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Gene: PRKAA2 |
Gene summary for PRKAA2 |
Gene summary. |
Gene information | Species | Human | Gene symbol | PRKAA2 | Gene ID | 5563 |
Gene name | protein kinase AMP-activated catalytic subunit alpha 2 | |
Gene Alias | AMPK | |
Cytomap | 1p32.2 | |
Gene Type | protein-coding | GO ID | GO:0000226 | UniProtAcc | P54646 |
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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 |
5563 | PRKAA2 | HCC1_Meng | Human | Liver | HCC | 7.48e-49 | 2.98e-02 | 0.0246 |
5563 | PRKAA2 | HCC2_Meng | Human | Liver | HCC | 1.83e-05 | -1.02e-02 | 0.0107 |
5563 | PRKAA2 | cirrhotic2 | Human | Liver | Cirrhotic | 3.60e-03 | 2.33e-02 | 0.0201 |
5563 | PRKAA2 | HCC1 | Human | Liver | HCC | 7.53e-11 | 5.06e+00 | 0.5336 |
5563 | PRKAA2 | HCC2 | Human | Liver | HCC | 1.25e-22 | 4.10e+00 | 0.5341 |
5563 | PRKAA2 | S014 | Human | Liver | HCC | 1.96e-16 | 8.25e-01 | 0.2254 |
5563 | PRKAA2 | S015 | Human | Liver | HCC | 6.52e-18 | 1.28e+00 | 0.2375 |
5563 | PRKAA2 | S016 | Human | Liver | HCC | 1.07e-25 | 1.12e+00 | 0.2243 |
5563 | PRKAA2 | S027 | Human | Liver | HCC | 1.42e-07 | 8.30e-01 | 0.2446 |
5563 | PRKAA2 | S028 | Human | Liver | HCC | 7.73e-09 | 6.61e-01 | 0.2503 |
5563 | PRKAA2 | S029 | Human | Liver | HCC | 4.36e-13 | 8.60e-01 | 0.2581 |
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Transcriptomic changes along malignancy continuum. |
Tissue | Expression Dynamics | Abbreviation |
Liver | HCC: Hepatocellular carcinoma | |
NAFLD: Non-alcoholic fatty liver disease | ||
Prostate | BPH: Benign Prostatic Hyperplasia |
∗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:001624112 | Prostate | Tumor | regulation of macroautophagy | 41/3246 | 141/18723 | 3.79e-04 | 2.95e-03 | 41 |
GO:190211512 | Prostate | Tumor | regulation of organelle assembly | 51/3246 | 186/18723 | 3.87e-04 | 2.99e-03 | 51 |
GO:004354311 | Prostate | Tumor | protein acylation | 63/3246 | 243/18723 | 4.64e-04 | 3.48e-03 | 63 |
GO:001810513 | Prostate | Tumor | peptidyl-serine phosphorylation | 78/3246 | 315/18723 | 4.95e-04 | 3.66e-03 | 78 |
GO:000974319 | Prostate | Tumor | response to carbohydrate | 65/3246 | 253/18723 | 4.97e-04 | 3.66e-03 | 65 |
GO:005159216 | Prostate | Tumor | response to calcium ion | 42/3246 | 149/18723 | 6.59e-04 | 4.66e-03 | 42 |
GO:00421491 | Prostate | Tumor | cellular response to glucose starvation | 18/3246 | 48/18723 | 6.99e-04 | 4.92e-03 | 18 |
GO:000974618 | Prostate | Tumor | response to hexose | 57/3246 | 219/18723 | 7.59e-04 | 5.20e-03 | 57 |
GO:003560112 | Prostate | Tumor | protein deacylation | 33/3246 | 112/18723 | 1.05e-03 | 6.77e-03 | 33 |
GO:001820913 | Prostate | Tumor | peptidyl-serine modification | 81/3246 | 338/18723 | 1.11e-03 | 7.14e-03 | 81 |
GO:001605214 | Prostate | Tumor | carbohydrate catabolic process | 42/3246 | 154/18723 | 1.35e-03 | 8.44e-03 | 42 |
GO:000647612 | Prostate | Tumor | protein deacetylation | 30/3246 | 101/18723 | 1.50e-03 | 9.27e-03 | 30 |
GO:000974916 | Prostate | Tumor | response to glucose | 54/3246 | 212/18723 | 1.74e-03 | 1.03e-02 | 54 |
GO:009873211 | Prostate | Tumor | macromolecule deacylation | 33/3246 | 116/18723 | 2.00e-03 | 1.16e-02 | 33 |
GO:009730611 | Prostate | Tumor | cellular response to alcohol | 27/3246 | 93/18723 | 3.59e-03 | 1.85e-02 | 27 |
