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Gene: LINC02253 |
Gene summary for LINC02253 |
Gene summary. |
Gene information | Species | Human | Gene symbol | LINC02253 | Gene ID | 107984764 |
Gene name | long intergenic non-protein coding RNA 2253 | |
Gene Alias | LINC02253 | |
Cytomap | 15q26.2 | |
Gene Type | ncRNA | GO ID | NA | 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 |
107984764 | LINC02253 | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.22e-04 | 1.36e-01 | 0.0155 |
107984764 | LINC02253 | HTA11_7696_3000711011 | Human | Colorectum | AD | 2.07e-07 | 1.76e-01 | 0.0674 |
107984764 | LINC02253 | HTA11_6818_2000001021 | Human | Colorectum | AD | 6.33e-04 | 2.34e-01 | 0.0588 |
107984764 | LINC02253 | F007 | Human | Colorectum | FAP | 7.80e-09 | 5.14e-01 | 0.1176 |
107984764 | LINC02253 | A001-C-207 | Human | Colorectum | FAP | 2.32e-06 | 3.90e-01 | 0.1278 |
107984764 | LINC02253 | A002-C-203 | Human | Colorectum | FAP | 1.09e-16 | 5.16e-01 | 0.2786 |
107984764 | LINC02253 | A001-C-108 | Human | Colorectum | FAP | 4.38e-06 | 2.69e-01 | -0.0272 |
107984764 | LINC02253 | A001-C-104 | Human | Colorectum | FAP | 2.07e-07 | 2.32e-01 | 0.0184 |
107984764 | LINC02253 | A001-C-014 | Human | Colorectum | FAP | 8.62e-04 | 1.98e-01 | 0.0135 |
107984764 | LINC02253 | A001-C-007 | Human | Colorectum | CRC | 1.85e-07 | 4.80e-01 | 0.1899 |
107984764 | LINC02253 | F072B | Human | Colorectum | FAP | 3.80e-25 | 7.17e-01 | 0.257 |
107984764 | LINC02253 | S014 | Human | Liver | HCC | 3.33e-15 | 5.82e-01 | 0.2254 |
107984764 | LINC02253 | S015 | Human | Liver | HCC | 2.60e-11 | 4.78e-01 | 0.2375 |
107984764 | LINC02253 | S016 | Human | Liver | HCC | 7.33e-25 | 6.10e-01 | 0.2243 |
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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 |
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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 |
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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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