|
|||||
|
 | |
| |
| |
| |
| |
| |
|
Gene: ARL2 |
Gene summary for ARL2 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | ARL2 | Gene ID | 402 |
| Gene name | ADP ribosylation factor like GTPase 2 | |
| Gene Alias | ARFL2 | |
| Cytomap | 11q13.1 | |
| Gene Type | protein-coding | GO ID | GO:0000226 | UniProtAcc | P36404 |
Top |
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 |
| 402 | ARL2 | HTA11_3410_2000001011 | Human | Colorectum | AD | 5.30e-05 | 1.28e-01 | 0.0155 |
| 402 | ARL2 | HTA11_2487_2000001011 | Human | Colorectum | SER | 1.65e-07 | 2.15e-01 | -0.1808 |
| 402 | ARL2 | HTA11_1938_2000001011 | Human | Colorectum | AD | 6.59e-07 | 2.21e-01 | -0.0811 |
| 402 | ARL2 | HTA11_78_2000001011 | Human | Colorectum | AD | 2.35e-06 | 1.98e-01 | -0.1088 |
| 402 | ARL2 | HTA11_347_2000001011 | Human | Colorectum | AD | 3.42e-16 | 3.08e-01 | -0.1954 |
| 402 | ARL2 | HTA11_2112_2000001011 | Human | Colorectum | SER | 1.29e-05 | 3.67e-01 | -0.2196 |
| 402 | ARL2 | HTA11_3361_2000001011 | Human | Colorectum | AD | 1.09e-06 | 2.67e-01 | -0.1207 |
| 402 | ARL2 | HTA11_83_2000001011 | Human | Colorectum | SER | 5.74e-08 | 2.58e-01 | -0.1526 |
| 402 | ARL2 | HTA11_696_2000001011 | Human | Colorectum | AD | 7.11e-14 | 2.80e-01 | -0.1464 |
| 402 | ARL2 | HTA11_866_2000001011 | Human | Colorectum | AD | 2.07e-07 | 1.97e-01 | -0.1001 |
| 402 | ARL2 | HTA11_1391_2000001011 | Human | Colorectum | AD | 1.53e-17 | 4.04e-01 | -0.059 |
| 402 | ARL2 | HTA11_2992_2000001011 | Human | Colorectum | SER | 2.31e-08 | 4.22e-01 | -0.1706 |
| 402 | ARL2 | HTA11_5212_2000001011 | Human | Colorectum | AD | 5.12e-05 | 3.01e-01 | -0.2061 |
| 402 | ARL2 | HTA11_5216_2000001011 | Human | Colorectum | SER | 3.34e-04 | 2.80e-01 | -0.1462 |
| 402 | ARL2 | HTA11_546_2000001011 | Human | Colorectum | AD | 4.83e-08 | 3.04e-01 | -0.0842 |
| 402 | ARL2 | HTA11_866_3004761011 | Human | Colorectum | AD | 1.77e-13 | 3.19e-01 | 0.096 |
| 402 | ARL2 | HTA11_9408_2000001011 | Human | Colorectum | AD | 6.03e-05 | 4.36e-01 | 0.0451 |
| 402 | ARL2 | HTA11_8622_2000001021 | Human | Colorectum | SER | 1.49e-06 | 2.87e-01 | 0.0528 |
| 402 | ARL2 | HTA11_7663_2000001011 | Human | Colorectum | SER | 7.76e-08 | 4.07e-01 | 0.0131 |
| 402 | ARL2 | HTA11_10623_2000001011 | Human | Colorectum | AD | 4.46e-06 | 2.63e-01 | -0.0177 |
| Page: 1 2 3 4 5 6 7 8 9 |
| 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 | ||
| Endometrium |  | AEH: Atypical endometrial hyperplasia |
| EEC: Endometrioid Cancer | ||
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| Liver |  | HCC: Hepatocellular carcinoma |
| NAFLD: Non-alcoholic fatty liver disease | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma | ||
| Skin |  | AK: Actinic keratosis |
| cSCC: Cutaneous squamous cell carcinoma | ||
| SCCIS:squamous cell carcinoma in situ | ||
| Thyroid |  | ATC: Anaplastic thyroid cancer |
| HT: Hashimoto's thyroiditis | ||
| PTC: Papillary thyroid 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. |
Top |
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:00457851 | Colorectum | SER | positive regulation of cell adhesion | 93/2897 | 437/18723 | 6.78e-04 | 9.04e-03 | 93 |
| GO:19037151 | Colorectum | SER | regulation of aerobic respiration | 13/2897 | 33/18723 | 7.65e-04 | 9.79e-03 | 13 |
| GO:0051346 | Colorectum | SER | negative regulation of hydrolase activity | 82/2897 | 379/18723 | 8.19e-04 | 1.01e-02 | 82 |
| GO:00460311 | Colorectum | SER | ADP metabolic process | 26/2897 | 90/18723 | 8.77e-04 | 1.06e-02 | 26 |
| GO:00469391 | Colorectum | SER | nucleotide phosphorylation | 28/2897 | 101/18723 | 1.15e-03 | 1.31e-02 | 28 |
| GO:00451851 | Colorectum | SER | maintenance of protein location | 26/2897 | 94/18723 | 1.76e-03 | 1.81e-02 | 26 |
| GO:00061651 | Colorectum | SER | nucleoside diphosphate phosphorylation | 27/2897 | 99/18723 | 1.81e-03 | 1.86e-02 | 27 |
| GO:00160521 | Colorectum | SER | carbohydrate catabolic process | 38/2897 | 154/18723 | 1.92e-03 | 1.93e-02 | 38 |
| GO:00434571 | Colorectum | SER | regulation of cellular respiration | 16/2897 | 49/18723 | 2.11e-03 | 2.06e-02 | 16 |