GO:000167815 | Prostate | Tumor | cellular glucose homeostasis | 44/3246 | 172/18723 | 4.02e-03 | 2.04e-02 | 44 |
GO:007133315 | Prostate | Tumor | cellular response to glucose stimulus | 39/3246 | 151/18723 | 5.46e-03 | 2.60e-02 | 39 |
GO:007133115 | Prostate | Tumor | cellular response to hexose stimulus | 39/3246 | 153/18723 | 6.90e-03 | 3.12e-02 | 39 |
GO:190054211 | Prostate | Tumor | regulation of purine nucleotide metabolic process | 24/3246 | 84/18723 | 7.23e-03 | 3.24e-02 | 24 |
GO:007132615 | Prostate | Tumor | cellular response to monosaccharide stimulus | 39/3246 | 154/18723 | 7.73e-03 | 3.44e-02 | 39 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0493222 | Liver | Cirrhotic | Non-alcoholic fatty liver disease | 106/2530 | 155/8465 | 2.16e-23 | 2.40e-21 | 1.48e-21 | 106 |
hsa0471414 | Liver | Cirrhotic | Thermogenesis | 121/2530 | 232/8465 | 5.70e-13 | 1.36e-11 | 8.36e-12 | 121 |
hsa0453022 | Liver | Cirrhotic | Tight junction | 82/2530 | 169/8465 | 2.14e-07 | 2.85e-06 | 1.76e-06 | 82 |
hsa041406 | Liver | Cirrhotic | Autophagy - animal | 65/2530 | 141/8465 | 3.10e-05 | 2.47e-04 | 1.52e-04 | 65 |
hsa0541822 | Liver | Cirrhotic | Fluid shear stress and atherosclerosis | 62/2530 | 139/8465 | 1.53e-04 | 1.06e-03 | 6.54e-04 | 62 |
hsa04936 | Liver | Cirrhotic | Alcoholic liver disease | 60/2530 | 142/8465 | 1.07e-03 | 5.85e-03 | 3.61e-03 | 60 |
hsa0491021 | Liver | Cirrhotic | Insulin signaling pathway | 56/2530 | 137/8465 | 3.74e-03 | 1.50e-02 | 9.26e-03 | 56 |
hsa0415221 | Liver | Cirrhotic | AMPK signaling pathway | 49/2530 | 121/8465 | 7.90e-03 | 2.74e-02 | 1.69e-02 | 49 |
hsa040682 | Liver | Cirrhotic | FoxO signaling pathway | 52/2530 | 131/8465 | 9.98e-03 | 3.32e-02 | 2.05e-02 | 52 |
hsa042118 | Liver | Cirrhotic | Longevity regulating pathway | 37/2530 | 89/8465 | 1.22e-02 | 3.89e-02 | 2.40e-02 | 37 |
hsa0492221 | Liver | Cirrhotic | Glucagon signaling pathway | 43/2530 | 107/8465 | 1.42e-02 | 4.35e-02 | 2.68e-02 | 43 |
hsa0493232 | Liver | Cirrhotic | Non-alcoholic fatty liver disease | 106/2530 | 155/8465 | 2.16e-23 | 2.40e-21 | 1.48e-21 | 106 |
hsa0471415 | Liver | Cirrhotic | Thermogenesis | 121/2530 | 232/8465 | 5.70e-13 | 1.36e-11 | 8.36e-12 | 121 |
hsa0453032 | Liver | Cirrhotic | Tight junction | 82/2530 | 169/8465 | 2.14e-07 | 2.85e-06 | 1.76e-06 | 82 |
hsa0414011 | Liver | Cirrhotic | Autophagy - animal | 65/2530 | 141/8465 | 3.10e-05 | 2.47e-04 | 1.52e-04 | 65 |
hsa0541832 | Liver | Cirrhotic | Fluid shear stress and atherosclerosis | 62/2530 | 139/8465 | 1.53e-04 | 1.06e-03 | 6.54e-04 | 62 |
hsa049361 | Liver | Cirrhotic | Alcoholic liver disease | 60/2530 | 142/8465 | 1.07e-03 | 5.85e-03 | 3.61e-03 | 60 |
hsa0491031 | Liver | Cirrhotic | Insulin signaling pathway | 56/2530 | 137/8465 | 3.74e-03 | 1.50e-02 | 9.26e-03 | 56 |
hsa0415231 | Liver | Cirrhotic | AMPK signaling pathway | 49/2530 | 121/8465 | 7.90e-03 | 2.74e-02 | 1.69e-02 | 49 |
hsa040683 | Liver | Cirrhotic | FoxO signaling pathway | 52/2530 | 131/8465 | 9.98e-03 | 3.32e-02 | 2.05e-02 | 52 |
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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 |
PRKAA2 | PERI | Breast | Healthy | IRS1,BCL2,SMIM14, etc. | 1.56e-01 | |
PRKAA2 | CHO | Liver | Healthy | TMC5,DEPDC1B,MAMLD1, etc. | 2.61e-01 |
