|
Gene: LY6E |
Gene summary for LY6E |
Gene summary. |
Gene information | Species | Human | Gene symbol | LY6E | Gene ID | 4061 |
Gene name | lymphocyte antigen 6 family member E | |
Gene Alias | RIG-E | |
Cytomap | 8q24.3 | |
Gene Type | protein-coding | GO ID | GO:0001701 | UniProtAcc | Q16553 |
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 |
4061 | LY6E | GSM4909315 | Human | Breast | IDC | 4.12e-02 | -3.17e-01 | 0.21 |
4061 | LY6E | GSM4909317 | Human | Breast | IDC | 2.83e-43 | 8.49e-01 | 0.1355 |
4061 | LY6E | GSM4909318 | Human | Breast | IDC | 2.84e-14 | 7.08e-01 | 0.2031 |
4061 | LY6E | GSM4909319 | Human | Breast | IDC | 8.79e-74 | 6.31e-01 | 0.1563 |
4061 | LY6E | GSM4909320 | Human | Breast | IDC | 1.24e-10 | -6.61e-01 | 0.1575 |
4061 | LY6E | GSM4909321 | Human | Breast | IDC | 1.19e-24 | 4.75e-01 | 0.1559 |
4061 | LY6E | ctrl6 | Human | Breast | Precancer | 1.91e-06 | -5.49e-01 | -0.0061 |
4061 | LY6E | brca2 | Human | Breast | Precancer | 1.33e-03 | 2.59e-01 | -0.024 |
4061 | LY6E | brca10 | Human | Breast | Precancer | 7.74e-10 | -4.76e-01 | -0.0029 |
4061 | LY6E | NCCBC14 | Human | Breast | DCIS | 7.91e-10 | -2.73e-01 | 0.2021 |
4061 | LY6E | NCCBC2 | Human | Breast | DCIS | 2.35e-02 | 6.15e-02 | 0.1554 |
4061 | LY6E | NCCBC5 | Human | Breast | DCIS | 6.19e-26 | 5.34e-01 | 0.2046 |
4061 | LY6E | NCCBC6 | Human | Breast | DCIS | 3.57e-03 | 2.12e-01 | 0.2095 |
4061 | LY6E | P1 | Human | Breast | IDC | 6.99e-19 | -2.02e-01 | 0.1527 |
4061 | LY6E | DCIS2 | Human | Breast | DCIS | 3.85e-45 | 6.29e-01 | 0.0085 |
4061 | LY6E | CA_HPV_3 | Human | Cervix | CC | 2.18e-07 | -6.38e-02 | 0.0414 |
4061 | LY6E | HSIL_HPV_1 | Human | Cervix | HSIL_HPV | 2.46e-10 | -5.38e-01 | 0.0116 |
4061 | LY6E | N_HPV_1 | Human | Cervix | N_HPV | 1.90e-05 | -4.92e-01 | 0.0079 |
4061 | LY6E | CCI_1 | Human | Cervix | CC | 1.70e-06 | -6.82e-01 | 0.528 |
4061 | LY6E | CCI_2 | Human | Cervix | CC | 1.61e-07 | 1.11e+00 | 0.5249 |
Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 |
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. |
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 |
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:00160329 | Breast | Precancer | viral process | 58/1080 | 415/18723 | 3.42e-10 | 3.16e-08 | 58 |
GO:00190589 | Breast | Precancer | viral life cycle | 47/1080 | 317/18723 | 2.42e-09 | 1.99e-07 | 47 |
GO:00444039 | Breast | Precancer | biological process involved in symbiotic interaction | 42/1080 | 290/18723 | 3.40e-08 | 2.11e-06 | 42 |
GO:00521269 | Breast | Precancer | movement in host environment | 29/1080 | 175/18723 | 2.59e-07 | 1.28e-05 | 29 |
GO:00517019 | Breast | Precancer | biological process involved in interaction with host | 31/1080 | 203/18723 | 6.52e-07 | 2.71e-05 | 31 |
GO:00507929 | Breast | Precancer | regulation of viral process | 27/1080 | 164/18723 | 7.59e-07 | 3.05e-05 | 27 |
GO:00444099 | Breast | Precancer | entry into host | 25/1080 | 151/18723 | 1.74e-06 | 6.19e-05 | 25 |
GO:00467189 | Breast | Precancer | viral entry into host cell | 24/1080 | 144/18723 | 2.46e-06 | 8.35e-05 | 24 |
GO:00487329 | Breast | Precancer | gland development | 49/1080 | 436/18723 | 6.11e-06 | 1.73e-04 | 49 |
GO:00439039 | Breast | Precancer | regulation of biological process involved in symbiotic interaction | 15/1080 | 72/18723 | 1.23e-05 | 3.17e-04 | 15 |
