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: SAMD12

Gene summary for SAMD12

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

SAMD12

Gene ID

401474

Gene namesterile alpha motif domain containing 12
Gene AliasSAMD12
Cytomap8q24.11-q24.12
Gene Typeprotein-coding
GO ID

GO:0007154

UniProtAcc

B8ZZB7


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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
401474SAMD12CCI_1HumanCervixCC9.78e-055.82e-010.528
401474SAMD12CCI_2HumanCervixCC2.24e-081.49e+000.5249
401474SAMD12CCI_3HumanCervixCC2.03e-211.31e+000.516
401474SAMD12H2HumanCervixHSIL_HPV3.53e-052.27e-010.0632
401474SAMD12HTA11_3410_2000001011HumanColorectumAD5.27e-63-1.01e+000.0155
401474SAMD12HTA11_2487_2000001011HumanColorectumSER1.17e-20-8.70e-01-0.1808
401474SAMD12HTA11_2951_2000001011HumanColorectumAD8.55e-16-1.25e+000.0216
401474SAMD12HTA11_1938_2000001011HumanColorectumAD2.99e-05-5.25e-01-0.0811
401474SAMD12HTA11_411_2000001011HumanColorectumSER9.41e-03-4.95e-01-0.2602
401474SAMD12HTA11_2112_2000001011HumanColorectumSER5.42e-07-8.37e-01-0.2196
401474SAMD12HTA11_3361_2000001011HumanColorectumAD2.92e-30-1.10e+00-0.1207
401474SAMD12HTA11_83_2000001011HumanColorectumSER4.20e-04-4.64e-01-0.1526
401474SAMD12HTA11_696_2000001011HumanColorectumAD3.51e-24-6.13e-01-0.1464
401474SAMD12HTA11_866_2000001011HumanColorectumAD2.64e-11-5.81e-01-0.1001
401474SAMD12HTA11_2992_2000001011HumanColorectumSER2.01e-03-5.61e-01-0.1706
401474SAMD12HTA11_5212_2000001011HumanColorectumAD1.66e-13-9.57e-01-0.2061
401474SAMD12HTA11_5216_2000001011HumanColorectumSER3.93e-11-8.86e-01-0.1462
401474SAMD12HTA11_546_2000001011HumanColorectumAD6.27e-05-5.54e-01-0.0842
401474SAMD12HTA11_9341_2000001011HumanColorectumSER4.23e-06-9.99e-01-0.00410000000000005
401474SAMD12HTA11_7862_2000001011HumanColorectumAD6.37e-19-9.29e-01-0.0179
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check button Transcriptomic changes along malignancy continuum.
TissueExpression DynamicsAbbreviation
CervixThe 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.CC: Cervix cancer
HSIL_HPV: HPV-infected high-grade squamous intraepithelial lesions
N_HPV: HPV-infected normal cervix
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
EndometriumThe 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.AEH: Atypical endometrial hyperplasia
EEC: Endometrioid 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
GCThe 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.CAG: Chronic atrophic gastritis
CAG with IM: Chronic atrophic gastritis with intestinal metaplasia
CSG: Chronic superficial gastritis
GC: Gastric cancer
SIM: Severe intestinal metaplasia
WIM: Wild intestinal metaplasia
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
LungThe 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.AAH: Atypical adenomatous hyperplasia
AIS: Adenocarcinoma in situ
IAC: Invasive lung adenocarcinoma
MIA: Minimally invasive adenocarcinoma
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
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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
SAMD12SNVMissense_Mutationc.529G>Cp.Gly177Argp.G177RQ8N8I0protein_codingtolerated_low_confidence(0.58)benign(0)TCGA-AR-A24H-01Breastbreast invasive carcinomaFemale>=65I/IIHormone TherapytamoxiphenSD
SAMD12SNVMissense_Mutationrs372144053c.600N>Tp.Gln200Hisp.Q200HQ8N8I0protein_codingbenign(0.007)TCGA-FU-A3HZ-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
SAMD12SNVMissense_Mutationrs762699586c.346N>Ap.Asp116Asnp.D116NQ8N8I0protein_codingtolerated(0.07)possibly_damaging(0.831)TCGA-IR-A3LK-01Cervixcervical & endocervical cancerFemale>=65I/IIChemotherapycisplatinPD
SAMD12SNVMissense_Mutationc.445N>Gp.Leu149Valp.L149VQ8N8I0protein_codingdeleterious(0)probably_damaging(0.991)TCGA-JW-A5VL-01Cervixcervical & endocervical cancerFemale<65I/IIUnknownUnknownSD
SAMD12SNVMissense_Mutationc.216A>Tp.Lys72Asnp.K72NQ8N8I0protein_codingdeleterious(0)probably_damaging(0.982)TCGA-AA-3867-01Colorectumcolon adenocarcinomaMale>=65III/IVUnknownUnknownPD
SAMD12SNVMissense_Mutationc.68G>Tp.Gly23Valp.G23VQ8N8I0protein_codingdeleterious(0)possibly_damaging(0.82)TCGA-AA-A00N-01Colorectumcolon adenocarcinomaMale>=65I/IIUnknownUnknownPD
SAMD12SNVMissense_Mutationc.368N>Ap.Gly123Glup.G123EQ8N8I0protein_codingdeleterious(0)probably_damaging(1)TCGA-DM-A1DA-01Colorectumcolon adenocarcinomaFemale>=65III/IVUnknownUnknownSD
SAMD12SNVMissense_Mutationnovelc.479C>Ap.Ser160Tyrp.S160Yprotein_codingdeleterious_low_confidence(0)probably_damaging(0.962)TCGA-A5-A0G2-01Endometriumuterine corpus endometrioid carcinomaFemale<65III/IVUnknownUnknownSD
SAMD12SNVMissense_Mutationnovelc.577N>Gp.Ser193Alap.S193AQ8N8I0protein_codingtolerated_low_confidence(1)benign(0)TCGA-AJ-A3EL-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
SAMD12SNVMissense_Mutationrs757006538c.200N>Tp.Thr67Metp.T67MQ8N8I0protein_codingtolerated(0.07)benign(0.025)TCGA-AJ-A3EL-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
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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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