title: Chromatin accessibility assay of Fetal Muscle, Back; DS20244

description:
sample_term_id: UBERON_0002324
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS20244
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11497
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11496
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878655_UW.Fetal_Muscle_Back.ChromatinAccessibility.H-24409.DS20244.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS20244.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fetal Muscle Back Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fetal Muscle Back, Donor H-24409, Library DS20244 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12744
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 37,142,481
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.4541
FINDPEAKS_PERCENTILE: 57
HOTSPOT_SCORE: 0.4402
HOTSPOT_PERCENTILE: 55
IROC_SCORE: 0.9939
IROC_PERCENTILE: 48
POISSON_SCORE: 0.4912
POISSON_PERCENTILE: 53
MAXIMUM_REPLICATE_CORRELATION: 0.99

**********************************************************************

ANALYSIS FILE NAME: GSM878655_UW.Fetal_Muscle_Back.ChromatinAccessibility.H-24409.DS20244.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS20244.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fetal Muscle Back Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fetal Muscle Back, Donor H-24409, Library DS20244 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12802
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FMB DNase 09 44
BROWSER_TRACK_DESCRIPTION: UW Fetal Muscle Back DNase Hypersensitivity Donor H-24409 Library DS20244 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 37,142,481
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.4541
FINDPEAKS_PERCENTILE: 57
HOTSPOT_SCORE: 0.4402
HOTSPOT_PERCENTILE: 55
IROC_SCORE: 0.9939
IROC_PERCENTILE: 48
POISSON_SCORE: 0.4912
POISSON_PERCENTILE: 53
MAXIMUM_REPLICATE_CORRELATION: 0.99

**********************************************************************

source_name: Fetal Muscle, Back primary tissue, day 113; DS20244

value: Fetal Muscle, Back

value: fetal

value: Female

value: Chromatin Accessibility


title: miRNA_GFP_minus

status: Public on Feb 28 2012

type: SRA

city: Worcester

first: Abirami

last: Lakshmanan

state: Massachusetts

address: 55 Lake Avenue North

department: PGFE

country: USA

institute: Umass Medical School

description:
whole
microRNA

library_source: transcriptomic

data_processing: The standard Illumina pipeline was applied for base calls and quality scoring; sequence tags were subsequently analyzed using miR-Deep2.

molecule: total RNA

organism: Danio rerio

source_name: whole zebrafish embryos at 24 hpf

extract_protocol: Small RNAs were isolated by polyacrylamide gel electrophoresis and ligated to RNA adapters, followed by cDNA synthesis and amplification with Illumina primers.

treatment_protocol: Tg(kdrl:egfp) embryos were dissociated at 24 hours post fertilization (hpf), followed by fluorescence-activated cell sorting to isolate GFP-positive and -negative cells.

tag: age

value: 24 hpf

tag: developmental stage

value: embryo

tag: tissue

value: whole body

tag: cell type

value: all cell types


title: Chromatin accessibility assay of Fetal Brain; DS20221

status: Public on Feb 22 2012

city: Seattle

first: Northwest

last: REMC

state: WA

institute: University of Washington

description:
sample_term_id: UBERON_0000955
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS20221
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11620
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11619
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

library_source: genomic

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878650_UW.Fetal_Brain.ChromatinAccessibility.H-24279.DS20221.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS20221.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fetal Brain Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fetal Brain, Donor H-24279, Library DS20221 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12784
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 36,163,799
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.3949
FINDPEAKS_PERCENTILE: 43
HOTSPOT_SCORE: 0.3885
HOTSPOT_PERCENTILE: 43
IROC_SCORE: 0.9902
IROC_PERCENTILE: 7
POISSON_SCORE: 0.4466
POISSON_PERCENTILE: 43
MAXIMUM_REPLICATE_CORRELATION: 0.97

**********************************************************************

ANALYSIS FILE NAME: GSM878650_UW.Fetal_Brain.ChromatinAccessibility.H-24279.DS20221.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS20221.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fetal Brain Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fetal Brain, Donor H-24279, Library DS20221 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12842
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FB DNase 79 21
BROWSER_TRACK_DESCRIPTION: UW Fetal Brain DNase Hypersensitivity Donor H-24279 Library DS20221 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 36,163,799
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.3949
FINDPEAKS_PERCENTILE: 43
HOTSPOT_SCORE: 0.3885
HOTSPOT_PERCENTILE: 43
IROC_SCORE: 0.9902
IROC_PERCENTILE: 7
POISSON_SCORE: 0.4466
POISSON_PERCENTILE: 43
MAXIMUM_REPLICATE_CORRELATION: 0.97

**********************************************************************

molecule: genomic DNA

organism: Homo sapiens

source_name: Fetal Brain primary tissue, day 101; DS20221

extract_protocol: Library construction protocol: Single read - Illumina

tag: sample alias

tag: sample common name

value: Fetal Brain

tag: molecule

value: genomic DNA

tag: disease

value: University of Washington, Congenital Defects Lab. Ian Glass

value: Primary Tissue

value: UW

value: day 101

value: Male

value: Qiagen minElut


title: Chromatin accessibility assay of Fibroblasts, Fetal Skin, Quadriceps, Left; DS20056

description:
sample_term_id: CL_0002620
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS20056
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11339
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11338
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878649_UW.Fibroblasts_Fetal_Skin_Quadriceps_Left.ChromatinAccessibility.H-24259.DS20056.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS20056.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fibroblasts Fetal Skin Quadriceps Left Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fibroblasts Fetal Skin Quadriceps Left, Donor H-24259, Library DS20056 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12748
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 50,614,734
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5165
FINDPEAKS_PERCENTILE: 79
HOTSPOT_SCORE: 0.5933
HOTSPOT_PERCENTILE: 84
IROC_SCORE: 0.9963
IROC_PERCENTILE: 71
POISSON_SCORE: 0.5937
POISSON_PERCENTILE: 83
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

