FUBP1 Recombinant Monoclonal Antibody

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Description

Antibody Production and Validation

Recombinant monoclonal FUBP1 antibodies are produced using hybridoma or single B-cell cloning technologies. Key features include:

Research Applications

FUBP1 antibodies are utilized in:

  • Cancer Biology: Detecting FUBP1 overexpression in tumor tissues (e.g., breast cancer, glioblastoma) .

  • Mechanistic Studies: Investigating FUBP1’s role in RNA splicing and m⁶A methylation .

  • Functional Assays: Silencing FUBP1 in vitro/in vivo to study apoptosis and differentiation .

Example Findings:

  • Cooperation with Tumor Suppressors: FUBP1 loss synergizes with PTEN deletion to drive tumorigenesis in mammary epithelial cells .

  • Splicing Regulation: FUBP1 binds AU-rich RNA elements to inhibit second-step splicing in TRIAD3 pre-mRNA .

Table 2: Performance Across Vendors

VendorSensitivity (WB)IHC CompatibilityPrice Range (USD)Key Advantage
Novus High (1:5,000)FFPE-ready$350–$450Broad application range
Elabscience Moderate (1:1,000)Frozen/FFPE$300–$400Validated in multiple species
Thermo Fisher High (1:2,000)FFPE-ready$400–$500Recombinant, animal-free production

Critical Research Insights

  • Oncogenic Role: FUBP1 depletion reduces tumor growth in xenograft models, highlighting its potential as a therapeutic target .

  • Splicing Dysregulation: FUBP1 loss alters global RNA splicing, generating oncogenic isoform variants .

  • Viral Interactions: Binds hepatitis C virus RNA to facilitate replication .

Limitations and Considerations

  • Observed MW Discrepancies: Post-translational modifications cause variability in Western blot bands (e.g., 68 kDa expected vs. 74 kDa observed) .

  • Species Specificity: Some clones (e.g., PAT14F5AT) are human-specific .

Product Specs

Buffer
Rabbit IgG in phosphate buffered saline, pH 7.4, 150mM NaCl, 0.02% sodium azide and 50% glycerol.
Description

FUBP1, a DNA and RNA binding protein, primarily regulates the transcription of its target genes. By controlling intricate networks, FUBP1 stimulates cell proliferation, inhibits apoptosis, and enhances cell migration. Its overexpression is prevalent in various cancers, including renal cell carcinoma, breast cancer, prostate cancer, and bladder cancer. Loss-of-function studies demonstrate the critical roles of FUBP1 in maintaining and sustaining hematopoietic stem cells.

This recombinant FUBP1 antibody was developed through the Single B cell platform. The process involved identifying and isolating single B cells, amplifying and cloning the FUBP1 antibody gene, followed by expression, screening, and validation of antibody specificity. This FUBP1 antibody has been thoroughly validated in ELISA, WB, IHC, IF, FC, and IP assays.

Form
Liquid
Lead Time
Typically, we can ship the products within 1-3 working days after receiving your order. Delivery time may vary depending on the purchase method or location. Please consult your local distributors for specific delivery time details.
Synonyms
Far upstream element-binding protein 1 (FBP) (FUSE-binding protein 1) (DNA helicase V) (hDH V), FUBP1
Target Names
FUBP1
Uniprot No.

Target Background

Function

FUBP1 regulates MYC expression by binding to a single-stranded far-upstream element (FUSE) located upstream of the MYC promoter. It can act as both an activator and a repressor of transcription.

