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: AK3

Gene summary for AK3

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

AK3

Gene ID

50808

Gene nameadenylate kinase 3
Gene AliasAK3L1
Cytomap9p24.1
Gene Typeprotein-coding
GO ID

GO:0006139

UniProtAcc

Q7Z4Y4


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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
50808AK3HTA11_3410_2000001011HumanColorectumAD1.56e-10-4.96e-010.0155
50808AK3HTA11_347_2000001011HumanColorectumAD1.84e-126.58e-01-0.1954
50808AK3HTA11_99999965104_69814HumanColorectumMSS8.62e-119.83e-010.281
50808AK3A001-C-207HumanColorectumFAP9.64e-03-1.41e-010.1278
50808AK3A015-C-203HumanColorectumFAP5.10e-301.10e-03-0.1294
50808AK3A015-C-204HumanColorectumFAP1.59e-04-2.18e-01-0.0228
50808AK3A014-C-040HumanColorectumFAP7.34e-05-4.12e-01-0.1184
50808AK3A002-C-201HumanColorectumFAP6.66e-10-1.98e-010.0324
50808AK3A002-C-203HumanColorectumFAP3.24e-03-5.46e-020.2786
50808AK3A001-C-119HumanColorectumFAP2.55e-04-1.54e-01-0.1557
50808AK3A001-C-108HumanColorectumFAP1.02e-15-1.60e-01-0.0272
50808AK3A002-C-205HumanColorectumFAP1.20e-22-2.14e-01-0.1236
50808AK3A015-C-005HumanColorectumFAP2.74e-02-2.10e-01-0.0336
50808AK3A015-C-006HumanColorectumFAP4.14e-16-2.43e-01-0.0994
50808AK3A015-C-106HumanColorectumFAP8.21e-12-1.32e-03-0.0511
50808AK3A002-C-114HumanColorectumFAP3.65e-18-2.23e-01-0.1561
50808AK3A015-C-104HumanColorectumFAP6.02e-33-3.61e-03-0.1899
50808AK3A015-C-202HumanColorectumFAP2.06e-033.31e-01-0.0849
50808AK3A001-C-014HumanColorectumFAP1.12e-14-2.71e-010.0135
50808AK3A002-C-016HumanColorectumFAP2.89e-21-2.19e-010.0521
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check button Transcriptomic changes along malignancy continuum.
TissueExpression DynamicsAbbreviation
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
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
ProstateThe 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.BPH: Benign Prostatic Hyperplasia
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
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
GO:0042176ColorectumADregulation of protein catabolic process160/3918391/187231.06e-197.34e-17160
GO:0009150ColorectumADpurine ribonucleotide metabolic process142/3918368/187234.29e-151.17e-12142
GO:0006163ColorectumADpurine nucleotide metabolic process149/3918396/187231.08e-142.80e-12149
GO:0072521ColorectumADpurine-containing compound metabolic process153/3918416/187234.34e-141.01e-11153
GO:0009259ColorectumADribonucleotide metabolic process144/3918385/187235.25e-141.13e-11144
GO:0009895ColorectumADnegative regulation of catabolic process124/3918320/187231.66e-133.35e-11124
GO:0019693ColorectumADribose phosphate metabolic process145/3918396/187233.01e-135.71e-11145
GO:0009117ColorectumADnucleotide metabolic process168/3918489/187232.20e-123.36e-10168
GO:0006753ColorectumADnucleoside phosphate metabolic process169/3918497/187234.99e-126.98e-10169
GO:0022411ColorectumADcellular component disassembly147/3918443/187238.53e-106.76e-08147
GO:0042177ColorectumADnegative regulation of protein catabolic process55/3918121/187231.19e-098.85e-0855
GO:0009144ColorectumADpurine nucleoside triphosphate metabolic process43/391888/187235.05e-093.19e-0743
GO:0009135ColorectumADpurine nucleoside diphosphate metabolic process47/3918103/187231.61e-089.22e-0747
GO:0009179ColorectumADpurine ribonucleoside diphosphate metabolic process47/3918103/187231.61e-089.22e-0747
GO:0009185ColorectumADribonucleoside diphosphate metabolic process47/3918106/187234.85e-082.55e-0647
GO:0009205ColorectumADpurine ribonucleoside triphosphate metabolic process39/391882/187236.58e-083.40e-0639
GO:0032984ColorectumADprotein-containing complex disassembly81/3918224/187239.41e-084.65e-0681
GO:0009141ColorectumADnucleoside triphosphate metabolic process48/3918112/187231.27e-076.02e-0648
GO:0046031ColorectumADADP metabolic process41/391890/187231.37e-076.42e-0641
