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| Status |
Public on Sep 01, 2017 |
| Title |
H3K4me3_ChIPSeq_rep2 |
| Sample type |
SRA |
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| Source name |
Testes, bam-, H3K4me3 ChIP
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| Organism |
Drosophila melanogaster |
| Characteristics |
genotype/variation: bam-
tissue: Testis
age: Within 3 days of eclosion
chip antibody: H3K4me3 (Abcam, ab8580)
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| Growth protocol |
Fruit flies were grown at 25⁰C on standard medium.
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| Extracted molecule |
genomic DNA |
| Extraction protocol |
Testes were dissected in cold PBS, fixed, sonicated, and clarified lysates were used for ChIP with specific antibodies.
Libraries were prepared with the NEXTflex ChIPseq Kit (Bioo Scientific) according to manufacturer's suggestions.
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| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2000 |
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| Data processing |
Fastq files were applied to Fastqc to ensure quality control.
Fastq files were mapped to the D. melanogaster genome using bowtie with default parameters.
Mapped reads were converted to BAM files using SAMTOOLS.
Peaks were called using MACS at MFOLD (3, 30) and p=1x10^(-3).
Genome_build: dm3 (Release 5)
Supplementary_files_format_and_content: wig files were generated using MACS.
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| Submission date |
May 16, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Shu Yuan Yang |
| E-mail(s) |
[email protected]
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| Organization name |
Chang Gung University
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| Street address |
Wenhua 1st Rd, No. 259
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| City |
Kweishan, Taoyuan |
| ZIP/Postal code |
333 |
| Country |
Taiwan |
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| Platform ID |
GPL13304 |
| Series (2) |
| GSE98967 |
H3K4me2 and H3K4me3 profiles in the undifferentiated male germline |
| GSE98968 |
Transcriptome analysis of bam- vs. Phf7-,bam- mutant testes, and H3K4me2 and H3K4me3 profiles in the undifferentiated male germline |
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| Relations |
| BioSample |
SAMN07133029 |
| SRA |
SRX2829101 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM2629339_TK3R2pe3_treat_afterfiting_all.wig.gz |
19.0 Mb |
(ftp)(http) |
WIG |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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