Gene References Into Functions
  1. Elevated FUBP1 expression is linked to low Chemosensitivity to Adriamycin in Gastric Cancer. PMID: 28667493
  2. Reduced FUBP1 expression is associated with adenovirus infection. PMID: 29743362
  3. These findings suggest that interference with the FUBP1/FUSE interaction, in addition to TOP1 inactivation, may contribute to the therapeutic potential of camptothecin/SN-38. PMID: 29031818
  4. The results demonstrate a correlation between FUBP1 levels and chordoma progression and prognosis, suggesting FUBP1 as a potential biomarker and therapeutic target. PMID: 28780352
  5. Cyclin J and far upstream element-binding protein 1 (FUBP1) were identified as novel miR-16 targets, mediating the antiproliferative effects of miR-16. PMID: 27157613
  6. FUBP1 acts as a potential oncogene in clear cell renal cell carcinoma (ccRCC) and may serve as a novel biomarker or a promising therapeutic target for ccRCC. PMID: 28076379
  7. FBP1 expression in B-cell lymphoma was also associated with unfavorable survival outcomes. Silencing FBP1 using small interfering RNA inhibited B-cell lymphoma cell proliferation, leading to G0/G1 phase cell cycle arrest. PMID: 27599538
  8. FUBP1 may potentially stimulate c-Myc expression in ESCC, and its expression may contribute to esophageal squamous cell carcinoma progression. PMID: 26490982
  9. With the advent of large-scale genome sequencing technology, molecular genetic alterations in the FUBP1 promoter have been identified in the majority of oligodendrogliomas. PMID: 26545048
  10. A direct connection has been established between the cellular PI3K/AKT/mTOR signaling pathway, frequently activated in human hepatocarcinogenesis, and the enrichment of oncogenic transcription factors of the FBP family. PMID: 26901106
  11. Concomitant overexpression of far upstream element (FUSE) binding protein (FBP) interacting repressor (FIR) and its splice variants induce migration and invasion of non-small cell lung cancer cells. PMID: 26177862
  12. FBP1 promotes hepatitis C virus replication by inhibiting p53 expression. PMID: 25995247
  13. High FBP1 expression has been observed in glioma. PMID: 24347226
  14. Apoptosis-mediated cleavage of FBP1 and its decreased expression in epithelial cells induce cell cycle arrest, which may play a significant role in colonic epithelial disruption during colitis. PMID: 24966911
  15. Our findings suggest that absent CIC and FUBP1 expressions are potential markers of shorter time to recurrence in oligodendroglial tumors. PMID: 24030748
  16. These findings are the first report describing the regulation of alternative splicing of MDM2 mediated by the oncogenic factor FUBP1. PMID: 24798327
  17. The data indicates an association between FUBP1 expression and proliferation in gliomas. PMID: 24117486
  18. FUBP1 expression varies among gastric tissues; a correlation exists between overall survival rates and factors such as age, sex, lymph node metastasis, and distant metastasis. PMID: 24192769
  19. Far upstream element-binding protein 1 and RNA secondary structure both mediate second-step splicing repression. PMID: 23818605
  20. Biochemical features of FBP1. PMID: 22926519
  21. Analysis identified two highly recurrent genetic signatures in gliomas: IDH1/ATRX (I-A) and IDH1/CIC/FUBP1 (I-CF). PMID: 22869205
  22. CIC and FUBP1 mutations were found in oligodendrogliomas and identified in oligoastrocytomas. These results suggest a role for these genes in the biology and pathology of oligodendrocytes. PMID: 22588899
  23. Increased polyubiquitination of FBP1 does not affect its protein stability but rather modulates the stable recruitment of FBP1 to target loci. PMID: 21779003
  24. The central domain of FBP1, containing four K homology motifs, was essential for p27 5'-UTR RNA binding, and the N-terminal domain played a significant role in translational activation. PMID: 21855647
  25. The CIC gene was mutated in 6 oligodendrogliomas, and the FUBP1 gene was mutated in 2; 27 additional oligodendrogliomas exhibited 12 and 3 more tumors with mutations of CIC and FUBP1, respectively; these findings suggest a role for these genes in the biology and pathology of oligodendrocytes. PMID: 21817013
  26. The authors propose that FUSE binding protein 1 binds with the Japanese encephalitis virus untranslated RNA and functions as a host anti-virus defense molecule by repressing viral protein expression. PMID: 21367899
  27. The authors propose that FBP1 is a key regulator of cell growth and proliferation through its ability to selectively bind the NPM 3' UTR and repress NPM translation. PMID: 20802533
  28. The noncoding strand FUSE recruits an activator FUSE-binding protein (FBP) and a repressor FBP-interacting repressor (FIR) to fine-tune c-myc transcription. PMID: 20420426
  29. Results describe the roles of the FarUpStream Element (FUSE), FUSE Binding Protein (FBP), FBP Interacting Repressor (FIR), and TFIIH in the regulation of c-myc expression. PMID: 16628215
  30. FUBP1 is an authentic substrate of Parkin that might play a critical role in the development of Parkinson disease pathology along with aminoacyl-tRNA synthetase interacting multifunctional protein type 2. PMID: 16672220
  31. This study investigated the contributions of FBP's 4 K Homology (KH) domains to sequence selectivity. EMSA and missing contact point analysis revealed that FBP contacts 4 separate patches spanning a large segment of FUSE. PMID: 19015535
  32. This study found that FBP1, as well as FBP3, are more frequently expressed in prostate and bladder cancer than in renal cancer. Additionally, a positive correlation between levels of FBP1, FBP3, and c-Myc was exclusively detectable in renal cell carcinomas. PMID: 19087307
  33. The oncogenic potential of c-Myc is 'switched off' after apoptosis induction as a consequence of the caspase-mediated cleavage of FBP-1. PMID: 19219071
  34. FBP1 is an important oncoprotein overexpressed in hepatocellular carcinoma that induces tumor propagation through direct or indirect repression of cell cycle inhibitors and proapoptotic target genes. PMID: 19637194

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Database Links

HGNC: 4004

OMIM: 603444

KEGG: hsa:8880

STRING: 9606.ENSP00000359804

UniGene: Hs.567380

Subcellular Location
Nucleus.

