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Gene: PCDH15 |
Gene summary for PCDH15 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | PCDH15 | Gene ID | 65217 |
| Gene name | protocadherin related 15 | |
| Gene Alias | CDHR15 | |
| Cytomap | 10q21.1 | |
| Gene Type | protein-coding | GO ID | GO:0001894 | UniProtAcc | A2A3D8 |
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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 |
| 65217 | PCDH15 | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.49e-04 | 2.17e-01 | 0.0155 |
| 65217 | PCDH15 | HTA11_2487_2000001011 | Human | Colorectum | SER | 7.68e-05 | 3.20e-01 | -0.1808 |
| 65217 | PCDH15 | HTA11_1938_2000001011 | Human | Colorectum | AD | 4.58e-09 | 4.70e-01 | -0.0811 |
| 65217 | PCDH15 | HTA11_78_2000001011 | Human | Colorectum | AD | 2.33e-07 | 4.35e-01 | -0.1088 |
| 65217 | PCDH15 | HTA11_347_2000001011 | Human | Colorectum | AD | 3.64e-04 | 2.29e-01 | -0.1954 |
| 65217 | PCDH15 | HTA11_2112_2000001011 | Human | Colorectum | SER | 4.35e-04 | 4.60e-01 | -0.2196 |
| 65217 | PCDH15 | HTA11_3361_2000001011 | Human | Colorectum | AD | 1.46e-04 | 2.69e-01 | -0.1207 |
| 65217 | PCDH15 | HTA11_83_2000001011 | Human | Colorectum | SER | 4.11e-03 | 2.51e-01 | -0.1526 |
| 65217 | PCDH15 | HTA11_696_2000001011 | Human | Colorectum | AD | 1.34e-05 | 2.53e-01 | -0.1464 |
| 65217 | PCDH15 | HTA11_866_2000001011 | Human | Colorectum | AD | 5.20e-03 | 1.20e-01 | -0.1001 |
| 65217 | PCDH15 | HTA11_1391_2000001011 | Human | Colorectum | AD | 1.44e-06 | 2.84e-01 | -0.059 |
| 65217 | PCDH15 | HTA11_2992_2000001011 | Human | Colorectum | SER | 3.02e-04 | 4.24e-01 | -0.1706 |
| 65217 | PCDH15 | HTA11_4255_2000001011 | Human | Colorectum | SER | 7.31e-40 | 2.65e+00 | 0.0446 |
| 65217 | PCDH15 | HTA11_9408_2000001011 | Human | Colorectum | AD | 2.11e-28 | 1.62e+00 | 0.0451 |
| 65217 | PCDH15 | HTA11_7663_2000001011 | Human | Colorectum | SER | 1.00e-24 | 2.19e+00 | 0.0131 |
| 65217 | PCDH15 | HTA11_10623_2000001011 | Human | Colorectum | AD | 3.93e-54 | 2.86e+00 | -0.0177 |
| 65217 | PCDH15 | HTA11_6801_2000001011 | Human | Colorectum | SER | 2.00e-25 | 2.35e+00 | 0.0171 |
| 65217 | PCDH15 | HTA11_10711_2000001011 | Human | Colorectum | AD | 3.51e-59 | 1.94e+00 | 0.0338 |
| 65217 | PCDH15 | HTA11_7696_3000711011 | Human | Colorectum | AD | 3.81e-79 | 2.00e+00 | 0.0674 |
| 65217 | PCDH15 | HTA11_6818_2000001011 | Human | Colorectum | AD | 8.89e-54 | 2.92e+00 | 0.0112 |
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| 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 |
| ∗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:0060249 | Colorectum | AD | anatomical structure homeostasis | 94/3918 | 314/18723 | 9.37e-05 | 1.42e-03 | 94 |
| GO:0001894 | Colorectum | AD | tissue homeostasis | 81/3918 | 268/18723 | 1.96e-04 | 2.62e-03 | 81 |
| GO:00018941 | Colorectum | SER | tissue homeostasis | 66/2897 | 268/18723 | 5.87e-05 | 1.37e-03 | 66 |
| GO:00602491 | Colorectum | SER | anatomical structure homeostasis | 74/2897 | 314/18723 | 1.01e-04 | 2.13e-03 | 74 |
| GO:00602492 | Colorectum | MSS | anatomical structure homeostasis | 84/3467 | 314/18723 | 1.87e-04 | 2.64e-03 | 84 |
| GO:00018942 | Colorectum | MSS | tissue homeostasis | 72/3467 | 268/18723 | 4.53e-04 | 5.40e-03 | 72 |
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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 |
| PCDH15 | SNV | Missense_Mutation | rs772070028 | c.5855N>G | p.Glu1952Gly | p.E1952G | protein_coding | tolerated_low_confidence(0.32) | benign(0.015) | TCGA-3C-AALI-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unspecific | Poly E | Complete Response | |
| PCDH15 | SNV | Missense_Mutation | c.2235N>T | p.Lys745Asn | p.K745N | protein_coding | deleterious(0.03) | benign(0.363) | TCGA-A1-A0SO-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | SD | |||
| PCDH15 | SNV | Missense_Mutation | novel | c.1955N>A | p.Pro652His | p.P652H | protein_coding | deleterious_low_confidence(0) | benign(0.058) | TCGA-A2-A25A-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unspecific | Cytoxan | SD | |
| PCDH15 | SNV | Missense_Mutation | novel | c.4420G>T | p.Asp1474Tyr | p.D1474Y | protein_coding | tolerated_low_confidence(0.49) | probably_damaging(0.937) | TCGA-A7-A6VX-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | docetaxel | CR | |
| PCDH15 | SNV | Missense_Mutation | c.5459N>A | p.Pro1820Gln | p.P1820Q | protein_coding | tolerated_low_confidence(0.11) | possibly_damaging(0.468) | TCGA-A8-A08F-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | 5-fluorouracil | CR | ||
| PCDH15 | SNV | Missense_Mutation | c.3223N>A | p.Ser1075Thr | p.S1075T | protein_coding | deleterious(0.04) | probably_damaging(0.986) | TCGA-A8-A09Z-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | ||
| PCDH15 | SNV | Missense_Mutation | c.641N>C | p.Met214Thr | p.M214T | protein_coding | tolerated(1) | benign(0.093) | TCGA-A8-A09Z-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | ||
| PCDH15 | SNV | Missense_Mutation | novel | c.1685C>T | p.Ser562Leu | p.S562L | protein_coding | deleterious_low_confidence(0) | benign(0.255) | TCGA-AC-A2B8-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | chemo | PD | |
| PCDH15 | SNV | Missense_Mutation | novel | c.1057N>G | p.Ser353Gly | p.S353G | protein_coding | tolerated(0.16) | benign(0.199) | TCGA-AC-A3HN-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| PCDH15 | SNV | Missense_Mutation | rs543675977 | c.2044N>A | p.Glu682Lys | p.E682K | protein_coding | deleterious_low_confidence(0) | benign(0.07) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | 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 |
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