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: GNL2

Gene summary for GNL2

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

GNL2

Gene ID

29889

Gene nameG protein nucleolar 2
Gene AliasHUMAUANTIG
Cytomap1p34.3
Gene Typeprotein-coding
GO ID

GO:0008150

UniProtAcc

Q13823


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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
29889GNL2LZE2THumanEsophagusESCC2.43e-021.31e-010.082
29889GNL2LZE4THumanEsophagusESCC6.04e-129.51e-020.0811
29889GNL2LZE7THumanEsophagusESCC1.69e-064.54e-010.0667
29889GNL2LZE8THumanEsophagusESCC4.67e-112.02e-010.067
29889GNL2LZE20THumanEsophagusESCC1.81e-061.10e-010.0662
29889GNL2LZE22THumanEsophagusESCC6.32e-031.31e-010.068
29889GNL2LZE24THumanEsophagusESCC6.88e-143.40e-010.0596
29889GNL2LZE6THumanEsophagusESCC6.62e-041.51e-010.0845
29889GNL2P1T-EHumanEsophagusESCC1.38e-093.54e-010.0875
29889GNL2P2T-EHumanEsophagusESCC8.08e-265.78e-010.1177
29889GNL2P4T-EHumanEsophagusESCC1.83e-092.06e-010.1323
29889GNL2P5T-EHumanEsophagusESCC2.74e-193.01e-010.1327
29889GNL2P8T-EHumanEsophagusESCC7.25e-121.73e-010.0889
29889GNL2P9T-EHumanEsophagusESCC2.71e-118.90e-020.1131
29889GNL2P10T-EHumanEsophagusESCC1.87e-173.75e-010.116
29889GNL2P11T-EHumanEsophagusESCC8.44e-105.86e-010.1426
29889GNL2P12T-EHumanEsophagusESCC4.78e-162.87e-010.1122
29889GNL2P15T-EHumanEsophagusESCC1.28e-254.26e-010.1149
29889GNL2P16T-EHumanEsophagusESCC4.16e-232.54e-010.1153
29889GNL2P17T-EHumanEsophagusESCC3.97e-084.72e-010.1278
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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:0022613111EsophagusESCCribonucleoprotein complex biogenesis365/8552463/187231.74e-491.11e-45365
GO:0042254111EsophagusESCCribosome biogenesis252/8552299/187233.27e-441.04e-40252
GO:002261312LiverCirrhoticribonucleoprotein complex biogenesis231/4634463/187233.28e-326.86e-29231
GO:004225412LiverCirrhoticribosome biogenesis154/4634299/187231.18e-236.72e-21154
GO:002261322LiverHCCribonucleoprotein complex biogenesis355/7958463/187237.76e-524.92e-48355
GO:004225422LiverHCCribosome biogenesis246/7958299/187234.99e-461.58e-42246
GO:002261320Oral cavityOSCCribonucleoprotein complex biogenesis333/7305463/187238.28e-485.24e-44333
GO:004225420Oral cavityOSCCribosome biogenesis230/7305299/187233.22e-416.80e-38230
GO:002261329SkincSCCribonucleoprotein complex biogenesis302/4864463/187235.13e-723.22e-68302
GO:004225428SkincSCCribosome biogenesis206/4864299/187233.33e-551.04e-51206
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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
GNL2SNVMissense_Mutationc.1545C>Gp.His515Glnp.H515QQ13823protein_codingtolerated(0.69)benign(0)TCGA-BH-A0BD-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapydoxorubicinSD
GNL2SNVMissense_Mutationc.1359G>Tp.Arg453Serp.R453SQ13823protein_codingdeleterious(0)probably_damaging(0.954)TCGA-BH-A0BZ-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapydoxorubicinCR
GNL2SNVMissense_Mutationnovelc.991N>Tp.Arg331Cysp.R331CQ13823protein_codingdeleterious(0)probably_damaging(0.993)TCGA-BH-A1FC-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
GNL2SNVMissense_Mutationc.389T>Gp.Leu130Trpp.L130WQ13823protein_codingdeleterious(0)benign(0.131)TCGA-BH-A208-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
GNL2SNVMissense_Mutationc.1640N>Cp.Leu547Prop.L547PQ13823protein_codingdeleterious(0)possibly_damaging(0.871)TCGA-D8-A1XK-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapydoxorubicine+cyclophosphamideSD
GNL2insertionFrame_Shift_Insnovelc.643_644insCAAGGGAGCATTCATTCAGCTTCTGCGGCAGTTTGGAp.Asp215AlafsTer23p.D215Afs*23Q13823protein_codingTCGA-A2-A0CU-01Breastbreast invasive carcinomaFemale>=65I/IIHormone TherapytamoxiphenSD
GNL2SNVMissense_Mutationrs374278862c.2090N>Ap.Arg697Hisp.R697HQ13823protein_codingtolerated(0.32)probably_damaging(0.998)TCGA-EK-A2RN-01Cervixcervical & endocervical cancerFemale<65I/IIUnknownUnknownSD
GNL2SNVMissense_Mutationc.1106C>Gp.Ser369Cysp.S369CQ13823protein_codingdeleterious(0.04)probably_damaging(0.99)TCGA-Q1-A73O-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
GNL2SNVMissense_Mutationrs140969125c.96G>Ap.Met32Ilep.M32IQ13823protein_codingtolerated(0.16)possibly_damaging(0.459)TCGA-VS-A9U6-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinPD
GNL2SNVMissense_Mutationc.1868G>Tp.Arg623Ilep.R623IQ13823protein_codingdeleterious(0.01)probably_damaging(0.998)TCGA-AA-A022-01Colorectumcolon 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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