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Gene: LYPD8 |
Gene summary for LYPD8 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | LYPD8 | Gene ID | 646627 |
| Gene name | LY6/PLAUR domain containing 8 | |
| Gene Alias | LYPD8 | |
| Cytomap | 1q44 | |
| Gene Type | protein-coding | GO ID | GO:0002376 | UniProtAcc | Q6UX82 |
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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 |
| 646627 | LYPD8 | HTA11_2487_2000001011 | Human | Colorectum | SER | 6.99e-27 | 2.15e+00 | -0.1808 |
| 646627 | LYPD8 | HTA11_78_2000001011 | Human | Colorectum | AD | 4.55e-04 | 5.40e-01 | -0.1088 |
| 646627 | LYPD8 | HTA11_347_2000001011 | Human | Colorectum | AD | 3.99e-07 | 8.76e-01 | -0.1954 |
| 646627 | LYPD8 | HTA11_411_2000001011 | Human | Colorectum | SER | 2.80e-14 | 2.67e+00 | -0.2602 |
| 646627 | LYPD8 | HTA11_2112_2000001011 | Human | Colorectum | SER | 4.50e-13 | 2.26e+00 | -0.2196 |
| 646627 | LYPD8 | HTA11_3361_2000001011 | Human | Colorectum | AD | 6.27e-22 | 1.59e+00 | -0.1207 |
| 646627 | LYPD8 | HTA11_83_2000001011 | Human | Colorectum | SER | 3.34e-02 | 1.02e+00 | -0.1526 |
| 646627 | LYPD8 | HTA11_1391_2000001011 | Human | Colorectum | AD | 2.74e-05 | 4.47e-01 | -0.059 |
| 646627 | LYPD8 | HTA11_2992_2000001011 | Human | Colorectum | SER | 2.03e-02 | 9.91e-01 | -0.1706 |
| 646627 | LYPD8 | HTA11_5212_2000001011 | Human | Colorectum | AD | 6.05e-12 | 2.39e+00 | -0.2061 |
| 646627 | LYPD8 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 1.24e-02 | -1.00e-01 | 0.3859 |
| 646627 | LYPD8 | A015-C-203 | Human | Colorectum | FAP | 1.94e-02 | -9.20e-02 | -0.1294 |
| 646627 | LYPD8 | A002-C-203 | Human | Colorectum | FAP | 2.05e-06 | -1.52e-01 | 0.2786 |
| 646627 | LYPD8 | A015-C-104 | Human | Colorectum | FAP | 2.66e-04 | -1.27e-01 | -0.1899 |
| 646627 | LYPD8 | A001-C-014 | Human | Colorectum | FAP | 3.26e-03 | -1.22e-01 | 0.0135 |
| 646627 | LYPD8 | A002-C-016 | Human | Colorectum | FAP | 2.05e-06 | -1.47e-01 | 0.0521 |
| 646627 | LYPD8 | A002-C-116 | Human | Colorectum | FAP | 2.72e-04 | -1.19e-01 | -0.0452 |
| 646627 | LYPD8 | F034 | Human | Colorectum | FAP | 5.50e-03 | -1.37e-01 | -0.0665 |
| 646627 | LYPD8 | F072B | Human | Colorectum | FAP | 5.96e-04 | -1.35e-01 | 0.257 |
| 646627 | LYPD8 | CRC-1-8810 | Human | Colorectum | CRC | 9.56e-07 | -1.51e-01 | 0.6257 |
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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 |
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| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
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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 |
| LYPD8 | deletion | Frame_Shift_Del | novel | c.640delC | p.His214ThrfsTer63 | p.H214Tfs*63 | Q6UX82 | protein_coding | TCGA-D8-A27V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | ||
| LYPD8 | SNV | Missense_Mutation | novel | c.526G>A | p.Ala176Thr | p.A176T | Q6UX82 | protein_coding | deleterious(0.01) | benign(0.09) | TCGA-AA-3864-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
| LYPD8 | SNV | Missense_Mutation | rs781798219 | c.697N>T | p.Arg233Trp | p.R233W | Q6UX82 | protein_coding | deleterious_low_confidence(0.04) | benign(0.003) | TCGA-AA-A01R-01 | Colorectum | colon adenocarcinoma | Male | <65 | III/IV | Chemotherapy | 5-fluorouracil | PD |
| LYPD8 | SNV | Missense_Mutation | novel | c.592N>C | p.Cys198Arg | p.C198R | Q6UX82 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-EI-6882-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| LYPD8 | SNV | Missense_Mutation | novel | c.585N>T | p.Lys195Asn | p.K195N | Q6UX82 | protein_coding | deleterious(0.04) | benign(0.242) | TCGA-EY-A1GI-01 | Endometrium | uterine corpus endometrioid 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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