Q&A

What is FUBP1 and why is it significant for cancer research?

FUBP1 is a single-stranded DNA and RNA-binding protein that binds to multiple DNA elements, particularly the far upstream element (FUSE) located upstream of c-myc. It contains three functional domains: an amphipathic helix N-terminal domain, a DNA-binding central domain, and a C-terminal transactivation domain with three tyrosine-rich motifs .

FUBP1's significance in cancer research stems from several key functions:

  • Regulation of c-MYC expression in undifferentiated cells

  • Modulation of post-transcriptional events including translation, mRNA stability, and splicing

  • Involvement in N6-methyladenosine (m6A) RNA methylation

  • Cooperation with tumor suppressor genes (e.g., PTEN, TP53, RB1) in oncogenesis

  • 3'-5' helicase activity on both DNA-DNA and RNA-RNA duplexes

Recent research has identified FUBP1 as a long tail cancer driver, whose loss leads to global changes in RNA splicing and expression of aberrant driver isoforms, making it a promising target for therapeutic intervention and diagnostic development .

What applications are FUBP1 recombinant monoclonal antibodies suitable for?

FUBP1 recombinant monoclonal antibodies have been validated for multiple experimental applications with specific dilution recommendations:

ApplicationRecommended DilutionVerified Samples
Western Blot (WB)1:500-1:1000K562, Rat Brain, HeLa, Jurkat, Raji
Immunohistochemistry (IHC-P)1:100-1:200Human colon cancer
Immunofluorescence (IF)1:50-1:100Not specified
Immunoprecipitation (IP)As recommended by manufacturerHuman samples
Flow Cytometry (Intracellular)As recommended by manufacturerHuman samples
ELISAValidated, dilution varies by kitNot specified

The antibodies show reactivity with human, mouse, and rat samples, making them versatile tools for comparative studies across species .

How do FUBP1 antibodies help in distinguishing between normal and pathological protein function?

FUBP1 antibodies can differentiate between normal and pathological protein function through several methodological approaches:

  • Expression level analysis: Western blotting can quantify FUBP1 levels, which are often aberrantly expressed in malignant tissues. The observed molecular weight of 74 kDa (compared to calculated 68 kDa) may indicate post-translational modifications that differ between normal and pathological states .

  • Localization studies: Immunohistochemistry and immunofluorescence can reveal altered subcellular localization of FUBP1 in disease states, particularly important since FUBP1 functions in both nuclear and cytoplasmic compartments.

  • Protein-protein interaction analysis: Immunoprecipitation using FUBP1 antibodies can identify differential binding partners in normal versus disease conditions, especially relevant for its interactions with spliceosomal complexes .

  • Functional domain mapping: Since FUBP1 contains distinct functional domains, antibodies targeting specific regions can help assess domain-specific functions that may be disrupted in pathological conditions .

For accurate interpretation, researchers should correlate antibody findings with functional assays that measure FUBP1's effects on c-myc expression, RNA splicing patterns, and m6A methylation levels .

What are the optimal conditions for using FUBP1 recombinant monoclonal antibodies in Western blotting?

For optimal Western blot results with FUBP1 recombinant monoclonal antibodies, follow these methodological guidelines:

  • Sample preparation:

    • Use fresh cell/tissue lysates when possible

    • Verified cell lines include K562, HeLa, Jurkat, Raji, and rat brain tissue

    • Include protease inhibitors in lysis buffer to prevent degradation

  • Electrophoresis and transfer conditions:

    • Look for the protein at 74 kDa (observed) rather than the calculated 68 kDa

    • Note that mobility can be affected by post-translational modifications, causing the observed band size to be inconsistent with expectations

  • Antibody incubation:

    • Recommended dilution: 1:500-1:1000

    • Blocking/dilution buffer: 5% non-fat dry milk in TBST

    • Primary antibody incubation: Overnight at 4°C for best results

  • Detection system:

    • Use appropriate secondary antibody (e.g., HRP-conjugated anti-rabbit IgG for rabbit monoclonal antibodies)

    • If signal is weak, consider signal enhancement systems compatible with your detection method

  • Controls:

    • Positive controls: K562, HeLa, or Jurkat cell lysates

    • Negative control: Primary antibody omission or non-relevant IgG

The Western blot pattern should show a predominant band at approximately 74 kDa, though additional bands may represent isoforms resulting from alternative splicing, which is particularly relevant given FUBP1's role in splicing regulation .

