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: CLK2

Gene summary for CLK2

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

CLK2

Gene ID

1196

Gene nameCDC like kinase 2
Gene AliasCLK2
Cytomap1q22
Gene Typeprotein-coding
GO ID

GO:0005975

UniProtAcc

A8K7I0


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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
1196CLK2LZE4THumanEsophagusESCC9.12e-071.32e-010.0811
1196CLK2LZE7THumanEsophagusESCC1.23e-062.91e-010.0667
1196CLK2LZE20THumanEsophagusESCC4.51e-024.74e-020.0662
1196CLK2LZE24THumanEsophagusESCC3.22e-121.79e-010.0596
1196CLK2LZE6THumanEsophagusESCC8.22e-039.53e-020.0845
1196CLK2P1T-EHumanEsophagusESCC1.70e-092.35e-010.0875
1196CLK2P2T-EHumanEsophagusESCC1.19e-223.05e-010.1177
1196CLK2P4T-EHumanEsophagusESCC3.95e-182.25e-010.1323
1196CLK2P5T-EHumanEsophagusESCC5.81e-212.39e-010.1327
1196CLK2P8T-EHumanEsophagusESCC6.48e-151.68e-010.0889
1196CLK2P9T-EHumanEsophagusESCC2.00e-141.74e-010.1131
1196CLK2P10T-EHumanEsophagusESCC1.68e-232.50e-010.116
1196CLK2P11T-EHumanEsophagusESCC4.46e-038.65e-020.1426
1196CLK2P12T-EHumanEsophagusESCC8.78e-081.02e-010.1122
1196CLK2P15T-EHumanEsophagusESCC5.59e-182.29e-010.1149
1196CLK2P16T-EHumanEsophagusESCC2.81e-141.02e-010.1153
1196CLK2P17T-EHumanEsophagusESCC4.81e-031.30e-010.1278
1196CLK2P20T-EHumanEsophagusESCC2.31e-061.30e-010.1124
1196CLK2P21T-EHumanEsophagusESCC1.18e-098.09e-020.1617
1196CLK2P22T-EHumanEsophagusESCC9.83e-151.29e-010.1236
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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
∗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:0008380111EsophagusESCCRNA splicing336/8552434/187231.74e-423.67e-39336
GO:0043484111EsophagusESCCregulation of RNA splicing116/8552148/187233.18e-162.38e-14116
GO:001021217EsophagusESCCresponse to ionizing radiation110/8552148/187231.11e-124.78e-11110
GO:000931419EsophagusESCCresponse to radiation277/8552456/187234.42e-111.43e-09277
GO:00059969EsophagusESCCmonosaccharide metabolic process159/8552257/187231.11e-071.81e-06159
GO:00193189EsophagusESCChexose metabolic process147/8552237/187232.63e-073.94e-06147
GO:004677710EsophagusESCCprotein autophosphorylation138/8552227/187232.98e-063.38e-05138
GO:00060069EsophagusESCCglucose metabolic process119/8552196/187231.51e-051.36e-04119
GO:00442626EsophagusESCCcellular carbohydrate metabolic process160/8552283/187231.43e-049.66e-04160
GO:00160514EsophagusESCCcarbohydrate biosynthetic process117/8552202/187232.96e-041.79e-03117
GO:00620129EsophagusESCCregulation of small molecule metabolic process184/8552334/187233.11e-041.85e-03184
GO:00463643EsophagusESCCmonosaccharide biosynthetic process52/855282/187239.03e-044.61e-0352
GO:00182124EsophagusESCCpeptidyl-tyrosine modification202/8552378/187231.34e-036.39e-03202
GO:00109065EsophagusESCCregulation of glucose metabolic process71/8552119/187231.46e-036.92e-0371
GO:00181084EsophagusESCCpeptidyl-tyrosine phosphorylation200/8552375/187231.60e-037.45e-03200
GO:00193193EsophagusESCChexose biosynthetic process49/855278/187231.69e-037.81e-0349
GO:00061096EsophagusESCCregulation of carbohydrate metabolic process101/8552178/187231.89e-038.52e-03101
GO:00106755EsophagusESCCregulation of cellular carbohydrate metabolic process83/8552146/187234.24e-031.69e-0283
