Details for: MSC AS1

Gene ID: 100132891

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: MSC AS1

Ensembl ID: ENSG00000235531

Description: MSC antisense RNA 1

Selected Context(s):  Overall

Cell Significance Landscape

Contexts:

Significant Cells

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

  • myofibroblast cell CL0000186
    CSI 9.87
    rCSI 13.68%
    PRS 88.03
  • parietal epithelial cell CL1000452
    CSI 9.77
    rCSI 26.11%
    PRS 86.15
  • hepatic stellate cell CL0000632
    CSI 8.11
    rCSI 30.38%
    PRS 86.97
  • L6b glutamatergic cortical neuron CL4023038
    CSI 8.08
    rCSI 25.27%
    PRS 80.27
  • L4 intratelencephalic projecting glutamatergic neuron CL4030063
    CSI 6.95
    rCSI 16.63%
    PRS 81.45
  • L2/3-6 intratelencephalic projecting glutamatergic neuron CL4023040
    CSI 6.64
    rCSI 16.14%
    PRS 76.82
  • sst GABAergic cortical interneuron CL4023017
    CSI 6.59
    rCSI 8.5%
    PRS 80.05
  • kidney connecting tubule epithelial cell CL1000768
    CSI 5.77
    rCSI 14.62%
    PRS 85.4
  • adipocyte CL0000136
    CSI 5.7
    rCSI 7.32%
    PRS 83.56
  • alveolar type 1 fibroblast cell CL4028004
    CSI 5.31
    rCSI 5.81%
    PRS 92.61
  • L5 extratelencephalic projecting glutamatergic cortical neuron CL4023041
    CSI 5
    rCSI 18%
    PRS 77.02
  • epithelial cell of proximal tubule CL0002306
    CSI 4.75
    rCSI 11.61%
    PRS 84.94
  • L5/6 near-projecting glutamatergic neuron CL4030067
    CSI 4.74
    rCSI 15.56%
    PRS 80.37
  • vascular leptomeningeal cell CL4023051
    CSI 4.32
    rCSI 7.57%
    PRS 87.87
  • near-projecting glutamatergic cortical neuron CL4023012
    CSI 4.23
    rCSI 15.98%
    PRS 79.16
  • caudal ganglionic eminence derived cortical interneuron CL4023064
    CSI 3.91
    rCSI 6.91%
    PRS 78.37
  • contractile cell CL0000183
    CSI 3.88
    rCSI 11.44%
    PRS 90.48
  • tracheobronchial smooth muscle cell CL0019019
    CSI 3.73
    rCSI 6.57%
    PRS 93.63
  • melanocyte CL0000148
    CSI 3.72
    rCSI 2.75%
    PRS 87.78
  • mural cell CL0008034
    CSI 3.52
    rCSI 11.93%
    PRS 87.13
  • microcirculation associated smooth muscle cell CL0008035
    CSI 3.52
    rCSI 10.19%
    PRS 90.44
  • L2/3 intratelencephalic projecting glutamatergic neuron CL4030059
    CSI 3.1
    rCSI 6.73%
    PRS 80.77
  • smooth muscle cell CL0000192
    CSI 2.94
    rCSI 7.02%
    PRS 85.61
  • epicardial adipocyte CL1000309
    CSI 2.9
    rCSI 9.45%
    PRS 88.57
  • endocardial cell CL0002350
    CSI 2.82
    rCSI 13.51%
    PRS 87.84
  • bronchus fibroblast of lung CL2000093
    CSI 2.77
    rCSI 2.25%
    PRS 90.58
  • skeletal muscle satellite cell CL0000594
    CSI 2.66
    rCSI 7.79%
    PRS 96.04
  • fibroblast of cardiac tissue CL0002548
    CSI 2.66
    rCSI 12.74%
    PRS 92.01
  • corticothalamic-projecting glutamatergic cortical neuron CL4023013
    CSI 2.64
    rCSI 15.57%
    PRS 79.41
  • keratocyte CL0002363
    CSI 2.46
    rCSI 5.92%
    PRS 92.15
  • pancreatic stellate cell CL0002410
    CSI 2.4
    rCSI 13.98%
    PRS 92.5
  • sncg GABAergic cortical interneuron CL4023015
    CSI 2.37
    rCSI 3.81%
    PRS 79.85
  • alveolar adventitial fibroblast CL4028006
    CSI 2.3
    rCSI 3.64%
    PRS 91.98
  • renal interstitial pericyte CL1001318
    CSI 2.28
    rCSI 6.28%
    PRS 88.67
  • adventitial cell CL0002503
    CSI 2.12
    rCSI 5.07%
    PRS 93.15
  • skeletal muscle satellite stem cell CL0008011
    CSI 2.12
    rCSI 9.43%
    PRS 96.23
  • stromal cell CL0000499
    CSI 0.95
    rCSI 2.67%
    PRS 87.47
  • blood vessel smooth muscle cell CL0019018
    CSI 0.77
    rCSI 6.25%
    PRS 88.73
  • mesenchymal cell CL0008019
    CSI 0.76
    rCSI 1.93%
    PRS 86.38

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.