ANALYSIS FILE NAME: GSM878649_UW.Fibroblasts_Fetal_Skin_Quadriceps_Left.ChromatinAccessibility.H-24259.DS20056.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS20056.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fibroblasts Fetal Skin Quadriceps Left Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fibroblasts Fetal Skin Quadriceps Left, Donor H-24259, Library DS20056 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12806
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FFSQL DNase 59 56
BROWSER_TRACK_DESCRIPTION: UW Fibroblasts Fetal Skin Quadriceps Left DNase Hypersensitivity Donor H-24259 Library DS20056 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 50,614,734
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5165
FINDPEAKS_PERCENTILE: 79
HOTSPOT_SCORE: 0.5933
HOTSPOT_PERCENTILE: 84
IROC_SCORE: 0.9963
IROC_PERCENTILE: 71
POISSON_SCORE: 0.5937
POISSON_PERCENTILE: 83
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

source_name: Fibroblasts, Fetal Skin, Quadriceps, Left, day 97 donor; DS20056

value: Primary Cell Culture

tag: markers

value: day 97

value: short term


title: Chromatin accessibility assay of Fibroblasts, Fetal Skin, Quadriceps, Left; DS20046

description:
sample_term_id: CL_0002620
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS20046
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11414
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11420
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878648_UW.Fibroblasts_Fetal_Skin_Quadriceps_Left.ChromatinAccessibility.H-24259.DS20046.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS20046.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fibroblasts Fetal Skin Quadriceps Left Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fibroblasts Fetal Skin Quadriceps Left, Donor H-24259, Library DS20046 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12765
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 48,421,425
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5497
FINDPEAKS_PERCENTILE: 88
HOTSPOT_SCORE: 0.637
HOTSPOT_PERCENTILE: 91
IROC_SCORE: 0.997
IROC_PERCENTILE: 79
POISSON_SCORE: 0.6328
POISSON_PERCENTILE: 91
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

ANALYSIS FILE NAME: GSM878648_UW.Fibroblasts_Fetal_Skin_Quadriceps_Left.ChromatinAccessibility.H-24259.DS20046.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS20046.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fibroblasts Fetal Skin Quadriceps Left Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fibroblasts Fetal Skin Quadriceps Left, Donor H-24259, Library DS20046 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12823
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FFSQL DNase 59 46
BROWSER_TRACK_DESCRIPTION: UW Fibroblasts Fetal Skin Quadriceps Left DNase Hypersensitivity Donor H-24259 Library DS20046 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 48,421,425
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5497
FINDPEAKS_PERCENTILE: 88
HOTSPOT_SCORE: 0.637
HOTSPOT_PERCENTILE: 91
IROC_SCORE: 0.997
IROC_PERCENTILE: 79
POISSON_SCORE: 0.6328
POISSON_PERCENTILE: 91
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

source_name: Fibroblasts, Fetal Skin, Quadriceps, Left, day 97 donor; DS20046


title: Chromatin accessibility assay of Fibroblasts, Fetal Skin, Abdomen; DS19558

description:
sample_term_id: CL_0002620
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19558
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11383
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11389
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878635_UW.Fibroblasts_Fetal_Skin_Abdomen.ChromatinAccessibility.H-24259.DS19558.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19558.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fibroblasts Fetal Skin Abdomen Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fibroblasts Fetal Skin Abdomen, Donor H-24259, Library DS19558 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12768
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 40,742,934
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.3612
FINDPEAKS_PERCENTILE: 29
HOTSPOT_SCORE: 0.4104
HOTSPOT_PERCENTILE: 47
IROC_SCORE: 0.996
IROC_PERCENTILE: 67
POISSON_SCORE: 0.4343
POISSON_PERCENTILE: 36
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

ANALYSIS FILE NAME: GSM878635_UW.Fibroblasts_Fetal_Skin_Abdomen.ChromatinAccessibility.H-24259.DS19558.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19558.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fibroblasts Fetal Skin Abdomen Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fibroblasts Fetal Skin Abdomen, Donor H-24259, Library DS19558 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12826
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FFSA DNase 59 58
BROWSER_TRACK_DESCRIPTION: UW Fibroblasts Fetal Skin Abdomen DNase Hypersensitivity Donor H-24259 Library DS19558 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 40,742,934
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.3612
FINDPEAKS_PERCENTILE: 29
HOTSPOT_SCORE: 0.4104
HOTSPOT_PERCENTILE: 47
IROC_SCORE: 0.996
IROC_PERCENTILE: 67
POISSON_SCORE: 0.4343
POISSON_PERCENTILE: 36
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

source_name: Fibroblasts, Fetal Skin, Abdomen, day 97 donor; DS19558

value: Fibroblasts, Fetal Skin, Abdomen


title: Chromatin accessibility assay of Fetal Muscle, Back; DS19648

description:
sample_term_id: UBERON_0002324
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19648
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11504
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11503
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878639_UW.Fetal_Muscle_Back.ChromatinAccessibility.H-24297.DS19648.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19648.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fetal Muscle Back Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fetal Muscle Back, Donor H-24297, Library DS19648 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12736
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 79,398,363
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.4494
FINDPEAKS_PERCENTILE: 53
HOTSPOT_SCORE: 0.4638
HOTSPOT_PERCENTILE: 60
IROC_SCORE: 0.9908
IROC_PERCENTILE: 12
POISSON_SCORE: 0.5283
POISSON_PERCENTILE: 66
MAXIMUM_REPLICATE_CORRELATION: 0.84

**********************************************************************

ANALYSIS FILE NAME: GSM878639_UW.Fetal_Muscle_Back.ChromatinAccessibility.H-24297.DS19648.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19648.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fetal Muscle Back Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fetal Muscle Back, Donor H-24297, Library DS19648 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12794
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FMB DNase 97 48
BROWSER_TRACK_DESCRIPTION: UW Fetal Muscle Back DNase Hypersensitivity Donor H-24297 Library DS19648 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 79,398,363
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.4494
FINDPEAKS_PERCENTILE: 53
HOTSPOT_SCORE: 0.4638
HOTSPOT_PERCENTILE: 60
IROC_SCORE: 0.9908
IROC_PERCENTILE: 12
POISSON_SCORE: 0.5283
POISSON_PERCENTILE: 66
MAXIMUM_REPLICATE_CORRELATION: 0.84