∗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 |
PRKAA2 | SNV | Missense_Mutation | c.859G>A | p.Val287Ile | p.V287I | P54646 | protein_coding | tolerated(0.74) | benign(0.021) | TCGA-AN-A0FT-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
PRKAA2 | SNV | Missense_Mutation | novel | c.651G>T | p.Glu217Asp | p.E217D | P54646 | protein_coding | tolerated(0.17) | benign(0.046) | TCGA-AR-A24W-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | letrozole | SD |
PRKAA2 | SNV | Missense_Mutation | c.476N>T | p.Gly159Val | p.G159V | P54646 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-B6-A0IJ-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
PRKAA2 | SNV | Missense_Mutation | c.629G>A | p.Gly210Asp | p.G210D | P54646 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-BH-A18G-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
PRKAA2 | SNV | Missense_Mutation | c.192N>C | p.Glu64Asp | p.E64D | P54646 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-D8-A142-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | cyclophosphamid | SD | |
PRKAA2 | SNV | Missense_Mutation | rs781506978 | c.328N>T | p.Arg110Trp | p.R110W | P54646 | protein_coding | deleterious(0) | probably_damaging(0.978) | TCGA-D8-A142-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | cyclophosphamid | SD |
PRKAA2 | SNV | Missense_Mutation | c.1591N>T | p.Arg531Cys | p.R531C | P54646 | protein_coding | deleterious_low_confidence(0.01) | possibly_damaging(0.608) | TCGA-DG-A2KH-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
PRKAA2 | SNV | Missense_Mutation | c.346N>A | p.Ala116Thr | p.A116T | P54646 | protein_coding | deleterious(0) | possibly_damaging(0.902) | TCGA-EK-A2RC-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
PRKAA2 | SNV | Missense_Mutation | c.1002N>A | p.Met334Ile | p.M334I | P54646 | protein_coding | tolerated(0.26) | benign(0.191) | TCGA-HM-A4S6-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Chemotherapy | cisplatin | CR | |
PRKAA2 | SNV | Missense_Mutation | c.777N>G | p.Ile259Met | p.I259M | P54646 | protein_coding | tolerated(0.05) | possibly_damaging(0.583) | TCGA-IR-A3LH-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
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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 |
5563 | PRKAA2 | SERINE THREONINE KINASE, KINASE, DRUGGABLE GENOME, TRANSPORTER, ENZYME | metformin | METFORMIN | 22722338 | |
5563 | PRKAA2 | SERINE THREONINE KINASE, KINASE, DRUGGABLE GENOME, TRANSPORTER, ENZYME | METFORMIN HYDROCHLORIDE | |||
5563 | PRKAA2 | SERINE THREONINE KINASE, KINASE, DRUGGABLE GENOME, TRANSPORTER, ENZYME | METFORMIN | METFORMIN | 26471090 | |
5563 | PRKAA2 | SERINE THREONINE KINASE, KINASE, DRUGGABLE GENOME, TRANSPORTER, ENZYME | METFORMIN HYDROCHLORIDE | METFORMIN HYDROCHLORIDE | 23490148 | |
5563 | PRKAA2 | SERINE THREONINE KINASE, KINASE, DRUGGABLE GENOME, TRANSPORTER, ENZYME | HL010183 | CHEMBL2348411 | 23490148 | |
5563 | PRKAA2 | SERINE THREONINE KINASE, KINASE, DRUGGABLE GENOME, TRANSPORTER, ENZYME | inhibitor | HESPERADIN | HESPERADIN | 19035792 |
5563 | PRKAA2 | SERINE THREONINE KINASE, KINASE, DRUGGABLE GENOME, TRANSPORTER, ENZYME | SAPONARIN | SAPONARIN | 26471090 |
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