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Reference Epigenome: ChIP-Seq Analysis of H2AK5ac in IMR90 Cells
ChIP-Seq Analysis of H2AK5ac in IMR90 cells. Sequencing was done on the Illumina GAII platform.
Project News:
2010/3/1: EXPERIMENT XML file 'renlab.H2AK5ac.IMR90-01.01.experiment.xml' uploaded
alias: renlab.H2AK5ac.IMR90-01.01
expected_number_runs: 1 expected_number_spots: 18362058 expected_number_reads: 18362058 center_name: UCSD STUDY_REF: The San Diego Epigenome Center SAMPLE_DESCRIPTOR: IMR90-02 LIBRARY LIBRARY_NAME: YL20 LIBRARY_STRATEGY: ChIP-Seq LIBRARY_SOURCE: GENOMIC LIBRARY_SELECTION: ChIP LIBRARY_LAYOUT: SINGLE LIBRARY_CONSTRUCTION_PROTOCOL: See http://bioinformatics-renlab.ucsd.edu/RenLabLibraryProtocolV1.pdf SPOT NUMBER_OF_READS_PER_SPOT: 1 READ_INDEX: 0 READ_CLASS: Application Read READ_TYPE: Forward BASE_COORD: 1 PLATFORM ILLUMINA INSTRUMENT_MODEL: Illumina Genome Analyzer II CYCLE_SEQUENCE: ACGT CYCLE_COUNT: 36 BASE CALLS SEQUENCE_SPACE: Base Space BASE_CALLER: Illumina Genome Analyzer Pipeline Software version 1.3.2 QUALITY SCORES Quality Type: phred QUALITY_SCORER: Illumina Genome Analyzer Pipeline Software version 1.3.2 NUMBER_OF_LEVELS: 80 MULTIPLIER: 1 ATTRIBUTES EXPERIMENT_TYPE: Histone H2AK5ac EXTRACTION_PROTOCOL: See http://bioinformatics-renlab.ucsd.edu/RenLabChipProtocolV1.pdf EXTRACTION_PROTOCOL_TYPE_OF_SONICATOR: Biorupter EXTRACTION_PROTOCOL_SONICATION_CYCLES: 80 CHIP_PROTOCOL: See http://bioinformatics-renlab.ucsd.edu/RenLabChipProtocolV1.pdf CHIP_PROTOCOL_CHROMATIN_AMOUNT: 500 micrograms CHIP_PROTOCOL_BEAD_TYPE: magnetic anti-rabbit CHIP_PROTOCOL_BEAD_AMOUNT: 33,500,000 CHIP_PROTOCOL_ANTIBODY_AMOUNT: 5 micrograms CHIP_ANTIBODY: H2AK5ac CHIP_ANTIBODY_PROVIDER: Abcam CHIP_ANTIBODY_CATALOG: ab45152 CHIP_ANTIBODY_LOT: 496800 |
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