DUBR | ENSG00000243701 | NCBI 344595

Details for: DUBR

Gene ID: 344595

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: DUBR

Ensembl ID: ENSG00000243701

Description: DPPA2 upstream binding RNA

Cell Significance Landscape

Display Count:

Significant Cells

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

renal interstitial pericyte CL1001318

CSI 14.17

rCSI 39.06%

PRS 81.18
L2/3-6 intratelencephalic projecting glutamatergic neuron CL4023040

CSI 12.72

rCSI 30.91%

PRS 66.92
retinal ganglion cell CL0000740

CSI 12.34

rCSI 27.25%

PRS 72.36
L5 extratelencephalic projecting glutamatergic cortical neuron CL4023041

CSI 11.52

rCSI 41.46%

PRS 67.07
mural cell CL0008034

CSI 11.02

rCSI 37.35%

PRS 80.59
L6b glutamatergic cortical neuron CL4023038

CSI 9.57

rCSI 29.9%

PRS 70.61
Schwann cell CL0002573

CSI 7.77

rCSI 22.08%

PRS 80.84
neural crest cell CL0011012

CSI 7.45

rCSI 5.89%

PRS 75.82
interneuron CL0000099

CSI 7.43

rCSI 14.92%

PRS 77.09
caudal ganglionic eminence derived cortical interneuron CL4023064

CSI 7.32

rCSI 12.93%

PRS 68.62
pvalb GABAergic cortical interneuron CL4023018

CSI 7.14

rCSI 8.88%

PRS 67.01
VIP GABAergic cortical interneuron CL4023016

CSI 7.06

rCSI 8.43%

PRS 69.21
L5/6 near-projecting glutamatergic neuron CL4030067

CSI 7

rCSI 22.99%

PRS 71.76
choroid plexus epithelial cell CL0000706

CSI 6.88

rCSI 11.26%

PRS 76.05
corticothalamic-projecting glutamatergic cortical neuron CL4023013

CSI 6.88

rCSI 40.49%

PRS 69.57
retinal rod cell CL0000604

CSI 6.82

rCSI 12.02%

PRS 80.74
near-projecting glutamatergic cortical neuron CL4023012

CSI 6.81

rCSI 25.74%

PRS 69.44
hepatic stellate cell CL0000632

CSI 6.74

rCSI 25.26%

PRS 78.74
retinal bipolar neuron CL0000748

CSI 6.72

rCSI 12.59%

PRS 74.93
ciliated cell CL0000064

CSI 6.47

rCSI 10.49%

PRS 80.07
lamp5 GABAergic cortical interneuron CL4023011

CSI 5.9

rCSI 9.9%

PRS 69.07
neuron CL0000540

CSI 5.89

rCSI 15.69%

PRS 72.53
ciliated epithelial cell CL0000067

CSI 5.82

rCSI 5.12%

PRS 75.33
sncg GABAergic cortical interneuron CL4023015

CSI 5.78

rCSI 9.29%

PRS 70.49
L4 intratelencephalic projecting glutamatergic neuron CL4030063

CSI 5.74

rCSI 13.72%

PRS 72.92
regular ventricular cardiac myocyte CL0002131

CSI 5.73

rCSI 35.77%

PRS 77.74
inhibitory interneuron CL0000498

CSI 5.39

rCSI 12.43%

PRS 74.34
amacrine cell CL0000561

CSI 4.83

rCSI 14.01%

PRS 75.42
melanocyte CL0000148

CSI 4.53

rCSI 3.36%

PRS 79.78
pulmonary alveolar type 1 cell CL0002062

CSI 4.47

rCSI 25.78%

PRS 81.64
astrocyte of the cerebral cortex CL0002605

