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Gene: DENND6A |
Gene summary for DENND6A |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | DENND6A | Gene ID | 201627 |
| Gene name | DENN domain containing 6A | |
| Gene Alias | AFI1A | |
| Cytomap | 3p14.3 | |
| Gene Type | protein-coding | GO ID | GO:0007155 | UniProtAcc | Q8IWF6 |
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Malignant transformation analysis |
| 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 |
| Malignant transformation involving gene list. |
| Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
| 201627 | DENND6A | GSM6177620_NYU_UCEC1_lib1_lib1 | Human | Endometrium | EEC | 8.13e-05 | -5.42e-02 | -0.1869 |
| 201627 | DENND6A | GSM6177620_NYU_UCEC1_lib3_lib3 | Human | Endometrium | EEC | 1.32e-05 | -2.94e-02 | -0.1883 |
| 201627 | DENND6A | GSM6177621_NYU_UCEC2_lib1_lib1 | Human | Endometrium | EEC | 4.49e-03 | -1.74e-02 | -0.1934 |
| 201627 | DENND6A | GSM6177622_NYU_UCEC3_lib1_lib1 | Human | Endometrium | EEC | 1.97e-05 | 3.35e-02 | -0.1917 |
| 201627 | DENND6A | GSM6177622_NYU_UCEC3_lib2_lib2 | Human | Endometrium | EEC | 2.85e-06 | 2.86e-02 | -0.1916 |
| 201627 | DENND6A | HCC1_Meng | Human | Liver | HCC | 2.00e-20 | -2.48e-02 | 0.0246 |
| 201627 | DENND6A | HCC2_Meng | Human | Liver | HCC | 3.65e-11 | 4.59e-02 | 0.0107 |
| 201627 | DENND6A | HCC1 | Human | Liver | HCC | 1.08e-02 | 1.18e+00 | 0.5336 |
| 201627 | DENND6A | HCC2 | Human | Liver | HCC | 3.63e-09 | 2.81e+00 | 0.5341 |
| 201627 | DENND6A | S014 | Human | Liver | HCC | 1.75e-02 | 2.50e-01 | 0.2254 |
| 201627 | DENND6A | S016 | Human | Liver | HCC | 3.00e-02 | 2.57e-01 | 0.2243 |
| 201627 | DENND6A | S028 | Human | Liver | HCC | 8.66e-10 | 5.00e-01 | 0.2503 |
| 201627 | DENND6A | S029 | Human | Liver | HCC | 1.04e-06 | 4.39e-01 | 0.2581 |
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| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Endometrium |  | AEH: Atypical endometrial hyperplasia |
| EEC: Endometrioid Cancer | ||
| Liver |  | 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 |
| Find out the enriched GO biological processes and KEGG pathways involved in transition from healthy to precancer to cancer |
| Figure of enriched GO biological processes. |
| Tissue | Disease Stage | Enriched GO biological Processes |
| Colorectum | AD |  |
| Colorectum | SER |  |
| Colorectum | MSS |  |
| Colorectum | MSI-H |  |
| Colorectum | FAP |  |
| ∗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 |
| Enriched GO biological processes. |
| GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
| GO:004578517 | Endometrium | EEC | positive regulation of cell adhesion | 98/2168 | 437/18723 | 6.15e-11 | 8.38e-09 | 98 |
| GO:002240715 | Endometrium | EEC | regulation of cell-cell adhesion | 84/2168 | 448/18723 | 4.98e-06 | 1.24e-04 | 84 |
| GO:002240914 | Endometrium | EEC | positive regulation of cell-cell adhesion | 56/2168 | 284/18723 | 4.36e-05 | 7.15e-04 | 56 |
| GO:004578512 | Liver | HCC | positive regulation of cell adhesion | 215/7958 | 437/18723 | 2.53e-03 | 1.22e-02 | 215 |
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| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
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Cell-cell communication analysis |
| Identification of potential cell-cell interactions between two cell types and their ligand-receptor pairs for different disease states |
| Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
