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Sample GSM846913 Query DataSets for GSM846913
Status Public on Dec 20, 2012
Title Pol II ChIP-seq from 10-12 h Drosophila muscle cells, 8WG16 antibody, replicate 1
Sample type SRA
 
Source name muscle FAC sorted from dissociated embryos
Organism Drosophila melanogaster
Characteristics genetic background: P{w+mC=UAS-mCD8::GFP.L}LL6, P{w+mC=Dmef2-GAL4}
time point: 10 to 12h AEL
chip antibody: Pol II (8WG16, Covance)
chip antibody manufacturer: Covance
chip antibody catalog #: 8WG16
Growth protocol D. melanogaster embryos were collected and aged on yeasted apple juice plates at 25 °C and 60 % humidity.
Extracted molecule genomic DNA
Extraction protocol ChIP-seq: DNA-protein-complexes were isolated with specific antibodies. Sequencing libraries were prepared following Illumina's instructions: DNA was end repaired using T4 DNA polymerase, DNA polymerase I large fragment (Klenow polymerase) and T4 polynucleotide kinase. A single 3'-A overhang was added to the blunted ends using Klenow 3'-5' exo- polymerase. Adapters with single 3'-T overhangs were ligated to the adenylated fragments, and after a size-selection step on a 2 % agarose gel (150-250 bp) the adapter modified DNA was PCR-amplified. Following cluster generation on the flowcell surface, the sequencing libraries were sequenced following Illumina's protocol.
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina Genome Analyzer IIx
 
Data processing mef2_10to12h_pol_8wg16_1.bed; genome build: dm3
Reads were trimmed to 18bp and aligned to the UCSC dm3 genome with bowtie v0.12.7. Only uniquely aligning reads with up to two mismatches were retained. Aligned reads were then extended to the estimated average insert size of each library as measured by a Bioanalyzer.
 
Submission date Dec 09, 2011
Last update date May 15, 2019
Contact name Julia Zeitlinger
E-mail(s) jbz@stowers.org
Organization name Stowers Institute for Medical Research
Lab Zeitlinger Lab
Street address 1000 E 50th St
City Kansas City
State/province MO
ZIP/Postal code 64110
Country USA
 
Platform ID GPL11203
Series (2)
GSE34301 Poised RNA Polymerase II changes over developmental time and prepares genes for future expression (ChIP-seq data)
GSE34304 Poised RNA Polymerase II changes over developmental time and prepares genes for future expression
Relations
SRA SRX110767
BioSample SAMN00764917

Supplementary file Size Download File type/resource
GSM846913_mef2_10to12h_pol_8wg16_1.bed.gz 95.5 Mb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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