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Gene: SMG6 |
Gene summary for SMG6 |
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Gene information | Species | Human | Gene symbol | SMG6 | Gene ID | 23293 |
Gene name | SMG6 nonsense mediated mRNA decay factor | |
Gene Alias | C17orf31 | |
Cytomap | 17p13.3 | |
Gene Type | protein-coding | GO ID | GO:0000184 | UniProtAcc | Q86US8 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
23293 | SMG6 | CCI_1 | Human | Cervix | CC | 2.31e-07 | 7.50e-01 | 0.528 |
23293 | SMG6 | CCI_2 | Human | Cervix | CC | 2.29e-07 | 7.42e-01 | 0.5249 |
23293 | SMG6 | CCI_3 | Human | Cervix | CC | 1.82e-05 | 4.68e-01 | 0.516 |
23293 | SMG6 | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.96e-06 | -4.20e-01 | 0.0155 |
23293 | SMG6 | HTA11_347_2000001011 | Human | Colorectum | AD | 1.53e-04 | 4.06e-01 | -0.1954 |
23293 | SMG6 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 5.74e-11 | -4.34e-01 | 0.294 |
23293 | SMG6 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 8.84e-06 | -4.09e-01 | 0.3859 |
23293 | SMG6 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 3.02e-04 | -3.35e-01 | 0.3005 |
23293 | SMG6 | A001-C-207 | Human | Colorectum | FAP | 3.34e-02 | -2.18e-01 | 0.1278 |
23293 | SMG6 | A015-C-203 | Human | Colorectum | FAP | 2.14e-25 | -4.12e-01 | -0.1294 |
23293 | SMG6 | A015-C-204 | Human | Colorectum | FAP | 2.82e-06 | -4.37e-01 | -0.0228 |
23293 | SMG6 | A014-C-040 | Human | Colorectum | FAP | 4.10e-03 | -3.36e-01 | -0.1184 |
23293 | SMG6 | A002-C-201 | Human | Colorectum | FAP | 4.81e-09 | -3.45e-01 | 0.0324 |
23293 | SMG6 | A002-C-203 | Human | Colorectum | FAP | 1.47e-02 | -1.22e-01 | 0.2786 |
23293 | SMG6 | A001-C-119 | Human | Colorectum | FAP | 1.89e-02 | -1.57e-01 | -0.1557 |
23293 | SMG6 | A001-C-108 | Human | Colorectum | FAP | 6.42e-13 | -2.65e-01 | -0.0272 |
23293 | SMG6 | A002-C-205 | Human | Colorectum | FAP | 4.97e-18 | -3.30e-01 | -0.1236 |
23293 | SMG6 | A001-C-104 | Human | Colorectum | FAP | 9.86e-03 | -1.95e-01 | 0.0184 |
23293 | SMG6 | A015-C-006 | Human | Colorectum | FAP | 2.49e-12 | -3.36e-01 | -0.0994 |
23293 | SMG6 | A015-C-106 | Human | Colorectum | FAP | 1.27e-09 | -2.64e-01 | -0.0511 |
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∗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 |
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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 |
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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:00069139 | Cervix | CC | nucleocytoplasmic transport | 71/2311 | 301/18723 | 4.04e-08 | 2.54e-06 | 71 |
GO:00511699 | Cervix | CC | nuclear transport | 71/2311 | 301/18723 | 4.04e-08 | 2.54e-06 | 71 |
GO:00064029 | Cervix | CC | mRNA catabolic process | 56/2311 | 232/18723 | 4.81e-07 | 1.83e-05 | 56 |
GO:00064019 | Cervix | CC | RNA catabolic process | 62/2311 | 278/18723 | 2.18e-06 | 6.56e-05 | 62 |
GO:00511689 | Cervix | CC | nuclear export | 38/2311 | 154/18723 | 1.86e-05 | 3.46e-04 | 38 |
GO:00009567 | Cervix | CC | nuclear-transcribed mRNA catabolic process | 30/2311 | 112/18723 | 2.60e-05 | 4.37e-04 | 30 |
GO:00512368 | Cervix | CC | establishment of RNA localization | 39/2311 | 166/18723 | 4.76e-05 | 7.25e-04 | 39 |
GO:00506578 | Cervix | CC | nucleic acid transport | 38/2311 | 163/18723 | 7.06e-05 | 9.85e-04 | 38 |
GO:00506588 | Cervix | CC | RNA transport | 38/2311 | 163/18723 | 7.06e-05 | 9.85e-04 | 38 |
GO:00106399 | Cervix | CC | negative regulation of organelle organization | 68/2311 | 348/18723 | 7.40e-05 | 1.03e-03 | 68 |
GO:003530310 | Cervix | CC | regulation of dephosphorylation | 31/2311 | 128/18723 | 1.52e-04 | 1.83e-03 | 31 |
GO:000640310 | Cervix | CC | RNA localization | 43/2311 | 201/18723 | 2.00e-04 | 2.29e-03 | 43 |
GO:00510284 | Cervix | CC | mRNA transport | 31/2311 | 130/18723 | 2.05e-04 | 2.33e-03 | 31 |
GO:00467008 | Cervix | CC | heterocycle catabolic process | 80/2311 | 445/18723 | 3.23e-04 | 3.42e-03 | 80 |
GO:00346559 | Cervix | CC | nucleobase-containing compound catabolic process | 74/2311 | 407/18723 | 3.77e-04 | 3.88e-03 | 74 |
GO:00442709 | Cervix | CC | cellular nitrogen compound catabolic process | 79/2311 | 451/18723 | 7.80e-04 | 6.91e-03 | 79 |
GO:00510528 | Cervix | CC | regulation of DNA metabolic process | 65/2311 | 359/18723 | 9.25e-04 | 7.84e-03 | 65 |
GO:00163117 | Cervix | CC | dephosphorylation | 73/2311 | 417/18723 | 1.23e-03 | 9.87e-03 | 73 |
GO:00159318 | Cervix | CC | nucleobase-containing compound transport | 43/2311 | 222/18723 | 1.72e-03 | 1.30e-02 | 43 |
