.09e-01 | 0.1559 |
6234 | RPS28 | brca1 | Human | Breast | Precancer | 4.23e-57 | -3.85e-01 | -0.0338 |
6234 | RPS28 | brca2 | Human | Breast | Precancer | 2.11e-17 | -1.87e-01 | -0.024 |
6234 | RPS28 | brca3 | Human | Breast | Precancer | 3.36e-15 | -1.65e-01 | -0.0263 |
6234 | RPS28 | M5 | Human | Breast | IDC | 1.45e-04 | -3.94e-01 | 0.1598 |
6234 | RPS28 | NCCBC14 | Human | Breast | DCIS | 1.12e-23 | -4.67e-01 | 0.2021 |
Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 |
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∗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 |
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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 |
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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:003447013 | Prostate | Tumor | ncRNA processing | 94/3246 | 395/18723 | 6.02e-04 | 4.31e-03 | 94 |
GO:000218128 | Skin | AK | cytoplasmic translation | 101/1910 | 148/18723 | 5.98e-65 | 3.54e-61 | 101 |
GO:002261328 | Skin | AK | ribonucleoprotein complex biogenesis | 108/1910 | 463/18723 | 8.48e-17 | 6.27e-14 | 108 |
GO:007182628 | Skin | AK | ribonucleoprotein complex subunit organization | 61/1910 | 227/18723 | 7.85e-13 | 2.02e-10 | 61 |
GO:004225427 | Skin | AK | ribosome biogenesis | 73/1910 | 299/18723 | 8.44e-13 | 2.08e-10 | 73 |
GO:002261828 | Skin | AK | ribonucleoprotein complex assembly | 58/1910 | 220/18723 | 6.75e-12 | 1.33e-09 | 58 |
GO:004227428 | Skin | AK | ribosomal small subunit biogenesis | 29/1910 | 73/18723 | 3.13e-11 | 5.78e-09 | 29 |
GO:004225528 | Skin | AK | ribosome assembly | 25/1910 | 61/18723 | 3.23e-10 | 4.15e-08 | 25 |
GO:000636420 | Skin | AK | rRNA processing | 53/1910 | 225/18723 | 4.35e-09 | 3.30e-07 | 53 |
GO:001607220 | Skin | AK | rRNA metabolic process | 54/1910 | 236/18723 | 9.23e-09 | 6.07e-07 | 54 |
GO:000002828 | Skin | AK | ribosomal small subunit assembly | 11/1910 | 19/18723 | 4.21e-07 | 1.58e-05 | 11 |
GO:003447016 | Skin | AK | ncRNA processing | 68/1910 | 395/18723 | 1.12e-05 | 2.33e-04 | 68 |
GO:00304905 | Skin | AK | maturation of SSU-rRNA | 15/1910 | 50/18723 | 9.02e-05 | 1.23e-03 | 15 |
GO:00346607 | Skin | AK | ncRNA metabolic process | 75/1910 | 485/18723 | 1.64e-04 | 1.93e-03 | 75 |
GO:0002181112 | Skin | SCCIS | cytoplasmic translation | 58/919 | 148/18723 | 2.30e-37 | 1.22e-33 | 58 |
GO:0042255112 | Skin | SCCIS | ribosome assembly | 15/919 | 61/18723 | 1.75e-07 | 1.93e-05 | 15 |
GO:0042274112 | Skin | SCCIS | ribosomal small subunit biogenesis | 16/919 | 73/18723 | 3.77e-07 | 3.23e-05 | 16 |
GO:0022618112 | Skin | SCCIS | ribonucleoprotein complex assembly | 27/919 | 220/18723 | 1.11e-05 | 3.87e-04 | 27 |
GO:0042254112 | Skin | SCCIS | ribosome biogenesis | 33/919 | 299/18723 | 1.21e-05 | 4.13e-04 | 33 |
GO:0071826112 | Skin | SCCIS | ribonucleoprotein complex subunit organization | 27/919 | 227/18723 | 1.96e-05 | 5.92e-04 | 27 |
Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0301018 | Breast | Precancer | Ribosome | 80/684 | 167/8465 | 7.33e-44 | 2.32e-41 | 1.77e-41 | 80 |
hsa0517118 | Breast | Precancer | Coronavirus disease - COVID-19 | 81/684 | 232/8465 | 3.74e-32 | 2.36e-30 | 1.81e-30 | 81 |
hsa0301019 | Breast | Precancer | Ribosome | 80/684 | 167/8465 | 7.33e-44 | 2.32e-41 | 1.77e-41 | 80 |
