Details for: LINC00907

Gene ID: 284260

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: LINC00907

Ensembl ID: ENSG00000267586

Description: long intergenic non-protein coding RNA 907

Selected Context(s):  Overall

Cell Significance Landscape

Contexts:

Significant Cells

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

  • hepatocyte CL0000182
    CSI 16.69
    rCSI 29.87%
    PRS 95.9
  • Kupffer cell CL0000091
    CSI 9.92
    rCSI 22.69%
    PRS 97.77
  • epithelial cell of proximal tubule CL0002306
    CSI 9.11
    rCSI 22.25%
    PRS 93.63
  • hepatic stellate cell CL0000632
    CSI 6.92
    rCSI 25.91%
    PRS 96.1
  • pvalb GABAergic cortical interneuron CL4023018
    CSI 6.75
    rCSI 8.4%
    PRS 90.68
  • sst GABAergic cortical interneuron CL4023017
    CSI 6.58
    rCSI 8.48%
    PRS 92.65
  • caudal ganglionic eminence derived cortical interneuron CL4023064
    CSI 5.57
    rCSI 9.83%
    PRS 91.99
  • enteroendocrine cell of small intestine CL0009006
    CSI 5.4
    rCSI 11.9%
    PRS 97.35
  • L6b glutamatergic cortical neuron CL4023038
    CSI 4.48
    rCSI 14.02%
    PRS 92.63
  • adipocyte CL0000136
    CSI 3.33
    rCSI 4.27%
    PRS 93.39
  • retinal ganglion cell CL0000740
    CSI 3.24
    rCSI 7.16%
    PRS 92.25
  • podocyte CL0000653
    CSI 3.19
    rCSI 14.2%
    PRS 97.35
  • lamp5 GABAergic cortical interneuron CL4023011
    CSI 2.97
    rCSI 4.99%
    PRS 92.25
  • cerebellar granule cell CL0001031
    CSI 2.95
    rCSI 4.34%
    PRS 94.66
  • enteroendocrine cell CL0000164
    CSI 2.73
    rCSI 3.73%
    PRS 95.78
  • macroglial cell CL0000126
    CSI 2.69
    rCSI 6.93%
    PRS 94.99
  • VIP GABAergic cortical interneuron CL4023016
    CSI 2.66
    rCSI 3.17%
    PRS 92.08
  • L2/3-6 intratelencephalic projecting glutamatergic neuron CL4023040
    CSI 2.59
    rCSI 6.29%
    PRS 90.66
  • Bergmann glial cell CL0000644
    CSI 2.59
    rCSI 3.54%
    PRS 93.59
  • sncg GABAergic cortical interneuron CL4023015
    CSI 2.58
    rCSI 4.14%
    PRS 92.39
  • renal beta-intercalated cell CL0002201
    CSI 2.4
    rCSI 5.71%
    PRS 97.05
  • astrocyte of the cerebral cortex CL0002605
    CSI 2.13
    rCSI 4.77%
    PRS 92.35
  • L5 extratelencephalic projecting glutamatergic cortical neuron CL4023041
    CSI 2.04
    rCSI 7.35%
    PRS 90.85
  • kidney connecting tubule epithelial cell CL1000768
    CSI 1.99
    rCSI 5.06%
    PRS 95.03
  • parietal epithelial cell CL1000452
    CSI 1.85
    rCSI 4.94%
    PRS 95.43
  • neural cell CL0002319
    CSI 1.83
    rCSI 6.92%
    PRS 89.4
  • amacrine cell CL0000561
    CSI 1.73
    rCSI 5%
    PRS 93.1
  • type L enteroendocrine cell CL0002279
    CSI 1.69
    rCSI 3.17%
    PRS 96.93
  • near-projecting glutamatergic cortical neuron CL4023012
    CSI 1.47
    rCSI 5.57%
    PRS 91.92
  • chandelier pvalb GABAergic cortical interneuron CL4023036
    CSI 1.38
    rCSI 4.31%
    PRS 93.46
  • GABAergic amacrine cell CL4030027
    CSI 1.03
    rCSI 3.52%
    PRS 90.08
  • corticothalamic-projecting glutamatergic cortical neuron CL4023013
    CSI 0.93
    rCSI 5.47%
    PRS 92.11
  • indirect pathway medium spiny neuron CL4023029
    CSI 0.87
    rCSI 21.07%
    PRS 89.61
  • direct pathway medium spiny neuron CL4023026
    CSI 0.72
    rCSI 17.14%
    PRS 89.86
  • OFF midget ganglion cell CL4033047
    CSI 0.6
    rCSI 12.15%
    PRS 92.49
  • ON midget ganglion cell CL4033046
    CSI 0.54
    rCSI 11.08%
    PRS 92.35
  • ON parasol ganglion cell CL4033052
    CSI 0.47
    rCSI 6.68%
    PRS 92.69

