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Gene: ATP6V0D1 |
Gene summary for ATP6V0D1 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | ATP6V0D1 | Gene ID | 9114 |
| Gene name | ATPase H+ transporting V0 subunit d1 | |
| Gene Alias | ATP6D | |
| Cytomap | 16q22.1 | |
| Gene Type | protein-coding | GO ID | GO:0006810 | UniProtAcc | P61421 |
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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 |
| 9114 | ATP6V0D1 | HTA11_2487_2000001011 | Human | Colorectum | SER | 3.78e-13 | 7.76e-01 | -0.1808 |
| 9114 | ATP6V0D1 | HTA11_347_2000001011 | Human | Colorectum | AD | 3.19e-14 | 6.00e-01 | -0.1954 |
| 9114 | ATP6V0D1 | HTA11_411_2000001011 | Human | Colorectum | SER | 1.44e-03 | 1.14e+00 | -0.2602 |
| 9114 | ATP6V0D1 | HTA11_2112_2000001011 | Human | Colorectum | SER | 5.67e-03 | 6.93e-01 | -0.2196 |
| 9114 | ATP6V0D1 | HTA11_3361_2000001011 | Human | Colorectum | AD | 2.58e-05 | 6.58e-01 | -0.1207 |
| 9114 | ATP6V0D1 | HTA11_696_2000001011 | Human | Colorectum | AD | 1.08e-23 | 8.96e-01 | -0.1464 |
| 9114 | ATP6V0D1 | HTA11_866_2000001011 | Human | Colorectum | AD | 2.96e-04 | 4.03e-01 | -0.1001 |
| 9114 | ATP6V0D1 | HTA11_2992_2000001011 | Human | Colorectum | SER | 7.72e-04 | 7.12e-01 | -0.1706 |
| 9114 | ATP6V0D1 | HTA11_5212_2000001011 | Human | Colorectum | AD | 8.64e-05 | 6.50e-01 | -0.2061 |
| 9114 | ATP6V0D1 | HTA11_7696_3000711011 | Human | Colorectum | AD | 2.27e-02 | 3.23e-01 | 0.0674 |
| 9114 | ATP6V0D1 | A015-C-203 | Human | Colorectum | FAP | 7.16e-04 | -9.60e-02 | -0.1294 |
| 9114 | ATP6V0D1 | A001-C-108 | Human | Colorectum | FAP | 1.88e-03 | -1.53e-01 | -0.0272 |
| 9114 | ATP6V0D1 | A002-C-205 | Human | Colorectum | FAP | 4.79e-03 | -1.08e-01 | -0.1236 |
| 9114 | ATP6V0D1 | A015-C-006 | Human | Colorectum | FAP | 5.46e-03 | -1.83e-01 | -0.0994 |
| 9114 | ATP6V0D1 | A002-C-114 | Human | Colorectum | FAP | 4.63e-02 | -1.13e-01 | -0.1561 |
| 9114 | ATP6V0D1 | A015-C-104 | Human | Colorectum | FAP | 1.62e-04 | -1.52e-01 | -0.1899 |
| 9114 | ATP6V0D1 | A002-C-016 | Human | Colorectum | FAP | 9.72e-03 | -8.09e-02 | 0.0521 |
| 9114 | ATP6V0D1 | A001-C-203 | Human | Colorectum | FAP | 1.22e-02 | -1.27e-01 | -0.0481 |
| 9114 | ATP6V0D1 | A002-C-116 | Human | Colorectum | FAP | 1.67e-05 | -1.28e-01 | -0.0452 |
| 9114 | ATP6V0D1 | A014-C-008 | Human | Colorectum | FAP | 4.56e-03 | -2.05e-01 | -0.191 |
| Page: 1 2 3 4 5 6 7 8 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Colorectum (GSE201348) |  | FAP: Familial adenomatous polyposis |
| CRC: Colorectal cancer | ||
| Colorectum (HTA11) |  | AD: Adenomas |
| SER: Sessile serrated lesions | ||
| MSI-H: Microsatellite-high colorectal cancer | ||
| MSS: Microsatellite stable colorectal cancer | ||
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| Liver |  | HCC: Hepatocellular carcinoma |
| NAFLD: Non-alcoholic fatty liver disease | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma | ||
| Skin |  | AK: Actinic keratosis |
| cSCC: Cutaneous squamous cell carcinoma | ||
| SCCIS:squamous cell carcinoma in situ | ||
| Thyroid |  | 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 |
| 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:1902600 | Colorectum | AD | proton transmembrane transport | 66/3918 | 157/18723 | 1.59e-09 | 1.17e-07 | 66 |
| GO:0010506 | Colorectum | AD | regulation of autophagy | 111/3918 | 317/18723 | 3.57e-09 | 2.35e-07 | 111 |
| GO:0016236 | Colorectum | AD | macroautophagy | 103/3918 | 291/18723 | 6.76e-09 | 4.15e-07 | 103 |