How should researchers design immunohistochemistry experiments with FUBP1 antibodies?

For effective immunohistochemistry (IHC) experiments with FUBP1 antibodies, consider the following methodological approach:

  • Tissue preparation and processing:

    • Use formalin-fixed, paraffin-embedded (FFPE) sections as these have been validated for FUBP1 antibodies

    • Section thickness: 4-5 μm is generally optimal

    • Human colon cancer tissue has been verified for FUBP1 antibody validation

  • Antigen retrieval:

    • Heat-induced epitope retrieval (HIER) in citrate buffer (pH 6.0) or EDTA buffer (pH 9.0)

    • Optimization may be required depending on tissue fixation conditions

  • Staining protocol:

    • Recommended dilution: 1:100-1:200

    • Incubation time: 1-2 hours at room temperature or overnight at 4°C

    • Detection system: Polymer-based detection systems work well with rabbit monoclonal antibodies

  • Controls and validation:

    • Positive control: Human colon cancer tissue

    • Negative controls: Primary antibody omission and tissue known to be negative for FUBP1

    • Subcellular localization: Predominantly nuclear staining is expected, with possible cytoplasmic staining in certain cell types

  • Interpretation of results:

    • Assess staining pattern (nuclear, cytoplasmic, membranous)

    • Evaluate staining intensity (negative, weak, moderate, strong)

    • Document heterogeneity across different tissue regions

    • Compare normal versus pathological tissue sections

When analyzing results, remember that FUBP1 expression patterns may vary depending on tissue type and disease state. The expression pattern should be consistent with literature findings, particularly in cancer tissues where aberrant expression has been documented .

What considerations are important when designing co-localization studies involving FUBP1?

When designing co-localization studies to investigate FUBP1's interactions with other proteins or cellular structures, consider these methodological approaches:

  • Selection of co-staining targets:

    • c-MYC: Given FUBP1's role in c-MYC regulation

    • Spliceosome components: FUBP1 associates with spliceosomal complexes

    • m6A methylation machinery: Based on FUBP1's involvement in RNA m6A methylation

    • Tumor suppressor proteins: PTEN, TP53, RB1, which co-occur with FUBP1 alterations

  • Immunofluorescence protocol optimization:

    • Antibody dilution: 1:50-1:100 for FUBP1 antibodies

    • Sequential versus simultaneous antibody incubation should be tested

    • Species compatibility: Ensure primary antibodies are from different host species to avoid cross-reactivity

    • Fluorophore selection: Choose spectrally distinct fluorophores to minimize bleed-through

  • Microscopy techniques:

    • Confocal microscopy: Essential for accurate subcellular co-localization assessment

    • Super-resolution microscopy: Consider for detailed analysis of molecular proximities

    • Z-stack acquisition: Important for three-dimensional co-localization analysis

  • Quantitative analysis:

    • Pearson's correlation coefficient or Manders' overlap coefficient for co-localization quantification

    • Analysis should span multiple fields and cells (n > 30) for statistical robustness

    • Subcellular compartmentalization must be considered in the analysis

  • Validation strategies:

    • Proximity ligation assay (PLA) to confirm direct protein-protein interactions

    • Co-immunoprecipitation to biochemically validate interactions observed microscopically

    • FUBP1 knockdown or overexpression controls to determine specificity

Remember that FUBP1's localization and interaction network may change depending on cell cycle phase, differentiation state, and pathological conditions, so appropriate controls and contextual analysis are essential .

How can FUBP1 antibodies be utilized to investigate its role in RNA splicing and m6A methylation?

