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Gene: GCN1 |
Gene summary for GCN1 |
Gene summary. |
Gene information | Species | Human | Gene symbol | GCN1 | Gene ID | 10985 |
Gene name | GCN1 activator of EIF2AK4 | |
Gene Alias | GCN1L | |
Cytomap | 12q24.23 | |
Gene Type | protein-coding | GO ID | GO:0006139 | UniProtAcc | Q92616 |
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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 |
10985 | GCN1 | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.01e-02 | 4.57e-02 | 0.0155 |
10985 | GCN1 | HTA11_347_2000001011 | Human | Colorectum | AD | 7.22e-04 | 3.09e-01 | -0.1954 |
10985 | GCN1 | HTA11_696_2000001011 | Human | Colorectum | AD | 3.86e-03 | 3.21e-01 | -0.1464 |
10985 | GCN1 | HTA11_1391_2000001011 | Human | Colorectum | AD | 4.48e-06 | 5.21e-01 | -0.059 |
10985 | GCN1 | HTA11_866_3004761011 | Human | Colorectum | AD | 8.20e-08 | 3.70e-01 | 0.096 |
10985 | GCN1 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 3.72e-04 | 3.61e-01 | 0.294 |
10985 | GCN1 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 4.79e-08 | 5.47e-01 | 0.3859 |
10985 | GCN1 | A015-C-203 | Human | Colorectum | FAP | 3.54e-06 | -1.05e-01 | -0.1294 |
10985 | GCN1 | A001-C-108 | Human | Colorectum | FAP | 3.54e-02 | -2.65e-03 | -0.0272 |
10985 | GCN1 | A015-C-104 | Human | Colorectum | FAP | 1.27e-06 | -6.97e-02 | -0.1899 |
10985 | GCN1 | A002-C-016 | Human | Colorectum | FAP | 6.22e-05 | -1.31e-01 | 0.0521 |
10985 | GCN1 | A002-C-116 | Human | Colorectum | FAP | 2.67e-08 | -2.23e-02 | -0.0452 |
10985 | GCN1 | F034 | Human | Colorectum | FAP | 9.84e-05 | -1.32e-01 | -0.0665 |
10985 | GCN1 | LZE7T | Human | Esophagus | ESCC | 6.61e-08 | 3.22e-01 | 0.0667 |
10985 | GCN1 | LZE8T | Human | Esophagus | ESCC | 2.47e-05 | 1.66e-01 | 0.067 |
10985 | GCN1 | LZE20T | Human | Esophagus | ESCC | 4.95e-02 | 6.43e-02 | 0.0662 |
10985 | GCN1 | LZE24T | Human | Esophagus | ESCC | 8.21e-10 | 1.07e-01 | 0.0596 |
10985 | GCN1 | LZE6T | Human | Esophagus | ESCC | 1.74e-02 | 7.79e-02 | 0.0845 |
10985 | GCN1 | P1T-E | Human | Esophagus | ESCC | 2.02e-09 | 3.70e-01 | 0.0875 |
10985 | GCN1 | P2T-E | Human | Esophagus | ESCC | 5.28e-17 | 3.31e-01 | 0.1177 |
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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:0006417 | Colorectum | AD | regulation of translation | 141/3918 | 468/18723 | 1.32e-06 | 4.22e-05 | 141 |
GO:0031667 | Colorectum | AD | response to nutrient levels | 138/3918 | 474/18723 | 1.22e-05 | 2.68e-04 | 138 |
GO:0033674 | Colorectum | AD | positive regulation of kinase activity | 131/3918 | 467/18723 | 1.28e-04 | 1.85e-03 | 131 |
GO:0042594 | Colorectum | AD | response to starvation | 63/3918 | 197/18723 | 1.77e-04 | 2.38e-03 | 63 |
GO:0043620 | Colorectum | AD | regulation of DNA-templated transcription in response to stress | 23/3918 | 53/18723 | 1.86e-04 | 2.49e-03 | 23 |
GO:0071496 | Colorectum | AD | cellular response to external stimulus | 94/3918 | 320/18723 | 1.98e-04 | 2.64e-03 | 94 |
GO:0036003 | Colorectum | AD | positive regulation of transcription from RNA polymerase II promoter in response to stress | 13/3918 | 24/18723 | 3.45e-04 | 4.03e-03 | 13 |
GO:0009267 | Colorectum | AD | cellular response to starvation | 51/3918 | 156/18723 | 3.90e-04 | 4.44e-03 | 51 |
GO:0043618 | Colorectum | AD | regulation of transcription from RNA polymerase II promoter in response to stress | 20/3918 | 47/18723 | 6.54e-04 | 6.75e-03 | 20 |
GO:0031668 | Colorectum | AD | cellular response to extracellular stimulus | 71/3918 | 246/18723 | 1.86e-03 | 1.52e-02 | 71 |
