metadata: run_metadata: 27 rows where experiment.library_selection = "Oligo-dT", tissue_curation = "Blood" and tissue_curation

27 rows where experiment.library_selection = "Oligo-dT", tissue_curation = "Blood" and tissue_curation_coarse = "Hematopoietic System"

descending

Link	rowid ▼	run.accession	experiment.accession	sample.accession	study.accession	bioproject	study.title	study.alias	study.type	study.abstract	study.attributes	sample.description	sample.title	sample.alias	sample.centername	sample.attributes	experiment.title	experiment.alias	experiment.library_name	experiment.design_description	experiment.library_strategy	experiment.library_source	experiment.library_selection	experiment.library_layout	experiment.platform	experiment.instrument_model	experiment.study_ref	run.title	run.attributes	run.filename	run.semantic_name	run.total_bases	run.total_spots	run.alias	run.read_lengths	run.base_counts	run.r1_length	run.r2_length	run.Acount	run.Ccount	run.Gcount	run.Tcount	run.Ncount	run.experiment	run.pool_member	submission.accession	submission.srasource	submission.bioprojectsource	seqdetective.n_mates	seqdetective.mapping_rate.mate1	seqdetective.mapping_rate.mate2	seqdetective.nofeature_rate.mate1	seqdetective.nofeature_rate.mate2	seqdetective.sparsity.mate1	seqdetective.sparsity.mate2	seqdetective.pos_strand_rate.mate1	seqdetective.pos_strand_rate.mate2	seqdetective.readlen.mate1	seqdetective.readlen.mate2	seqdetective.judgement.mate1	seqdetective.judgement.mate2	seqdetective.judgement.reason	platform_family	instrument_generation	read_bias	selection_class	prep_kit	sc_or_bulk	tech_class	technology	submission.bioprojectsource.country	earliest_date	devstage_curation	devstage_curation_coarse	tissue_curation	tissue_curation_coarse
8092	8092	ERR2402432	ERX2443286	ERS2295360	ERP107516	PRJEB25583	The transcriptome of Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	ena-STUDY-DPSQ-14-03-2018-19:09:10:340-151	Other	The zebrafish gene trap line qmc551 carries a gene trap transposon in intron 1 of the gene gfi1aa which a encodes a transcriptional repressor. The presence of the transposon interferes with the transcription of the gfi1aa gene during haematopoiesis. Despite the lack of Gfi1aa expression primitive red blood cell development appears to be normal due to functional redundancy with a second gene called gfi1b. Loss of Gfi1aa and Gfi1b protein expression in embryos that are homozygous for qmc551 and injected with gfi1b morpholinos leads to maturation defects in primitive red blood cells. Here we performed an RNA sequencing experiment to study the early programming of Gfi1aa and/or Gfi1b depleted primitive red blood cells. For this purpose we made use of the gene trap's gfp reporter gene expression in the primitive red blood cells to isolate these cells by fluorescence activated cell sorting from either qmc551 heterozygous or homozygous 20 hpf embryos that were or were not injected with the gfi1b morpholinos at the one cell stage. Batches of 200 embryos were dissociated in a Liberase Blendzyme solution. GFP positive primitive red blood cells were isolated by fluorescence activated cell sorting. 3 samples of between 1700 and 4000 cells were collected per batch. Total RNA was isolated from the cells of each of the 4 x 3 samples Het1 3 HetMO1 3 Hom1 3 and HomMO1 3 and used to generate full length cDNA of polyadenylated transcripts. Following cDNA amplification and library preparation paired end 75 bp reads were generated on the Illumina NextSeq500 sequencing platform.	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 03 14	Hom MO rep3	Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	SAMEA104693977	DPSQ	ENA FIRST PUBLIC:2018 10 12T17:03:15Z\|ENA LAST UPDATE:2018 03 14T19:09:14Z\|External Id:SAMEA104693977\|INSDC center name:DPSQ\|INSDC first public:2018 10 12T17:03:15Z\|INSDC last update:2018 03 14T19:09:14Z\|INSDC status:public\|Submitter Id:CM12\|common name:zebrafish\|sample name:CM12\|scientific name:Danio rerio	NextSeq 500 paired end sequencing	ena EXPERIMENT DPSQ 14 03 2018 19:09:09:420 12	unspecified	1	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	PAIRED	ILLUMINA	NextSeq 500	ERP107516	NextSeq 500 paired end sequencing	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 11 16	CM12.trimmed.read_1.fastq.gz CM12.trimmed.read_2.fastq.gz	fastq fastq	5384061477.0	38388598.0	ena RUN DPSQ 14 03 2018 19:09:09:420 12	0:70.70 1:69.55	A:1490429493;C:1197976503;G:1220014984;T:1475615043;N:25454	70	69	1490429493	1197976503	1220014984	1475615043	25454	ERX2443286	ERS2295360	ERA1246315	European Nucleotide Archive	Deep Seq department, Centre for Genetics and Genomics, The University of Nottingham, United Kingdom	2	0.92285	0.9206	0.06862	0.0688	0.73983	0.74566	0.4752	0.49125	76	75	B	B	biological fallback assumption	illumina	nextseq	full_length	poly_a	unknown	bulk	unknown	unknown	United Kingdom	2018-03-14	Undetermined	Embryo	Blood	Hematopoietic System
8093	8093	ERR2402431	ERX2443285	ERS2295359	ERP107516	PRJEB25583	The transcriptome of Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	ena-STUDY-DPSQ-14-03-2018-19:09:10:340-151	Other	The zebrafish gene trap line qmc551 carries a gene trap transposon in intron 1 of the gene gfi1aa which a encodes a transcriptional repressor. The presence of the transposon interferes with the transcription of the gfi1aa gene during haematopoiesis. Despite the lack of Gfi1aa expression primitive red blood cell development appears to be normal due to functional redundancy with a second gene called gfi1b. Loss of Gfi1aa and Gfi1b protein expression in embryos that are homozygous for qmc551 and injected with gfi1b morpholinos leads to maturation defects in primitive red blood cells. Here we performed an RNA sequencing experiment to study the early programming of Gfi1aa and/or Gfi1b depleted primitive red blood cells. For this purpose we made use of the gene trap's gfp reporter gene expression in the primitive red blood cells to isolate these cells by fluorescence activated cell sorting from either qmc551 heterozygous or homozygous 20 hpf embryos that were or were not injected with the gfi1b morpholinos at the one cell stage. Batches of 200 embryos were dissociated in a Liberase Blendzyme solution. GFP positive primitive red blood cells were isolated by fluorescence activated cell sorting. 3 samples of between 1700 and 4000 cells were collected per batch. Total RNA was isolated from the cells of each of the 4 x 3 samples Het1 3 HetMO1 3 Hom1 3 and HomMO1 3 and used to generate full length cDNA of polyadenylated transcripts. Following cDNA amplification and library preparation paired end 75 bp reads were generated on the Illumina NextSeq500 sequencing platform.	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 03 14	Hom MO rep2	Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	SAMEA104693976	DPSQ	ENA FIRST PUBLIC:2018 10 12T17:03:15Z\|ENA LAST UPDATE:2018 03 14T19:09:14Z\|External Id:SAMEA104693976\|INSDC center name:DPSQ\|INSDC first public:2018 10 12T17:03:15Z\|INSDC last update:2018 03 14T19:09:14Z\|INSDC status:public\|Submitter Id:CM11\|common name:zebrafish\|sample name:CM11\|scientific name:Danio rerio	NextSeq 500 paired end sequencing	ena EXPERIMENT DPSQ 14 03 2018 19:09:09:420 11	unspecified	1	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	PAIRED	ILLUMINA	NextSeq 500	ERP107516	NextSeq 500 paired end sequencing	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 11 16	CM11.trimmed.read_1.fastq.gz CM11.trimmed.read_2.fastq.gz	fastq fastq	5472085589.0	38860681.0	ena RUN DPSQ 14 03 2018 19:09:09:420 11	0:70.98 1:69.83	A:1514986213;C:1217661004;G:1240412104;T:1499000816;N:25452	70	69	1514986213	1217661004	1240412104	1499000816	25452	ERX2443285	ERS2295359	ERA1246315	European Nucleotide Archive	Deep Seq department, Centre for Genetics and Genomics, The University of Nottingham, United Kingdom	2	0.91987	0.91874	0.0693	0.07042	0.74042	0.74629	0.48229	0.49144	76	76	B	B	biological fallback assumption	illumina	nextseq	full_length	poly_a	unknown	bulk	unknown	unknown	United Kingdom	2018-03-14	Undetermined	Embryo	Blood	Hematopoietic System
