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Gene: CTDSP2 |
Gene summary for CTDSP2 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | CTDSP2 | Gene ID | 10106 |
| Gene name | CTD small phosphatase 2 | |
| Gene Alias | OS4 | |
| Cytomap | 12q14.1 | |
| Gene Type | protein-coding | GO ID | GO:0000082 | UniProtAcc | A0A024RBA6 |
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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 |
| 10106 | CTDSP2 | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.59e-10 | 4.28e-01 | 0.0155 |
| 10106 | CTDSP2 | HTA11_2487_2000001011 | Human | Colorectum | SER | 5.94e-23 | 8.90e-01 | -0.1808 |
| 10106 | CTDSP2 | HTA11_1938_2000001011 | Human | Colorectum | AD | 6.84e-12 | 6.94e-01 | -0.0811 |
| 10106 | CTDSP2 | HTA11_78_2000001011 | Human | Colorectum | AD | 2.58e-10 | 6.50e-01 | -0.1088 |
| 10106 | CTDSP2 | HTA11_347_2000001011 | Human | Colorectum | AD | 7.91e-28 | 7.70e-01 | -0.1954 |
| 10106 | CTDSP2 | HTA11_411_2000001011 | Human | Colorectum | SER | 1.83e-10 | 1.18e+00 | -0.2602 |
| 10106 | CTDSP2 | HTA11_2112_2000001011 | Human | Colorectum | SER | 7.20e-03 | 7.45e-01 | -0.2196 |
| 10106 | CTDSP2 | HTA11_3361_2000001011 | Human | Colorectum | AD | 2.29e-03 | 4.74e-01 | -0.1207 |
| 10106 | CTDSP2 | HTA11_83_2000001011 | Human | Colorectum | SER | 1.18e-03 | 4.90e-01 | -0.1526 |
| 10106 | CTDSP2 | HTA11_696_2000001011 | Human | Colorectum | AD | 6.39e-32 | 6.27e-01 | -0.1464 |
| 10106 | CTDSP2 | HTA11_866_2000001011 | Human | Colorectum | AD | 1.07e-26 | 6.10e-01 | -0.1001 |
| 10106 | CTDSP2 | HTA11_1391_2000001011 | Human | Colorectum | AD | 4.77e-19 | 8.67e-01 | -0.059 |
| 10106 | CTDSP2 | HTA11_2992_2000001011 | Human | Colorectum | SER | 3.19e-03 | 6.84e-01 | -0.1706 |
| 10106 | CTDSP2 | HTA11_5212_2000001011 | Human | Colorectum | AD | 7.02e-14 | 9.72e-01 | -0.2061 |
| 10106 | CTDSP2 | HTA11_5216_2000001011 | Human | Colorectum | SER | 4.12e-02 | 5.15e-01 | -0.1462 |
| 10106 | CTDSP2 | HTA11_546_2000001011 | Human | Colorectum | AD | 2.21e-05 | 6.32e-01 | -0.0842 |
| 10106 | CTDSP2 | HTA11_7862_2000001011 | Human | Colorectum | AD | 2.11e-02 | 3.21e-01 | -0.0179 |
| 10106 | CTDSP2 | HTA11_866_3004761011 | Human | Colorectum | AD | 3.00e-21 | 7.27e-01 | 0.096 |
| 10106 | CTDSP2 | HTA11_8622_2000001021 | Human | Colorectum | SER | 2.38e-08 | 6.88e-01 | 0.0528 |
| 10106 | CTDSP2 | HTA11_7663_2000001011 | Human | Colorectum | SER | 1.40e-07 | 6.65e-01 | 0.0131 |
| Page: 1 2 3 4 5 6 7 8 9 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| 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 | ||
| 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 | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma | ||
| Prostate |  | BPH: Benign Prostatic Hyperplasia |
| 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. |
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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). |
| 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:0010563 | Colorectum | AD | negative regulation of phosphorus metabolic process | 130/3918 | 442/18723 | 1.26e-05 | 2.76e-04 | 130 |
| GO:0045936 | Colorectum | AD | negative regulation of phosphate metabolic process | 129/3918 | 441/18723 | 1.81e-05 | 3.76e-04 | 129 |
| GO:0016311 | Colorectum | AD | dephosphorylation | 123/3918 | 417/18723 | 1.84e-05 | 3.82e-04 | 123 |
| GO:0006470 | Colorectum | AD | protein dephosphorylation | 88/3918 | 281/18723 | 2.56e-05 | 4.89e-04 | 88 |
| GO:0042326 | Colorectum | AD | negative regulation of phosphorylation | 112/3918 | 385/18723 | 8.02e-05 | 1.27e-03 | 112 |
| GO:0001933 | Colorectum | AD | negative regulation of protein phosphorylation | 101/3918 | 342/18723 | 9.39e-05 | 1.42e-03 | 101 |
| GO:0007346 | Colorectum | AD | regulation of mitotic cell cycle | 119/3918 | 457/18723 | 4.60e-03 | 3.14e-02 | 119 |
| GO:00105631 | Colorectum | SER | negative regulation of phosphorus metabolic process | 101/2897 | 442/18723 | 2.39e-05 | 6.70e-04 | 101 |
