Details for: ZNF548

Gene ID: 147694

Gene Type:  Protein-coding  - A gene that serves as a template for producing a messenger RNA (mRNA) molecule, which is then translated into a functional protein.

Symbol: ZNF548

Ensembl ID: ENSG00000188785

Description: zinc finger protein 548

Selected Context(s):  Overall

Cell Significance Landscape

Contexts:

Associated with

Significant Cells

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

  • caudal ganglionic eminence derived cortical interneuron CL4023064
    CSI 2.25
    rCSI 3.98%
    PRS 97.91
  • basal cell CL0000646
    CSI 2.21
    rCSI 2.95%
    PRS 99.39
  • basal cell of epidermis CL0002187
    CSI 1.76
    rCSI 3.11%
    PRS 90.73

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):
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    • High
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    • 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 [ZNF548](/details-gene/147694) is a protein-coding gene located on chromosome 19q13.43 that encodes Zinc Finger Protein 548, a member of the large family of zinc finger transcription factors [Link](https://doi.org/10.1038/nature02399). Functional annotations strongly indicate that [ZNF548](/details-gene/147694) functions as a sequence-specific DNA-binding transcription factor involved in the regulation of transcription by RNA polymerase II. Expression data highlights its significant role in specific cell populations, including developing cortical interneurons and progenitor [basal cell](/details-cell/CL0000646) populations in epithelial tissues. Its existence as a full-length transcript was confirmed by the Mammalian Gene Collection project [Link](https://doi.org/10.1101/gr.2596504), [Link](https://doi.org/10.1038/ng1285). ## Cellular Roles and Expression Landscape The expression profile of [ZNF548](/details-gene/147694) suggests a highly specialized function in distinct cellular contexts. **Overall**, the gene shows its most significant expression in [caudal ganglionic eminence derived cortical interneuron](/details-cell/CL4023064) (CSI: 2.25), indicating a potential role in the development or function of this specific neuronal subtype. Furthermore, [ZNF548](/details-gene/147694) is a significant marker for progenitor cell populations, with high significance scores in both [basal cell](/details-cell/CL0000646) (CSI: 2.21) and [basal cell of epidermis](/details-cell/CL0002187) (CSI: 1.76). This pattern suggests that [ZNF548](/details-gene/147694) may be involved in maintaining the undifferentiated state or regulating the proliferative capacity of these stem-like cells in stratified epithelia. The specific expression in these discrete cell types points towards a role in lineage specification and maintenance rather than a ubiquitous cellular function. ## Pathways and Molecular Function Consistent with its identity as a zinc finger protein, the molecular function of [ZNF548](/details-gene/147694) is centered on transcriptional regulation. Gene Ontology annotations classify it as a nuclear protein ([GO:0005634](https://www.ebi.ac.uk/QuickGO/term/GO:0005634)) with [dna-binding transcription factor activity, rna polymerase ii-specific](/details-go/GO:0000981) ([GO:0000981](https://www.ebi.ac.uk/QuickGO/term/GO:0000981)) and the ability for [metal ion binding](/details-go/GO:0046872) ([GO:0046872](https://www.ebi.ac.uk/QuickGO/term/GO:0046872)), which is characteristic of this protein family. Its role in the fundamental process of [regulation of transcription by rna polymerase ii](/details-go/GO:0006357) ([GO:0006357](https://www.ebi.ac.uk/QuickGO/term/GO:0006357)) is further supported by its association with Reactome pathways such as [Gene expression (transcription)](https://reactome.org/content/detail/R-HSA-74160) ([R-HSA-74160](https://reactome.org/content/detail/R-HSA-74160)) and [Rna polymerase ii transcription](https://reactome.org/content/detail/R-HSA-73857) ([R-HSA-73857](https://reactome.org/content/detail/R-HSA-73857)). Like many nuclear proteins involved in transcription, [ZNF548](/details-gene/147694) has been identified as a target for SUMOylation, a post-translational modification that can regulate protein stability, localization, and activity [Link](https://doi.org/10.1038/nsmb.3366). This suggests its function is likely fine-tuned by cellular signaling pathways. ## Research Directions The specific expression pattern and established molecular function of [ZNF548](/details-gene/147694) provide a basis for several testable hypotheses regarding its biological roles and potential clinical relevance. 1. **Hypothesis 1:** Given its high significance in [basal cell of epidermis](/details-cell/CL0002187), [ZNF548](/details-gene/147694) acts as a crucial regulator of epidermal homeostasis by maintaining the progenitor state of basal cells and preventing premature terminal differentiation. 2. **Hypothesis 2:** The selective expression of [ZNF548](/details-gene/147694) in [caudal ganglionic eminence derived cortical interneuron](/details-cell/CL4023064) suggests it is essential for the transcriptional programs that govern the migration, specification, or synaptic integration of this particular interneuron subtype during brain development. To investigate the first hypothesis, a key experiment would be to use a CRISPR-Cas9 system to knock out [ZNF548](/details-gene/147694) in a 3D human skin organoid model derived from primary keratinocytes. The resulting organoids could be analyzed using single-cell RNA-sequencing and immunofluorescence to determine if the loss of [ZNF548](/details-gene/147694) leads to a depletion of the basal cell pool (marked by KRT14/TP63) and an acceleration of differentiation into suprabasal layers (marked by KRT10/Involucrin). As a nuclear transcription factor, [ZNF548](/details-gene/147694) presents a challenging therapeutic target for small-molecule inhibitors. However, if its dysregulation is implicated in diseases characterized by abnormal proliferation of basal cells, such as basal cell carcinoma, it could be a valuable biomarker. Future therapeutic strategies might involve targeting its downstream effector genes or using advanced gene-editing or RNA-based technologies to modulate its expression in a targeted manner. An inhibitory approach would likely be pursued if it is found to function as a pro-proliferative factor in a pathological context.