hsa0517119 | Breast | Precancer | Coronavirus disease - COVID-19 | 81/684 | 232/8465 | 3.74e-32 | 2.36e-30 | 1.81e-30 | 81 |
hsa0301024 | Breast | IDC | Ribosome | 83/867 | 167/8465 | 6.07e-39 | 9.87e-37 | 7.38e-37 | 83 |
hsa0517124 | Breast | IDC | Coronavirus disease - COVID-19 | 86/867 | 232/8465 | 1.50e-28 | 9.72e-27 | 7.27e-27 | 86 |
hsa0301034 | Breast | IDC | Ribosome | 83/867 | 167/8465 | 6.07e-39 | 9.87e-37 | 7.38e-37 | 83 |
hsa0517134 | Breast | IDC | Coronavirus disease - COVID-19 | 86/867 | 232/8465 | 1.50e-28 | 9.72e-27 | 7.27e-27 | 86 |
hsa0301044 | Breast | DCIS | Ribosome | 82/846 | 167/8465 | 8.69e-39 | 1.40e-36 | 1.03e-36 | 82 |
hsa0517144 | Breast | DCIS | Coronavirus disease - COVID-19 | 86/846 | 232/8465 | 2.42e-29 | 1.56e-27 | 1.15e-27 | 86 |
hsa0301054 | Breast | DCIS | Ribosome | 82/846 | 167/8465 | 8.69e-39 | 1.40e-36 | 1.03e-36 | 82 |
hsa0517154 | Breast | DCIS | Coronavirus disease - COVID-19 | 86/846 | 232/8465 | 2.42e-29 | 1.56e-27 | 1.15e-27 | 86 |
hsa0517120 | Cervix | CC | Coronavirus disease - COVID-19 | 111/1267 | 232/8465 | 1.82e-33 | 5.90e-31 | 3.49e-31 | 111 |
hsa0301020 | Cervix | CC | Ribosome | 85/1267 | 167/8465 | 3.17e-28 | 5.14e-26 | 3.04e-26 | 85 |
hsa05171110 | Cervix | CC | Coronavirus disease - COVID-19 | 111/1267 | 232/8465 | 1.82e-33 | 5.90e-31 | 3.49e-31 | 111 |
hsa03010110 | Cervix | CC | Ribosome | 85/1267 | 167/8465 | 3.17e-28 | 5.14e-26 | 3.04e-26 | 85 |
hsa0301025 | Cervix | HSIL_HPV | Ribosome | 80/459 | 167/8465 | 9.61e-58 | 2.82e-55 | 2.28e-55 | 80 |
hsa0517125 | Cervix | HSIL_HPV | Coronavirus disease - COVID-19 | 91/459 | 232/8465 | 2.14e-56 | 3.13e-54 | 2.53e-54 | 91 |
hsa0301035 | Cervix | HSIL_HPV | Ribosome | 80/459 | 167/8465 | 9.61e-58 | 2.82e-55 | 2.28e-55 | 80 |
hsa0517135 | Cervix | HSIL_HPV | Coronavirus disease - COVID-19 | 91/459 | 232/8465 | 2.14e-56 | 3.13e-54 | 2.53e-54 | 91 |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
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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 |
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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 |
RPS28 | SNV | Missense_Mutation | c.119G>A | p.Arg40Gln | p.R40Q | P62857 | protein_coding | deleterious(0.01) | possibly_damaging(0.632) | TCGA-AD-6895-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Unknown | Unknown | SD | |
RPS28 | SNV | Missense_Mutation | novel | c.102N>A | p.Phe34Leu | p.F34L | P62857 | protein_coding | tolerated(0.1) | benign(0.343) | TCGA-EO-A3AV-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | carboplatin | CR |
RPS28 | SNV | Missense_Mutation | c.178N>C | p.Glu60Gln | p.E60Q | P62857 | protein_coding | deleterious(0.02) | probably_damaging(0.913) | TCGA-55-8205-01 | Lung | lung adenocarcinoma | Female | >=65 | I/II | Chemotherapy | carboplatin | PD | |
RPS28 | SNV | Missense_Mutation | novel | c.187C>G | p.Arg63Gly | p.R63G | P62857 | protein_coding | deleterious(0) | probably_damaging(0.913) | TCGA-CQ-6222-01 | Oral cavity | head & neck squamous cell carcinoma | Male | <65 | I/II | Unspecific | SD |
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Related drugs of malignant transformation related genes |
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(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
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