Source Name	Comment[BioSD_SAMPLE]	Comment[ENA_SAMPLE]	Characteristics[organism]	Characteristics[cell line]	Characteristics[genotype]	Characteristics[RNA interference]	Characteristics[phenotype]	Material Type	Protocol REF	Performer	Protocol REF	Performer	Protocol REF	Performer	Extract Name	Comment[LIBRARY_LAYOUT]	Comment[LIBRARY_SELECTION]	Comment[LIBRARY_SOURCE]	Comment[LIBRARY_STRAND]	Comment[LIBRARY_STRATEGY]	Comment[NOMINAL_LENGTH]	Comment[NOMINAL_SDEV]	Comment[ORIENTATION]	Protocol REF	Performer	Assay Name	Technology Type	Comment[ENA_EXPERIMENT]	Scan Name	Comment[SUBMITTED_FILE_NAME]	Comment[ENA_RUN]	Comment[FASTQ_URI]	Comment[SPOT_LENGTH]	Comment[READ_INDEX_1_BASE_COORD]	Factor Value[genotype]	Factor Value[RNA interference]	Factor Value[phenotype]
Sample 1	SAMEA3860151	ERS1047285	Homo sapiens	MCF-7	expression of estrogen receptor β fused to C terminus tandem affinity purification tag	  	expression of estrogen receptor β	cell	P-MTAB-48437	Laboratory of Molecular Medicine  and Genomics	P-MTAB-48433	Laboratory of Molecular Medicine and Genomics	P-MTAB-48434	Laboratory of Molecular Medicine and Genomics	Sample 1	PAIRED	RANDOM	TRANSCRIPTOMIC	first strand	RNA-Seq	101	50	5'-3'-5'-3'	P-MTAB-48435	Laboratory of Molecular Medicine and Genomics	MCF7_CtERBeta_rep1_nascent_R	sequencing assay	ERX1303512	MCF7_CtERBeta_rep1_nascent_R1.fastq.gz	MCF7_CtERBeta_rep1_nascent_R1.fastq.gz	ERR1231573	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR123/003/ERR1231573/ERR1231573_1.fastq.gz	202	102	expression of estrogen receptor β fused to C terminus tandem affinity purification tag	  	expression of estrogen receptor β
Sample 1	SAMEA3860151	ERS1047285	Homo sapiens	MCF-7	expression of estrogen receptor β fused to C terminus tandem affinity purification tag	  	expression of estrogen receptor β	cell	P-MTAB-48437	Laboratory of Molecular Medicine  and Genomics	P-MTAB-48433	Laboratory of Molecular Medicine and Genomics	P-MTAB-48434	Laboratory of Molecular Medicine and Genomics	Sample 1	PAIRED	RANDOM	TRANSCRIPTOMIC	first strand	RNA-Seq	101	50	5'-3'-5'-3'	P-MTAB-48435	Laboratory of Molecular Medicine and Genomics	MCF7_CtERBeta_rep1_nascent_R	sequencing assay	ERX1303512	MCF7_CtERBeta_rep1_nascent_R2.fastq.gz	MCF7_CtERBeta_rep1_nascent_R2.fastq.gz	ERR1231573	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR123/003/ERR1231573/ERR1231573_2.fastq.gz	202	102	expression of estrogen receptor β fused to C terminus tandem affinity purification tag	  	expression of estrogen receptor β
Sample 10	SAMEA3860152	ERS1047286	Homo sapiens	MCF-7	  	shRNA targeting Ago2	no expression of estrogen receptor β / shAgo2	cell	P-MTAB-48432	Laboratory of Molecular Medicine and genomics	P-MTAB-48433	Laboratory of Molecular Medicine and Genomics	P-MTAB-48434	Laboratory of Molecular Medicine and Genomics	Sample 10	PAIRED	RANDOM	TRANSCRIPTOMIC	first strand	RNA-Seq	101	50	5'-3'-5'-3'	P-MTAB-48435	Laboratory of Molecular Medicine and Genomics	MCF7_shAgo2_rep2_nascent_R	sequencing assay	ERX1303513	MCF7_shAgo2_rep2_nascent_R1.fastq.gz	MCF7_shAgo2_rep2_nascent_R1.fastq.gz	ERR1231574	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR123/004/ERR1231574/ERR1231574_1.fastq.gz	202	102	  	shRNA targeting Ago2	no expression of estrogen receptor β / shAgo2
