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Gene: PTK2B |
Gene summary for PTK2B |
Gene summary. |
Gene information | Species | Human | Gene symbol | PTK2B | Gene ID | 2185 |
Gene name | protein tyrosine kinase 2 beta | |
Gene Alias | CADTK | |
Cytomap | 8p21.2 | |
Gene Type | protein-coding | GO ID | GO:0000003 | UniProtAcc | Q14289 |
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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 |
2185 | PTK2B | HTA11_2487_2000001011 | Human | Colorectum | SER | 8.25e-06 | 5.90e-01 | -0.1808 |
2185 | PTK2B | HTA11_347_2000001011 | Human | Colorectum | AD | 6.10e-16 | 6.59e-01 | -0.1954 |
2185 | PTK2B | HTA11_411_2000001011 | Human | Colorectum | SER | 1.25e-02 | 9.86e-01 | -0.2602 |
2185 | PTK2B | HTA11_696_2000001011 | Human | Colorectum | AD | 5.38e-07 | 5.24e-01 | -0.1464 |
2185 | PTK2B | HTA11_5212_2000001011 | Human | Colorectum | AD | 1.58e-08 | 6.99e-01 | -0.2061 |
2185 | PTK2B | A002-C-010 | Human | Colorectum | FAP | 2.35e-02 | -1.14e-01 | 0.242 |
2185 | PTK2B | A015-C-203 | Human | Colorectum | FAP | 1.71e-12 | -2.25e-01 | -0.1294 |
2185 | PTK2B | A002-C-201 | Human | Colorectum | FAP | 2.31e-07 | -2.72e-01 | 0.0324 |
2185 | PTK2B | A001-C-108 | Human | Colorectum | FAP | 2.83e-06 | -1.79e-01 | -0.0272 |
2185 | PTK2B | A002-C-205 | Human | Colorectum | FAP | 4.14e-09 | -2.83e-01 | -0.1236 |
2185 | PTK2B | A015-C-006 | Human | Colorectum | FAP | 1.68e-06 | -3.26e-01 | -0.0994 |
2185 | PTK2B | A015-C-106 | Human | Colorectum | FAP | 7.52e-05 | -1.92e-01 | -0.0511 |
2185 | PTK2B | A002-C-114 | Human | Colorectum | FAP | 2.54e-05 | -1.66e-01 | -0.1561 |
2185 | PTK2B | A015-C-104 | Human | Colorectum | FAP | 4.67e-14 | -2.76e-01 | -0.1899 |
2185 | PTK2B | A001-C-014 | Human | Colorectum | FAP | 1.78e-05 | -1.58e-01 | 0.0135 |
2185 | PTK2B | A002-C-016 | Human | Colorectum | FAP | 4.31e-08 | -2.27e-01 | 0.0521 |
2185 | PTK2B | A015-C-002 | Human | Colorectum | FAP | 1.16e-03 | -2.64e-01 | -0.0763 |
2185 | PTK2B | A001-C-203 | Human | Colorectum | FAP | 4.27e-03 | -1.87e-01 | -0.0481 |
2185 | PTK2B | A002-C-116 | Human | Colorectum | FAP | 6.16e-10 | -2.26e-01 | -0.0452 |
2185 | PTK2B | A014-C-008 | Human | Colorectum | FAP | 3.49e-04 | -2.56e-01 | -0.191 |
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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:0042176 | Colorectum | AD | regulation of protein catabolic process | 160/3918 | 391/18723 | 1.06e-19 | 7.34e-17 | 160 |
GO:0007015 | Colorectum | AD | actin filament organization | 167/3918 | 442/18723 | 1.65e-16 | 7.94e-14 | 167 |
GO:0009896 | Colorectum | AD | positive regulation of catabolic process | 180/3918 | 492/18723 | 4.33e-16 | 1.94e-13 | 180 |
GO:1903362 | Colorectum | AD | regulation of cellular protein catabolic process | 109/3918 | 255/18723 | 2.14e-15 | 6.08e-13 | 109 |
GO:0031331 | Colorectum | AD | positive regulation of cellular catabolic process | 156/3918 | 427/18723 | 4.68e-14 | 1.05e-11 | 156 |
GO:0032535 | Colorectum | AD | regulation of cellular component size | 142/3918 | 383/18723 | 1.74e-13 | 3.41e-11 | 142 |
GO:1902903 | Colorectum | AD | regulation of supramolecular fiber organization | 139/3918 | 383/18723 | 2.01e-12 | 3.19e-10 | 139 |
GO:1903050 | Colorectum | AD | regulation of proteolysis involved in cellular protein catabolic process | 92/3918 | 221/18723 | 2.04e-12 | 3.19e-10 | 92 |
GO:0032970 | Colorectum | AD | regulation of actin filament-based process | 142/3918 | 397/18723 | 4.05e-12 | 5.90e-10 | 142 |
GO:0110053 | Colorectum | AD | regulation of actin filament organization | 108/3918 | 278/18723 | 5.02e-12 | 6.98e-10 | 108 |
