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Gene: NCKAP5 |
Gene summary for NCKAP5 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | NCKAP5 | Gene ID | 344148 |
| Gene name | NCK associated protein 5 | |
| Gene Alias | ERIH1 | |
| Cytomap | 2q21.2 | |
| Gene Type | protein-coding | GO ID | GO:0000226 | UniProtAcc | O14513 |
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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 |
| 344148 | NCKAP5 | HTA11_2487_2000001011 | Human | Colorectum | SER | 1.46e-06 | 6.15e-01 | -0.1808 |
| 344148 | NCKAP5 | HTA11_1938_2000001011 | Human | Colorectum | AD | 2.45e-13 | 9.66e-01 | -0.0811 |
| 344148 | NCKAP5 | HTA11_78_2000001011 | Human | Colorectum | AD | 3.03e-07 | 6.59e-01 | -0.1088 |
| 344148 | NCKAP5 | HTA11_347_2000001011 | Human | Colorectum | AD | 6.44e-13 | 6.56e-01 | -0.1954 |
| 344148 | NCKAP5 | HTA11_3361_2000001011 | Human | Colorectum | AD | 4.20e-05 | 4.56e-01 | -0.1207 |
| 344148 | NCKAP5 | HTA11_83_2000001011 | Human | Colorectum | SER | 1.30e-07 | 7.09e-01 | -0.1526 |
| 344148 | NCKAP5 | HTA11_696_2000001011 | Human | Colorectum | AD | 3.11e-08 | 4.35e-01 | -0.1464 |
| 344148 | NCKAP5 | HTA11_866_2000001011 | Human | Colorectum | AD | 9.85e-07 | 3.49e-01 | -0.1001 |
| 344148 | NCKAP5 | HTA11_7663_2000001011 | Human | Colorectum | SER | 2.36e-06 | 9.60e-01 | 0.0131 |
| 344148 | NCKAP5 | HTA11_7696_3000711011 | Human | Colorectum | AD | 3.08e-07 | 4.35e-01 | 0.0674 |
| 344148 | NCKAP5 | HTA11_6818_2000001021 | Human | Colorectum | AD | 3.48e-18 | 1.14e+00 | 0.0588 |
| 344148 | NCKAP5 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 4.17e-06 | 4.43e-01 | 0.294 |
| 344148 | NCKAP5 | HTA11_99999965062_69753 | Human | Colorectum | MSI-H | 1.12e-04 | 1.21e+00 | 0.3487 |
| 344148 | NCKAP5 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 1.19e-40 | 1.20e+00 | 0.3005 |
| 344148 | NCKAP5 | A015-C-203 | Human | Colorectum | FAP | 3.22e-08 | 2.44e-01 | -0.1294 |
| 344148 | NCKAP5 | A002-C-201 | Human | Colorectum | FAP | 5.88e-04 | -1.59e-01 | 0.0324 |
| 344148 | NCKAP5 | A001-C-119 | Human | Colorectum | FAP | 2.02e-11 | 6.56e-01 | -0.1557 |
| 344148 | NCKAP5 | A001-C-108 | Human | Colorectum | FAP | 4.41e-03 | 2.54e-02 | -0.0272 |
| 344148 | NCKAP5 | A002-C-205 | Human | Colorectum | FAP | 1.43e-05 | 9.06e-02 | -0.1236 |
| 344148 | NCKAP5 | A015-C-006 | Human | Colorectum | FAP | 1.84e-03 | 1.09e-01 | -0.0994 |
| Page: 1 2 3 4 |
| 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 | ||
| GC |  | CAG: Chronic atrophic gastritis |
| CAG with IM: Chronic atrophic gastritis with intestinal metaplasia | ||
| CSG: Chronic superficial gastritis | ||
| GC: Gastric cancer | ||
| SIM: Severe intestinal metaplasia | ||
| WIM: Wild intestinal metaplasia | ||
| 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 |
| ∗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:0022411 | Colorectum | AD | cellular component disassembly | 147/3918 | 443/18723 | 8.53e-10 | 6.76e-08 | 147 |
| GO:0032984 | Colorectum | AD | protein-containing complex disassembly | 81/3918 | 224/18723 | 9.41e-08 | 4.65e-06 | 81 |
| GO:0043624 | Colorectum | AD | cellular protein complex disassembly | 45/3918 | 136/18723 | 6.24e-04 | 6.48e-03 | 45 |
| GO:0051261 | Colorectum | AD | protein depolymerization | 39/3918 | 114/18723 | 6.74e-04 | 6.91e-03 | 39 |
| GO:00224111 | Colorectum | SER | cellular component disassembly | 114/2897 | 443/18723 | 1.17e-08 | 9.59e-07 | 114 |
| GO:00329841 | Colorectum | SER | protein-containing complex disassembly | 61/2897 | 224/18723 | 4.17e-06 | 1.60e-04 | 61 |
| GO:00436241 | Colorectum | SER | cellular protein complex disassembly | 37/2897 | 136/18723 | 3.08e-04 | 5.00e-03 | 37 |
| GO:00512611 | Colorectum | SER | protein depolymerization | 31/2897 | 114/18723 | 9.18e-04 | 1.11e-02 | 31 |
| GO:00224112 | Colorectum | MSS | cellular component disassembly | 130/3467 | 443/18723 | 1.44e-08 | 8.46e-07 | 130 |
