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Gene: SND1 |
Gene summary for SND1 |
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Gene information | Species | Human | Gene symbol | SND1 | Gene ID | 27044 |
Gene name | staphylococcal nuclease and tudor domain containing 1 | |
Gene Alias | TDRD11 | |
Cytomap | 7q32.1 | |
Gene Type | protein-coding | GO ID | GO:0001503 | UniProtAcc | A0A140VK49 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
27044 | SND1 | CCI_2 | Human | Cervix | CC | 8.64e-03 | 6.55e-01 | 0.5249 |
27044 | SND1 | HTA11_1391_2000001011 | Human | Colorectum | AD | 9.28e-06 | 6.99e-01 | -0.059 |
27044 | SND1 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 6.80e-04 | 4.55e-01 | 0.294 |
27044 | SND1 | HTA11_99999965062_69753 | Human | Colorectum | MSI-H | 6.61e-24 | 1.46e+00 | 0.3487 |
27044 | SND1 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 3.76e-18 | 1.15e+00 | 0.281 |
27044 | SND1 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 9.93e-23 | 1.21e+00 | 0.3859 |
27044 | SND1 | A015-C-203 | Human | Colorectum | FAP | 1.12e-35 | -5.97e-01 | -0.1294 |
27044 | SND1 | A015-C-204 | Human | Colorectum | FAP | 9.28e-09 | -3.57e-01 | -0.0228 |
27044 | SND1 | A014-C-040 | Human | Colorectum | FAP | 9.61e-06 | -5.01e-01 | -0.1184 |
27044 | SND1 | A002-C-201 | Human | Colorectum | FAP | 2.28e-14 | -3.46e-01 | 0.0324 |
27044 | SND1 | A001-C-119 | Human | Colorectum | FAP | 4.93e-18 | -7.17e-01 | -0.1557 |
27044 | SND1 | A001-C-108 | Human | Colorectum | FAP | 3.74e-21 | -5.22e-01 | -0.0272 |
27044 | SND1 | A002-C-205 | Human | Colorectum | FAP | 9.20e-32 | -5.91e-01 | -0.1236 |
27044 | SND1 | A001-C-104 | Human | Colorectum | FAP | 1.07e-03 | -3.51e-01 | 0.0184 |
27044 | SND1 | A015-C-005 | Human | Colorectum | FAP | 1.04e-05 | -3.44e-01 | -0.0336 |
27044 | SND1 | A015-C-006 | Human | Colorectum | FAP | 1.96e-20 | -5.21e-01 | -0.0994 |
27044 | SND1 | A015-C-106 | Human | Colorectum | FAP | 1.30e-17 | -3.92e-01 | -0.0511 |
27044 | SND1 | A002-C-114 | Human | Colorectum | FAP | 8.47e-29 | -6.87e-01 | -0.1561 |
27044 | SND1 | A015-C-104 | Human | Colorectum | FAP | 7.76e-40 | -6.97e-01 | -0.1899 |
27044 | SND1 | A001-C-014 | Human | Colorectum | FAP | 7.20e-19 | -4.33e-01 | 0.0135 |
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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). |
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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
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:00016497 | Cervix | CC | osteoblast differentiation | 47/2311 | 229/18723 | 2.88e-04 | 3.11e-03 | 47 |
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:00015037 | Cervix | CC | ossification | 71/2311 | 408/18723 | 1.67e-03 | 1.28e-02 | 71 |
GO:00194398 | Cervix | CC | aromatic compound catabolic process | 79/2311 | 467/18723 | 2.14e-03 | 1.54e-02 | 79 |
GO:19013618 | Cervix | CC | organic cyclic compound catabolic process | 80/2311 | 495/18723 | 6.77e-03 | 3.72e-02 | 80 |
GO:0006401 | Colorectum | AD | RNA catabolic process | 102/3918 | 278/18723 | 8.64e-10 | 6.76e-08 | 102 |