FUBP1's emerging roles in RNA splicing and m6A methylation can be investigated using antibodies through these advanced methodological approaches:

  • RNA immunoprecipitation (RIP) assays:

    • Utilize FUBP1 antibodies to immunoprecipitate FUBP1-RNA complexes

    • Analyze bound RNAs by RT-PCR, RNA-seq, or m6A-seq

    • Compare RIP profiles between normal and FUBP1-depleted cells to identify direct targets

    • This approach can reveal FUBP1-dependent m6A modification sites and splicing regulatory elements

  • Combined CLIP-seq (Cross-linking immunoprecipitation followed by sequencing):

    • UV cross-linking preserves native FUBP1-RNA interactions

    • FUBP1 antibody immunoprecipitation enriches for FUBP1-bound RNAs

    • High-throughput sequencing identifies binding motifs and target transcripts

    • Analyze binding sites in relation to splicing junctions and m6A consensus sequences

  • Integrated splicing analysis workflow:

    • FUBP1 antibody-mediated pulldown followed by mass spectrometry to identify splicing factor partners

    • RNA-seq after FUBP1 knockdown/overexpression to detect global splicing changes

    • RT-PCR validation of specific alternative splicing events

    • Correlation of splicing changes with m6A modification patterns

  • m6A-specific investigations:

    • Combine FUBP1 immunoprecipitation with m6A antibody detection to assess direct involvement in methylation

    • Use methylated RNA immunoprecipitation (MeRIP) before and after FUBP1 depletion

    • Quantitative PCR or sequencing of precipitated RNAs to identify FUBP1-dependent m6A sites

These approaches can help elucidate how FUBP1 loss leads to "global changes in RNA splicing and widespread expression of aberrant driver isoforms" as reported in recent literature, potentially identifying therapeutic targets in cancers with FUBP1 alterations .

How can researchers design experiments to investigate FUBP1's cooperation with tumor suppressor genes?

Based on the finding that FUBP1 cooperates with tumor suppressor genes like PTEN in cancer development , researchers can design experimental paradigms using FUBP1 antibodies:

  • Co-depletion studies in cell models:

    • Design single and double knockdown/knockout systems for FUBP1 and candidate tumor suppressors (PTEN, TP53, RB1, CDH1, KDM5C)

    • Use FUBP1 antibodies to confirm depletion and examine compensatory changes in protein levels

    • Assess cellular phenotypes: proliferation, invasion, differentiation, and tissue architecture

    • Validated in: mammary epithelial cells (MCF10F) as per literature

  • In vivo tumor formation assays:

    • Establish cells with FUBP1 depletion alone or in combination with tumor suppressor genes

    • Implant cells in immunocompromised mice (e.g., NOD-SCID as used in published studies)

    • Monitor tumor development (similar to the reported 2-week timeframe for FUBP1/PTEN-deficient cells)

    • Use FUBP1 antibodies for IHC analysis of resulting tumors

  • Signaling pathway integration analysis:

    • Immunoprecipitate FUBP1 and probe for co-immunoprecipitation with tumor suppressor proteins

    • Use phospho-specific antibodies to examine activation states of relevant signaling pathways (PI3K/AKT for PTEN, p53 pathway)

    • Perform reverse co-IP with tumor suppressor antibodies to confirm interactions

    • Map signaling networks through proteomic approaches

  • RNA-level functional integration:

    • Compare transcriptome and splicing profiles in single versus double-depleted cells

    • Investigate splicing patterns of tumor suppressor gene transcripts in FUBP1-depleted cells

    • Examine m6A modifications on tumor suppressor mRNAs with and without FUBP1

  • Clinical correlation studies:

    • Use tissue microarrays to analyze FUBP1 and tumor suppressor protein levels across cancer samples

    • Perform multiplexed immunofluorescence to assess co-localization in patient samples

    • Correlate expression patterns with clinical outcomes and molecular subtypes

This experimental framework builds on established research showing that FUBP1/PTEN-deficient cells form angiogenic, cystic tumors with widespread inflammation and abnormal mitoses in mouse models .

What methodological approaches can elucidate FUBP1's dual roles in transcriptional activation and repression?

FUBP1 can function as both an activator and repressor of transcription . To investigate this dual functionality, researchers can employ these methodological approaches using FUBP1 antibodies:

  • Chromatin immunoprecipitation (ChIP) sequencing:

    • Use FUBP1 antibodies to immunoprecipitate chromatin-bound FUBP1

    • Sequence associated DNA to identify genome-wide binding sites

    • Integrate with histone modification ChIP-seq (H3K27ac for active enhancers, H3K27me3 for repressed regions)

    • Classify FUBP1-bound regions as potentially activating or repressing based on chromatin signatures

    • Special focus on the far upstream element (FUSE) of c-MYC and other potential target genes

  • Sequential ChIP (Re-ChIP):

    • First immunoprecipitate with FUBP1 antibodies

    • Follow with second immunoprecipitation using antibodies against:

      • Transcriptional activators (e.g., p300, CBP)

      • Transcriptional repressors (e.g., HDACs, KDM1A)