| GO:00329842 | Colorectum | MSS | protein-containing complex disassembly | 69/3467 | 224/18723 | 5.61e-06 | 1.50e-04 | 69 |
| GO:00329843 | Colorectum | MSI-H | protein-containing complex disassembly | 28/1319 | 224/18723 | 2.24e-03 | 3.01e-02 | 28 |
| GO:00224113 | Colorectum | MSI-H | cellular component disassembly | 47/1319 | 443/18723 | 3.26e-03 | 3.99e-02 | 47 |
| GO:00224114 | Colorectum | FAP | cellular component disassembly | 97/2622 | 443/18723 | 3.44e-06 | 1.23e-04 | 97 |
| GO:00329844 | Colorectum | FAP | protein-containing complex disassembly | 54/2622 | 224/18723 | 3.37e-05 | 7.48e-04 | 54 |
| GO:00512612 | Colorectum | FAP | protein depolymerization | 26/2622 | 114/18723 | 7.36e-03 | 4.40e-02 | 26 |
| GO:00329845 | Colorectum | CRC | protein-containing complex disassembly | 46/2078 | 224/18723 | 2.61e-05 | 7.18e-04 | 46 |
| GO:00224115 | Colorectum | CRC | cellular component disassembly | 75/2078 | 443/18723 | 1.26e-04 | 2.42e-03 | 75 |
| GO:00512613 | Colorectum | CRC | protein depolymerization | 22/2078 | 114/18723 | 6.73e-03 | 4.77e-02 | 22 |
| GO:0022411111 | Esophagus | ESCC | cellular component disassembly | 305/8552 | 443/18723 | 1.94e-23 | 4.57e-21 | 305 |
| GO:003298416 | Esophagus | ESCC | protein-containing complex disassembly | 151/8552 | 224/18723 | 3.45e-11 | 1.15e-09 | 151 |
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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 |
| Page: 1 |
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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 |
| NCKAP5 | SNV | Missense_Mutation | c.4900G>A | p.Glu1634Lys | p.E1634K | O14513 | protein_coding | deleterious(0.03) | benign(0.058) | TCGA-A2-A0EQ-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | SD | |
| NCKAP5 | SNV | Missense_Mutation | novel | c.278N>G | p.Glu93Gly | p.E93G | O14513 | protein_coding | deleterious(0) | possibly_damaging(0.852) | TCGA-A2-A0SW-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Hormone Therapy | arimidex | PD |
| NCKAP5 | SNV | Missense_Mutation | novel | c.3826N>G | p.His1276Asp | p.H1276D | O14513 | protein_coding | deleterious(0) | benign(0.009) | TCGA-A7-A6VY-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cyclophosphamide | CR |
| NCKAP5 | SNV | Missense_Mutation | c.3716N>T | p.Gly1239Val | p.G1239V | O14513 | protein_coding | tolerated(0.36) | benign(0.146) | TCGA-AN-A0AK-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| NCKAP5 | SNV | Missense_Mutation | c.1820C>T | p.Ala607Val | p.A607V | O14513 | protein_coding | deleterious(0.01) | benign(0.035) | TCGA-AO-A0J4-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD | |
| NCKAP5 | SNV | Missense_Mutation | novel | c.139N>C | p.Trp47Arg | p.W47R | O14513 | protein_coding | tolerated(0.4) | probably_damaging(0.999) | TCGA-AO-A128-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD |
| NCKAP5 | SNV | Missense_Mutation | novel | c.2005G>T | p.Val669Leu | p.V669L | O14513 | protein_coding | deleterious(0.02) | probably_damaging(0.944) | TCGA-AR-A0U0-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| NCKAP5 | SNV | Missense_Mutation | c.251N>C | p.Arg84Pro | p.R84P | O14513 | protein_coding | deleterious(0) | probably_damaging(0.984) | TCGA-B6-A0IJ-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| NCKAP5 | SNV | Missense_Mutation | c.5612N>A | p.Ala1871Asp | p.A1871D | O14513 | protein_coding | deleterious(0) | possibly_damaging(0.847) | TCGA-E9-A1RF-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Hormone Therapy | tamoxiphen | SD | |
| NCKAP5 | SNV | Missense_Mutation | rs367809146 | c.3374N>T | p.Ala1125Val | p.A1125V | O14513 | protein_coding | tolerated(0.49) | benign(0) | TCGA-E9-A1RH-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | 5-fluorouracil | SD |
| 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 |
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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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