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Gene: SNRNP40 |
Gene summary for SNRNP40 |
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Gene information | Species | Human | Gene symbol | SNRNP40 | Gene ID | 9410 |
Gene name | small nuclear ribonucleoprotein U5 subunit 40 | |
Gene Alias | 40K | |
Cytomap | 1p35.2 | |
Gene Type | protein-coding | GO ID | GO:0000375 | UniProtAcc | A0MNP2 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
9410 | SNRNP40 | LZE4T | Human | Esophagus | ESCC | 3.63e-10 | 3.65e-01 | 0.0811 |
9410 | SNRNP40 | LZE7T | Human | Esophagus | ESCC | 1.55e-13 | 9.80e-01 | 0.0667 |
9410 | SNRNP40 | LZE8T | Human | Esophagus | ESCC | 2.26e-07 | 4.12e-01 | 0.067 |
9410 | SNRNP40 | LZE20T | Human | Esophagus | ESCC | 1.12e-03 | 3.01e-01 | 0.0662 |
9410 | SNRNP40 | LZE22T | Human | Esophagus | ESCC | 4.03e-08 | 6.96e-01 | 0.068 |
9410 | SNRNP40 | LZE24T | Human | Esophagus | ESCC | 3.30e-26 | 6.72e-01 | 0.0596 |
9410 | SNRNP40 | LZE21T | Human | Esophagus | ESCC | 1.98e-03 | 3.88e-01 | 0.0655 |
9410 | SNRNP40 | LZE6T | Human | Esophagus | ESCC | 4.12e-14 | 7.64e-01 | 0.0845 |
9410 | SNRNP40 | P1T-E | Human | Esophagus | ESCC | 1.31e-09 | 5.15e-01 | 0.0875 |
9410 | SNRNP40 | P2T-E | Human | Esophagus | ESCC | 1.29e-58 | 1.04e+00 | 0.1177 |
9410 | SNRNP40 | P4T-E | Human | Esophagus | ESCC | 1.65e-35 | 9.09e-01 | 0.1323 |
9410 | SNRNP40 | P5T-E | Human | Esophagus | ESCC | 7.68e-30 | 6.51e-01 | 0.1327 |
9410 | SNRNP40 | P8T-E | Human | Esophagus | ESCC | 1.18e-25 | 5.60e-01 | 0.0889 |
9410 | SNRNP40 | P9T-E | Human | Esophagus | ESCC | 1.19e-14 | 4.33e-01 | 0.1131 |
9410 | SNRNP40 | P10T-E | Human | Esophagus | ESCC | 6.04e-58 | 9.63e-01 | 0.116 |
9410 | SNRNP40 | P11T-E | Human | Esophagus | ESCC | 1.51e-12 | 6.75e-01 | 0.1426 |
9410 | SNRNP40 | P12T-E | Human | Esophagus | ESCC | 1.59e-31 | 6.54e-01 | 0.1122 |
9410 | SNRNP40 | P15T-E | Human | Esophagus | ESCC | 5.87e-27 | 7.00e-01 | 0.1149 |
9410 | SNRNP40 | P16T-E | Human | Esophagus | ESCC | 1.41e-38 | 6.37e-01 | 0.1153 |
9410 | SNRNP40 | P17T-E | Human | Esophagus | ESCC | 1.58e-07 | 6.16e-01 | 0.1278 |
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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 |
Stomach | WIM | ![]() |
Stomach | SIM | ![]() |
Liver | NAFLD | ![]() |
Liver | Cirrhotic | ![]() |
Liver | HCC | ![]() |
∗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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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:0008380111 | Esophagus | ESCC | RNA splicing | 336/8552 | 434/18723 | 1.74e-42 | 3.67e-39 | 336 |
GO:0000375111 | Esophagus | ESCC | RNA splicing, via transesterification reactions | 248/8552 | 324/18723 | 3.05e-30 | 1.49e-27 | 248 |
GO:0000377111 | Esophagus | ESCC | RNA splicing, via transesterification reactions with bulged adenosine as nucleophile | 244/8552 | 320/18723 | 2.52e-29 | 1.07e-26 | 244 |
GO:0000398111 | Esophagus | ESCC | mRNA splicing, via spliceosome | 244/8552 | 320/18723 | 2.52e-29 | 1.07e-26 | 244 |
GO:000838012 | Liver | Cirrhotic | RNA splicing | 229/4634 | 434/18723 | 9.13e-37 | 2.86e-33 | 229 |
GO:000037512 | Liver | Cirrhotic | RNA splicing, via transesterification reactions | 175/4634 | 324/18723 | 5.95e-30 | 7.47e-27 | 175 |
GO:000037712 | Liver | Cirrhotic | RNA splicing, via transesterification reactions with bulged adenosine as nucleophile | 172/4634 | 320/18723 | 4.02e-29 | 3.60e-26 | 172 |
GO:000039812 | Liver | Cirrhotic | mRNA splicing, via spliceosome | 172/4634 | 320/18723 | 4.02e-29 | 3.60e-26 | 172 |
GO:000838022 | Liver | HCC | RNA splicing | 313/7958 | 434/18723 | 1.36e-36 | 1.73e-33 | 313 |
GO:000037522 | Liver | HCC | RNA splicing, via transesterification reactions | 228/7958 | 324/18723 | 1.47e-24 | 4.06e-22 | 228 |
GO:000037722 | Liver | HCC | RNA splicing, via transesterification reactions with bulged adenosine as nucleophile | 224/7958 | 320/18723 | 1.16e-23 | 2.62e-21 | 224 |
GO:000039822 | Liver | HCC | mRNA splicing, via spliceosome | 224/7958 | 320/18723 | 1.16e-23 | 2.62e-21 | 224 |
GO:000838020 | Oral cavity | OSCC | RNA splicing | 308/7305 | 434/18723 | 2.43e-42 | 7.70e-39 | 308 |
GO:000037519 | Oral cavity | OSCC | RNA splicing, via transesterification reactions | 225/7305 | 324/18723 | 5.20e-29 | 2.99e-26 | 225 |