| GO:00516511 | Colorectum | SER | maintenance of location in cell | 47/2897 | 214/18723 | 7.20e-03 | 4.99e-02 | 47 |
| GO:00090602 | Colorectum | MSS | aerobic respiration | 98/3467 | 189/18723 | 3.35e-25 | 1.05e-21 | 98 |
| GO:00060912 | Colorectum | MSS | generation of precursor metabolites and energy | 186/3467 | 490/18723 | 1.14e-24 | 2.15e-21 | 186 |
| GO:00460342 | Colorectum | MSS | ATP metabolic process | 125/3467 | 277/18723 | 1.38e-24 | 2.15e-21 | 125 |
| GO:00453332 | Colorectum | MSS | cellular respiration | 107/3467 | 230/18723 | 1.64e-22 | 2.05e-19 | 107 |
| GO:00159802 | Colorectum | MSS | energy derivation by oxidation of organic compounds | 131/3467 | 318/18723 | 2.60e-21 | 2.70e-18 | 131 |
| GO:00061632 | Colorectum | MSS | purine nucleotide metabolic process | 128/3467 | 396/18723 | 2.04e-11 | 3.02e-09 | 128 |
| GO:00091502 | Colorectum | MSS | purine ribonucleotide metabolic process | 121/3467 | 368/18723 | 2.08e-11 | 3.02e-09 | 121 |
| GO:00725212 | Colorectum | MSS | purine-containing compound metabolic process | 132/3467 | 416/18723 | 4.13e-11 | 4.86e-09 | 132 |
| GO:00092592 | Colorectum | MSS | ribonucleotide metabolic process | 123/3467 | 385/18723 | 1.17e-10 | 1.20e-08 | 123 |
| GO:19029032 | Colorectum | MSS | regulation of supramolecular fiber organization | 121/3467 | 383/18723 | 3.63e-10 | 3.28e-08 | 121 |
| 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 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
Top |
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 |
Top |
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 |
Top |
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 |
| ARL2 | SNV | Missense_Mutation | c.221G>T | p.Arg74Leu | p.R74L | P36404 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-A2-A0YE-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unspecific | Taxotere | SD | |
| ARL2 | SNV | Missense_Mutation | rs766982672 | c.280G>A | p.Ala94Thr | p.A94T | P36404 | protein_coding | tolerated(0.64) | benign(0.011) | TCGA-C5-A1BF-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | PD |
| ARL2 | SNV | Missense_Mutation | rs146832019 | c.443G>A | p.Arg148His | p.R148H | P36404 | protein_coding | deleterious(0.04) | benign(0.001) | TCGA-AZ-4315-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| ARL2 | SNV | Missense_Mutation | c.409N>A | p.Ala137Thr | p.A137T | P36404 | protein_coding | deleterious(0.04) | benign(0.003) | TCGA-AZ-6598-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| ARL2 | SNV | Missense_Mutation | rs746518542 | c.124G>A | p.Asp42Asn | p.D42N | P36404 | protein_coding | tolerated(0.47) | benign(0.007) | TCGA-EI-6917-01 | Colorectum | rectum adenocarcinoma | Male | <65 | III/IV | Chemotherapy | 5fluorouracil+oxaciplatina+l-folinian | SD |
| ARL2 | SNV | Missense_Mutation | novel | c.140C>T | p.Thr47Met | p.T47M | P36404 | protein_coding | deleterious(0.02) | probably_damaging(0.941) | TCGA-AJ-A3BH-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | Unknown | I/II | Unknown | Unknown | SD |
| ARL2 | SNV | Missense_Mutation | rs748651201 | c.221N>A | p.Arg74Gln | p.R74Q | P36404 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AJ-A8CV-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| ARL2 | SNV | Missense_Mutation | rs778402408 | c.310N>T | p.Arg104Trp | p.R104W | P36404 | protein_coding | deleterious(0.02) | benign(0.022) | TCGA-AP-A1DV-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| ARL2 | SNV | Missense_Mutation | rs758628032 | c.475G>A | p.Ala159Thr | p.A159T | P36404 | protein_coding | deleterious(0.02) | probably_damaging(0.963) | TCGA-AX-A06F-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | carboplatin | SD |
| ARL2 | SNV | Missense_Mutation | rs779164260 | c.394G>A | p.Ala132Thr | p.A132T | P36404 | protein_coding | deleterious(0) | possibly_damaging(0.903) | TCGA-AX-A0IZ-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| Page: 1 2 |
Top |
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 |
Copyright 2023-Present -The University of Texas Health Science Center at Houston |