8094	8094	ERR2402430	ERX2443284	ERS2295358	ERP107516	PRJEB25583	The transcriptome of Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	ena-STUDY-DPSQ-14-03-2018-19:09:10:340-151	Other	The zebrafish gene trap line qmc551 carries a gene trap transposon in intron 1 of the gene gfi1aa which a encodes a transcriptional repressor. The presence of the transposon interferes with the transcription of the gfi1aa gene during haematopoiesis. Despite the lack of Gfi1aa expression primitive red blood cell development appears to be normal due to functional redundancy with a second gene called gfi1b. Loss of Gfi1aa and Gfi1b protein expression in embryos that are homozygous for qmc551 and injected with gfi1b morpholinos leads to maturation defects in primitive red blood cells. Here we performed an RNA sequencing experiment to study the early programming of Gfi1aa and/or Gfi1b depleted primitive red blood cells. For this purpose we made use of the gene trap's gfp reporter gene expression in the primitive red blood cells to isolate these cells by fluorescence activated cell sorting from either qmc551 heterozygous or homozygous 20 hpf embryos that were or were not injected with the gfi1b morpholinos at the one cell stage. Batches of 200 embryos were dissociated in a Liberase Blendzyme solution. GFP positive primitive red blood cells were isolated by fluorescence activated cell sorting. 3 samples of between 1700 and 4000 cells were collected per batch. Total RNA was isolated from the cells of each of the 4 x 3 samples Het1 3 HetMO1 3 Hom1 3 and HomMO1 3 and used to generate full length cDNA of polyadenylated transcripts. Following cDNA amplification and library preparation paired end 75 bp reads were generated on the Illumina NextSeq500 sequencing platform.	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 03 14	Hom MO rep1	Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	SAMEA104693975	DPSQ	ENA FIRST PUBLIC:2018 10 12T17:03:15Z\|ENA LAST UPDATE:2018 03 14T19:09:14Z\|External Id:SAMEA104693975\|INSDC center name:DPSQ\|INSDC first public:2018 10 12T17:03:15Z\|INSDC last update:2018 03 14T19:09:14Z\|INSDC status:public\|Submitter Id:CM10\|common name:zebrafish\|sample name:CM10\|scientific name:Danio rerio	NextSeq 500 paired end sequencing	ena EXPERIMENT DPSQ 14 03 2018 19:09:09:420 10	unspecified	1	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	PAIRED	ILLUMINA	NextSeq 500	ERP107516	NextSeq 500 paired end sequencing	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 11 16	CM10.trimmed.read_1.fastq.gz CM10.trimmed.read_2.fastq.gz	fastq fastq	6091085806.0	43064771.0	ena RUN DPSQ 14 03 2018 19:09:09:420 10	0:71.33 1:70.11	A:1692450462;C:1348639943;G:1375433963;T:1674532019;N:29419	71	70	1692450462	1348639943	1375433963	1674532019	29419	ERX2443284	ERS2295358	ERA1246315	European Nucleotide Archive	Deep Seq department, Centre for Genetics and Genomics, The University of Nottingham, United Kingdom	2	0.92184	0.92064	0.0699	0.0704	0.74286	0.74874	0.48978	0.48997	75	73	B	B	biological fallback assumption	illumina	nextseq	full_length	poly_a	unknown	bulk	unknown	unknown	United Kingdom	2018-03-14	Undetermined	Embryo	Blood	Hematopoietic System
8095	8095	ERR2402429	ERX2443283	ERS2295357	ERP107516	PRJEB25583	The transcriptome of Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	ena-STUDY-DPSQ-14-03-2018-19:09:10:340-151	Other	The zebrafish gene trap line qmc551 carries a gene trap transposon in intron 1 of the gene gfi1aa which a encodes a transcriptional repressor. The presence of the transposon interferes with the transcription of the gfi1aa gene during haematopoiesis. Despite the lack of Gfi1aa expression primitive red blood cell development appears to be normal due to functional redundancy with a second gene called gfi1b. Loss of Gfi1aa and Gfi1b protein expression in embryos that are homozygous for qmc551 and injected with gfi1b morpholinos leads to maturation defects in primitive red blood cells. Here we performed an RNA sequencing experiment to study the early programming of Gfi1aa and/or Gfi1b depleted primitive red blood cells. For this purpose we made use of the gene trap's gfp reporter gene expression in the primitive red blood cells to isolate these cells by fluorescence activated cell sorting from either qmc551 heterozygous or homozygous 20 hpf embryos that were or were not injected with the gfi1b morpholinos at the one cell stage. Batches of 200 embryos were dissociated in a Liberase Blendzyme solution. GFP positive primitive red blood cells were isolated by fluorescence activated cell sorting. 3 samples of between 1700 and 4000 cells were collected per batch. Total RNA was isolated from the cells of each of the 4 x 3 samples Het1 3 HetMO1 3 Hom1 3 and HomMO1 3 and used to generate full length cDNA of polyadenylated transcripts. Following cDNA amplification and library preparation paired end 75 bp reads were generated on the Illumina NextSeq500 sequencing platform.	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 03 14	Hom uninj rep3	Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	SAMEA104693974	DPSQ	ENA FIRST PUBLIC:2018 10 12T17:03:15Z\|ENA LAST UPDATE:2018 03 14T19:09:14Z\|External Id:SAMEA104693974\|INSDC center name:DPSQ\|INSDC first public:2018 10 12T17:03:15Z\|INSDC last update:2018 03 14T19:09:14Z\|INSDC status:public\|Submitter Id:CM9\|common name:zebrafish\|sample name:CM9\|scientific name:Danio rerio	NextSeq 500 paired end sequencing	ena EXPERIMENT DPSQ 14 03 2018 19:09:09:420 9	unspecified	1	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	PAIRED	ILLUMINA	NextSeq 500	ERP107516	NextSeq 500 paired end sequencing	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 11 16	CM9.trimmed.read_1.fastq.gz CM9.trimmed.read_2.fastq.gz	fastq fastq	6329252570.0	45070159.0	ena RUN DPSQ 14 03 2018 19:09:09:420 9	0:70.79 1:69.64	A:1753489708;C:1407193617;G:1433449502;T:1735090181;N:29562	70	69	1753489708	1407193617	1433449502	1735090181	29562	ERX2443283	ERS2295357	ERA1246315	European Nucleotide Archive	Deep Seq department, Centre for Genetics and Genomics, The University of Nottingham, United Kingdom	2	0.91683	0.91616	0.06775	0.06825	0.75158	0.75737	0.49386	0.49199	76	75	B	B	biological fallback assumption	illumina	nextseq	full_length	poly_a	unknown	bulk	unknown	unknown	United Kingdom	2018-03-14	Undetermined	Embryo	Blood	Hematopoietic System
8096	8096	ERR2402428	ERX2443282	ERS2295356	ERP107516	PRJEB25583	The transcriptome of Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	ena-STUDY-DPSQ-14-03-2018-19:09:10:340-151	Other	The zebrafish gene trap line qmc551 carries a gene trap transposon in intron 1 of the gene gfi1aa which a encodes a transcriptional repressor. The presence of the transposon interferes with the transcription of the gfi1aa gene during haematopoiesis. Despite the lack of Gfi1aa expression primitive red blood cell development appears to be normal due to functional redundancy with a second gene called gfi1b. Loss of Gfi1aa and Gfi1b protein expression in embryos that are homozygous for qmc551 and injected with gfi1b morpholinos leads to maturation defects in primitive red blood cells. Here we performed an RNA sequencing experiment to study the early programming of Gfi1aa and/or Gfi1b depleted primitive red blood cells. For this purpose we made use of the gene trap's gfp reporter gene expression in the primitive red blood cells to isolate these cells by fluorescence activated cell sorting from either qmc551 heterozygous or homozygous 20 hpf embryos that were or were not injected with the gfi1b morpholinos at the one cell stage. Batches of 200 embryos were dissociated in a Liberase Blendzyme solution. GFP positive primitive red blood cells were isolated by fluorescence activated cell sorting. 3 samples of between 1700 and 4000 cells were collected per batch. Total RNA was isolated from the cells of each of the 4 x 3 samples Het1 3 HetMO1 3 Hom1 3 and HomMO1 3 and used to generate full length cDNA of polyadenylated transcripts. Following cDNA amplification and library preparation paired end 75 bp reads were generated on the Illumina NextSeq500 sequencing platform.	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 03 14	Hom uninj rep2	Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	SAMEA104693973	DPSQ	ENA FIRST PUBLIC:2018 10 12T17:03:15Z\|ENA LAST UPDATE:2018 03 14T19:09:14Z\|External Id:SAMEA104693973\|INSDC center name:DPSQ\|INSDC first public:2018 10 12T17:03:15Z\|INSDC last update:2018 03 14T19:09:14Z\|INSDC status:public\|Submitter Id:CM8\|common name:zebrafish\|sample name:CM8\|scientific name:Danio rerio	NextSeq 500 paired end sequencing	ena EXPERIMENT DPSQ 14 03 2018 19:09:09:420 8	unspecified	1	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	PAIRED	ILLUMINA	NextSeq 500	ERP107516	NextSeq 500 paired end sequencing	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 11 16	CM8.trimmed.read_1.fastq.gz CM8.trimmed.read_2.fastq.gz	fastq fastq	5405185494.0	38637007.0	ena RUN DPSQ 14 03 2018 19:09:09:420 8	0:70.45 1:69.44	A:1491577735;C:1206599147;G:1229354248;T:1477628006;N:26358	70	69	1491577735	1206599147	1229354248	1477628006	26358	ERX2443282	ERS2295356	ERA1246315	European Nucleotide Archive	Deep Seq department, Centre for Genetics and Genomics, The University of Nottingham, United Kingdom	2	0.91776	0.91567	0.07134	0.07241	0.7517	0.75716	0.47952	0.48745	73	73	B	B	biological fallback assumption	illumina	nextseq	full_length	poly_a	unknown	bulk	unknown	unknown	United Kingdom	2018-03-14	Undetermined	Embryo	Blood	Hematopoietic System