    • Analyze enriched regions to identify where FUBP1 associates with activators versus repressors

  • Reporter gene assays with domain-specific manipulations:

    • Design reporter constructs containing FUBP1-binding elements

    • Co-express wild-type or domain-mutant FUBP1 (particularly focusing on the N-terminal domain thought to repress C-terminal domain activity)

    • Validate expression levels by Western blot using FUBP1 antibodies

    • Measure reporter activity to assess activation versus repression functions

  • Integrated proteomics approach:

    • Immunoprecipitate FUBP1 from different cellular contexts

    • Perform mass spectrometry to identify context-specific interaction partners

    • Classify partners as activators or repressors of transcription

    • Validate key interactions with co-immunoprecipitation and FUBP1 antibodies

  • Single-cell correlation studies:

    • Perform single-cell immunofluorescence for FUBP1 and target genes like c-MYC

    • Correlate FUBP1 levels/localization with target expression at single-cell resolution

    • Look for bimodal distributions suggesting context-dependent activation or repression

These approaches can help researchers understand how FUBP1 transitions between activator and repressor functions, potentially identifying therapeutic opportunities for manipulating FUBP1 activity in disease contexts .

What are common challenges in Western blot analysis with FUBP1 antibodies and how can they be addressed?

When working with FUBP1 antibodies in Western blotting, researchers may encounter several challenges:

  • Molecular weight discrepancy:

    • Challenge: FUBP1's observed molecular weight (74 kDa) differs from calculated (68 kDa)

    • Solution: This discrepancy is normal and documented. The mobility is affected by post-translational modifications and protein structure

    • Verification: Compare with positive control lysates (K562, HeLa, Jurkat) to confirm correct band identification

  • Multiple bands or smearing:

    • Challenge: Detection of multiple bands beyond the expected 74 kDa

    • Potential causes: Alternative splicing variants, degradation products, or non-specific binding

    • Solutions:

      • Fresh sample preparation with protease inhibitors

      • Optimize blocking conditions (5% NFDM/TBST recommended)

      • Titrate antibody concentration (start with 1:1000 dilution)

      • Consider alternative extraction methods for different subcellular fractions

  • Weak or absent signal:

    • Challenge: Insufficient signal despite correct procedure

    • Solutions:

      • Increase protein loading (start with 10-20 μg total protein)

      • Reduce antibody dilution (try 1:500)

      • Extend primary antibody incubation time (overnight at 4°C)

      • Enhanced chemiluminescence detection systems

      • Verify sample expression with RNA analysis first

  • High background:

    • Challenge: Non-specific background obscuring specific signal

    • Solutions:

      • More stringent washing (increase TBST washing steps to 3 x 10 minutes)

      • Alternative blocking agents (BSA instead of milk)

      • Pre-absorb antibody with non-specific proteins

      • Use more dilute antibody solution

  • Inconsistent results between experiments:

    • Challenge: Variability in FUBP1 detection between runs

    • Solutions:

      • Standardize lysate preparation methods

      • Include loading controls (e.g., GAPDH, β-actin)

      • Aliquot antibodies to avoid freeze-thaw cycles

      • Store antibody as recommended (at -20°C, valid for 12 months)

Always remember that FUBP1 may show differential expression depending on cell type, differentiation stage, and growth conditions, so contextual interpretation is essential .

How should researchers interpret conflicting results between different experimental approaches for FUBP1 analysis?

When facing conflicting results across different experimental methods using FUBP1 antibodies, researchers should implement this analytical framework:

  • Systematic method comparison:

    • Document disparities between techniques (e.g., WB showing high expression but IHC showing low expression)

    • Create a table mapping conflicting findings across methods

    • Evaluate each method's strengths and limitations for FUBP1 detection

  • Antibody validation assessment:

    • Verify antibody specificity through:

      • FUBP1 knockdown/knockout controls

      • Detection of recombinant FUBP1 protein

      • Epitope mapping to confirm target recognition

    • Different antibodies may recognize distinct epitopes or isoforms of FUBP1

  • Biological context considerations:

    • FUBP1 functions in multiple cellular processes (transcription regulation, splicing, m6A methylation)

    • Expression and localization may vary with:

      • Cell cycle phase

      • Differentiation state

      • Stress conditions

      • Pathological state

  • Technical reconciliation approaches:

    • For WB vs. IHC conflicts:

      • WB detects denatured protein while IHC detects fixed protein in native context

      • Consider epitope masking in tissue sections

      • Try different antigen retrieval methods for IHC

    • For IF vs. biochemical fractionation conflicts:

      • Antibody accessibility issues in IF

      • Cross-validation with GFP-tagged FUBP1 localization

  • Functional validation strategies:

    • Move beyond descriptive to functional assays:

      • RNA-binding assays (RIP) to confirm FUBP1-RNA interactions

      • ChIP to validate chromatin association

      • Splicing reporter assays to confirm splicing regulatory function

    • Correlation with known FUBP1 functions (c-MYC regulation, splicing effects)

Remember that FUBP1's complex roles in both normal and pathological contexts may result in genuine biological variability rather than technical artifacts. True understanding may require integration of seemingly conflicting data points into a more nuanced model of FUBP1 function .