Sample 10	SAMEA3860152	ERS1047286	Homo sapiens	MCF-7	  	shRNA targeting Ago2	no expression of estrogen receptor β / shAgo2	cell	P-MTAB-48432	Laboratory of Molecular Medicine and genomics	P-MTAB-48433	Laboratory of Molecular Medicine and Genomics	P-MTAB-48434	Laboratory of Molecular Medicine and Genomics	Sample 10	PAIRED	RANDOM	TRANSCRIPTOMIC	first strand	RNA-Seq	101	50	5'-3'-5'-3'	P-MTAB-48435	Laboratory of Molecular Medicine and Genomics	MCF7_shAgo2_rep2_nascent_R	sequencing assay	ERX1303513	MCF7_shAgo2_rep2_nascent_R2.fastq.gz	MCF7_shAgo2_rep2_nascent_R2.fastq.gz	ERR1231574	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR123/004/ERR1231574/ERR1231574_2.fastq.gz	202	102	  	shRNA targeting Ago2	no expression of estrogen receptor β / shAgo2
Sample 2	SAMEA3860155	ERS1047289	Homo sapiens	MCF-7	expression of estrogen receptor β fused to C terminus tandem affinity purification tag	  	expression of estrogen receptor β	cell	P-MTAB-48437	Laboratory of Molecular Medicine  and Genomics	P-MTAB-48433	Laboratory of Molecular Medicine and Genomics	P-MTAB-48434	Laboratory of Molecular Medicine and Genomics	Sample 2	PAIRED	RANDOM	TRANSCRIPTOMIC	first strand	RNA-Seq	101	50	5'-3'-5'-3'	P-MTAB-48435	Laboratory of Molecular Medicine and Genomics	MCF7_CtERBeta_rep2_nascent_R	sequencing assay	ERX1303516	MCF7_CtERBeta_rep2_nascent_R1.fastq.gz	MCF7_CtERBeta_rep2_nascent_R1.fastq.gz	ERR1231577	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR123/007/ERR1231577/ERR1231577_1.fastq.gz	202	102	expression of estrogen receptor β fused to C terminus tandem affinity purification tag	  	expression of estrogen receptor β
Sample 2	SAMEA3860155	ERS1047289	Homo sapiens	MCF-7	expression of estrogen receptor β fused to C terminus tandem affinity purification tag	  	expression of estrogen receptor β	cell	P-MTAB-48437	Laboratory of Molecular Medicine  and Genomics	P-MTAB-48433	Laboratory of Molecular Medicine and Genomics	P-MTAB-48434	Laboratory of Molecular Medicine and Genomics	Sample 2	PAIRED	RANDOM	TRANSCRIPTOMIC	first strand	RNA-Seq	101	50	5'-3'-5'-3'	P-MTAB-48435	Laboratory of Molecular Medicine and Genomics	MCF7_CtERBeta_rep2_nascent_R	sequencing assay	ERX1303516	MCF7_CtERBeta_rep2_nascent_R2.fastq.gz	MCF7_CtERBeta_rep2_nascent_R2.fastq.gz	ERR1231577	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR123/007/ERR1231577/ERR1231577_2.fastq.gz	202	102	expression of estrogen receptor β fused to C terminus tandem affinity purification tag	  	expression of estrogen receptor β
Sample 3	SAMEA3860156	ERS1047290	Homo sapiens	MCF-7	expression of estrogen receptor β fused to C terminus tandem affinity purification tag	shRNA targeting Ago2	expression of estrogen receptor β / shAgo2	cell	P-MTAB-48432	Laboratory of Molecular Medicine and genomics	P-MTAB-48433	Laboratory of Molecular Medicine and Genomics	P-MTAB-48434	Laboratory of Molecular Medicine and Genomics	Sample 3	PAIRED	RANDOM	TRANSCRIPTOMIC	first strand	RNA-Seq	101	50	5'-3'-5'-3'	P-MTAB-48435	Laboratory of Molecular Medicine and Genomics	MCF7_CtERBeta_shAgo2_rep1_nascent_R	sequencing assay	ERX1303517	MCF7_CtERBeta_shAgo2_rep1_nascent_R1.fastq.gz	MCF7_CtERBeta_shAgo2_rep1_nascent_R1.fastq.gz	ERR1231578	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR123/008/ERR1231578/ERR1231578_1.fastq.gz	202	102	expression of estrogen receptor β fused to C terminus tandem affinity purification tag	shRNA targeting Ago2	expression of estrogen receptor β / shAgo2
