Details for: TFPT

Gene ID: 29844

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: TFPT

Ensembl ID: ENSG00000105619

Description: TCF3 fusion partner

Selected Context(s):  Overall

Cell Significance Landscape

Contexts:

Associated with

Significant Cells

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

  • intestinal tuft cell CL0019032
    CSI 6.25
    rCSI 9.55%
    PRS 88.54
  • dendritic cell, human CL0001056
    CSI 4.4
    rCSI 6.76%
    PRS 92.54
  • club cell CL0000158
    CSI 4.04
    rCSI 5.92%
    PRS 81.07
  • interstitial cell of Cajal CL0002088
    CSI 3.89
    rCSI 4.95%
    PRS 90.14
  • intermediate monocyte CL0002393
    CSI 3.72
    rCSI 5.61%
    PRS 90.59
  • double negative thymocyte CL0002489
    CSI 3.57
    rCSI 2.48%
    PRS 94.94
  • plasmacytoid dendritic cell, human CL0001058
    CSI 3.16
    rCSI 2.21%
    PRS 89.52
  • mucous neck cell CL0000651
    CSI 3.03
    rCSI 4.36%
    PRS 90.45
  • CD4-positive, CD25-positive, alpha-beta regulatory T cell CL0000792
    CSI 2.98
    rCSI 2.93%
    PRS 95.58
  • pro-B cell CL0000826
    CSI 2.82
    rCSI 2.34%
    PRS 88.08
  • alternatively activated macrophage CL0000890
    CSI 2.79
    rCSI 3.51%
    PRS 92.91
  • megakaryocyte-erythroid progenitor cell CL0000050
    CSI 2.79
    rCSI 2.52%
    PRS 84.65
  • neural crest cell CL0011012
    CSI 2.72
    rCSI 2.15%
    PRS 77.05
  • ON-bipolar cell CL0000749
    CSI 2.64
    rCSI 3.93%
    PRS 85.6
  • double-positive, alpha-beta thymocyte CL0000809
    CSI 2.61
    rCSI 2.66%
    PRS 92.97
  • common myeloid progenitor CL0000049
    CSI 2.39
    rCSI 1.93%
    PRS 87.89
  • CD4-positive, alpha-beta cytotoxic T cell CL0000934
    CSI 2.28
    rCSI 3.13%
    PRS 96.51
  • enteric smooth muscle cell CL0002504
    CSI 2.22
    rCSI 3.17%
    PRS 86.59
  • hematopoietic stem cell CL0000037
    CSI 2.21
    rCSI 1.47%
    PRS 88.02
  • multi-ciliated epithelial cell CL0005012
    CSI 2.14
    rCSI 2.14%
    PRS 80.37
  • elicited macrophage CL0000861
    CSI 2.05
    rCSI 1.89%
    PRS 92
  • fallopian tube secretory epithelial cell CL4030006
    CSI 2.04
    rCSI 1.97%
    PRS 85.18
  • myeloid leukocyte CL0000766
    CSI 2.04
    rCSI 1.88%
    PRS 87.23
  • ciliated epithelial cell CL0000067
    CSI 1.97
    rCSI 1.73%
    PRS 76.49
  • intestine goblet cell CL0019031
    CSI 1.95
    rCSI 1.73%
    PRS 83.6
  • ciliated cell CL0000064
    CSI 1.94
    rCSI 3.14%
    PRS 80.71
  • granulocyte monocyte progenitor cell CL0000557
    CSI 1.9
    rCSI 1.64%
    PRS 89.1
  • transit amplifying cell of colon CL0009011
    CSI 1.84
    rCSI 2.16%
    PRS 86.94
  • stem cell CL0000034
    CSI 1.8
    rCSI 1.74%
    PRS 80.89
  • lung ciliated cell CL1000271
    CSI 1.51
    rCSI 1.74%
    PRS 79.61
  • mature alpha-beta T cell CL0000791
    CSI 1.47
    rCSI 5.32%
    PRS 97.01
  • alveolar macrophage CL0000583
    CSI 1.45
    rCSI 2.38%
    PRS 88.99
  • Langerhans cell CL0000453
    CSI 1.44
    rCSI 2.21%
    PRS 94.05
  • enteroendocrine cell CL0000164
    CSI 1.43
    rCSI 1.95%
    PRS 85.04
  • retinal cone cell CL0000573
    CSI 1.34
    rCSI 2.16%
    PRS 77.4
  • CD1c-positive myeloid dendritic cell CL0002399
    CSI 1.2
    rCSI 1.45%
    PRS 92.13
  • lung macrophage CL1001603
    CSI 1.04
    rCSI 2.31%
    PRS 91.65
  • colon goblet cell CL0009039
    CSI 1.03
    rCSI 2.44%
    PRS 89.17
  • deuterosomal cell CL4033044
    CSI 0.95
    rCSI 3.22%
    PRS 81.81
  • promonocyte CL0000559
    CSI 0.87
    rCSI 1.49%
    PRS 89.83
  • ciliated columnar cell of tracheobronchial tree CL0002145
    CSI 0.87
    rCSI 1.97%
    PRS 79.3
  • luminal cell of prostate epithelium CL0002340
    CSI 0.85
    rCSI 4.58%
    PRS 91.62
  • forebrain radial glial cell CL0013000
    CSI 0.83
    rCSI 2.66%
    PRS 86.46
  • cytotoxic T cell CL0000910
    CSI 0.23
    rCSI 1.3%
    PRS 87.11

