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Gene: TAPBP |
Gene summary for TAPBP |
Gene summary. |
Gene information | Species | Human | Gene symbol | TAPBP | Gene ID | 6892 |
Gene name | TAP binding protein | |
Gene Alias | NGS17 | |
Cytomap | 6p21.32 | |
Gene Type | protein-coding | GO ID | GO:0002376 | UniProtAcc | A0A024RCT1 |
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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 |
6892 | TAPBP | CA_HPV_1 | Human | Cervix | CC | 1.18e-07 | 1.49e-01 | 0.0264 |
6892 | TAPBP | CA_HPV_3 | Human | Cervix | CC | 1.33e-02 | 3.98e-03 | 0.0414 |
6892 | TAPBP | N_HPV_2 | Human | Cervix | N_HPV | 3.60e-03 | 8.95e-02 | -0.0131 |
6892 | TAPBP | CCI_2 | Human | Cervix | CC | 2.35e-03 | 8.12e-01 | 0.5249 |
6892 | TAPBP | CCII_1 | Human | Cervix | CC | 3.69e-09 | -5.36e-01 | 0.3249 |
6892 | TAPBP | Tumor | Human | Cervix | CC | 2.77e-09 | 3.66e-01 | 0.1241 |
6892 | TAPBP | sample3 | Human | Cervix | CC | 1.54e-07 | 3.34e-01 | 0.1387 |
6892 | TAPBP | L1 | Human | Cervix | CC | 5.89e-05 | -3.09e-01 | 0.0802 |
6892 | TAPBP | T1 | Human | Cervix | CC | 1.65e-03 | 3.61e-01 | 0.0918 |
6892 | TAPBP | T3 | Human | Cervix | CC | 6.75e-06 | 3.20e-01 | 0.1389 |
6892 | TAPBP | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.15e-10 | 4.46e-01 | 0.0155 |
6892 | TAPBP | HTA11_2487_2000001011 | Human | Colorectum | SER | 6.79e-19 | 1.01e+00 | -0.1808 |
6892 | TAPBP | HTA11_1938_2000001011 | Human | Colorectum | AD | 3.16e-16 | 8.87e-01 | -0.0811 |
6892 | TAPBP | HTA11_78_2000001011 | Human | Colorectum | AD | 9.56e-04 | 3.96e-01 | -0.1088 |
6892 | TAPBP | HTA11_347_2000001011 | Human | Colorectum | AD | 7.26e-30 | 9.05e-01 | -0.1954 |
6892 | TAPBP | HTA11_411_2000001011 | Human | Colorectum | SER | 1.15e-06 | 1.18e+00 | -0.2602 |
6892 | TAPBP | HTA11_2112_2000001011 | Human | Colorectum | SER | 1.58e-09 | 1.17e+00 | -0.2196 |
6892 | TAPBP | HTA11_3361_2000001011 | Human | Colorectum | AD | 5.59e-10 | 7.16e-01 | -0.1207 |
6892 | TAPBP | HTA11_83_2000001011 | Human | Colorectum | SER | 9.42e-07 | 6.44e-01 | -0.1526 |
6892 | TAPBP | HTA11_696_2000001011 | Human | Colorectum | AD | 2.55e-34 | 9.96e-01 | -0.1464 |
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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:000239617 | Oral cavity | LP | MHC protein complex assembly | 11/4623 | 19/18723 | 2.04e-03 | 1.50e-02 | 11 |
GO:000250110 | Oral cavity | LP | peptide antigen assembly with MHC protein complex | 10/4623 | 18/18723 | 4.91e-03 | 3.06e-02 | 10 |
GO:000268315 | Oral cavity | LP | negative regulation of immune system process | 130/4623 | 434/18723 | 6.70e-03 | 3.90e-02 | 130 |
GO:004819322 | Oral cavity | EOLP | Golgi vesicle transport | 72/2218 | 296/18723 | 1.43e-09 | 9.55e-08 | 72 |
GO:001988224 | Oral cavity | EOLP | antigen processing and presentation | 36/2218 | 106/18723 | 1.96e-09 | 1.26e-07 | 36 |
GO:004800224 | Oral cavity | EOLP | antigen processing and presentation of peptide antigen | 24/2218 | 62/18723 | 5.49e-08 | 2.02e-06 | 24 |
GO:000247423 | Oral cavity | EOLP | antigen processing and presentation of peptide antigen via MHC class I | 13/2218 | 28/18723 | 5.82e-06 | 1.15e-04 | 13 |
GO:000248324 | Oral cavity | EOLP | antigen processing and presentation of endogenous peptide antigen | 10/2218 | 19/18723 | 1.79e-05 | 2.89e-04 | 10 |
