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Gene: GTF3C6 |
Gene summary for GTF3C6 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | GTF3C6 | Gene ID | 112495 |
| Gene name | general transcription factor IIIC subunit 6 | |
| Gene Alias | C6orf51 | |
| Cytomap | 6q21 | |
| Gene Type | protein-coding | GO ID | GO:0006139 | UniProtAcc | Q969F1 |
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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 |
| 112495 | GTF3C6 | HTA11_2487_2000001011 | Human | Colorectum | SER | 1.39e-06 | 3.38e-01 | -0.1808 |
| 112495 | GTF3C6 | HTA11_1938_2000001011 | Human | Colorectum | AD | 2.11e-04 | 2.92e-01 | -0.0811 |
| 112495 | GTF3C6 | HTA11_78_2000001011 | Human | Colorectum | AD | 6.79e-03 | 2.14e-01 | -0.1088 |
| 112495 | GTF3C6 | HTA11_347_2000001011 | Human | Colorectum | AD | 1.33e-16 | 3.82e-01 | -0.1954 |
| 112495 | GTF3C6 | HTA11_83_2000001011 | Human | Colorectum | SER | 2.92e-02 | 3.35e-01 | -0.1526 |
| 112495 | GTF3C6 | HTA11_696_2000001011 | Human | Colorectum | AD | 1.53e-10 | 2.88e-01 | -0.1464 |
| 112495 | GTF3C6 | HTA11_866_2000001011 | Human | Colorectum | AD | 7.88e-03 | 1.52e-01 | -0.1001 |
| 112495 | GTF3C6 | HTA11_1391_2000001011 | Human | Colorectum | AD | 7.19e-09 | 3.50e-01 | -0.059 |
| 112495 | GTF3C6 | HTA11_5212_2000001011 | Human | Colorectum | AD | 2.47e-02 | 3.34e-01 | -0.2061 |
| 112495 | GTF3C6 | HTA11_7862_2000001011 | Human | Colorectum | AD | 3.68e-02 | 2.56e-01 | -0.0179 |
| 112495 | GTF3C6 | HTA11_866_3004761011 | Human | Colorectum | AD | 5.46e-08 | 3.07e-01 | 0.096 |
| 112495 | GTF3C6 | HTA11_7663_2000001011 | Human | Colorectum | SER | 1.26e-02 | 3.35e-01 | 0.0131 |
| 112495 | GTF3C6 | HTA11_6801_2000001011 | Human | Colorectum | SER | 2.39e-04 | 5.73e-01 | 0.0171 |
| 112495 | GTF3C6 | HTA11_7696_3000711011 | Human | Colorectum | AD | 4.17e-05 | 2.13e-01 | 0.0674 |
| 112495 | GTF3C6 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 1.81e-19 | 3.86e-01 | 0.294 |
| 112495 | GTF3C6 | HTA11_99999965062_69753 | Human | Colorectum | MSI-H | 1.96e-02 | 5.36e-01 | 0.3487 |
| 112495 | GTF3C6 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 1.24e-04 | 3.11e-01 | 0.281 |
| 112495 | GTF3C6 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 5.07e-03 | 1.73e-01 | 0.3859 |
| 112495 | GTF3C6 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 7.13e-06 | 2.22e-01 | 0.3005 |
| 112495 | GTF3C6 | AEH-subject1 | Human | Endometrium | AEH | 3.07e-19 | -3.89e-01 | -0.3059 |
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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 | ||
| 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 | ||
| Prostate |  | BPH: Benign Prostatic Hyperplasia |
| 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. |
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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). |
| 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:00063833 | Esophagus | ESCC | transcription by RNA polymerase III | 41/8552 | 46/18723 | 7.69e-10 | 1.90e-08 | 41 |
| GO:00987812 | Esophagus | ESCC | ncRNA transcription | 45/8552 | 56/18723 | 1.05e-07 | 1.72e-06 | 45 |
| GO:00093032 | Esophagus | ESCC | rRNA transcription | 28/8552 | 34/18723 | 1.21e-05 | 1.12e-04 | 28 |
| GO:0009303 | Liver | HCC | rRNA transcription | 25/7958 | 34/18723 | 2.42e-04 | 1.81e-03 | 25 |
| GO:0006383 | Liver | HCC | transcription by RNA polymerase III | 31/7958 | 46/18723 | 5.67e-04 | 3.61e-03 | 31 |
| GO:0098781 | Liver | HCC | ncRNA transcription | 33/7958 | 56/18723 | 9.64e-03 | 3.63e-02 | 33 |
| GO:00063832 | Oral cavity | OSCC | transcription by RNA polymerase III | 34/7305 | 46/18723 | 1.61e-06 | 2.11e-05 | 34 |