GO:0009199ColorectumADribonucleoside triphosphate metabolic process40/391889/187233.04e-071.21e-0540
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa012325EsophagusESCCNucleotide metabolism59/420585/84651.67e-046.58e-043.37e-0459
hsa012405EsophagusESCCBiosynthesis of cofactors97/4205153/84653.88e-041.35e-036.94e-0497
hsa0123212EsophagusESCCNucleotide metabolism59/420585/84651.67e-046.58e-043.37e-0459
hsa0124012EsophagusESCCBiosynthesis of cofactors97/4205153/84653.88e-041.35e-036.94e-0497
hsa01240LiverCirrhoticBiosynthesis of cofactors66/2530153/84653.11e-041.99e-031.23e-0366
hsa01232LiverCirrhoticNucleotide metabolism39/253085/84651.27e-036.73e-034.15e-0339
hsa012401LiverCirrhoticBiosynthesis of cofactors66/2530153/84653.11e-041.99e-031.23e-0366
hsa012321LiverCirrhoticNucleotide metabolism39/253085/84651.27e-036.73e-034.15e-0339
hsa012402LiverHCCBiosynthesis of cofactors103/4020153/84654.67e-075.05e-062.81e-06103
hsa012322LiverHCCNucleotide metabolism59/402085/84653.30e-051.88e-041.04e-0459
hsa012403LiverHCCBiosynthesis of cofactors103/4020153/84654.67e-075.05e-062.81e-06103
hsa012323LiverHCCNucleotide metabolism59/402085/84653.30e-051.88e-041.04e-0459
hsa012324Oral cavityOSCCNucleotide metabolism54/370485/84651.78e-045.95e-043.03e-0454
hsa012404Oral cavityOSCCBiosynthesis of cofactors88/3704153/84653.84e-041.20e-036.12e-0488
hsa0123211Oral cavityOSCCNucleotide metabolism54/370485/84651.78e-045.95e-043.03e-0454
hsa0124011Oral cavityOSCCBiosynthesis of cofactors88/3704153/84653.84e-041.20e-036.12e-0488
hsa0123221Oral cavityLPNucleotide metabolism42/241885/84653.62e-052.36e-041.52e-0442
hsa0124021Oral cavityLPBiosynthesis of cofactors57/2418153/84651.17e-023.91e-022.52e-0257
hsa0123231Oral cavityLPNucleotide metabolism42/241885/84653.62e-052.36e-041.52e-0442
hsa0124031Oral cavityLPBiosynthesis of cofactors57/2418153/84651.17e-023.91e-022.52e-0257
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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
AK3SNVMissense_Mutationnovelc.593G>Ap.Gly198Glup.G198EQ9UIJ7protein_codingdeleterious(0)probably_damaging(0.986)TCGA-AR-A2LE-01Breastbreast invasive carcinomaFemale>=65I/IIHormone TherapytamoxiphenPD
AK3SNVMissense_Mutationrs773321603c.53N>Gp.Ser18Trpp.S18WQ9UIJ7protein_codingdeleterious(0)probably_damaging(1)TCGA-EK-A2R8-01Cervixcervical & endocervical cancerFemale<65I/IIUnknownUnknownSD
AK3SNVMissense_Mutationc.456N>Gp.Asp152Glup.D152EQ9UIJ7protein_codingdeleterious(0)probably_damaging(0.913)TCGA-AA-3695-01Colorectumcolon adenocarcinomaFemale<65III/IVUnknownUnknownSD
AK3SNVMissense_Mutationnovelc.359T>Gp.Val120Glyp.V120GQ9UIJ7protein_codingdeleterious(0)possibly_damaging(0.878)TCGA-AA-A010-01Colorectumcolon adenocarcinomaFemale<65I/IIChemotherapyfolinicCR
AK3SNVMissense_Mutationc.88C>Gp.His30Aspp.H30DQ9UIJ7protein_codingtolerated(0.78)benign(0)TCGA-D5-6535-01Colorectumcolon adenocarcinomaFemale>=65III/IVUnknownUnknownSD
AK3deletionFrame_Shift_Delc.7delNp.Ala3ArgfsTer9p.A3Rfs*9Q9UIJ7protein_codingTCGA-A6-6780-01Colorectumcolon adenocarcinomaMale>=65I/IIUnknownUnknownSD
AK3deletionFrame_Shift_Delc.7delGp.Ala3ArgfsTer9p.A3Rfs*9Q9UIJ7protein_codingTCGA-CM-4743-01Colorectumcolon adenocarcinomaMale>=65I/IIChemotherapycapecitabineSD
AK3SNVMissense_Mutationnovelc.115N>Ap.Gly39Argp.G39RQ9UIJ7protein_codingdeleterious(0)probably_damaging(0.991)TCGA-A5-A1OF-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
AK3SNVMissense_Mutationrs750035551c.370N>Tp.Arg124Cysp.R124CQ9UIJ7protein_codingdeleterious(0)probably_damaging(1)TCGA-AJ-A3BH-01Endometriumuterine corpus endometrioid carcinomaFemaleUnknownI/IIUnknownUnknownSD
AK3SNVMissense_Mutationnovelc.436N>Cp.Lys146Glnp.K146QQ9UIJ7protein_codingtolerated(0.27)benign(0.106)TCGA-AJ-A3OL-01Endometriumuterine corpus endometrioid carcinomaFemale<65III/IVChemotherapycarboplatinPD
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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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