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Gene: ARPC5L |
Gene summary for ARPC5L |
Gene summary. |
Gene information | Species | Human | Gene symbol | ARPC5L | Gene ID | 81873 |
Gene name | actin related protein 2/3 complex subunit 5 like | |
Gene Alias | ARC16-2 | |
Cytomap | 9q33.3 | |
Gene Type | protein-coding | GO ID | GO:0006928 | UniProtAcc | A0A024R897 |
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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 |
81873 | ARPC5L | HTA11_2487_2000001011 | Human | Colorectum | SER | 9.00e-09 | 3.67e-01 | -0.1808 |
81873 | ARPC5L | HTA11_1938_2000001011 | Human | Colorectum | AD | 1.89e-05 | 3.56e-01 | -0.0811 |
81873 | ARPC5L | HTA11_347_2000001011 | Human | Colorectum | AD | 4.86e-08 | 2.50e-01 | -0.1954 |
81873 | ARPC5L | HTA11_411_2000001011 | Human | Colorectum | SER | 3.73e-02 | 3.72e-01 | -0.2602 |
81873 | ARPC5L | HTA11_3361_2000001011 | Human | Colorectum | AD | 9.53e-06 | 3.14e-01 | -0.1207 |
81873 | ARPC5L | HTA11_83_2000001011 | Human | Colorectum | SER | 4.43e-04 | 3.53e-01 | -0.1526 |
81873 | ARPC5L | HTA11_696_2000001011 | Human | Colorectum | AD | 1.16e-07 | 3.02e-01 | -0.1464 |
81873 | ARPC5L | HTA11_866_2000001011 | Human | Colorectum | AD | 1.05e-05 | 2.24e-01 | -0.1001 |
81873 | ARPC5L | HTA11_1391_2000001011 | Human | Colorectum | AD | 3.10e-13 | 5.82e-01 | -0.059 |
81873 | ARPC5L | HTA11_546_2000001011 | Human | Colorectum | AD | 4.08e-03 | 2.38e-01 | -0.0842 |
81873 | ARPC5L | HTA11_866_3004761011 | Human | Colorectum | AD | 6.74e-03 | 2.06e-01 | 0.096 |
81873 | ARPC5L | HTA11_10623_2000001011 | Human | Colorectum | AD | 3.98e-03 | 2.69e-01 | -0.0177 |
81873 | ARPC5L | HTA11_6801_2000001011 | Human | Colorectum | SER | 1.26e-02 | 4.04e-01 | 0.0171 |
81873 | ARPC5L | HTA11_7696_3000711011 | Human | Colorectum | AD | 2.35e-04 | 2.50e-01 | 0.0674 |
81873 | ARPC5L | HTA11_7469_2000001011 | Human | Colorectum | AD | 6.10e-03 | 3.89e-01 | -0.0124 |
81873 | ARPC5L | HTA11_99999970781_79442 | Human | Colorectum | MSS | 3.70e-04 | 2.33e-01 | 0.294 |
81873 | ARPC5L | HTA11_99999965104_69814 | Human | Colorectum | MSS | 6.85e-08 | 3.81e-01 | 0.281 |
81873 | ARPC5L | HTA11_99999971662_82457 | Human | Colorectum | MSS | 5.72e-17 | 5.39e-01 | 0.3859 |
81873 | ARPC5L | HTA11_99999973899_84307 | Human | Colorectum | MSS | 4.62e-04 | 2.82e-01 | 0.2585 |
81873 | ARPC5L | LZE2D | Human | Esophagus | HGIN | 1.50e-02 | -1.13e-01 | 0.0642 |
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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:0007015 | Colorectum | AD | actin filament organization | 167/3918 | 442/18723 | 1.65e-16 | 7.94e-14 | 167 |
GO:0032535 | Colorectum | AD | regulation of cellular component size | 142/3918 | 383/18723 | 1.74e-13 | 3.41e-11 | 142 |
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:0110053 | Colorectum | AD | regulation of actin filament organization | 108/3918 | 278/18723 | 5.02e-12 | 6.98e-10 | 108 |
GO:0008154 | Colorectum | AD | actin polymerization or depolymerization | 90/3918 | 218/18723 | 6.14e-12 | 8.23e-10 | 90 |
