Source Name	Characteristics [Organism]	Term Source REF	Term Accession Number	Characteristics [BioSourceProvider]	Comment [Sample_characteristics]	Comment [Sample_description]	Comment [Sample_source_name]	Protocol REF	Protocol REF	Protocol REF	Extract Name	Material Type	Protocol REF	Labeled Extract Name	Label	Material Type	Protocol REF	Protocol REF	Hybridization Name	Array Design REF	Comment [Array Design URI]	Protocol REF	Factor Value [BIOSOURCEPROVIDER]	Scan Name	Array Data File	Comment [ArrayExpress FTP file]	Protocol REF	Derived Array Data File	Comment [Derived ArrayExpress FTP file]
GSM249005 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Undiluted spike-in rep1	hybridized at Affymetrix	Human genomic DNA	P-GSE10114-26	  	  	GSM249005 extract 1	genomic_DNA	P-GSE10114-28	GSM249005 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249005	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249005_ASCII.CEL	GSM249005_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.1.zip	  	        	  
GSM249011 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Amplified control rep1	hybridized at Affymetrix	Human genomic DNA	P-GSE10114-27	  	  	GSM249011 extract 1	genomic_DNA	P-GSE10114-28	GSM249011 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249011	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249011_ASCII.CEL	GSM249011_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.1.zip	  	        	  
GSM249004 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Undiluted control rep3	hybridized at Affymetrix	Human genomic DNA	P-GSE10114-26	  	  	GSM249004 extract 1	genomic_DNA	P-GSE10114-28	GSM249004 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249004	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249004_ASCII.CEL	GSM249004_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.1.zip	  	        	  
GSM249002 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Undiluted control rep1	hybridized at Affymetrix	Human genomic DNA	P-GSE10114-26	  	  	GSM249002 extract 1	genomic_DNA	P-GSE10114-28	GSM249002 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249002	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249002_ASCII.CEL	GSM249002_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.1.zip	  	        	  
GSM249007 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Undiluted spike-in rep3	hybridized at Affymetrix	Human genomic DNA	P-GSE10114-27	  	  	GSM249007 extract 1	genomic_DNA	P-GSE10114-28	GSM249007 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249007	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249007_ASCII.CEL	GSM249007_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.2.zip	  	        	  
GSM249016 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Spike-in	Spike-in rep3	Human genomic DNA	P-GSE10114-26	  	  	GSM249016 extract 1	genomic_DNA	P-GSE10114-32	GSM249016 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249016	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249016_ASCII.CEL	GSM249016_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.2.zip	  	        	  
GSM249016 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Spike-in	Spike-in rep3	Human genomic DNA	P-GSE10114-26	  	  	GSM249016 extract 1	genomic_DNA	P-GSE10114-32	GSM249016 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249016	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249016.CEL	GSM249016.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.2.zip	  	        	  
GSM249015 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Spike-in	Spike-in rep2	Human genomic DNA	P-GSE10114-27	  	  	GSM249015 extract 1	genomic_DNA	P-GSE10114-32	GSM249015 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249015	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249015.CEL	GSM249015.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.2.zip	  	        	  
GSM249015 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Spike-in	Spike-in rep2	Human genomic DNA	P-GSE10114-27	  	  	GSM249015 extract 1	genomic_DNA	P-GSE10114-32	GSM249015 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249015	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249015_ASCII.CEL	GSM249015_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.2.zip	  	        	  
GSM249000 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Undiluted spike-in rep2	hybridized at Dana-Farber	Human genomic DNA	P-GSE10114-27	  	  	GSM249000 extract 1	genomic_DNA	P-GSE10114-28	GSM249000 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249000	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249000.CEL	GSM249000.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.2.zip	  	        	  
GSM249000 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Undiluted spike-in rep2	hybridized at Dana-Farber	Human genomic DNA	P-GSE10114-27	  	  	GSM249000 extract 1	genomic_DNA	P-GSE10114-28	GSM249000 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249000	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249000_ASCII.CEL	GSM249000_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.2.zip	  	        	  
GSM249008 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Amplified spike-in rep1	hybridized at Affymetrix	Human genomic DNA	P-GSE10114-27	  	  	GSM249008 extract 1	genomic_DNA	P-GSE10114-28	GSM249008 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249008	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249008_ASCII.CEL	GSM249008_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.2.zip	  	        	  
GSM249014 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Spike-in	Spike-in rep1	Human genomic DNA	P-GSE10114-27	  	  	GSM249014 extract 1	genomic_DNA	P-GSE10114-32	GSM249014 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249014	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249014.CEL	GSM249014.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.2.zip	  	        	  
GSM249014 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Spike-in	Spike-in rep1	Human genomic DNA	P-GSE10114-27	  	  	GSM249014 extract 1	genomic_DNA	P-GSE10114-32	GSM249014 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249014	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249014_ASCII.CEL	GSM249014_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.2.zip	  	        	  
GSM248666 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Genomic DNA	Array #3	Whole Cell Extract	P-GSE10114-20	  	  	GSM248666 extract 2	genomic_DNA	P-GSE10114-22	GSM248666 LE 2	Cy3	unknown	P-GSE10114-23	P-GSE10114-24	GSM248666	A-GEOD-6264	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6264	P-GSE10114-25	not specified	GSM248666.txt	GSM248666.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.3.zip	P-GSE10114-4	GSM248666_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM248666 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	To create our simulated ChIP spike-in mixture, we first randomly selected 100 cloned genomic DNA sequences (average length 497 bp) corresponding to predicted promoters in the human genome.	Array #3	Spike-in Control Testing	P-GSE10114-20	  	  	GSM248666 extract 1	genomic_DNA	P-GSE10114-21	GSM248666 LE 1	Cy5	unknown	P-GSE10114-23	P-GSE10114-24	GSM248666	A-GEOD-6264	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6264	P-GSE10114-25	not specified	GSM248666.txt	GSM248666.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.3.zip	P-GSE10114-4	GSM248666_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM248996 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Undiluted control rep1	hybridized at Dana-Farber	Human genomic DNA	P-GSE10114-27	  	  	GSM248996 extract 1	genomic_DNA	P-GSE10114-28	GSM248996 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM248996	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM248996.CEL	GSM248996.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.3.zip	  	        	  
