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Gene: AP3B1 |
Gene summary for AP3B1 |
Gene summary. |
Gene information | Species | Human | Gene symbol | AP3B1 | Gene ID | 8546 |
Gene name | adaptor related protein complex 3 subunit beta 1 | |
Gene Alias | ADTB3 | |
Cytomap | 5q14.1 | |
Gene Type | protein-coding | GO ID | GO:0000003 | UniProtAcc | A0A0S2Z5J4 |
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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 |
8546 | AP3B1 | N_HPV_1 | Human | Cervix | N_HPV | 4.90e-02 | -8.42e-02 | 0.0079 |
8546 | AP3B1 | CCI_2 | Human | Cervix | CC | 1.14e-13 | 1.35e+00 | 0.5249 |
8546 | AP3B1 | CCI_3 | Human | Cervix | CC | 2.35e-09 | 7.92e-01 | 0.516 |
8546 | AP3B1 | HTA11_3410_2000001011 | Human | Colorectum | AD | 2.74e-15 | -6.38e-01 | 0.0155 |
8546 | AP3B1 | HTA11_3361_2000001011 | Human | Colorectum | AD | 1.33e-04 | -5.07e-01 | -0.1207 |
8546 | AP3B1 | HTA11_866_2000001011 | Human | Colorectum | AD | 5.74e-06 | -3.46e-01 | -0.1001 |
8546 | AP3B1 | HTA11_866_3004761011 | Human | Colorectum | AD | 7.62e-12 | -6.03e-01 | 0.096 |
8546 | AP3B1 | HTA11_10711_2000001011 | Human | Colorectum | AD | 6.23e-06 | -5.49e-01 | 0.0338 |
8546 | AP3B1 | HTA11_7696_3000711011 | Human | Colorectum | AD | 2.41e-09 | -4.07e-01 | 0.0674 |
8546 | AP3B1 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 2.34e-06 | -2.96e-01 | 0.294 |
8546 | AP3B1 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 1.03e-05 | -3.05e-01 | 0.3859 |
8546 | AP3B1 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 8.77e-31 | -6.71e-01 | 0.3005 |
8546 | AP3B1 | A015-C-203 | Human | Colorectum | FAP | 1.84e-38 | -4.60e-01 | -0.1294 |
8546 | AP3B1 | A015-C-204 | Human | Colorectum | FAP | 1.25e-02 | -2.52e-01 | -0.0228 |
8546 | AP3B1 | A014-C-040 | Human | Colorectum | FAP | 9.50e-03 | -2.96e-01 | -0.1184 |
8546 | AP3B1 | A002-C-201 | Human | Colorectum | FAP | 1.70e-13 | -3.77e-01 | 0.0324 |
8546 | AP3B1 | A002-C-203 | Human | Colorectum | FAP | 3.61e-08 | -1.99e-01 | 0.2786 |
8546 | AP3B1 | A001-C-119 | Human | Colorectum | FAP | 3.74e-03 | -2.52e-01 | -0.1557 |
8546 | AP3B1 | A001-C-108 | Human | Colorectum | FAP | 9.69e-21 | -2.00e-01 | -0.0272 |
8546 | AP3B1 | A002-C-205 | Human | Colorectum | FAP | 3.60e-19 | -2.84e-01 | -0.1236 |
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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. |
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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). |
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Enriched GO biological processes. |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:004206010 | Cervix | CC | wound healing | 109/2311 | 422/18723 | 1.84e-14 | 1.57e-11 | 109 |
GO:00085446 | Cervix | CC | epidermis development | 83/2311 | 324/18723 | 3.91e-11 | 8.54e-09 | 83 |
GO:00435884 | Cervix | CC | skin development | 71/2311 | 263/18723 | 8.04e-11 | 1.46e-08 | 71 |
GO:00725949 | Cervix | CC | establishment of protein localization to organelle | 99/2311 | 422/18723 | 1.23e-10 | 2.11e-08 | 99 |
GO:002240710 | Cervix | CC | regulation of cell-cell adhesion | 103/2311 | 448/18723 | 1.78e-10 | 2.87e-08 | 103 |
GO:004578510 | Cervix | CC | positive regulation of cell adhesion | 101/2311 | 437/18723 | 1.96e-10 | 3.08e-08 | 101 |
GO:00421108 | Cervix | CC | T cell activation | 107/2311 | 487/18723 | 1.24e-09 | 1.46e-07 | 107 |
GO:00508638 | Cervix | CC | regulation of T cell activation | 80/2311 | 329/18723 | 1.28e-09 | 1.47e-07 | 80 |
GO:00071598 | Cervix | CC | leukocyte cell-cell adhesion | 85/2311 | 371/18723 | 8.27e-09 | 7.07e-07 | 85 |
GO:19030378 | Cervix | CC | regulation of leukocyte cell-cell adhesion | 77/2311 | 336/18723 | 4.08e-08 | 2.54e-06 | 77 |
GO:003009910 | Cervix | CC | myeloid cell differentiation | 83/2311 | 381/18723 | 1.31e-07 | 6.42e-06 | 83 |
GO:00027644 | Cervix | CC | immune response-regulating signaling pathway | 97/2311 | 468/18723 | 1.49e-07 | 7.07e-06 | 97 |
GO:190370610 | Cervix | CC | regulation of hemopoiesis | 80/2311 | 367/18723 | 2.14e-07 | 9.55e-06 | 80 |
GO:001988410 | Cervix | CC | antigen processing and presentation of exogenous antigen | 20/2311 | 47/18723 | 2.18e-07 | 9.57e-06 | 20 |
