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Gene: CDHR3 |
Gene summary for CDHR3 |
Gene summary. |
Gene information | Species | Human | Gene symbol | CDHR3 | Gene ID | 222256 |
Gene name | cadherin related family member 3 | |
Gene Alias | CDH28 | |
Cytomap | 7q22.3 | |
Gene Type | protein-coding | GO ID | GO:0000902 | UniProtAcc | B7Z8X2 |
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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 |
222256 | CDHR3 | HTA11_3410_2000001011 | Human | Colorectum | AD | 9.34e-04 | -3.98e-01 | 0.0155 |
222256 | CDHR3 | HTA11_347_2000001011 | Human | Colorectum | AD | 7.61e-03 | 2.90e-01 | -0.1954 |
222256 | CDHR3 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 2.04e-13 | -4.87e-01 | 0.294 |
222256 | CDHR3 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 4.25e-03 | 4.51e-01 | 0.281 |
222256 | CDHR3 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 3.20e-07 | -3.70e-01 | 0.3005 |
222256 | CDHR3 | A001-C-207 | Human | Colorectum | FAP | 4.32e-04 | -3.94e-01 | 0.1278 |
222256 | CDHR3 | A015-C-203 | Human | Colorectum | FAP | 7.64e-25 | -4.93e-01 | -0.1294 |
222256 | CDHR3 | A015-C-204 | Human | Colorectum | FAP | 7.45e-03 | -3.40e-01 | -0.0228 |
222256 | CDHR3 | A002-C-201 | Human | Colorectum | FAP | 7.71e-08 | -3.91e-01 | 0.0324 |
222256 | CDHR3 | A001-C-119 | Human | Colorectum | FAP | 6.03e-05 | -4.83e-01 | -0.1557 |
222256 | CDHR3 | A001-C-108 | Human | Colorectum | FAP | 2.34e-17 | -4.24e-01 | -0.0272 |
222256 | CDHR3 | A002-C-205 | Human | Colorectum | FAP | 3.98e-13 | -4.35e-01 | -0.1236 |
222256 | CDHR3 | A001-C-104 | Human | Colorectum | FAP | 8.71e-06 | -3.88e-01 | 0.0184 |
222256 | CDHR3 | A015-C-006 | Human | Colorectum | FAP | 2.88e-08 | -4.68e-01 | -0.0994 |
222256 | CDHR3 | A015-C-106 | Human | Colorectum | FAP | 5.16e-11 | -3.83e-01 | -0.0511 |
222256 | CDHR3 | A002-C-114 | Human | Colorectum | FAP | 6.28e-10 | -4.21e-01 | -0.1561 |
222256 | CDHR3 | A015-C-104 | Human | Colorectum | FAP | 1.31e-24 | -5.05e-01 | -0.1899 |
222256 | CDHR3 | A001-C-014 | Human | Colorectum | FAP | 6.18e-11 | -4.14e-01 | 0.0135 |
222256 | CDHR3 | A002-C-016 | Human | Colorectum | FAP | 8.60e-16 | -3.94e-01 | 0.0521 |
222256 | CDHR3 | A015-C-002 | Human | Colorectum | FAP | 7.91e-08 | -5.16e-01 | -0.0763 |
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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:0016032 | Colorectum | AD | viral process | 168/3918 | 415/18723 | 4.67e-20 | 3.66e-17 | 168 |
GO:0019058 | Colorectum | AD | viral life cycle | 119/3918 | 317/18723 | 6.18e-12 | 8.23e-10 | 119 |
GO:0045216 | Colorectum | AD | cell-cell junction organization | 80/3918 | 200/18723 | 5.57e-10 | 4.58e-08 | 80 |
GO:0034329 | Colorectum | AD | cell junction assembly | 136/3918 | 420/18723 | 2.02e-08 | 1.15e-06 | 136 |
GO:0044403 | Colorectum | AD | biological process involved in symbiotic interaction | 99/3918 | 290/18723 | 1.02e-07 | 4.93e-06 | 99 |
GO:0007043 | Colorectum | AD | cell-cell junction assembly | 57/3918 | 146/18723 | 4.18e-07 | 1.61e-05 | 57 |
GO:0051701 | Colorectum | AD | biological process involved in interaction with host | 73/3918 | 203/18723 | 5.08e-07 | 1.88e-05 | 73 |
GO:0052126 | Colorectum | AD | movement in host environment | 63/3918 | 175/18723 | 2.85e-06 | 8.11e-05 | 63 |
GO:0046718 | Colorectum | AD | viral entry into host cell | 51/3918 | 144/18723 | 3.99e-05 | 7.16e-04 | 51 |
GO:0044409 | Colorectum | AD | entry into host | 51/3918 | 151/18723 | 1.60e-04 | 2.21e-03 | 51 |