**********************************************************************

source_name: Fetal Muscle, Back primary tissue, day 104; DS19648

value: Fetal Muscle, Back

value: fetal

value: day 104

value: Chromatin Accessibility


title: Chromatin accessibility assay of Fetal Thymus; DS19287

description:
sample_term_id: UBERON_0002370
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19287
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11282
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11281
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878627_UW.Fetal_Thymus.ChromatinAccessibility.H-24259.DS19287.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19287.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fetal Thymus Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fetal Thymus, Donor H-24259, Library DS19287 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12759
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 22,879,741
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.3469
FINDPEAKS_PERCENTILE: 22
HOTSPOT_SCORE: 0.3424
HOTSPOT_PERCENTILE: 24
IROC_SCORE: 0.9929
IROC_PERCENTILE: 31
POISSON_SCORE: 0.4099
POISSON_PERCENTILE: 24
MAXIMUM_REPLICATE_CORRELATION: 0.95

**********************************************************************

ANALYSIS FILE NAME: GSM878627_UW.Fetal_Thymus.ChromatinAccessibility.H-24259.DS19287.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19287.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fetal Thymus Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fetal Thymus, Donor H-24259, Library DS19287 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12817
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FT DNase 59 87
BROWSER_TRACK_DESCRIPTION: UW Fetal Thymus DNase Hypersensitivity Donor H-24259 Library DS19287 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 22,879,741
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.3469
FINDPEAKS_PERCENTILE: 22
HOTSPOT_SCORE: 0.3424
HOTSPOT_PERCENTILE: 24
IROC_SCORE: 0.9929
IROC_PERCENTILE: 31
POISSON_SCORE: 0.4099
POISSON_PERCENTILE: 24
MAXIMUM_REPLICATE_CORRELATION: 0.95

**********************************************************************

source_name: Fetal Thymus primary tissue, day 97; DS19287

value: Fetal Thymus


title: Chromatin accessibility assay of Fetal Muscle, Arm; DS19646

description:
sample_term_id: UBERON_0001499
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19646
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11526
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11525
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878638_UW.Fetal_Muscle_Arm.ChromatinAccessibility.H-24297.DS19646.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19646.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fetal Muscle Arm Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fetal Muscle Arm, Donor H-24297, Library DS19646 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12753
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 29,651,640
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.3658
FINDPEAKS_PERCENTILE: 34
HOTSPOT_SCORE: 0.351
HOTSPOT_PERCENTILE: 31
IROC_SCORE: 0.9918
IROC_PERCENTILE: 24
POISSON_SCORE: 0.4248
POISSON_PERCENTILE: 31
MAXIMUM_REPLICATE_CORRELATION: 0.98

**********************************************************************

ANALYSIS FILE NAME: GSM878638_UW.Fetal_Muscle_Arm.ChromatinAccessibility.H-24297.DS19646.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19646.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fetal Muscle Arm Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fetal Muscle Arm, Donor H-24297, Library DS19646 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12811
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FMA DNase 97 46
BROWSER_TRACK_DESCRIPTION: UW Fetal Muscle Arm DNase Hypersensitivity Donor H-24297 Library DS19646 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 29,651,640
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.3658
FINDPEAKS_PERCENTILE: 34
HOTSPOT_SCORE: 0.351
HOTSPOT_PERCENTILE: 31
IROC_SCORE: 0.9918
IROC_PERCENTILE: 24
POISSON_SCORE: 0.4248
POISSON_PERCENTILE: 31
MAXIMUM_REPLICATE_CORRELATION: 0.98

**********************************************************************

source_name: Fetal Muscle, Arm primary tissue, day 104; DS19646

value: Fetal Muscle, Arm


title: Chromatin accessibility assay of Fibroblasts, Fetal Skin, Upper Back; DS19706

description:
sample_term_id: CL_0002620
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19706
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11318
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11317
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878641_UW.Fibroblasts_Fetal_Skin_Upper_Back.ChromatinAccessibility.H-24259.DS19706.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19706.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fibroblasts Fetal Skin Upper Back Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fibroblasts Fetal Skin Upper Back, Donor H-24259, Library DS19706 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12752
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 44,827,155
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5604
FINDPEAKS_PERCENTILE: 91
HOTSPOT_SCORE: 0.6592
HOTSPOT_PERCENTILE: 98
IROC_SCORE: 0.9978
IROC_PERCENTILE: 93
POISSON_SCORE: 0.6581
POISSON_PERCENTILE: 100
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

ANALYSIS FILE NAME: GSM878641_UW.Fibroblasts_Fetal_Skin_Upper_Back.ChromatinAccessibility.H-24259.DS19706.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19706.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fibroblasts Fetal Skin Upper Back Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fibroblasts Fetal Skin Upper Back, Donor H-24259, Library DS19706 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12810
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FFSUB DNase 59 06
BROWSER_TRACK_DESCRIPTION: UW Fibroblasts Fetal Skin Upper Back DNase Hypersensitivity Donor H-24259 Library DS19706 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 44,827,155
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5604
FINDPEAKS_PERCENTILE: 91
HOTSPOT_SCORE: 0.6592
HOTSPOT_PERCENTILE: 98
IROC_SCORE: 0.9978
IROC_PERCENTILE: 93
POISSON_SCORE: 0.6581
POISSON_PERCENTILE: 100
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

source_name: Fibroblasts, Fetal Skin, Upper Back, day 97 donor; DS19706

value: Fibroblasts, Fetal Skin, Upper Back

value: genomic DNA


title: Chromatin accessibility assay of Fetal Muscle, Back; DS19441

description:
sample_term_id: UBERON_0002324
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19441
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11515
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11514
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878632_UW.Fetal_Muscle_Back.ChromatinAccessibility.H-24279.DS19441.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19441.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fetal Muscle Back Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fetal Muscle Back, Donor H-24279, Library DS19441 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12763
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 28,807,004
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.4715
FINDPEAKS_PERCENTILE: 64
HOTSPOT_SCORE: 0.4581
HOTSPOT_PERCENTILE: 57
IROC_SCORE: 0.9949
IROC_PERCENTILE: 60
POISSON_SCORE: 0.5216
POISSON_PERCENTILE: 59
MAXIMUM_REPLICATE_CORRELATION: 0.99