Comma-separated if multiple.
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 [MSC AS1](/details-gene/100132891) is a long non-coding RNA (lncRNA) located on chromosome 8. Expression data suggests a multifaceted role, with high significance in cells of mesenchymal origin, specific neuronal subtypes, and certain epithelial tissues. **Overall**, its most prominent expression is observed in [myofibroblast cell](/details-cell/CL0000186) (CSI: 9.87), [parietal epithelial cell](/details-cell/CL1000452) (CSI: 9.77), and [hepatic stellate cell](/details-cell/CL0000632) (CSI: 8.11), pointing towards potential involvement in tissue remodeling, fibrosis, and specialized epithelial functions. Its significant expression in various glutamatergic and GABAergic neurons further indicates a possible, yet uncharacterized, role in the central nervous system. ## Cellular Roles and Expression Landscape The expression profile of [MSC AS1](/details-gene/100132891) highlights its importance across several distinct cellular lineages. A primary functional context appears to be related to mesenchymal and fibroblast-like cells. The gene shows a very high Cell Significance Index (CSI) in [myofibroblast cell](/details-cell/CL0000186) and [hepatic stellate cell](/details-cell/CL0000632), which are key mediators of tissue repair and fibrosis. This is further supported by significant expression in [alveolar type 1 fibroblast cell](/details-cell/CL4028004) and [adipocyte](/details-cell/CL0000136), suggesting a broad role for [MSC AS1](/details-gene/100132891) in the biology of connective tissue and stromal compartments. A second major site of expression is the central nervous system, specifically within discrete neuronal populations. [MSC AS1](/details-gene/100132891) is a significant marker for multiple glutamatergic neuron types, including [L6b glutamatergic cortical neuron](/details-cell/CL4023038), [L4 intratelencephalic projecting glutamatergic neuron](/details-cell/CL4030063), and [L5 extratelencephalic projecting glutamatergic cortical neuron](/details-cell/CL4023041). Its presence in [sst GABAergic cortical interneuron](/details-cell/CL4023017) suggests its function is not limited to excitatory neurons but may also extend to inhibitory circuits. Finally, the gene demonstrates high significance in specialized epithelial cells, particularly within the kidney. Its expression in [parietal epithelial cell](/details-cell/CL1000452), [kidney connecting tubule epithelial cell](/details-cell/CL1000768), and [epithelial cell of proximal tubule](/details-cell/CL0002306) points towards a potential role in renal physiology and maintenance of epithelial integrity. ## Pathways and Molecular Function Specific functional annotations for [MSC AS1](/details-gene/100132891) from pathway databases are not provided in the available data. However, based on its cell-type-specific expression, its molecular function may be inferred. In mesenchymal cells like myofibroblasts and hepatic stellate cells, it is plausible that [MSC AS1](/details-gene/100132891) is involved in pathways regulating cellular differentiation, extracellular matrix deposition, and response to fibrotic stimuli such as TGF-beta signaling. In neurons, it may function as a regulator of gene expression programs that define neuronal subtype identity, synaptic function, or axonal guidance. ## Research Directions The diverse expression pattern of [MSC AS1](/details-gene/100132891) across unrelated cell lineages presents several compelling avenues for future research. ### Proposed Hypotheses: 1. **[MSC AS1](/details-gene/100132891) is a pro-fibrotic lncRNA that promotes the transdifferentiation of quiescent cells (e.g., hepatic stellate cells, fibroblasts) into activated myofibroblasts.** This is suggested by its top expression in cell types central to the development of fibrosis in multiple organs. 2. **In the cortex, [MSC AS1](/details-gene/100132891) acts as a critical regulator of neuronal subtype identity and function.** Its high specificity for distinct glutamatergic and GABAergic neuron classes suggests it may control transcriptional networks essential for establishing or maintaining the unique physiological properties of these cells. ### Key Experimental Approach: To test the hypothesis that **[MSC AS1](/details-gene/100132891) is a pro-fibrotic lncRNA**, a loss-of-function study could be performed. Primary human hepatic stellate cells could be cultured and treated with antisense oligonucleotides (ASOs) designed to specifically knock down [MSC AS1](/details-gene/100132891). Following knockdown, cells would be stimulated with TGF-beta1 to induce a fibrotic response. The impact of [MSC AS1](/details-gene/100132891) depletion could then be assessed by measuring changes in key fibrosis markers (e.g., ACTA2/alpha-SMA, COL1A1) at both the mRNA (RT-qPCR, RNA-seq) and protein (Western blot, immunofluorescence) levels. A successful experiment would show that ASO-mediated knockdown of [MSC AS1](/details-gene/100132891) attenuates the TGF-beta1-induced fibrotic phenotype. ### Therapeutic Potential: Given its high expression in key pro-fibrotic cell types, [MSC AS1](/details-gene/100132891) represents a potential therapeutic target for fibrotic diseases, such as idiopathic pulmonary fibrosis, liver cirrhosis, or kidney fibrosis. As a non-coding RNA, it is amenable to targeting with nucleic acid-based therapeutics like ASOs or siRNAs. The therapeutic strategy would be **inhibition** to block its presumed pro-fibrotic function. A major challenge would be the development of delivery systems capable of specifically targeting the relevant cell populations (e.g., activated myofibroblasts) to minimize off-target effects, especially considering its expression in the central nervous system.