Source Name	Material Type	Characteristics [Organism]	Term Source REF	Term Accession Number	Characteristics [DevelopmentalStage]	Characteristics [StrainOrLine]	Characteristics [Genotype]	Protocol REF	ParameterValue [genotype]	Sample Name	Material Type	Protocol REF	Extract Name	MaterialType	Comment[LIBRARY_LAYOUT]	Comment[LIBRARY_SOURCE]	Comment[LIBRARY_STRATEGY]	Comment[LIBRARY_SELECTION]	Protocol REF	ParameterValue [version]	Performer	Assay Name	Comment[SEQUENCE_LENGTH]	Technology Type	Comment[ENA_EXPERIMENT]	Protocol REF	ParameterValue [version]	ParameterValue [set_read_length]	ParameterValue [actual_read_length]	Scan Name	Comment[MD5]	Comment[SUBMITTED_FILE_NAME]	Comment[ENA_RUN]	Comment[FASTQ_URI]	Protocol REF	ParameterValue [Bowtie version]	Derived ArrayData File	Comment [Derived ArrayExpress FTP file]	Protocol REF	DerivedArrayData File	Comment [Derived ArrayExpress FTP file]	FactorValue [DEVELOPMENTALSTAGE]	FactorValue [GENOTYPE]
pool of 5 E15.5 Ptf1a^YFP/+ [het] embryos	whole_organism	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	E15.5	ptf1a{tm1.1Mgn}	Ptf1a^YFP/+	Ptf1a het or null FACS- isolation (Magnuson lab)	Ptf1a^YFP/+	E15.5 Ptf1a^YFP/+ [het] cells	cell	RNA isolation: Trizol LS and DNA-free RNA Kit (Zymo Research)	E15.5 Ptf1a^YFP/+ [het] RNA library	synthetic_RNA	SINGLE	TRANSCRIPTOMIC	RNA-Seq	PCR	RNA-Seq Cluster Generation (Vanderbilt FGSR)	1.4.0	VUSM	E15.5 Ptf1a^YFP/+ [het] RNA library MAM-1a	43	high_throughput_sequencing	ERX009129	Solexa Genome Analyzer II Software: Sequencing	1.4.0	36	36	mam-1a_sequence.fq.gz	40a25acd546b05dbbf0d622cab01e5b1	mam-1a_sequence.fq.gz	ERR022720	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR022/ERR022720/ERR022720.fastq.gz	Bowtie on pooled runs (Magnuson)	0.11.3	mam-1_pool.bedg	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MTAB/E-MTAB-449/E-MTAB-449.processed.2.zip	Customized perl script for RNAseq quantification (Vanderbilt CHGR Computational Genomics Core)	AllRNA-SeqResults.xls	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MTAB/E-MTAB-449/E-MTAB-449.processed.1.zip	E15.5	Ptf1a^YFP/+
pool of 5 E15.5 Ptf1a^YFP/+ [het] embryos	whole_organism	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	E15.5	ptf1a{tm1.1Mgn}	Ptf1a^YFP/+	Ptf1a het or null FACS- isolation (Magnuson lab)	Ptf1a^YFP/+	E15.5 Ptf1a^YFP/+ [het] cells	cell	RNA isolation: Trizol LS and DNA-free RNA Kit (Zymo Research)	E15.5 Ptf1a^YFP/+ [het] RNA library	synthetic_RNA	SINGLE	TRANSCRIPTOMIC	RNA-Seq	PCR	RNA-Seq Cluster Generation (Vanderbilt FGSR)	1.4.0	VUSM	E15.5 Ptf1a^YFP/+ [het] RNA library MAM-1b	43	high_throughput_sequencing	ERX009127	Solexa Genome Analyzer II Software: Sequencing	1.4.0	36	36	mam-1b_sequence.fq.gz	ee53ac61a1afb702973f30dfb5d65c25	mam-1b_sequence.fq.gz	ERR022721	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR022/ERR022721/ERR022721.fastq.gz	Bowtie on pooled runs (Magnuson)	0.11.3	mam-1_pool.bedg	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MTAB/E-MTAB-449/E-MTAB-449.processed.2.zip	Customized perl script for RNAseq quantification (Vanderbilt CHGR Computational Genomics Core)	AllRNA-SeqResults.xls	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MTAB/E-MTAB-449/E-MTAB-449.processed.1.zip	E15.5	Ptf1a^YFP/+