GO:000037719 | Oral cavity | OSCC | RNA splicing, via transesterification reactions with bulged adenosine as nucleophile | 221/7305 | 320/18723 | 5.50e-28 | 2.18e-25 | 221 |
GO:000039819 | Oral cavity | OSCC | mRNA splicing, via spliceosome | 221/7305 | 320/18723 | 5.50e-28 | 2.18e-25 | 221 |
GO:0008380110 | Oral cavity | LP | RNA splicing | 237/4623 | 434/18723 | 1.82e-41 | 3.79e-38 | 237 |
GO:0000375110 | Oral cavity | LP | RNA splicing, via transesterification reactions | 181/4623 | 324/18723 | 1.36e-33 | 1.70e-30 | 181 |
GO:0000377110 | Oral cavity | LP | RNA splicing, via transesterification reactions with bulged adenosine as nucleophile | 179/4623 | 320/18723 | 2.48e-33 | 2.22e-30 | 179 |
GO:0000398110 | Oral cavity | LP | mRNA splicing, via spliceosome | 179/4623 | 320/18723 | 2.48e-33 | 2.22e-30 | 179 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0304027 | Esophagus | ESCC | Spliceosome | 128/4205 | 217/8465 | 3.31e-03 | 8.79e-03 | 4.50e-03 | 128 |
hsa0304037 | Esophagus | ESCC | Spliceosome | 128/4205 | 217/8465 | 3.31e-03 | 8.79e-03 | 4.50e-03 | 128 |
hsa030407 | Liver | Cirrhotic | Spliceosome | 102/2530 | 217/8465 | 5.69e-08 | 9.47e-07 | 5.84e-07 | 102 |
hsa0304012 | Liver | Cirrhotic | Spliceosome | 102/2530 | 217/8465 | 5.69e-08 | 9.47e-07 | 5.84e-07 | 102 |
hsa0304022 | Liver | HCC | Spliceosome | 122/4020 | 217/8465 | 5.55e-03 | 1.60e-02 | 8.91e-03 | 122 |
hsa0304032 | Liver | HCC | Spliceosome | 122/4020 | 217/8465 | 5.55e-03 | 1.60e-02 | 8.91e-03 | 122 |
hsa0304016 | Oral cavity | OSCC | Spliceosome | 123/3704 | 217/8465 | 7.21e-05 | 2.74e-04 | 1.40e-04 | 123 |
hsa0304017 | Oral cavity | OSCC | Spliceosome | 123/3704 | 217/8465 | 7.21e-05 | 2.74e-04 | 1.40e-04 | 123 |
hsa0304026 | Oral cavity | LP | Spliceosome | 106/2418 | 217/8465 | 1.30e-10 | 2.40e-09 | 1.55e-09 | 106 |
hsa0304036 | Oral cavity | LP | Spliceosome | 106/2418 | 217/8465 | 1.30e-10 | 2.40e-09 | 1.55e-09 | 106 |
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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 |
SNRNP40 | SNV | Missense_Mutation | c.125N>A | p.Gly42Glu | p.G42E | Q96DI7 | protein_coding | tolerated(0.18) | benign(0.026) | TCGA-A1-A0SI-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
SNRNP40 | SNV | Missense_Mutation | c.68A>T | p.Glu23Val | p.E23V | Q96DI7 | protein_coding | deleterious(0) | benign(0.261) | TCGA-EW-A1OV-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | epirubicin | SD | |
SNRNP40 | SNV | Missense_Mutation | c.67G>C | p.Glu23Gln | p.E23Q | Q96DI7 | protein_coding | tolerated(0.13) | benign(0.134) | TCGA-EW-A1OV-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | epirubicin | SD | |
SNRNP40 | SNV | Missense_Mutation | novel | c.152N>T | p.Arg51Ile | p.R51I | Q96DI7 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR |
SNRNP40 | SNV | Missense_Mutation | c.517N>A | p.Asp173Asn | p.D173N | Q96DI7 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-CA-6718-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | PD | |
SNRNP40 | SNV | Missense_Mutation | c.629N>A | p.Ser210Tyr | p.S210Y | Q96DI7 | protein_coding | deleterious(0) | probably_damaging(0.989) | TCGA-AX-A0J0-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
SNRNP40 | SNV | Missense_Mutation | novel | c.1061G>C | p.Gly354Ala | p.G354A | Q96DI7 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AX-A2IO-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Chemotherapy | carboplatin | SD |
SNRNP40 | SNV | Missense_Mutation | c.628T>G | p.Ser210Ala | p.S210A | Q96DI7 | protein_coding | tolerated(0.16) | possibly_damaging(0.758) | TCGA-B5-A11E-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
SNRNP40 | SNV | Missense_Mutation | novel | c.825N>T | p.Lys275Asn | p.K275N | Q96DI7 | protein_coding | deleterious(0.02) | benign(0.274) | TCGA-B5-A1MR-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
SNRNP40 | SNV | Missense_Mutation | rs36013190 | c.389N>G | p.Asp130Gly | p.D130G | Q96DI7 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-EO-A22R-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | 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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