**********************************************************************

ANALYSIS FILE NAME: GSM878632_UW.Fetal_Muscle_Back.ChromatinAccessibility.H-24279.DS19441.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19441.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fetal Muscle Back Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fetal Muscle Back, Donor H-24279, Library DS19441 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12821
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FMB DNase 79 41
BROWSER_TRACK_DESCRIPTION: UW Fetal Muscle Back DNase Hypersensitivity Donor H-24279 Library DS19441 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 28,807,004
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.4715
FINDPEAKS_PERCENTILE: 64
HOTSPOT_SCORE: 0.4581
HOTSPOT_PERCENTILE: 57
IROC_SCORE: 0.9949
IROC_PERCENTILE: 60
POISSON_SCORE: 0.5216
POISSON_PERCENTILE: 59
MAXIMUM_REPLICATE_CORRELATION: 0.99

**********************************************************************

source_name: Fetal Muscle, Back primary tissue, day 101; DS19441

value: University of Washington, Congenital Defects Lab. Ian Glass

value: Primary Tissue


title: Chromatin accessibility assay of Fibroblasts, Fetal Skin, Scalp; DS19444

description:
sample_term_id: CL_0002620
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19444
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11427
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11432
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878633_UW.Fibroblasts_Fetal_Skin_Scalp.ChromatinAccessibility.H-24259.DS19444.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19444.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fibroblasts Fetal Skin Scalp Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fibroblasts Fetal Skin Scalp, Donor H-24259, Library DS19444 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12770
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 30,661,877
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5236
FINDPEAKS_PERCENTILE: 83
HOTSPOT_SCORE: 0.6209
HOTSPOT_PERCENTILE: 90
IROC_SCORE: 0.9978
IROC_PERCENTILE: 93
POISSON_SCORE: 0.611
POISSON_PERCENTILE: 88
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

ANALYSIS FILE NAME: GSM878633_UW.Fibroblasts_Fetal_Skin_Scalp.ChromatinAccessibility.H-24259.DS19444.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19444.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fibroblasts Fetal Skin Scalp Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fibroblasts Fetal Skin Scalp, Donor H-24259, Library DS19444 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12828
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FFSS DNase 59 44
BROWSER_TRACK_DESCRIPTION: UW Fibroblasts Fetal Skin Scalp DNase Hypersensitivity Donor H-24259 Library DS19444 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 30,661,877
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5236
FINDPEAKS_PERCENTILE: 83
HOTSPOT_SCORE: 0.6209
HOTSPOT_PERCENTILE: 90
IROC_SCORE: 0.9978
IROC_PERCENTILE: 93
POISSON_SCORE: 0.611
POISSON_PERCENTILE: 88
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

source_name: Fibroblasts, Fetal Skin, Scalp, day 97 donor; DS19444

value: Fibroblasts, Fetal Skin, Scalp


title: Chromatin accessibility assay of Fibroblasts, Fetal Skin, Biceps, Right; DS19761

description:
sample_term_id: CL_0002620
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19761
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11346
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11345
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878643_UW.Fibroblasts_Fetal_Skin_Biceps_Right.ChromatinAccessibility.H-24259.DS19761.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19761.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fibroblasts Fetal Skin Biceps Right Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fibroblasts Fetal Skin Biceps Right, Donor H-24259, Library DS19761 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12769
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 42,246,925
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5106
FINDPEAKS_PERCENTILE: 76
HOTSPOT_SCORE: 0.5975
HOTSPOT_PERCENTILE: 86
IROC_SCORE: 0.9971
IROC_PERCENTILE: 84
POISSON_SCORE: 0.5906
POISSON_PERCENTILE: 79
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

ANALYSIS FILE NAME: GSM878643_UW.Fibroblasts_Fetal_Skin_Biceps_Right.ChromatinAccessibility.H-24259.DS19761.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19761.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fibroblasts Fetal Skin Biceps Right Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fibroblasts Fetal Skin Biceps Right, Donor H-24259, Library DS19761 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12827
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FFSBR DNase 59 61
BROWSER_TRACK_DESCRIPTION: UW Fibroblasts Fetal Skin Biceps Right DNase Hypersensitivity Donor H-24259 Library DS19761 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 42,246,925
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5106
FINDPEAKS_PERCENTILE: 76
HOTSPOT_SCORE: 0.5975
HOTSPOT_PERCENTILE: 86
IROC_SCORE: 0.9971
IROC_PERCENTILE: 84
POISSON_SCORE: 0.5906
POISSON_PERCENTILE: 79
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

source_name: Fibroblasts, Fetal Skin, Biceps, Right, day 97 donor; DS19761

value: Fibroblasts, Fetal Skin, Biceps, Right

value: Male


title: Chromatin accessibility assay of Fibroblasts, Fetal Skin, Upper Back; DS19696

description:
sample_term_id: CL_0002620
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19696
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11377
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11382
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878640_UW.Fibroblasts_Fetal_Skin_Upper_Back.ChromatinAccessibility.H-24259.DS19696.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19696.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fibroblasts Fetal Skin Upper Back Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fibroblasts Fetal Skin Upper Back, Donor H-24259, Library DS19696 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12743
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 32,169,836
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.4643
FINDPEAKS_PERCENTILE: 59
HOTSPOT_SCORE: 0.5427
HOTSPOT_PERCENTILE: 71
IROC_SCORE: 0.9971
IROC_PERCENTILE: 84
POISSON_SCORE: 0.5354
POISSON_PERCENTILE: 69
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

