Details for: LINC01811

Gene ID: 101928114

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: LINC01811

Ensembl ID: ENSG00000226320

Description: long intergenic non-protein coding RNA 1811

Selected Context(s):  Overall

Cell Significance Landscape

Contexts:

Significant Cells

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

  • kidney loop of Henle thin descending limb epithelial cell CL1001111
    CSI 7.19
    rCSI 10.19%
    PRS 99.79
  • parietal epithelial cell CL1000452
    CSI 5.89
    rCSI 15.75%
    PRS 99.83
  • glutamatergic neuron CL0000679
    CSI 5.62
    rCSI 11.54%
    PRS 98.81
  • cerebellar granule cell CL0001031
    CSI 4.75
    rCSI 6.99%
    PRS 99.79
  • sncg GABAergic cortical interneuron CL4023015
    CSI 4.62
    rCSI 7.43%
    PRS 99.54
  • L4 intratelencephalic projecting glutamatergic neuron CL4030063
    CSI 4.41
    rCSI 10.56%
    PRS 99.75
  • VIP GABAergic cortical interneuron CL4023016
    CSI 4.26
    rCSI 5.09%
    PRS 99.62
  • near-projecting glutamatergic cortical neuron CL4023012
    CSI 4.1
    rCSI 15.49%
    PRS 99.4
  • L5/6 near-projecting glutamatergic neuron CL4030067
    CSI 3.77
    rCSI 12.38%
    PRS 99.66
  • enteroendocrine cell CL0000164
    CSI 3.71
    rCSI 5.06%
    PRS 99.52
  • L6b glutamatergic cortical neuron CL4023038
    CSI 3.59
    rCSI 11.23%
    PRS 99.59
  • L2/3-6 intratelencephalic projecting glutamatergic neuron CL4023040
    CSI 3.35
    rCSI 8.15%
    PRS 99.29
  • L5 extratelencephalic projecting glutamatergic cortical neuron CL4023041
    CSI 2.88
    rCSI 10.36%
    PRS 99.41
  • kidney loop of Henle thick ascending limb epithelial cell CL1001106
    CSI 2
    rCSI 17.25%
    PRS 99.86
  • corticothalamic-projecting glutamatergic cortical neuron CL4023013
    CSI 1.97
    rCSI 11.6%
    PRS 99.53
  • indirect pathway medium spiny neuron CL4023029
    CSI 1.15
    rCSI 27.72%
    PRS 99.01
  • direct pathway medium spiny neuron CL4023026
    CSI 1.04
    rCSI 25.01%
    PRS 99.08

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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Comma-separated if multiple.
Legend:
  • 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 [LINC01811](/details-gene/101928114) is a long intergenic non-protein coding RNA located on chromosome 3. Expression data indicates that this lncRNA serves as a highly specific marker for distinct cell populations within the kidney and the central nervous system. Its most significant expression is observed in '[kidney loop of Henle thin descending limb epithelial cell](/details-cell/CL1001111)' and various subtypes of '[glutamatergic neuron](/details-cell/CL0000679)', suggesting a specialized regulatory role in renal physiology, particularly water homeostasis, and in establishing or maintaining the function of excitatory neurons. ## Cellular Roles and Expression Landscape **Overall**, the expression profile of [LINC01811](/details-gene/101928114) is characterized by high specificity in a limited set of terminally differentiated cell types. The most significant expression is found within the kidney, where it is a top marker for '[kidney loop of Henle thin descending limb epithelial cell](/details-cell/CL1001111)' (CSI: 7.19) and '[parietal epithelial cell](/details-cell/CL1000452)' (CSI: 5.89), the latter lining the Bowman's capsule. Its strong presence in these specific segments of the nephron suggests a potential involvement in the processes of renal filtration and the establishment of the osmotic gradient essential for urine concentration. A second major site of expression is the central nervous system. [LINC01811](/details-gene/101928114) shows high significance in the general population of '[glutamatergic neuron](/details-cell/CL0000679)' (CSI: 5.62) and more specifically in '[cerebellar granule cell](/details-cell/CL0001031)' (CSI: 4.75) and multiple subtypes of cortical projection neurons, such as '[L4 intratelencephalic projecting glutamatergic neuron](/details-cell/CL4030063)' (CSI: 4.41). This pattern indicates a potential role in the regulation of excitatory signaling, synaptic function, or the maintenance of neuronal identity in these specific neuronal circuits. Additionally, significant expression is noted in '[enteroendocrine cell](/details-cell/CL0000164)' (CSI: 3.71), implying a possible function in the gastrointestinal endocrine system. The highly specific nature of its expression suggests it is likely absent or expressed at very low levels in hematopoietic, mesenchymal, and other epithelial lineages. ## Pathways and Molecular Function Functional pathway annotations for [LINC01811](/details-gene/101928114) are not currently available. As a long non-coding RNA, it is presumed to function through regulatory mechanisms, such as guiding chromatin-modifying complexes, acting as a scaffold for protein-protein interactions, or modulating transcription factor activity. Based on its cellular expression landscape, its function is likely tied to: * **Renal Water and Solute Homeostasis:** Its high significance in the thin descending limb of the loop of Henle, a segment primarily responsible for water reabsorption, points towards a role in regulating the expression of aquaporins or other membrane channels critical for maintaining water balance. * **Neuronal Function and Identity:** In the brain, its enrichment in glutamatergic neurons suggests it may regulate genes involved in synaptic transmission, neuronal excitability, or the developmental programs that define these specific neuronal subtypes. ## Research Directions The distinct, tissue-specific expression of [LINC01811](/details-gene/101928114) provides a foundation for several testable hypotheses regarding its biological function and potential involvement in disease. **Proposed Hypotheses:** 1. [LINC01811](/details-gene/101928114) functions as a transcriptional co-regulator in '[kidney loop of Henle thin descending limb epithelial cell](/details-cell/CL1001111)', controlling the expression of aquaporin-1 (AQP1) and other genes essential for water permeability, and its dysregulation could contribute to diseases of water imbalance. 2. In cortical glutamatergic neurons, [LINC01811](/details-gene/101928114) acts as a scaffold RNA that modulates the local translation of mRNAs at the synapse, thereby influencing synaptic plasticity and glutamatergic signaling. **Suggested Experimental Approach:** To investigate the first hypothesis concerning its role in renal function, a targeted knockdown of [LINC01811](/details-gene/101928114) could be performed in a human kidney organoid model or a polarized epithelial cell line derived from the loop of Henle. The experimental workflow would involve: 1. Designing antisense oligonucleotides (ASOs) or a CRISPR interference (CRISPRi) system to specifically reduce [LINC01811](/details-gene/101928114) levels. 2. Treating the cellular model and performing RNA-sequencing to identify downstream transcriptional changes, with a specific focus on genes related to ion and water transport (e.g., AQP1, CLCNKA). 3. Assessing the functional consequences using a transepithelial water flux assay to measure changes in water permeability in response to an osmotic challenge. **Therapeutic Potential:** As a non-coding RNA with a highly restricted expression pattern, [LINC01811](/details-gene/101928114) is a compelling candidate for RNA-targeted therapeutics, such as ASOs or siRNAs. Such approaches would offer high specificity and potentially lower off-target effects compared to small molecules. If its dysregulation is linked to specific kidney disorders (e.g., nephrogenic diabetes insipidus) or neurological conditions characterized by glutamatergic dysfunction, a therapy aimed at either inhibiting (in a gain-of-function pathology) or restoring (in a loss-of-function pathology) its expression could be a viable strategy.