Sample 3	SAMEA3860156	ERS1047290	Homo sapiens	MCF-7	expression of estrogen receptor β fused to C terminus tandem affinity purification tag	shRNA targeting Ago2	expression of estrogen receptor β / shAgo2	cell	P-MTAB-48432	Laboratory of Molecular Medicine and genomics	P-MTAB-48433	Laboratory of Molecular Medicine and Genomics	P-MTAB-48434	Laboratory of Molecular Medicine and Genomics	Sample 3	PAIRED	RANDOM	TRANSCRIPTOMIC	first strand	RNA-Seq	101	50	5'-3'-5'-3'	P-MTAB-48435	Laboratory of Molecular Medicine and Genomics	MCF7_CtERBeta_shAgo2_rep1_nascent_R	sequencing assay	ERX1303517	MCF7_CtERBeta_shAgo2_rep1_nascent_R2.fastq.gz	MCF7_CtERBeta_shAgo2_rep1_nascent_R2.fastq.gz	ERR1231578	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR123/008/ERR1231578/ERR1231578_2.fastq.gz	202	102	expression of estrogen receptor β fused to C terminus tandem affinity purification tag	shRNA targeting Ago2	expression of estrogen receptor β / shAgo2
Sample 4	SAMEA3860157	ERS1047291	Homo sapiens	MCF-7	expression of estrogen receptor β fused to C terminus tandem affinity purification tag	shRNA targeting Ago2	expression of estrogen receptor β / shAgo2	cell	P-MTAB-48432	Laboratory of Molecular Medicine and genomics	P-MTAB-48433	Laboratory of Molecular Medicine and Genomics	P-MTAB-48434	Laboratory of Molecular Medicine and Genomics	Sample 4	PAIRED	RANDOM	TRANSCRIPTOMIC	first strand	RNA-Seq	101	50	5'-3'-5'-3'	P-MTAB-48435	Laboratory of Molecular Medicine and Genomics	MCF7_CtERBeta__shAgo2_rep2_nascent_R	sequencing assay	ERX1303518	MCF7_CtERBeta__shAgo2_rep2_nascent_R1.fastq.gz	MCF7_CtERBeta__shAgo2_rep2_nascent_R1.fastq.gz	ERR1231579	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR123/009/ERR1231579/ERR1231579_1.fastq.gz	202	102	expression of estrogen receptor β fused to C terminus tandem affinity purification tag	shRNA targeting Ago2	expression of estrogen receptor β / shAgo2
Sample 4	SAMEA3860157	ERS1047291	Homo sapiens	MCF-7	expression of estrogen receptor β fused to C terminus tandem affinity purification tag	shRNA targeting Ago2	expression of estrogen receptor β / shAgo2	cell	P-MTAB-48432	Laboratory of Molecular Medicine and genomics	P-MTAB-48433	Laboratory of Molecular Medicine and Genomics	P-MTAB-48434	Laboratory of Molecular Medicine and Genomics	Sample 4	PAIRED	RANDOM	TRANSCRIPTOMIC	first strand	RNA-Seq	101	50	5'-3'-5'-3'	P-MTAB-48435	Laboratory of Molecular Medicine and Genomics	MCF7_CtERBeta__shAgo2_rep2_nascent_R	sequencing assay	ERX1303518	MCF7_CtERBeta__shAgo2_rep2_nascent_R2.fastq.gz	MCF7_CtERBeta__shAgo2_rep2_nascent_R2.fastq.gz	ERR1231579	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR123/009/ERR1231579/ERR1231579_2.fastq.gz	202	102	expression of estrogen receptor β fused to C terminus tandem affinity purification tag	shRNA targeting Ago2	expression of estrogen receptor β / shAgo2
Sample 7	SAMEA3860160	ERS1047294	Homo sapiens	MCF-7	  	  	no expression of estrogen receptor β	cell	P-MTAB-48437	Laboratory of Molecular Medicine  and Genomics	P-MTAB-48433	Laboratory of Molecular Medicine and Genomics	P-MTAB-48434	Laboratory of Molecular Medicine and Genomics	Sample 7	PAIRED	RANDOM	TRANSCRIPTOMIC	first strand	RNA-Seq	101	50	5'-3'-5'-3'	P-MTAB-48435	Laboratory of Molecular Medicine and Genomics	MCF7_rep1_nascent_R	sequencing assay	ERX1303521	MCF7_rep1_nascent_R1.fastq.gz	MCF7_rep1_nascent_R1.fastq.gz	ERR1231582	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR123/002/ERR1231582/ERR1231582_1.fastq.gz	202	102	  	  	no expression of estrogen receptor β