ANALYSIS FILE NAME: GSM878640_UW.Fibroblasts_Fetal_Skin_Upper_Back.ChromatinAccessibility.H-24259.DS19696.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19696.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fibroblasts Fetal Skin Upper Back Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fibroblasts Fetal Skin Upper Back, Donor H-24259, Library DS19696 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12801
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FFSUB DNase 59 96
BROWSER_TRACK_DESCRIPTION: UW Fibroblasts Fetal Skin Upper Back DNase Hypersensitivity Donor H-24259 Library DS19696 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 32,169,836
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.4643
FINDPEAKS_PERCENTILE: 59
HOTSPOT_SCORE: 0.5427
HOTSPOT_PERCENTILE: 71
IROC_SCORE: 0.9971
IROC_PERCENTILE: 84
POISSON_SCORE: 0.5354
POISSON_PERCENTILE: 69
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

source_name: Fibroblasts, Fetal Skin, Upper Back, day 97 donor; DS19696

value: Primary Cell Culture

value: Qiagen minElut


title: Chromatin accessibility assay of Fetal Muscle, Leg; DS19436

description:
sample_term_id: UBERON_0001383
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19436
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11468
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11467
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878631_UW.Fetal_Muscle_Leg.ChromatinAccessibility.H-24279.DS19436.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19436.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fetal Muscle Leg Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fetal Muscle Leg, Donor H-24279, Library DS19436 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12771
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 38,193,162
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.4924
FINDPEAKS_PERCENTILE: 71
HOTSPOT_SCORE: 0.4802
HOTSPOT_PERCENTILE: 64
IROC_SCORE: 0.9942
IROC_PERCENTILE: 55
POISSON_SCORE: 0.5276
POISSON_PERCENTILE: 64
MAXIMUM_REPLICATE_CORRELATION: 0.99

**********************************************************************

ANALYSIS FILE NAME: GSM878631_UW.Fetal_Muscle_Leg.ChromatinAccessibility.H-24279.DS19436.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19436.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fetal Muscle Leg Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fetal Muscle Leg, Donor H-24279, Library DS19436 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12829
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FML DNase 79 36
BROWSER_TRACK_DESCRIPTION: UW Fetal Muscle Leg DNase Hypersensitivity Donor H-24279 Library DS19436 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 38,193,162
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.4924
FINDPEAKS_PERCENTILE: 71
HOTSPOT_SCORE: 0.4802
HOTSPOT_PERCENTILE: 64
IROC_SCORE: 0.9942
IROC_PERCENTILE: 55
POISSON_SCORE: 0.5276
POISSON_PERCENTILE: 64
MAXIMUM_REPLICATE_CORRELATION: 0.99

**********************************************************************

source_name: Fetal Muscle, Leg primary tissue, day 101; DS19436

value: Fetal Muscle, Leg

value: UW

value: day 101


title: Chromatin accessibility assay of Fetal Muscle, Leg; DS19643

description:
sample_term_id: UBERON_0001383
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19643
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11462
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11461
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878637_UW.Fetal_Muscle_Leg.ChromatinAccessibility.H-24297.DS19643.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19643.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fetal Muscle Leg Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fetal Muscle Leg, Donor H-24297, Library DS19643 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12772
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 31,605,298
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.4712
FINDPEAKS_PERCENTILE: 62
HOTSPOT_SCORE: 0.4594
HOTSPOT_PERCENTILE: 59
IROC_SCORE: 0.9935
IROC_PERCENTILE: 43
POISSON_SCORE: 0.5176
POISSON_PERCENTILE: 57
MAXIMUM_REPLICATE_CORRELATION: 0.97

**********************************************************************

ANALYSIS FILE NAME: GSM878637_UW.Fetal_Muscle_Leg.ChromatinAccessibility.H-24297.DS19643.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19643.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fetal Muscle Leg Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fetal Muscle Leg, Donor H-24297, Library DS19643 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12830
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FML DNase 97 43
BROWSER_TRACK_DESCRIPTION: UW Fetal Muscle Leg DNase Hypersensitivity Donor H-24297 Library DS19643 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 31,605,298
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.4712
FINDPEAKS_PERCENTILE: 62
HOTSPOT_SCORE: 0.4594
HOTSPOT_PERCENTILE: 59
IROC_SCORE: 0.9935
IROC_PERCENTILE: 43
POISSON_SCORE: 0.5176
POISSON_PERCENTILE: 57
MAXIMUM_REPLICATE_CORRELATION: 0.97

**********************************************************************

source_name: Fetal Muscle, Leg primary tissue, day 104; DS19643

value: fetal


title: Chromatin accessibility assay of Fibroblasts, Fetal Skin, Biceps, Right; DS19745

description:
sample_term_id: CL_0002620
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19745
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11407
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11413
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878642_UW.Fibroblasts_Fetal_Skin_Biceps_Right.ChromatinAccessibility.H-24259.DS19745.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19745.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fibroblasts Fetal Skin Biceps Right Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fibroblasts Fetal Skin Biceps Right, Donor H-24259, Library DS19745 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12751
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 26,814,696
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5737
FINDPEAKS_PERCENTILE: 97
HOTSPOT_SCORE: 0.6568
HOTSPOT_PERCENTILE: 97
IROC_SCORE: 0.9984
IROC_PERCENTILE: 100
POISSON_SCORE: 0.6427
POISSON_PERCENTILE: 97
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