| GO:0007034 | Colorectum | AD | vacuolar transport | 60/3918 | 157/18723 | 4.97e-07 | 1.85e-05 | 60 |
| GO:0055076 | Colorectum | AD | transition metal ion homeostasis | 53/3918 | 138/18723 | 1.89e-06 | 5.65e-05 | 53 |
| GO:0046916 | Colorectum | AD | cellular transition metal ion homeostasis | 43/3918 | 115/18723 | 3.62e-05 | 6.56e-04 | 43 |
| GO:0016241 | Colorectum | AD | regulation of macroautophagy | 50/3918 | 141/18723 | 4.55e-05 | 7.92e-04 | 50 |
| GO:0055072 | Colorectum | AD | iron ion homeostasis | 32/3918 | 85/18723 | 2.97e-04 | 3.60e-03 | 32 |
| GO:0070482 | Colorectum | AD | response to oxygen levels | 99/3918 | 347/18723 | 4.29e-04 | 4.82e-03 | 99 |
| GO:0036295 | Colorectum | AD | cellular response to increased oxygen levels | 9/3918 | 14/18723 | 5.43e-04 | 5.79e-03 | 9 |
| GO:0030004 | Colorectum | AD | cellular monovalent inorganic cation homeostasis | 36/3918 | 103/18723 | 6.80e-04 | 6.95e-03 | 36 |
| GO:0071453 | Colorectum | AD | cellular response to oxygen levels | 55/3918 | 177/18723 | 9.48e-04 | 8.96e-03 | 55 |
| GO:0030641 | Colorectum | AD | regulation of cellular pH | 29/3918 | 81/18723 | 1.42e-03 | 1.22e-02 | 29 |
| GO:0006879 | Colorectum | AD | cellular iron ion homeostasis | 25/3918 | 67/18723 | 1.51e-03 | 1.27e-02 | 25 |
| GO:0051453 | Colorectum | AD | regulation of intracellular pH | 26/3918 | 75/18723 | 4.04e-03 | 2.82e-02 | 26 |
| GO:0006885 | Colorectum | AD | regulation of pH | 30/3918 | 91/18723 | 4.95e-03 | 3.32e-02 | 30 |
| GO:0055067 | Colorectum | AD | monovalent inorganic cation homeostasis | 45/3918 | 151/18723 | 6.19e-03 | 3.88e-02 | 45 |
| GO:19026001 | Colorectum | SER | proton transmembrane transport | 60/2897 | 157/18723 | 3.12e-12 | 7.08e-10 | 60 |
| GO:00162361 | Colorectum | SER | macroautophagy | 79/2897 | 291/18723 | 1.97e-07 | 1.10e-05 | 79 |
| GO:00550761 | Colorectum | SER | transition metal ion homeostasis | 41/2897 | 138/18723 | 1.66e-05 | 5.05e-04 | 41 |
| Page: 1 2 3 4 5 6 7 8 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| hsa00190 | Colorectum | AD | Oxidative phosphorylation | 86/2092 | 134/8465 | 2.47e-22 | 2.76e-20 | 1.76e-20 | 86 |
| hsa05110 | Colorectum | AD | Vibrio cholerae infection | 29/2092 | 50/8465 | 5.10e-07 | 7.12e-06 | 4.54e-06 | 29 |
| hsa001901 | Colorectum | AD | Oxidative phosphorylation | 86/2092 | 134/8465 | 2.47e-22 | 2.76e-20 | 1.76e-20 | 86 |
| hsa051101 | Colorectum | AD | Vibrio cholerae infection | 29/2092 | 50/8465 | 5.10e-07 | 7.12e-06 | 4.54e-06 | 29 |
| hsa001902 | Colorectum | SER | Oxidative phosphorylation | 79/1580 | 134/8465 | 1.98e-25 | 1.64e-23 | 1.19e-23 | 79 |
| hsa051102 | Colorectum | SER | Vibrio cholerae infection | 24/1580 | 50/8465 | 2.17e-06 | 3.13e-05 | 2.28e-05 | 24 |
| hsa04142 | Colorectum | SER | Lysosome | 38/1580 | 132/8465 | 2.87e-03 | 2.03e-02 | 1.47e-02 | 38 |
| hsa001903 | Colorectum | SER | Oxidative phosphorylation | 79/1580 | 134/8465 | 1.98e-25 | 1.64e-23 | 1.19e-23 | 79 |
| hsa051103 | Colorectum | SER | Vibrio cholerae infection | 24/1580 | 50/8465 | 2.17e-06 | 3.13e-05 | 2.28e-05 | 24 |
| hsa041421 | Colorectum | SER | Lysosome | 38/1580 | 132/8465 | 2.87e-03 | 2.03e-02 | 1.47e-02 | 38 |
| hsa001908 | Colorectum | FAP | Oxidative phosphorylation | 44/1404 | 134/8465 | 2.56e-06 | 4.28e-05 | 2.60e-05 | 44 |
| hsa051108 | Colorectum | FAP | Vibrio cholerae infection | 19/1404 | 50/8465 | 2.24e-04 | 1.92e-03 | 1.17e-03 | 19 |