GSM248996 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Undiluted control rep1	hybridized at Dana-Farber	Human genomic DNA	P-GSE10114-27	  	  	GSM248996 extract 1	genomic_DNA	P-GSE10114-28	GSM248996 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM248996	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM248996_ASCII.CEL	GSM248996_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.3.zip	  	        	  
GSM249009 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Amplified spike-in rep2	hybridized at Affymetrix	Human genomic DNA	P-GSE10114-27	  	  	GSM249009 extract 1	genomic_DNA	P-GSE10114-28	GSM249009 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249009	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249009_ASCII.CEL	GSM249009_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.3.zip	  	        	  
GSM249018 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Control	Control rep2	Human genomic DNA	P-GSE10114-26	  	  	GSM249018 extract 1	genomic_DNA	P-GSE10114-32	GSM249018 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249018	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249018.CEL	GSM249018.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.3.zip	  	        	  
GSM249018 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Control	Control rep2	Human genomic DNA	P-GSE10114-26	  	  	GSM249018 extract 1	genomic_DNA	P-GSE10114-32	GSM249018 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249018	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249018_ASCII.CEL	GSM249018_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.3.zip	  	        	  
GSM248999 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Undiluted spike-in rep1	hybridized at Dana-Farber	Human genomic DNA	P-GSE10114-27	  	  	GSM248999 extract 1	genomic_DNA	P-GSE10114-28	GSM248999 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM248999	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM248999_ASCII.CEL	GSM248999_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.3.zip	  	        	  
GSM248999 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Undiluted spike-in rep1	hybridized at Dana-Farber	Human genomic DNA	P-GSE10114-27	  	  	GSM248999 extract 1	genomic_DNA	P-GSE10114-28	GSM248999 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM248999	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM248999.CEL	GSM248999.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.3.zip	  	        	  
GSM245284 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Control DNA	Spike in DNA sample undiluted was fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Control DNA	P-GSE10114-11	  	  	GSM245284 extract 2	genomic_DNA	P-GSE10114-12	GSM245284 LE 2	Cy3	unknown	P-GSE10114-13	P-GSE10114-14	GSM245284	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245284_532.pair	GSM245284_532.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.4.zip	P-GSE10114-1	GSM245284_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245284 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Control DNA	Spike in DNA sample undiluted was fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Control DNA	P-GSE10114-11	  	  	GSM245284 extract 2	genomic_DNA	P-GSE10114-12	GSM245284 LE 2	Cy3	unknown	P-GSE10114-13	P-GSE10114-14	GSM245284	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245284_635.pair	GSM245284_635.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.4.zip	P-GSE10114-1	GSM245284_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245284 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Spike in DNA sample undiluted	Spike in DNA sample undiluted was fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Spike in DNA sample undiluted	P-GSE10114-9	  	  	GSM245284 extract 1	genomic_DNA	P-GSE10114-10	GSM245284 LE 1	Cy5	unknown	P-GSE10114-13	P-GSE10114-14	GSM245284	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245284_532.pair	GSM245284_532.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.4.zip	P-GSE10114-1	GSM245284_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245284 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Spike in DNA sample undiluted	Spike in DNA sample undiluted was fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Spike in DNA sample undiluted	P-GSE10114-9	  	  	GSM245284 extract 1	genomic_DNA	P-GSE10114-10	GSM245284 LE 1	Cy5	unknown	P-GSE10114-13	P-GSE10114-14	GSM245284	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245284_635.pair	GSM245284_635.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.4.zip	P-GSE10114-1	GSM245284_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245951 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	control	For each replicate array, we labeled 1µg of spike-in sample and 1µg of control sample.  The Bioprime Plus Array CGH labeling Module (Invitrogen Catolog number 18095-014) was used.  The spike-in was labeled with the red channel dye (Alexa Fluor-647) and the control was labeled with the green channel dye (Alexa Fluor-555) in two of the replicates.  A dye swap was performed for the third replicate.  These samples were then competitively hybridized to three replicate 244k arrays from Agilent, (AMADID 25150451).  We hybridized the samples to the arrays using the Agilent Array CGH protocol, with some modifications.  Briefly, labeled DNA was combined with Cot-1 DNA, blocking reagent, and hybridization buffer.  The hybridizations were carried out at 60°C.  The arrays were scanned using an Agilent dual laser scanner, and the images were processed using Agilent Feature Extraction Software.	Roche gDNA	  	  	  	GSM245951 extract 1	genomic_DNA	P-GSE10114-16	GSM245951 LE 1	Alexa 647	unknown	P-GSE10114-17	P-GSE10114-18	GSM245951	A-GEOD-6189	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6189	P-GSE10114-19	not specified	GSM245951.txt	GSM245951.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.4.zip	P-GSE10114-3	GSM245951_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245951 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	spike-in	For each replicate array, we labeled 1µg of spike-in sample and 1µg of control sample.  The Bioprime Plus Array CGH labeling Module (Invitrogen Catolog number 18095-014) was used.  The spike-in was labeled with the red channel dye (Alexa Fluor-647) and the control was labeled with the green channel dye (Alexa Fluor-555) in two of the replicates.  A dye swap was performed for the third replicate.  These samples were then competitively hybridized to three replicate 244k arrays from Agilent, (AMADID 25150451).  We hybridized the samples to the arrays using the Agilent Array CGH protocol, with some modifications.  Briefly, labeled DNA was combined with Cot-1 DNA, blocking reagent, and hybridization buffer.  The hybridizations were carried out at 60°C.  The arrays were scanned using an Agilent dual laser scanner, and the images were processed using Agilent Feature Extraction Software.	Roche gDNA + spike	  	  	  	GSM245951 extract 2	genomic_DNA	P-GSE10114-16	GSM245951 LE 2	Alexa 555	unknown	P-GSE10114-17	P-GSE10114-18	GSM245951	A-GEOD-6189	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6189	P-GSE10114-19	not specified	GSM245951.txt	GSM245951.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.4.zip	P-GSE10114-3	GSM245951_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM249010 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Amplified spike-in rep3	hybridized at Affymetrix	Human genomic DNA	P-GSE10114-27	  	  	GSM249010 extract 1	genomic_DNA	P-GSE10114-28	GSM249010 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249010	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249010_ASCII.CEL	GSM249010_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.4.zip	  	        	  
