Schematic overview of the cellular and molecular mechanisms involved in the cancer progression, including the proposed cellular and molecular mechanisms in cancer cells trajectory. AT1: alveolar type 1 cells; AT2: alveolar type 2 cells; AAH: atypical adenomatous hyperplasia; AIS: adenocarcinoma in situ; MIA: minimally invasive adenocarcinoma; IA: invasive adenocarcinoma; EMT: epithelial-mesenchymal transition

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Center for Computational Systems Medicine
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Gene summary

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Malignant transformation analysis

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Malignant transformation related pathway analysis

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Cell-cell communication analysis

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Single-cell gene regulatory network inference analysis

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Somatic mutation of malignant transformation related genes

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Related drugs of malignant transformation related genes

Gene: SSNA1

Gene summary for SSNA1

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

SSNA1

Gene ID

8636

Gene nameSS nuclear autoantigen 1
Gene AliasN14
Cytomap9q34.3
Gene Typeprotein-coding
GO ID

GO:0006810

UniProtAcc

A0A024R8G6


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Malignant transformation analysis

check button 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
check button Malignant transformation involving gene list.
Entrez IDSymbolReplicatesSpeciesOrganTissueAdj P-valueLog2FCMalignancy
8636SSNA1HTA11_2487_2000001011HumanColorectumSER5.82e-083.97e-01-0.1808
8636SSNA1HTA11_1938_2000001011HumanColorectumAD5.48e-063.25e-01-0.0811
8636SSNA1HTA11_347_2000001011HumanColorectumAD2.64e-082.51e-01-0.1954
8636SSNA1HTA11_411_2000001011HumanColorectumSER2.80e-025.65e-01-0.2602
8636SSNA1HTA11_3361_2000001011HumanColorectumAD4.08e-063.34e-01-0.1207
8636SSNA1HTA11_696_2000001011HumanColorectumAD3.87e-062.37e-01-0.1464
8636SSNA1HTA11_1391_2000001011HumanColorectumAD8.47e-073.08e-01-0.059
8636SSNA1HTA11_866_3004761011HumanColorectumAD5.31e-042.03e-010.096
8636SSNA1HTA11_8622_2000001021HumanColorectumSER4.96e-022.91e-010.0528
8636SSNA1HTA11_10623_2000001011HumanColorectumAD5.37e-063.68e-01-0.0177
8636SSNA1HTA11_10711_2000001011HumanColorectumAD1.43e-032.67e-010.0338
8636SSNA1HTA11_7696_3000711011HumanColorectumAD5.80e-092.50e-010.0674
8636SSNA1HTA11_99999970781_79442HumanColorectumMSS3.28e-082.88e-010.294
8636SSNA1HTA11_99999965062_69753HumanColorectumMSI-H2.30e-028.52e-010.3487
8636SSNA1HTA11_99999965104_69814HumanColorectumMSS2.59e-062.84e-010.281
8636SSNA1HTA11_99999971662_82457HumanColorectumMSS1.74e-133.35e-010.3859
8636SSNA1HTA11_99999974143_84620HumanColorectumMSS6.50e-052.16e-010.3005
8636SSNA1LZE2THumanEsophagusESCC2.97e-098.22e-010.082
8636SSNA1LZE4THumanEsophagusESCC4.94e-184.79e-010.0811
8636SSNA1LZE5THumanEsophagusESCC3.38e-055.09e-010.0514
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check button Transcriptomic changes along malignancy continuum.
TissueExpression DynamicsAbbreviation
Colorectum (GSE201348)The image shows the 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.FAP: Familial adenomatous polyposis
CRC: Colorectal cancer
Colorectum (HTA11)The image shows the 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.AD: Adenomas
SER: Sessile serrated lesions
MSI-H: Microsatellite-high colorectal cancer
MSS: Microsatellite stable colorectal cancer
EsophagusThe image shows the 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.ESCC: Esophageal squamous cell carcinoma
HGIN: High-grade intraepithelial neoplasias
LGIN: Low-grade intraepithelial neoplasias
LiverThe image shows the 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.HCC: Hepatocellular carcinoma
NAFLD: Non-alcoholic fatty liver disease
Oral CavityThe image shows the 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.EOLP: Erosive Oral lichen planus
LP: leukoplakia
NEOLP: Non-erosive oral lichen planus
OSCC: Oral squamous cell carcinoma
ProstateThe image shows the 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.BPH: Benign Prostatic Hyperplasia
SkinThe image shows the 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.AK: Actinic keratosis
cSCC: Cutaneous squamous cell carcinoma
SCCIS:squamous cell carcinoma in situ
ThyroidThe image shows the 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.ATC: Anaplastic thyroid cancer
HT: Hashimoto's thyroiditis
PTC: Papillary thyroid cancer
∗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