ANALYSIS FILE NAME: GSM878642_UW.Fibroblasts_Fetal_Skin_Biceps_Right.ChromatinAccessibility.H-24259.DS19745.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19745.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fibroblasts Fetal Skin Biceps Right Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fibroblasts Fetal Skin Biceps Right, Donor H-24259, Library DS19745 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12809
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FFSBR DNase 59 45
BROWSER_TRACK_DESCRIPTION: UW Fibroblasts Fetal Skin Biceps Right DNase Hypersensitivity Donor H-24259 Library DS19745 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 26,814,696
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5737
FINDPEAKS_PERCENTILE: 97
HOTSPOT_SCORE: 0.6568
HOTSPOT_PERCENTILE: 97
IROC_SCORE: 0.9984
IROC_PERCENTILE: 100
POISSON_SCORE: 0.6427
POISSON_PERCENTILE: 97
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

source_name: Fibroblasts, Fetal Skin, Biceps, Right, day 97 donor; DS19745

value: day 97

value: short term


title: Chromatin accessibility assay of Fibroblasts, Fetal Skin, Scalp; DS19449

description:
sample_term_id: CL_0002620
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19449
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11326
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11325
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878634_UW.Fibroblasts_Fetal_Skin_Scalp.ChromatinAccessibility.H-24259.DS19449.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19449.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fibroblasts Fetal Skin Scalp Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fibroblasts Fetal Skin Scalp, Donor H-24259, Library DS19449 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12773
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 32,298,418
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5681
FINDPEAKS_PERCENTILE: 95
HOTSPOT_SCORE: 0.6701
HOTSPOT_PERCENTILE: 100
IROC_SCORE: 0.9981
IROC_PERCENTILE: 97
POISSON_SCORE: 0.6519
POISSON_PERCENTILE: 98
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

ANALYSIS FILE NAME: GSM878634_UW.Fibroblasts_Fetal_Skin_Scalp.ChromatinAccessibility.H-24259.DS19449.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19449.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fibroblasts Fetal Skin Scalp Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fibroblasts Fetal Skin Scalp, Donor H-24259, Library DS19449 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12831
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FFSS DNase 59 49
BROWSER_TRACK_DESCRIPTION: UW Fibroblasts Fetal Skin Scalp DNase Hypersensitivity Donor H-24259 Library DS19449 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 32,298,418
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5681
FINDPEAKS_PERCENTILE: 95
HOTSPOT_SCORE: 0.6701
HOTSPOT_PERCENTILE: 100
IROC_SCORE: 0.9981
IROC_PERCENTILE: 97
POISSON_SCORE: 0.6519
POISSON_PERCENTILE: 98
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

source_name: Fibroblasts, Fetal Skin, Scalp, day 97 donor; DS19449

value: Chromatin Accessibility


title: Chromatin accessibility assay of H1 BMP4 Derived Trophoblast Cultured Cells; DS19317

description:
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19317
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11234
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUCSD%2FSAMPLE%2FEDACC.7847
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878628_UW.H1_BMP4_Derived_Trophoblast_Cultured_Cells.ChromatinAccessibility.DS19317.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19317.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of H1 BMP4 Derived Trophoblast Cultured Cells Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on the H1 BMP4 Derived Trophoblast Cultured Cells, Library DS19317 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12790
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 34,844,532
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.2041
FINDPEAKS_PERCENTILE: 10
HOTSPOT_SCORE: 0.2534
HOTSPOT_PERCENTILE: 10
IROC_SCORE: 0.9932
IROC_PERCENTILE: 40
POISSON_SCORE: 0.2937
POISSON_PERCENTILE: 9
MAXIMUM_REPLICATE_CORRELATION: 0.99

**********************************************************************

ANALYSIS FILE NAME: GSM878628_UW.H1_BMP4_Derived_Trophoblast_Cultured_Cells.ChromatinAccessibility.DS19317.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19317.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of H1 BMP4 Derived Trophoblast Cultured Cells Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  the H1 BMP4 Derived Trophoblast Cultured Cells, Library DS19317 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12848
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: HBDT DNase 17
BROWSER_TRACK_DESCRIPTION: UW H1 BMP4 Derived Trophoblast Cultured Cells DNase Hypersensitivity Library DS19317 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 34,844,532
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.2041
FINDPEAKS_PERCENTILE: 10
HOTSPOT_SCORE: 0.2534
HOTSPOT_PERCENTILE: 10
IROC_SCORE: 0.9932
IROC_PERCENTILE: 40
POISSON_SCORE: 0.2937
POISSON_PERCENTILE: 9
MAXIMUM_REPLICATE_CORRELATION: 0.99

**********************************************************************

source_name: Human embryonic stem cells received from the James Thomson laboratory.  Cells are from the H1 line and are differentiated into trophoblast by treatment with BMP4.; DS19317

value: James Thomson Laboratory

value: Cell Line

tag: line

tag: lineage

value: Embryonic Stem Cell

value: Embryonic stem cell differentiated into trophoblast by treatment with BMP4

value: H1 cells were cultured in mTeSR1 medium without bFGF containing 50ng/mL BMP4 for 5 days

tag: passage

tag: medium

tag: Sex

tag: batch


title: Chromatin accessibility assay of Fetal Renal Cortex; DS19388

description:
sample_term_id: UBERON_0001225
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19388
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11589
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11588
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878629_UW.Fetal_Renal_Cortex.ChromatinAccessibility.H-24259.DS19388.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19388.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fetal Renal Cortex Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fetal Renal Cortex, Donor H-24259, Library DS19388 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12781
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 21,701,339
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5603
FINDPEAKS_PERCENTILE: 90
HOTSPOT_SCORE: 0.5559
HOTSPOT_PERCENTILE: 76
IROC_SCORE: 0.9956
IROC_PERCENTILE: 64
POISSON_SCORE: 0.6068
POISSON_PERCENTILE: 86
MAXIMUM_REPLICATE_CORRELATION: 0.96

**********************************************************************

ANALYSIS FILE NAME: GSM878629_UW.Fetal_Renal_Cortex.ChromatinAccessibility.H-24259.DS19388.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19388.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fetal Renal Cortex Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fetal Renal Cortex, Donor H-24259, Library DS19388 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12839
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FRC DNase 59 88
BROWSER_TRACK_DESCRIPTION: UW Fetal Renal Cortex DNase Hypersensitivity Donor H-24259 Library DS19388 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 21,701,339
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5603
FINDPEAKS_PERCENTILE: 90
HOTSPOT_SCORE: 0.5559
HOTSPOT_PERCENTILE: 76
IROC_SCORE: 0.9956
IROC_PERCENTILE: 64
POISSON_SCORE: 0.6068
POISSON_PERCENTILE: 86
MAXIMUM_REPLICATE_CORRELATION: 0.96

