FB2020_06, released Dec 22, 2020

Result: ChIP-seq_H3K27me3_E6-8h_mesoderm

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General Information
Name
ChIP-seq_H3K27me3_E6-8h_mesoderm
Species
D. melanogaster
Result type
binding site identification
FlyBase ID
FBlc0000712
Project
Data Provider
[Furlong lab, EMBL](http://furlonglab.embl.de)
Title
Chip-Seq peak calls for H3K27me3 from D. melanogaster, embryonic mesodermal nuclei (6-8 hr AEL).
Status
Current
Accessions
    Biosample Source
    Overview
    Strain
    Stage
    early extended germ band stage
    (Bonn et al., 2012)
    late extended germ band stage
    (Bonn et al., 2012)
    Sex
    Tissue isolated
    mesoderm
    (Bonn et al., 2012)
    Other tissues studied
    Cell component
    nucleus
    (Bonn et al., 2012)
    Cell line
    Key genes
    Methods
    targeted cell labeling
    (Bonn et al., 2012)
    Sample preparation

    A strain expressing mesodermally expressed SBP-tagged His2B was used to label nuclei for subsequent fluorescent "cell" sorting. Two independent biological replicates were used.

    Biosamples analyzed by this result (1)
    Biosample
    Type
    Title
    BS_Furlong_E6-8h_mesoderm
    isolated cells
    D. melanogaster, embryonic mesodermal nuclei (6-8 hr AEL), source for chromatin.
    Data Analyzed
    Assay
    ChIP-Seq
    (Bonn et al., 2012)
    Assay methods
    single-end layout
    (Bonn et al., 2012)
    Illumina sequencing
    (Bonn et al., 2012)
    Key genes
    (bait_protein)
    Protocol

    Chromatin immunoprecipitation of His3 H3K27me3 modification.

    Chromatin was prepared from formaldehyde-fixed embryos as previously described (FBrf0202481).

    Mode of Assay

    Chromatin immunoprecipitated DNA was analyzed by next generation sequencing.

    Raw Data Analyzed (1)
    Assay / Reagent collection
    Type
    Title
    ChIP-Seq_Furlong_H3K27me3_E11-12_mesoderm
    ChIP-Seq
    Chip-Seq of H3K27me3 from D. melanogaster, embryonic mesodermal nuclei (6-8 hr AEL).
    Processed Data Analyzed (0)
    Result
    Type
    Title
    Analysis
    Methods
    Reference Genome
    Reference Annotation
    Data analysis

    Reads were aligned using bowtie. Input DNA or His3 ChIP DNA was used as control data. Peaks were called with MACS 1.3.7.1. Peak calls were lifted over from Dmel_Release_5 to Dmel_Release_6 using the NCBI Genome Remapping tool.

    Comments
    Associated Data
    Size
    Associated features
    2,047 region(s)
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    Files
    Additional Information
    Synonyms and Secondary IDs (4)
    Reported As
    Symbol Synonym
    ChIP-seq_H3K27me3_E6-8h_mesoderm
    H3K27ac Enriched Regions at 6-8h AEL in Mesoderm
    (Monfort and Furlong, 2015.1.15)
    K27me3 BiTS ChIP
    (Bonn et al., 2012)
    Name Synonyms
    Chip-Seq peak calls for H3K27me3 from D. melanogaster, embryonic mesodermal nuclei (6-8 hr AEL).
    (Bonn et al., 2012)
    Secondary FlyBase IDs
      References (2)