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 [LINC00907](/details-gene/284260) is a long non-coding RNA located on chromosome 18q12.3. Expression analysis reveals that this gene is a highly significant and specific marker for several key cell types, with a particularly dominant role in the liver. Its expression is highest by a significant margin in [hepatocytes](/details-cell/CL0000182), suggesting a central function in hepatic biology. Additionally, [LINC00907](/details-gene/284260) shows notable expression in other liver-resident cells such as [Kupffer cells](/details-cell/CL0000091) and [hepatic stellate cells](/details-cell/CL0000632), as well as in specific cell populations within the kidney and central nervous system. This pattern suggests a specialized function related to metabolic processes, cellular homeostasis, and potentially neuronal identity. ## Cellular Roles and Expression Landscape The expression profile of [LINC00907](/details-gene/284260) highlights its primary role within distinct, functionally-related cellular contexts. * **Dominance in Hepatic Cells:** The most striking feature of [LINC00907](/details-gene/284260) expression is its exceptional significance in [hepatocytes](/details-cell/CL0000182) (CSI: 16.69). This robust expression, along with high significance in [Kupffer cells](/details-cell/CL0000091) and [hepatic stellate cells](/details-cell/CL0000632), firmly establishes [LINC00907](/details-gene/284260) as a key transcript in the liver microenvironment. Its co-expression across these functionally diverse liver cells may indicate a role in coordinating metabolic, immune, and structural homeostasis within the organ. * **Significance in Renal and Metabolic Tissues:** Beyond the liver, [LINC00907](/details-gene/284260) is a significant marker for [epithelial cells of the proximal tubule](/details-cell/CL0002306) in the kidney. This cell type is critical for reabsorption and metabolic activity, suggesting that the function of [LINC00907](/details-gene/284260) may extend to regulating transport or metabolic pathways in the kidney. Its expression in [adipocytes](/details-cell/CL0000136) and [enteroendocrine cells](/details-cell/CL0000164) further supports a potential involvement in systemic metabolic regulation. * **Role in Neuronal Subtypes:** [LINC00907](/details-gene/284260) is also expressed in several specific neuronal populations, including various GABAergic cortical interneurons (e.g., [pvalb](/details-cell/CL4023018) and [sst](/details-cell/CL4023017) subtypes) and [L6b glutamatergic cortical neurons](/details-cell/CL4023038). This specific expression pattern within the central nervous system suggests a potential role in defining the molecular identity or regulating the function of these distinct neuronal subtypes. ## Pathways and Molecular Function Detailed functional annotation data for [LINC00907](/details-gene/284260) is not available in the provided dataset, and its specific molecular mechanisms remain to be fully elucidated. As a long non-coding RNA, it may function by regulating gene expression at the transcriptional or post-transcriptional level, potentially acting as a scaffold for protein complexes or as a molecular sponge for microRNAs. Its prominent expression in metabolically active cells like [hepatocytes](/details-cell/CL0000182) and [epithelial cells of the proximal tubule](/details-cell/CL0002306) strongly suggests a potential role in the regulation of metabolic pathways, such as lipid metabolism, detoxification, or glucose homeostasis. ## Research Directions The highly specific expression pattern of [LINC00907](/details-gene/284260) provides a strong foundation for future functional investigations. **Testable Hypotheses:** 1. Given its profound expression in [hepatocytes](/details-cell/CL0000182), [LINC00907](/details-gene/284260) may act as a master regulator of hepatic lipid metabolism. Its dysregulation could be a contributing factor in the pathogenesis of metabolic liver diseases like non-alcoholic fatty liver disease (NAFLD). 2. The co-expression of [LINC00907](/details-gene/284260) in [hepatocytes](/details-cell/CL0000182), [Kupffer cells](/details-cell/CL0000091), and [hepatic stellate cells](/details-cell/CL0000632) suggests it could be involved in mediating intercellular communication within the liver, potentially modulating inflammatory responses or the fibrotic process. 3. In the central nervous system, [LINC00907](/details-gene/284260) may function to establish or maintain the transcriptional programs that define the unique functional identity of specific cortical interneuron subtypes. **Proposed Experimental Approach:** To test the hypothesis that [LINC00907](/details-gene/284260) regulates hepatic lipid metabolism, a loss-of-function study could be conducted. The expression of [LINC00907](/details-gene/284260) could be silenced in a human hepatocyte cell line (e.g., HepG2 or Huh7) using antisense oligonucleotides (ASOs). Following knockdown, cells could be challenged with oleic acid to induce steatosis. The effects on lipid accumulation would be quantified using Oil Red O staining and biochemical assays for triglyceride content. RNA-sequencing could then be performed on the knockdown cells to identify downstream target genes and perturbed metabolic pathways, providing mechanistic insight into its regulatory role. **Therapeutic Potential:** As a long non-coding RNA with exceptionally high and specific expression in the liver, [LINC00907](/details-gene/284260) represents an attractive therapeutic target for liver diseases. Its RNA nature makes it amenable to targeting with nucleic acid-based therapies, such as ASOs, which have shown clinical success for liver-specific targets. If overexpression of [LINC00907](/details-gene/284260) is found to drive liver pathology (e.g., steatosis or fibrosis), a therapeutic strategy based on inhibition would be pursued. The high tissue specificity of [LINC00907](/details-gene/284260) suggests that such an approach could achieve a favorable therapeutic window with minimal off-target effects in other tissues.