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: RCC1

Gene summary for RCC1

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

RCC1

Gene ID

1104

Gene nameregulator of chromosome condensation 1
Gene AliasCHC1
Cytomap1p35.3
Gene Typeprotein-coding
GO ID

GO:0000082

UniProtAcc

A0A0S2Z404


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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
1104RCC1LZE4THumanEsophagusESCC5.76e-047.72e-020.0811
1104RCC1LZE8THumanEsophagusESCC6.08e-041.90e-010.067
1104RCC1LZE20THumanEsophagusESCC1.40e-021.44e-010.0662
1104RCC1LZE22THumanEsophagusESCC4.75e-066.62e-010.068
1104RCC1LZE24THumanEsophagusESCC1.83e-093.92e-010.0596
1104RCC1LZE6THumanEsophagusESCC1.28e-022.94e-010.0845
1104RCC1P1T-EHumanEsophagusESCC1.12e-137.63e-010.0875
1104RCC1P2T-EHumanEsophagusESCC1.18e-411.05e+000.1177
1104RCC1P4T-EHumanEsophagusESCC1.32e-401.10e+000.1323
1104RCC1P5T-EHumanEsophagusESCC4.84e-378.63e-010.1327
1104RCC1P8T-EHumanEsophagusESCC8.89e-419.26e-010.0889
1104RCC1P9T-EHumanEsophagusESCC1.81e-318.80e-010.1131
1104RCC1P10T-EHumanEsophagusESCC3.16e-621.23e+000.116
1104RCC1P11T-EHumanEsophagusESCC2.47e-137.90e-010.1426
1104RCC1P12T-EHumanEsophagusESCC9.73e-378.13e-010.1122
1104RCC1P15T-EHumanEsophagusESCC1.10e-327.94e-010.1149
1104RCC1P16T-EHumanEsophagusESCC3.81e-184.84e-010.1153
1104RCC1P17T-EHumanEsophagusESCC2.92e-157.90e-010.1278
1104RCC1P19T-EHumanEsophagusESCC4.29e-071.00e+000.1662
1104RCC1P20T-EHumanEsophagusESCC1.58e-411.19e+000.1124
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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
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
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
∗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:0006417113ThyroidPTCregulation of translation236/5968468/187232.70e-172.52e-15236
GO:0034250113ThyroidPTCpositive regulation of cellular amide metabolic process98/5968162/187235.26e-143.04e-1298
GO:0045727113ThyroidPTCpositive regulation of translation84/5968136/187236.52e-133.08e-1184
GO:003304419ThyroidPTCregulation of chromosome organization102/5968187/187231.04e-103.58e-09102
GO:0070482113ThyroidPTCresponse to oxygen levels167/5968347/187231.51e-105.03e-09167
GO:005105218ThyroidPTCregulation of DNA metabolic process171/5968359/187232.52e-108.33e-09171
GO:0031330113ThyroidPTCnegative regulation of cellular catabolic process131/5968262/187236.63e-102.03e-08131
GO:0009895113ThyroidPTCnegative regulation of catabolic process154/5968320/187237.77e-102.31e-08154
GO:2001020112ThyroidPTCregulation of response to DNA damage stimulus113/5968219/187239.37e-102.77e-08113
GO:1901653111ThyroidPTCcellular response to peptide169/5968359/187239.81e-102.89e-08169
GO:0071214111ThyroidPTCcellular response to abiotic stimulus158/5968331/187239.90e-102.89e-08158
GO:0104004111ThyroidPTCcellular response to environmental stimulus158/5968331/187239.90e-102.89e-08158
GO:0032204110ThyroidPTCregulation of telomere maintenance52/596880/187231.15e-093.34e-0852
GO:0032984110ThyroidPTCprotein-containing complex disassembly114/5968224/187232.26e-096.33e-08114
GO:000700624ThyroidPTCmitochondrial membrane organization68/5968116/187232.47e-096.88e-0868
GO:0036293113ThyroidPTCresponse to decreased oxygen levels153/5968322/187232.71e-097.52e-08153
GO:0010639112ThyroidPTCnegative regulation of organelle organization163/5968348/187233.04e-098.39e-08163
GO:0043434113ThyroidPTCresponse to peptide hormone188/5968414/187234.13e-091.09e-07188
GO:0000723111ThyroidPTCtelomere maintenance74/5968131/187234.85e-091.26e-0774
GO:0001666113ThyroidPTCresponse to hypoxia145/5968307/187231.14e-082.74e-07145
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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
RCC1insertionFrame_Shift_Insnovelc.781_782insTACTCp.Met261IlefsTer4p.M261Ifs*4P18754protein_codingTCGA-AO-A0JD-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapycyclophosphamideSD
RCC1insertionFrame_Shift_Insnovelc.783_784insAACATAGTTTCTTCATCACTAAGTCTACCTACp.Leu262AsnfsTer12p.L262Nfs*12P18754protein_codingTCGA-AO-A0JD-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapycyclophosphamideSD
RCC1SNVMissense_Mutationnovelc.98N>Ap.Arg33Hisp.R33HP18754protein_codingtolerated(0.24)benign(0.182)TCGA-A6-3809-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownSD
RCC1SNVMissense_Mutationc.1051N>Tp.Arg351Trpp.R351WP18754protein_codingdeleterious(0.02)probably_damaging(0.997)TCGA-AA-3715-01Colorectumcolon adenocarcinomaMale>=65I/IIUnknownUnknownPD
RCC1SNVMissense_Mutationrs528320406c.743G>Ap.Arg248Glnp.R248QP18754protein_codingdeleterious(0)possibly_damaging(0.607)TCGA-AA-3864-01Colorectumcolon adenocarcinomaMale>=65I/IIUnknownUnknownSD
RCC1SNVMissense_Mutationrs760969624c.1186C>Tp.Arg396Cysp.R396CP18754protein_codingtolerated(0.12)benign(0.025)TCGA-G4-6309-01Colorectumcolon adenocarcinomaFemale<65III/IVChemotherapyxelodaPD
RCC1SNVMissense_Mutationrs745611564c.1025C>Tp.Ser342Leup.S342LP18754protein_codingdeleterious(0.05)benign(0.147)TCGA-AG-A002-01Colorectumrectum adenocarcinomaMale<65I/IIUnknownUnknownSD
RCC1deletionFrame_Shift_Delc.32delNp.Pro13GlnfsTer11p.P13Qfs*11P18754protein_codingTCGA-AA-3492-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownSD
RCC1deletionFrame_Shift_Delc.32delNp.Pro13GlnfsTer11p.P13Qfs*11P18754protein_codingTCGA-AA-3663-01Colorectumcolon adenocarcinomaMale<65I/IIUnknownUnknownSD
RCC1deletionFrame_Shift_Delc.38delCp.Pro13GlnfsTer11p.P13Qfs*11P18754protein_codingTCGA-AA-3710-01Colorectumcolon adenocarcinomaFemale>=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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