GO:001988524 | Oral cavity | EOLP | antigen processing and presentation of endogenous peptide antigen via MHC class I | 9/2218 | 17/18723 | 4.50e-05 | 6.01e-04 | 9 |
GO:001988324 | Oral cavity | EOLP | antigen processing and presentation of endogenous antigen | 11/2218 | 26/18723 | 8.86e-05 | 1.04e-03 | 11 |
GO:000239623 | Oral cavity | EOLP | MHC protein complex assembly | 9/2218 | 19/18723 | 1.37e-04 | 1.49e-03 | 9 |
GO:004819331 | Oral cavity | NEOLP | Golgi vesicle transport | 60/2005 | 296/18723 | 8.09e-07 | 2.21e-05 | 60 |
GO:001988232 | Oral cavity | NEOLP | antigen processing and presentation | 23/2005 | 106/18723 | 7.22e-04 | 5.93e-03 | 23 |
GO:001988332 | Oral cavity | NEOLP | antigen processing and presentation of endogenous antigen | 9/2005 | 26/18723 | 1.04e-03 | 7.95e-03 | 9 |
GO:001988532 | Oral cavity | NEOLP | antigen processing and presentation of endogenous peptide antigen via MHC class I | 7/2005 | 17/18723 | 1.18e-03 | 8.72e-03 | 7 |
GO:000248332 | Oral cavity | NEOLP | antigen processing and presentation of endogenous peptide antigen | 7/2005 | 19/18723 | 2.51e-03 | 1.59e-02 | 7 |
GO:000247431 | Oral cavity | NEOLP | antigen processing and presentation of peptide antigen via MHC class I | 8/2005 | 28/18723 | 7.44e-03 | 3.73e-02 | 8 |
GO:004819310 | Prostate | BPH | Golgi vesicle transport | 102/3107 | 296/18723 | 3.90e-14 | 4.56e-12 | 102 |
GO:00068909 | Prostate | BPH | retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum | 21/3107 | 52/18723 | 3.85e-05 | 4.18e-04 | 21 |
GO:000248318 | Prostate | BPH | antigen processing and presentation of endogenous peptide antigen | 11/3107 | 19/18723 | 5.28e-05 | 5.42e-04 | 11 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0461220 | Cervix | CC | Antigen processing and presentation | 34/1267 | 78/8465 | 1.06e-09 | 2.14e-08 | 1.26e-08 | 34 |
hsa0516318 | Cervix | CC | Human cytomegalovirus infection | 65/1267 | 225/8465 | 4.59e-08 | 6.47e-07 | 3.83e-07 | 65 |
hsa0516920 | Cervix | CC | Epstein-Barr virus infection | 57/1267 | 202/8465 | 7.30e-07 | 7.39e-06 | 4.37e-06 | 57 |
hsa0517016 | Cervix | CC | Human immunodeficiency virus 1 infection | 55/1267 | 212/8465 | 1.80e-05 | 1.42e-04 | 8.40e-05 | 55 |
hsa04612110 | Cervix | CC | Antigen processing and presentation | 34/1267 | 78/8465 | 1.06e-09 | 2.14e-08 | 1.26e-08 | 34 |
hsa0516319 | Cervix | CC | Human cytomegalovirus infection | 65/1267 | 225/8465 | 4.59e-08 | 6.47e-07 | 3.83e-07 | 65 |
hsa05169110 | Cervix | CC | Epstein-Barr virus infection | 57/1267 | 202/8465 | 7.30e-07 | 7.39e-06 | 4.37e-06 | 57 |
hsa0517017 | Cervix | CC | Human immunodeficiency virus 1 infection | 55/1267 | 212/8465 | 1.80e-05 | 1.42e-04 | 8.40e-05 | 55 |
hsa0516942 | Cervix | N_HPV | Epstein-Barr virus infection | 19/349 | 202/8465 | 6.54e-04 | 4.94e-03 | 3.86e-03 | 19 |
hsa0516952 | Cervix | N_HPV | Epstein-Barr virus infection | 19/349 | 202/8465 | 6.54e-04 | 4.94e-03 | 3.86e-03 | 19 |
hsa05170 | Colorectum | AD | Human immunodeficiency virus 1 infection | 72/2092 | 212/8465 | 1.40e-03 | 8.46e-03 | 5.39e-03 | 72 |
hsa05163 | Colorectum | AD | Human cytomegalovirus infection | 75/2092 | 225/8465 | 2.00e-03 | 1.10e-02 | 7.01e-03 | 75 |
hsa051701 | Colorectum | AD | Human immunodeficiency virus 1 infection | 72/2092 | 212/8465 | 1.40e-03 | 8.46e-03 | 5.39e-03 | 72 |
