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: HOXA7

Gene summary for HOXA7

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

HOXA7

Gene ID

3204

Gene namehomeobox A7
Gene AliasANTP
Cytomap7p15.2
Gene Typeprotein-coding
GO ID

GO:0000122

UniProtAcc

P31268


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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
3204HOXA7LZE2THumanEsophagusESCC4.68e-076.34e-010.082
3204HOXA7LZE4THumanEsophagusESCC3.20e-123.97e-010.0811
3204HOXA7LZE7THumanEsophagusESCC1.29e-054.28e-010.0667
3204HOXA7LZE8THumanEsophagusESCC1.26e-021.26e-010.067
3204HOXA7LZE20THumanEsophagusESCC3.04e-041.68e-010.0662
3204HOXA7LZE22THumanEsophagusESCC1.17e-044.22e-010.068
3204HOXA7LZE24THumanEsophagusESCC1.96e-163.73e-010.0596
3204HOXA7LZE21THumanEsophagusESCC6.00e-053.47e-010.0655
3204HOXA7LZE6THumanEsophagusESCC2.44e-052.93e-010.0845
3204HOXA7P1T-EHumanEsophagusESCC5.07e-105.22e-010.0875
3204HOXA7P2T-EHumanEsophagusESCC2.52e-314.59e-010.1177
3204HOXA7P4T-EHumanEsophagusESCC1.07e-389.63e-010.1323
3204HOXA7P5T-EHumanEsophagusESCC1.45e-091.66e-010.1327
3204HOXA7P8T-EHumanEsophagusESCC3.44e-233.88e-010.0889
3204HOXA7P9T-EHumanEsophagusESCC1.94e-225.59e-010.1131
3204HOXA7P10T-EHumanEsophagusESCC7.38e-518.55e-010.116
3204HOXA7P12T-EHumanEsophagusESCC2.84e-377.06e-010.1122
3204HOXA7P15T-EHumanEsophagusESCC1.36e-214.85e-010.1149
3204HOXA7P16T-EHumanEsophagusESCC4.14e-244.99e-010.1153
3204HOXA7P17T-EHumanEsophagusESCC3.24e-041.88e-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
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:0030099111EsophagusESCCmyeloid cell differentiation232/8552381/187231.22e-092.90e-08232
GO:003158919EsophagusESCCcell-substrate adhesion221/8552363/187233.06e-096.62e-08221
GO:001081020EsophagusESCCregulation of cell-substrate adhesion144/8552221/187233.55e-097.45e-08144
GO:00435888EsophagusESCCskin development163/8552263/187236.48e-081.14e-06163
GO:000854410EsophagusESCCepidermis development193/8552324/187232.87e-074.19e-06193
GO:000195217EsophagusESCCregulation of cell-matrix adhesion85/8552128/187231.70e-062.02e-0585
GO:000257317EsophagusESCCmyeloid leukocyte differentiation128/8552208/187232.75e-063.15e-05128
GO:000716018EsophagusESCCcell-matrix adhesion141/8552233/187233.33e-063.71e-05141
GO:000991310EsophagusESCCepidermal cell differentiation122/8552202/187231.69e-051.51e-04122
GO:00456826EsophagusESCCregulation of epidermis development46/855265/187233.65e-052.97e-0446
GO:00488638EsophagusESCCstem cell differentiation122/8552206/187235.95e-054.59e-04122
GO:00302167EsophagusESCCkeratinocyte differentiation86/8552139/187238.53e-056.19e-0486
GO:00456046EsophagusESCCregulation of epidermal cell differentiation41/855258/187231.00e-047.10e-0441
GO:1903706110EsophagusESCCregulation of hemopoiesis201/8552367/187232.60e-041.58e-03201
GO:00485687EsophagusESCCembryonic organ development228/8552427/187237.28e-043.79e-03228
GO:000268316EsophagusESCCnegative regulation of immune system process231/8552434/187238.48e-044.36e-03231
GO:19031317EsophagusESCCmononuclear cell differentiation226/8552426/187231.20e-035.88e-03226
GO:0045637111EsophagusESCCregulation of myeloid cell differentiation118/8552210/187231.35e-036.43e-03118
GO:190210510EsophagusESCCregulation of leukocyte differentiation152/8552279/187231.82e-038.35e-03152
GO:00456167EsophagusESCCregulation of keratinocyte differentiation26/855237/187232.16e-039.62e-0326
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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
HOXA7MVACervixCCCFAP20,CCL23,INHBB, etc.1.38e-02The 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.
HOXA7ICAFCervixHSIL_HPVCFAP20,CCL23,INHBB, etc.2.99e-02The 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.
HOXA7MYOFIBEndometriumHealthyGPBAR1,INAFM2,APTR, etc.1.94e-01The 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.
HOXA7MSCEsophagusHealthySFRP4,HOXB7,HOXA5, etc.1.30e-02The 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.
HOXA7MSC.PVASkincSCCZBED5,MOSPD1,KLC2, etc.1.88e-02The 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.
HOXA7LYMENDSkinSCCISZBED5,MOSPD1,KLC2, etc.1.72e-02The 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.
∗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
HOXA7SNVMissense_Mutationnovelc.475N>Tp.Arg159Cysp.R159CP31268protein_codingdeleterious(0)probably_damaging(1)TCGA-AC-A62V-01Breastbreast invasive carcinomaMale<65III/IVTargeted Molecular therapydenosumabPD
HOXA7SNVMissense_Mutationc.542G>Ap.Arg181Hisp.R181HP31268protein_codingdeleterious(0)probably_damaging(1)TCGA-C8-A8HP-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapy5-fluorouracilCR
HOXA7insertionFrame_Shift_Insnovelc.439_440insGGACAATTCTTCTCTCGGGCTGCCCAAGCGACAGCTGTCAGp.Lys147ArgfsTer23p.K147Rfs*23P31268protein_codingTCGA-AN-A03X-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
HOXA7insertionFrame_Shift_Insnovelc.425_426insCGAGGGCGCCGTGCCCTCTGCCGCCGCCACTp.Leu143GlufsTer30p.L143Efs*30P31268protein_codingTCGA-B6-A0IJ-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
HOXA7SNVMissense_Mutationrs755438662c.89C>Tp.Ser30Phep.S30FP31268protein_codingdeleterious(0)possibly_damaging(0.592)TCGA-JX-A3Q0-01Cervixcervical & endocervical cancerFemale<65III/IVUnknownUnknownSD
HOXA7SNVMissense_Mutationnovelc.589N>Ap.Ala197Thrp.A197TP31268protein_codingtolerated(0.78)benign(0)TCGA-A6-2686-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownSD
HOXA7SNVMissense_Mutationnovelc.526N>Cp.Ile176Leup.I176LP31268protein_codingdeleterious(0.01)probably_damaging(1)TCGA-AA-3510-01Colorectumcolon adenocarcinomaMale>=65I/IIUnknownUnknownSD
HOXA7SNVMissense_Mutationnovelc.479G>Ap.Arg160Hisp.R160HP31268protein_codingdeleterious(0)probably_damaging(0.999)TCGA-AA-3877-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownSD
HOXA7SNVMissense_Mutationc.497N>Tp.Ala166Valp.A166VP31268protein_codingtolerated(0.08)possibly_damaging(0.663)TCGA-DC-6157-01Colorectumrectum adenocarcinomaMale<65I/IIUnknownUnknownSD
HOXA7SNVMissense_Mutationc.550N>Gp.Lys184Glup.K184EP31268protein_codingdeleterious(0)probably_damaging(1)TCGA-A5-A0GP-01Endometriumuterine corpus endometrioid carcinomaFemale<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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