| hsa001909 | Colorectum | FAP | Oxidative phosphorylation | 44/1404 | 134/8465 | 2.56e-06 | 4.28e-05 | 2.60e-05 | 44 |
| hsa051109 | Colorectum | FAP | Vibrio cholerae infection | 19/1404 | 50/8465 | 2.24e-04 | 1.92e-03 | 1.17e-03 | 19 |
| hsa00190210 | Esophagus | ESCC | Oxidative phosphorylation | 104/4205 | 134/8465 | 2.04e-11 | 2.98e-10 | 1.53e-10 | 104 |
| hsa0414222 | Esophagus | ESCC | Lysosome | 102/4205 | 132/8465 | 5.11e-11 | 7.13e-10 | 3.65e-10 | 102 |
| hsa0516510 | Esophagus | ESCC | Human papillomavirus infection | 215/4205 | 331/8465 | 7.86e-09 | 7.12e-08 | 3.65e-08 | 215 |
| hsa0520325 | Esophagus | ESCC | Viral carcinogenesis | 137/4205 | 204/8465 | 2.47e-07 | 1.88e-06 | 9.62e-07 | 137 |
| hsa0512018 | Esophagus | ESCC | Epithelial cell signaling in Helicobacter pylori infection | 52/4205 | 70/8465 | 2.17e-05 | 1.07e-04 | 5.47e-05 | 52 |
| hsa0414530 | Esophagus | ESCC | Phagosome | 100/4205 | 152/8465 | 3.81e-05 | 1.72e-04 | 8.82e-05 | 100 |
| Page: 1 2 3 4 5 |
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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 |
| ATP6V0D1 | SNV | Missense_Mutation | novel | c.368C>T | p.Ala123Val | p.A123V | P61421 | protein_coding | tolerated(0.14) | benign(0) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| ATP6V0D1 | SNV | Missense_Mutation | c.91N>A | p.Ala31Thr | p.A31T | P61421 | protein_coding | tolerated(0.49) | benign(0.001) | TCGA-C5-A1ME-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
| ATP6V0D1 | SNV | Missense_Mutation | c.386G>A | p.Cys129Tyr | p.C129Y | P61421 | protein_coding | deleterious(0) | probably_damaging(0.99) | TCGA-A6-6780-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
| ATP6V0D1 | SNV | Missense_Mutation | rs747711094 | c.1009N>A | p.Ala337Thr | p.A337T | P61421 | protein_coding | tolerated(0.1) | probably_damaging(0.989) | TCGA-AA-3877-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| ATP6V0D1 | SNV | Missense_Mutation | rs755703812 | c.829N>T | p.Leu277Phe | p.L277F | P61421 | protein_coding | tolerated(0.89) | probably_damaging(0.992) | TCGA-AA-3877-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| ATP6V0D1 | SNV | Missense_Mutation | c.994A>T | p.Ile332Phe | p.I332F | P61421 | protein_coding | deleterious(0) | probably_damaging(0.954) | TCGA-AD-6895-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Unknown | Unknown | SD | |
| ATP6V0D1 | SNV | Missense_Mutation | novel | c.631N>C | p.Ile211Leu | p.I211L | P61421 | protein_coding | tolerated(0.52) | benign(0.015) | TCGA-AG-A036-01 | Colorectum | rectum adenocarcinoma | Male | >=65 | III/IV | Chemotherapy | 5-fluorouracil | CR |
| ATP6V0D1 | SNV | Missense_Mutation | c.538N>C | p.Ile180Leu | p.I180L | P61421 | protein_coding | tolerated(0.06) | possibly_damaging(0.768) | TCGA-EI-6917-01 | Colorectum | rectum adenocarcinoma | Male | <65 | III/IV | Chemotherapy | 5fluorouracil+oxaciplatina+l-folinian | SD | |
| ATP6V0D1 | SNV | Missense_Mutation | rs765114517 | c.882N>A | p.Phe294Leu | p.F294L | P61421 | protein_coding | deleterious(0.05) | probably_damaging(0.95) | TCGA-F5-6814-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| ATP6V0D1 | SNV | Missense_Mutation | novel | c.988N>A | p.Val330Met | p.V330M | P61421 | protein_coding | tolerated(0.28) | probably_damaging(0.993) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
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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 |
| Page: 1 |
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