8097	8097	ERR2402427	ERX2443281	ERS2295355	ERP107516	PRJEB25583	The transcriptome of Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	ena-STUDY-DPSQ-14-03-2018-19:09:10:340-151	Other	The zebrafish gene trap line qmc551 carries a gene trap transposon in intron 1 of the gene gfi1aa which a encodes a transcriptional repressor. The presence of the transposon interferes with the transcription of the gfi1aa gene during haematopoiesis. Despite the lack of Gfi1aa expression primitive red blood cell development appears to be normal due to functional redundancy with a second gene called gfi1b. Loss of Gfi1aa and Gfi1b protein expression in embryos that are homozygous for qmc551 and injected with gfi1b morpholinos leads to maturation defects in primitive red blood cells. Here we performed an RNA sequencing experiment to study the early programming of Gfi1aa and/or Gfi1b depleted primitive red blood cells. For this purpose we made use of the gene trap's gfp reporter gene expression in the primitive red blood cells to isolate these cells by fluorescence activated cell sorting from either qmc551 heterozygous or homozygous 20 hpf embryos that were or were not injected with the gfi1b morpholinos at the one cell stage. Batches of 200 embryos were dissociated in a Liberase Blendzyme solution. GFP positive primitive red blood cells were isolated by fluorescence activated cell sorting. 3 samples of between 1700 and 4000 cells were collected per batch. Total RNA was isolated from the cells of each of the 4 x 3 samples Het1 3 HetMO1 3 Hom1 3 and HomMO1 3 and used to generate full length cDNA of polyadenylated transcripts. Following cDNA amplification and library preparation paired end 75 bp reads were generated on the Illumina NextSeq500 sequencing platform.	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 03 14	Hom uninj rep1	Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	SAMEA104693972	DPSQ	ENA FIRST PUBLIC:2018 10 12T17:03:15Z\|ENA LAST UPDATE:2018 03 14T19:09:14Z\|External Id:SAMEA104693972\|INSDC center name:DPSQ\|INSDC first public:2018 10 12T17:03:15Z\|INSDC last update:2018 03 14T19:09:14Z\|INSDC status:public\|Submitter Id:CM7\|common name:zebrafish\|sample name:CM7\|scientific name:Danio rerio	NextSeq 500 paired end sequencing	ena EXPERIMENT DPSQ 14 03 2018 19:09:09:420 7	unspecified	1	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	PAIRED	ILLUMINA	NextSeq 500	ERP107516	NextSeq 500 paired end sequencing	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 11 16	CM7.trimmed.read_1.fastq.gz CM7.trimmed.read_2.fastq.gz	fastq fastq	6262947202.0	44863127.0	ena RUN DPSQ 14 03 2018 19:09:09:420 7	0:70.28 1:69.32	A:1732018658;C:1394742098;G:1420957611;T:1715198292;N:30543	70	69	1732018658	1394742098	1420957611	1715198292	30543	ERX2443281	ERS2295355	ERA1246315	European Nucleotide Archive	Deep Seq department, Centre for Genetics and Genomics, The University of Nottingham, United Kingdom	2	0.91622	0.9144	0.0754	0.07588	0.74886	0.75371	0.48672	0.48471	76	76	B	B	biological fallback assumption	illumina	nextseq	full_length	poly_a	unknown	bulk	unknown	unknown	United Kingdom	2018-03-14	Undetermined	Embryo	Blood	Hematopoietic System
8098	8098	ERR2402426	ERX2443280	ERS2295354	ERP107516	PRJEB25583	The transcriptome of Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	ena-STUDY-DPSQ-14-03-2018-19:09:10:340-151	Other	The zebrafish gene trap line qmc551 carries a gene trap transposon in intron 1 of the gene gfi1aa which a encodes a transcriptional repressor. The presence of the transposon interferes with the transcription of the gfi1aa gene during haematopoiesis. Despite the lack of Gfi1aa expression primitive red blood cell development appears to be normal due to functional redundancy with a second gene called gfi1b. Loss of Gfi1aa and Gfi1b protein expression in embryos that are homozygous for qmc551 and injected with gfi1b morpholinos leads to maturation defects in primitive red blood cells. Here we performed an RNA sequencing experiment to study the early programming of Gfi1aa and/or Gfi1b depleted primitive red blood cells. For this purpose we made use of the gene trap's gfp reporter gene expression in the primitive red blood cells to isolate these cells by fluorescence activated cell sorting from either qmc551 heterozygous or homozygous 20 hpf embryos that were or were not injected with the gfi1b morpholinos at the one cell stage. Batches of 200 embryos were dissociated in a Liberase Blendzyme solution. GFP positive primitive red blood cells were isolated by fluorescence activated cell sorting. 3 samples of between 1700 and 4000 cells were collected per batch. Total RNA was isolated from the cells of each of the 4 x 3 samples Het1 3 HetMO1 3 Hom1 3 and HomMO1 3 and used to generate full length cDNA of polyadenylated transcripts. Following cDNA amplification and library preparation paired end 75 bp reads were generated on the Illumina NextSeq500 sequencing platform.	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 03 14	Het MO rep3	Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	SAMEA104693971	DPSQ	ENA FIRST PUBLIC:2018 10 12T17:03:15Z\|ENA LAST UPDATE:2018 03 14T19:09:14Z\|External Id:SAMEA104693971\|INSDC center name:DPSQ\|INSDC first public:2018 10 12T17:03:15Z\|INSDC last update:2018 03 14T19:09:14Z\|INSDC status:public\|Submitter Id:CM6\|common name:zebrafish\|sample name:CM6\|scientific name:Danio rerio	NextSeq 500 paired end sequencing	ena EXPERIMENT DPSQ 14 03 2018 19:09:09:420 6	unspecified	1	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	PAIRED	ILLUMINA	NextSeq 500	ERP107516	NextSeq 500 paired end sequencing	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 11 16	CM6.trimmed.read_1.fastq.gz CM6.trimmed.read_2.fastq.gz	fastq fastq	5819615834.0	41591499.0	ena RUN DPSQ 14 03 2018 19:09:09:420 6	0:70.47 1:69.45	A:1594833553;C:1309877713;G:1335153588;T:1579722744;N:28236	70	69	1594833553	1309877713	1335153588	1579722744	28236	ERX2443280	ERS2295354	ERA1246315	European Nucleotide Archive	Deep Seq department, Centre for Genetics and Genomics, The University of Nottingham, United Kingdom	2	0.92	0.9183	0.0573	0.05793	0.77362	0.778	0.47792	0.46987	76	75	B	B	biological fallback assumption	illumina	nextseq	full_length	poly_a	unknown	bulk	unknown	unknown	United Kingdom	2018-03-14	Undetermined	Embryo	Blood	Hematopoietic System
