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Gene: VPS41 |
Gene summary for VPS41 |
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Gene information | Species | Human | Gene symbol | VPS41 | Gene ID | 27072 |
Gene name | VPS41 subunit of HOPS complex | |
Gene Alias | HVPS41 | |
Cytomap | 7p14.1 | |
Gene Type | protein-coding | GO ID | GO:0006605 | UniProtAcc | P49754 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
27072 | VPS41 | P21T-E | Human | Esophagus | ESCC | 3.18e-15 | 2.23e-01 | 0.1617 |
27072 | VPS41 | P22T-E | Human | Esophagus | ESCC | 1.69e-18 | 3.48e-01 | 0.1236 |
27072 | VPS41 | P23T-E | Human | Esophagus | ESCC | 5.06e-15 | 4.05e-01 | 0.108 |
27072 | VPS41 | P24T-E | Human | Esophagus | ESCC | 4.26e-15 | 3.23e-01 | 0.1287 |
27072 | VPS41 | P26T-E | Human | Esophagus | ESCC | 1.86e-24 | 4.69e-01 | 0.1276 |
27072 | VPS41 | P27T-E | Human | Esophagus | ESCC | 8.94e-18 | 3.36e-01 | 0.1055 |
27072 | VPS41 | P28T-E | Human | Esophagus | ESCC | 1.18e-13 | 3.12e-01 | 0.1149 |
27072 | VPS41 | P30T-E | Human | Esophagus | ESCC | 6.07e-10 | 5.82e-01 | 0.137 |
27072 | VPS41 | P31T-E | Human | Esophagus | ESCC | 2.40e-20 | 2.95e-01 | 0.1251 |
27072 | VPS41 | P32T-E | Human | Esophagus | ESCC | 1.79e-14 | 2.99e-01 | 0.1666 |
27072 | VPS41 | P36T-E | Human | Esophagus | ESCC | 7.47e-12 | 2.86e-01 | 0.1187 |
27072 | VPS41 | P37T-E | Human | Esophagus | ESCC | 6.28e-16 | 4.61e-01 | 0.1371 |
27072 | VPS41 | P38T-E | Human | Esophagus | ESCC | 2.88e-02 | 1.21e-01 | 0.127 |
27072 | VPS41 | P39T-E | Human | Esophagus | ESCC | 3.77e-15 | 2.71e-01 | 0.0894 |
27072 | VPS41 | P40T-E | Human | Esophagus | ESCC | 2.02e-08 | 2.48e-01 | 0.109 |
27072 | VPS41 | P42T-E | Human | Esophagus | ESCC | 3.57e-16 | 4.55e-01 | 0.1175 |
27072 | VPS41 | P44T-E | Human | Esophagus | ESCC | 6.65e-08 | 2.12e-01 | 0.1096 |
27072 | VPS41 | P47T-E | Human | Esophagus | ESCC | 1.04e-10 | 2.21e-01 | 0.1067 |
27072 | VPS41 | P48T-E | Human | Esophagus | ESCC | 1.53e-16 | 2.58e-01 | 0.0959 |
27072 | VPS41 | P49T-E | Human | Esophagus | ESCC | 1.00e-07 | 9.88e-01 | 0.1768 |
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∗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 |
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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 |
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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:0072594110 | Esophagus | ESCC | establishment of protein localization to organelle | 311/8552 | 422/18723 | 3.02e-32 | 2.13e-29 | 311 |
GO:001623617 | Esophagus | ESCC | macroautophagy | 216/8552 | 291/18723 | 1.94e-23 | 4.57e-21 | 216 |
GO:0006605111 | Esophagus | ESCC | protein targeting | 229/8552 | 314/18723 | 4.93e-23 | 1.01e-20 | 229 |
GO:001605014 | Esophagus | ESCC | vesicle organization | 211/8552 | 300/18723 | 2.85e-18 | 2.87e-16 | 211 |
GO:0071496111 | Esophagus | ESCC | cellular response to external stimulus | 215/8552 | 320/18723 | 4.29e-15 | 2.43e-13 | 215 |
GO:000703417 | Esophagus | ESCC | vacuolar transport | 119/8552 | 157/18723 | 1.16e-14 | 6.30e-13 | 119 |
GO:0031668111 | Esophagus | ESCC | cellular response to extracellular stimulus | 168/8552 | 246/18723 | 4.93e-13 | 2.23e-11 | 168 |
