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Gene: GRIK4 |
Gene summary for GRIK4 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | GRIK4 | Gene ID | 2900 |
| Gene name | glutamate ionotropic receptor kainate type subunit 4 | |
| Gene Alias | EAA1 | |
| Cytomap | 11q23.3 | |
| Gene Type | protein-coding | GO ID | GO:0006810 | UniProtAcc | B2RAP6 |
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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 |
| 2900 | GRIK4 | HTA11_2487_2000001011 | Human | Colorectum | SER | 2.39e-03 | 1.67e-01 | -0.1808 |
| 2900 | GRIK4 | HTA11_1938_2000001011 | Human | Colorectum | AD | 8.97e-05 | 2.30e-01 | -0.0811 |
| 2900 | GRIK4 | HTA11_347_2000001011 | Human | Colorectum | AD | 1.82e-02 | 8.60e-02 | -0.1954 |
| 2900 | GRIK4 | HTA11_2992_2000001011 | Human | Colorectum | SER | 3.33e-06 | 3.88e-01 | -0.1706 |
| 2900 | GRIK4 | HTA11_866_3004761011 | Human | Colorectum | AD | 8.42e-03 | 1.29e-01 | 0.096 |
| 2900 | GRIK4 | HTA11_10623_2000001011 | Human | Colorectum | AD | 4.01e-04 | 2.50e-01 | -0.0177 |
| 2900 | GRIK4 | HTA11_10711_2000001011 | Human | Colorectum | AD | 1.03e-03 | 1.80e-01 | 0.0338 |
| 2900 | GRIK4 | HTA11_6818_2000001011 | Human | Colorectum | AD | 2.34e-02 | 2.25e-01 | 0.0112 |
| 2900 | GRIK4 | HTA11_11156_2000001011 | Human | Colorectum | AD | 1.02e-03 | 3.39e-01 | 0.0397 |
| 2900 | GRIK4 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 7.05e-05 | 2.65e-01 | 0.3859 |
| 2900 | GRIK4 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 3.40e-24 | 5.99e-01 | 0.3005 |
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| 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 |
| ∗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 |
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| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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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 |
| GRIK4 | SNV | Missense_Mutation | c.25N>T | p.Val9Leu | p.V9L | Q16099 | protein_coding | tolerated(1) | benign(0) | TCGA-B6-A0RM-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| GRIK4 | insertion | Frame_Shift_Ins | novel | c.1336_1337insCCTCCTCCAGAGCCCAGCTTGGATCCCACCTTCA | p.Gly446AlafsTer58 | p.G446Afs*58 | Q16099 | protein_coding | TCGA-A8-A08H-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | ||
| GRIK4 | insertion | Frame_Shift_Ins | novel | c.1459_1460insCTCCGGCTACCCT | p.Gly487AlafsTer10 | p.G487Afs*10 | Q16099 | protein_coding | TCGA-AO-A0JJ-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cyclophospamide | SD | ||
| GRIK4 | SNV | Missense_Mutation | rs760568696 | c.1081N>A | p.Gly361Ser | p.G361S | Q16099 | protein_coding | deleterious(0.01) | benign(0.366) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| GRIK4 | SNV | Missense_Mutation | c.2420N>T | p.Gly807Val | p.G807V | Q16099 | protein_coding | deleterious(0) | probably_damaging(0.988) | TCGA-C5-A7CO-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Chemotherapy | cisplatin | SD | |
| GRIK4 | SNV | Missense_Mutation | c.1948N>C | p.Asp650His | p.D650H | Q16099 | protein_coding | deleterious(0) | probably_damaging(0.958) | TCGA-EK-A2R8-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
| GRIK4 | SNV | Missense_Mutation | c.1304N>C | p.His435Pro | p.H435P | Q16099 | protein_coding | tolerated(0.18) | possibly_damaging(0.808) | TCGA-AA-3510-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
| GRIK4 | SNV | Missense_Mutation | rs771623867 | c.2048N>A | p.Arg683His | p.R683H | Q16099 | protein_coding | deleterious(0.01) | probably_damaging(1) | TCGA-AA-3662-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Chemotherapy | capecitabine | PR |
| GRIK4 | SNV | Missense_Mutation | c.1644N>T | p.Trp548Cys | p.W548C | Q16099 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AA-3675-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
| GRIK4 | SNV | Missense_Mutation | novel | c.1672N>T | p.Val558Phe | p.V558F | Q16099 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AA-3855-01 | Colorectum | colon adenocarcinoma | Male | >=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 |
| 2900 | GRIK4 | DRUGGABLE GENOME, ION CHANNEL | haloperidol | HALOPERIDOL | 27023437 | |
| 2900 | GRIK4 | DRUGGABLE GENOME, ION CHANNEL | antagonist | CHEMBL14935 | TEZAMPANEL | |
| 2900 | GRIK4 | DRUGGABLE GENOME, ION CHANNEL | antagonist | CHEMBL220492 | TOPIRAMATE | |
| 2900 | GRIK4 | DRUGGABLE GENOME, ION CHANNEL | TEZAMPANEL | TEZAMPANEL | ||
| 2900 | GRIK4 | DRUGGABLE GENOME, ION CHANNEL | antagonist | CHEMBL3545042 | SELURAMPANEL | |
| 2900 | GRIK4 | DRUGGABLE GENOME, ION CHANNEL | antidepressants | 19924111,17671280,23394390 | ||
| 2900 | GRIK4 | DRUGGABLE GENOME, ION CHANNEL | agonist | 178101000 | ||
| 2900 | GRIK4 | DRUGGABLE GENOME, ION CHANNEL | agonist | 178100908 | ||
| 2900 | GRIK4 | DRUGGABLE GENOME, ION CHANNEL | agonist | 178101004 | DYSIHERBAINE | |
| 2900 | GRIK4 | DRUGGABLE GENOME, ION CHANNEL | agonist | 178101048 |
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