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Gene: RAP1A |
Gene summary for RAP1A |
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Gene information | Species | Human | Gene symbol | RAP1A | Gene ID | 5906 |
Gene name | RAP1A, member of RAS oncogene family | |
Gene Alias | C21KG | |
Cytomap | 1p13.2 | |
Gene Type | protein-coding | GO ID | GO:0000165 | UniProtAcc | A8KAH9 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
5906 | RAP1A | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.22e-06 | -3.99e-01 | 0.0155 |
5906 | RAP1A | HTA11_7696_3000711011 | Human | Colorectum | AD | 1.15e-04 | -3.24e-01 | 0.0674 |
5906 | RAP1A | HTA11_99999974143_84620 | Human | Colorectum | MSS | 2.21e-05 | -3.29e-01 | 0.3005 |
5906 | RAP1A | F007 | Human | Colorectum | FAP | 1.27e-03 | -3.62e-01 | 0.1176 |
5906 | RAP1A | A001-C-207 | Human | Colorectum | FAP | 5.35e-08 | -3.55e-01 | 0.1278 |
5906 | RAP1A | A015-C-203 | Human | Colorectum | FAP | 1.27e-24 | -4.54e-01 | -0.1294 |
5906 | RAP1A | A015-C-204 | Human | Colorectum | FAP | 3.85e-06 | -3.12e-01 | -0.0228 |
5906 | RAP1A | A014-C-040 | Human | Colorectum | FAP | 5.54e-04 | -4.30e-01 | -0.1184 |
5906 | RAP1A | A002-C-201 | Human | Colorectum | FAP | 1.77e-16 | -3.99e-01 | 0.0324 |
5906 | RAP1A | A002-C-203 | Human | Colorectum | FAP | 1.36e-03 | -1.74e-01 | 0.2786 |
5906 | RAP1A | A001-C-119 | Human | Colorectum | FAP | 1.64e-07 | -4.78e-01 | -0.1557 |
5906 | RAP1A | A001-C-108 | Human | Colorectum | FAP | 1.07e-15 | -3.77e-01 | -0.0272 |
5906 | RAP1A | A002-C-205 | Human | Colorectum | FAP | 1.57e-22 | -4.91e-01 | -0.1236 |
5906 | RAP1A | A001-C-104 | Human | Colorectum | FAP | 1.27e-02 | -2.63e-01 | 0.0184 |
5906 | RAP1A | A015-C-005 | Human | Colorectum | FAP | 2.66e-04 | -2.22e-01 | -0.0336 |
5906 | RAP1A | A015-C-006 | Human | Colorectum | FAP | 3.38e-14 | -4.89e-01 | -0.0994 |
5906 | RAP1A | A015-C-106 | Human | Colorectum | FAP | 1.78e-11 | -3.22e-01 | -0.0511 |
5906 | RAP1A | A002-C-114 | Human | Colorectum | FAP | 5.99e-15 | -3.90e-01 | -0.1561 |
5906 | RAP1A | A015-C-104 | Human | Colorectum | FAP | 1.63e-23 | -5.01e-01 | -0.1899 |
5906 | RAP1A | A001-C-014 | Human | Colorectum | FAP | 2.42e-10 | -3.48e-01 | 0.0135 |
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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:000726523 | Skin | cSCC | Ras protein signal transduction | 132/4864 | 337/18723 | 6.17e-08 | 1.57e-06 | 132 |
GO:190437524 | Skin | cSCC | regulation of protein localization to cell periphery | 59/4864 | 125/18723 | 2.52e-07 | 5.28e-06 | 59 |
GO:190547524 | Skin | cSCC | regulation of protein localization to membrane | 72/4864 | 175/18723 | 8.12e-06 | 1.09e-04 | 72 |
GO:003109924 | Skin | cSCC | regeneration | 79/4864 | 198/18723 | 1.18e-05 | 1.51e-04 | 79 |
GO:000206426 | Skin | cSCC | epithelial cell development | 84/4864 | 220/18723 | 4.33e-05 | 4.56e-04 | 84 |
GO:003110010 | Skin | cSCC | animal organ regeneration | 35/4864 | 76/18723 | 1.23e-04 | 1.13e-03 | 35 |
GO:000188525 | Skin | cSCC | endothelial cell development | 30/4864 | 64/18723 | 2.50e-04 | 2.04e-03 | 30 |