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 Analyzed for its expression specificity (CSI Z-Score), [TFPT](/details-gene/29844) (TCF3 Fusion Partner) emerges not as a cell-type specific marker but as a broadly expressed gene essential for fundamental cellular processes. Its consistent lack of specificity across diverse cell lineages, coupled with its known roles in DNA repair and chromatin remodeling, suggests it functions as a core component of cellular machinery responsible for maintaining genomic integrity and regulating gene expression, rather than defining a unique cellular identity. ## Cellular Roles and Expression Landscape The expression profile of [TFPT](/details-gene/29844), when evaluated for specificity, is characterized by its ubiquitous nature. In the **Overall** context, the gene consistently presents a CSI (Z-SCORE) of 0.00 with non-significant p-values (p > 0.5) across a wide array of cell types, including [intestinal tuft cell](/details-cell/CL0019032), [dendritic cell, human](/details-cell/CL0001056), and various lymphoid progenitors like [pro-B cell](/details-cell/CL0000826) and [double negative thymocyte](/details-cell/CL0002489). This flat specificity profile strongly indicates that [TFPT](/details-gene/29844) expression is not a distinguishing feature of any single cell type. Instead, its presence in functionally diverse cells involved in immunity, epithelial function, and development points towards a housekeeping or foundational role. This is consistent with its original identification as a fusion partner with [TCF3](/details-gene/6929) in B-cell precursor acute lymphoblastic leukemia, a context where fundamental processes like cell cycle regulation and apoptosis are often dysregulated ([PubMed: 10086727](https://doi.org/10.1038/sj.leu.2401338)). Its role in apoptosis has been shown to be cell-type restricted and density-dependent, suggesting its function can be modulated by the cellular microenvironment ([PubMed: 17041757](https://doi.org/10.1007/s10495-006-0195-5)). ## Pathways and Molecular Function The broad, non-specific expression pattern of [TFPT](/details-gene/29844) is strongly supported by its annotated molecular functions, which are central to cell survival and proliferation. It is a known component of the INO80 chromatin remodeling complex ([GO:0031011](/details-gene/29844)), a highly conserved molecular machine that modulates nucleosome positions to regulate transcription, replication, and DNA repair ([PubMed: 16230350](https://doi.org/10.1074/jbc.m509128200); [PubMed: 21303910](https://doi.org/10.1074/jbc.m111.222505)). This core function connects directly to its involvement in multiple fundamental Reactome pathways, including '[Dna repair](/details-gene/29844)' ([R-HSA-73894](https://reactome.org/content/detail/R-HSA-73894)) and '[Global genome nucleotide excision repair (gg-ner)](/details-gene/29844)' ([R-HSA-5696399](https://reactome.org/content/detail/R-HSA-5696399)). Gene Ontology terms further reinforce this, highlighting its role in the '[apoptotic signaling pathway](/details-gene/29844)' ([GO:0097190](/details-gene/29844)), '[regulation of cell cycle](/details-gene/29844)' ([GO:0051726](/details-gene/29844)), and '[telomere maintenance](/details-gene/29844)' ([GO:0000723](/details-gene/29844)). The protein also participates in post-translational modifications, particularly deubiquitination processes, through its association with the UCH37 deubiquitinase within both the proteasome and the