Sample 7	SAMEA3860160	ERS1047294	Homo sapiens	MCF-7	  	  	no expression of estrogen receptor β	cell	P-MTAB-48437	Laboratory of Molecular Medicine  and Genomics	P-MTAB-48433	Laboratory of Molecular Medicine and Genomics	P-MTAB-48434	Laboratory of Molecular Medicine and Genomics	Sample 7	PAIRED	RANDOM	TRANSCRIPTOMIC	first strand	RNA-Seq	101	50	5'-3'-5'-3'	P-MTAB-48435	Laboratory of Molecular Medicine and Genomics	MCF7_rep1_nascent_R	sequencing assay	ERX1303521	MCF7_rep1_nascent_R2.fastq.gz	MCF7_rep1_nascent_R2.fastq.gz	ERR1231582	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR123/002/ERR1231582/ERR1231582_2.fastq.gz	202	102	  	  	no expression of estrogen receptor β
Sample 8	SAMEA3860161	ERS1047295	Homo sapiens	MCF-7	  	  	no expression of estrogen receptor β	cell	P-MTAB-48437	Laboratory of Molecular Medicine  and Genomics	P-MTAB-48433	Laboratory of Molecular Medicine and Genomics	P-MTAB-48434	Laboratory of Molecular Medicine and Genomics	Sample 8	PAIRED	RANDOM	TRANSCRIPTOMIC	first strand	RNA-Seq	101	50	5'-3'-5'-3'	P-MTAB-48435	Laboratory of Molecular Medicine and Genomics	MCF7_rep2_nascent_R	sequencing assay	ERX1303522	MCF7_rep2_nascent_R1.fastq.gz	MCF7_rep2_nascent_R1.fastq.gz	ERR1231583	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR123/003/ERR1231583/ERR1231583_1.fastq.gz	202	102	  	  	no expression of estrogen receptor β
Sample 8	SAMEA3860161	ERS1047295	Homo sapiens	MCF-7	  	  	no expression of estrogen receptor β	cell	P-MTAB-48437	Laboratory of Molecular Medicine  and Genomics	P-MTAB-48433	Laboratory of Molecular Medicine and Genomics	P-MTAB-48434	Laboratory of Molecular Medicine and Genomics	Sample 8	PAIRED	RANDOM	TRANSCRIPTOMIC	first strand	RNA-Seq	101	50	5'-3'-5'-3'	P-MTAB-48435	Laboratory of Molecular Medicine and Genomics	MCF7_rep2_nascent_R	sequencing assay	ERX1303522	MCF7_rep2_nascent_R2.fastq.gz	MCF7_rep2_nascent_R2.fastq.gz	ERR1231583	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR123/003/ERR1231583/ERR1231583_2.fastq.gz	202	102	  	  	no expression of estrogen receptor β
Sample 9	SAMEA3860162	ERS1047296	Homo sapiens	MCF-7	  	shRNA targeting Ago2	no expression of estrogen receptor β / shAgo2	cell	P-MTAB-48432	Laboratory of Molecular Medicine and genomics	P-MTAB-48433	Laboratory of Molecular Medicine and Genomics	P-MTAB-48434	Laboratory of Molecular Medicine and Genomics	Sample 9	PAIRED	RANDOM	TRANSCRIPTOMIC	first strand	RNA-Seq	101	50	5'-3'-5'-3'	P-MTAB-48435	Laboratory of Molecular Medicine and Genomics	MCF7_shAgo2_rep1_nascent_R	sequencing assay	ERX1303523	MCF7_shAgo2_rep1_nascent_R1.fastq.gz	MCF7_shAgo2_rep1_nascent_R1.fastq.gz	ERR1231584	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR123/004/ERR1231584/ERR1231584_1.fastq.gz	202	102	  	shRNA targeting Ago2	no expression of estrogen receptor β / shAgo2
Sample 9	SAMEA3860162	ERS1047296	Homo sapiens	MCF-7	  	shRNA targeting Ago2	no expression of estrogen receptor β / shAgo2	cell	P-MTAB-48432	Laboratory of Molecular Medicine and genomics	P-MTAB-48433	Laboratory of Molecular Medicine and Genomics	P-MTAB-48434	Laboratory of Molecular Medicine and Genomics	Sample 9	PAIRED	RANDOM	TRANSCRIPTOMIC	first strand	RNA-Seq	101	50	5'-3'-5'-3'	P-MTAB-48435	Laboratory of Molecular Medicine and Genomics	MCF7_shAgo2_rep1_nascent_R	sequencing assay	ERX1303523	MCF7_shAgo2_rep1_nascent_R2.fastq.gz	MCF7_shAgo2_rep1_nascent_R2.fastq.gz	ERR1231584	ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR123/004/ERR1231584/ERR1231584_2.fastq.gz	202	102	  	shRNA targeting Ago2	no expression of estrogen receptor β / shAgo2