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Gene: SMG5 |
Gene summary for SMG5 |
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Gene information | Species | Human | Gene symbol | SMG5 | Gene ID | 23381 |
Gene name | SMG5 nonsense mediated mRNA decay factor | |
Gene Alias | EST1B | |
Cytomap | 1q22 | |
Gene Type | protein-coding | GO ID | GO:0000184 | UniProtAcc | Q9UPR3 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
23381 | SMG5 | LZE2T | Human | Esophagus | ESCC | 6.09e-05 | 4.44e-01 | 0.082 |
23381 | SMG5 | LZE4T | Human | Esophagus | ESCC | 5.04e-04 | 1.32e-01 | 0.0811 |
23381 | SMG5 | LZE7T | Human | Esophagus | ESCC | 7.03e-12 | 5.35e-01 | 0.0667 |
23381 | SMG5 | LZE8T | Human | Esophagus | ESCC | 1.25e-03 | 1.08e-01 | 0.067 |
23381 | SMG5 | LZE20T | Human | Esophagus | ESCC | 1.01e-03 | 1.27e-01 | 0.0662 |
23381 | SMG5 | LZE22T | Human | Esophagus | ESCC | 2.19e-04 | 4.20e-01 | 0.068 |
23381 | SMG5 | LZE24T | Human | Esophagus | ESCC | 1.04e-17 | 4.25e-01 | 0.0596 |
23381 | SMG5 | LZE21T | Human | Esophagus | ESCC | 1.17e-07 | 3.38e-01 | 0.0655 |
23381 | SMG5 | LZE6T | Human | Esophagus | ESCC | 1.12e-03 | 1.18e-01 | 0.0845 |
23381 | SMG5 | P1T-E | Human | Esophagus | ESCC | 1.87e-09 | 4.24e-01 | 0.0875 |
23381 | SMG5 | P2T-E | Human | Esophagus | ESCC | 4.29e-28 | 4.14e-01 | 0.1177 |
23381 | SMG5 | P4T-E | Human | Esophagus | ESCC | 1.51e-09 | 2.46e-01 | 0.1323 |
23381 | SMG5 | P5T-E | Human | Esophagus | ESCC | 3.25e-27 | 4.35e-01 | 0.1327 |
23381 | SMG5 | P8T-E | Human | Esophagus | ESCC | 3.30e-20 | 3.25e-01 | 0.0889 |
23381 | SMG5 | P9T-E | Human | Esophagus | ESCC | 4.69e-22 | 4.46e-01 | 0.1131 |
23381 | SMG5 | P10T-E | Human | Esophagus | ESCC | 2.15e-31 | 5.31e-01 | 0.116 |
23381 | SMG5 | P11T-E | Human | Esophagus | ESCC | 1.04e-14 | 5.15e-01 | 0.1426 |
23381 | SMG5 | P12T-E | Human | Esophagus | ESCC | 4.27e-27 | 2.61e-01 | 0.1122 |
23381 | SMG5 | P15T-E | Human | Esophagus | ESCC | 5.01e-30 | 5.04e-01 | 0.1149 |
23381 | SMG5 | P16T-E | Human | Esophagus | ESCC | 3.36e-19 | 3.40e-01 | 0.1153 |
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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:003220415 | Oral cavity | LP | regulation of telomere maintenance | 36/4623 | 80/18723 | 5.80e-05 | 7.94e-04 | 36 |
GO:003304415 | Oral cavity | LP | regulation of chromosome organization | 70/4623 | 187/18723 | 6.89e-05 | 9.22e-04 | 70 |
GO:000700416 | Oral cavity | LP | telomere maintenance via telomerase | 32/4623 | 69/18723 | 7.20e-05 | 9.49e-04 | 32 |
GO:001083317 | Oral cavity | LP | telomere maintenance via telomere lengthening | 36/4623 | 81/18723 | 7.97e-05 | 1.03e-03 | 36 |
GO:000640611 | Oral cavity | LP | mRNA export from nucleus | 28/4623 | 59/18723 | 1.22e-04 | 1.43e-03 | 28 |
GO:007142711 | Oral cavity | LP | mRNA-containing ribonucleoprotein complex export from nucleus | 28/4623 | 59/18723 | 1.22e-04 | 1.43e-03 | 28 |
GO:003220013 | Oral cavity | LP | telomere organization | 59/4623 | 159/18723 | 3.21e-04 | 3.25e-03 | 59 |
GO:000018413 | Oral cavity | LP | nuclear-transcribed mRNA catabolic process, nonsense-mediated decay | 19/4623 | 37/18723 | 4.25e-04 | 4.08e-03 | 19 |
GO:000627815 | Oral cavity | LP | RNA-dependent DNA biosynthetic process | 32/4623 | 75/18723 | 4.78e-04 | 4.49e-03 | 32 |