INO80 complex ([PubMed: 18922472](https://doi.org/10.1016/j.molcel.2008.08.027)). Collectively, these annotations depict [TFPT](/details-gene/29844) as a crucial integrator of chromatin dynamics, genome stability, and protein turnover. ## Research Directions Given that [TFPT](/details-gene/29844) is broadly expressed and involved in fundamental cellular processes, future research should focus on its context-dependent functions, particularly in states of cellular stress and disease. Its role in cancer, beyond the known [TCF3](/details-gene/6929) fusion, remains an important area for investigation. **Testable Hypotheses:** 1. **Hypothesis:** [TFPT](/details-gene/29844) is a critical mediator of apoptosis in response to genotoxic stress, and its function is heightened in rapidly proliferating cells. Although ubiquitously expressed, its contribution to cell fate decisions may be most pronounced under conditions that challenge genomic integrity. * **Experimental Approach:** Utilize CRISPR-mediated knockdown of [TFPT](/details-gene/29844) in a panel of cancer cell lines (e.g., leukemia, colon cancer) and corresponding non-transformed cell lines. Treat cells with DNA damaging agents (e.g., doxorubicin, cisplatin) and quantify apoptosis via Annexin V/PI staining and PARP cleavage. It is hypothesized that [TFPT](/details-gene/29844) knockdown will confer greater resistance to chemotherapy-induced apoptosis in cancer cells compared to non-transformed cells. 2. **Hypothesis:** As a component of the INO80 complex, [TFPT](/details-gene/29844) is required for maintaining genomic stability in hematopoietic stem and progenitor cells (HSPCs), and its loss predisposes these cells to malignant transformation. * **Experimental Approach:** Develop a conditional knockout mouse model where *Tfpt* is deleted specifically in the hematopoietic compartment (e.g., Vav1-Cre; *Tfpt* fl/fl). Monitor the mice for hematopoietic defects, changes in lineage output through flow cytometry, and increased incidence of hematological malignancies. Assess genomic instability in HSPCs by quantifying gamma-H2AX foci and performing spectral karyotyping. 3. **Hypothesis:** The chromatin remodeling activity of the [TFPT](/details-gene/29844)-containing INO80 complex is selectively recruited to immune-response gene loci during lymphocyte activation to facilitate rapid transcriptional changes. * **Experimental Approach:** Isolate primary human CD4+ T cells and perform chromatin immunoprecipitation followed by sequencing (ChIP-seq) for [TFPT](/details-gene/29844) and active chromatin marks (e.g., H3K27ac) in both resting and activated (anti-CD3/CD28 stimulation) states. This will reveal if [TFPT](/details-gene/29844) binding is redistributed to promoters and enhancers of key cytokine genes (e.g., *IFNG*, *IL2*, *TNF*) upon T cell activation. **Therapeutic Potential:** The involvement of [TFPT](/details-gene/29844) in DNA repair and apoptosis makes it a potential target for cancer therapy, particularly for sensitizing tumors to genotoxic agents. However, its ubiquitous expression profile suggests that systemic inhibition could lead to significant toxicity. A more promising strategy may involve developing inhibitors that specifically disrupt the pathological TCF3-TFPT fusion protein in leukemia or exploring synthetic lethal interactions where [TFPT](/details-gene/29844) inhibition is only effective in cancer cells with specific co-occurring mutations (e.g., defects in another DNA repair pathway).

