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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:00105874 | Thyroid | PTC | miRNA catabolic process | 9/5968 | 12/18723 | 2.72e-03 | 1.36e-02 | 9 |
GO:000640127 | Thyroid | ATC | RNA catabolic process | 165/6293 | 278/18723 | 8.45e-19 | 1.14e-16 | 165 |
GO:000640227 | Thyroid | ATC | mRNA catabolic process | 140/6293 | 232/18723 | 5.08e-17 | 4.65e-15 | 140 |
GO:003465525 | Thyroid | ATC | nucleobase-containing compound catabolic process | 217/6293 | 407/18723 | 1.20e-16 | 1.04e-14 | 217 |
GO:004670024 | Thyroid | ATC | heterocycle catabolic process | 228/6293 | 445/18723 | 7.26e-15 | 4.50e-13 | 228 |
GO:004427025 | Thyroid | ATC | cellular nitrogen compound catabolic process | 229/6293 | 451/18723 | 2.25e-14 | 1.27e-12 | 229 |
GO:003466021 | Thyroid | ATC | ncRNA metabolic process | 240/6293 | 485/18723 | 2.03e-13 | 9.91e-12 | 240 |
GO:001943924 | Thyroid | ATC | aromatic compound catabolic process | 232/6293 | 467/18723 | 3.05e-13 | 1.44e-11 | 232 |
GO:000150332 | Thyroid | ATC | ossification | 206/6293 | 408/18723 | 9.23e-13 | 3.95e-11 | 206 |
GO:190136124 | Thyroid | ATC | organic cyclic compound catabolic process | 238/6293 | 495/18723 | 1.12e-11 | 4.12e-10 | 238 |
GO:000164932 | Thyroid | ATC | osteoblast differentiation | 122/6293 | 229/18723 | 6.04e-10 | 1.60e-08 | 122 |
GO:009050112 | Thyroid | ATC | RNA phosphodiester bond hydrolysis | 76/6293 | 152/18723 | 2.07e-05 | 1.86e-04 | 76 |
GO:003466111 | Thyroid | ATC | ncRNA catabolic process | 27/6293 | 43/18723 | 8.44e-05 | 6.30e-04 | 27 |
GO:001058615 | Thyroid | ATC | miRNA metabolic process | 19/6293 | 27/18723 | 1.04e-04 | 7.48e-04 | 19 |
GO:001058713 | Thyroid | ATC | miRNA catabolic process | 9/6293 | 12/18723 | 4.10e-03 | 1.75e-02 | 9 |
GO:009030511 | Thyroid | ATC | nucleic acid phosphodiester bond hydrolysis | 107/6293 | 261/18723 | 7.21e-03 | 2.84e-02 | 107 |
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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.2662N>T | p.Ala888Ser | p.A888S | Q7KZF4 | protein_coding | tolerated(0.8) | benign(0.013) | TCGA-A2-A0ST-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | SD | |
SND1 | SNV | Missense_Mutation | c.2149N>T | p.Asp717Tyr | p.D717Y | Q7KZF4 | protein_coding | deleterious(0.04) | possibly_damaging(0.686) | TCGA-D8-A1JA-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | adriamycin | PD | |
SND1 | SNV | Missense_Mutation | c.829N>G | p.Ile277Val | p.I277V | Q7KZF4 | protein_coding | tolerated(0.38) | benign(0.074) | TCGA-E2-A14R-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | PD | |
SND1 | deletion | Frame_Shift_Del | c.752delT | p.Phe251SerfsTer39 | p.F251Sfs*39 | Q7KZF4 | protein_coding | TCGA-A8-A09Z-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |||
SND1 | insertion | In_Frame_Ins | novel | c.2711_2712insTCATTCCTTTTTATGGCTAAGGGAGAGCTCTGG | p.Asp904_Glu905insHisSerPheLeuTrpLeuArgGluSerSerGly | p.D904_E905insHSFLWLRESSG | Q7KZF4 | protein_coding | TCGA-AO-A0J4-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD | ||
SND1 | insertion | Frame_Shift_Ins | novel | c.2713_2714insCTTACCT | p.Glu905AlafsTer42 | p.E905Afs*42 | Q7KZF4 | protein_coding | TCGA-AO-A0J4-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD | ||
SND1 | SNV | Missense_Mutation | novel | c.2060T>G | p.Val687Gly | p.V687G | Q7KZF4 | protein_coding | deleterious(0) | probably_damaging(0.955) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
SND1 | SNV | Missense_Mutation | c.241N>G | p.Pro81Ala | p.P81A | Q7KZF4 | protein_coding | deleterious(0.04) | benign(0.012) | TCGA-C5-A1BQ-01 | Cervix | cervical & endocervical cancer | Female | >=65 | III/IV | Chemotherapy | cisplatin | CR | |
SND1 | SNV | Missense_Mutation | c.112N>G | p.Gln38Glu | p.Q38E | Q7KZF4 | protein_coding | tolerated(0.11) | benign(0.222) | TCGA-IR-A3LH-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR | |
SND1 | SNV | Missense_Mutation | c.835N>T | p.His279Tyr | p.H279Y | Q7KZF4 | protein_coding | deleterious(0.04) | possibly_damaging(0.737) | TCGA-JW-A5VL-01 | Cervix | cervical & endocervical cancer | 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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