GSM254805 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	Generated by lab	Amplified Spike-in sample	see www.nimblegen.com for array protocol information	DNA plus artificial spike-in DNA. Source of DNA: Roche commercial DNA.	P-GSE10114-42	P-GSE10114-41	  	GSM254805 extract 1	genomic_DNA	P-GSE10114-43	GSM254805 LE 1	Cy5	unknown	P-GSE10114-47	P-GSE10114-48	GSM254805	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-49	Generated by lab	GSM254805.pair	GSM254805.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.4.zip	P-GSE10114-7	GSM254805_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM254805 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	Generated by lab	Amplified Spike-in sample	see www.nimblegen.com for array protocol information	DNA plus artificial spike-in DNA. Source of DNA: Roche commercial DNA.	P-GSE10114-42	P-GSE10114-41	  	GSM254805 extract 1	genomic_DNA	P-GSE10114-43	GSM254805 LE 1	Cy5	unknown	P-GSE10114-47	P-GSE10114-48	GSM254805	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-49	Generated by lab	GSM254805_1.pair	GSM254805_1.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.4.zip	P-GSE10114-7	GSM254805_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM254805 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	artificial	DNA *without* spike-in DNA.	see www.nimblegen.com for array protocol information	DNA without spikein (background DNA). Source of DNA: Roche commercial DNA.	P-GSE10114-42	P-GSE10114-44	P-GSE10114-45	GSM254805 extract 2	genomic_DNA	P-GSE10114-46	GSM254805 LE 2	Cy3	unknown	P-GSE10114-47	P-GSE10114-48	GSM254805	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-49	artificial	GSM254805.pair	GSM254805.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.4.zip	P-GSE10114-7	GSM254805_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM254805 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	artificial	DNA *without* spike-in DNA.	see www.nimblegen.com for array protocol information	DNA without spikein (background DNA). Source of DNA: Roche commercial DNA.	P-GSE10114-42	P-GSE10114-44	P-GSE10114-45	GSM254805 extract 2	genomic_DNA	P-GSE10114-46	GSM254805 LE 2	Cy3	unknown	P-GSE10114-47	P-GSE10114-48	GSM254805	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-49	artificial	GSM254805_1.pair	GSM254805_1.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.4.zip	P-GSE10114-7	GSM254805_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM248998 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Undiluted control rep3	hybridized at Dana-Farber	Human genomic DNA	P-GSE10114-27	  	  	GSM248998 extract 1	genomic_DNA	P-GSE10114-28	GSM248998 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM248998	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM248998_ASCII.CEL	GSM248998_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.5.zip	  	        	  
GSM248998 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Undiluted control rep3	hybridized at Dana-Farber	Human genomic DNA	P-GSE10114-27	  	  	GSM248998 extract 1	genomic_DNA	P-GSE10114-28	GSM248998 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM248998	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM248998.CEL	GSM248998.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.5.zip	  	        	  
GSM249019 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Control	Control rep3	Human genomic DNA	P-GSE10114-27	  	  	GSM249019 extract 1	genomic_DNA	P-GSE10114-32	GSM249019 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249019	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249019_ASCII.CEL	GSM249019_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.5.zip	  	        	  
GSM249019 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Control	Control rep3	Human genomic DNA	P-GSE10114-27	  	  	GSM249019 extract 1	genomic_DNA	P-GSE10114-32	GSM249019 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249019	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249019.CEL	GSM249019.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.5.zip	  	        	  
GSM249003 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Undiluted control rep2	hybridized at Affymetrix	Human genomic DNA	P-GSE10114-27	  	  	GSM249003 extract 1	genomic_DNA	P-GSE10114-28	GSM249003 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249003	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249003_ASCII.CEL	GSM249003_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.5.zip	  	        	  
GSM249001 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Undiluted spike-in rep3	hybridized at Dana-Farber	Human genomic DNA	P-GSE10114-26	  	  	GSM249001 extract 1	genomic_DNA	P-GSE10114-28	GSM249001 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249001	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249001_ASCII.CEL	GSM249001_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.5.zip	  	        	  
GSM249001 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Undiluted spike-in rep3	hybridized at Dana-Farber	Human genomic DNA	P-GSE10114-26	  	  	GSM249001 extract 1	genomic_DNA	P-GSE10114-28	GSM249001 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249001	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249001.CEL	GSM249001.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.5.zip	  	        	  
GSM249017 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Control	Control rep1	Human genomic DNA	P-GSE10114-26	  	  	GSM249017 extract 1	genomic_DNA	P-GSE10114-32	GSM249017 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249017	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249017_ASCII.CEL	GSM249017_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.5.zip	  	        	  
GSM249017 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Control	Control rep1	Human genomic DNA	P-GSE10114-26	  	  	GSM249017 extract 1	genomic_DNA	P-GSE10114-32	GSM249017 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249017	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249017.CEL	GSM249017.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.5.zip	  	        	  
GSM248997 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Undiluted control rep2	hybridized at Dana-Farber	Human genomic DNA	P-GSE10114-26	  	  	GSM248997 extract 1	genomic_DNA	P-GSE10114-28	GSM248997 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM248997	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM248997.CEL	GSM248997.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.5.zip	  	        	  
GSM248997 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Undiluted control rep2	hybridized at Dana-Farber	Human genomic DNA	P-GSE10114-26	  	  	GSM248997 extract 1	genomic_DNA	P-GSE10114-28	GSM248997 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM248997	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM248997_ASCII.CEL	GSM248997_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.6.zip	  	        	  
GSM245949 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	control	For each replicate array, we labeled 1µg of spike-in sample and 1µg of control sample.  The Bioprime Plus Array CGH labeling Module (Invitrogen Catolog number 18095-014) was used.  The spike-in was labeled with the red channel dye (Alexa Fluor-647) and the control was labeled with the green channel dye (Alexa Fluor-555) in two of the replicates.  A dye swap was performed for the third replicate.  These samples were then competitively hybridized to three replicate 244k arrays from Agilent, (AMADID 25150451).  We hybridized the samples to the arrays using the Agilent Array CGH protocol, with some modifications.  Briefly, labeled DNA was combined with Cot-1 DNA, blocking reagent, and hybridization buffer.  The hybridizations were carried out at 60°C.  The arrays were scanned using an Agilent dual laser scanner, and the images were processed using Agilent Feature Extraction Software.	Roche gDNA	  	  	  	GSM245949 extract 2	genomic_DNA	P-GSE10114-16	GSM245949 LE 2	Alexa 555	unknown	P-GSE10114-17	P-GSE10114-18	GSM245949	A-GEOD-6189	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6189	P-GSE10114-19	not specified	GSM245949.txt	GSM245949.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.6.zip	P-GSE10114-2	GSM245949_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245949 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	spike-in	For each replicate array, we labeled 1µg of spike-in sample and 1µg of control sample.  