GO:0034332 | Colorectum | AD | adherens junction organization | 20/3918 | 49/18723 | 1.23e-03 | 1.09e-02 | 20 |
GO:00160322 | Colorectum | MSS | viral process | 157/3467 | 415/18723 | 7.94e-21 | 6.19e-18 | 157 |
GO:00190582 | Colorectum | MSS | viral life cycle | 111/3467 | 317/18723 | 1.65e-12 | 2.95e-10 | 111 |
GO:00444032 | Colorectum | MSS | biological process involved in symbiotic interaction | 93/3467 | 290/18723 | 1.72e-08 | 9.85e-07 | 93 |
GO:00452162 | Colorectum | MSS | cell-cell junction organization | 69/3467 | 200/18723 | 5.07e-08 | 2.70e-06 | 69 |
GO:00343292 | Colorectum | MSS | cell junction assembly | 120/3467 | 420/18723 | 2.51e-07 | 1.07e-05 | 120 |
GO:00517012 | Colorectum | MSS | biological process involved in interaction with host | 67/3467 | 203/18723 | 5.13e-07 | 1.98e-05 | 67 |
GO:00521262 | Colorectum | MSS | movement in host environment | 58/3467 | 175/18723 | 2.50e-06 | 7.64e-05 | 58 |
GO:00070432 | Colorectum | MSS | cell-cell junction assembly | 50/3467 | 146/18723 | 4.24e-06 | 1.21e-04 | 50 |
GO:00467182 | Colorectum | MSS | viral entry into host cell | 47/3467 | 144/18723 | 3.35e-05 | 6.56e-04 | 47 |
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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. |
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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 |
CDHR3 | SNV | Missense_Mutation | novel | c.2204C>T | p.Ala735Val | p.A735V | Q6ZTQ4 | protein_coding | tolerated(0.24) | benign(0.018) | TCGA-AA-3984-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
CDHR3 | SNV | Missense_Mutation | c.890N>T | p.Arg297Met | p.R297M | Q6ZTQ4 | protein_coding | deleterious(0.05) | possibly_damaging(0.76) | TCGA-AA-A02R-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | PD | |
CDHR3 | SNV | Missense_Mutation | c.550T>A | p.Ser184Thr | p.S184T | Q6ZTQ4 | protein_coding | tolerated(0.17) | benign(0.426) | TCGA-AD-6964-01 | Colorectum | colon adenocarcinoma | Male | <65 | III/IV | Chemotherapy | folfox | PD | |
CDHR3 | SNV | Missense_Mutation | c.487G>T | p.Asp163Tyr | p.D163Y | Q6ZTQ4 | protein_coding | deleterious(0) | probably_damaging(0.979) | TCGA-AY-4070-01 | Colorectum | colon adenocarcinoma | Female | <65 | III/IV | Chemotherapy | 5-fu | PD | |
CDHR3 | SNV | Missense_Mutation | novel | c.53A>G | p.Glu18Gly | p.E18G | Q6ZTQ4 | protein_coding | tolerated(0.19) | benign(0.003) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR |
CDHR3 | SNV | Missense_Mutation | novel | c.1218G>T | p.Lys406Asn | p.K406N | Q6ZTQ4 | protein_coding | tolerated(0.22) | benign(0.013) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR |
CDHR3 | SNV | Missense_Mutation | c.2456N>A | p.Ala819Asp | p.A819D | Q6ZTQ4 | protein_coding | deleterious(0.03) | benign(0.027) | TCGA-CM-4743-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Chemotherapy | capecitabine | SD | |
CDHR3 | SNV | Missense_Mutation | c.971G>A | p.Gly324Asp | p.G324D | Q6ZTQ4 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-CM-6674-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
CDHR3 | SNV | Missense_Mutation | c.1133N>T | p.Ala378Val | p.A378V | Q6ZTQ4 | protein_coding | tolerated(0.13) | benign(0.145) | TCGA-D5-6927-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
CDHR3 | SNV | Missense_Mutation | c.2135T>C | p.Val712Ala | p.V712A | Q6ZTQ4 | protein_coding | deleterious(0) | probably_damaging(0.991) | TCGA-D5-6930-01 | Colorectum | colon adenocarcinoma | Male | >=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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