Genular Protein ID: 3424421170

Symbol: ZN548_HUMAN

Name: Zinc finger protein 548

UniProtKB Accession Codes:

Q8NEK5 Q96M05

Database IDs:

AGR 1 AlphaFoldDB 1 Antibodypedia 1 Bgee 1 BioGRID 1 BioGRID-ORCS 1 BioMuta 1 CCDS 2 CDD 1 CTD 1 ChiTaRS 1 DMDM 1 DNASU 1 DisGeNET 1 EMBL 3 Ensembl 2 ExpressionAtlas 1 GO 5 Gene3D 2 GeneCards 1 GeneTree 1 GenomeRNAi 1 HGNC 1 HOGENOM 1 HPA 1 InParanoid 1 IntAct 1 InterPro 5 KEGG 1 MANE-Select 1 MassIVE 1 NCBI Taxonomy 1 OMA 1 OpenTargets 1 OrthoDB 1 PANTHER 2 PRO 1 PROSITE 3 PathwayCommons 1 PaxDb 1 PeptideAtlas 1 Pfam 2 PharmGKB 1 Pharos 1 PhosphoSitePlus 1 PhylomeDB 1 Proteomes 1 ProteomicsDB 2 RNAct 1 Reactome 1 RefSeq 2 SMART 2 SMR 1 STRING 1 SUPFAM 2 SignaLink 1 TreeFam 1 UCSC 1 VEuPathDB 1 eggNOG 1 iPTMnet 1 neXtProt 1

Citations:

PubMed ID: 15057824

Title: The DNA sequence and biology of human chromosome 19.

PubMed ID: 15057824

DOI: 10.1038/nature02399

PubMed ID: 15489334

Title: The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).

PubMed ID: 15489334

DOI: 10.1101/gr.2596504

PubMed ID: 14702039

Title: Complete sequencing and characterization of 21,243 full-length human cDNAs.

PubMed ID: 14702039

DOI: 10.1038/ng1285

PubMed ID: 28112733

Title: Site-specific mapping of the human SUMO proteome reveals co-modification with phosphorylation.

PubMed ID: 28112733

DOI: 10.1038/nsmb.3366

Sequence Information:

  • Length: 533
  • Mass: 62728
  • Checksum: BFC3DDE9C74E0C98
  • Sequence:
    • MNLTEGRVVF EDVAIYFSQE EWGHLDEAQR LLYRDVMLEN LALLSSLGSW HGAEDEEAPS 
QQGFSVGVSE VTASKPCLSS QKVHPSETCG PPLKDILCLV EHNGIHPEQH IYICEAELFQ 
HPKQQIGENL SRGDDWIPSF GKNHRVHMAE EIFTCMEGWK DLPATSCLLQ HQGPQSEWKP 
YRDTEDREAF QTGQNDYKCS ECGKTFTCSY SFVEHQKIHT GERSYECNKC GKFFKYSANF 
MKHQTVHTSE RTYECRECGK SFMYNYRLMR HKRVHTGERP YECNTCGKFF RYSSTFVRHQ 
RVHTGERPYE CRECGKFFMD SSTLIKHQRV HTGERPYKCN DCGKFFRYIS TLIRHQRIHT 
GERPYECSVC GELFRYNSSL VKHWRNHTGE RPYKCSECGK SFRYHCRLIR HQRVHTGERP 
YECSECGKFF RYNSNLIKHW RNHTGERPYE CRECGKAFSH KHILVEHQKI HSGERPYECS 
ECQKAFIRKS HLVHHQKIHS EERLVCSMNV GNSLAKTPTS LNIRDFTMEK VYH