GO:19039009 | Breast | Precancer | regulation of viral life cycle | 23/1080 | 148/18723 | 1.31e-05 | 3.30e-04 | 23 |
GO:00523727 | Breast | Precancer | modulation by symbiont of entry into host | 12/1080 | 49/18723 | 1.61e-05 | 3.93e-04 | 12 |
GO:00465964 | Breast | Precancer | regulation of viral entry into host cell | 11/1080 | 42/18723 | 1.83e-05 | 4.35e-04 | 11 |
GO:19039014 | Breast | Precancer | negative regulation of viral life cycle | 7/1080 | 25/18723 | 4.00e-04 | 5.42e-03 | 7 |
GO:0046597 | Breast | Precancer | negative regulation of viral entry into host cell | 6/1080 | 21/18723 | 9.31e-04 | 1.06e-02 | 6 |
GO:00017017 | Breast | Precancer | in utero embryonic development | 35/1080 | 367/18723 | 2.47e-03 | 2.27e-02 | 35 |
GO:00605374 | Breast | Precancer | muscle tissue development | 37/1080 | 403/18723 | 3.60e-03 | 2.98e-02 | 37 |
GO:00147063 | Breast | Precancer | striated muscle tissue development | 35/1080 | 384/18723 | 5.10e-03 | 3.83e-02 | 35 |
GO:00485255 | Breast | Precancer | negative regulation of viral process | 12/1080 | 92/18723 | 6.51e-03 | 4.51e-02 | 12 |
GO:001603214 | Breast | IDC | viral process | 75/1434 | 415/18723 | 1.98e-12 | 4.02e-10 | 75 |
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 28 |
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 |
LY6E | SNV | Missense_Mutation | rs368130997 | c.59N>T | p.Ser20Leu | p.S20L | Q16553 | protein_coding | deleterious(0.02) | benign(0.011) | TCGA-LL-A740-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | CR |
LY6E | SNV | Missense_Mutation | novel | c.282N>C | p.Gln94His | p.Q94H | Q16553 | protein_coding | deleterious(0.04) | probably_damaging(0.933) | TCGA-VS-A9V1-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | PD |
LY6E | SNV | Missense_Mutation | novel | c.217N>A | p.Pro73Thr | p.P73T | Q16553 | protein_coding | deleterious(0.02) | possibly_damaging(0.822) | TCGA-AA-3522-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
LY6E | SNV | Missense_Mutation | c.167N>A | p.Gly56Asp | p.G56D | Q16553 | protein_coding | deleterious(0.03) | probably_damaging(0.999) | TCGA-AA-3710-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
LY6E | SNV | Missense_Mutation | c.392C>A | p.Pro131His | p.P131H | Q16553 | protein_coding | deleterious_low_confidence(0) | possibly_damaging(0.75) | TCGA-AA-3877-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
LY6E | SNV | Missense_Mutation | rs777594710 | c.218N>T | p.Pro73Leu | p.P73L | Q16553 | protein_coding | deleterious(0.01) | benign(0.052) | TCGA-AP-A0LT-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
LY6E | SNV | Missense_Mutation | novel | c.350N>T | p.Gly117Val | p.G117V | Q16553 | protein_coding | tolerated(0.06) | possibly_damaging(0.851) | TCGA-NJ-A55A-01 | Lung | lung adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
LY6E | SNV | Missense_Mutation | novel | c.208A>G | p.Thr70Ala | p.T70A | Q16553 | protein_coding | tolerated(0.18) | benign(0) | TCGA-37-4132-01 | Lung | lung squamous cell carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
LY6E | SNV | Missense_Mutation | novel | c.221N>T | p.Ala74Val | p.A74V | Q16553 | protein_coding | tolerated(0.92) | benign(0) | TCGA-D7-A6EY-01 | Stomach | stomach adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD |
Page: 1 |
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 |