GO:199009019 | Skin | cSCC | cellular response to nerve growth factor stimulus | 26/4864 | 53/18723 | 2.58e-04 | 2.10e-03 | 26 |
GO:003134622 | Skin | cSCC | positive regulation of cell projection organization | 120/4864 | 353/18723 | 4.49e-04 | 3.44e-03 | 120 |
GO:005159125 | Skin | cSCC | response to cAMP | 39/4864 | 93/18723 | 5.73e-04 | 4.18e-03 | 39 |
GO:0009410110 | Skin | cSCC | response to xenobiotic stimulus | 151/4864 | 462/18723 | 6.76e-04 | 4.82e-03 | 151 |
GO:199008918 | Skin | cSCC | response to nerve growth factor | 26/4864 | 56/18723 | 7.59e-04 | 5.27e-03 | 26 |
GO:000974328 | Skin | cSCC | response to carbohydrate | 88/4864 | 253/18723 | 1.11e-03 | 7.31e-03 | 88 |
GO:009742116 | Skin | cSCC | liver regeneration | 18/4864 | 35/18723 | 1.12e-03 | 7.36e-03 | 18 |
GO:006102825 | Skin | cSCC | establishment of endothelial barrier | 22/4864 | 46/18723 | 1.16e-03 | 7.61e-03 | 22 |
GO:003367425 | Skin | cSCC | positive regulation of kinase activity | 148/4864 | 467/18723 | 3.00e-03 | 1.66e-02 | 148 |
GO:001097522 | Skin | cSCC | regulation of neuron projection development | 141/4864 | 445/18723 | 3.72e-03 | 1.99e-02 | 141 |
GO:004668323 | Skin | cSCC | response to organophosphorus | 48/4864 | 131/18723 | 4.49e-03 | 2.30e-02 | 48 |
GO:004586025 | Skin | cSCC | positive regulation of protein kinase activity | 123/4864 | 386/18723 | 5.23e-03 | 2.64e-02 | 123 |
GO:000315824 | Skin | cSCC | endothelium development | 49/4864 | 136/18723 | 6.00e-03 | 2.95e-02 | 49 |
Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa04520 | Colorectum | AD | Adherens junction | 50/2092 | 93/8465 | 1.52e-09 | 2.83e-08 | 1.81e-08 | 50 |
hsa04530 | Colorectum | AD | Tight junction | 76/2092 | 169/8465 | 5.49e-09 | 9.69e-08 | 6.18e-08 | 76 |
hsa04722 | Colorectum | AD | Neurotrophin signaling pathway | 50/2092 | 119/8465 | 2.28e-05 | 2.24e-04 | 1.43e-04 | 50 |
hsa05417 | Colorectum | AD | Lipid and atherosclerosis | 73/2092 | 215/8465 | 1.31e-03 | 8.27e-03 | 5.27e-03 | 73 |
hsa04015 | Colorectum | AD | Rap1 signaling pathway | 71/2092 | 210/8465 | 1.72e-03 | 9.68e-03 | 6.18e-03 | 71 |
hsa05211 | Colorectum | AD | Renal cell carcinoma | 28/2092 | 69/8465 | 2.58e-03 | 1.37e-02 | 8.75e-03 | 28 |
hsa04510 | Colorectum | AD | Focal adhesion | 67/2092 | 203/8465 | 4.40e-03 | 2.17e-02 | 1.38e-02 | 67 |
hsa04670 | Colorectum | AD | Leukocyte transendothelial migration | 41/2092 | 114/8465 | 4.60e-03 | 2.20e-02 | 1.40e-02 | 41 |
hsa04720 | Colorectum | AD | Long-term potentiation | 26/2092 | 67/8465 | 7.26e-03 | 2.97e-02 | 1.89e-02 | 26 |
hsa04972 | Colorectum | AD | Pancreatic secretion | 36/2092 | 102/8465 | 1.06e-02 | 3.98e-02 | 2.54e-02 | 36 |
hsa045201 | Colorectum | AD | Adherens junction | 50/2092 | 93/8465 | 1.52e-09 | 2.83e-08 | 1.81e-08 | 50 |
hsa045301 | Colorectum | AD | Tight junction | 76/2092 | 169/8465 | 5.49e-09 | 9.69e-08 | 6.18e-08 | 76 |
hsa047221 | Colorectum | AD | Neurotrophin signaling pathway | 50/2092 | 119/8465 | 2.28e-05 | 2.24e-04 | 1.43e-04 | 50 |