CSI 4.46

rCSI 10%

PRS 70.02
cardiac neuron CL0010022

CSI 4.32

rCSI 13.83%

PRS 82.94
lung pericyte CL0009089

CSI 4.12

rCSI 10.86%

PRS 90.31
cardiac muscle cell CL0000746

CSI 4.1

rCSI 5.89%

PRS 75.88
sst GABAergic cortical interneuron CL4023017

CSI 3.94

rCSI 5.08%

PRS 70.29
fibroblast of cardiac tissue CL0002548

CSI 3.64

rCSI 17.44%

PRS 85.29
Bergmann glial cell CL0000644

CSI 3.56

rCSI 4.87%

PRS 76.73
Mueller cell CL0000636

CSI 3.52

rCSI 8.03%

PRS 77.41
hematopoietic multipotent progenitor cell CL0000837

CSI 3.29

rCSI 7.92%

PRS 94.63
chandelier pvalb GABAergic cortical interneuron CL4023036

CSI 3.18

rCSI 9.93%

PRS 72.72
differentiation-committed oligodendrocyte precursor CL4023059

CSI 2.88

rCSI 5.23%

PRS 77.28
multi-ciliated epithelial cell CL0005012

CSI 2.72

rCSI 2.71%

PRS 79.49
ON midget ganglion cell CL4033046

CSI 2.7

rCSI 55.04%

PRS 75.33
cerebellar granule cell CL0001031

CSI 2.62

rCSI 3.86%

PRS 78.77
direct pathway medium spiny neuron CL4023026

CSI 2.58

rCSI 61.75%

PRS 66.93
indirect pathway medium spiny neuron CL4023029

CSI 2.54

rCSI 61.4%

PRS 67.38
cerebral cortex endothelial cell CL1001602

CSI 2.51

rCSI 4.34%

PRS 77.86
OFF midget ganglion cell CL4033047

CSI 2.5

rCSI 50.92%

PRS 76.23
microcirculation associated smooth muscle cell CL0008035

CSI 2.14

rCSI 6.19%

PRS 84.24
GABAergic amacrine cell CL4030027

CSI 2.08

rCSI 7.13%

PRS 71.5
parietal epithelial cell CL1000452

CSI 1.85

rCSI 4.93%

PRS 78.11
ON parasol ganglion cell CL4033052

CSI 1.77

rCSI 25.17%

PRS 76.73
lung ciliated cell CL1000271

CSI 1.36

rCSI 1.57%

PRS 78.53
placental villous trophoblast CL2000060

CSI 1.24

rCSI 1.92%

PRS 83.88
glial cell CL0000125

CSI 1.16

rCSI 4.42%

PRS 77.04
blood vessel smooth muscle cell CL0019018

CSI 1.12

rCSI 9.13%

PRS 80.46
H2 horizontal cell CL0004218

CSI 0.79

rCSI 3.94%

PRS 79.35

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.

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.

Context Genes (max 20):

Interaction Source:

Pathway Categories (for ONTOLOGY source):

Baseline Cell Type:

Baseline Cell Context(s): Comma-separated if multiple.

Target Cell Type:

Target Cell Context(s): Comma-separated if multiple.

Legend:

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Node Color (Target Cell CSI, relative to current network):
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Node Size: Proportional to Target Cell CSI magnitude
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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.

