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Gene: SSNA1 |
Gene summary for SSNA1 |
Gene summary. |
Gene information | Species | Human | Gene symbol | SSNA1 | Gene ID | 8636 |
Gene name | SS nuclear autoantigen 1 | |
Gene Alias | N14 | |
Cytomap | 9q34.3 | |
Gene Type | protein-coding | GO ID | GO:0006810 | UniProtAcc | A0A024R8G6 |
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Malignant transformation analysis |
Identification of the aberrant gene expression in precancerous and cancerous lesions by comparing the gene expression of stem-like cells in diseased tissues with normal stem cells |
Malignant transformation involving gene list. |
Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
8636 | SSNA1 | HTA11_2487_2000001011 | Human | Colorectum | SER | 5.82e-08 | 3.97e-01 | -0.1808 |
8636 | SSNA1 | HTA11_1938_2000001011 | Human | Colorectum | AD | 5.48e-06 | 3.25e-01 | -0.0811 |
8636 | SSNA1 | HTA11_347_2000001011 | Human | Colorectum | AD | 2.64e-08 | 2.51e-01 | -0.1954 |
8636 | SSNA1 | HTA11_411_2000001011 | Human | Colorectum | SER | 2.80e-02 | 5.65e-01 | -0.2602 |
8636 | SSNA1 | HTA11_3361_2000001011 | Human | Colorectum | AD | 4.08e-06 | 3.34e-01 | -0.1207 |
8636 | SSNA1 | HTA11_696_2000001011 | Human | Colorectum | AD | 3.87e-06 | 2.37e-01 | -0.1464 |
8636 | SSNA1 | HTA11_1391_2000001011 | Human | Colorectum | AD | 8.47e-07 | 3.08e-01 | -0.059 |
8636 | SSNA1 | HTA11_866_3004761011 | Human | Colorectum | AD | 5.31e-04 | 2.03e-01 | 0.096 |
8636 | SSNA1 | HTA11_8622_2000001021 | Human | Colorectum | SER | 4.96e-02 | 2.91e-01 | 0.0528 |
8636 | SSNA1 | HTA11_10623_2000001011 | Human | Colorectum | AD | 5.37e-06 | 3.68e-01 | -0.0177 |
8636 | SSNA1 | HTA11_10711_2000001011 | Human | Colorectum | AD | 1.43e-03 | 2.67e-01 | 0.0338 |
8636 | SSNA1 | HTA11_7696_3000711011 | Human | Colorectum | AD | 5.80e-09 | 2.50e-01 | 0.0674 |
8636 | SSNA1 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 3.28e-08 | 2.88e-01 | 0.294 |
8636 | SSNA1 | HTA11_99999965062_69753 | Human | Colorectum | MSI-H | 2.30e-02 | 8.52e-01 | 0.3487 |
8636 | SSNA1 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 2.59e-06 | 2.84e-01 | 0.281 |
8636 | SSNA1 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 1.74e-13 | 3.35e-01 | 0.3859 |
8636 | SSNA1 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 6.50e-05 | 2.16e-01 | 0.3005 |
8636 | SSNA1 | LZE2T | Human | Esophagus | ESCC | 2.97e-09 | 8.22e-01 | 0.082 |
8636 | SSNA1 | LZE4T | Human | Esophagus | ESCC | 4.94e-18 | 4.79e-01 | 0.0811 |
8636 | SSNA1 | LZE5T | Human | Esophagus | ESCC | 3.38e-05 | 5.09e-01 | 0.0514 |
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Transcriptomic changes along malignancy continuum. |
∗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 |
Find out the enriched GO biological processes and KEGG pathways involved in transition from healthy to precancer to cancer |
Figure of enriched GO biological processes. |
Tissue | Disease Stage | Enriched GO biological Processes |
Breast | Precancer | |
Breast | IDC | |
Breast | DCIS | |
Cervix | CC | |
Cervix | HSIL_HPV |
∗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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Enriched GO biological processes. |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:0030705 | Colorectum | AD | cytoskeleton-dependent intracellular transport | 60/3918 | 195/18723 | 7.56e-04 | 7.59e-03 | 60 |
GO:00307051 | Colorectum | SER | cytoskeleton-dependent intracellular transport | 44/2897 | 195/18723 | 5.53e-03 | 4.09e-02 | 44 |
GO:00307052 | Colorectum | MSS | cytoskeleton-dependent intracellular transport | 52/3467 | 195/18723 | 3.07e-03 | 2.34e-02 | 52 |
GO:00315035 | Esophagus | HGIN | protein-containing complex localization | 50/2587 | 220/18723 | 2.18e-04 | 3.98e-03 | 50 |
GO:003070517 | Esophagus | HGIN | cytoskeleton-dependent intracellular transport | 45/2587 | 195/18723 | 3.07e-04 | 5.15e-03 | 45 |