The Bioprime Plus Array CGH labeling Module (Invitrogen Catolog number 18095-014) was used.  The spike-in was labeled with the red channel dye (Alexa Fluor-647) and the control was labeled with the green channel dye (Alexa Fluor-555) in two of the replicates.  A dye swap was performed for the third replicate.  These samples were then competitively hybridized to three replicate 244k arrays from Agilent, (AMADID 25150451).  We hybridized the samples to the arrays using the Agilent Array CGH protocol, with some modifications.  Briefly, labeled DNA was combined with Cot-1 DNA, blocking reagent, and hybridization buffer.  The hybridizations were carried out at 60°C.  The arrays were scanned using an Agilent dual laser scanner, and the images were processed using Agilent Feature Extraction Software.	Roche gDNA + spike	  	  	  	GSM245949 extract 1	genomic_DNA	P-GSE10114-16	GSM245949 LE 1	Alexa 647	unknown	P-GSE10114-17	P-GSE10114-18	GSM245949	A-GEOD-6189	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6189	P-GSE10114-19	not specified	GSM245949.txt	GSM245949.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.6.zip	P-GSE10114-2	GSM245949_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM252782 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Cloned promoter sequences	Red Channel: "ENCODE spike", 5 ug	ENCODE Spike, Undiluted	P-GSE10114-34	  	  	GSM252782 extract 1	other	P-GSE10114-35	GSM252782 LE 1	Cy5	unknown	P-GSE10114-38	P-GSE10114-39	GSM252782	A-GEOD-2131	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-2131	P-GSE10114-40	not specified	GSM252782_86888_635.gff	GSM252782_86888_635.gff	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.6.zip	P-GSE10114-6	GSM252782_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM252782 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Cloned promoter sequences	Red Channel: "ENCODE spike", 5 ug	ENCODE Spike, Undiluted	P-GSE10114-34	  	  	GSM252782 extract 1	other	P-GSE10114-35	GSM252782 LE 1	Cy5	unknown	P-GSE10114-38	P-GSE10114-39	GSM252782	A-GEOD-2131	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-2131	P-GSE10114-40	not specified	GSM252782_86888_532.gff	GSM252782_86888_532.gff	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.6.zip	P-GSE10114-6	GSM252782_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM252782 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Sheared genomic DNA	Green Channel:  "ENCODE control", 5 ug	Control for ENCODE Spike	P-GSE10114-36	  	  	GSM252782 extract 2	genomic_DNA	P-GSE10114-37	GSM252782 LE 2	Cy3	unknown	P-GSE10114-38	P-GSE10114-39	GSM252782	A-GEOD-2131	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-2131	P-GSE10114-40	not specified	GSM252782_86888_635.gff	GSM252782_86888_635.gff	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.6.zip	P-GSE10114-6	GSM252782_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM252782 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Sheared genomic DNA	Green Channel:  "ENCODE control", 5 ug	Control for ENCODE Spike	P-GSE10114-36	  	  	GSM252782 extract 2	genomic_DNA	P-GSE10114-37	GSM252782 LE 2	Cy3	unknown	P-GSE10114-38	P-GSE10114-39	GSM252782	A-GEOD-2131	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-2131	P-GSE10114-40	not specified	GSM252782_86888_532.gff	GSM252782_86888_532.gff	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.6.zip	P-GSE10114-6	GSM252782_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM249006 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Undiluted spike-in rep2	hybridized at Affymetrix	Human genomic DNA	P-GSE10114-26	  	  	GSM249006 extract 1	genomic_DNA	P-GSE10114-28	GSM249006 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249006	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249006_ASCII.CEL	GSM249006_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.6.zip	  	        	  
GSM249012 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Amplified control rep2	hybridized at Affymetrix	Human genomic DNA	P-GSE10114-26	  	  	GSM249012 extract 1	genomic_DNA	P-GSE10114-28	GSM249012 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249012	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249012_ASCII.CEL	GSM249012_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.6.zip	  	        	  
GSM254973 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	nonamplified DNA	all array processing by NimbleGen, Inc. See www.nimblegen.com for details	DNA with spikeinDNA, nonamplified. Source of DNA: Roche commercial DNA.	P-GSE10114-50	  	  	GSM254973 extract 1	genomic_DNA	P-GSE10114-51	GSM254973 LE 1	Cy5	unknown	P-GSE10114-53	P-GSE10114-54	GSM254973	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-55	not specified	GSM254973_1.pair	GSM254973_1.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.6.zip	P-GSE10114-8	GSM254973_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM254973 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	nonamplified DNA	all array processing by NimbleGen, Inc. See www.nimblegen.com for details	DNA with spikeinDNA, nonamplified. Source of DNA: Roche commercial DNA.	P-GSE10114-50	  	  	GSM254973 extract 1	genomic_DNA	P-GSE10114-51	GSM254973 LE 1	Cy5	unknown	P-GSE10114-53	P-GSE10114-54	GSM254973	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-55	not specified	GSM254973.pair	GSM254973.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.6.zip	P-GSE10114-8	GSM254973_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM254973 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	nonamplified DNA	all array processing by NimbleGen, Inc. See www.nimblegen.com for details	DNA without spikein DNA, nonamplified. Source of DNA: Roche commercial DNA.	P-GSE10114-52	  	  	GSM254973 extract 2	genomic_DNA	P-GSE10114-51	GSM254973 LE 2	Cy3	unknown	P-GSE10114-53	P-GSE10114-54	GSM254973	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-55	not specified	GSM254973_1.pair	GSM254973_1.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.6.zip	P-GSE10114-8	GSM254973_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM254973 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	nonamplified DNA	all array processing by NimbleGen, Inc. See www.nimblegen.com for details	DNA without spikein DNA, nonamplified. Source of DNA: Roche commercial DNA.	P-GSE10114-52	  	  	GSM254973 extract 2	genomic_DNA	P-GSE10114-51	GSM254973 LE 2	Cy3	unknown	P-GSE10114-53	P-GSE10114-54	GSM254973	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-55	not specified	GSM254973.pair	GSM254973.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.6.zip	P-GSE10114-8	GSM254973_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM252509 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Genomic DNA	Array #4	Whole Cell Extract	P-GSE10114-20	  	  	GSM252509 extract 2	genomic_DNA	P-GSE10114-22	GSM252509 LE 2	Cy3	unknown	P-GSE10114-23	P-GSE10114-24	GSM252509	A-GEOD-6264	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6264	P-GSE10114-25	not specified	GSM252509.txt	GSM252509.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-5	GSM252509_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM252509 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	To create our simulated ChIP spike-in mixture, we first randomly selected 100 cloned genomic DNA sequences (average length 497 bp) corresponding to predicted promoters in the human genome.	Array #4	Spike-in Control	P-GSE10114-20	  	  	GSM252509 extract 1	genomic_DNA	P-GSE10114-33	GSM252509 LE 1	Cy5	unknown	P-GSE10114-23	P-GSE10114-24	GSM252509	A-GEOD-6264	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6264	P-GSE10114-25	not specified	GSM252509.txt	GSM252509.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-5	GSM252509_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM254971 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	background DNA	all array processing by NimbleGen, Inc. See www.nimblegen.com for details	DNA without spikein DNA; nonamplified. Source of DNA: Roche commercial DNA.	