GO:001988210 | Cervix | CC | antigen processing and presentation | 32/2311 | 106/18723 | 8.61e-07 | 3.08e-05 | 32 |
GO:004887210 | Cervix | CC | homeostasis of number of cells | 61/2311 | 272/18723 | 2.17e-06 | 6.55e-05 | 61 |
GO:000660510 | Cervix | CC | protein targeting | 68/2311 | 314/18723 | 2.17e-06 | 6.55e-05 | 68 |
GO:005087810 | Cervix | CC | regulation of body fluid levels | 78/2311 | 379/18723 | 3.20e-06 | 8.77e-05 | 78 |
GO:19021056 | Cervix | CC | regulation of leukocyte differentiation | 61/2311 | 279/18723 | 5.16e-06 | 1.29e-04 | 61 |
GO:00224099 | Cervix | CC | positive regulation of cell-cell adhesion | 61/2311 | 284/18723 | 9.30e-06 | 2.11e-04 | 61 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0414222 | Esophagus | ESCC | Lysosome | 102/4205 | 132/8465 | 5.11e-11 | 7.13e-10 | 3.65e-10 | 102 |
hsa0414232 | Esophagus | ESCC | Lysosome | 102/4205 | 132/8465 | 5.11e-11 | 7.13e-10 | 3.65e-10 | 102 |
hsa041422 | Liver | HCC | Lysosome | 100/4020 | 132/8465 | 2.32e-11 | 4.31e-10 | 2.40e-10 | 100 |
hsa041423 | Liver | HCC | Lysosome | 100/4020 | 132/8465 | 2.32e-11 | 4.31e-10 | 2.40e-10 | 100 |
hsa041425 | Oral cavity | OSCC | Lysosome | 87/3704 | 132/8465 | 1.97e-07 | 1.35e-06 | 6.86e-07 | 87 |
hsa0414212 | Oral cavity | OSCC | Lysosome | 87/3704 | 132/8465 | 1.97e-07 | 1.35e-06 | 6.86e-07 | 87 |
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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 |
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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. |
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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 |
AP3B1 | SNV | Missense_Mutation | rs149521661 | c.577N>A | p.Glu193Lys | p.E193K | O00203 | protein_coding | deleterious(0.02) | possibly_damaging(0.657) | TCGA-CN-5363-01 | Oral cavity | head & neck squamous cell carcinoma | Male | <65 | I/II | Unknown | Unknown | PD |
AP3B1 | SNV | Missense_Mutation | novel | c.2536C>A | p.Leu846Ile | p.L846I | O00203 | protein_coding | deleterious(0) | probably_damaging(0.967) | TCGA-CR-7370-01 | Oral cavity | head & neck squamous cell carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
AP3B1 | SNV | Missense_Mutation | novel | c.3045G>T | p.Gln1015His | p.Q1015H | O00203 | protein_coding | deleterious(0.01) | benign(0.365) | TCGA-CR-7374-01 | Oral cavity | head & neck squamous cell carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
AP3B1 | SNV | Missense_Mutation | c.92N>T | p.Ser31Leu | p.S31L | O00203 | protein_coding | deleterious(0.01) | benign(0.001) | TCGA-CR-7385-01 | Oral cavity | head & neck squamous cell carcinoma | Male | <65 | I/II | Chemotherapy | unknown | SD | |
AP3B1 | SNV | Missense_Mutation | c.1111T>C | p.Tyr371His | p.Y371H | O00203 | protein_coding | tolerated(0.19) | benign(0.147) | TCGA-B7-5816-01 | Stomach | stomach adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
AP3B1 | SNV | Missense_Mutation | c.2689N>C | p.Asp897His | p.D897H | O00203 | protein_coding | tolerated(0.1) | benign(0.005) | TCGA-BR-8289-01 | Stomach | stomach adenocarcinoma | Male | <65 | III/IV | Unknown | Unknown | SD | |
AP3B1 | SNV | Missense_Mutation | novel | c.144N>T | p.Lys48Asn | p.K48N | O00203 | protein_coding | deleterious(0) | probably_damaging(0.978) | TCGA-BR-8382-01 | Stomach | stomach adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
AP3B1 | SNV | Missense_Mutation | c.2113N>A | p.Glu705Lys | p.E705K | O00203 | protein_coding | tolerated(0.61) | benign(0) | TCGA-BR-8680-01 | Stomach | stomach adenocarcinoma | Male | <65 | III/IV | Chemotherapy | oxaliplatin | CR | |
AP3B1 | SNV | Missense_Mutation | c.1964N>C | p.Glu655Ala | p.E655A | O00203 | protein_coding | tolerated(0.2) | benign(0.007) | TCGA-BR-8680-01 | Stomach | stomach adenocarcinoma | Male | <65 | III/IV | Chemotherapy | oxaliplatin | CR | |
AP3B1 | SNV | Missense_Mutation | c.2791C>T | p.His931Tyr | p.H931Y | O00203 | protein_coding | deleterious(0.01) | benign(0.341) | TCGA-BR-A4QL-01 | Stomach | stomach adenocarcinoma | Female | >=65 | III/IV | Chemotherapy | xeloda | 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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