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Reference Epigenome: ChIP-Seq Analysis of H3K4me1 in hESC H1 Cells
ChIP-Seq Analysis of H3K4me1 in hESC cells. Sequencing was done on the Illumina GAI platform.
Project News:
2009/10/27: EXPERIMENT XML file 'renlab.H3K4me1.hESC-01.01.experiment.xml' uploaded
alias: renlab.H3K4me1.hESC-01.01
expected_number_runs: 1 expected_number_spots: 7808234 expected_number_reads: 7808234 center_name: UCSD STUDY_REF: The San Diego Epigenome Center SAMPLE_DESCRIPTOR: hESC-01 LIBRARY LIBRARY_NAME: LL311 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 SPOT_DECODE_SPEC: 1 0 Application Read Forward 1 PLATFORM ILLUMINA INSTRUMENT_MODEL: Illumina Genome Analyzer CYCLE_SEQUENCE: ACGT CYCLE_COUNT: 36 BASE CALLS SEQUENCE_SPACE: Base Space BASE_CALLER: Illumina Genome Analyzer Pipeline Software version 0.3 QUALITY SCORES Quality Type: phred QUALITY_SCORER: Illumina Genome Analyzer Pipeline Software version 0.3 NUMBER_OF_LEVELS: 80 MULTIPLIER: 1 ATTRIBUTES EXPERIMENT_TYPE: Histone H3K4me1 EXTRACTION_PROTOCOL: See http://bioinformatics-renlab.ucsd.edu/RenLabChipProtocolV1.pdf EXTRACTION_PROTOCOL_TYPE_OF_SONICATOR: Branson Tip Sonicator EXTRACTION_PROTOCOL_SONICATION_CYCLES: 30 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: H3K4me1 CHIP_ANTIBODY_PROVIDER: Upstate CHIP_ANTIBODY_CATALOG: 07-436 CHIP_ANTIBODY_LOT: DAM1400139 |
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