8099	8099	ERR2402425	ERX2443279	ERS2295353	ERP107516	PRJEB25583	The transcriptome of Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	ena-STUDY-DPSQ-14-03-2018-19:09:10:340-151	Other	The zebrafish gene trap line qmc551 carries a gene trap transposon in intron 1 of the gene gfi1aa which a encodes a transcriptional repressor. The presence of the transposon interferes with the transcription of the gfi1aa gene during haematopoiesis. Despite the lack of Gfi1aa expression primitive red blood cell development appears to be normal due to functional redundancy with a second gene called gfi1b. Loss of Gfi1aa and Gfi1b protein expression in embryos that are homozygous for qmc551 and injected with gfi1b morpholinos leads to maturation defects in primitive red blood cells. Here we performed an RNA sequencing experiment to study the early programming of Gfi1aa and/or Gfi1b depleted primitive red blood cells. For this purpose we made use of the gene trap's gfp reporter gene expression in the primitive red blood cells to isolate these cells by fluorescence activated cell sorting from either qmc551 heterozygous or homozygous 20 hpf embryos that were or were not injected with the gfi1b morpholinos at the one cell stage. Batches of 200 embryos were dissociated in a Liberase Blendzyme solution. GFP positive primitive red blood cells were isolated by fluorescence activated cell sorting. 3 samples of between 1700 and 4000 cells were collected per batch. Total RNA was isolated from the cells of each of the 4 x 3 samples Het1 3 HetMO1 3 Hom1 3 and HomMO1 3 and used to generate full length cDNA of polyadenylated transcripts. Following cDNA amplification and library preparation paired end 75 bp reads were generated on the Illumina NextSeq500 sequencing platform.	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 03 14	Het MO rep2	Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	SAMEA104693970	DPSQ	ENA FIRST PUBLIC:2018 10 12T17:03:15Z\|ENA LAST UPDATE:2018 03 14T19:09:14Z\|External Id:SAMEA104693970\|INSDC center name:DPSQ\|INSDC first public:2018 10 12T17:03:15Z\|INSDC last update:2018 03 14T19:09:14Z\|INSDC status:public\|Submitter Id:CM5\|common name:zebrafish\|sample name:CM5\|scientific name:Danio rerio	NextSeq 500 paired end sequencing	ena EXPERIMENT DPSQ 14 03 2018 19:09:09:420 5	unspecified	1	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	PAIRED	ILLUMINA	NextSeq 500	ERP107516	NextSeq 500 paired end sequencing	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 11 16	CM5.trimmed.read_1.fastq.gz CM5.trimmed.read_2.fastq.gz	fastq fastq	5573895202.0	39518227.0	ena RUN DPSQ 14 03 2018 19:09:09:420 5	0:71.02 1:70.03	A:1530297250;C:1251775796;G:1276506882;T:1515288256;N:27018	71	70	1530297250	1251775796	1276506882	1515288256	27018	ERX2443279	ERS2295353	ERA1246315	European Nucleotide Archive	Deep Seq department, Centre for Genetics and Genomics, The University of Nottingham, United Kingdom	2	0.92217	0.92081	0.06807	0.06843	0.76926	0.77441	0.45543	0.48098	76	75	B	B	biological fallback assumption	illumina	nextseq	full_length	poly_a	unknown	bulk	unknown	unknown	United Kingdom	2018-03-14	Undetermined	Embryo	Blood	Hematopoietic System
8100	8100	ERR2402424	ERX2443278	ERS2295352	ERP107516	PRJEB25583	The transcriptome of Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	ena-STUDY-DPSQ-14-03-2018-19:09:10:340-151	Other	The zebrafish gene trap line qmc551 carries a gene trap transposon in intron 1 of the gene gfi1aa which a encodes a transcriptional repressor. The presence of the transposon interferes with the transcription of the gfi1aa gene during haematopoiesis. Despite the lack of Gfi1aa expression primitive red blood cell development appears to be normal due to functional redundancy with a second gene called gfi1b. Loss of Gfi1aa and Gfi1b protein expression in embryos that are homozygous for qmc551 and injected with gfi1b morpholinos leads to maturation defects in primitive red blood cells. Here we performed an RNA sequencing experiment to study the early programming of Gfi1aa and/or Gfi1b depleted primitive red blood cells. For this purpose we made use of the gene trap's gfp reporter gene expression in the primitive red blood cells to isolate these cells by fluorescence activated cell sorting from either qmc551 heterozygous or homozygous 20 hpf embryos that were or were not injected with the gfi1b morpholinos at the one cell stage. Batches of 200 embryos were dissociated in a Liberase Blendzyme solution. GFP positive primitive red blood cells were isolated by fluorescence activated cell sorting. 3 samples of between 1700 and 4000 cells were collected per batch. Total RNA was isolated from the cells of each of the 4 x 3 samples Het1 3 HetMO1 3 Hom1 3 and HomMO1 3 and used to generate full length cDNA of polyadenylated transcripts. Following cDNA amplification and library preparation paired end 75 bp reads were generated on the Illumina NextSeq500 sequencing platform.	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 03 14	Het MO rep1	Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	SAMEA104693969	DPSQ	ENA FIRST PUBLIC:2018 10 12T17:03:15Z\|ENA LAST UPDATE:2018 03 14T19:09:14Z\|External Id:SAMEA104693969\|INSDC center name:DPSQ\|INSDC first public:2018 10 12T17:03:15Z\|INSDC last update:2018 03 14T19:09:14Z\|INSDC status:public\|Submitter Id:CM4\|common name:zebrafish\|sample name:CM4\|scientific name:Danio rerio	NextSeq 500 paired end sequencing	ena EXPERIMENT DPSQ 14 03 2018 19:09:09:420 4	unspecified	1	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	PAIRED	ILLUMINA	NextSeq 500	ERP107516	NextSeq 500 paired end sequencing	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 11 16	CM4.trimmed.read_1.fastq.gz CM4.trimmed.read_2.fastq.gz	fastq fastq	5803404091.0	41335851.0	ena RUN DPSQ 14 03 2018 19:09:09:420 4	0:70.72 1:69.67	A:1590577583;C:1305683925;G:1331895549;T:1575219146;N:27888	70	69	1590577583	1305683925	1331895549	1575219146	27888	ERX2443278	ERS2295352	ERA1246315	European Nucleotide Archive	Deep Seq department, Centre for Genetics and Genomics, The University of Nottingham, United Kingdom	2	0.9216	0.91971	0.05719	0.05738	0.77333	0.77761	0.47789	0.47244	76	74	B	B	biological fallback assumption	illumina	nextseq	full_length	poly_a	unknown	bulk	unknown	unknown	United Kingdom	2018-03-14	Undetermined	Embryo	Blood	Hematopoietic System
8101	8101	ERR2402423	ERX2443277	ERS2295351	ERP107516	PRJEB25583	The transcriptome of Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	ena-STUDY-DPSQ-14-03-2018-19:09:10:340-151	Other	The zebrafish gene trap line qmc551 carries a gene trap transposon in intron 1 of the gene gfi1aa which a encodes a transcriptional repressor. The presence of the transposon interferes with the transcription of the gfi1aa gene during haematopoiesis. Despite the lack of Gfi1aa expression primitive red blood cell development appears to be normal due to functional redundancy with a second gene called gfi1b. Loss of Gfi1aa and Gfi1b protein expression in embryos that are homozygous for qmc551 and injected with gfi1b morpholinos leads to maturation defects in primitive red blood cells. Here we performed an RNA sequencing experiment to study the early programming of Gfi1aa and/or Gfi1b depleted primitive red blood cells. For this purpose we made use of the gene trap's gfp reporter gene expression in the primitive red blood cells to isolate these cells by fluorescence activated cell sorting from either qmc551 heterozygous or homozygous 20 hpf embryos that were or were not injected with the gfi1b morpholinos at the one cell stage. Batches of 200 embryos were dissociated in a Liberase Blendzyme solution. GFP positive primitive red blood cells were isolated by fluorescence activated cell sorting. 3 samples of between 1700 and 4000 cells were collected per batch. Total RNA was isolated from the cells of each of the 4 x 3 samples Het1 3 HetMO1 3 Hom1 3 and HomMO1 3 and used to generate full length cDNA of polyadenylated transcripts. Following cDNA amplification and library preparation paired end 75 bp reads were generated on the Illumina NextSeq500 sequencing platform.	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 03 14	Het uninj rep3	Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	SAMEA104693968	DPSQ	ENA FIRST PUBLIC:2018 10 12T17:03:15Z\|ENA LAST UPDATE:2018 03 14T19:09:14Z\|External Id:SAMEA104693968\|INSDC center name:DPSQ\|INSDC first public:2018 10 12T17:03:15Z\|INSDC last update:2018 03 14T19:09:14Z\|INSDC status:public\|Submitter Id:CM3\|common name:zebrafish\|sample name:CM3\|scientific name:Danio rerio	NextSeq 500 paired end sequencing	ena EXPERIMENT DPSQ 14 03 2018 19:09:09:420 3	unspecified	1	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	PAIRED	ILLUMINA	NextSeq 500	ERP107516	NextSeq 500 paired end sequencing	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 11 16	CM3.trimmed.read_1.fastq.gz CM3.trimmed.read_2.fastq.gz	fastq fastq	5992797058.0	42390223.0	ena RUN DPSQ 14 03 2018 19:09:09:420 3	0:71.26 1:70.11	A:1639390320;C:1352082344;G:1378624207;T:1622672043;N:28144	71	70	1639390320	1352082344	1378624207	1622672043	28144	ERX2443277	ERS2295351	ERA1246315	European Nucleotide Archive	Deep Seq department, Centre for Genetics and Genomics, The University of Nottingham, United Kingdom	2	0.92104	0.92006	0.07044	0.07056	0.77506	0.78137	0.48154	0.46497	75	75	B	B	biological fallback assumption	illumina	nextseq	full_length	poly_a	unknown	bulk	unknown	unknown	United Kingdom	2018-03-14	Undetermined	Embryo	Blood	Hematopoietic System