P-GSE10114-52	  	  	GSM254971 extract 2	genomic_DNA	P-GSE10114-51	GSM254971 LE 2	Cy3	unknown	P-GSE10114-53	P-GSE10114-54	GSM254971	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-55	not specified	GSM254971_1.pair	GSM254971_1.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-8	GSM254971_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM254971 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	background DNA	all array processing by NimbleGen, Inc. See www.nimblegen.com for details	DNA without spikein DNA; nonamplified. Source of DNA: Roche commercial DNA.	P-GSE10114-52	  	  	GSM254971 extract 2	genomic_DNA	P-GSE10114-51	GSM254971 LE 2	Cy3	unknown	P-GSE10114-53	P-GSE10114-54	GSM254971	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-55	not specified	GSM254971.pair	GSM254971.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-8	GSM254971_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM254971 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	DNA with artificial spikein DNA	all array processing by NimbleGen, Inc. See www.nimblegen.com for details	DNA with spikein DNA, nonamplified. Source of DNA: Roche commercial DNA.	P-GSE10114-50	  	  	GSM254971 extract 1	genomic_DNA	P-GSE10114-51	GSM254971 LE 1	Cy5	unknown	P-GSE10114-53	P-GSE10114-54	GSM254971	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-55	not specified	GSM254971_1.pair	GSM254971_1.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-8	GSM254971_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM254971 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	DNA with artificial spikein DNA	all array processing by NimbleGen, Inc. See www.nimblegen.com for details	DNA with spikein DNA, nonamplified. Source of DNA: Roche commercial DNA.	P-GSE10114-50	  	  	GSM254971 extract 1	genomic_DNA	P-GSE10114-51	GSM254971 LE 1	Cy5	unknown	P-GSE10114-53	P-GSE10114-54	GSM254971	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-55	not specified	GSM254971.pair	GSM254971.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-8	GSM254971_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM252781 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Sheared genomic DNA	Green Channel:  "ENCODE control", 5 ug	Control for ENCODE Spike	P-GSE10114-36	  	  	GSM252781 extract 2	genomic_DNA	P-GSE10114-37	GSM252781 LE 2	Cy3	unknown	P-GSE10114-38	P-GSE10114-39	GSM252781	A-GEOD-2131	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-2131	P-GSE10114-40	not specified	GSM252781_85923_532.gff	GSM252781_85923_532.gff	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-6	GSM252781_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM252781 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Sheared genomic DNA	Green Channel:  "ENCODE control", 5 ug	Control for ENCODE Spike	P-GSE10114-36	  	  	GSM252781 extract 2	genomic_DNA	P-GSE10114-37	GSM252781 LE 2	Cy3	unknown	P-GSE10114-38	P-GSE10114-39	GSM252781	A-GEOD-2131	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-2131	P-GSE10114-40	not specified	GSM252781_85923_635.gff	GSM252781_85923_635.gff	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-6	GSM252781_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM252781 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Cloned promoter sequences	Green Channel:  "ENCODE control", 5 ug	ENCODE Spike, Undiluted	P-GSE10114-34	  	  	GSM252781 extract 1	other	P-GSE10114-35	GSM252781 LE 1	Cy5	unknown	P-GSE10114-38	P-GSE10114-39	GSM252781	A-GEOD-2131	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-2131	P-GSE10114-40	not specified	GSM252781_85923_532.gff	GSM252781_85923_532.gff	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-6	GSM252781_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM252781 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Cloned promoter sequences	Green Channel:  "ENCODE control", 5 ug	ENCODE Spike, Undiluted	P-GSE10114-34	  	  	GSM252781 extract 1	other	P-GSE10114-35	GSM252781 LE 1	Cy5	unknown	P-GSE10114-38	P-GSE10114-39	GSM252781	A-GEOD-2131	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-2131	P-GSE10114-40	not specified	GSM252781_85923_635.gff	GSM252781_85923_635.gff	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-6	GSM252781_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245282 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Spike in DNA sample amplified by LM-PCR	Spike in DNA was amplified by LM-PCR, fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Spike in DNA sample diluted	P-GSE10114-9	  	  	GSM245282 extract 1	genomic_DNA	P-GSE10114-10	GSM245282 LE 1	Cy5	unknown	P-GSE10114-13	P-GSE10114-14	GSM245282	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245282_635.pair	GSM245282_635.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-1	GSM245282_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245282 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Spike in DNA sample amplified by LM-PCR	Spike in DNA was amplified by LM-PCR, fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Spike in DNA sample diluted	P-GSE10114-9	  	  	GSM245282 extract 1	genomic_DNA	P-GSE10114-10	GSM245282 LE 1	Cy5	unknown	P-GSE10114-13	P-GSE10114-14	GSM245282	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245282_532.pair	GSM245282_532.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-1	GSM245282_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245282 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Control DNA	Spike in DNA was amplified by LM-PCR, fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Control DNA	P-GSE10114-11	  	  	GSM245282 extract 2	genomic_DNA	P-GSE10114-12	GSM245282 LE 2	Cy3	unknown	P-GSE10114-13	P-GSE10114-14	GSM245282	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245282_635.pair	GSM245282_635.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-1	GSM245282_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245282 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Control DNA	Spike in DNA was amplified by LM-PCR, fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Control DNA	P-GSE10114-11	  	  	GSM245282 extract 2	genomic_DNA	P-GSE10114-12	GSM245282 LE 2	Cy3	unknown	P-GSE10114-13	P-GSE10114-14	GSM245282	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245282_532.pair	GSM245282_532.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-1	GSM245282_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245285 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Spike in DNA sample undiluted	Spike in DNA sample undiluted was fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Spike in DNA sample undiluted	P-GSE10114-9	  	  	GSM245285 extract 1	genomic_DNA	P-GSE10114-10	GSM245285 LE 1	Cy5	unknown	P-GSE10114-13	P-GSE10114-14	GSM245285	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245285_532.pair	GSM245285_532.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-1	GSM245285_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245285 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Spike in DNA sample undiluted	Spike in DNA sample undiluted was fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Spike in DNA sample undiluted	P-GSE10114-9	  	  	GSM245285 extract 1	genomic_DNA	P-GSE10114-10	GSM245285 LE 1	Cy5	unknown	P-GSE10114-13	P-GSE10114-14	GSM245285	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245285_635.pair	GSM245285_635.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-1	GSM245285_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245285 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Control DNA	Spike in DNA sample undiluted was fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Control DNA sample undiluted cells	P-GSE10114-11	  	  	GSM245285 extract 2	genomic_DNA	P-GSE10114-12	GSM245285 LE 2	Cy3	unknown	P-GSE10114-13	P-GSE10114-14	GSM245285	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245285_532.pair	GSM245285_532.