check buttonFind out the enriched GO biological processes and KEGG pathways involved in transition from healthy to precancer to cancer
check button Figure of enriched GO biological processes.
TissueDisease StageEnriched GO biological Processes
ColorectumADGO analysis - Figure of enriched GO biological processes: 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).
ColorectumSERGO analysis - Figure of enriched GO biological processes: 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).
ColorectumMSSGO analysis - Figure of enriched GO biological processes: 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).
ColorectumMSI-HGO analysis - Figure of enriched GO biological processes: 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).
ColorectumFAPGO analysis - Figure of enriched GO biological processes: 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).
∗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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check button Enriched GO biological processes.
GO IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustCount
GO:0030705ColorectumADcytoskeleton-dependent intracellular transport60/3918195/187237.56e-047.59e-0360
GO:00307051ColorectumSERcytoskeleton-dependent intracellular transport44/2897195/187235.53e-034.09e-0244
GO:00307052ColorectumMSScytoskeleton-dependent intracellular transport52/3467195/187233.07e-032.34e-0252
GO:00315035EsophagusHGINprotein-containing complex localization50/2587220/187232.18e-043.98e-0350
GO:003070517EsophagusHGINcytoskeleton-dependent intracellular transport45/2587195/187233.07e-045.15e-0345
GO:00109707EsophagusHGINtransport along microtubule35/2587155/187232.01e-032.12e-0235
GO:003070518EsophagusESCCcytoskeleton-dependent intracellular transport133/8552195/187231.48e-104.27e-09133
GO:001097013EsophagusESCCtransport along microtubule107/8552155/187233.17e-096.80e-08107
GO:003150314EsophagusESCCprotein-containing complex localization139/8552220/187231.14e-071.85e-06139
GO:00991114EsophagusESCCmicrotubule-based transport115/8552190/187232.54e-052.15e-04115
GO:003070511LiverCirrhoticcytoskeleton-dependent intracellular transport68/4634195/187239.54e-046.77e-0368
GO:0031503LiverCirrhoticprotein-containing complex localization75/4634220/187231.13e-037.73e-0375
GO:00109701LiverCirrhotictransport along microtubule52/4634155/187238.42e-033.91e-0252
GO:00315031LiverHCCprotein-containing complex localization129/7958220/187239.38e-071.42e-05129
GO:003070521LiverHCCcytoskeleton-dependent intracellular transport111/7958195/187233.25e-053.28e-04111
GO:00109702LiverHCCtransport along microtubule90/7958155/187236.49e-055.92e-0490
GO:003070510Oral cavityOSCCcytoskeleton-dependent intracellular transport113/7305195/187236.03e-081.09e-06113
GO:00315034Oral cavityOSCCprotein-containing complex localization123/7305220/187232.54e-074.00e-06123
GO:00109706Oral cavityOSCCtransport along microtubule88/7305155/187235.35e-066.02e-0588
GO:00991113Oral cavityOSCCmicrotubule-based transport96/7305190/187237.92e-044.27e-0396
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
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Cell-cell communication analysis

check buttonIdentification of potential cell-cell interactions between two cell types and their ligand-receptor pairs for different disease states
LigandReceptorLRpairPathwayTissueDisease Stage
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Single-cell gene regulatory network inference analysis

check buttonFind out the significant the regulons (TFs) and the target genes of each regulon across cell types for different disease states
TFCell TypeTissueDisease StageTarget GeneRSSRegulon 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

check buttonAnnotation of somatic variants for genes involved in malignant transformation
Hugo SymbolVariant ClassVariant ClassificationdbSNP RSHGVScHGVSpHGVSp ShortSWISSPROTBIOTYPESIFTPolyPhenTumor Sample BarcodeTissueHistologySexAgeStageTherapy TypesDrugsOutcome
SSNA1SNVMissense_Mutationc.154N>Ap.Glu52Lysp.E52KO43805protein_codingtolerated(0.2)benign(0.073)TCGA-BH-A0W5-01Breastbreast invasive carcinomaFemale>=65I/IIHormone TherapyarimidexCR
SSNA1SNVMissense_Mutationc.106G>Cp.Glu36Glnp.E36QO43805protein_codingtolerated(0.1)possibly_damaging(0.9)TCGA-C8-A26Y-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
SSNA1SNVMissense_Mutationc.295N>Ap.Glu99Lysp.E99KO43805protein_codingdeleterious(0)possibly_damaging(0.67)TCGA-EK-A3GJ-01Cervixcervical & endocervical cancerFemale<65I/IIUnknownUnknownSD
SSNA1SNVMissense_Mutationnovelc.163N>Ap.Ala55Thrp.A55TO43805protein_codingtolerated(0.29)possibly_damaging(0.462)TCGA-DF-A2KU-01Endometriumuterine corpus endometrioid carcinomaFemaleUnknownI/IIUnknownUnknownSD
SSNA1SNVMissense_Mutationnovelc.55A>Gp.Ile19Valp.I19VO43805protein_codingdeleterious(0.05)benign(0.048)TCGA-DD-AACZ-01Liverliver hepatocellular carcinomaFemale<65I/IIUnknownUnknownPD
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Related drugs of malignant transformation related genes

check buttonIdentification of chemicals and drugs interact with genes involved in malignant transfromation
(DGIdb 4.0)
Entrez IDSymbolCategoryInteraction TypesDrug Claim NameDrug NamePMIDs
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