8102	8102	ERR2402422	ERX2443276	ERS2295350	ERP107516	PRJEB25583	The transcriptome of Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	ena-STUDY-DPSQ-14-03-2018-19:09:10:340-151	Other	The zebrafish gene trap line qmc551 carries a gene trap transposon in intron 1 of the gene gfi1aa which a encodes a transcriptional repressor. The presence of the transposon interferes with the transcription of the gfi1aa gene during haematopoiesis. Despite the lack of Gfi1aa expression primitive red blood cell development appears to be normal due to functional redundancy with a second gene called gfi1b. Loss of Gfi1aa and Gfi1b protein expression in embryos that are homozygous for qmc551 and injected with gfi1b morpholinos leads to maturation defects in primitive red blood cells. Here we performed an RNA sequencing experiment to study the early programming of Gfi1aa and/or Gfi1b depleted primitive red blood cells. For this purpose we made use of the gene trap's gfp reporter gene expression in the primitive red blood cells to isolate these cells by fluorescence activated cell sorting from either qmc551 heterozygous or homozygous 20 hpf embryos that were or were not injected with the gfi1b morpholinos at the one cell stage. Batches of 200 embryos were dissociated in a Liberase Blendzyme solution. GFP positive primitive red blood cells were isolated by fluorescence activated cell sorting. 3 samples of between 1700 and 4000 cells were collected per batch. Total RNA was isolated from the cells of each of the 4 x 3 samples Het1 3 HetMO1 3 Hom1 3 and HomMO1 3 and used to generate full length cDNA of polyadenylated transcripts. Following cDNA amplification and library preparation paired end 75 bp reads were generated on the Illumina NextSeq500 sequencing platform.	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 03 14	Het uninj rep2	Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	SAMEA104693967	DPSQ	ENA FIRST PUBLIC:2018 10 12T17:03:15Z\|ENA LAST UPDATE:2018 03 14T19:09:14Z\|External Id:SAMEA104693967\|INSDC center name:DPSQ\|INSDC first public:2018 10 12T17:03:15Z\|INSDC last update:2018 03 14T19:09:14Z\|INSDC status:public\|Submitter Id:CM2\|common name:zebrafish\|sample name:CM2\|scientific name:Danio rerio	NextSeq 500 paired end sequencing	ena EXPERIMENT DPSQ 14 03 2018 19:09:09:420 2	unspecified	1	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	PAIRED	ILLUMINA	NextSeq 500	ERP107516	NextSeq 500 paired end sequencing	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 11 16	CM2.trimmed.read_2.fastq.gz CM2.trimmed.read_1.fastq.gz	fastq fastq	5611396868.0	39759688.0	ena RUN DPSQ 14 03 2018 19:09:09:420 2	0:71.11 1:70.02	A:1537234166;C:1262883447;G:1288444384;T:1522807333;N:27538	71	70	1537234166	1262883447	1288444384	1522807333	27538	ERX2443276	ERS2295350	ERA1246315	European Nucleotide Archive	Deep Seq department, Centre for Genetics and Genomics, The University of Nottingham, United Kingdom	2	0.91881	0.91733	0.06861	0.06958	0.77238	0.77883	0.48415	0.47367	76	73	B	B	biological fallback assumption	illumina	nextseq	full_length	poly_a	unknown	bulk	unknown	unknown	United Kingdom	2018-03-14	Undetermined	Embryo	Blood	Hematopoietic System
8103	8103	ERR2402421	ERX2443275	ERS2295349	ERP107516	PRJEB25583	The transcriptome of Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	ena-STUDY-DPSQ-14-03-2018-19:09:10:340-151	Other	The zebrafish gene trap line qmc551 carries a gene trap transposon in intron 1 of the gene gfi1aa which a encodes a transcriptional repressor. The presence of the transposon interferes with the transcription of the gfi1aa gene during haematopoiesis. Despite the lack of Gfi1aa expression primitive red blood cell development appears to be normal due to functional redundancy with a second gene called gfi1b. Loss of Gfi1aa and Gfi1b protein expression in embryos that are homozygous for qmc551 and injected with gfi1b morpholinos leads to maturation defects in primitive red blood cells. Here we performed an RNA sequencing experiment to study the early programming of Gfi1aa and/or Gfi1b depleted primitive red blood cells. For this purpose we made use of the gene trap's gfp reporter gene expression in the primitive red blood cells to isolate these cells by fluorescence activated cell sorting from either qmc551 heterozygous or homozygous 20 hpf embryos that were or were not injected with the gfi1b morpholinos at the one cell stage. Batches of 200 embryos were dissociated in a Liberase Blendzyme solution. GFP positive primitive red blood cells were isolated by fluorescence activated cell sorting. 3 samples of between 1700 and 4000 cells were collected per batch. Total RNA was isolated from the cells of each of the 4 x 3 samples Het1 3 HetMO1 3 Hom1 3 and HomMO1 3 and used to generate full length cDNA of polyadenylated transcripts. Following cDNA amplification and library preparation paired end 75 bp reads were generated on the Illumina NextSeq500 sequencing platform.	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 03 14	Het uninj rep1	Gfi1aa and/or Gfi1b depleted primitive red blood cells in zebrafish embryos	SAMEA104693966	DPSQ	ENA FIRST PUBLIC:2018 10 12T17:03:15Z\|ENA LAST UPDATE:2018 03 14T19:09:14Z\|External Id:SAMEA104693966\|INSDC center name:DPSQ\|INSDC first public:2018 10 12T17:03:15Z\|INSDC last update:2018 03 14T19:09:14Z\|INSDC status:public\|Submitter Id:CM1\|common name:zebrafish\|sample name:CM1\|scientific name:Danio rerio	NextSeq 500 paired end sequencing	ena EXPERIMENT DPSQ 14 03 2018 19:09:09:420 1	unspecified	1	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	PAIRED	ILLUMINA	NextSeq 500	ERP107516	NextSeq 500 paired end sequencing	ENA FIRST PUBLIC:2018 10 12\|ENA LAST UPDATE:2018 11 16	CM1.trimmed.read_1.fastq.gz CM1.trimmed.read_2.fastq.gz	fastq fastq	6229432533.0	44233290.0	ena RUN DPSQ 14 03 2018 19:09:09:420 1	0:70.98 1:69.85	A:1712806281;C:1395764700;G:1423415860;T:1697416127;N:29565	70	69	1712806281	1395764700	1423415860	1697416127	29565	ERX2443275	ERS2295349	ERA1246315	European Nucleotide Archive	Deep Seq department, Centre for Genetics and Genomics, The University of Nottingham, United Kingdom	2	0.91818	0.9169	0.07104	0.07095	0.77585	0.78066	0.47896	0.46653	56	56	B	B	biological fallback assumption	illumina	nextseq	full_length	poly_a	unknown	bulk	unknown	unknown	United Kingdom	2018-03-14	Undetermined	Embryo	Blood	Hematopoietic System
25304	25304	SRR25793376	SRX21515638	SRS18742880	SRP457465	PRJNA1010662	The miR 144/Hmgn2 regulatory axis orchestrates chromatin organization during erythropoiesis.	PRJNA1010662	Other	Differentiation of stem and progenitor cells is a highly regulated process that involves the coordinated action of multiple layers of regulation. Here we show how the post transcriptional regulatory layer instructs the chromatin regulation level via miR 144 and its targets to orchestrate chromatin condensation during erythropoiesis. The loss of miR 144 leads to impaired chromatin condensation during erythrocyte maturation.			RNA seq Erythrocytes miR 144 adult	miR 144 adult		isolate:miR 144 mutant\|age:Adult\|collection date:N/A\|geo loc name:N/A\|sex:mixed\|tissue:Blood\|BioSampleModel:Model organism or animal	Quant seq Erythrocytes miR 144 mutant Danio rerio ADULT replicate 1	144 1 adult blood	144 1 adult blood	Libraries were made using QuantSeq three prime mRNA Seq Library Prep Kit for IlluminaLexogen	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP457465			DC-144AL1_S10.fastq	fastq	781435052.0	17368946.0	DC 144AL1 S10.fastq	0:44.99	A:207445570;C:148430622;G:177122903;T:245179579;N:3256378	44		207445570	148430622	177122903	245179579	3256378	SRX21515638	SRS18742880	SRA1701831	University of East Anglia\|Biological Sciences	University of East Anglia	1	0.8759		0.28126		0.95051		0.47905		22		B		usable mapping rate	illumina	novaseq_era	3prime	poly_a	lexogen	bulk	unknown	unknown	United Kingdom	2023-08-30	Adult	Adult	Blood	Hematopoietic System