Genular Protein ID: 1557883380

Symbol: TFPT_HUMAN

Name: TCF3 fusion partner

UniProtKB Accession Codes:

P0C1Z6 G5E9B5

Database IDs:

AGR 1 AlphaFoldDB 1 Antibodypedia 1 Bgee 1 BioGRID 1 BioGRID-ORCS 1 BioMuta 1 CCDS 2 CTD 1 ChiTaRS 1 ComplexPortal 1 DMDM 1 DNASU 1 DisGeNET 1 EMBL 7 Ensembl 12 ExpressionAtlas 1 GO 24 GeneCards 1 GeneTree 1 GeneWiki 1 GenomeRNAi 1 HGNC 1 HPA 1 InParanoid 1 IntAct 1 InterPro 1 KEGG 1 MANE-Select 1 MIM 1 MINT 1 MassIVE 1 NCBI Taxonomy 1 OMA 1 OpenTargets 1 OrthoDB 1 PANTHER 2 PRO 1 PathwayCommons 1 PaxDb 1 PeptideAtlas 1 PharmGKB 1 Pharos 1 PhosphoSitePlus 1 PhylomeDB 1 Proteomes 1 ProteomicsDB 2 Pumba 1 RNAct 1 Reactome 2 RefSeq 2 SIGNOR 1 SMR 1 STRING 1 SignaLink 1 TreeFam 1 UCSC 2 VEuPathDB 1 eggNOG 1 iPTMnet 1 jPOST 1 neXtProt 1

Citations:

PubMed ID: 10086727

Title: Identification of a novel molecular partner of the E2A gene in childhood leukemia.

PubMed ID: 10086727

DOI: 10.1038/sj.leu.2401338

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: 16230350

Title: A mammalian chromatin remodeling complex with similarities to the yeast INO80 complex.

PubMed ID: 16230350

DOI: 10.1074/jbc.m509128200

PubMed ID: 17041757

Title: Apoptosis promoted by up-regulation of TFPT (TCF3 fusion partner) appears p53 independent, cell type restricted and cell density influenced.

PubMed ID: 17041757

DOI: 10.1007/s10495-006-0195-5

PubMed ID: 17081983

Title: Global, in vivo, and site-specific phosphorylation dynamics in signaling networks.

PubMed ID: 17081983

DOI: 10.1016/j.cell.2006.09.026

PubMed ID: 18220336

Title: Combining protein-based IMAC, peptide-based IMAC, and MudPIT for efficient phosphoproteomic analysis.

PubMed ID: 18220336

DOI: 10.1021/pr0705441

PubMed ID: 18922472

Title: Distinct modes of regulation of the Uch37 deubiquitinating enzyme in the proteasome and in the Ino80 chromatin-remodeling complex.

PubMed ID: 18922472

DOI: 10.1016/j.molcel.2008.08.027

PubMed ID: 18669648

Title: A quantitative atlas of mitotic phosphorylation.

PubMed ID: 18669648

DOI: 10.1073/pnas.0805139105

PubMed ID: 19413330

Title: Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach.

PubMed ID: 19413330

DOI: 10.1021/ac9004309

PubMed ID: 20068231

Title: Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis.

PubMed ID: 20068231

DOI: 10.1126/scisignal.2000475

PubMed ID: 21303910

Title: Subunit organization of the human INO80 chromatin remodeling complex: An evolutionarily conserved core complex catalyzes ATP-dependent nucleosome remodeling.

PubMed ID: 21303910

DOI: 10.1074/jbc.m111.222505

PubMed ID: 21406692

Title: System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation.

PubMed ID: 21406692

DOI: 10.1126/scisignal.2001570

PubMed ID: 23186163

Title: Toward a comprehensive characterization of a human cancer cell phosphoproteome.

PubMed ID: 23186163

DOI: 10.1021/pr300630k

PubMed ID: 24275569

Title: An enzyme assisted RP-RPLC approach for in-depth analysis of human liver phosphoproteome.

PubMed ID: 24275569

DOI: 10.1016/j.jprot.2013.11.014

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: 253
  • Mass: 28278
  • Checksum: C57CC8436F963F36
  • Sequence:
    • MELEQREGTM AAVGFEEFSA PPGSELALPP LFGGHILESE LETEVEFVSG GLGGSGLRER 
DEEEEAARGR RRRQRELNRR KYQALGRRCR EIEQVNERVL NRLHQVQRIT RRLQQERRFL 
MRVLDSYGDD YRASQFTIVL EDEGSQGTDA PTPGNAENEP PEKETLSPPR RTPAPPEPGS 
PAPGEGPSGR KRRRVPRDGR RAGNALTPEL APVQIKVEED FGFEADEALD SSWVSRGPDK 
LLPYPTLASP ASD