GO:190435615 | Oral cavity | LP | regulation of telomere maintenance via telomere lengthening | 25/4623 | 61/18723 | 3.68e-03 | 2.44e-02 | 25 |
GO:003221015 | Oral cavity | LP | regulation of telomere maintenance via telomerase | 22/4623 | 53/18723 | 5.20e-03 | 3.19e-02 | 22 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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 |
hsa0301521 | Liver | HCC | mRNA surveillance pathway | 66/4020 | 97/8465 | 3.16e-05 | 1.88e-04 | 1.04e-04 | 66 |
hsa0301531 | Liver | HCC | mRNA surveillance pathway | 66/4020 | 97/8465 | 3.16e-05 | 1.88e-04 | 1.04e-04 | 66 |
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 |
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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 |
SMG5 | SNV | Missense_Mutation | c.235G>C | p.Glu79Gln | p.E79Q | Q9UPR3 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AC-A23H-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD | |
SMG5 | SNV | Missense_Mutation | novel | c.1798N>C | p.Thr600Pro | p.T600P | Q9UPR3 | protein_coding | tolerated(0.58) | benign(0) | TCGA-AR-A24O-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | cytoxan | PD |
SMG5 | SNV | Missense_Mutation | novel | c.1291N>A | p.Glu431Lys | p.E431K | Q9UPR3 | protein_coding | tolerated(0.4) | benign(0) | TCGA-BH-A0HP-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Chemotherapy | doxorubicin | SD |
SMG5 | SNV | Missense_Mutation | c.842N>A | p.Cys281Tyr | p.C281Y | Q9UPR3 | protein_coding | tolerated(0.08) | possibly_damaging(0.53) | TCGA-BH-A202-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | carboplatin | CR | |
SMG5 | SNV | Missense_Mutation | c.1225N>G | p.Pro409Ala | p.P409A | Q9UPR3 | protein_coding | tolerated(0.12) | benign(0.338) | TCGA-C8-A134-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | 5-fluorouracil | CR | |
SMG5 | SNV | Missense_Mutation | c.1310N>A | p.Pro437His | p.P437H | Q9UPR3 | protein_coding | tolerated(0.12) | possibly_damaging(0.541) | TCGA-C8-A27B-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | 5-fluorouracil | CR | |
SMG5 | SNV | Missense_Mutation | novel | c.665C>A | p.Ala222Glu | p.A222E | Q9UPR3 | protein_coding | deleterious(0.01) | possibly_damaging(0.9) | TCGA-D8-A27M-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | methotrexate+5 | SD |
SMG5 | SNV | Missense_Mutation | novel | c.1204N>C | p.Glu402Gln | p.E402Q | Q9UPR3 | protein_coding | deleterious(0.01) | possibly_damaging(0.905) | TCGA-D8-A73U-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | tamoxiphen | SD |
SMG5 | SNV | Missense_Mutation | rs866820693 | c.839N>A | p.Arg280Gln | p.R280Q | Q9UPR3 | protein_coding | tolerated(0.36) | benign(0.121) | TCGA-EW-A1IW-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | aromasin | SD |
SMG5 | insertion | Frame_Shift_Ins | novel | c.1356_1357insGCTAATTTTTGTATTTTTAGTAGAGA | p.Phe453AlafsTer31 | p.F453Afs*31 | Q9UPR3 | protein_coding | TCGA-BH-A0HF-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | arimidex | SD |
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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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