Description

## Summary [DUBR](/details-gene/344595) (DPPA2 upstream binding RNA) is a non-coding RNA gene located on chromosome 3. Expression data indicates that [DUBR](/details-gene/344595) is a highly significant gene in a specific set of cell types, primarily associated with the nervous system and specialized mesenchymal cells. Its high significance in various neuronal subtypes, including glutamatergic neurons and [retinal ganglion cells](/details-cell/CL0000740), alongside perivascular cells like [renal interstitial pericytes](/details-cell/CL1001318) and [mural cells](/details-cell/CL0008034), suggests a potential role in neuro-vascular function, neuronal identity, or development. ## Cellular Roles and Expression Landscape The expression profile of [DUBR](/details-gene/344595) points to a specialized function within the central nervous system and associated structural cells. **Overall**, the gene shows its highest significance in a diverse but related group of cells. It is a top marker for [renal interstitial pericytes](/details-cell/CL1001318) (CSI: 14.17), a type of perivascular cell, and more broadly in [mural cells](/details-cell/CL0008034) (CSI: 11.02), suggesting a role in the regulation of vascular structure or function. Concurrently, [DUBR](/details-gene/344595) is highly significant across multiple subtypes of excitatory neurons in the cerebral cortex. These include [L2/3-6 intratelencephalic projecting glutamatergic neurons](/details-cell/CL4023040) (CSI: 12.72), [L5 extratelencephalic projecting glutamatergic cortical neurons](/details-cell/CL4023041) (CSI: 11.52), and [L6b glutamatergic cortical neurons](/details-cell/CL4023038) (CSI: 9.57). Its prominence extends to other neuronal types like [retinal ganglion cells](/details-cell/CL0000740) (CSI: 12.34) and various [interneurons](/details-cell/CL0000099) (CSI: 7.43). Furthermore, the gene is also a notable marker in glial cells, specifically [Schwann cells](/details-cell/CL0002573) (CSI: 7.77), which are crucial for the myelination of the peripheral nervous system. This collective expression pattern in neurons, glia, and perivascular cells indicates that [DUBR](/details-gene/344595) may function at the intersection of these cell types, potentially contributing to the neurovascular unit or nervous system development and maintenance. ## Pathways and Molecular Function As a non-coding RNA, [DUBR](/details-gene/344595) does not produce a protein but likely functions by regulating the expression of other genes. The specific molecular pathways it influences are not detailed in the provided data. However, based on its distinct cellular expression landscape, its function is likely related to processes essential for the cell types in which it is most active. For instance, its high significance in diverse neuronal subtypes suggests involvement in fundamental aspects of neuronal biology, such as synaptic function, axonal guidance, or transcriptional programs that define neuronal identity. Its co-expression in [mural cells](/details-cell/CL0008034) and [pericytes](/details-cell/CL1001318) may indicate a role in regulating the blood-brain barrier or neurovascular coupling. ## Research Directions The unique expression pattern of the non-coding RNA [DUBR](/details-gene/344595) across neuronal, glial, and perivascular cell types raises several testable hypotheses regarding its function. 1. **Hypothesis 1:** [DUBR](/details-gene/344595) acts as a regulatory hub that coordinates gene expression between neurons and associated perivascular cells, thereby playing a critical role in the formation or maintenance of the neurovascular unit and blood-brain barrier. 2. **Hypothesis 2:** [DUBR](/details-gene/344595) is a key transcriptional regulator involved in the specification or maintenance of specific glutamatergic neuron subtypes and [Schwann cells](/details-cell/CL0002573), potentially by modulating chromatin accessibility or mRNA stability of key lineage-defining genes. **Proposed Experimental Approach:** To test the first hypothesis, one could utilize a human iPSC-derived co-culture model of the neurovascular unit, containing glutamatergic neurons and pericyte-like cells. The expression of [DUBR](/details-gene/344595) could be knocked down using targeted Antisense Oligonucleotides (ASOs). Subsequent single-cell RNA sequencing (scRNA-seq) would reveal cell-type-specific transcriptional changes, while functional assays, such as transendothelial electrical resistance (TEER) measurements, could assess changes in barrier integrity. **Therapeutic Potential:** As a non-coding RNA with a highly specific expression pattern, [DUBR](/details-gene/344595) presents an intriguing, albeit challenging, therapeutic target. Its potential involvement in neurovascular integrity suggests that it could be implicated in pathologies like stroke, Alzheimer's disease, or other neurodegenerative conditions where blood-brain barrier dysfunction is a key feature. Therapeutic modulation, likely through ASO-based inhibition, could represent a novel strategy for treating such disorders. The specificity of its expression to the nervous system and associated vasculature might limit off-target effects, increasing its attractiveness as a potential drug target.

Disclaimer: This in-silico analysis is generated by an AI language model and may contain inaccuracies or hallucinations. However, it is cross-referenced with curated gene expression data from major biological sources. Please verify the information before use.