| GO:00459361 | Colorectum | SER | negative regulation of phosphate metabolic process | 100/2897 | 441/18723 | 3.62e-05 | 9.39e-04 | 100 |
| GO:00019331 | Colorectum | SER | negative regulation of protein phosphorylation | 79/2897 | 342/18723 | 1.21e-04 | 2.49e-03 | 79 |
| GO:00423261 | Colorectum | SER | negative regulation of phosphorylation | 86/2897 | 385/18723 | 2.10e-04 | 3.78e-03 | 86 |
| GO:00064701 | Colorectum | SER | protein dephosphorylation | 65/2897 | 281/18723 | 4.44e-04 | 6.51e-03 | 65 |
| GO:00163111 | Colorectum | SER | dephosphorylation | 86/2897 | 417/18723 | 2.73e-03 | 2.46e-02 | 86 |
| GO:00105632 | Colorectum | MSS | negative regulation of phosphorus metabolic process | 118/3467 | 442/18723 | 1.18e-05 | 2.77e-04 | 118 |
| GO:00459362 | Colorectum | MSS | negative regulation of phosphate metabolic process | 117/3467 | 441/18723 | 1.74e-05 | 3.84e-04 | 117 |
| GO:00423262 | Colorectum | MSS | negative regulation of phosphorylation | 103/3467 | 385/18723 | 3.76e-05 | 7.17e-04 | 103 |
| GO:00019332 | Colorectum | MSS | negative regulation of protein phosphorylation | 93/3467 | 342/18723 | 4.54e-05 | 8.35e-04 | 93 |
| GO:00064702 | Colorectum | MSS | protein dephosphorylation | 73/3467 | 281/18723 | 1.15e-03 | 1.12e-02 | 73 |
| GO:00163112 | Colorectum | MSS | dephosphorylation | 101/3467 | 417/18723 | 1.98e-03 | 1.70e-02 | 101 |
| GO:00073461 | Colorectum | MSS | regulation of mitotic cell cycle | 108/3467 | 457/18723 | 3.30e-03 | 2.50e-02 | 108 |
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| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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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. |
| Page: 1 |
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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 |
| CTDSP2 | SNV | Missense_Mutation | rs772434435 | c.535N>T | p.Arg179Trp | p.R179W | O14595 | protein_coding | deleterious(0) | possibly_damaging(0.848) | TCGA-A6-5661-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| CTDSP2 | SNV | Missense_Mutation | c.515C>A | p.Pro172His | p.P172H | O14595 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-CM-4746-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
| CTDSP2 | SNV | Missense_Mutation | rs745667327 | c.32N>A | p.Arg11Gln | p.R11Q | O14595 | protein_coding | tolerated(0.85) | benign(0) | TCGA-G4-6304-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Chemotherapy | fluorouracil | PD |
| CTDSP2 | SNV | Missense_Mutation | novel | c.781G>A | p.Val261Ile | p.V261I | O14595 | protein_coding | tolerated(0.12) | benign(0.037) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
| CTDSP2 | SNV | Missense_Mutation | novel | c.354G>T | p.Lys118Asn | p.K118N | O14595 | protein_coding | deleterious(0) | probably_damaging(0.975) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
| CTDSP2 | SNV | Missense_Mutation | rs779108955 | c.550C>T | p.Arg184Trp | p.R184W | O14595 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-A5-A7WJ-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| CTDSP2 | SNV | Missense_Mutation | novel | c.125N>G | p.Phe42Cys | p.F42C | O14595 | protein_coding | deleterious(0.01) | benign(0.072) | TCGA-AJ-A5DW-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| CTDSP2 | SNV | Missense_Mutation | rs772434435 | c.535N>T | p.Arg179Trp | p.R179W | O14595 | protein_coding | deleterious(0) | possibly_damaging(0.848) | TCGA-B5-A3FA-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| CTDSP2 | SNV | Missense_Mutation | c.577N>A | p.Val193Met | p.V193M | O14595 | protein_coding | deleterious(0.01) | probably_damaging(0.925) | TCGA-B5-A3FC-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| CTDSP2 | SNV | Missense_Mutation | rs752762135 | c.104G>A | p.Arg35His | p.R35H | O14595 | protein_coding | deleterious(0.02) | benign(0.082) | TCGA-EO-A22R-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| Page: 1 2 3 |
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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 |
| Page: 1 |
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