GO:0008154 | Colorectum | AD | actin polymerization or depolymerization | 90/3918 | 218/18723 | 6.14e-12 | 8.23e-10 | 90 |
GO:0032271 | Colorectum | AD | regulation of protein polymerization | 94/3918 | 233/18723 | 1.01e-11 | 1.29e-09 | 94 |
GO:0030041 | Colorectum | AD | actin filament polymerization | 81/3918 | 191/18723 | 1.35e-11 | 1.69e-09 | 81 |
GO:0051258 | Colorectum | AD | protein polymerization | 112/3918 | 297/18723 | 1.85e-11 | 2.27e-09 | 112 |
GO:0043254 | Colorectum | AD | regulation of protein-containing complex assembly | 148/3918 | 428/18723 | 2.64e-11 | 3.18e-09 | 148 |
GO:0045732 | Colorectum | AD | positive regulation of protein catabolic process | 92/3918 | 231/18723 | 3.85e-11 | 4.47e-09 | 92 |
GO:0008064 | Colorectum | AD | regulation of actin polymerization or depolymerization | 79/3918 | 188/18723 | 4.17e-11 | 4.74e-09 | 79 |
GO:0030833 | Colorectum | AD | regulation of actin filament polymerization | 74/3918 | 172/18723 | 4.50e-11 | 5.03e-09 | 74 |
GO:0030832 | Colorectum | AD | regulation of actin filament length | 79/3918 | 189/18723 | 5.71e-11 | 6.27e-09 | 79 |
GO:1902905 | Colorectum | AD | positive regulation of supramolecular fiber organization | 85/3918 | 209/18723 | 5.95e-11 | 6.33e-09 | 85 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa05135 | Colorectum | AD | Yersinia infection | 58/2092 | 137/8465 | 3.90e-06 | 4.35e-05 | 2.78e-05 | 58 |
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 |
hsa051351 | Colorectum | AD | Yersinia infection | 58/2092 | 137/8465 | 3.90e-06 | 4.35e-05 | 2.78e-05 | 58 |
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 |
hsa051352 | Colorectum | SER | Yersinia infection | 43/1580 | 137/8465 | 2.15e-04 | 2.10e-03 | 1.52e-03 | 43 |
hsa046702 | Colorectum | SER | Leukocyte transendothelial migration | 37/1580 | 114/8465 | 2.77e-04 | 2.56e-03 | 1.86e-03 | 37 |
hsa051702 | Colorectum | SER | Human immunodeficiency virus 1 infection | 58/1580 | 212/8465 | 1.08e-03 | 8.56e-03 | 6.21e-03 | 58 |
hsa051632 | Colorectum | SER | Human cytomegalovirus infection | 57/1580 | 225/8465 | 7.40e-03 | 3.84e-02 | 2.79e-02 | 57 |
hsa049122 | Colorectum | SER | GnRH signaling pathway | 27/1580 | 93/8465 | 9.68e-03 | 4.72e-02 | 3.43e-02 | 27 |
hsa051353 | Colorectum | SER | Yersinia infection | 43/1580 | 137/8465 | 2.15e-04 | 2.10e-03 | 1.52e-03 | 43 |
hsa046703 | Colorectum | SER | Leukocyte transendothelial migration | 37/1580 | 114/8465 | 2.77e-04 | 2.56e-03 | 1.86e-03 | 37 |
hsa051703 | Colorectum | SER | Human immunodeficiency virus 1 infection | 58/1580 | 212/8465 | 1.08e-03 | 8.56e-03 | 6.21e-03 | 58 |
hsa051633 | Colorectum | SER | Human cytomegalovirus infection | 57/1580 | 225/8465 | 7.40e-03 | 3.84e-02 | 2.79e-02 | 57 |
hsa049123 | Colorectum | SER | GnRH signaling pathway | 27/1580 | 93/8465 | 9.68e-03 | 4.72e-02 | 3.43e-02 | 27 |
hsa051356 | Colorectum | FAP | Yersinia infection | 43/1404 | 137/8465 | 1.21e-05 | 1.62e-04 | 9.86e-05 | 43 |
hsa046706 | Colorectum | FAP | Leukocyte transendothelial migration | 37/1404 | 114/8465 | 2.12e-05 | 2.53e-04 | 1.54e-04 | 37 |
hsa049126 | Colorectum | FAP | GnRH signaling pathway | 28/1404 | 93/8465 | 8.16e-04 | 5.14e-03 | 3.13e-03 | 28 |
hsa051636 | Colorectum | FAP | Human cytomegalovirus infection | 55/1404 | 225/8465 | 1.42e-03 | 7.67e-03 | 4.67e-03 | 55 |
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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 |
PTK2B | SNV | Missense_Mutation | rs773709584 | c.2779C>A | p.Leu927Ile | p.L927I | Q14289 | protein_coding | tolerated(1) | benign(0) | TCGA-L9-A7SV-01 | Lung | lung adenocarcinoma | Male | >=65 | I/II | Chemotherapy | cisplatin | CR |
