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

Home

Download

Statistics

Help

Contact

Center for Computational Systems Medicine
leaf

Gene summary

leaf

Malignant transformation analysis

leaf

Malignant transformation related pathway analysis

leaf

Cell-cell communication analysis

leaf

Single-cell gene regulatory network inference analysis

leaf

Somatic mutation of malignant transformation related genes

leaf

Related drugs of malignant transformation related genes

Gene: DDX41

Gene summary for DDX41

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

DDX41

Gene ID

51428

Gene nameDEAD-box helicase 41
Gene AliasABS
Cytomap5q35.3
Gene Typeprotein-coding
GO ID

GO:0000375

UniProtAcc

B3KRK2


Top

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
51428DDX41HTA11_3410_2000001011HumanColorectumAD9.61e-051.44e-010.0155
51428DDX41HTA11_347_2000001011HumanColorectumAD3.74e-072.26e-01-0.1954
51428DDX41HTA11_83_2000001011HumanColorectumSER5.83e-031.83e-01-0.1526
51428DDX41HTA11_696_2000001011HumanColorectumAD6.52e-123.02e-01-0.1464
51428DDX41HTA11_866_2000001011HumanColorectumAD1.93e-031.42e-01-0.1001
51428DDX41HTA11_1391_2000001011HumanColorectumAD2.55e-062.91e-01-0.059
51428DDX41HTA11_2992_2000001011HumanColorectumSER2.95e-032.75e-01-0.1706
51428DDX41HTA11_546_2000001011HumanColorectumAD2.28e-022.55e-01-0.0842
51428DDX41HTA11_866_3004761011HumanColorectumAD2.82e-051.82e-010.096
51428DDX41HTA11_4255_2000001011HumanColorectumSER1.63e-023.28e-010.0446
51428DDX41HTA11_7696_3000711011HumanColorectumAD1.60e-051.57e-010.0674
51428DDX41HTA11_99999970781_79442HumanColorectumMSS6.09e-041.18e-010.294
51428DDX41HTA11_99999965062_69753HumanColorectumMSI-H4.18e-025.01e-010.3487
51428DDX41HTA11_99999971662_82457HumanColorectumMSS1.23e-143.15e-010.3859
51428DDX41HTA11_99999974143_84620HumanColorectumMSS1.72e-051.82e-010.3005
51428DDX41LZE4THumanEsophagusESCC2.37e-041.51e-010.0811
51428DDX41LZE7THumanEsophagusESCC2.22e-052.20e-010.0667
51428DDX41LZE8THumanEsophagusESCC1.79e-031.20e-010.067
51428DDX41LZE20THumanEsophagusESCC1.98e-041.16e-010.0662
51428DDX41LZE24THumanEsophagusESCC2.71e-193.81e-010.0596
Page: 1 2 3 4 5 6 7 

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
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.