GO:0044270 | Colorectum | AD | cellular nitrogen compound catabolic process | 147/3918 | 451/18723 | 3.35e-09 | 2.23e-07 | 147 |
GO:0046700 | Colorectum | AD | heterocycle catabolic process | 145/3918 | 445/18723 | 4.37e-09 | 2.84e-07 | 145 |
GO:0006402 | Colorectum | AD | mRNA catabolic process | 87/3918 | 232/18723 | 4.40e-09 | 2.84e-07 | 87 |
GO:0034655 | Colorectum | AD | nucleobase-containing compound catabolic process | 133/3918 | 407/18723 | 1.56e-08 | 9.12e-07 | 133 |
GO:0019439 | Colorectum | AD | aromatic compound catabolic process | 146/3918 | 467/18723 | 7.48e-08 | 3.84e-06 | 146 |
GO:1901361 | Colorectum | AD | organic cyclic compound catabolic process | 153/3918 | 495/18723 | 8.23e-08 | 4.18e-06 | 153 |
GO:0001649 | Colorectum | AD | osteoblast differentiation | 70/3918 | 229/18723 | 3.59e-04 | 4.18e-03 | 70 |
GO:0001503 | Colorectum | AD | ossification | 106/3918 | 408/18723 | 7.68e-03 | 4.64e-02 | 106 |
GO:00064012 | Colorectum | MSS | RNA catabolic process | 102/3467 | 278/18723 | 5.07e-13 | 1.02e-10 | 102 |
GO:00064022 | Colorectum | MSS | mRNA catabolic process | 89/3467 | 232/18723 | 8.70e-13 | 1.60e-10 | 89 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0520325 | Esophagus | ESCC | Viral carcinogenesis | 137/4205 | 204/8465 | 2.47e-07 | 1.88e-06 | 9.62e-07 | 137 |
hsa0520335 | Esophagus | ESCC | Viral carcinogenesis | 137/4205 | 204/8465 | 2.47e-07 | 1.88e-06 | 9.62e-07 | 137 |
hsa05203 | Liver | Cirrhotic | Viral carcinogenesis | 76/2530 | 204/8465 | 1.34e-02 | 4.20e-02 | 2.59e-02 | 76 |
hsa052031 | Liver | Cirrhotic | Viral carcinogenesis | 76/2530 | 204/8465 | 1.34e-02 | 4.20e-02 | 2.59e-02 | 76 |
hsa052032 | Liver | HCC | Viral carcinogenesis | 117/4020 | 204/8465 | 2.68e-03 | 8.98e-03 | 5.00e-03 | 117 |
hsa052033 | Liver | HCC | Viral carcinogenesis | 117/4020 | 204/8465 | 2.68e-03 | 8.98e-03 | 5.00e-03 | 117 |
hsa052034 | Lung | IAC | Viral carcinogenesis | 43/1053 | 204/8465 | 3.02e-04 | 3.07e-03 | 2.04e-03 | 43 |
hsa0520311 | Lung | IAC | Viral carcinogenesis | 43/1053 | 204/8465 | 3.02e-04 | 3.07e-03 | 2.04e-03 | 43 |
hsa0520321 | Lung | AIS | Viral carcinogenesis | 37/961 | 204/8465 | 2.49e-03 | 1.49e-02 | 9.55e-03 | 37 |
hsa0520331 | Lung | AIS | Viral carcinogenesis | 37/961 | 204/8465 | 2.49e-03 | 1.49e-02 | 9.55e-03 | 37 |
hsa052038 | Oral cavity | OSCC | Viral carcinogenesis | 124/3704 | 204/8465 | 5.57e-07 | 3.28e-06 | 1.67e-06 | 124 |
hsa0520314 | Oral cavity | OSCC | Viral carcinogenesis | 124/3704 | 204/8465 | 5.57e-07 | 3.28e-06 | 1.67e-06 | 124 |
hsa0520324 | Oral cavity | LP | Viral carcinogenesis | 90/2418 | 204/8465 | 1.20e-06 | 1.38e-05 | 8.89e-06 | 90 |
hsa0520334 | Oral cavity | LP | Viral carcinogenesis | 90/2418 | 204/8465 | 1.20e-06 | 1.38e-05 | 8.89e-06 | 90 |
hsa0520342 | Oral cavity | EOLP | Viral carcinogenesis | 55/1218 | 204/8465 | 1.54e-06 | 1.34e-05 | 7.92e-06 | 55 |
hsa0520351 | Oral cavity | EOLP | Viral carcinogenesis | 55/1218 | 204/8465 | 1.54e-06 | 1.34e-05 | 7.92e-06 | 55 |
