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: PALLD

Gene summary for PALLD

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

PALLD

Gene ID

23022

Gene namepalladin, cytoskeletal associated protein
Gene AliasCGI-151
Cytomap4q32.3
Gene Typeprotein-coding
GO ID

GO:0000902

UniProtAcc

Q8WX93


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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
23022PALLDCA_HPV_1HumanCervixCC3.54e-17-4.04e-010.0264
23022PALLDN_HPV_1HumanCervixN_HPV1.71e-03-1.69e-010.0079
23022PALLDCCI_1HumanCervixCC5.68e-031.22e+000.528
23022PALLDCCI_2HumanCervixCC2.80e-051.72e+000.5249
23022PALLDCCI_3HumanCervixCC2.91e-151.11e+000.516
23022PALLDsample3HumanCervixCC1.68e-02-2.53e-010.1387
23022PALLDT3HumanCervixCC3.43e-02-2.76e-010.1389
23022PALLDHTA11_3410_2000001011HumanColorectumAD4.65e-46-9.81e-010.0155
23022PALLDHTA11_2487_2000001011HumanColorectumSER3.63e-14-7.04e-01-0.1808
23022PALLDHTA11_2951_2000001011HumanColorectumAD5.63e-09-9.56e-010.0216
23022PALLDHTA11_2112_2000001011HumanColorectumSER4.85e-02-6.13e-01-0.2196
23022PALLDHTA11_3361_2000001011HumanColorectumAD3.45e-14-7.64e-01-0.1207
23022PALLDHTA11_83_2000001011HumanColorectumSER6.69e-05-4.76e-01-0.1526
23022PALLDHTA11_866_2000001011HumanColorectumAD4.61e-05-3.37e-01-0.1001
23022PALLDHTA11_1391_2000001011HumanColorectumAD5.06e-03-4.58e-01-0.059
23022PALLDHTA11_5212_2000001011HumanColorectumAD7.80e-05-8.41e-01-0.2061
23022PALLDHTA11_546_2000001011HumanColorectumAD1.09e-02-1.43e-01-0.0842
23022PALLDHTA11_9341_2000001011HumanColorectumSER4.39e-05-8.14e-01-0.00410000000000005
23022PALLDHTA11_7862_2000001011HumanColorectumAD1.50e-07-8.21e-01-0.0179
23022PALLDHTA11_866_3004761011HumanColorectumAD5.68e-19-8.00e-010.096
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check button Transcriptomic changes along malignancy continuum.
TissueExpression DynamicsAbbreviation
CervixThe 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.CC: Cervix cancer
HSIL_HPV: HPV-infected high-grade squamous intraepithelial lesions
N_HPV: HPV-infected normal cervix
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
EndometriumThe 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.AEH: Atypical endometrial hyperplasia
EEC: Endometrioid 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
LungThe 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.AAH: Atypical adenomatous hyperplasia
AIS: Adenocarcinoma in situ
IAC: Invasive lung adenocarcinoma
MIA: Minimally invasive adenocarcinoma
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:006156410Oral cavityOSCCaxon development207/7305467/187231.01e-023.51e-02207
GO:000854416Oral cavityLPepidermis development112/4623324/187233.81e-055.61e-04112
GO:004358816Oral cavityLPskin development93/4623263/187236.47e-058.70e-0493
GO:003021613Oral cavityLPkeratinocyte differentiation51/4623139/187231.05e-038.84e-0351
GO:000991315Oral cavityLPepidermal cell differentiation69/4623202/187231.53e-031.19e-0269
GO:000206424Oral cavityNEOLPepithelial cell development45/2005220/187231.45e-052.54e-0445
GO:003021631Oral cavityNEOLPkeratinocyte differentiation32/2005139/187232.16e-053.57e-0432
GO:006156421Oral cavityNEOLPaxon development78/2005467/187234.49e-056.26e-0478
GO:000740914Oral cavityNEOLPaxonogenesis71/2005418/187235.64e-057.62e-0471
GO:000854431Oral cavityNEOLPepidermis development57/2005324/187231.13e-041.35e-0357
GO:004358831Oral cavityNEOLPskin development48/2005263/187231.56e-041.77e-0348
GO:000991331Oral cavityNEOLPepidermal cell differentiation38/2005202/187233.92e-043.64e-0338
GO:000206417ProstateBPHepithelial cell development85/3107220/187233.16e-154.55e-1385
GO:00615649ProstateBPHaxon development111/3107467/187233.51e-053.88e-04111
GO:00435886ProstateBPHskin development69/3107263/187234.49e-054.73e-0469
GO:00033823ProstateBPHepithelial cell morphogenesis15/310733/187239.91e-059.20e-0415
GO:00085448ProstateBPHepidermis development80/3107324/187231.12e-041.02e-0380
GO:00074099ProstateBPHaxonogenesis98/3107418/187231.68e-041.45e-0398
GO:00099138ProstateBPHepidermal cell differentiation52/3107202/187235.95e-044.11e-0352
GO:00302165ProstateBPHkeratinocyte differentiation38/3107139/187239.35e-045.92e-0338
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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
PALLDSNVMissense_Mutationnovelc.1084N>Cp.Glu362Glnp.E362QQ8WX93protein_codingtolerated(0.14)probably_damaging(0.996)TCGA-A1-A0SH-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapytcSD
PALLDSNVMissense_Mutationc.566N>Cp.Arg189Thrp.R189TQ8WX93protein_codingdeleterious(0.01)benign(0.224)TCGA-AC-A23H-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownPD
PALLDSNVMissense_Mutationrs187404166c.1354G>Ap.Val452Metp.V452MQ8WX93protein_codingdeleterious(0)possibly_damaging(0.891)TCGA-AC-A62X-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
PALLDSNVMissense_Mutationnovelc.22G>Cp.Glu8Glnp.E8QQ8WX93protein_codingtolerated(0.09)benign(0.028)TCGA-AC-A6IW-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
PALLDSNVMissense_Mutationnovelc.1159C>Ap.Gln387Lysp.Q387KQ8WX93protein_codingdeleterious(0.02)possibly_damaging(0.787)TCGA-AN-A046-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
PALLDSNVMissense_Mutationnovelc.1981N>Tp.Ala661Serp.A661SQ8WX93protein_codingtolerated(0.8)benign(0)TCGA-AR-A24O-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapycytoxanPD
PALLDSNVMissense_Mutationrs780911413c.427N>Tp.Arg143Cysp.R143CQ8WX93protein_codingdeleterious(0.03)benign(0)TCGA-E2-A15M-01Breastbreast invasive carcinomaFemale>=65I/IIHormone TherapyarimidexSD
PALLDSNVMissense_Mutationrs758309395c.1829N>Tp.Thr610Metp.T610MQ8WX93protein_codingdeleterious(0.04)possibly_damaging(0.65)TCGA-E9-A1RF-01Breastbreast invasive carcinomaFemale>=65III/IVHormone TherapytamoxiphenSD
PALLDSNVMissense_Mutationnovelc.3349N>Tp.Asp1117Tyrp.D1117YQ8WX93protein_codingdeleterious(0)probably_damaging(1)TCGA-PL-A8LY-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
PALLDSNVMissense_Mutationnovelc.407G>Ap.Ser136Asnp.S136NQ8WX93protein_codingtolerated(0.18)possibly_damaging(0.537)TCGA-2W-A8YY-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
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