| Page: 1 |
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Single-cell gene regulatory network inference analysis |
| Find out the significant the regulons (TFs) and the target genes of each regulon across cell types for different disease states |
| TF | Cell Type | Tissue | Disease Stage | Target Gene | RSS | Regulon 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 |
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Somatic mutation of malignant transformation related genes |
| Annotation of somatic variants for genes involved in malignant transformation |
| Hugo Symbol | Variant Class | Variant Classification | dbSNP RS | HGVSc | HGVSp | HGVSp Short | SWISSPROT | BIOTYPE | SIFT | PolyPhen | Tumor Sample Barcode | Tissue | Histology | Sex | Age | Stage | Therapy Types | Drugs | Outcome |
| DENND6A | SNV | Missense_Mutation | c.317N>T | p.Ser106Leu | p.S106L | Q8IWF6 | protein_coding | deleterious(0) | probably_damaging(0.948) | TCGA-66-2754-01 | Lung | lung squamous cell carcinoma | Male | >=65 | III/IV | Unknown | Unknown | SD | |
| DENND6A | insertion | Frame_Shift_Ins | rs757323032 | c.1074dupT | p.Ala359CysfsTer2 | p.A359Cfs*2 | Q8IWF6 | protein_coding | TCGA-94-8490-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | ||
| DENND6A | SNV | Missense_Mutation | novel | c.1474N>G | p.Gln492Glu | p.Q492E | Q8IWF6 | protein_coding | deleterious(0) | probably_damaging(0.986) | TCGA-CV-6940-01 | Oral cavity | head & neck squamous cell carcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
| DENND6A | SNV | Missense_Mutation | c.1606N>A | p.Ala536Thr | p.A536T | Q8IWF6 | protein_coding | tolerated(0.07) | possibly_damaging(0.787) | TCGA-BR-8680-01 | Stomach | stomach adenocarcinoma | Male | <65 | III/IV | Chemotherapy | oxaliplatin | CR | |
| DENND6A | SNV | Missense_Mutation | c.412N>T | p.Asp138Tyr | p.D138Y | Q8IWF6 | protein_coding | deleterious(0.01) | benign(0.156) | TCGA-BR-8680-01 | Stomach | stomach adenocarcinoma | Male | <65 | III/IV | Chemotherapy | oxaliplatin | CR | |
| DENND6A | SNV | Missense_Mutation | c.1649N>G | p.Thr550Arg | p.T550R | Q8IWF6 | protein_coding | tolerated(0.1) | benign(0.347) | TCGA-CG-4305-01 | Stomach | stomach adenocarcinoma | Male | >=65 | I/II | Chemotherapy | cisplatin | CR | |
| DENND6A | SNV | Missense_Mutation | novel | c.875N>T | p.Gly292Val | p.G292V | Q8IWF6 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-IN-A6RN-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| DENND6A | insertion | Frame_Shift_Ins | rs757323032 | c.1074_1075insT | p.Ala359CysfsTer2 | p.A359Cfs*2 | Q8IWF6 | protein_coding | TCGA-BR-4201-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Chemotherapy | cisplatin | SD | ||
| DENND6A | deletion | Frame_Shift_Del | c.1322delN | p.Leu441TrpfsTer3 | p.L441Wfs*3 | Q8IWF6 | protein_coding | TCGA-CD-A4MI-01 | Stomach | stomach adenocarcinoma | Male | <65 | III/IV | Unknown | Unknown | PD | |||
| DENND6A | deletion | Frame_Shift_Del | rs34959359 | c.1074delN | p.Phe358LeufsTer14 | p.F358Lfs*14 | Q8IWF6 | protein_coding | TCGA-CG-4305-01 | Stomach | stomach adenocarcinoma | Male | >=65 | I/II | Chemotherapy | cisplatin | CR |
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Related drugs of malignant transformation related genes |
| Identification of chemicals and drugs interact with genes involved in malignant transfromation |
| (DGIdb 4.0) |
| Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
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