pool of 5 E15.5 Ptf1a^YFP/+ [het] embryos	whole_organism	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	E15.5	ptf1a{tm1.1Mgn}	Ptf1a^YFP/+	Ptf1a het or null FACS- isolation (Magnuson lab)	Ptf1a^YFP/+	E15.5 Ptf1a^YFP/+ [het] cells	cell	RNA isolation: Trizol LS and DNA-free RNA Kit (Zymo Research)	E15.5 Ptf1a^YFP/+ [het] RNA library	synthetic_RNA	SINGLE	TRANSCRIPTOMIC	RNA-Seq	PCR	RNA-Seq Cluster Generation (Vanderbilt FGSR)	1.4.0	VUSM	E15.5 Ptf1a^YFP/+ [het] RNA library MAM-1c	43	high_throughput_sequencing	ERX009128	Solexa Genome Analyzer II Software: Sequencing	1.4.0	36	44	mam-1c_sequence.fq.gz	7cff68d035e0b182c618f4113a4111c1	mam-1c_sequence.fq.gz	ERR022722	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR022/ERR022722/ERR022722.fastq.gz	Bowtie on pooled runs (Magnuson)	0.11.3	mam-1_pool.bedg	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MTAB/E-MTAB-449/E-MTAB-449.processed.2.zip	Customized perl script for RNAseq quantification (Vanderbilt CHGR Computational Genomics Core)	AllRNA-SeqResults.xls	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MTAB/E-MTAB-449/E-MTAB-449.processed.1.zip	E15.5	Ptf1a^YFP/+
pool of 13 E11.5 Ptf1a^YFP/+ [het] embryos	whole_organism	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	E11.5	ptf1a{tm1.1Mgn}	Ptf1a^YFP/+	Ptf1a het or null FACS- isolation (Magnuson lab)	Ptf1a^YFP/+	E11.5 Ptf1a^YFP/+ [het] cells	cell	RNA isolation: Trizol LS and DNA-free RNA Kit (Zymo Research)	E11.5 Ptf1a^YFP/+ [het] RNA library	synthetic_RNA	SINGLE	TRANSCRIPTOMIC	RNA-Seq	PCR	RNA-Seq Cluster Generation (Vanderbilt FGSR)	1.4.0	VUSM	E11.5 Ptf1a^YFP/+ [het] RNA library MAM-2a	43	high_throughput_sequencing	ERX009126	Solexa Genome Analyzer II Software: Sequencing	1.4.0	36	36	mam-2a_sequence.fq.gz	df2609c5b5b793a75ca4a8b33ab7f1e2	mam-2a_sequence.fq.gz	ERR022723	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR022/ERR022723/ERR022723.fastq.gz	Bowtie on pooled runs (Magnuson)	0.11.3	mam-2_pool.bedg	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MTAB/E-MTAB-449/E-MTAB-449.processed.3.zip	Customized perl script for RNAseq quantification (Vanderbilt CHGR Computational Genomics Core)	AllRNA-SeqResults.xls	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MTAB/E-MTAB-449/E-MTAB-449.processed.1.zip	E11.5	Ptf1a^YFP/+
pool of 13 E11.5 Ptf1a^YFP/+ [het] embryos	whole_organism	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	E11.5	ptf1a{tm1.1Mgn}	Ptf1a^YFP/+	Ptf1a het or null FACS- isolation (Magnuson lab)	Ptf1a^YFP/+	E11.5 Ptf1a^YFP/+ [het] cells	cell	RNA isolation: Trizol LS and DNA-free RNA Kit (Zymo Research)	E11.5 Ptf1a^YFP/+ [het] RNA library	synthetic_RNA	SINGLE	TRANSCRIPTOMIC	RNA-Seq	PCR	RNA-Seq Cluster Generation (Vanderbilt FGSR)	1.4.0	VUSM	E11.5 Ptf1a^YFP/+ [het] RNA library MAM-2b	43	high_throughput_sequencing	ERX009122	Solexa Genome Analyzer II Software: Sequencing	1.4.0	36	36	mam-2b_sequence.fq.gz	b77ab2f3f857c1b6399bcc20db19ba01	mam-2b_sequence.fq.gz	ERR022724	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR022/ERR022724/ERR022724.fastq.gz	Bowtie on pooled runs (Magnuson)	0.11.3	mam-2_pool.bedg	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MTAB/E-MTAB-449/E-MTAB-449.processed.3.zip	Customized perl script for RNAseq quantification (Vanderbilt CHGR Computational Genomics Core)	AllRNA-SeqResults.xls	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MTAB/E-MTAB-449/E-MTAB-449.processed.1.zip	E11.5	Ptf1a^YFP/+
pool of 13 E11.5 Ptf1a^YFP/+ [het] embryos	whole_organism	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	E11.5	ptf1a{tm1.1Mgn}	Ptf1a^YFP/+	Ptf1a het or null FACS- isolation (Magnuson lab)	Ptf1a^YFP/+	E11.5 Ptf1a^YFP/+ [het] cells	cell	RNA isolation: Trizol LS and DNA-free RNA Kit (Zymo Research)	E11.5 Ptf1a^YFP/+ [het] RNA library	synthetic_RNA	SINGLE	TRANSCRIPTOMIC	RNA-Seq	PCR	RNA-Seq Cluster Generation (Vanderbilt FGSR)	1.4.0	VUSM	E11.5 Ptf1a^YFP/+ [het] RNA library MAM-2c	43	high_throughput_sequencing	ERX009125	Solexa Genome Analyzer II Software: Sequencing	1.4.0	36	44	mam-2c_sequence.fq.gz	14a1c2fd20a4c0248ac873fdfb96a475	mam-2c_sequence.fq.gz	ERR022725	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR022/ERR022725/ERR022725.fastq.gz	Bowtie on pooled runs (Magnuson)	0.11.3	mam-2_pool.bedg	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MTAB/E-MTAB-449/E-MTAB-449.processed.3.zip	Customized perl script for RNAseq quantification (Vanderbilt CHGR Computational Genomics Core)	AllRNA-SeqResults.xls	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MTAB/E-MTAB-449/E-MTAB-449.processed.1.zip	E11.5	Ptf1a^YFP/+