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-1	GSM245285_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245285 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Control DNA	Spike in DNA sample undiluted was fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Control DNA sample undiluted cells	P-GSE10114-11	  	  	GSM245285 extract 2	genomic_DNA	P-GSE10114-12	GSM245285 LE 2	Cy3	unknown	P-GSE10114-13	P-GSE10114-14	GSM245285	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245285_635.pair	GSM245285_635.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-1	GSM245285_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245283 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Control DNA	Spike in DNA was amplified by LM-PCR, fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Control DNA	P-GSE10114-11	  	  	GSM245283 extract 2	genomic_DNA	P-GSE10114-12	GSM245283 LE 2	Cy3	unknown	P-GSE10114-13	P-GSE10114-14	GSM245283	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245283_532.pair	GSM245283_532.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-1	GSM245283_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245283 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Control DNA	Spike in DNA was amplified by LM-PCR, fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Control DNA	P-GSE10114-11	  	  	GSM245283 extract 2	genomic_DNA	P-GSE10114-12	GSM245283 LE 2	Cy3	unknown	P-GSE10114-13	P-GSE10114-14	GSM245283	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245283_635.pair	GSM245283_635.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-1	GSM245283_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245283 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Spike in DNA sample amplified by LM-PCR	Spike in DNA was amplified by LM-PCR, fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Spike in DNA sample	P-GSE10114-9	  	  	GSM245283 extract 1	genomic_DNA	P-GSE10114-10	GSM245283 LE 1	Cy5	unknown	P-GSE10114-13	P-GSE10114-14	GSM245283	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245283_532.pair	GSM245283_532.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-1	GSM245283_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245283 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Spike in DNA sample amplified by LM-PCR	Spike in DNA was amplified by LM-PCR, fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Spike in DNA sample	P-GSE10114-9	  	  	GSM245283 extract 1	genomic_DNA	P-GSE10114-10	GSM245283 LE 1	Cy5	unknown	P-GSE10114-13	P-GSE10114-14	GSM245283	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245283_635.pair	GSM245283_635.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-1	GSM245283_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245950 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	control	For each replicate array, we labeled 1µg of spike-in sample and 1µg of control sample.  The Bioprime Plus Array CGH labeling Module (Invitrogen Catolog number 18095-014) was used.  The spike-in was labeled with the red channel dye (Alexa Fluor-647) and the control was labeled with the green channel dye (Alexa Fluor-555) in two of the replicates.  A dye swap was performed for the third replicate.  These samples were then competitively hybridized to three replicate 244k arrays from Agilent, (AMADID 25150451).  We hybridized the samples to the arrays using the Agilent Array CGH protocol, with some modifications.  Briefly, labeled DNA was combined with Cot-1 DNA, blocking reagent, and hybridization buffer.  The hybridizations were carried out at 60°C.  The arrays were scanned using an Agilent dual laser scanner, and the images were processed using Agilent Feature Extraction Software.	Roche gDNA	  	  	  	GSM245950 extract 2	genomic_DNA	P-GSE10114-16	GSM245950 LE 2	Alexa 555	unknown	P-GSE10114-17	P-GSE10114-18	GSM245950	A-GEOD-6189	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6189	P-GSE10114-19	not specified	GSM245950.txt	GSM245950.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-2	GSM245950_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM245950 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	spike-in	For each replicate array, we labeled 1µg of spike-in sample and 1µg of control sample.  The Bioprime Plus Array CGH labeling Module (Invitrogen Catolog number 18095-014) was used.  The spike-in was labeled with the red channel dye (Alexa Fluor-647) and the control was labeled with the green channel dye (Alexa Fluor-555) in two of the replicates.  A dye swap was performed for the third replicate.  These samples were then competitively hybridized to three replicate 244k arrays from Agilent, (AMADID 25150451).  We hybridized the samples to the arrays using the Agilent Array CGH protocol, with some modifications.  Briefly, labeled DNA was combined with Cot-1 DNA, blocking reagent, and hybridization buffer.  The hybridizations were carried out at 60°C.  The arrays were scanned using an Agilent dual laser scanner, and the images were processed using Agilent Feature Extraction Software.	Roche gDNA + spike	  	  	  	GSM245950 extract 1	genomic_DNA	P-GSE10114-16	GSM245950 LE 1	Alexa 647	unknown	P-GSE10114-17	P-GSE10114-18	GSM245950	A-GEOD-6189	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6189	P-GSE10114-19	not specified	GSM245950.txt	GSM245950.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.7.zip	P-GSE10114-2	GSM245950_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.1.zip
GSM248654 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	whole cell extract DNA	Array #1	Whole Cell Extract	P-GSE10114-20	  	  	GSM248654 extract 2	genomic_DNA	P-GSE10114-22	GSM248654 LE 2	Cy3	unknown	P-GSE10114-23	P-GSE10114-24	GSM248654	A-GEOD-6264	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6264	P-GSE10114-25	not specified	GSM248654.txt	GSM248654.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-4	GSM248654_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM248654 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	To create our simulated ChIP spike-in mixture, we first randomly selected 100 cloned genomic DNA sequences (average length 497 bp) corresponding to predicted promoters in the human  genome	Array #1	Control Spike in data	P-GSE10114-20	  	  	GSM248654 extract 1	genomic_DNA	P-GSE10114-21	GSM248654 LE 1	Cy5	unknown	P-GSE10114-23	P-GSE10114-24	GSM248654	A-GEOD-6264	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6264	P-GSE10114-25	not specified	GSM248654.txt	GSM248654.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-4	GSM248654_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM252780 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Cloned promoter sequences	Red Channel: "ENCODE spike", 5 ug	ENCODE Spike, Undiluted	P-GSE10114-34	  	  	GSM252780 extract 1	other	P-GSE10114-35	GSM252780 LE 1	Cy5	unknown	P-GSE10114-38	P-GSE10114-39	GSM252780	A-GEOD-2131	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-2131	P-GSE10114-40	not specified	GSM252780_85403_532.gff	GSM252780_85403_532.gff	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-6	GSM252780_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM252780 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Cloned promoter sequences	Red Channel: "ENCODE spike", 5 ug	ENCODE Spike, Undiluted	P-GSE10114-34	  	  	GSM252780 extract 1	other	P-GSE10114-35	GSM252780 LE 1	Cy5	unknown	P-GSE10114-38	P-GSE10114-39	GSM252780	A-GEOD-2131	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-2131	P-GSE10114-40	not specified	GSM252780_85403_635.gff	GSM252780_85403_635.gff	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-6	GSM252780_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM252780 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Sheared genomic DNA	Green Channel:  "ENCODE control", 5 ug	Control for ENCODE Spike	P-GSE10114-36	  	  	GSM252780 extract 2	genomic_DNA	P-GSE10114-37	GSM252780 LE 2	Cy3	unknown	P-GSE10114-38	P-GSE10114-39	GSM252780	A-GEOD-2131	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-2131	P-GSE10114-40	not specified	GSM252780_85403_532.gff	GSM252780_85403_532.gff	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-6	GSM252780_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM252780 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Sheared genomic DNA	Green Channel:  "ENCODE control", 5 ug	Control for ENCODE Spike	P-GSE10114-36	  	  	GSM252780 extract 2	genomic_DNA	P-GSE10114-37	GSM252780 LE 2	Cy3	unknown	P-GSE10114-38	P-GSE10114-39	GSM252780	A-GEOD-2131	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-2131	P-GSE10114-40	not specified	GSM252780_85403_635.gff	GSM252780_85403_635.gff	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-6	GSM252780_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM254972 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	nonamplified DNA	all array processing by NimbleGen, Inc. See www.nimblegen.com for details	DNA with spikein DNA; nonamplified. Source of DNA: Roche commercial DNA.	