Details for: LOC105370969

Gene ID: 105370969

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: LOC105370969

Ensembl ID: ENSG00000259704

Description: uncharacterized LOC105370969

Selected Context(s):  Overall

Cell Significance Landscape

Contexts:

Significant Cells

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

  • group 3 innate lymphoid cell CL0001071
    CSI 4.5
    rCSI 3.38%
    PRS 99.97

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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  • 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), the uncharacterized non-coding RNA [LOC105370969](/details-gene/105370969) is identified as a potentially highly specific marker for [group 3 innate lymphoid cell](/details-cell/CL0001071)s. While its exceptional rank and effect size suggest a uniquely restricted expression pattern, this association does not reach statistical significance in the current dataset, necessitating cautious interpretation and further validation. ## Cellular Roles and Expression Landscape The primary role of [LOC105370969](/details-gene/105370969), when viewed through the lens of expression specificity, appears to be as a defining feature of [group 3 innate lymphoid cell](/details-cell/CL0001071)s (ILC3s). This conclusion is supported by an extremely high percentile rank (PRS: 99.97%) and a maximum effect size (deltaVal: 1.00) in the `**Overall**` context. A deltaVal of 1.00 indicates that the gene's expression is almost exclusively detected within ILC3s compared to all other cell populations surveyed, positioning it as a candidate for a highly precise cellular marker. However, the statistical confidence in this finding is low, as reflected by a non-significant p-value (p=0.647). This discrepancy between a strong effect size and a lack of statistical significance may arise from factors such as low transcript abundance or a limited number of ILC3s in the dataset, which can diminish statistical power. Therefore, while the data strongly points toward [LOC105370969](/details-gene/105370969) being uniquely expressed in ILC3s, this observation should be considered preliminary until it is independently validated. If confirmed, its specific expression in a cell type crucial for mucosal immunity and tissue homeostasis would be of significant biological interest. ## Pathways and Molecular Function As an uncharacterized non-coding RNA, the molecular functions and pathway associations of [LOC105370969](/details-gene/105370969) are currently unknown. No established Gene Ontology or Reactome pathway annotations are available. Based on its highly specific expression in [group 3 innate lymphoid cell](/details-cell/CL0001071)s, it is plausible that [LOC105370969](/details-gene/105370969) is involved in regulating the unique biological functions of this lineage. Non-coding RNAs are known to act as potent regulators of gene expression through various mechanisms. Therefore, [LOC105370969](/details-gene/105370969) may contribute to ILC3 biology by: * Modulating the expression or activity of the master transcriptional regulator *RORC* (RORγt), which defines the ILC3 lineage. * Regulating the production of key ILC3 effector cytokines, such as IL-17 and IL-22, which are critical for epithelial barrier defense. * Participating in the epigenetic control of ILC3 lineage stability or functional polarization. ## Research Directions The preliminary yet highly specific expression pattern of [LOC105370969](/details-gene/105370969) suggests several avenues for future research. The immediate priority is to validate its ILC3-specific expression and then to elucidate its functional role. **Testable Hypotheses:** 1. **Hypothesis:** [LOC105370969](/details-gene/105370969) is a bona fide and robust marker of human ILC3s, and its lack of statistical significance in the present analysis is an artifact of low statistical power. * **Experimental Approach:** Utilize single-molecule fluorescence in situ hybridization (smFISH) on human intestinal or tonsillar tissue sections to visualize the expression of [LOC105370969](/details-gene/105370969) at single-cell resolution. Co-staining with established ILC3 protein markers (e.g., RORγt, NKp44) would confirm its co-localization and cellular identity. This could be complemented by RT-qPCR on FACS-sorted human immune cell subsets to quantify its exclusivity. 2. **Hypothesis:** [LOC105370969](/details-gene/105370969) is essential for maintaining ILC3 lineage identity by regulating the expression of the master transcription factor RORγt. * **Experimental Approach:** Perform loss-of-function studies using CRISPR interference (CRISPRi) to knockdown [LOC105370969](/details-gene/105370969) in primary human ILC3s. Subsequently, assess changes in *RORC* transcript levels and protein expression via RT-qPCR and Western blot/flow cytometry. A comprehensive transcriptomic analysis (RNA-seq) would reveal broader effects on the ILC3 gene expression program. 3. **Hypothesis:** [LOC105370969](/details-gene/105370969) functions as a molecular scaffold that recruits epigenetic modifiers to the promoters of genes involved in ILC3 effector functions, such as *IL22* and *IL17A*. * **Experimental Approach:** Perform Chromatin Isolation by RNA Purification (ChIRP) followed by sequencing (ChIRP-seq) in human ILC3s to identify the genomic loci where [LOC105370969](/details-gene/105370969) binds. Follow-up ChIRP-mass spectrometry could identify interacting proteins, including potential chromatin-modifying enzymes. **Therapeutic Potential:** If validated, the extreme cell-type specificity of [LOC105370969](/details-gene/105370969) makes it an attractive therapeutic target. ILC3s are implicated in the pathology of autoimmune diseases like inflammatory bowel disease and psoriasis. Antisense oligonucleotides (ASOs) or siRNAs targeting this lncRNA could be developed to specifically inhibit ILC3 function or induce their depletion, offering a highly targeted therapeutic strategy with potentially fewer off-target effects than broadly immunosuppressive agents.