GO:0031669 | Colorectum | AD | cellular response to nutrient levels | 63/3918 | 215/18723 | 2.19e-03 | 1.73e-02 | 63 |
GO:00064172 | Colorectum | MSS | regulation of translation | 134/3467 | 468/18723 | 4.43e-08 | 2.38e-06 | 134 |
GO:00316672 | Colorectum | MSS | response to nutrient levels | 125/3467 | 474/18723 | 1.24e-05 | 2.88e-04 | 125 |
GO:00336742 | Colorectum | MSS | positive regulation of kinase activity | 122/3467 | 467/18723 | 2.50e-05 | 5.21e-04 | 122 |
GO:00425942 | Colorectum | MSS | response to starvation | 56/3467 | 197/18723 | 4.25e-04 | 5.21e-03 | 56 |
GO:00360032 | Colorectum | MSS | positive regulation of transcription from RNA polymerase II promoter in response to stress | 12/3467 | 24/18723 | 4.68e-04 | 5.50e-03 | 12 |
GO:00436202 | Colorectum | MSS | regulation of DNA-templated transcription in response to stress | 20/3467 | 53/18723 | 7.91e-04 | 8.36e-03 | 20 |
GO:00714962 | Colorectum | MSS | cellular response to external stimulus | 82/3467 | 320/18723 | 9.30e-04 | 9.44e-03 | 82 |
GO:00436181 | Colorectum | MSS | regulation of transcription from RNA polymerase II promoter in response to stress | 18/3467 | 47/18723 | 1.17e-03 | 1.13e-02 | 18 |
GO:00092672 | Colorectum | MSS | cellular response to starvation | 44/3467 | 156/18723 | 1.96e-03 | 1.69e-02 | 44 |
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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 |
GCN1 | SNV | Missense_Mutation | rs536175743 | c.6019G>A | p.Val2007Met | p.V2007M | Q92616 | protein_coding | deleterious(0) | possibly_damaging(0.884) | TCGA-AA-3710-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
GCN1 | SNV | Missense_Mutation | c.1672A>G | p.Thr558Ala | p.T558A | Q92616 | protein_coding | tolerated(0.67) | benign(0.003) | TCGA-AA-3710-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
GCN1 | SNV | Missense_Mutation | c.5953N>G | p.Ile1985Val | p.I1985V | Q92616 | protein_coding | tolerated(0.1) | benign(0.174) | TCGA-AA-3811-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD | |
GCN1 | SNV | Missense_Mutation | rs548401692 | c.7837N>A | p.Asp2613Asn | p.D2613N | Q92616 | protein_coding | deleterious(0) | benign(0.436) | TCGA-AA-3864-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
GCN1 | SNV | Missense_Mutation | c.6934N>A | p.Arg2312Ser | p.R2312S | Q92616 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AA-3950-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
GCN1 | SNV | Missense_Mutation | novel | c.3676N>G | p.Ser1226Ala | p.S1226A | Q92616 | protein_coding | tolerated(0.43) | benign(0.058) | TCGA-AA-3984-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
GCN1 | SNV | Missense_Mutation | novel | c.1588N>G | p.Phe530Val | p.F530V | Q92616 | protein_coding | tolerated(0.11) | possibly_damaging(0.749) | TCGA-AA-3984-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
GCN1 | SNV | Missense_Mutation | novel | c.7181N>T | p.Ala2394Val | p.A2394V | Q92616 | protein_coding | tolerated(0.44) | benign(0.009) | TCGA-AA-A00N-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
GCN1 | SNV | Missense_Mutation | c.1739N>C | p.Val580Ala | p.V580A | Q92616 | protein_coding | deleterious(0) | probably_damaging(0.968) | TCGA-AA-A00N-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | |
GCN1 | SNV | Missense_Mutation | c.1683N>C | p.Lys561Asn | p.K561N | Q92616 | protein_coding | tolerated(0.39) | benign(0.023) | TCGA-AA-A00N-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
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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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