rowid,run.accession,experiment.accession,sample.accession,study.accession,bioproject,study.title,study.alias,study.type,study.abstract,study.attributes,study.PMIDs,sample.description,sample.title,sample.alias,sample.centername,sample.attributes,GEOsample.title,GEOsample.dataprocessing,GEOsample.source,GEOsample.treatmentprotocol,GEOsample.extractprotocol,GEOsample.growthprotocol,GEOsample.characteristics,GEOsample.accession,experiment.title,experiment.alias,experiment.library_name,experiment.design_description,experiment.library_construction_protocol,experiment.attributes,experiment.library_strategy,experiment.library_source,experiment.library_selection,experiment.library_layout,experiment.platform,experiment.instrument_model,experiment.spot_descriptor,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.r3_length,run.r4_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,tech_variant,submission.bioprojectsource.country,earliest_date,devstage_curation,devstage_curation_coarse,tissue_curation,tissue_curation_coarse 64970,SRR14999363,SRX11311655,SRS9340853,SRP324442,PRJNA738523,Identification of chromatin states during zebrafish gastrulation using CUT&RUN and CUT&Tag,GSE178343,Other,Here we describe successful implementation of CUT&RUN for profiling protein DNA interactions in zebrafish embryos. We apply modified a CUT&RUN method to generate high resolution maps of enrichment for H3K4me3 H3K27me3 H3K9me3 and RNA polymerase II during zebrafish gastrulation. Using this data we identify a conserved subset of developmental genes that are enriched in both H3K4me3 and H3K27me3 during gastrulation and we demonstrate the increased effectiveness of CUT&RUN for detecting protein enrichment at repetitive sequences with reduced mappability. Our work demonstrates the power of combining CUT&RUN with the strengths of the zebrafish system to better understand the changing embryonic chromatin landscape and its roles in shaping development. Overall design: CUT&RUN in 6hpf zebrafish embryos for H3K27me3 H3K4me3 H3K9me3 and pol II. Experiments performed in duplicate with an IgG control.,,,,L 1,L 1,,strain:not collected|isolate:Similar in size|breed:AB wild type|ecotype:Illumina sequencing|age:4 months|dev stage:adult|sex:not collected|tissue:Liver and brain|biomaterial provider:CZRC|replicate:replicate =L 1|BioSampleModel:Model organism or animal,,,,,,,,,L 1,FRAS210007515 1r,FRAS210007515 1r,0.8g/L;h=96h;zebrafish,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP324442,,,L_96h_1_1.fq.gz L_96h_1_2.fq.gz,fastq fastq,6019278600.0,20064262.0,L 96h 1 1.fq.gz,0:150 1:150,A:1581092490;C:1430552191;G:1435208634;T:1572284027;N:141258,150,150,,,1581092490,1430552191,1435208634,1572284027,141258,SRX11311655,SRS9340853,SRA1252645,Shandong Normal University|School of geography and environment,"Genetics, University of Goergia",2,0.94261,0.9417,0.02923,0.02882,0.7051,0.70725,0.48809,0.49074,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,United States,2021-06-30,Adult,Adult,Multi-tissue,Multi-system 64971,SRR14999364,SRX11311654,SRS9340852,SRP324442,PRJNA738523,Identification of chromatin states during zebrafish gastrulation using CUT&RUN and CUT&Tag,GSE178343,Other,Here we describe successful implementation of CUT&RUN for profiling protein DNA interactions in zebrafish embryos. We apply modified a CUT&RUN method to generate high resolution maps of enrichment for H3K4me3 H3K27me3 H3K9me3 and RNA polymerase II during zebrafish gastrulation. Using this data we identify a conserved subset of developmental genes that are enriched in both H3K4me3 and H3K27me3 during gastrulation and we demonstrate the increased effectiveness of CUT&RUN for detecting protein enrichment at repetitive sequences with reduced mappability. Our