What controls are essential for validating FUBP1 antibody specificity in different experimental applications?

Proper controls for validating FUBP1 antibody specificity are crucial for generating reliable research data. For each experimental application, specific controls should be implemented:

  • Essential controls for Western blot:

    • Positive controls: Known FUBP1-expressing cell lines (K562, HeLa, Jurkat)

    • Negative controls:

      • FUBP1 knockdown/knockout lysates

      • Peptide competition (pre-incubating antibody with immunizing peptide)

    • Loading controls: Housekeeping proteins (β-actin, GAPDH) to normalize expression

    • Size verification: Molecular weight markers to confirm the 74 kDa band

  • Controls for immunohistochemistry/immunofluorescence:

    • Tissue positive controls: Human colon cancer samples have been verified

    • Antibody controls:

      • Primary antibody omission

      • Isotype control (non-relevant IgG)

      • Peptide blocking controls

    • Expression validation controls:

      • FUBP1 overexpression

      • FUBP1 knockdown tissues/cells

    • Subcellular localization controls: Nuclear counterstain (DAPI) to confirm expected nuclear localization pattern

  • Controls for immunoprecipitation experiments:

    • Input controls: Analysis of starting material before IP

    • Negative IP controls:

      • IgG control immunoprecipitation

      • FUBP1-depleted sample immunoprecipitation

    • Reciprocal IP: Verify interactions by IP with antibodies against interacting partners

    • Specificity controls: Competing peptide to block antibody-antigen interaction

  • Controls for ChIP and RIP experiments:

    • Known target controls: Regions of c-MYC FUSE element for ChIP

    • Negative region controls: Genomic regions not expected to bind FUBP1

    • IP efficiency controls: IgG control and input normalization

    • Biological validation:

      • Target gene expression correlation

      • Changes upon FUBP1 depletion

  • Quantitative validation strategies:

    • Correlation with mRNA levels: RT-qPCR for FUBP1 transcripts

    • Alternative antibodies: Use of different antibody clones recognizing distinct epitopes

    • Recombinant protein standards: Calibration curves with purified FUBP1

The implementation of comprehensive controls is especially important for FUBP1 due to its involvement in multiple cellular processes and potential for context-dependent functions .

How can FUBP1 antibodies be used to investigate its role in cancer development and progression?

FUBP1 antibodies offer valuable tools for investigating its emerging role in oncogenesis through these research approaches:

  • Tumor profiling and stratification:

    • Apply FUBP1 antibodies for immunohistochemical analysis across cancer types

    • Correlate expression patterns with clinical outcomes and molecular subtypes

    • Develop scoring systems based on expression level, subcellular localization, and heterogeneity

    • Focus on cancers where FUBP1 alterations co-occur with other driver mutations (PTEN, TP53, RB1, CDH1, KDM5C)

  • Mechanistic investigations in carcinogenesis:

    • Examine FUBP1's role in disrupting cellular differentiation and tissue architecture

    • Use antibodies to track FUBP1 expression during tumor progression in staged samples

    • Investigate correlation between FUBP1 loss and emergence of aberrant splice isoforms of oncogenes

    • Monitor changes in m6A RNA methylation patterns upon FUBP1 alteration

  • Therapeutic response prediction:

    • Evaluate FUBP1 expression before and after treatment interventions

    • Correlate expression with response to therapies targeting RNA processing

    • Investigate potential synthetic lethality between FUBP1 loss and specific therapeutic agents

    • Study compensatory mechanisms in resistant tumors

  • Liquid biopsy development:

    • Develop circulating tumor cell (CTC) FUBP1 detection methods

    • Investigate shed FUBP1 or FUBP1-regulated RNA signatures in circulation

    • Monitor treatment response through serial FUBP1-based liquid biopsies

  • Experimental therapeutic approaches:

    • Target synthetic lethal interactions in FUBP1-altered cancers

    • Develop therapies addressing aberrant splice variants resulting from FUBP1 loss

    • Use FUBP1 antibodies to monitor on-target effects of experimental therapeutics

    • Explore combination strategies targeting FUBP1 and cooperating tumor suppressors

These research directions are supported by findings that FUBP1 cooperates with tumor suppressor genes to transform mammary epithelial cells and that FUBP1/PTEN-deficient cells rapidly form tumors in mouse models, highlighting FUBP1's potential as both a biomarker and therapeutic target in cancer .