hsa054171 | Colorectum | AD | Lipid and atherosclerosis | 73/2092 | 215/8465 | 1.31e-03 | 8.27e-03 | 5.27e-03 | 73 |
hsa040151 | Colorectum | AD | Rap1 signaling pathway | 71/2092 | 210/8465 | 1.72e-03 | 9.68e-03 | 6.18e-03 | 71 |
hsa052111 | Colorectum | AD | Renal cell carcinoma | 28/2092 | 69/8465 | 2.58e-03 | 1.37e-02 | 8.75e-03 | 28 |
hsa045101 | Colorectum | AD | Focal adhesion | 67/2092 | 203/8465 | 4.40e-03 | 2.17e-02 | 1.38e-02 | 67 |
hsa046701 | Colorectum | AD | Leukocyte transendothelial migration | 41/2092 | 114/8465 | 4.60e-03 | 2.20e-02 | 1.40e-02 | 41 |
hsa047201 | Colorectum | AD | Long-term potentiation | 26/2092 | 67/8465 | 7.26e-03 | 2.97e-02 | 1.89e-02 | 26 |
hsa049721 | Colorectum | AD | Pancreatic secretion | 36/2092 | 102/8465 | 1.06e-02 | 3.98e-02 | 2.54e-02 | 36 |
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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 |
RAP1A | SNV | Missense_Mutation | rs749041743 | c.367N>A | p.Glu123Lys | p.E123K | P62834 | protein_coding | deleterious(0.03) | benign(0.072) | TCGA-5L-AAT1-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Hormone Therapy | letrozol | SD |
RAP1A | SNV | Missense_Mutation | novel | c.55N>G | p.Leu19Val | p.L19V | P62834 | protein_coding | deleterious(0.03) | probably_damaging(0.944) | TCGA-BH-A0B6-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
RAP1A | SNV | Missense_Mutation | c.445A>G | p.Lys149Glu | p.K149E | P62834 | protein_coding | deleterious(0) | possibly_damaging(0.727) | TCGA-FU-A3HZ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR | |
RAP1A | SNV | Missense_Mutation | c.25C>A | p.Leu9Ile | p.L9I | P62834 | protein_coding | deleterious(0.02) | probably_damaging(0.913) | TCGA-A6-6781-01 | Colorectum | colon adenocarcinoma | Male | <65 | III/IV | Chemotherapy | oxaliplatin | SD | |
RAP1A | SNV | Missense_Mutation | c.344N>A | p.Gly115Asp | p.G115D | P62834 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AA-3672-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD | |
RAP1A | SNV | Missense_Mutation | c.160G>A | p.Glu54Lys | p.E54K | P62834 | protein_coding | deleterious(0) | benign(0.28) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
RAP1A | SNV | Missense_Mutation | novel | c.247T>G | p.Ser83Ala | p.S83A | P62834 | protein_coding | deleterious(0.03) | probably_damaging(0.972) | TCGA-F5-6814-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
RAP1A | SNV | Missense_Mutation | c.115T>C | p.Ser39Pro | p.S39P | P62834 | protein_coding | deleterious(0.01) | probably_damaging(0.994) | TCGA-B5-A11E-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
RAP1A | SNV | Missense_Mutation | c.344N>A | p.Gly115Asp | p.G115D | P62834 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-DI-A0WH-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
RAP1A | SNV | Missense_Mutation | novel | c.470N>C | p.Ile157Thr | p.I157T | P62834 | protein_coding | deleterious(0.05) | possibly_damaging(0.754) | TCGA-E6-A1LX-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | 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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