FB2025_01 , released February 20, 2025
Result: Stau_RIP
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General Information
Name
Stau_RIP
Species
D. melanogaster
Result type
RNA-protein interaction
FlyBase ID
FBlc0000670
Project
Data Provider
Title
High-confidence RNA-protein interactions identified in stau and stau-GFP RIP from early embryos.
Status
Current
Accessions
    Biosample Source
    Overview
    Strain
    Stage
    pre-blastoderm stage
    (Laver et al., 2013)
    blastoderm stage
    (Laver et al., 2013)
    gastrula stage
    (Laver et al., 2013)
    Sex
    Tissue isolated
    organism
    (Laver et al., 2013)
    Other tissues studied
    Cell component
    Cell line
    Key genes
    (transgene_used)
    Methods
    Sample preparation

    Flies were maintained at 25oC and a 0-3 hour embryo collection was collected.

    Biosamples analyzed by this result (2)
    Biosample
    Type
    Title
    BS_E1-6_stau-GFP_RIP
    whole organism
    D. melanogaster, stau-GFP line in stau mutant background, embryo (0-3 hr), source of extract for stau-GFP RIP.
    BS_E1-6_stau_RIP
    whole organism
    D. melanogaster, wild-type, embryo (0-3hr), source of extract for stau RIP.
    Data Analyzed
    Assay
    RIP-Seq
    (Laver et al., 2013)
    Assay methods
    Key genes
    (bait_protein)
    Protocol

    The stau protein was immunoprecipitated using a synthetic FLAG-tagged Fab antibody fragment specific for stau. Bound protein-RNA was eluted using FLAG peptide. RNA in coimmunoprecipitation was purified using Trizol reagent. Double-stranded cDNA was prepared from isolated RNA using oligo-dT primers and labelled for subsequent hybridization.

    Mode of Assay

    Labelled cDNA libraries were characterized by hybridization to custom-designed NimbleGen array (GPL10539).

    Raw Data Analyzed (2)
    Assay / Reagent collection
    Type
    Title
    RIP_E1-6_stau
    RIP-Seq
    Immunoprecipitation of RNAs (RIP) bound to stau in early embryos.
    RIP_E1-6_stau-GFP
    RIP-Seq
    Immunoprecipitation of RNAs (RIP) bound to GFP-tagged stau in early embryos.
    Processed Data Analyzed (0)
    Result
    Type
    Title
    Analysis
    Methods
    Reference Genome
    Reference Annotation
    Data analysis

    Interactions reported for RNA recovered in stau RIP with > 5-fold enrichment (GFP-stau RIP) or >2-fold enrichment (stau RIP), with FDR of 5%.

    (Laver et al., 2013)
    Comments
    Associated Data
    Size
    Associated interactions
    94 Interactions
    Files
    Additional Information
    Synonyms and Secondary IDs (3)
    Reported As
    Symbol Synonym
    Stau_RIP
    Staufen-associated mRNAs
    (Laver et al., 2013)
    Name Synonyms
    High-confidence RNA-protein interactions identified in stau and stau-GFP RIP from early embryos.
    (Laver et al., 2013)
    Secondary FlyBase IDs
      References (1)