P-GSE10114-50	  	  	GSM254972 extract 1	genomic_DNA	P-GSE10114-51	GSM254972 LE 1	Cy5	unknown	P-GSE10114-53	P-GSE10114-54	GSM254972	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-55	not specified	GSM254972.pair	GSM254972.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-8	GSM254972_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM254972 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	nonamplified DNA	all array processing by NimbleGen, Inc. See www.nimblegen.com for details	DNA with spikein DNA; nonamplified. Source of DNA: Roche commercial DNA.	P-GSE10114-50	  	  	GSM254972 extract 1	genomic_DNA	P-GSE10114-51	GSM254972 LE 1	Cy5	unknown	P-GSE10114-53	P-GSE10114-54	GSM254972	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-55	not specified	GSM254972_1.pair	GSM254972_1.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-8	GSM254972_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM254972 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	nonamplified	all array processing by NimbleGen, Inc. See www.nimblegen.com for details	DNA without spikeinDNA, nonamplified. Source of DNA: Roche commercial DNA.	P-GSE10114-52	  	  	GSM254972 extract 2	genomic_DNA	P-GSE10114-51	GSM254972 LE 2	Cy3	unknown	P-GSE10114-53	P-GSE10114-54	GSM254972	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-55	not specified	GSM254972.pair	GSM254972.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-8	GSM254972_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM254972 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	nonamplified	all array processing by NimbleGen, Inc. See www.nimblegen.com for details	DNA without spikeinDNA, nonamplified. Source of DNA: Roche commercial DNA.	P-GSE10114-52	  	  	GSM254972 extract 2	genomic_DNA	P-GSE10114-51	GSM254972 LE 2	Cy3	unknown	P-GSE10114-53	P-GSE10114-54	GSM254972	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-55	not specified	GSM254972_1.pair	GSM254972_1.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-8	GSM254972_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM254807 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	artificial	background DNA	see www.nimblegen.com for array protocol information	DNA without spikein (background DNA). Source of DNA: Roche commercial DNA.	P-GSE10114-42	P-GSE10114-44	P-GSE10114-45	GSM254807 extract 2	genomic_DNA	P-GSE10114-46	GSM254807 LE 2	Cy3	unknown	P-GSE10114-47	P-GSE10114-48	GSM254807	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-49	artificial	GSM254807_1.pair	GSM254807_1.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-7	GSM254807_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM254807 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	artificial	background DNA	see www.nimblegen.com for array protocol information	DNA without spikein (background DNA). Source of DNA: Roche commercial DNA.	P-GSE10114-42	P-GSE10114-44	P-GSE10114-45	GSM254807 extract 2	genomic_DNA	P-GSE10114-46	GSM254807 LE 2	Cy3	unknown	P-GSE10114-47	P-GSE10114-48	GSM254807	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-49	artificial	GSM254807.pair	GSM254807.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-7	GSM254807_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM254807 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	Generated by lab	artificial	see www.nimblegen.com for array protocol information	DNA plus artificial spike-in DNA. Source of DNA: Roche commercial DNA.	P-GSE10114-42	P-GSE10114-41	  	GSM254807 extract 1	genomic_DNA	P-GSE10114-43	GSM254807 LE 1	Cy5	unknown	P-GSE10114-47	P-GSE10114-48	GSM254807	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-49	Generated by lab	GSM254807_1.pair	GSM254807_1.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-7	GSM254807_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM254807 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	Generated by lab	artificial	see www.nimblegen.com for array protocol information	DNA plus artificial spike-in DNA. Source of DNA: Roche commercial DNA.	P-GSE10114-42	P-GSE10114-41	  	GSM254807 extract 1	genomic_DNA	P-GSE10114-43	GSM254807 LE 1	Cy5	unknown	P-GSE10114-47	P-GSE10114-48	GSM254807	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-49	Generated by lab	GSM254807.pair	GSM254807.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-7	GSM254807_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM254930 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	DNA with spikein DNA	all array processing by NimbleGen, Inc. See www.nimblegen.com for details	DNA with artificial spike-in, non-amplified. Source of DNA: Roche commercial DNA.	P-GSE10114-50	  	  	GSM254930 extract 1	genomic_DNA	P-GSE10114-51	GSM254930 LE 1	Cy5	unknown	P-GSE10114-53	P-GSE10114-54	GSM254930	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-55	not specified	GSM254930.pair	GSM254930.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-8	GSM254930_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM254930 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	DNA with spikein DNA	all array processing by NimbleGen, Inc. See www.nimblegen.com for details	DNA with artificial spike-in, non-amplified. Source of DNA: Roche commercial DNA.	P-GSE10114-50	  	  	GSM254930 extract 1	genomic_DNA	P-GSE10114-51	GSM254930 LE 1	Cy5	unknown	P-GSE10114-53	P-GSE10114-54	GSM254930	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-55	not specified	GSM254930_1.pair	GSM254930_1.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-8	GSM254930_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM254930 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	nonamplified DNA	all array processing by NimbleGen, Inc. See www.nimblegen.com for details	DNA without spikein DNA; non-amplified. Source of DNA: Roche commercial DNA.	P-GSE10114-52	  	  	GSM254930 extract 2	genomic_DNA	P-GSE10114-51	GSM254930 LE 2	Cy3	unknown	P-GSE10114-53	P-GSE10114-54	GSM254930	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-55	not specified	GSM254930.pair	GSM254930.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-8	GSM254930_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM254930 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	nonamplified DNA	all array processing by NimbleGen, Inc. See www.nimblegen.com for details	DNA without spikein DNA; non-amplified. Source of DNA: Roche commercial DNA.	P-GSE10114-52	  	  	GSM254930 extract 2	genomic_DNA	P-GSE10114-51	GSM254930 LE 2	Cy3	unknown	P-GSE10114-53	P-GSE10114-54	GSM254930	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-55	not specified	GSM254930_1.pair	GSM254930_1.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-8	GSM254930_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM254806 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	artificial	background DNA	see www.nimblegen.com for array protocol information	DNA without spikein (background DNA). Source of DNA: Roche commercial DNA.	P-GSE10114-42	P-GSE10114-44	P-GSE10114-45	GSM254806 extract 2	genomic_DNA	P-GSE10114-46	GSM254806 LE 2	Cy3	unknown	P-GSE10114-47	P-GSE10114-48	GSM254806	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-49	artificial	GSM254806.pair	GSM254806.