GO:00109707 | Esophagus | HGIN | transport along microtubule | 35/2587 | 155/18723 | 2.01e-03 | 2.12e-02 | 35 |
GO:003070518 | Esophagus | ESCC | cytoskeleton-dependent intracellular transport | 133/8552 | 195/18723 | 1.48e-10 | 4.27e-09 | 133 |
GO:001097013 | Esophagus | ESCC | transport along microtubule | 107/8552 | 155/18723 | 3.17e-09 | 6.80e-08 | 107 |
GO:003150314 | Esophagus | ESCC | protein-containing complex localization | 139/8552 | 220/18723 | 1.14e-07 | 1.85e-06 | 139 |
GO:00991114 | Esophagus | ESCC | microtubule-based transport | 115/8552 | 190/18723 | 2.54e-05 | 2.15e-04 | 115 |
GO:003070511 | Liver | Cirrhotic | cytoskeleton-dependent intracellular transport | 68/4634 | 195/18723 | 9.54e-04 | 6.77e-03 | 68 |
GO:0031503 | Liver | Cirrhotic | protein-containing complex localization | 75/4634 | 220/18723 | 1.13e-03 | 7.73e-03 | 75 |
GO:00109701 | Liver | Cirrhotic | transport along microtubule | 52/4634 | 155/18723 | 8.42e-03 | 3.91e-02 | 52 |
GO:00315031 | Liver | HCC | protein-containing complex localization | 129/7958 | 220/18723 | 9.38e-07 | 1.42e-05 | 129 |
GO:003070521 | Liver | HCC | cytoskeleton-dependent intracellular transport | 111/7958 | 195/18723 | 3.25e-05 | 3.28e-04 | 111 |
GO:00109702 | Liver | HCC | transport along microtubule | 90/7958 | 155/18723 | 6.49e-05 | 5.92e-04 | 90 |
GO:003070510 | Oral cavity | OSCC | cytoskeleton-dependent intracellular transport | 113/7305 | 195/18723 | 6.03e-08 | 1.09e-06 | 113 |
GO:00315034 | Oral cavity | OSCC | protein-containing complex localization | 123/7305 | 220/18723 | 2.54e-07 | 4.00e-06 | 123 |
GO:00109706 | Oral cavity | OSCC | transport along microtubule | 88/7305 | 155/18723 | 5.35e-06 | 6.02e-05 | 88 |
GO:00991113 | Oral cavity | OSCC | microtubule-based transport | 96/7305 | 190/18723 | 7.92e-04 | 4.27e-03 | 96 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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Cell-cell communication analysis |
Identification of potential cell-cell interactions between two cell types and their ligand-receptor pairs for different disease states |
Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
Find out the significant the regulons (TFs) and the target genes of each regulon across cell types for different disease states |
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 |
Annotation of somatic variants for genes involved in malignant transformation |
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 |
SSNA1 | SNV | Missense_Mutation | c.154N>A | p.Glu52Lys | p.E52K | O43805 | protein_coding | tolerated(0.2) | benign(0.073) | TCGA-BH-A0W5-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | arimidex | CR | |
SSNA1 | SNV | Missense_Mutation | c.106G>C | p.Glu36Gln | p.E36Q | O43805 | protein_coding | tolerated(0.1) | possibly_damaging(0.9) | TCGA-C8-A26Y-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
SSNA1 | SNV | Missense_Mutation | c.295N>A | p.Glu99Lys | p.E99K | O43805 | protein_coding | deleterious(0) | possibly_damaging(0.67) | TCGA-EK-A3GJ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
SSNA1 | SNV | Missense_Mutation | novel | c.163N>A | p.Ala55Thr | p.A55T | O43805 | protein_coding | tolerated(0.29) | possibly_damaging(0.462) | TCGA-DF-A2KU-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | Unknown | I/II | Unknown | Unknown | SD |
SSNA1 | SNV | Missense_Mutation | novel | c.55A>G | p.Ile19Val | p.I19V | O43805 | protein_coding | deleterious(0.05) | benign(0.048) | TCGA-DD-AACZ-01 | Liver | liver hepatocellular carcinoma | Female | <65 | I/II | Unknown | Unknown | PD |
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Related drugs of malignant transformation related genes |
Identification of chemicals and drugs interact with genes involved in malignant transfromation |
(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
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