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Gene: LRP5L |
Gene summary for LRP5L |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | LRP5L | Gene ID | 91355 |
| Gene name | LDL receptor related protein 5 like | |
| Gene Alias | LRP5L | |
| Cytomap | 22q11.23 | |
| Gene Type | pseudo | GO ID | GO:0001501 | UniProtAcc | NA |
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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 |
| 91355 | LRP5L | male-WTA | Human | Thyroid | PTC | 1.93e-10 | 1.55e-01 | 0.1037 |
| 91355 | LRP5L | PTC01 | Human | Thyroid | PTC | 2.24e-23 | 5.03e-01 | 0.1899 |
| 91355 | LRP5L | PTC04 | Human | Thyroid | PTC | 1.63e-12 | 3.07e-01 | 0.1927 |
| 91355 | LRP5L | PTC05 | Human | Thyroid | PTC | 7.45e-10 | 4.64e-01 | 0.2065 |
| 91355 | LRP5L | PTC06 | Human | Thyroid | PTC | 9.69e-39 | 9.28e-01 | 0.2057 |
| 91355 | LRP5L | PTC07 | Human | Thyroid | PTC | 4.27e-27 | 4.89e-01 | 0.2044 |
| 91355 | LRP5L | ATC2 | Human | Thyroid | ATC | 2.29e-03 | 2.84e-01 | 0.34 |
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| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Thyroid |  | ATC: Anaplastic thyroid cancer |
| HT: Hashimoto's thyroiditis | ||
| PTC: Papillary thyroid 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). |
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| Enriched GO biological processes. |
| GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
| GO:0048732113 | Thyroid | PTC | gland development | 193/5968 | 436/18723 | 2.88e-08 | 6.42e-07 | 193 |
| GO:0001503110 | Thyroid | PTC | ossification | 176/5968 | 408/18723 | 9.26e-07 | 1.40e-05 | 176 |
| GO:006056219 | Thyroid | PTC | epithelial tube morphogenesis | 141/5968 | 325/18723 | 7.52e-06 | 8.73e-05 | 141 |
| GO:0001649111 | Thyroid | PTC | osteoblast differentiation | 102/5968 | 229/18723 | 3.66e-05 | 3.40e-04 | 102 |
| GO:0009743113 | Thyroid | PTC | response to carbohydrate | 111/5968 | 253/18723 | 3.77e-05 | 3.48e-04 | 111 |
| GO:000736910 | Thyroid | PTC | gastrulation | 84/5968 | 185/18723 | 7.58e-05 | 6.52e-04 | 84 |
| GO:0034284112 | Thyroid | PTC | response to monosaccharide | 99/5968 | 225/18723 | 8.42e-05 | 7.03e-04 | 99 |
| GO:00603486 | Thyroid | PTC | bone development | 90/5968 | 205/18723 | 1.89e-04 | 1.42e-03 | 90 |
| GO:0009746112 | Thyroid | PTC | response to hexose | 94/5968 | 219/18723 | 3.62e-04 | 2.45e-03 | 94 |
| GO:0009749111 | Thyroid | PTC | response to glucose | 91/5968 | 212/18723 | 4.44e-04 | 2.95e-03 | 91 |
| GO:000176316 | Thyroid | PTC | morphogenesis of a branching structure | 81/5968 | 196/18723 | 3.20e-03 | 1.57e-02 | 81 |
| GO:002261219 | Thyroid | PTC | gland morphogenesis | 52/5968 | 118/18723 | 3.56e-03 | 1.72e-02 | 52 |
| GO:0001678110 | Thyroid | PTC | cellular glucose homeostasis | 72/5968 | 172/18723 | 3.58e-03 | 1.73e-02 | 72 |
| GO:0033500110 | Thyroid | PTC | carbohydrate homeostasis | 103/5968 | 259/18723 | 4.19e-03 | 1.99e-02 | 103 |
| GO:0071322111 | Thyroid | PTC | cellular response to carbohydrate stimulus | 68/5968 | 163/18723 | 5.00e-03 | 2.31e-02 | 68 |
| GO:0042593110 | Thyroid | PTC | glucose homeostasis | 102/5968 | 258/18723 | 5.34e-03 | 2.46e-02 | 102 |
| GO:0071333110 | Thyroid | PTC | cellular response to glucose stimulus | 63/5968 | 151/18723 | 6.69e-03 | 2.89e-02 | 63 |
| GO:00611387 | Thyroid | PTC | morphogenesis of a branching epithelium | 74/5968 | 182/18723 | 7.45e-03 | 3.18e-02 | 74 |
| GO:007169216 | Thyroid | PTC | protein localization to extracellular region | 139/5968 | 368/18723 | 8.95e-03 | 3.72e-02 | 139 |
| GO:0071331110 | Thyroid | PTC | cellular response to hexose stimulus | 63/5968 | 153/18723 | 9.35e-03 | 3.85e-02 | 63 |
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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 |
| 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. |
| 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 |
| LRP5L | SNV | Missense_Mutation | rs781105141 | c.137G>A | p.Arg46Gln | p.R46Q | A4QPB2 | protein_coding | deleterious(0.03) | probably_damaging(0.999) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| LRP5L | insertion | Frame_Shift_Ins | novel | c.727_728insCCGGC | p.Leu243SerfsTer14 | p.L243Sfs*14 | A4QPB2 | protein_coding | TCGA-B6-A0IA-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | ||
| LRP5L | insertion | Frame_Shift_Ins | novel | c.726_727insGGGGCTGAAGTGGAGCTCGGCAGCC | p.Leu243GlyfsTer14 | p.L243Gfs*14 | A4QPB2 | protein_coding | TCGA-B6-A0IA-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | ||
| LRP5L | SNV | Missense_Mutation | rs371884124 | c.13G>A | p.Val5Ile | p.V5I | A4QPB2 | protein_coding | tolerated(0.99) | benign(0.015) | TCGA-EA-A410-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
| LRP5L | SNV | Missense_Mutation | rs756148751 | c.31N>A | p.Glu11Lys | p.E11K | A4QPB2 | protein_coding | tolerated(0.42) | benign(0.039) | TCGA-IR-A3LL-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| LRP5L | SNV | Missense_Mutation | rs868414818 | c.601N>A | p.Asp201Asn | p.D201N | A4QPB2 | protein_coding | deleterious(0.03) | benign(0.084) | TCGA-MU-A5YI-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | PD |
| LRP5L | SNV | Missense_Mutation | c.419C>A | p.Ala140Asp | p.A140D | A4QPB2 | protein_coding | deleterious(0) | probably_damaging(0.977) | TCGA-AA-3715-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | |
| LRP5L | SNV | Missense_Mutation | novel | c.485N>G | p.Lys162Arg | p.K162R | A4QPB2 | protein_coding | tolerated(0.22) | benign(0.405) | TCGA-AA-3811-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD |
| LRP5L | SNV | Missense_Mutation | rs140732594 | c.586C>T | p.Arg196Trp | p.R196W | A4QPB2 | protein_coding | deleterious(0) | probably_damaging(0.968) | TCGA-AD-5900-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
| LRP5L | SNV | Missense_Mutation | c.704N>T | p.Ser235Phe | p.S235F | A4QPB2 | protein_coding | tolerated(0.29) | benign(0) | TCGA-CK-4951-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
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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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