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-7	GSM254806_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM254806 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	artificial	background DNA	see www.nimblegen.com for array protocol information	DNA without spikein (background DNA). Source of DNA: Roche commercial DNA.	P-GSE10114-42	P-GSE10114-44	P-GSE10114-45	GSM254806 extract 2	genomic_DNA	P-GSE10114-46	GSM254806 LE 2	Cy3	unknown	P-GSE10114-47	P-GSE10114-48	GSM254806	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-49	artificial	GSM254806_1.pair	GSM254806_1.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-7	GSM254806_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM254806 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	Generated by lab	artificial	see www.nimblegen.com for array protocol information	DNA plus artificial spike-in DNA. Source of DNA: Roche commercial DNA.	P-GSE10114-42	P-GSE10114-41	  	GSM254806 extract 1	genomic_DNA	P-GSE10114-43	GSM254806 LE 1	Cy5	unknown	P-GSE10114-47	P-GSE10114-48	GSM254806	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-49	Generated by lab	GSM254806.pair	GSM254806.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-7	GSM254806_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM254806 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	Generated by lab	artificial	see www.nimblegen.com for array protocol information	DNA plus artificial spike-in DNA. Source of DNA: Roche commercial DNA.	P-GSE10114-42	P-GSE10114-41	  	GSM254806 extract 1	genomic_DNA	P-GSE10114-43	GSM254806 LE 1	Cy5	unknown	P-GSE10114-47	P-GSE10114-48	GSM254806	A-GEOD-3980	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-3980	P-GSE10114-49	Generated by lab	GSM254806_1.pair	GSM254806_1.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-7	GSM254806_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM245281 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Spike in DNA sample undiluted	Spike in DNA sample undiluted was fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Spike in DNA sample undiluted	P-GSE10114-9	  	  	GSM245281 extract 1	genomic_DNA	P-GSE10114-10	GSM245281 LE 1	Cy5	unknown	P-GSE10114-13	P-GSE10114-14	GSM245281	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245281_635.pair	GSM245281_635.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-1	GSM245281_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM245281 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Spike in DNA sample undiluted	Spike in DNA sample undiluted was fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Spike in DNA sample undiluted	P-GSE10114-9	  	  	GSM245281 extract 1	genomic_DNA	P-GSE10114-10	GSM245281 LE 1	Cy5	unknown	P-GSE10114-13	P-GSE10114-14	GSM245281	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245281_532.pair	GSM245281_532.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-1	GSM245281_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM245281 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Control DNA	Spike in DNA sample undiluted was fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Control DNA sample undiluted cells	P-GSE10114-11	  	  	GSM245281 extract 2	genomic_DNA	P-GSE10114-12	GSM245281 LE 2	Cy3	unknown	P-GSE10114-13	P-GSE10114-14	GSM245281	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245281_635.pair	GSM245281_635.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-1	GSM245281_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM245281 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Control DNA	Spike in DNA sample undiluted was fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Control DNA sample undiluted cells	P-GSE10114-11	  	  	GSM245281 extract 2	genomic_DNA	P-GSE10114-12	GSM245281 LE 2	Cy3	unknown	P-GSE10114-13	P-GSE10114-14	GSM245281	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245281_532.pair	GSM245281_532.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	P-GSE10114-1	GSM245281_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM249013 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Amplified control rep3	hybridized at Affymetrix	Human genomic DNA	P-GSE10114-27	  	  	GSM249013 extract 1	genomic_DNA	P-GSE10114-28	GSM249013 LE 1	biotin	unknown	P-GSE10114-29	P-GSE10114-30	GSM249013	A-GEOD-6129	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6129	P-GSE10114-31	not specified	GSM249013_ASCII.CEL	GSM249013_ASCII.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.8.zip	  	        	  
GSM248657 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Genomic DNA	Array #2	Whole Cell Extract	P-GSE10114-20	  	  	GSM248657 extract 2	genomic_DNA	P-GSE10114-22	GSM248657 LE 2	Cy3	unknown	P-GSE10114-23	P-GSE10114-24	GSM248657	A-GEOD-6264	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6264	P-GSE10114-25	not specified	GSM248657.txt	GSM248657.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.9.zip	P-GSE10114-4	GSM248657_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM248657 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	To create our simulated ChIP spike-in mixture, we first randomly selected 100 cloned genomic DNA sequences (average length 497 bp) corresponding to predicted promoters in the human genome.	Array #2	Spike-in Controls	P-GSE10114-20	  	  	GSM248657 extract 1	genomic_DNA	P-GSE10114-21	GSM248657 LE 1	Cy5	unknown	P-GSE10114-23	P-GSE10114-24	GSM248657	A-GEOD-6264	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-6264	P-GSE10114-25	not specified	GSM248657.txt	GSM248657.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.9.zip	P-GSE10114-4	GSM248657_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM245286 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Spike in DNA sample amplified by LM-PCR	Spike in DNA was amplified by LM-PCR, fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Spike in DNA sample	P-GSE10114-9	  	  	GSM245286 extract 1	genomic_DNA	P-GSE10114-10	GSM245286 LE 1	Cy5	unknown	P-GSE10114-13	P-GSE10114-14	GSM245286	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245286_635.pair	GSM245286_635.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.9.zip	P-GSE10114-1	GSM245286_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM245286 1	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Spike in DNA sample amplified by LM-PCR	Spike in DNA was amplified by LM-PCR, fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Spike in DNA sample	P-GSE10114-9	  	  	GSM245286 extract 1	genomic_DNA	P-GSE10114-10	GSM245286 LE 1	Cy5	unknown	P-GSE10114-13	P-GSE10114-14	GSM245286	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245286_532.pair	GSM245286_532.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.9.zip	P-GSE10114-1	GSM245286_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM245286 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Control DNA	Spike in DNA was amplified by LM-PCR, fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Control DNA	P-GSE10114-11	  	  	GSM245286 extract 2	genomic_DNA	P-GSE10114-12	GSM245286 LE 2	Cy3	unknown	P-GSE10114-13	P-GSE10114-14	GSM245286	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245286_635.pair	GSM245286_635.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.9.zip	P-GSE10114-1	GSM245286_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip
GSM245286 2	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	  	Control DNA	Spike in DNA was amplified by LM-PCR, fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.	Control DNA	P-GSE10114-11	  	  	GSM245286 extract 2	genomic_DNA	P-GSE10114-12	GSM245286 LE 2	Cy3	unknown	P-GSE10114-13	P-GSE10114-14	GSM245286	A-GEOD-4559	http://www.ebi.ac.uk/aerep/result?queryFor=PhysicalArrayDesign&aAccession=A-GEOD-4559	P-GSE10114-15	not specified	GSM245286_532.pair	GSM245286_532.pair	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.raw.9.zip	P-GSE10114-1	GSM245286_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-10114/E-GEOD-10114.processed.2.zip