GO:0032271 | Colorectum | AD | regulation of protein polymerization | 94/3918 | 233/18723 | 1.01e-11 | 1.29e-09 | 94 |
GO:0030041 | Colorectum | AD | actin filament polymerization | 81/3918 | 191/18723 | 1.35e-11 | 1.69e-09 | 81 |
GO:0051258 | Colorectum | AD | protein polymerization | 112/3918 | 297/18723 | 1.85e-11 | 2.27e-09 | 112 |
GO:0043254 | Colorectum | AD | regulation of protein-containing complex assembly | 148/3918 | 428/18723 | 2.64e-11 | 3.18e-09 | 148 |
GO:0008064 | Colorectum | AD | regulation of actin polymerization or depolymerization | 79/3918 | 188/18723 | 4.17e-11 | 4.74e-09 | 79 |
GO:0030833 | Colorectum | AD | regulation of actin filament polymerization | 74/3918 | 172/18723 | 4.50e-11 | 5.03e-09 | 74 |
GO:0030832 | Colorectum | AD | regulation of actin filament length | 79/3918 | 189/18723 | 5.71e-11 | 6.27e-09 | 79 |
GO:1902905 | Colorectum | AD | positive regulation of supramolecular fiber organization | 85/3918 | 209/18723 | 5.95e-11 | 6.33e-09 | 85 |
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:0032273 | Colorectum | AD | positive regulation of protein polymerization | 62/3918 | 138/18723 | 1.94e-10 | 1.76e-08 | 62 |
GO:0031334 | Colorectum | AD | positive regulation of protein-containing complex assembly | 91/3918 | 237/18723 | 4.78e-10 | 3.99e-08 | 91 |
GO:0030838 | Colorectum | AD | positive regulation of actin filament polymerization | 48/3918 | 99/18723 | 9.21e-10 | 7.03e-08 | 48 |
GO:0045010 | Colorectum | AD | actin nucleation | 26/3918 | 52/18723 | 3.10e-06 | 8.77e-05 | 26 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa04530113 | Prostate | BPH | Tight junction | 68/1718 | 169/8465 | 1.70e-09 | 2.55e-08 | 1.58e-08 | 68 |
hsa04144111 | Prostate | BPH | Endocytosis | 89/1718 | 251/8465 | 1.06e-08 | 1.29e-07 | 7.99e-08 | 89 |
hsa04810110 | Prostate | BPH | Regulation of actin cytoskeleton | 80/1718 | 229/8465 | 1.23e-07 | 1.31e-06 | 8.10e-07 | 80 |
hsa05100112 | Prostate | BPH | Bacterial invasion of epithelial cells | 35/1718 | 77/8465 | 5.15e-07 | 4.86e-06 | 3.00e-06 | 35 |
hsa0513519 | Prostate | BPH | Yersinia infection | 49/1718 | 137/8465 | 1.65e-05 | 1.27e-04 | 7.86e-05 | 49 |
hsa0466617 | Prostate | BPH | Fc gamma R-mediated phagocytosis | 31/1718 | 97/8465 | 4.40e-03 | 1.53e-02 | 9.45e-03 | 31 |
hsa0513229 | Prostate | Tumor | Salmonella infection | 98/1791 | 249/8465 | 2.55e-11 | 5.28e-10 | 3.27e-10 | 98 |
hsa0513129 | Prostate | Tumor | Shigellosis | 94/1791 | 247/8465 | 5.56e-10 | 9.69e-09 | 6.01e-09 | 94 |
hsa0453029 | Prostate | Tumor | Tight junction | 69/1791 | 169/8465 | 3.92e-09 | 6.18e-08 | 3.83e-08 | 69 |
hsa0513029 | Prostate | Tumor | Pathogenic Escherichia coli infection | 77/1791 | 197/8465 | 5.20e-09 | 7.77e-08 | 4.82e-08 | 77 |
hsa0414426 | Prostate | Tumor | Endocytosis | 92/1791 | 251/8465 | 7.83e-09 | 1.04e-07 | 6.43e-08 | 92 |
hsa0481025 | Prostate | Tumor | Regulation of actin cytoskeleton | 84/1791 | 229/8465 | 3.40e-08 | 4.17e-07 | 2.58e-07 | 84 |
