Details for: LOC107986494

Gene ID: 107986494

Gene Type:  ncRNA (Non-coding RNA)  - A functional RNA molecule that is transcribed from DNA but not translated into a protein. Includes classes like miRNA and lncRNA.

Symbol: LOC107986494

Ensembl ID: ENSG00000253163

Description: uncharacterized LOC107986494

Selected Context(s):  Overall

Cell Significance Landscape

Contexts:

Significant Cells

Cell Significance Index (CSI) scores for the chosen context(s)

  • CD8-positive, alpha-beta memory T cell, CD45RO-positive CL0001203
    CSI 3.9
    rCSI 4.73%
    PRS 98.73

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this specific cell.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.
Network Configuration

Explore relationships of the current gene. Select an Interaction Source: 'ONTOLOGY' for shared pathways (GO/Reactome) or 'STRING' for protein-protein interactions. Further refine by selecting context genes and comparing Cell Significance Index (CSI) scores between baseline and target cell types and their specific contexts.

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  • Query Gene
  • Node Color (Target Cell CSI, relative to current network):
    • Very High
    • High
    • Medium
    • Low
    • Very Low
    • CSI N/A
  • Node Size: Proportional to Target Cell CSI magnitude
  • STRING PPI Edge
  • Shared Pathway Edge (ONTOLOGY)

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Other Information

This section provides additional information about the gene, including a description generated by an AI language model and details about associated proteins.

## Summary Analyzed for its expression specificity (CSI Z-SCORE), `LOC107986494` is an uncharacterized non-coding RNA (ncRNA) located on chromosome 5q35.3. The available data presents a complex and statistically challenging expression profile. While it achieves a high percentile rank (PRS: 98.73%) and a maximal effect size (deltaVal: 1.00) in [CD8-positive, alpha-beta memory T cell, CD45RO-positive](/details-cell/CL0001203), its core specificity score is null (CSI Z-SCORE: 0.00) and lacks statistical significance (p-value: 0.510). This contradictory evidence suggests that `LOC107986494` is not a robust or defining marker of this T cell subset, and its expression may be highly sporadic or an artifact of sparse data. ## Cellular Roles and Expression Landscape The expression profile of [LOC107986494](/details-gene/107986494) is characterized by conflicting statistical signals within the **Overall** tissue context. The gene is most prominently associated with [CD8-positive, alpha-beta memory T cell, CD45RO-positive](/details-cell/CL0001203), a cell type critical for long-term adaptive immunity. The data indicates a perfect effect size (deltaVal: 1.00), which would typically imply that the gene's expression is exclusively restricted to this cell type. This is further supported by a high percentile rank (PRS: 98.73%), placing it among the top tier of genes when ranked by this metric. However, these figures are directly contradicted by the primary statistical measures of specificity. A CSI (Z-SCORE) of 0.00 indicates that its expression level provides no specific information to distinguish these cells from the average cell in the dataset. This conclusion is strongly reinforced by a non-significant p-value of 0.510. This discrepancy may arise from an extremely sparse expression pattern, where the transcript is detected in a very small number of individual cells that happen to be exclusively of one type. Such a pattern can inflate the effect size calculation while failing to achieve statistical significance, suggesting that the expression is more likely a stochastic event rather than a stable, defining feature of the cell population. ## Pathways and Molecular Function As an uncharacterized non-coding RNA, [LOC107986494](/details-gene/107986494) currently has no assigned Gene Ontology (GO) or Reactome pathway annotations. The functional role of this gene remains unknown. Given its potential, albeit statistically unconfirmed, association with [CD8-positive, alpha-beta memory T cells, CD45RO-positive](/details-cell/CL0001203), any putative function may relate to the intricate regulatory networks governing T cell biology. Non-coding RNAs are established as critical regulators of lymphocyte differentiation, activation, and memory formation through mechanisms such as epigenetic modification, transcriptional control, and post-transcriptional silencing of target mRNAs. If its expression in memory T cells is validated, [LOC107986494](/details-gene/107986494) could potentially be involved in processes like maintaining quiescence, modulating recall responses, or contributing to cellular longevity. ## Research Directions The conflicting and statistically insignificant data for [LOC107986494](/details-gene/107986494) necessitates foundational research to first validate its expression and then explore its potential function. ### Testable Hypotheses 1. **Hypothesis:** The expression of [LOC107986494](/details-gene/107986494) in [CD8-positive, alpha-beta memory T cells, CD45RO-positive](/details-cell/CL0001203) is a rare, stochastic event rather than a stable marker for a functional sub-population. * **Experimental Approach:** Utilize highly sensitive single-molecule fluorescence in situ hybridization (smFISH) on sorted human CD8+CD45RO+ T cells to visualize and quantify [LOC107986494](/details-gene/107986494) transcripts on a single-cell level. This would determine the true fraction of expressing cells and the transcript copy number per cell, clarifying whether the signal represents biological noise or a meaningful but rare expression pattern. 2. **Hypothesis:** If expression is confirmed, [LOC107986494](/details-gene/107986494) functions as a regulator of T cell quiescence or survival in the memory phase. * **Experimental Approach:** Perform loss-of-function studies using CRISPRi to knockdown [LOC107986494](/details-gene/107986494) in primary human CD8+ T cells differentiated into memory-like cells *in vitro*. Assess changes in cell cycle entry (e.g., Ki-67 staining), apoptosis (e.g., Annexin V staining), and expression of key memory-associated transcription factors (e.g., BCL6, EOMES) over a time course. 3. **Hypothesis:** [LOC107986494](/details-gene/107986494) acts as a competing endogenous RNA (ceRNA), sequestering microRNAs that target critical immune signaling pathways in T cells. * **Experimental Approach:** Conduct an RNA pull-down assay using biotinylated probes for [LOC107986494](/details-gene/107986494) in lysates from human memory T cells, followed by small RNA sequencing to identify bound microRNAs. Bioinformatic prediction of the target genes of these miRNAs, followed by validation with luciferase reporter assays, could uncover the downstream pathways regulated by this ncRNA. ### Therapeutic Potential The therapeutic potential of [LOC107986494](/details-gene/107986494) is entirely speculative at this stage. Before any clinical relevance can be considered, its expression pattern and biological function must be rigorously validated. Should it be confirmed as a genuine regulator of T cell memory, it could present a novel target for immunomodulation. For example, if it proves to be a negative regulator of T cell function, its inhibition via antisense oligonucleotides could be explored to enhance the persistence and efficacy of adoptive T cell therapies in oncology. Conversely, if it promotes T cell quiescence, its agonism could be investigated as a strategy to temper autoimmune diseases. However, such concepts are distant and contingent on extensive foundational research.