hsa051631 | Colorectum | AD | Human cytomegalovirus infection | 75/2092 | 225/8465 | 2.00e-03 | 1.10e-02 | 7.01e-03 | 75 |
hsa051702 | Colorectum | SER | Human immunodeficiency virus 1 infection | 58/1580 | 212/8465 | 1.08e-03 | 8.56e-03 | 6.21e-03 | 58 |
hsa04612 | Colorectum | SER | Antigen processing and presentation | 25/1580 | 78/8465 | 3.11e-03 | 2.11e-02 | 1.53e-02 | 25 |
hsa051632 | Colorectum | SER | Human cytomegalovirus infection | 57/1580 | 225/8465 | 7.40e-03 | 3.84e-02 | 2.79e-02 | 57 |
hsa051703 | Colorectum | SER | Human immunodeficiency virus 1 infection | 58/1580 | 212/8465 | 1.08e-03 | 8.56e-03 | 6.21e-03 | 58 |
hsa046121 | Colorectum | SER | Antigen processing and presentation | 25/1580 | 78/8465 | 3.11e-03 | 2.11e-02 | 1.53e-02 | 25 |
hsa051633 | Colorectum | SER | Human cytomegalovirus infection | 57/1580 | 225/8465 | 7.40e-03 | 3.84e-02 | 2.79e-02 | 57 |
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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 |
TAPBP | SNV | Missense_Mutation | novel | c.613N>C | p.Glu205Gln | p.E205Q | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-EK-A3GJ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
TAPBP | SNV | Missense_Mutation | c.444N>T | p.Glu148Asp | p.E148D | protein_coding | tolerated(0.1) | benign(0.003) | TCGA-FU-A3HZ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR | ||
TAPBP | SNV | Missense_Mutation | c.1021N>G | p.Gln341Glu | p.Q341E | protein_coding | tolerated(0.5) | benign(0.066) | TCGA-JW-A5VL-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | ||
TAPBP | SNV | Missense_Mutation | c.288N>G | p.Phe96Leu | p.F96L | protein_coding | deleterious(0.01) | benign(0.423) | TCGA-LP-A4AU-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Chemotherapy | cisplatin | CR | ||
TAPBP | SNV | Missense_Mutation | novel | c.583C>G | p.Leu195Val | p.L195V | protein_coding | tolerated(0.14) | benign(0.06) | TCGA-VS-A9UH-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR | |
TAPBP | SNV | Missense_Mutation | novel | c.1030G>A | p.Glu344Lys | p.E344K | protein_coding | tolerated(0.83) | benign(0.003) | TCGA-ZJ-AAXF-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
TAPBP | SNV | Missense_Mutation | novel | c.960N>A | p.Phe320Leu | p.F320L | protein_coding | deleterious(0.01) | possibly_damaging(0.809) | TCGA-AA-3984-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
TAPBP | SNV | Missense_Mutation | rs749133011 | c.1240N>A | p.Val414Ile | p.V414I | protein_coding | tolerated(0.83) | benign(0.038) | TCGA-QG-A5YV-01 | Colorectum | colon adenocarcinoma | Female | <65 | III/IV | Chemotherapy | xeloda | CR | |
TAPBP | SNV | Missense_Mutation | novel | c.1079N>C | p.Val360Ala | p.V360A | protein_coding | deleterious(0.02) | possibly_damaging(0.888) | TCGA-AG-3892-01 | Colorectum | rectum adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
TAPBP | SNV | Missense_Mutation | rs750940622 | c.1148N>A | p.Arg383Gln | p.R383Q | protein_coding | tolerated(0.23) | possibly_damaging(0.849) | TCGA-EI-6917-01 | Colorectum | rectum adenocarcinoma | Male | <65 | III/IV | Chemotherapy | 5fluorouracil+oxaciplatina+l-folinian | 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 |
6892 | TAPBP | TRANSPORTER | aspirin | ASPIRIN | 23736108 |
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