**********************************************************************

source_name: Fetal Kidney, renal, cortex primary tissue, day 97; DS19388

value: Fetal Renal Cortex

value: genomic DNA

value: University of Washington, Congenital Defects Lab. Ian Glass

value: Primary Tissue


title: Chromatin accessibility assay of Fetal Muscle, Leg; DS19272

description:
sample_term_id: UBERON_0001383
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19272
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11475
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11474
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878626_UW.Fetal_Muscle_Leg.ChromatinAccessibility.H-24244.DS19272.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19272.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fetal Muscle Leg Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fetal Muscle Leg, Donor H-24244, Library DS19272 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12782
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 46,358,411
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5132
FINDPEAKS_PERCENTILE: 78
HOTSPOT_SCORE: 0.4963
HOTSPOT_PERCENTILE: 67
IROC_SCORE: 0.994
IROC_PERCENTILE: 50
POISSON_SCORE: 0.5493
POISSON_PERCENTILE: 72
MAXIMUM_REPLICATE_CORRELATION: 0.99

**********************************************************************

ANALYSIS FILE NAME: GSM878626_UW.Fetal_Muscle_Leg.ChromatinAccessibility.H-24244.DS19272.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19272.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fetal Muscle Leg Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fetal Muscle Leg, Donor H-24244, Library DS19272 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12840
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FML DNase 44 72
BROWSER_TRACK_DESCRIPTION: UW Fetal Muscle Leg DNase Hypersensitivity Donor H-24244 Library DS19272 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 46,358,411
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5132
FINDPEAKS_PERCENTILE: 78
HOTSPOT_SCORE: 0.4963
HOTSPOT_PERCENTILE: 67
IROC_SCORE: 0.994
IROC_PERCENTILE: 50
POISSON_SCORE: 0.5493
POISSON_PERCENTILE: 72
MAXIMUM_REPLICATE_CORRELATION: 0.99

**********************************************************************

source_name: Fetal Muscle, Leg primary tissue, day 96; DS19272

value: day 96

value: Male

value: Qiagen minElut


title: Chromatin accessibility assay of Fibroblasts, Fetal Skin, Quadriceps, Right; DS19948

description:
sample_term_id: CL_0002620
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19948
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11332
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11331
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878647_UW.Fibroblasts_Fetal_Skin_Quadriceps_Right.ChromatinAccessibility.H-24259.DS19948.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19948.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fibroblasts Fetal Skin Quadriceps Right Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fibroblasts Fetal Skin Quadriceps Right, Donor H-24259, Library DS19948 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12741
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 54,270,714
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.4669
FINDPEAKS_PERCENTILE: 60
HOTSPOT_SCORE: 0.5159
HOTSPOT_PERCENTILE: 69
IROC_SCORE: 0.9964
IROC_PERCENTILE: 72
POISSON_SCORE: 0.5256
POISSON_PERCENTILE: 62
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

ANALYSIS FILE NAME: GSM878647_UW.Fibroblasts_Fetal_Skin_Quadriceps_Right.ChromatinAccessibility.H-24259.DS19948.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19948.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fibroblasts Fetal Skin Quadriceps Right Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fibroblasts Fetal Skin Quadriceps Right, Donor H-24259, Library DS19948 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12799
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FFSQR DNase 59 48
BROWSER_TRACK_DESCRIPTION: UW Fibroblasts Fetal Skin Quadriceps Right DNase Hypersensitivity Donor H-24259 Library DS19948 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 54,270,714
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.4669
FINDPEAKS_PERCENTILE: 60
HOTSPOT_SCORE: 0.5159
HOTSPOT_PERCENTILE: 69
IROC_SCORE: 0.9964
IROC_PERCENTILE: 72
POISSON_SCORE: 0.5256
POISSON_PERCENTILE: 62
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

source_name: Fibroblasts, Fetal Skin, Quadriceps, Right, day 97 donor; DS19948

value: Primary Cell Culture


title: Chromatin accessibility assay of Fibroblasts, Fetal Skin, Quadriceps, Right; DS19943

description:
sample_term_id: CL_0002620
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19943
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11421
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11426
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878646_UW.Fibroblasts_Fetal_Skin_Quadriceps_Right.ChromatinAccessibility.H-24259.DS19943.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19943.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fibroblasts Fetal Skin Quadriceps Right Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fibroblasts Fetal Skin Quadriceps Right, Donor H-24259, Library DS19943 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12739
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 35,321,851
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.4814
FINDPEAKS_PERCENTILE: 66
HOTSPOT_SCORE: 0.5499
HOTSPOT_PERCENTILE: 72
IROC_SCORE: 0.9971
IROC_PERCENTILE: 84
POISSON_SCORE: 0.5464
POISSON_PERCENTILE: 71
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

ANALYSIS FILE NAME: GSM878646_UW.Fibroblasts_Fetal_Skin_Quadriceps_Right.ChromatinAccessibility.H-24259.DS19943.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19943.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fibroblasts Fetal Skin Quadriceps Right Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fibroblasts Fetal Skin Quadriceps Right, Donor H-24259, Library DS19943 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12797
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FFSQR DNase 59 43
BROWSER_TRACK_DESCRIPTION: UW Fibroblasts Fetal Skin Quadriceps Right DNase Hypersensitivity Donor H-24259 Library DS19943 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 35,321,851
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.4814
FINDPEAKS_PERCENTILE: 66
HOTSPOT_SCORE: 0.5499
HOTSPOT_PERCENTILE: 72
IROC_SCORE: 0.9971
IROC_PERCENTILE: 84
POISSON_SCORE: 0.5464
POISSON_PERCENTILE: 71
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

source_name: Fibroblasts, Fetal Skin, Quadriceps, Right, day 97 donor; DS19943


title: Chromatin accessibility assay of Fibroblasts, Fetal Skin, Back; DS19174

description:
sample_term_id: CL_0002620
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19174
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11390
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11399
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878623_UW.Fibroblasts_Fetal_Skin_Back.ChromatinAccessibility.H-24218.DS19174.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19174.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fibroblasts Fetal Skin Back Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fibroblasts Fetal Skin Back, Donor H-24218, Library DS19174 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12785
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 34,549,420
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5373
FINDPEAKS_PERCENTILE: 86
HOTSPOT_SCORE: 0.6388
HOTSPOT_PERCENTILE: 95
IROC_SCORE: 0.9982
IROC_PERCENTILE: 98
POISSON_SCORE: 0.6329
POISSON_PERCENTILE: 93
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