GO:00194398 | Cervix | CC | aromatic compound catabolic process | 79/2311 | 467/18723 | 2.14e-03 | 1.54e-02 | 79 |
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 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa03015 | Colorectum | AD | mRNA surveillance pathway | 35/2092 | 97/8465 | 7.95e-03 | 3.13e-02 | 2.00e-02 | 35 |
hsa030151 | Colorectum | AD | mRNA surveillance pathway | 35/2092 | 97/8465 | 7.95e-03 | 3.13e-02 | 2.00e-02 | 35 |
hsa030152 | Colorectum | FAP | mRNA surveillance pathway | 26/1404 | 97/8465 | 7.11e-03 | 2.64e-02 | 1.60e-02 | 26 |
hsa030153 | Colorectum | FAP | mRNA surveillance pathway | 26/1404 | 97/8465 | 7.11e-03 | 2.64e-02 | 1.60e-02 | 26 |
hsa0301524 | Esophagus | ESCC | mRNA surveillance pathway | 72/4205 | 97/8465 | 6.12e-07 | 4.10e-06 | 2.10e-06 | 72 |
hsa0301534 | Esophagus | ESCC | mRNA surveillance pathway | 72/4205 | 97/8465 | 6.12e-07 | 4.10e-06 | 2.10e-06 | 72 |
hsa030158 | Oral cavity | OSCC | mRNA surveillance pathway | 75/3704 | 97/8465 | 1.30e-11 | 2.01e-10 | 1.02e-10 | 75 |
hsa0301513 | Oral cavity | OSCC | mRNA surveillance pathway | 75/3704 | 97/8465 | 1.30e-11 | 2.01e-10 | 1.02e-10 | 75 |
hsa0301523 | Oral cavity | LP | mRNA surveillance pathway | 50/2418 | 97/8465 | 1.39e-06 | 1.50e-05 | 9.66e-06 | 50 |
hsa0301533 | Oral cavity | LP | mRNA surveillance pathway | 50/2418 | 97/8465 | 1.39e-06 | 1.50e-05 | 9.66e-06 | 50 |
hsa0301541 | Oral cavity | EOLP | mRNA surveillance pathway | 30/1218 | 97/8465 | 2.26e-05 | 1.20e-04 | 7.07e-05 | 30 |
hsa0301551 | Oral cavity | EOLP | mRNA surveillance pathway | 30/1218 | 97/8465 | 2.26e-05 | 1.20e-04 | 7.07e-05 | 30 |
hsa030156 | Oral cavity | NEOLP | mRNA surveillance pathway | 25/1112 | 97/8465 | 5.70e-04 | 3.18e-03 | 2.00e-03 | 25 |
hsa030157 | Oral cavity | NEOLP | mRNA surveillance pathway | 25/1112 | 97/8465 | 5.70e-04 | 3.18e-03 | 2.00e-03 | 25 |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
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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 |
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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 |
SMG6 | SNV | Missense_Mutation | c.1984N>T | p.Pro662Ser | p.P662S | Q86US8 | protein_coding | deleterious(0.02) | benign(0.045) | TCGA-Q1-A73O-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR | |
SMG6 | SNV | Missense_Mutation | rs769291662 | c.1610N>T | p.Gly537Val | p.G537V | Q86US8 | protein_coding | deleterious(0) | probably_damaging(0.976) | TCGA-VS-A8Q8-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | PD |
SMG6 | SNV | Missense_Mutation | rs758183401 | c.1778T>C | p.Leu593Pro | p.L593P | Q86US8 | protein_coding | tolerated(0.2) | possibly_damaging(0.691) | TCGA-VS-A9U6-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | PD |
SMG6 | SNV | Missense_Mutation | novel | c.1210C>T | p.Arg404Cys | p.R404C | Q86US8 | protein_coding | deleterious(0.01) | benign(0.425) | TCGA-VS-A9UZ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
SMG6 | SNV | Missense_Mutation | c.1055N>C | p.Val352Ala | p.V352A | Q86US8 | protein_coding | deleterious_low_confidence(0.04) | possibly_damaging(0.675) | TCGA-A6-5665-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | PD | |
SMG6 | SNV | Missense_Mutation | c.137G>A | p.Arg46His | p.R46H | Q86US8 | protein_coding | deleterious_low_confidence(0) | probably_damaging(0.959) | TCGA-A6-6780-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
SMG6 | SNV | Missense_Mutation | c.1823G>A | p.Gly608Asp | p.G608D | Q86US8 | protein_coding | tolerated(0.1) | probably_damaging(0.997) | TCGA-AA-3715-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | |
SMG6 | SNV | Missense_Mutation | rs371760718 | c.2237N>T | p.Ala746Val | p.A746V | Q86US8 | protein_coding | tolerated(0.08) | benign(0.125) | TCGA-AA-3952-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Unknown | Unknown | PD |
SMG6 | SNV | Missense_Mutation | c.401N>A | p.Ile134Asn | p.I134N | Q86US8 | protein_coding | tolerated_low_confidence(0.07) | benign(0.143) | TCGA-AA-3977-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
SMG6 | SNV | Missense_Mutation | rs776540084 | c.4006G>A | p.Glu1336Lys | p.E1336K | Q86US8 | protein_coding | deleterious(0.01) | possibly_damaging(0.839) | TCGA-AA-A010-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | folinic | CR |
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Related drugs of malignant transformation related genes |
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(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
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