work demonstrates the power of combining CUT&RUN with the strengths of the zebrafish system to better understand the changing embryonic chromatin landscape and its roles in shaping development. Overall design: CUT&RUN in 6hpf zebrafish embryos for H3K27me3 H3K4me3 H3K9me3 and pol II. Experiments performed in duplicate with an IgG control.,,,,C 3,C 3,,strain:not collected|isolate:Similar in size|breed:AB wild type|ecotype:Illumina sequencing|age:4 months|dev stage:adult|sex:not collected|tissue:Liver and brain|biomaterial provider:CZRC|replicate:replicate =C 3|BioSampleModel:Model organism or animal,,,,,,,,,C 3,FRAS210007514 3r,FRAS210007514 3r,0g/L;h=96h;zebrafish,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP324442,,,C_96h_3_1.fq.gz C_96h_3_2.fq.gz,fastq fastq,6857670600.0,22858902.0,C 96h 3 1.fq.gz,0:150 1:150,A:1841430105;C:1590688013;G:1597543269;T:1827853044;N:156169,150,150,,,1841430105,1590688013,1597543269,1827853044,156169,SRX11311654,SRS9340852,SRA1252645,Shandong Normal University|School of geography and environment,"Genetics, University of Goergia",2,0.93924,0.93826,0.0592,0.05873,0.65673,0.65766,0.49758,0.50371,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,United States,2021-06-30,Adult,Adult,Multi-tissue,Multi-system 64972,SRR14999365,SRX11311653,SRS9340851,SRP324442,PRJNA738523,Identification of chromatin states during zebrafish gastrulation using CUT&RUN and CUT&Tag,GSE178343,Other,Here we describe successful implementation of CUT&RUN for profiling protein DNA interactions in zebrafish embryos. We apply modified a CUT&RUN method to generate high resolution maps of enrichment for H3K4me3 H3K27me3 H3K9me3 and RNA polymerase II during zebrafish gastrulation. Using this data we identify a conserved subset of developmental genes that are enriched in both H3K4me3 and H3K27me3 during gastrulation and we demonstrate the increased effectiveness of CUT&RUN for detecting protein enrichment at repetitive sequences with reduced mappability. Our work demonstrates the power of combining CUT&RUN with the strengths of the zebrafish system to better understand the changing embryonic chromatin landscape and its roles in shaping development. Overall design: CUT&RUN in 6hpf zebrafish embryos for H3K27me3 H3K4me3 H3K9me3 and pol II. Experiments performed in duplicate with an IgG control.,,,,C 2,C 2,,strain:not collected|isolate:Similar in size|breed:AB wild type|ecotype:Illumina sequencing|age:4 months|dev stage:adult|sex:not collected|tissue:Liver and brain|biomaterial provider:CZRC|replicate:replicate =C 2|BioSampleModel:Model organism or animal,,,,,,,,,C 2,FRAS210007514 2r,FRAS210007514 2r,0g/L;h=96h;zebrafish,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP324442,,,C_96h_2_1.fq.gz C_96h_2_2.fq.gz,fastq fastq,6348703200.0,21162344.0,C 96h 2 1.fq.gz,0:150 1:150,A:1700541402;C:1478742180;G:1481199683;T:1688070707;N:149228,150,150,,,1700541402,1478742180,1481199683,1688070707,149228,SRX11311653,SRS9340851,SRA1252645,Shandong Normal University|School of geography and environment,"Genetics, University of Goergia",2,0.94135,0.94114,0.05775,0.0572,0.66101,0.66265,0.50778,0.50788,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,United States,2021-06-30,Adult,Adult,Multi-tissue,Multi-system 64973,SRR14999366,SRX11311652,SRS9340850,SRP324442,PRJNA738523,Identification of chromatin states during zebrafish gastrulation using CUT&RUN and CUT&Tag,GSE178343,Other,Here we describe successful implementation of CUT&RUN for profiling protein DNA interactions in zebrafish embryos. We apply modified a CUT&RUN method to generate high resolution maps of enrichment for H3K4me3 H3K27me3 H3K9me3 and RNA polymerase II during zebrafish gastrulation. Using this data we identify a conserved subset