hsa0520361 | Oral cavity | NEOLP | Viral carcinogenesis | 56/1112 | 204/8465 | 2.90e-08 | 5.34e-07 | 3.36e-07 | 56 |
hsa0520371 | Oral cavity | NEOLP | Viral carcinogenesis | 56/1112 | 204/8465 | 2.90e-08 | 5.34e-07 | 3.36e-07 | 56 |
hsa052037 | Prostate | BPH | Viral carcinogenesis | 69/1718 | 204/8465 | 3.40e-06 | 2.87e-05 | 1.78e-05 | 69 |
hsa0520313 | Prostate | BPH | Viral carcinogenesis | 69/1718 | 204/8465 | 3.40e-06 | 2.87e-05 | 1.78e-05 | 69 |
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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 |
SND1 | TREG | Esophagus | ADJ | LINC00324,ZNF292,MBLAC2, etc. | 3.19e-02 | ![]() |
SND1 | TREG | Esophagus | ESCC | LINC00324,ZNF292,MBLAC2, etc. | 1.33e-01 | ![]() |
∗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 |
SND1 | SNV | Missense_Mutation | c.1164G>C | p.Lys388Asn | p.K388N | Q7KZF4 | protein_coding | deleterious(0.02) | possibly_damaging(0.863) | TCGA-LP-A4AV-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
SND1 | SNV | Missense_Mutation | c.112N>G | p.Gln38Glu | p.Q38E | Q7KZF4 | protein_coding | tolerated(0.11) | benign(0.222) | TCGA-UC-A7PF-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
SND1 | SNV | Missense_Mutation | rs771628442 | c.1172N>A | p.Arg391His | p.R391H | Q7KZF4 | protein_coding | deleterious(0) | probably_damaging(0.983) | TCGA-A6-5661-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
SND1 | SNV | Missense_Mutation | rs552426263 | c.2192N>A | p.Arg731His | p.R731H | Q7KZF4 | protein_coding | tolerated(0.06) | probably_damaging(0.918) | TCGA-AA-3864-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
SND1 | SNV | Missense_Mutation | novel | c.2599N>G | p.Lys867Glu | p.K867E | Q7KZF4 | protein_coding | deleterious(0.01) | benign(0.393) | TCGA-AA-3870-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Chemotherapy | folinic | CR |
SND1 | SNV | Missense_Mutation | novel | c.747A>T | p.Lys249Asn | p.K249N | Q7KZF4 | protein_coding | deleterious(0) | probably_damaging(0.968) | TCGA-AA-3877-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
SND1 | SNV | Missense_Mutation | c.1577G>A | p.Arg526His | p.R526H | Q7KZF4 | protein_coding | deleterious(0) | probably_damaging(0.964) | TCGA-AU-6004-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
SND1 | SNV | Missense_Mutation | rs139075193 | c.2327N>A | p.Arg776His | p.R776H | Q7KZF4 | protein_coding | deleterious(0.03) | possibly_damaging(0.812) | TCGA-CK-4951-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
SND1 | SNV | Missense_Mutation | rs143989011 | c.1616N>A | p.Arg539His | p.R539H | Q7KZF4 | protein_coding | deleterious(0.01) | probably_damaging(0.996) | TCGA-G4-6320-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Chemotherapy | oxaliplatin | SD |
SND1 | SNV | Missense_Mutation | rs200994299 | c.1253C>T | p.Thr418Met | p.T418M | Q7KZF4 | protein_coding | deleterious(0.02) | possibly_damaging(0.73) | TCGA-WS-AB45-01 | Colorectum | colon adenocarcinoma | 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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