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Gene: LINC00960 |
Gene summary for LINC00960 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | LINC00960 | Gene ID | 401074 |
| Gene name | long intergenic non-protein coding RNA 960 | |
| Gene Alias | LINC00960 | |
| Cytomap | 3p12.3 | |
| 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 |
| 401074 | LINC00960 | P76T-E | Human | Esophagus | ESCC | 1.56e-10 | 1.74e-01 | 0.1207 |
| 401074 | LINC00960 | P79T-E | Human | Esophagus | ESCC | 1.33e-07 | 1.88e-01 | 0.1154 |
| 401074 | LINC00960 | P80T-E | Human | Esophagus | ESCC | 2.80e-27 | 6.48e-01 | 0.155 |
| 401074 | LINC00960 | P83T-E | Human | Esophagus | ESCC | 2.33e-18 | 4.42e-01 | 0.1738 |
| 401074 | LINC00960 | P89T-E | Human | Esophagus | ESCC | 6.11e-12 | 5.52e-01 | 0.1752 |
| 401074 | LINC00960 | P107T-E | Human | Esophagus | ESCC | 9.79e-17 | 5.16e-01 | 0.171 |
| 401074 | LINC00960 | P127T-E | Human | Esophagus | ESCC | 9.19e-03 | 8.35e-02 | 0.0826 |
| 401074 | LINC00960 | P130T-E | Human | Esophagus | ESCC | 9.77e-19 | 3.56e-01 | 0.1676 |
| 401074 | LINC00960 | C04 | Human | Oral cavity | OSCC | 9.48e-04 | 2.61e-01 | 0.2633 |
| 401074 | LINC00960 | C30 | Human | Oral cavity | OSCC | 9.13e-12 | 4.96e-01 | 0.3055 |
| 401074 | LINC00960 | C38 | Human | Oral cavity | OSCC | 3.84e-12 | 7.36e-01 | 0.172 |
| 401074 | LINC00960 | C46 | Human | Oral cavity | OSCC | 8.23e-03 | 1.21e-01 | 0.1673 |
| 401074 | LINC00960 | C09 | Human | Oral cavity | OSCC | 8.08e-18 | 5.67e-01 | 0.1431 |
| 401074 | LINC00960 | SYSMH3 | Human | Oral cavity | OSCC | 4.94e-02 | 8.67e-02 | 0.2442 |
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| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma |
| ∗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 |
| Page: 1 |
| 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 |
| Page: 1 |
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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 |
| Page: 1 |
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