25305	25305	SRR25793377	SRX21515637	SRS18742882	SRP457465	PRJNA1010662	The miR 144/Hmgn2 regulatory axis orchestrates chromatin organization during erythropoiesis.	PRJNA1010662	Other	Differentiation of stem and progenitor cells is a highly regulated process that involves the coordinated action of multiple layers of regulation. Here we show how the post transcriptional regulatory layer instructs the chromatin regulation level via miR 144 and its targets to orchestrate chromatin condensation during erythropoiesis. The loss of miR 144 leads to impaired chromatin condensation during erythrocyte maturation.			RNA seq Erythrocytes Wild type adult	WT adult		isolate:Wildtype\|age:Adult\|collection date:N/A\|geo loc name:N/A\|sex:mixed\|tissue:Blood\|BioSampleModel:Model organism or animal	Quant seq Erythrocytes Wild type Danio rerio ADULT replicate 3	WT3 adult blood	WT3 adult blood	Libraries were made using QuantSeq three prime mRNA Seq Library Prep Kit for IlluminaLexogen	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP457465			DC-WTA3_S6.fastq	fastq	601997398.0	17290043.0	DC WTA3 S6.fastq	0:34.82	A:136034449;C:142779447;G:177204517;T:134955264;N:11023721	34		136034449	142779447	177204517	134955264	11023721	SRX21515637	SRS18742882	SRA1701831	University of East Anglia\|Biological Sciences	University of East Anglia	1	0.32909		0.08525		0.95288		0.60214		22		B		usable mapping rate	illumina	novaseq_era	3prime	poly_a	lexogen	bulk	unknown	unknown	United Kingdom	2023-08-30	Adult	Adult	Blood	Hematopoietic System
25306	25306	SRR25793378	SRX21515636	SRS18742882	SRP457465	PRJNA1010662	The miR 144/Hmgn2 regulatory axis orchestrates chromatin organization during erythropoiesis.	PRJNA1010662	Other	Differentiation of stem and progenitor cells is a highly regulated process that involves the coordinated action of multiple layers of regulation. Here we show how the post transcriptional regulatory layer instructs the chromatin regulation level via miR 144 and its targets to orchestrate chromatin condensation during erythropoiesis. The loss of miR 144 leads to impaired chromatin condensation during erythrocyte maturation.			RNA seq Erythrocytes Wild type adult	WT adult		isolate:Wildtype\|age:Adult\|collection date:N/A\|geo loc name:N/A\|sex:mixed\|tissue:Blood\|BioSampleModel:Model organism or animal	Quant seq Erythrocytes Wild type Danio rerio ADULT replicate 2	WT2 adult blood	WT2 adult blood	Libraries were made using QuantSeq three prime mRNA Seq Library Prep Kit for IlluminaLexogen	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP457465			DC-WTA2_S5.fastq	fastq	669871903.0	17381581.0	DC WTA2 S5.fastq	0:38.54	A:169704437;C:140964096;G:160484620;T:189596855;N:9121895	38		169704437	140964096	160484620	189596855	9121895	SRX21515636	SRS18742882	SRA1701831	University of East Anglia\|Biological Sciences	University of East Anglia	1	0.69865		0.19099		0.93432		0.47502		68		B		usable mapping rate	illumina	novaseq_era	3prime	poly_a	lexogen	bulk	unknown	unknown	United Kingdom	2023-08-30	Adult	Adult	Blood	Hematopoietic System
25307	25307	SRR25793379	SRX21515635	SRS18742882	SRP457465	PRJNA1010662	The miR 144/Hmgn2 regulatory axis orchestrates chromatin organization during erythropoiesis.	PRJNA1010662	Other	Differentiation of stem and progenitor cells is a highly regulated process that involves the coordinated action of multiple layers of regulation. Here we show how the post transcriptional regulatory layer instructs the chromatin regulation level via miR 144 and its targets to orchestrate chromatin condensation during erythropoiesis. The loss of miR 144 leads to impaired chromatin condensation during erythrocyte maturation.			RNA seq Erythrocytes Wild type adult	WT adult		isolate:Wildtype\|age:Adult\|collection date:N/A\|geo loc name:N/A\|sex:mixed\|tissue:Blood\|BioSampleModel:Model organism or animal	Quant seq Erythrocytes Wild type Danio rerio ADULT replicate 1	WT1 adult blood	WT1 adult blood	Libraries were made using QuantSeq three prime mRNA Seq Library Prep Kit for IlluminaLexogen	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP457465			DC-WTA1_S4.fastq	fastq	824193699.0	17465379.0	DC WTA1 S4.fastq	0:47.19	A:209553199;C:169966117;G:194322860;T:244145525;N:6205998	47		209553199	169966117	194322860	244145525	6205998	SRX21515635	SRS18742882	SRA1701831	University of East Anglia\|Biological Sciences	University of East Anglia	1	0.76241		0.25975		0.94619		0.50211		66		B		usable mapping rate	illumina	novaseq_era	3prime	poly_a	lexogen	bulk	unknown	unknown	United Kingdom	2023-08-30	Adult	Adult	Blood	Hematopoietic System
25308	25308	SRR25793380	SRX21515634	SRS18742881	SRP457465	PRJNA1010662	The miR 144/Hmgn2 regulatory axis orchestrates chromatin organization during erythropoiesis.	PRJNA1010662	Other	Differentiation of stem and progenitor cells is a highly regulated process that involves the coordinated action of multiple layers of regulation. Here we show how the post transcriptional regulatory layer instructs the chromatin regulation level via miR 144 and its targets to orchestrate chromatin condensation during erythropoiesis. The loss of miR 144 leads to impaired chromatin condensation during erythrocyte maturation.			RNA seq Erythrocytes miR 144 embryo	miR 144 embryo		isolate:miR 144 mutant\|age:Embryo\|collection date:N/A\|geo loc name:N/A\|sex:mixed\|tissue:Blood\|BioSampleModel:Model organism or animal	Quant seq Erythrocytes miR 144 mutant Danio rerio 2 dpf replicate 3	144 3 embryo blood	144 3 embryo blood	Libraries were made using QuantSeq three prime mRNA Seq Library Prep Kit for IlluminaLexogen	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP457465			DC-144EL3_S18.fastq	fastq	687309797.0	17039739.0	DC 144EL3 S18.fastq	0:40.34	A:159186558;C:130452893;G:155820002;T:181676510;N:60173834	40		159186558	130452893	155820002	181676510	60173834	SRX21515634	SRS18742881	SRA1701831	University of East Anglia\|Biological Sciences	University of East Anglia	1	0.52966		0.16941		0.97615		0.58418		61		B		usable mapping rate	illumina	novaseq_era	3prime	poly_a	lexogen	bulk	unknown	unknown	United Kingdom	2023-08-30	Hatching	Embryo	Blood	Hematopoietic System
25309	25309	SRR25793381	SRX21515633	SRS18742881	SRP457465	PRJNA1010662	The miR 144/Hmgn2 regulatory axis orchestrates chromatin organization during erythropoiesis.	PRJNA1010662	Other	Differentiation of stem and progenitor cells is a highly regulated process that involves the coordinated action of multiple layers of regulation. Here we show how the post transcriptional regulatory layer instructs the chromatin regulation level via miR 144 and its targets to orchestrate chromatin condensation during erythropoiesis. The loss of miR 144 leads to impaired chromatin condensation during erythrocyte maturation.			RNA seq Erythrocytes miR 144 embryo	miR 144 embryo		isolate:miR 144 mutant\|age:Embryo\|collection date:N/A\|geo loc name:N/A\|sex:mixed\|tissue:Blood\|BioSampleModel:Model organism or animal	Quant seq Erythrocytes miR 144 mutant Danio rerio 2 dpf replicate 2	144 2 embryo blood	144 2 embryo blood	Libraries were made using QuantSeq three prime mRNA Seq Library Prep Kit for IlluminaLexogen	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP457465			DC-144EL2_S17.fastq	fastq	495318731.0	14459195.0	DC 144EL2 S17.fastq	0:34.26	A:110392869;C:106378418;G:128881687;T:107956679;N:41709078	34		110392869	106378418	128881687	107956679	41709078	SRX21515633	SRS18742881	SRA1701831	University of East Anglia\|Biological Sciences	University of East Anglia	1	0.32147		0.04496		0.97569		0.58512		31		B		usable mapping rate	illumina	novaseq_era	3prime	poly_a	lexogen	bulk	unknown	unknown	United Kingdom	2023-08-30	Hatching	Embryo	Blood	Hematopoietic System
25310	25310	SRR25793382	SRX21515632	SRS18742881	SRP457465	PRJNA1010662	The miR 144/Hmgn2 regulatory axis orchestrates chromatin organization during erythropoiesis.	PRJNA1010662	Other	Differentiation of stem and progenitor cells is a highly regulated process that involves the coordinated action of multiple layers of regulation. Here we show how the post transcriptional regulatory layer instructs the chromatin regulation level via miR 144 and its targets to orchestrate chromatin condensation during erythropoiesis. The loss of miR 144 leads to impaired chromatin condensation during erythrocyte maturation.			RNA seq Erythrocytes miR 144 embryo	miR 144 embryo		isolate:miR 144 mutant\|age:Embryo\|collection date:N/A\|geo loc name:N/A\|sex:mixed\|tissue:Blood\|BioSampleModel:Model organism or animal	Quant seq Erythrocytes miR 144 mutant Danio rerio 2 dpf replicate 1	144 1 embryo blood	144 1 embryo blood	Libraries were made using QuantSeq three prime mRNA Seq Library Prep Kit for IlluminaLexogen	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP457465			DC-144EL1_S16.fastq	fastq	974854100.0	20079553.0	DC 144EL1 S16.fastq	0:48.55	A:233861010;C:192987350;G:215192262;T:269960344;N:62853134	48		233861010	192987350	215192262	269960344	62853134	SRX21515632	SRS18742881	SRA1701831	University of East Anglia\|Biological Sciences	University of East Anglia	1	0.77953		0.18084		0.90905		0.74157		75		B		usable mapping rate	illumina	novaseq_era	3prime	poly_a	lexogen	bulk	unknown	unknown	United Kingdom	2023-08-30	Hatching	Embryo	Blood	Hematopoietic System