GO:0031669110 | Esophagus | ESCC | cellular response to nutrient levels | 148/8552 | 215/18723 | 4.58e-12 | 1.76e-10 | 148 |
GO:0031667111 | Esophagus | ESCC | response to nutrient levels | 289/8552 | 474/18723 | 9.25e-12 | 3.47e-10 | 289 |
GO:0009267110 | Esophagus | ESCC | cellular response to starvation | 110/8552 | 156/18723 | 2.63e-10 | 7.37e-09 | 110 |
GO:004259419 | Esophagus | ESCC | response to starvation | 133/8552 | 197/18723 | 4.31e-10 | 1.14e-08 | 133 |
GO:00070419 | Esophagus | ESCC | lysosomal transport | 83/8552 | 114/18723 | 3.52e-09 | 7.41e-08 | 83 |
GO:00726659 | Esophagus | ESCC | protein localization to vacuole | 52/8552 | 67/18723 | 9.14e-08 | 1.52e-06 | 52 |
GO:00482844 | Esophagus | ESCC | organelle fusion | 94/8552 | 141/18723 | 3.72e-07 | 5.16e-06 | 94 |
GO:00066238 | Esophagus | ESCC | protein targeting to vacuole | 31/8552 | 37/18723 | 1.95e-06 | 2.26e-05 | 31 |
GO:00901743 | Esophagus | ESCC | organelle membrane fusion | 73/8552 | 110/18723 | 9.29e-06 | 8.88e-05 | 73 |
GO:00069063 | Esophagus | ESCC | vesicle fusion | 70/8552 | 106/18723 | 1.82e-05 | 1.60e-04 | 70 |
GO:00726668 | Esophagus | ESCC | establishment of protein localization to vacuole | 37/8552 | 49/18723 | 2.05e-05 | 1.78e-04 | 37 |
GO:00083333 | Esophagus | ESCC | endosome to lysosome transport | 40/8552 | 55/18723 | 4.27e-05 | 3.42e-04 | 40 |
GO:00610254 | Esophagus | ESCC | membrane fusion | 98/8552 | 163/18723 | 1.39e-04 | 9.41e-04 | 98 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa05132211 | Esophagus | ESCC | Salmonella infection | 191/4205 | 249/8465 | 6.51e-19 | 5.45e-17 | 2.79e-17 | 191 |
hsa05132310 | Esophagus | ESCC | Salmonella infection | 191/4205 | 249/8465 | 6.51e-19 | 5.45e-17 | 2.79e-17 | 191 |
hsa0513214 | Liver | NAFLD | Salmonella infection | 55/1043 | 249/8465 | 8.48e-06 | 3.09e-04 | 2.49e-04 | 55 |
hsa0513215 | Liver | NAFLD | Salmonella infection | 55/1043 | 249/8465 | 8.48e-06 | 3.09e-04 | 2.49e-04 | 55 |
hsa0513222 | Liver | Cirrhotic | Salmonella infection | 121/2530 | 249/8465 | 2.47e-10 | 5.13e-09 | 3.16e-09 | 121 |
hsa0513232 | Liver | Cirrhotic | Salmonella infection | 121/2530 | 249/8465 | 2.47e-10 | 5.13e-09 | 3.16e-09 | 121 |
hsa0513242 | Liver | HCC | Salmonella infection | 178/4020 | 249/8465 | 5.90e-15 | 1.98e-13 | 1.10e-13 | 178 |
hsa0513252 | Liver | HCC | Salmonella infection | 178/4020 | 249/8465 | 5.90e-15 | 1.98e-13 | 1.10e-13 | 178 |
hsa0513216 | Lung | IAC | Salmonella infection | 52/1053 | 249/8465 | 9.46e-05 | 1.28e-03 | 8.50e-04 | 52 |
hsa0513217 | Lung | IAC | Salmonella infection | 52/1053 | 249/8465 | 9.46e-05 | 1.28e-03 | 8.50e-04 | 52 |
hsa0513223 | Lung | AIS | Salmonella infection | 50/961 | 249/8465 | 3.47e-05 | 5.62e-04 | 3.59e-04 | 50 |
hsa0513233 | Lung | AIS | Salmonella infection | 50/961 | 249/8465 | 3.47e-05 | 5.62e-04 | 3.59e-04 | 50 |
hsa0513230 | Oral cavity | OSCC | Salmonella infection | 174/3704 | 249/8465 | 2.67e-17 | 1.49e-15 | 7.58e-16 | 174 |
hsa05132114 | Oral cavity | OSCC | Salmonella infection | 174/3704 | 249/8465 | 2.67e-17 | 1.49e-15 | 7.58e-16 | 174 |
hsa0513245 | Oral cavity | EOLP | Salmonella infection | 78/1218 | 249/8465 | 3.66e-12 | 2.37e-10 | 1.40e-10 | 78 |
