|
|||||
|
 | |
| |
| |
| |
| |
| |
|
Gene: CDH12 |
Gene summary for CDH12 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | CDH12 | Gene ID | 1010 |
| Gene name | cadherin 12 | |
| Gene Alias | CDHB | |
| Cytomap | 5p14.3 | |
| Gene Type | protein-coding | GO ID | GO:0000902 | UniProtAcc | P55289 |
Top |
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 |
| 1010 | CDH12 | HTA11_1938_2000001011 | Human | Colorectum | AD | 1.71e-04 | 2.69e-01 | -0.0811 |
| 1010 | CDH12 | HTA11_78_2000001011 | Human | Colorectum | AD | 5.33e-10 | 3.67e-01 | -0.1088 |
| 1010 | CDH12 | HTA11_347_2000001011 | Human | Colorectum | AD | 9.64e-14 | 3.82e-01 | -0.1954 |
| 1010 | CDH12 | HTA11_3361_2000001011 | Human | Colorectum | AD | 2.80e-02 | 2.27e-01 | -0.1207 |
| 1010 | CDH12 | HTA11_866_2000001011 | Human | Colorectum | AD | 3.08e-02 | 1.70e-01 | -0.1001 |
| 1010 | CDH12 | HTA11_1391_2000001011 | Human | Colorectum | AD | 4.26e-11 | 4.27e-01 | -0.059 |
| 1010 | CDH12 | HTA11_4255_2000001011 | Human | Colorectum | SER | 9.19e-06 | 4.57e-01 | 0.0446 |
| 1010 | CDH12 | HTA11_7663_2000001011 | Human | Colorectum | SER | 4.95e-05 | 3.95e-01 | 0.0131 |
| 1010 | CDH12 | HTA11_6818_2000001011 | Human | Colorectum | AD | 1.99e-13 | 7.47e-01 | 0.0112 |
| 1010 | CDH12 | HTA11_6818_2000001021 | Human | Colorectum | AD | 2.54e-12 | 5.12e-01 | 0.0588 |
| 1010 | CDH12 | HTA11_99999965062_69753 | Human | Colorectum | MSI-H | 4.66e-04 | 9.89e-01 | 0.3487 |
| 1010 | CDH12 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 6.77e-26 | 1.04e+00 | 0.281 |
| 1010 | CDH12 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 6.30e-23 | 5.47e-01 | 0.3859 |
| 1010 | CDH12 | A015-C-104 | Human | Colorectum | FAP | 3.61e-02 | -8.18e-02 | -0.1899 |
| Page: 1 |
| 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. |
Top |
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 |
| Cervix | N_HPV |  |
| Endometrium | AEH |  |
| Endometrium | EEC |  |
| Prostate | BPH |  |
| Prostate | Tumor |  |
| ∗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: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:0007043 | Colorectum | AD | cell-cell junction assembly | 57/3918 | 146/18723 | 4.18e-07 | 1.61e-05 | 57 |
| GO:0034332 | Colorectum | AD | adherens junction organization | 20/3918 | 49/18723 | 1.23e-03 | 1.09e-02 | 20 |
| GO:00452161 | Colorectum | SER | cell-cell junction organization | 63/2897 | 200/18723 | 9.15e-09 | 7.80e-07 | 63 |
| GO:00070431 | Colorectum | SER | cell-cell junction assembly | 45/2897 | 146/18723 | 2.23e-06 | 9.31e-05 | 45 |
| GO:00343291 | Colorectum | SER | cell junction assembly | 100/2897 | 420/18723 | 4.23e-06 | 1.61e-04 | 100 |
| 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:00070432 | Colorectum | MSS | cell-cell junction assembly | 50/3467 | 146/18723 | 4.24e-06 | 1.21e-04 | 50 |
| GO:00343321 | Colorectum | MSS | adherens junction organization | 18/3467 | 49/18723 | 2.03e-03 | 1.74e-02 | 18 |
| GO:00452163 | Colorectum | MSI-H | cell-cell junction organization | 28/1319 | 200/18723 | 3.82e-04 | 8.73e-03 | 28 |
| GO:00070433 | Colorectum | MSI-H | cell-cell junction assembly | 20/1319 | 146/18723 | 3.18e-03 | 3.93e-02 | 20 |
| GO:00343293 | Colorectum | FAP | cell junction assembly | 105/2622 | 420/18723 | 1.03e-09 | 2.18e-07 | 105 |
| GO:00452164 | Colorectum | FAP | cell-cell junction organization | 58/2622 | 200/18723 | 2.51e-08 | 2.36e-06 | 58 |
| GO:00070434 | Colorectum | FAP | cell-cell junction assembly | 39/2622 | 146/18723 | 3.74e-05 | 8.09e-04 | 39 |
| GO:00343322 | Colorectum | FAP | adherens junction organization | 18/2622 | 49/18723 | 6.06e-05 | 1.19e-03 | 18 |
| Page: 1 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
Top |
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 |
Top |
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 |
Top |
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 |
| CDH12 | SNV | Missense_Mutation | rs565906541 | c.516N>T | p.Met172Ile | p.M172I | P55289 | protein_coding | deleterious(0.02) | benign(0.061) | TCGA-A8-A06X-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| CDH12 | SNV | Missense_Mutation | rs763180534 | c.2239N>A | p.Val747Met | p.V747M | P55289 | protein_coding | deleterious(0.03) | benign(0.347) | TCGA-A8-A09Q-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Hormone Therapy | anastrozole | SD |
| CDH12 | SNV | Missense_Mutation | c.996N>C | p.Leu332Phe | p.L332F | P55289 | protein_coding | deleterious(0) | probably_damaging(0.982) | TCGA-AC-A23H-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD | |
| CDH12 | SNV | Missense_Mutation | c.941N>A | p.Gly314Glu | p.G314E | P55289 | protein_coding | tolerated(1) | probably_damaging(1) | TCGA-AO-A03V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | fluorouracil | SD | |
| CDH12 | SNV | Missense_Mutation | c.1745N>T | p.Thr582Ile | p.T582I | P55289 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-AR-A1AI-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | PD | |
| CDH12 | SNV | Missense_Mutation | c.526N>A | p.Gly176Ser | p.G176S | P55289 | protein_coding | deleterious(0.02) | benign(0.147) | TCGA-BH-A18V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| CDH12 | SNV | Missense_Mutation | c.256N>A | p.Glu86Lys | p.E86K | P55289 | protein_coding | deleterious(0.02) | benign(0.024) | TCGA-BH-A1F8-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD | |
| CDH12 | SNV | Missense_Mutation | c.1023N>C | p.Lys341Asn | p.K341N | P55289 | protein_coding | deleterious(0) | possibly_damaging(0.702) | TCGA-C8-A12U-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| CDH12 | SNV | Missense_Mutation | c.680N>A | p.Arg227Lys | p.R227K | P55289 | protein_coding | deleterious(0) | probably_damaging(0.992) | TCGA-C8-A274-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | |
| CDH12 | SNV | Missense_Mutation | c.2047N>T | p.Val683Leu | p.V683L | P55289 | protein_coding | tolerated(0.09) | benign(0.122) | TCGA-D8-A142-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | cyclophosphamid | 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 |
Top |
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 |
Copyright 2023-Present -The University of Texas Health Science Center at Houston |