25311	25311	SRR25793383	SRX21515631	SRS18742879	SRP457465	PRJNA1010662	The miR 144/Hmgn2 regulatory axis orchestrates chromatin organization during erythropoiesis.	PRJNA1010662	Other	Differentiation of stem and progenitor cells is a highly regulated process that involves the coordinated action of multiple layers of regulation. Here we show how the post transcriptional regulatory layer instructs the chromatin regulation level via miR 144 and its targets to orchestrate chromatin condensation during erythropoiesis. The loss of miR 144 leads to impaired chromatin condensation during erythrocyte maturation.			RNA seq Erythrocytes Wild type embryo	WT embryo		isolate:Wildtype\|age:Embryo\|collection date:N/A\|geo loc name:N/A\|sex:mixed\|tissue:Blood\|BioSampleModel:Model organism or animal	Quant seq Erythrocytes Wild type Danio rerio 2 dpf replicate 3	WT3 embryo blood	WT3 embryo blood	Libraries were made using QuantSeq three prime mRNA Seq Library Prep Kit for IlluminaLexogen	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP457465			DC-WTE3_S15.fastq	fastq	657139116.0	15618072.0	DC WTE3 S15.fastq	0:42.08	A:154495614;C:122942896;G:147719345;T:179403193;N:52578068	42		154495614	122942896	147719345	179403193	52578068	SRX21515631	SRS18742879	SRA1701831	University of East Anglia\|Biological Sciences	University of East Anglia	1	0.56358		0.19381		0.96757		0.6115		76		B		usable mapping rate	illumina	novaseq_era	3prime	poly_a	lexogen	bulk	unknown	unknown	United Kingdom	2023-08-30	Hatching	Embryo	Blood	Hematopoietic System
25312	25312	SRR25793384	SRX21515630	SRS18742880	SRP457465	PRJNA1010662	The miR 144/Hmgn2 regulatory axis orchestrates chromatin organization during erythropoiesis.	PRJNA1010662	Other	Differentiation of stem and progenitor cells is a highly regulated process that involves the coordinated action of multiple layers of regulation. Here we show how the post transcriptional regulatory layer instructs the chromatin regulation level via miR 144 and its targets to orchestrate chromatin condensation during erythropoiesis. The loss of miR 144 leads to impaired chromatin condensation during erythrocyte maturation.			RNA seq Erythrocytes miR 144 adult	miR 144 adult		isolate:miR 144 mutant\|age:Adult\|collection date:N/A\|geo loc name:N/A\|sex:mixed\|tissue:Blood\|BioSampleModel:Model organism or animal	Quant seq Erythrocytes miR 144 mutant Danio rerio ADULT replicate 3	144 3 adult blood	144 3 adult blood	Libraries were made using QuantSeq three prime mRNA Seq Library Prep Kit for IlluminaLexogen	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP457465			DC-144AL3_S12.fastq	fastq	498938612.0	14861511.0	DC 144AL3 S12.fastq	0:33.57	A:137243823;C:96735877;G:109220779;T:152042235;N:3695898	33		137243823	96735877	109220779	152042235	3695898	SRX21515630	SRS18742880	SRA1701831	University of East Anglia\|Biological Sciences	University of East Anglia	1	0.82213		0.16617		0.95053		0.46386		22		B		usable mapping rate	illumina	novaseq_era	3prime	poly_a	lexogen	bulk	unknown	unknown	United Kingdom	2023-08-30	Adult	Adult	Blood	Hematopoietic System
25313	25313	SRR25793385	SRX21515629	SRS18742880	SRP457465	PRJNA1010662	The miR 144/Hmgn2 regulatory axis orchestrates chromatin organization during erythropoiesis.	PRJNA1010662	Other	Differentiation of stem and progenitor cells is a highly regulated process that involves the coordinated action of multiple layers of regulation. Here we show how the post transcriptional regulatory layer instructs the chromatin regulation level via miR 144 and its targets to orchestrate chromatin condensation during erythropoiesis. The loss of miR 144 leads to impaired chromatin condensation during erythrocyte maturation.			RNA seq Erythrocytes miR 144 adult	miR 144 adult		isolate:miR 144 mutant\|age:Adult\|collection date:N/A\|geo loc name:N/A\|sex:mixed\|tissue:Blood\|BioSampleModel:Model organism or animal	Quant seq Erythrocytes miR 144 mutant Danio rerio ADULT replicate 2	144 2 adult blood	144 2 adult blood	Libraries were made using QuantSeq three prime mRNA Seq Library Prep Kit for IlluminaLexogen	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP457465			DC-144AL2_S11.fastq	fastq	497890134.0	10636306.0	DC 144AL2 S11.fastq	0:46.81	A:134598214;C:94036725;G:109501897;T:158719603;N:1033695	46		134598214	94036725	109501897	158719603	1033695	SRX21515629	SRS18742880	SRA1701831	University of East Anglia\|Biological Sciences	University of East Anglia	1	0.88496		0.29132		0.96002		0.53343		22		B		usable mapping rate	illumina	novaseq_era	3prime	poly_a	lexogen	bulk	unknown	unknown	United Kingdom	2023-08-30	Adult	Adult	Blood	Hematopoietic System
25314	25314	SRR25793386	SRX21515628	SRS18742879	SRP457465	PRJNA1010662	The miR 144/Hmgn2 regulatory axis orchestrates chromatin organization during erythropoiesis.	PRJNA1010662	Other	Differentiation of stem and progenitor cells is a highly regulated process that involves the coordinated action of multiple layers of regulation. Here we show how the post transcriptional regulatory layer instructs the chromatin regulation level via miR 144 and its targets to orchestrate chromatin condensation during erythropoiesis. The loss of miR 144 leads to impaired chromatin condensation during erythrocyte maturation.			RNA seq Erythrocytes Wild type embryo	WT embryo		isolate:Wildtype\|age:Embryo\|collection date:N/A\|geo loc name:N/A\|sex:mixed\|tissue:Blood\|BioSampleModel:Model organism or animal	Quant seq Erythrocytes Wild type Danio rerio 2 dpf replicate 2	WT2 embryo blood	WT2 embryo blood	Libraries were made using QuantSeq three prime mRNA Seq Library Prep Kit for IlluminaLexogen	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP457465			DC-WTE2_S14.fastq	fastq	250958009.0	9755304.0	DC WTE2 S14.fastq	0:25.73	A:43225839;C:41823862;G:54150092;T:43159724;N:68598492	25		43225839	41823862	54150092	43159724	68598492	SRX21515628	SRS18742879	SRA1701831	University of East Anglia\|Biological Sciences	University of East Anglia	1	0.34114		0.05466		0.96664		0.54625		47		B		usable mapping rate	illumina	novaseq_era	3prime	poly_a	lexogen	bulk	unknown	unknown	United Kingdom	2023-08-30	Hatching	Embryo	Blood	Hematopoietic System
25315	25315	SRR25793387	SRX21515627	SRS18742879	SRP457465	PRJNA1010662	The miR 144/Hmgn2 regulatory axis orchestrates chromatin organization during erythropoiesis.	PRJNA1010662	Other	Differentiation of stem and progenitor cells is a highly regulated process that involves the coordinated action of multiple layers of regulation. Here we show how the post transcriptional regulatory layer instructs the chromatin regulation level via miR 144 and its targets to orchestrate chromatin condensation during erythropoiesis. The loss of miR 144 leads to impaired chromatin condensation during erythrocyte maturation.			RNA seq Erythrocytes Wild type embryo	WT embryo		isolate:Wildtype\|age:Embryo\|collection date:N/A\|geo loc name:N/A\|sex:mixed\|tissue:Blood\|BioSampleModel:Model organism or animal	Quant seq Erythrocytes Wild type Danio rerio 2 dpf replicate 1	WT1 embryo blood	WT1 embryo blood	Libraries were made using QuantSeq three prime mRNA Seq Library Prep Kit for IlluminaLexogen	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	Illumina NovaSeq 6000	SRP457465			DC-WTE1_S13.fastq	fastq	816518564.0	19556325.0	DC WTE1 S13.fastq	0:41.75	A:187091550;C:151287428;G:179967901;T:221475884;N:76695801	41		187091550	151287428	179967901	221475884	76695801	SRX21515627	SRS18742879	SRA1701831	University of East Anglia\|Biological Sciences	University of East Anglia	1	0.61681		0.1874		0.95101		0.56879		29		B		usable mapping rate	illumina	novaseq_era	3prime	poly_a	lexogen	bulk	unknown	unknown	United Kingdom	2023-08-30	Hatching	Embryo	Blood	Hematopoietic System
