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Reference Epigenome: ChIP-Seq Input from IMR90 Cells
ChIP-Seq Input from IMR90 Cells. Sequencing was done on the Illumina GAII platform.


Project News:
2010/3/2:
EXPERIMENT XML file 'renlab.Input.IMR90-01.01.experiment.xml' uploaded



alias: renlab.Input.IMR90-01.01
expected_number_runs: 3
expected_number_spots: 27157958
expected_number_reads: 27157958
center_name: UCSD

STUDY_REF: The San Diego Epigenome Center
SAMPLE_DESCRIPTOR: IMR90_r1

LIBRARY
LIBRARY_NAME: LL-I1
LIBRARY_STRATEGY: ChIP-Seq
LIBRARY_SOURCE: GENOMIC
LIBRARY_SELECTION: RANDOM
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: ChIP-Seq Input
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: Input
CHIP_PROTOCOL_CHROMATIN_AMOUNT: 500 micrograms

 

 


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