hsa0513255 | Oral cavity | EOLP | Salmonella infection | 78/1218 | 249/8465 | 3.66e-12 | 2.37e-10 | 1.40e-10 | 78 |
hsa0513229 | Prostate | Tumor | Salmonella infection | 98/1791 | 249/8465 | 2.55e-11 | 5.28e-10 | 3.27e-10 | 98 |
hsa0513237 | Prostate | Tumor | Salmonella infection | 98/1791 | 249/8465 | 2.55e-11 | 5.28e-10 | 3.27e-10 | 98 |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
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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. |
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Somatic mutation of malignant transformation related genes |
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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 |
VPS41 | SNV | Missense_Mutation | novel | c.1264C>A | p.Leu422Ile | p.L422I | P49754 | protein_coding | deleterious(0.01) | probably_damaging(0.991) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
VPS41 | SNV | Missense_Mutation | novel | c.1835N>G | p.Tyr612Cys | p.Y612C | P49754 | protein_coding | deleterious(0) | possibly_damaging(0.733) | TCGA-AN-A0AK-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
VPS41 | SNV | Missense_Mutation | c.1566N>C | p.Lys522Asn | p.K522N | P49754 | protein_coding | tolerated(0.12) | benign(0.022) | TCGA-B6-A0RV-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD | |
VPS41 | SNV | Missense_Mutation | c.2281N>G | p.Lys761Glu | p.K761E | P49754 | protein_coding | deleterious(0.01) | possibly_damaging(0.907) | TCGA-C8-A12X-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
VPS41 | SNV | Missense_Mutation | c.1189N>T | p.Ile397Phe | p.I397F | P49754 | protein_coding | deleterious(0) | possibly_damaging(0.879) | TCGA-C8-A132-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
VPS41 | SNV | Missense_Mutation | rs755139889 | c.73G>A | p.Glu25Lys | p.E25K | P49754 | protein_coding | deleterious(0.01) | probably_damaging(0.935) | TCGA-E2-A56Z-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | arimidex | SD |
VPS41 | insertion | Frame_Shift_Ins | novel | c.575_576insTAAAA | p.Ile194ArgfsTer20 | p.I194Rfs*20 | P49754 | protein_coding | TCGA-AR-A0TU-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unspecific | Doxorubicin | SD | ||
VPS41 | deletion | Frame_Shift_Del | novel | c.1866delN | p.Glu622AspfsTer32 | p.E622Dfs*32 | P49754 | protein_coding | TCGA-D8-A27V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | ||
VPS41 | deletion | Frame_Shift_Del | novel | c.1274delN | p.Asn425MetfsTer32 | p.N425Mfs*32 | P49754 | protein_coding | TCGA-EW-A2FV-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | docetaxel | SD | ||
VPS41 | SNV | Missense_Mutation | novel | c.1483N>A | p.Gln495Lys | p.Q495K | P49754 | protein_coding | tolerated(0.15) | benign(0.201) | TCGA-C5-A8XJ-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Chemotherapy | cisplatin | SD |
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Related drugs of malignant transformation related genes |
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(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
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