55536	55536	SRR10532692	SRX7216663	SRS5719129	SRP233258	PRJNA591815	Ago2 dependent processing allows miR 451 to evade the global microRNA turnover elicited during erythropoiesis	PRJNA591815	Other	MicroRNAs are sequentially processed by two RNAse III enzymes Drosha and Dicer. miR 451 is the only known miRNA whose processing bypasses Dicer and instead relies on the slicer activity of Argonaute 2 Ago2. MiR 451 is highly conserved in vertebrates and regulates erythrocyte maturation where it becomes the most abundant miRNA. However the basis for the non canonical biogenesis of miR 451 is unclear. In this study we tested the hypothesis that miR 144 represses Dicer in a negative feedback loop during erythropoiesis and enhances miR 451 biogenesis. Loss of miR 144 mediated Dicer repression in zebrafish embryos and human cells leads to increased canonical miRNA production and impaired miR 451 maturation.				miR 451 mutant		isolate:Lab reared\|age:2 days\|sex:not applicable\|tissue:peripheral blood\|genotype:miR 451 / \|phenotype:wild type\|treatment:n1\|BioSampleModel:Model organism or animal	Transcriptomic profiling of peripheral blood from 2 dpf zebrafish embryos	mRNA Mut miR 451	mRNA Mut miR 451	mRNA libraries were cloned from polyA+ RNA isolated from peripheral blood of 2 dpf WT and mutant zebrafish embryos according to Illumina TruSeq protocol. Libraries were cloned and sequenced at Boston University Microarray and Sequencing core.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP233258			mRNA-miR-451.fastq.gz	fastq	7904410367.0	104613601.0	mRNA miR 451.fastq.gz	0:75.56 1:0	A:1795110678;C:2004074141;G:2113982350;T:1989843693;N:1399505	75	0	1795110678	2004074141	2113982350	1989843693	1399505	SRX7216663	SRS5719129	SRA1002853	University of East Anglia\|Biological Sciences	University of East Anglia	1	0.97314		0.03847		0.81744		0.4673		75		B		usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	United Kingdom	2019-11-26	Hatching	Embryo	Blood	Hematopoietic System
55537	55537	SRR10532693	SRX7216662	SRS5719128	SRP233258	PRJNA591815	Ago2 dependent processing allows miR 451 to evade the global microRNA turnover elicited during erythropoiesis	PRJNA591815	Other	MicroRNAs are sequentially processed by two RNAse III enzymes Drosha and Dicer. miR 451 is the only known miRNA whose processing bypasses Dicer and instead relies on the slicer activity of Argonaute 2 Ago2. MiR 451 is highly conserved in vertebrates and regulates erythrocyte maturation where it becomes the most abundant miRNA. However the basis for the non canonical biogenesis of miR 451 is unclear. In this study we tested the hypothesis that miR 144 represses Dicer in a negative feedback loop during erythropoiesis and enhances miR 451 biogenesis. Loss of miR 144 mediated Dicer repression in zebrafish embryos and human cells leads to increased canonical miRNA production and impaired miR 451 maturation.				miR 144 mutant		isolate:Lab reared\|age:2 days\|sex:not applicable\|tissue:peripheral blood\|genotype:miR 144 / \|phenotype:wild type\|treatment:n1\|BioSampleModel:Model organism or animal	Transcriptomic profiling of peripheral blood from 2 dpf zebrafish embryos	mRNA Mut miR 144	mRNA Mut miR 144	mRNA libraries were cloned from polyA+ RNA isolated from peripheral blood of 2 dpf WT and mutant zebrafish embryos according to Illumina TruSeq protocol. Libraries were cloned and sequenced at Boston University Microarray and Sequencing core.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP233258			mRNA-miR-144.fastq.gz	fastq	21666521349.0	286736059.0	mRNA miR 144.fastq.gz	0:75.56 1:0	A:4937891523;C:5429635867;G:5884853915;T:5410789187;N:3350857	75	0	4937891523	5429635867	5884853915	5410789187	3350857	SRX7216662	SRS5719128	SRA1002853	University of East Anglia\|Biological Sciences	University of East Anglia	1	0.97729		0.02379		0.84102		0.45517		76		B		usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	United Kingdom	2019-11-26	Hatching	Embryo	Blood	Hematopoietic System
55538	55538	SRR10532694	SRX7216661	SRS5719127	SRP233258	PRJNA591815	Ago2 dependent processing allows miR 451 to evade the global microRNA turnover elicited during erythropoiesis	PRJNA591815	Other	MicroRNAs are sequentially processed by two RNAse III enzymes Drosha and Dicer. miR 451 is the only known miRNA whose processing bypasses Dicer and instead relies on the slicer activity of Argonaute 2 Ago2. MiR 451 is highly conserved in vertebrates and regulates erythrocyte maturation where it becomes the most abundant miRNA. However the basis for the non canonical biogenesis of miR 451 is unclear. In this study we tested the hypothesis that miR 144 represses Dicer in a negative feedback loop during erythropoiesis and enhances miR 451 biogenesis. Loss of miR 144 mediated Dicer repression in zebrafish embryos and human cells leads to increased canonical miRNA production and impaired miR 451 maturation.				wild type		isolate:Lab reared\|age:2 days\|sex:not applicable\|tissue:peripheral blood\|genotype:wild type\|phenotype:wild type\|treatment:n1\|BioSampleModel:Model organism or animal	Transcriptomic profiling of peripheral blood from 2 dpf zebrafish embryos	mRNA WT	mRNA WT	mRNA libraries were cloned from polyA+ RNA isolated from peripheral blood of 2 dpf WT and mutant zebrafish embryos according to Illumina TruSeq protocol. Libraries were cloned and sequenced at Boston University Microarray and Sequencing core.	RNA-Seq	TRANSCRIPTOMIC	Oligo-dT	SINGLE	ILLUMINA	NextSeq 500	SRP233258			mRNA-WT.fastq.gz	fastq	5359234061.0	70925969.0	mRNA WT.fastq.gz	0:75.56 1:0	A:1229417939;C:1341096472;G:1448568683;T:1339375309;N:775658	75	0	1229417939	1341096472	1448568683	1339375309	775658	SRX7216661	SRS5719127	SRA1002853	University of East Anglia\|Biological Sciences	University of East Anglia	1	0.97314		0.02809		0.83179		0.40499		75		B		usable mapping rate	illumina	nextseq	unknown	poly_a	trueseq	bulk	unknown	unknown	United Kingdom	2019-11-26	Hatching	Embryo	Blood	Hematopoietic System

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CREATE TABLE run_metadata("run.accession" VARCHAR, "experiment.accession" VARCHAR, "sample.accession" VARCHAR, "study.accession" VARCHAR, bioproject VARCHAR, "study.title" VARCHAR, "study.alias" VARCHAR, "study.type" VARCHAR, "study.abstract" VARCHAR, "study.attributes" VARCHAR, "study.PMIDs" VARCHAR, "sample.description" VARCHAR, "sample.title" VARCHAR, "sample.alias" VARCHAR, "sample.centername" VARCHAR, "sample.attributes" VARCHAR, "GEOsample.title" VARCHAR, "GEOsample.dataprocessing" VARCHAR, "GEOsample.source" VARCHAR, "GEOsample.treatmentprotocol" VARCHAR, "GEOsample.extractprotocol" VARCHAR, "GEOsample.growthprotocol" VARCHAR, "GEOsample.characteristics" VARCHAR, "GEOsample.accession" VARCHAR, "experiment.title" VARCHAR, "experiment.alias" VARCHAR, "experiment.library_name" VARCHAR, "experiment.design_description" VARCHAR, "experiment.library_construction_protocol" VARCHAR, "experiment.attributes" VARCHAR, "experiment.library_strategy" VARCHAR, "experiment.library_source" VARCHAR, "experiment.library_selection" VARCHAR, "experiment.library_layout" VARCHAR, "experiment.platform" VARCHAR, "experiment.instrument_model" VARCHAR, "experiment.spot_descriptor" VARCHAR, "experiment.study_ref" VARCHAR, "run.title" VARCHAR, "run.attributes" VARCHAR, "run.filename" VARCHAR, "run.semantic_name" VARCHAR, "run.total_bases" DOUBLE, "run.total_spots" DOUBLE, "run.alias" VARCHAR, "run.read_lengths" VARCHAR, "run.base_counts" VARCHAR, "run.r1_length" BIGINT, "run.r2_length" BIGINT, "run.r3_length" BIGINT, "run.r4_length" BIGINT, "run.Acount" BIGINT, "run.Ccount" BIGINT, "run.Gcount" BIGINT, "run.Tcount" BIGINT, "run.Ncount" BIGINT, "run.experiment" VARCHAR, "run.pool_member" VARCHAR, "submission.accession" VARCHAR, "submission.srasource" VARCHAR, "submission.bioprojectsource" VARCHAR, "seqdetective.n_mates" BIGINT, "seqdetective.mapping_rate.mate1" DOUBLE, "seqdetective.mapping_rate.mate2" DOUBLE, "seqdetective.nofeature_rate.mate1" DOUBLE, "seqdetective.nofeature_rate.mate2" DOUBLE, "seqdetective.sparsity.mate1" DOUBLE, "seqdetective.sparsity.mate2" DOUBLE, "seqdetective.pos_strand_rate.mate1" DOUBLE, "seqdetective.pos_strand_rate.mate2" DOUBLE, "seqdetective.readlen.mate1" BIGINT, "seqdetective.readlen.mate2" BIGINT, "seqdetective.judgement.mate1" VARCHAR, "seqdetective.judgement.mate2" VARCHAR, "seqdetective.judgement.reason" VARCHAR, platform_family VARCHAR, instrument_generation VARCHAR, read_bias VARCHAR, selection_class VARCHAR, prep_kit VARCHAR, sc_or_bulk VARCHAR, tech_class VARCHAR, technology VARCHAR, tech_variant VARCHAR, "submission.bioprojectsource.country" VARCHAR, earliest_date DATE, devstage_curation VARCHAR, devstage_curation_coarse VARCHAR, tissue_curation VARCHAR, tissue_curation_coarse VARCHAR);;
CREATE INDEX idx_run_bioproject ON run_metadata(bioproject);;
CREATE INDEX idx_run_run_accession ON run_metadata("run.accession");;