| GO:00987811 | Oral cavity | OSCC | ncRNA transcription | 38/7305 | 56/18723 | 1.15e-05 | 1.18e-04 | 38 |
| GO:00093031 | Oral cavity | OSCC | rRNA transcription | 24/7305 | 34/18723 | 1.89e-04 | 1.28e-03 | 24 |
| GO:00063831 | Oral cavity | LP | transcription by RNA polymerase III | 20/4623 | 46/18723 | 4.03e-03 | 2.61e-02 | 20 |
| GO:00987813 | Skin | cSCC | ncRNA transcription | 28/4864 | 56/18723 | 9.93e-05 | 9.22e-04 | 28 |
| GO:00093033 | Skin | cSCC | rRNA transcription | 19/4864 | 34/18723 | 2.03e-04 | 1.69e-03 | 19 |
| GO:00063834 | Skin | cSCC | transcription by RNA polymerase III | 20/4864 | 46/18723 | 7.44e-03 | 3.50e-02 | 20 |
| GO:00987814 | Thyroid | PTC | ncRNA transcription | 27/5968 | 56/18723 | 7.77e-03 | 3.29e-02 | 27 |
| GO:00063835 | Thyroid | PTC | transcription by RNA polymerase III | 23/5968 | 46/18723 | 7.89e-03 | 3.33e-02 | 23 |
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| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
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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 |
| Page: 1 |
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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. |
| Page: 1 |
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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 |
| GTF3C6 | SNV | Missense_Mutation | c.229G>A | p.Glu77Lys | p.E77K | Q969F1 | protein_coding | deleterious(0.02) | probably_damaging(1) | TCGA-AC-A23H-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD | |
| GTF3C6 | SNV | Missense_Mutation | novel | c.100N>T | p.Asp34Tyr | p.D34Y | Q969F1 | protein_coding | deleterious(0) | probably_damaging(0.937) | TCGA-C8-A27B-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | 5-fluorouracil | CR |
| GTF3C6 | insertion | Nonsense_Mutation | novel | c.553_554insTTACATGATGAGTATAGCTTAACA | p.His185delinsLeuThrTerTerValTerLeuAsnAsn | p.H185delinsLT**V*LNN | Q969F1 | protein_coding | TCGA-AO-A0JJ-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cyclophospamide | SD | ||
| GTF3C6 | SNV | Missense_Mutation | c.269N>C | p.Lys90Thr | p.K90T | Q969F1 | protein_coding | tolerated(0.14) | possibly_damaging(0.567) | TCGA-FU-A3HZ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR | |
| GTF3C6 | SNV | Missense_Mutation | novel | c.140N>A | p.Gly47Asp | p.G47D | Q969F1 | protein_coding | tolerated(0.1) | possibly_damaging(0.573) | TCGA-AZ-4315-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| GTF3C6 | SNV | Missense_Mutation | novel | c.120N>C | p.Glu40Asp | p.E40D | Q969F1 | protein_coding | tolerated(0.23) | benign(0.003) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR |
| GTF3C6 | SNV | Missense_Mutation | c.479N>A | p.Ser160Tyr | p.S160Y | Q969F1 | protein_coding | deleterious(0.03) | benign(0.188) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR | |
| GTF3C6 | SNV | Missense_Mutation | novel | c.387G>T | p.Lys129Asn | p.K129N | Q969F1 | protein_coding | tolerated(0.14) | benign(0.015) | TCGA-AJ-A3EK-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Chemotherapy | carboplatin | CR |
| GTF3C6 | SNV | Missense_Mutation | novel | c.580C>A | p.Leu194Ile | p.L194I | Q969F1 | protein_coding | tolerated_low_confidence(0.15) | benign(0.034) | TCGA-AJ-A3EK-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Chemotherapy | carboplatin | CR |
| GTF3C6 | SNV | Missense_Mutation | c.234N>C | p.Glu78Asp | p.E78D | Q969F1 | protein_coding | deleterious(0.02) | possibly_damaging(0.77) | TCGA-AP-A0LM-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | cisplatin | 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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