|
|||||
|
 | |
| |
| |
| |
| |
| |
|
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 |
Top |
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 |
| Page: 1 2 3 4 5 6 7 8 9 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Cervix |  | CC: Cervix cancer |
| HSIL_HPV: HPV-infected high-grade squamous intraepithelial lesions | ||
| N_HPV: HPV-infected normal cervix | ||
| 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 | ||
| Endometrium |  | AEH: Atypical endometrial hyperplasia |
| EEC: Endometrioid 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 | ||
| Lung |  | AAH: Atypical adenomatous hyperplasia |
| AIS: Adenocarcinoma in situ | ||
| IAC: Invasive lung adenocarcinoma | ||
| MIA: Minimally invasive adenocarcinoma | ||
| 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. |
Top |
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:190303922 | Cervix | N_HPV | positive regulation of leukocyte cell-cell adhesion | 22/534 | 239/18723 | 1.48e-06 | 7.86e-05 | 22 |
| GO:007259424 | Cervix | N_HPV | establishment of protein localization to organelle | 31/534 | 422/18723 | 1.63e-06 | 8.54e-05 | 31 |
| GO:005125121 | Cervix | N_HPV | positive regulation of lymphocyte activation | 28/534 | 362/18723 | 1.93e-06 | 9.68e-05 | 28 |
| GO:005087022 | Cervix | N_HPV | positive regulation of T cell activation | 20/534 | 216/18723 | 4.05e-06 | 1.60e-04 | 20 |
| GO:002240922 | Cervix | N_HPV | positive regulation of cell-cell adhesion | 23/534 | 284/18723 | 7.53e-06 | 2.66e-04 | 23 |
| GO:007058514 | Cervix | N_HPV | protein localization to mitochondrion | 14/534 | 125/18723 | 1.34e-05 | 4.27e-04 | 14 |
| GO:000257322 | Cervix | N_HPV | myeloid leukocyte differentiation | 18/534 | 208/18723 | 3.04e-05 | 8.02e-04 | 18 |
| GO:004206025 | Cervix | N_HPV | wound healing | 28/534 | 422/18723 | 3.37e-05 | 8.58e-04 | 28 |
| GO:004887225 | Cervix | N_HPV | homeostasis of number of cells | 21/534 | 272/18723 | 3.79e-05 | 9.37e-04 | 21 |
| GO:007265514 | Cervix | N_HPV | establishment of protein localization to mitochondrion | 13/534 | 120/18723 | 3.86e-05 | 9.41e-04 | 13 |
| GO:000854423 | Cervix | N_HPV | epidermis development | 21/534 | 324/18723 | 4.32e-04 | 6.01e-03 | 21 |
| GO:004358821 | Cervix | N_HPV | skin development | 18/534 | 263/18723 | 5.79e-04 | 7.67e-03 | 18 |
| GO:005507623 | Cervix | N_HPV | transition metal ion homeostasis | 12/534 | 138/18723 | 6.00e-04 | 7.86e-03 | 12 |
| GO:000660515 | Cervix | N_HPV | protein targeting | 20/534 | 314/18723 | 7.30e-04 | 9.21e-03 | 20 |
| GO:190210522 | Cervix | N_HPV | regulation of leukocyte differentiation | 18/534 | 279/18723 | 1.14e-03 | 1.31e-02 | 18 |
| GO:00302172 | Cervix | N_HPV | T cell differentiation | 17/534 | 257/18723 | 1.18e-03 | 1.33e-02 | 17 |
| GO:190313121 | Cervix | N_HPV | mononuclear cell differentiation | 24/534 | 426/18723 | 1.27e-03 | 1.40e-02 | 24 |
| GO:005087824 | Cervix | N_HPV | regulation of body fluid levels | 22/534 | 379/18723 | 1.37e-03 | 1.49e-02 | 22 |
| GO:009015113 | Cervix | N_HPV | establishment of protein localization to mitochondrial membrane | 5/534 | 30/18723 | 1.46e-03 | 1.55e-02 | 5 |
| GO:004691613 | Cervix | N_HPV | cellular transition metal ion homeostasis | 10/534 | 115/18723 | 1.68e-03 | 1.72e-02 | 10 |
| Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 |
| 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 |
| Page: 1 |
Top |
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 |
Top |
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 |
Top |
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 | rs757690159 | c.3085N>T | p.Val1029Leu | p.V1029L | O00203 | protein_coding | tolerated(0.12) | benign(0.007) | TCGA-A8-A09V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD |
| AP3B1 | SNV | Missense_Mutation | rs758805835 | c.1331A>G | p.Asn444Ser | p.N444S | O00203 | protein_coding | tolerated(0.28) | benign(0.006) | TCGA-A8-A0A2-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | tamoxiphen | SD |
| AP3B1 | SNV | Missense_Mutation | c.356N>G | p.Thr119Ser | p.T119S | O00203 | protein_coding | tolerated(0.05) | benign(0.19) | TCGA-B6-A0X5-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | PD | |
| AP3B1 | SNV | Missense_Mutation | c.1846C>T | p.His616Tyr | p.H616Y | O00203 | protein_coding | deleterious(0) | possibly_damaging(0.474) | TCGA-BH-A0DK-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | |
| AP3B1 | SNV | Missense_Mutation | novel | c.2479N>T | p.Val827Leu | p.V827L | O00203 | protein_coding | tolerated(0.23) | benign(0.017) | TCGA-BH-A0DQ-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD |
| AP3B1 | SNV | Missense_Mutation | novel | c.334N>T | p.Leu112Phe | p.L112F | O00203 | protein_coding | deleterious(0.01) | probably_damaging(0.979) | TCGA-D8-A1XM-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| AP3B1 | SNV | Missense_Mutation | rs367631130 | c.680N>A | p.Arg227His | p.R227H | O00203 | protein_coding | deleterious(0) | probably_damaging(0.969) | TCGA-D8-A1XY-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | tamoxiphen | SD |
| AP3B1 | SNV | Missense_Mutation | novel | c.3248T>C | p.Leu1083Pro | p.L1083P | O00203 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| AP3B1 | SNV | Missense_Mutation | novel | c.2543G>A | p.Gly848Asp | p.G848D | O00203 | protein_coding | deleterious(0.03) | probably_damaging(0.998) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| AP3B1 | SNV | Missense_Mutation | novel | c.2294N>T | p.Ser765Leu | p.S765L | O00203 | protein_coding | deleterious(0.01) | benign(0.011) | TCGA-C5-A2LZ-01 | Cervix | cervical & endocervical cancer | Female | >=65 | III/IV | Unknown | Unknown | PD |
| Page: 1 2 3 4 5 6 7 8 9 10 11 12 |
Top |
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 |
Copyright 2023-Present -The University of Texas Health Science Center at Houston |