GO:00060943EsophagusESCCgluconeogenesis46/855275/187234.54e-031.78e-0246
GO:000838022LiverHCCRNA splicing313/7958434/187231.36e-361.73e-33313
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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
CLK2SNVMissense_Mutationc.335G>Ap.Arg112Hisp.R112HP49760protein_codingtolerated(0.14)benign(0)TCGA-A2-A0CL-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapycytoxanSD
CLK2SNVMissense_Mutationnovelc.1289N>Gp.Tyr430Cysp.Y430CP49760protein_codingdeleterious(0.01)probably_damaging(1)TCGA-A2-A4S2-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapyadriamycinCR
CLK2SNVMissense_Mutationnovelc.92G>Tp.Arg31Ilep.R31IP49760protein_codingdeleterious(0.03)probably_damaging(0.944)TCGA-AN-A046-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
CLK2SNVMissense_Mutationc.714N>Ap.His238Glnp.H238QP49760protein_codingdeleterious(0)probably_damaging(1)TCGA-D8-A1XK-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapydoxorubicine+cyclophosphamideSD
CLK2SNVMissense_Mutationnovelc.643N>Gp.Ile215Valp.I215VP49760protein_codingdeleterious(0)possibly_damaging(0.833)TCGA-LL-A5YL-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapyadriamycinSD
CLK2insertionIn_Frame_Insnovelc.184_185insATTCATCTTTTGTTCATCATCTTAGAGTAGTAGp.Arg62delinsHisSerSerPheValHisHisLeuArgValValGlyp.R62delinsHSSFVHHLRVVGP49760protein_codingTCGA-A2-A0CX-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapyadriamycinSD
CLK2deletionFrame_Shift_Delnovelc.33delGp.Glu11AspfsTer133p.E11Dfs*133P49760protein_codingTCGA-D8-A27V-01Breastbreast invasive carcinomaFemale<65I/IIHormone TherapytamoxiphenSD
CLK2SNVMissense_Mutationnovelc.356G>Ap.Arg119Lysp.R119KP49760protein_codingtolerated(0.43)benign(0)TCGA-C5-A902-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinSD
CLK2SNVMissense_Mutationc.880N>Ap.Glu294Lysp.E294KP49760protein_codingdeleterious(0)probably_damaging(1)TCGA-IR-A3LH-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
CLK2SNVMissense_Mutationc.215G>Ap.Arg72Glnp.R72QP49760protein_codingdeleterious(0.02)benign(0)TCGA-Q1-A73O-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
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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
1196CLK2SERINE THREONINE KINASE, TYROSINE KINASE, KINASE, ENZYME, DRUGGABLE GENOMEGATIFLOXACINGATIFLOXACIN
1196CLK2SERINE THREONINE KINASE, TYROSINE KINASE, KINASE, ENZYME, DRUGGABLE GENOMERG-1530RG-1530
1196CLK2SERINE THREONINE KINASE, TYROSINE KINASE, KINASE, ENZYME, DRUGGABLE GENOMECYC-116CYC-116
1196CLK2SERINE THREONINE KINASE, TYROSINE KINASE, KINASE, ENZYME, DRUGGABLE GENOMELEUCETTAMINE BLEUCETTAMINE B22998443
1196CLK2SERINE THREONINE KINASE, TYROSINE KINASE, KINASE, ENZYME, DRUGGABLE GENOMEBAY-613606CHEMBL541400
1196CLK2SERINE THREONINE KINASE, TYROSINE KINASE, KINASE, ENZYME, DRUGGABLE GENOMEDNDI1417467CHEMBL1997335
1196CLK2SERINE THREONINE KINASE, TYROSINE KINASE, KINASE, ENZYME, DRUGGABLE GENOMEHARMINEHARMINE22998443
1196CLK2SERINE THREONINE KINASE, TYROSINE KINASE, KINASE, ENZYME, DRUGGABLE GENOMESB-220025SB-220025
1196CLK2SERINE THREONINE KINASE, TYROSINE KINASE, KINASE, ENZYME, DRUGGABLE GENOMEPHA-767491CHEMBL225519
1196CLK2SERINE THREONINE KINASE, TYROSINE KINASE, KINASE, ENZYME, DRUGGABLE GENOMEJNJ-7706621JNJ-7706621
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