PTK2B | SNV | Missense_Mutation | novel | c.2780N>C | p.Leu927Pro | p.L927P | Q14289 | protein_coding | deleterious(0.03) | benign(0.363) | TCGA-33-4587-01 | Lung | lung squamous cell carcinoma | Female | <65 | I/II | Chemotherapy | etoposide | PD |
PTK2B | SNV | Missense_Mutation | novel | c.730G>A | p.Glu244Lys | p.E244K | Q14289 | protein_coding | deleterious(0.04) | benign(0.142) | TCGA-90-A4ED-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
PTK2B | SNV | Missense_Mutation | c.2173C>T | p.Pro725Ser | p.P725S | Q14289 | protein_coding | tolerated(0.22) | benign(0.157) | TCGA-90-A4ED-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
PTK2B | SNV | Missense_Mutation | rs751045138 | c.1162C>T | p.Arg388Trp | p.R388W | Q14289 | protein_coding | deleterious(0.01) | possibly_damaging(0.676) | TCGA-94-8490-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
PTK2B | SNV | Missense_Mutation | rs370030419 | c.1117N>T | p.Arg373Trp | p.R373W | Q14289 | protein_coding | deleterious(0) | benign(0.112) | TCGA-BB-A5HU-01 | Oral cavity | head & neck squamous cell carcinoma | Male | <65 | I/II | Chemotherapy | cisplatin | CR |
PTK2B | SNV | Missense_Mutation | rs775132770 | c.1520N>G | p.Tyr507Cys | p.Y507C | Q14289 | protein_coding | deleterious(0.03) | benign(0.274) | TCGA-CR-7402-01 | Oral cavity | head & neck squamous cell carcinoma | Male | >=65 | I/II | Chemotherapy | carboplatin | SD |
PTK2B | SNV | Missense_Mutation | c.2665C>T | p.Arg889Trp | p.R889W | Q14289 | protein_coding | deleterious(0) | possibly_damaging(0.766) | TCGA-CV-5441-01 | Oral cavity | head & neck squamous cell carcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
PTK2B | SNV | Missense_Mutation | rs753724315 | c.2338N>T | p.Arg780Trp | p.R780W | Q14289 | protein_coding | deleterious(0.01) | possibly_damaging(0.889) | TCGA-BR-4201-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Chemotherapy | cisplatin | SD |
PTK2B | SNV | Missense_Mutation | rs759650182 | c.1834G>A | p.Ala612Thr | p.A612T | Q14289 | protein_coding | deleterious(0) | benign(0.211) | TCGA-BR-4257-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | 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 |
2185 | PTK2B | DRUGGABLE GENOME, KINASE, ION CHANNEL, G PROTEIN COUPLED RECEPTOR, TYROSINE KINASE, ENZYME | PMID27774822-Compound-Figure10Example1 | |||
2185 | PTK2B | DRUGGABLE GENOME, KINASE, ION CHANNEL, G PROTEIN COUPLED RECEPTOR, TYROSINE KINASE, ENZYME | Imidazo[4,5-c]pyridine derivative 1 | |||
2185 | PTK2B | DRUGGABLE GENOME, KINASE, ION CHANNEL, G PROTEIN COUPLED RECEPTOR, TYROSINE KINASE, ENZYME | Aminotriazolopyridine derivative 1 | |||
2185 | PTK2B | DRUGGABLE GENOME, KINASE, ION CHANNEL, G PROTEIN COUPLED RECEPTOR, TYROSINE KINASE, ENZYME | CID 94381 | CHEMBL374632 | ||
2185 | PTK2B | DRUGGABLE GENOME, KINASE, ION CHANNEL, G PROTEIN COUPLED RECEPTOR, TYROSINE KINASE, ENZYME | HTS-05058 | CHEMBL261692 | ||
2185 | PTK2B | DRUGGABLE GENOME, KINASE, ION CHANNEL, G PROTEIN COUPLED RECEPTOR, TYROSINE KINASE, ENZYME | PMID27774824-Compound-Figure11Example1up | |||
2185 | PTK2B | DRUGGABLE GENOME, KINASE, ION CHANNEL, G PROTEIN COUPLED RECEPTOR, TYROSINE KINASE, ENZYME | TCMDC-125185 | CHEMBL580819 | ||
2185 | PTK2B | DRUGGABLE GENOME, KINASE, ION CHANNEL, G PROTEIN COUPLED RECEPTOR, TYROSINE KINASE, ENZYME | inhibitor | CHEMBL3137331 | DEFACTINIB | |
2185 | PTK2B | DRUGGABLE GENOME, KINASE, ION CHANNEL, G PROTEIN COUPLED RECEPTOR, TYROSINE KINASE, ENZYME | PF-04965842 | ABROCITINIB | ||
2185 | PTK2B | DRUGGABLE GENOME, KINASE, ION CHANNEL, G PROTEIN COUPLED RECEPTOR, TYROSINE KINASE, ENZYME | ASP-015K | PEFICITINIB |
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