hsa0510029 | Prostate | Tumor | Bacterial invasion of epithelial cells | 36/1791 | 77/8465 | 4.38e-07 | 4.53e-06 | 2.81e-06 | 36 |
hsa0513524 | Prostate | Tumor | Yersinia infection | 48/1791 | 137/8465 | 1.11e-04 | 7.25e-04 | 4.49e-04 | 48 |
hsa0466622 | Prostate | Tumor | Fc gamma R-mediated phagocytosis | 31/1791 | 97/8465 | 8.27e-03 | 2.66e-02 | 1.65e-02 | 31 |
hsa0513237 | Prostate | Tumor | Salmonella infection | 98/1791 | 249/8465 | 2.55e-11 | 5.28e-10 | 3.27e-10 | 98 |
hsa0513137 | Prostate | Tumor | Shigellosis | 94/1791 | 247/8465 | 5.56e-10 | 9.69e-09 | 6.01e-09 | 94 |
hsa0453037 | Prostate | Tumor | Tight junction | 69/1791 | 169/8465 | 3.92e-09 | 6.18e-08 | 3.83e-08 | 69 |
hsa0513037 | Prostate | Tumor | Pathogenic Escherichia coli infection | 77/1791 | 197/8465 | 5.20e-09 | 7.77e-08 | 4.82e-08 | 77 |
hsa0414435 | Prostate | Tumor | Endocytosis | 92/1791 | 251/8465 | 7.83e-09 | 1.04e-07 | 6.43e-08 | 92 |
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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 |
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 |
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 |
ARPC5L | SNV | Missense_Mutation | c.376N>A | p.Val126Met | p.V126M | Q9BPX5 | protein_coding | tolerated(0.23) | benign(0.089) | TCGA-BH-A0HF-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | arimidex | SD | |
ARPC5L | insertion | Frame_Shift_Ins | rs748467178 | c.460_461insA | p.Ter154%3D | p.*154%3D | Q9BPX5 | protein_coding | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | ||
ARPC5L | SNV | Missense_Mutation | novel | c.203C>T | p.Thr68Ile | p.T68I | Q9BPX5 | protein_coding | deleterious(0.01) | possibly_damaging(0.765) | TCGA-B5-A3FA-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
ARPC5L | SNV | Missense_Mutation | novel | c.448A>G | p.Arg150Gly | p.R150G | Q9BPX5 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-B5-A3FA-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
ARPC5L | deletion | Frame_Shift_Del | novel | c.461delN | p.Ter154%3D | p.*154%3D | Q9BPX5 | protein_coding | TCGA-EY-A215-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | ||
ARPC5L | SNV | Missense_Mutation | novel | c.286N>A | p.Ala96Thr | p.A96T | Q9BPX5 | protein_coding | tolerated(0.07) | benign(0.184) | TCGA-58-8388-01 | Lung | lung squamous cell carcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
ARPC5L | SNV | Missense_Mutation | c.390G>C | p.Trp130Cys | p.W130C | Q9BPX5 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-HC-8265-01 | Prostate | prostate adenocarcinoma | Male | >=65 | 8 | Unknown | Unknown | SD | |
ARPC5L | deletion | Frame_Shift_Del | novel | c.461delN | p.Ter154%3D | p.*154%3D | Q9BPX5 | protein_coding | TCGA-BR-4292-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | ||
ARPC5L | deletion | Frame_Shift_Del | novel | c.*6delA | Q9BPX5 | protein_coding | TCGA-BR-8078-01 | Stomach | stomach adenocarcinoma | 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 |
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