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: SYNC

Gene summary for SYNC

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

SYNC

Gene ID

81493

Gene namesyncoilin, intermediate filament protein
Gene AliasSYNC1
Cytomap1p35.1
Gene Typeprotein-coding
GO ID

GO:0008150

UniProtAcc

Q9H7C4


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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
81493SYNCLZE4THumanEsophagusESCC2.17e-072.43e-010.0811
81493SYNCLZE5THumanEsophagusESCC1.55e-044.48e-010.0514
81493SYNCLZE7THumanEsophagusESCC1.96e-161.00e+000.0667
81493SYNCLZE8THumanEsophagusESCC2.34e-052.78e-010.067
81493SYNCLZE20THumanEsophagusESCC2.20e-082.94e-010.0662
81493SYNCLZE22THumanEsophagusESCC1.18e-106.34e-010.068
81493SYNCLZE24THumanEsophagusESCC1.06e-226.11e-010.0596
81493SYNCLZE6THumanEsophagusESCC2.09e-093.93e-010.0845
81493SYNCP2T-EHumanEsophagusESCC1.08e-051.03e-010.1177
81493SYNCP10T-EHumanEsophagusESCC3.29e-132.17e-010.116
81493SYNCP16T-EHumanEsophagusESCC1.88e-023.11e-020.1153
81493SYNCP21T-EHumanEsophagusESCC1.50e-039.06e-020.1617
81493SYNCP57T-EHumanEsophagusESCC1.22e-054.68e-020.0926
81493SYNCP79T-EHumanEsophagusESCC2.86e-054.35e-020.1154
81493SYNCP130T-EHumanEsophagusESCC5.72e-192.99e-010.1676
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check button Transcriptomic changes along malignancy continuum.
TissueExpression DynamicsAbbreviation
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
∗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:004348818EsophagusHGINregulation of mRNA stability37/2587158/187237.53e-049.97e-0337
GO:004348718EsophagusHGINregulation of RNA stability39/2587170/187238.42e-041.09e-0239
GO:190236915EsophagusHGINnegative regulation of RNA catabolic process21/258775/187239.58e-041.21e-0221
GO:190237314EsophagusHGINnegative regulation of mRNA catabolic process17/258763/187234.29e-033.82e-0217
GO:000150316EsophagusHGINossification75/2587408/187235.49e-034.49e-0275
GO:0008380111EsophagusESCCRNA splicing336/8552434/187231.74e-423.67e-39336
GO:0000375111EsophagusESCCRNA splicing, via transesterification reactions248/8552324/187233.05e-301.49e-27248
GO:0000377111EsophagusESCCRNA splicing, via transesterification reactions with bulged adenosine as nucleophile244/8552320/187232.52e-291.07e-26244
GO:0000398111EsophagusESCCmRNA splicing, via spliceosome244/8552320/187232.52e-291.07e-26244
GO:1903311110EsophagusESCCregulation of mRNA metabolic process210/8552288/187233.25e-215.56e-19210
GO:0006401110EsophagusESCCRNA catabolic process204/8552278/187233.39e-215.66e-19204
GO:0034655110EsophagusESCCnucleobase-containing compound catabolic process272/8552407/187232.92e-182.90e-16272
GO:0006402110EsophagusESCCmRNA catabolic process170/8552232/187238.70e-188.00e-16170
GO:0006417111EsophagusESCCregulation of translation304/8552468/187231.53e-171.33e-15304
GO:004670018EsophagusESCCheterocycle catabolic process286/8552445/187231.12e-157.47e-14286
GO:004427019EsophagusESCCcellular nitrogen compound catabolic process288/8552451/187233.03e-151.79e-13288
GO:001943918EsophagusESCCaromatic compound catabolic process295/8552467/187231.09e-145.98e-13295
GO:190136118EsophagusESCCorganic cyclic compound catabolic process307/8552495/187239.99e-144.80e-12307
GO:0009895111EsophagusESCCnegative regulation of catabolic process201/8552320/187233.88e-101.05e-08201
GO:006101319EsophagusESCCregulation of mRNA catabolic process115/8552166/187235.90e-101.49e-08115
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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
SYNCSNVMissense_Mutationc.809N>Cp.Phe270Serp.F270SQ9H7C4protein_codingtolerated(0.19)probably_damaging(0.977)TCGA-A6-3809-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownSD
SYNCSNVMissense_Mutationc.1193T>Cp.Leu398Prop.L398PQ9H7C4protein_codingdeleterious(0)probably_damaging(0.993)TCGA-AA-3864-01Colorectumcolon adenocarcinomaMale>=65I/IIUnknownUnknownSD
SYNCSNVMissense_Mutationnovelc.1120N>Ap.Ala374Thrp.A374TQ9H7C4protein_codingtolerated(0.14)benign(0.053)TCGA-AA-3947-01Colorectumcolon adenocarcinomaFemale<65I/IIUnknownUnknownSD
SYNCSNVMissense_Mutationc.1090N>Gp.Thr364Alap.T364AQ9H7C4protein_codingtolerated(0.26)possibly_damaging(0.642)TCGA-AA-A01P-01Colorectumcolon adenocarcinomaFemale>=65III/IVUnknownUnknownPD
SYNCSNVMissense_Mutationc.611N>Ap.Arg204Glnp.R204QQ9H7C4protein_codingtolerated(0.1)probably_damaging(0.998)TCGA-AD-A5EJ-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownSD
SYNCSNVMissense_Mutationrs763587503c.472G>Ap.Glu158Lysp.E158KQ9H7C4protein_codingtolerated(0.77)benign(0)TCGA-AG-3591-01Colorectumrectum adenocarcinomaFemale>=65I/IIUnspecificComplete Response
SYNCSNVMissense_Mutationnovelc.1116G>Tp.Lys372Asnp.K372NQ9H7C4protein_codingdeleterious(0)possibly_damaging(0.864)TCGA-AG-A002-01Colorectumrectum adenocarcinomaMale<65I/IIUnknownUnknownSD
SYNCSNVMissense_Mutationc.418G>Ap.Gly140Argp.G140RQ9H7C4protein_codingtolerated_low_confidence(0.13)benign(0.01)TCGA-EI-6507-01Colorectumrectum adenocarcinomaMale<65I/IIUnknownUnknownSD
SYNCSNVMissense_Mutationnovelc.1337C>Tp.Ala446Valp.A446VQ9H7C4protein_codingtolerated(0.12)possibly_damaging(0.698)TCGA-A5-A1OF-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
SYNCSNVMissense_Mutationnovelc.807G>Tp.Gln269Hisp.Q269HQ9H7C4protein_codingdeleterious(0.02)probably_damaging(0.988)TCGA-A5-A1OF-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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