What are the most promising directions for researching FUBP1's role in RNA processing and splicing regulation?

Building on emerging evidence of FUBP1's involvement in RNA processing , researchers can explore these promising directions using FUBP1 antibodies:

  • Global splicing landscape characterization:

    • Combine FUBP1 immunoprecipitation with RNA-seq and splicing-sensitive microarrays

    • Identify FUBP1-dependent alternative splicing events across cell types

    • Map splicing patterns in normal versus FUBP1-depleted conditions

    • Develop computational models predicting FUBP1-regulated exons based on sequence features

  • Mechanistic dissection of context-dependent splicing regulation:

    • Investigate how FUBP1 can both enhance and suppress splicing in different contexts

    • Use FUBP1 antibodies to isolate splicing complexes under various cellular conditions

    • Identify post-translational modifications of FUBP1 that may switch its activity

    • Examine interactions with other splicing regulators using co-immunoprecipitation

  • Integration of m6A methylation and splicing regulation:

    • Map the relationship between FUBP1-regulated m6A sites and alternative splicing events

    • Develop antibody-based methods to simultaneously track FUBP1 binding and m6A modification

    • Investigate if m6A readers/writers interact with FUBP1 in splicing regulation

    • Examine how FUBP1 loss affects m6A deposition near splice sites

  • Aberrant isoform characterization in disease states:

    • Identify cancer-specific splice variants arising from FUBP1 alteration

    • Use antibodies to detect expression of these variants at the protein level

    • Investigate functional consequences of these aberrant isoforms

    • Develop isoform-specific therapeutic strategies

  • Development of splicing modulators:

    • Screen for compounds that modify FUBP1's splicing regulatory activity

    • Use FUBP1 antibodies to assess compound effects on FUBP1 protein levels and localization

    • Develop targeted degraders or stabilizers of FUBP1

    • Evaluate therapeutic potential in models with FUBP1 alterations

This research direction is particularly promising as FUBP1 loss leads to "global changes in RNA splicing and widespread expression of aberrant driver isoforms," suggesting a central role in maintaining proper splicing patterns that prevent malignant transformation .

How might FUBP1 antibodies facilitate translational research bridging basic science and clinical applications?

FUBP1 antibodies can serve as critical tools bridging fundamental research and clinical applications through these translational approaches:

  • Biomarker development pipeline:

    • Validate FUBP1 as a diagnostic, prognostic, or predictive biomarker across cancer types

    • Standardize immunohistochemical protocols for clinical implementation

    • Develop companion diagnostics for therapies targeting FUBP1-dependent pathways

    • Correlate FUBP1 expression patterns with response to RNA-processing targeting drugs

  • Patient stratification strategies:

    • Use FUBP1 antibodies to classify tumors based on expression level and localization

    • Identify patient subgroups likely to benefit from specific therapeutic approaches

    • Create integrated biomarker panels combining FUBP1 with its cooperating tumor suppressors (PTEN, TP53)

    • Develop algorithms predicting treatment response based on FUBP1 status

  • Therapeutic target verification:

    • Validate antibody-based detection methods for monitoring drug effects on FUBP1

    • Develop assays measuring downstream effects of FUBP1 modulation

    • Create functional readouts for FUBP1-dependent splicing events in patient samples

    • Establish patient-derived organoid models for testing FUBP1-targeted approaches

  • Clinical trial design and implementation:

    • Use FUBP1 antibodies for patient selection in trials targeting RNA processing

    • Monitor treatment-induced changes in FUBP1 expression or localization

    • Analyze treatment resistance mechanisms involving FUBP1 pathway alterations

    • Develop combination therapy strategies based on FUBP1 status

  • Technological translation:

    • Adapt research-grade antibodies for clinical diagnostic use

    • Develop automated staining platforms for consistent FUBP1 detection

    • Create multiplexed detection systems combining FUBP1 with other markers

    • Establish quality control standards for clinical implementation

These translational approaches align with FUBP1's emerging role as a long tail cancer driver and its involvement in fundamental RNA processing mechanisms that, when disrupted, contribute to malignant transformation through global changes in alternative splicing and m6A methylation .

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