ANALYSIS FILE NAME: GSM878623_UW.Fibroblasts_Fetal_Skin_Back.ChromatinAccessibility.H-24218.DS19174.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19174.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fibroblasts Fetal Skin Back Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fibroblasts Fetal Skin Back, Donor H-24218, Library DS19174 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12843
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FFSB DNase 59 74
BROWSER_TRACK_DESCRIPTION: UW Fibroblasts Fetal Skin Back DNase Hypersensitivity Donor H-24218 Library DS19174 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 34,549,420
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5373
FINDPEAKS_PERCENTILE: 86
HOTSPOT_SCORE: 0.6388
HOTSPOT_PERCENTILE: 95
IROC_SCORE: 0.9982
IROC_PERCENTILE: 98
POISSON_SCORE: 0.6329
POISSON_PERCENTILE: 93
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

source_name: Fibroblasts, Fetal Skin, Back, day 96 donor; DS19174

value: Fibroblasts, Fetal Skin, Back


title: Chromatin accessibility assay of Fibroblasts, Fetal Skin, Biceps, Left; DS19867

description:
sample_term_id: CL_0002620
assay_term_id: OBI_0001853
nucleic_acid_term_id: SO_0000352
Design description: Chromatin accessibility determination via DNase-seq
Library name: DS19867
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FEXPERIMENT%2FEDACC.11354
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUniversity%20of%20Washington%2FSAMPLE%2FEDACC.11353
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************

data_processing:
**********************************************************************

ANALYSIS FILE NAME: GSM878645_UW.Fibroblasts_Fetal_Skin_Biceps_Left.ChromatinAccessibility.H-24259.DS19867.bed
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19867.hg19.level.1.release.7
ANALYSIS TITLE: Mapping of Fibroblasts Fetal Skin Biceps Left Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina reads produced by DNAse-Seq on Fibroblasts Fetal Skin Biceps Left, Donor H-24259, Library DS19867 were mapped to the human genome using Pash.
ANALYSIS TYPE: REFERENCE_ALIGNMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12774
DATA_ANALYSIS_LEVEL: 1
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: Pash
SOFTWARE_VERSION: 3.0
MAXIMUM_ALIGNMENT_LENGTH: Read length
MISMATCHES_ALLOWED: 10% of read length
ALIGNMENTS_ALLOWED: 1
TREATMENT_OF_MULTIPLE_ALIGNMENTS: If a read maps to more than 1 position it is removed from consideration.
TREATMENT_OF_IDENTICAL_ALIGNMENTS_OF_MULTIPLE_READS: None
ALIGNMENT_POSTPROCESSING: None
RELEASE_NUMBER: Human Epigenome Atlas 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 34,879,797
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5221
FINDPEAKS_PERCENTILE: 81
HOTSPOT_SCORE: 0.6021
HOTSPOT_PERCENTILE: 88
IROC_SCORE: 0.9976
IROC_PERCENTILE: 90
POISSON_SCORE: 0.591
POISSON_PERCENTILE: 81
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

ANALYSIS FILE NAME: GSM878645_UW.Fibroblasts_Fetal_Skin_Biceps_Left.ChromatinAccessibility.H-24259.DS19867.wig
ANALYSIS CENTER: EDACC
ANALYSIS ALIAS: DS19867.hg19.level.2.release.7
ANALYSIS TITLE: Raw Signal Density Graphs of Fibroblasts Fetal Skin Biceps Left Chromatin Accessibility Data
ANALYSIS DESCRIPTION: Illumina DNAse-Seq read mappings from  Fibroblasts Fetal Skin Biceps Left, Donor H-24259, Library DS19867 were processed into density graphs of raw signal representing the aligned read density.
ANALYSIS TYPE: ABUNDANCE_MEASUREMENT
EDACC Genboree Analysis Page: http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FEDACC%2FANALYSIS%2FEDACC.12832
DATA_ANALYSIS_LEVEL: 2
EXPERIMENT_TYPE: Chromatin Accessibility
GENOME_ASSEMBLY: NCBI Build GRCh37/UCSC Build hg19
SOFTWARE: In house programs and scripts
SOFTWARE_VERSION: NA
READ_EXTENSION: 0bp
GENOMIC_WINDOW: 150bp
TREATMENT_OF_REGIONS_PRONE_TO_MULTIPLE_ALIGNMENTS: None
RELEASE_NUMBER: Human Epigenome Atlas 7
BROWSER_TRACK_NAME: FFSBL DNase 59 67
BROWSER_TRACK_DESCRIPTION: UW Fibroblasts Fetal Skin Biceps Left DNase Hypersensitivity Donor H-24259 Library DS19867 EA Release 7

QUALITY SCORES:
NUMBER_OF_MAPPED_READS: 34,879,797
NUMBER_OF_CHROMATIN_ACCESSIBILITY_EXPERIMENTS_SCORED_IN_THIS_RELEASE: 58
FINDPEAKS_SCORE: 0.5221
FINDPEAKS_PERCENTILE: 81
HOTSPOT_SCORE: 0.6021
HOTSPOT_PERCENTILE: 88
IROC_SCORE: 0.9976
IROC_PERCENTILE: 90
POISSON_SCORE: 0.591
POISSON_PERCENTILE: 81
MAXIMUM_REPLICATE_CORRELATION: 1.0

**********************************************************************

source_name: Fibroblasts, Fetal Skin, Biceps, Left, day 97 donor; DS19867

value: Fibroblasts, Fetal Skin, Biceps, Left

value: day 97