Details for: LINC01215

Gene ID: 101929623

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: LINC01215

Ensembl ID: ENSG00000271856

Description: long intergenic non-protein coding RNA 1215

Selected Context(s):  Overall

Cell Significance Landscape

Contexts:

Significant Cells

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

  • plasmablast CL0000980
    CSI 6.58
    rCSI 5.18%
    PRS 94.59
  • double negative thymocyte CL0002489
    CSI 4.56
    rCSI 3.17%
    PRS 98.2
  • central memory CD4-positive, alpha-beta T cell CL0000904
    CSI 4.34
    rCSI 2.56%
    PRS 99.12
  • unswitched memory B cell CL0000970
    CSI 3.8
    rCSI 3.2%
    PRS 97.93
  • class switched memory B cell CL0000972
    CSI 3.73
    rCSI 2.79%
    PRS 97.34
  • precursor B cell CL0000817
    CSI 3.67
    rCSI 3.22%
    PRS 95.69
  • immature B cell CL0000816
    CSI 3.24
    rCSI 2.41%
    PRS 97.13
  • mature B cell CL0000785
    CSI 3.03
    rCSI 2.63%
    PRS 97.17
  • small pre-B-II cell CL0000954
    CSI 2.54
    rCSI 2.44%
    PRS 97.5
  • mature alpha-beta T cell CL0000791
    CSI 1.77
    rCSI 6.4%
    PRS 98.85

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 [LINC01215](/details-gene/101929623) is a long intergenic non-coding RNA (lncRNA) located on chromosome 3q13.12. Expression data indicate that this gene is a highly specific marker for various lymphocyte populations, suggesting a significant role in the adaptive immune system. Its expression is particularly prominent across the B-cell lineage, from developmental stages such as [precursor B cells](/details-cell/CL0000817) to terminally differentiated [plasmablasts](/details-cell/CL0000980), where it shows its highest level of significance. Furthermore, its notable expression in T-cell subsets, including [double negative thymocytes](/details-cell/CL0002489) and [central memory CD4-positive, alpha-beta T cells](/details-cell/CL0000904), points towards a potential regulatory function in both the development and memory formation of T lymphocytes. ## Cellular Roles and Expression Landscape The expression profile of [LINC01215](/details-gene/101929623) firmly establishes its identity within the hematopoietic system, specifically in lymphocytes. **Overall**, the data reveals a strong and consistent association with the B-cell differentiation pathway. It is significantly expressed in early developmental stages like [precursor B cells](/details-cell/CL0000817) and [immature B cells](/details-cell/CL0000816), maintains its relevance in [mature B cells](/details-cell/CL0000785) and memory populations such as [unswitched memory B cells](/details-cell/CL0000970) and [class switched memory B cells](/details-cell/CL0000972), and culminates in its highest significance in antibody-secreting [plasmablasts](/details-cell/CL0000980) (CSI: 6.58). This pattern suggests that [LINC01215](/details-gene/101929623) may be involved in regulating key checkpoints throughout B-cell maturation and effector function. In parallel, [LINC01215](/details-gene/101929623) also demonstrates a significant role within the T-cell lineage. Its high significance in [double negative thymocytes](/details-cell/CL0002489) (CSI: 4.56), an early stage of T-cell development in the thymus, implies a function in T-cell commitment or selection. This is complemented by its elevated expression in mature, antigen-experienced T-cells, specifically [central memory CD4-positive, alpha-beta T cells](/details-cell/CL0000904), indicating a potential role in the establishment or maintenance of immunological memory. ## Pathways and Molecular Function While specific pathway annotations are not provided, the distinct cellular expression landscape of [LINC01215](/details-gene/101929623) strongly suggests its involvement in processes fundamental to lymphocyte biology. Its enrichment across B-cell developmental stages and peak expression in [plasmablasts](/details-cell/CL0000980) implies a potential role in regulating the transcriptional networks that govern B-cell differentiation, class-switch recombination, and immunoglobulin synthesis. Similarly, its significance in thymocytes and memory T-cells points to a possible function in T-cell receptor (TCR) signaling, T-cell survival, and the molecular programs that sustain long-lived memory cell populations. As a lncRNA, [LINC01215](/details-gene/101929623) likely functions by interacting with chromatin-modifying complexes or by regulating the stability or translation of target mRNAs to control these immunological processes. ## Research Directions The highly specific expression of [LINC01215](/details-gene/101929623) within lymphocyte lineages, particularly its peak significance in terminally differentiated B-cells, presents several avenues for future investigation. ### Proposed Hypotheses 1. **[LINC01215](/details-gene/101929623) is a critical regulator of terminal B-cell differentiation.** Given its maximal expression in [plasmablasts](/details-cell/CL0000980), we hypothesize that this lncRNA is essential for the transcriptional program that drives the transition from a mature B-cell to an antibody-secreting cell, possibly by modulating the activity of key transcription factors such as BLIMP1 or XBP1. 2. **[LINC01215](/details-gene/101929623) is involved in the maintenance of the T-cell memory state.** Its high significance in [central memory CD4-positive, alpha-beta T cells](/details-cell/CL0000904) suggests it may function to preserve the epigenetic or transcriptional identity of memory T-cells, contributing to their longevity and rapid recall response upon secondary antigen encounter. ### Experimental Approach To test the hypothesis that [LINC01215](/details-gene/101929623) governs B-cell terminal differentiation, one could employ a loss-of-function approach. Primary human naive B-cells could be isolated and treated with antisense oligonucleotides (ASOs) or a CRISPR interference (CRISPRi) system targeting [LINC01215](/details-gene/101929623). These cells would then be cultured under conditions that induce differentiation into [plasmablasts](/details-cell/CL0000980) (e.g., stimulation with IL-21 and anti-CD40). The effects of [LINC01215](/details-gene/101929623) depletion would be measured by quantifying the efficiency of plasmablast formation via flow cytometry (monitoring CD27 and CD38 expression) and by assessing immunoglobulin secretion using an ELISA assay. Subsequent RNA-sequencing of the knockdown cells would identify downstream gene expression changes and reveal the molecular pathways regulated by this lncRNA. ### Therapeutic Potential The specific expression profile of [LINC01215](/details-gene/101929623) in lymphocyte populations, especially in antibody-secreting cells, makes it an intriguing therapeutic target. Inhibition of [LINC01215](/details-gene/101929623) could represent a novel strategy for treating diseases characterized by excessive or pathogenic antibody production, such as autoimmune disorders (e.g., systemic lupus erythematosus) or plasma cell dyscrasias like multiple myeloma. As a lncRNA, it is amenable to targeting with nucleic acid-based therapeutics like ASOs, which could be designed for specific delivery to B-lineage cells to minimize off-target effects. Therefore, therapeutic inhibition, rather than activation, would be the strategy of choice.