Top

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).
Page: 1 2 3 4 5 6 7 8 9 

check button Enriched GO biological processes.
GO IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustCount
GO:0008380ColorectumADRNA splicing169/3918434/187233.59e-182.04e-15169
GO:0000377ColorectumADRNA splicing, via transesterification reactions with bulged adenosine as nucleophile130/3918320/187235.88e-162.16e-13130
GO:0000398ColorectumADmRNA splicing, via spliceosome130/3918320/187235.88e-162.16e-13130
GO:0000375ColorectumADRNA splicing, via transesterification reactions131/3918324/187237.11e-162.22e-13131
GO:00083801ColorectumSERRNA splicing123/2897434/187233.84e-128.41e-10123
GO:00003751ColorectumSERRNA splicing, via transesterification reactions90/2897324/187238.68e-097.50e-0790
GO:00003771ColorectumSERRNA splicing, via transesterification reactions with bulged adenosine as nucleophile89/2897320/187239.82e-098.14e-0789
GO:00003981ColorectumSERmRNA splicing, via spliceosome89/2897320/187239.82e-098.14e-0789
GO:00083802ColorectumMSSRNA splicing159/3467434/187231.75e-191.22e-16159
GO:00003772ColorectumMSSRNA splicing, via transesterification reactions with bulged adenosine as nucleophile121/3467320/187232.52e-168.27e-14121
GO:00003982ColorectumMSSmRNA splicing, via spliceosome121/3467320/187232.52e-168.27e-14121
GO:00003752ColorectumMSSRNA splicing, via transesterification reactions122/3467324/187232.75e-168.58e-14122
GO:00083803ColorectumMSI-HRNA splicing82/1319434/187231.22e-164.53e-1482
GO:00003753ColorectumMSI-HRNA splicing, via transesterification reactions67/1319324/187237.99e-162.61e-1367
GO:00003773ColorectumMSI-HRNA splicing, via transesterification reactions with bulged adenosine as nucleophile66/1319320/187231.51e-154.41e-1366
GO:00003983ColorectumMSI-HmRNA splicing, via spliceosome66/1319320/187231.51e-154.41e-1366
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
Page: 1 2 3 

check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
Page: 1 

Top

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
Page: 1 

Top

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.
Page: 1 

Top

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
DDX41SNVMissense_Mutationnovelc.418N>Cp.Asp140Hisp.D140HQ9UJV9protein_codingdeleterious(0.03)benign(0.024)TCGA-3C-AALI-01Breastbreast invasive carcinomaFemale<65I/IIUnspecificPoly EComplete Response
DDX41SNVMissense_Mutationnovelc.307N>Cp.Glu103Glnp.E103QQ9UJV9protein_codingtolerated(0.38)benign(0.076)TCGA-3C-AALI-01Breastbreast invasive carcinomaFemale<65I/IIUnspecificPoly EComplete Response
DDX41SNVMissense_Mutationc.398N>Tp.Ala133Valp.A133VQ9UJV9protein_codingdeleterious(0)possibly_damaging(0.677)TCGA-A2-A0CX-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapyadriamycinSD
DDX41SNVMissense_Mutationc.158N>Ap.Arg53Glnp.R53QQ9UJV9protein_codingtolerated(0.46)benign(0.003)TCGA-E2-A14Z-01Breastbreast invasive carcinomaFemale<65I/IIHormone TherapyarimidexPD
DDX41SNVMissense_Mutationc.637N>Gp.Pro213Alap.P213AQ9UJV9protein_codingdeleterious(0)probably_damaging(0.997)TCGA-E2-A1LA-01Breastbreast invasive carcinomaFemale<65I/IIHormone TherapyarimidexSD
DDX41insertionFrame_Shift_Insnovelc.277_278insCTGTGAGGp.His93ProfsTer21p.H93Pfs*21Q9UJV9protein_codingTCGA-A7-A0CJ-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapycytoxanSD
DDX41insertionFrame_Shift_Insnovelc.275_276insCACTTTTATAATCAAATp.Gln92HisfsTer25p.Q92Hfs*25Q9UJV9protein_codingTCGA-A7-A0CJ-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapycytoxanSD
DDX41SNVMissense_Mutationnovelc.616N>Ap.Pro206Thrp.P206TQ9UJV9protein_codingdeleterious(0)probably_damaging(0.989)TCGA-C5-A2LZ-01Cervixcervical & endocervical cancerFemale>=65III/IVUnknownUnknownPD
DDX41SNVMissense_Mutationnovelc.1660N>Ap.Glu554Lysp.E554KQ9UJV9protein_codingdeleterious(0)probably_damaging(1)TCGA-C5-A3HD-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinSD
DDX41SNVMissense_Mutationc.144G>Cp.Gln48Hisp.Q48HQ9UJV9protein_codingtolerated(0.13)benign(0.071)TCGA-EK-A2PG-01Cervixcervical & endocervical cancerFemale>=65I/IIUnknownUnknownSD
Page: 1 2 3 4 5 6 7 

Top

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
Page: 1