pool of  9 E11.5 Ptf1a^YFP/YFP [null] embryos	whole_organism	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	E11.5	ptf1a{tm1.1Mgn}	Ptf1a^YFP/YFP	Ptf1a het or null FACS- isolation (Magnuson lab)	Ptf1a^YFP/YFP	E11.5 Ptf1a^YFP/YFP [null] cells	cell	RNA isolation: Trizol LS and DNA-free RNA Kit (Zymo Research)	E11.5 Ptf1a^YFP/YFP [null] RNA library	synthetic_RNA	SINGLE	TRANSCRIPTOMIC	RNA-Seq	PCR	RNA-Seq Cluster Generation (Vanderbilt FGSR)	1.4.0	VUSM	E11.5 Ptf1a^YFP/YFP [null] RNA library MAM-3a	43	high_throughput_sequencing	ERX009124	Solexa Genome Analyzer II Software: Sequencing	1.4.0	36	36	mam-3a_sequence.fq.gz	abb89a0bf096b1ba7a2e24870b8900cc	mam-3a_sequence.fq.gz	ERR022726	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR022/ERR022726/ERR022726.fastq.gz	Bowtie on pooled runs (Magnuson)	0.11.3	mam-3_pool.bedg	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MTAB/E-MTAB-449/E-MTAB-449.processed.4.zip	Customized perl script for RNAseq quantification (Vanderbilt CHGR Computational Genomics Core)	AllRNA-SeqResults.xls	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MTAB/E-MTAB-449/E-MTAB-449.processed.1.zip	E11.5	Ptf1a^YFP/YFP
pool of  9 E11.5 Ptf1a^YFP/YFP [null] embryos	whole_organism	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	E11.5	ptf1a{tm1.1Mgn}	Ptf1a^YFP/YFP	Ptf1a het or null FACS- isolation (Magnuson lab)	Ptf1a^YFP/YFP	E11.5 Ptf1a^YFP/YFP [null] cells	cell	RNA isolation: Trizol LS and DNA-free RNA Kit (Zymo Research)	E11.5 Ptf1a^YFP/YFP [null] RNA library	synthetic_RNA	SINGLE	TRANSCRIPTOMIC	RNA-Seq	PCR	RNA-Seq Cluster Generation (Vanderbilt FGSR)	1.4.0	VUSM	E11.5 Ptf1a^YFP/YFP [null] RNA library MAM-3b	43	high_throughput_sequencing	ERX009123	Solexa Genome Analyzer II Software: Sequencing	1.4.0	36	36	mam-3b_sequence.fq.gz	e9ca6070daff3f9a4a644a01a089f977	mam-3b_sequence.fq.gz	ERR022727	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR022/ERR022727/ERR022727.fastq.gz	Bowtie on pooled runs (Magnuson)	0.11.3	mam-3_pool.bedg	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MTAB/E-MTAB-449/E-MTAB-449.processed.4.zip	Customized perl script for RNAseq quantification (Vanderbilt CHGR Computational Genomics Core)	AllRNA-SeqResults.xls	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MTAB/E-MTAB-449/E-MTAB-449.processed.1.zip	E11.5	Ptf1a^YFP/YFP
pool of  9 E11.5 Ptf1a^YFP/YFP [null] embryos	whole_organism	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	E11.5	ptf1a{tm1.1Mgn}	Ptf1a^YFP/YFP	Ptf1a het or null FACS- isolation (Magnuson lab)	Ptf1a^YFP/YFP	E11.5 Ptf1a^YFP/YFP [null] cells	cell	RNA isolation: Trizol LS and DNA-free RNA Kit (Zymo Research)	E11.5 Ptf1a^YFP/YFP [null] RNA library	synthetic_RNA	SINGLE	TRANSCRIPTOMIC	RNA-Seq	PCR	RNA-Seq Cluster Generation (Vanderbilt FGSR)	1.4.0	VUSM	E11.5 Ptf1a^YFP/YFP [null] RNA library MAM-3c	43	high_throughput_sequencing	ERX009130	Solexa Genome Analyzer II Software: Sequencing	1.4.0	36	44	mam-3c_sequence.fq.gz	da7fdc6fbdb2939a4776e73513f53409	mam-3c_sequence.fq.gz	ERR022728	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR022/ERR022728/ERR022728.fastq.gz	Bowtie on pooled runs (Magnuson)	0.11.3	mam-3_pool.bedg	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MTAB/E-MTAB-449/E-MTAB-449.processed.4.zip	Customized perl script for RNAseq quantification (Vanderbilt CHGR Computational Genomics Core)	AllRNA-SeqResults.xls	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MTAB/E-MTAB-449/E-MTAB-449.processed.1.zip	E11.5	Ptf1a^YFP/YFP