of developmental genes that are enriched in both H3K4me3 and H3K27me3 during gastrulation and we demonstrate the increased effectiveness of CUT&RUN for detecting protein enrichment at repetitive sequences with reduced mappability. Our work demonstrates the power of combining CUT&RUN with the strengths of the zebrafish system to better understand the changing embryonic chromatin landscape and its roles in shaping development. Overall design: CUT&RUN in 6hpf zebrafish embryos for H3K27me3 H3K4me3 H3K9me3 and pol II. Experiments performed in duplicate with an IgG control.,,,,C 1,C 1,,strain:not collected|isolate:Similar in size|breed:AB wild type|cultivar:not collected|ecotype:Illumina sequencing|age:4 months|dev stage:adult|sex:not collected|tissue:Liver and brain|biomaterial provider:CZRC|replicate:replicate =C 1|BioSampleModel:Model organism or animal,,,,,,,,,C 1,FRAS210007514 1r,FRAS210007514 1r,0g/L;h=96h;zebrafish,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP324442,,,C_96h_1_1.fq.gz C_96h_1_2.fq.gz,fastq fastq,6463471200.0,21544904.0,C 96h 1 1.fq.gz,0:150 1:150,A:1733784762;C:1501594175;G:1506005187;T:1721935805;N:151271,150,150,,,1733784762,1501594175,1506005187,1721935805,151271,SRX11311652,SRS9340850,SRA1252645,Shandong Normal University|School of geography and environment,"Genetics, University of Goergia",2,0.93808,0.93829,0.05961,0.05918,0.65884,0.65873,0.50462,0.50091,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,United States,2021-06-30,Adult,Adult,Multi-tissue,Multi-system 64974,SRR14999367,SRX11311651,SRS9340849,SRP324442,PRJNA738523,Identification of chromatin states during zebrafish gastrulation using CUT&RUN and CUT&Tag,GSE178343,Other,Here we describe successful implementation of CUT&RUN for profiling protein DNA interactions in zebrafish embryos. We apply modified a CUT&RUN method to generate high resolution maps of enrichment for H3K4me3 H3K27me3 H3K9me3 and RNA polymerase II during zebrafish gastrulation. Using this data we identify a conserved subset of developmental genes that are enriched in both H3K4me3 and H3K27me3 during gastrulation and we demonstrate the increased effectiveness of CUT&RUN for detecting protein enrichment at repetitive sequences with reduced mappability. Our work demonstrates the power of combining CUT&RUN with the strengths of the zebrafish system to better understand the changing embryonic chromatin landscape and its roles in shaping development. Overall design: CUT&RUN in 6hpf zebrafish embryos for H3K27me3 H3K4me3 H3K9me3 and pol II. Experiments performed in duplicate with an IgG control.,,,,H 3,H 3,,strain:not collected|isolate:Similar in size|breed:AB wild type|ecotype:Illumina sequencing|age:4 months|dev stage:adult|sex:not collected|tissue:Liver and brain|biomaterial provider:CZRC|replicate:replicate =H 3|BioSampleModel:Model organism or animal,,,,,,,,,H 3,FRAS210007516 3r,FRAS210007516 3r,2.0g/L;h=96h;zebrafish,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP324442,,,H_96h_3_1.fq.gz H_96h_3_2.fq.gz,fastq fastq,5638058700.0,18793529.0,H 96h 3 1.fq.gz,0:150 1:150,A:1495034040;C:1330177281;G:1330682910;T:1482034263;N:130206,150,150,,,1495034040,1330177281,1330682910,1482034263,130206,SRX11311651,SRS9340849,SRA1252645,Shandong Normal University|School of geography and environment,"Genetics, University of Goergia",2,0.93535,0.93491,0.02553,0.02529,0.72456,0.72474,0.50213,0.49962,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,United States,2021-06-30,Adult,Adult,Multi-tissue,Multi-system 64975,SRR14999368,SRX11311650,SRS9340848,SRP324442,PRJNA738523,Identification of chromatin states during zebrafish gastrulation using CUT&RUN and CUT&Tag,GSE178343,Other,Here we describe successful implementation of CUT&RUN for profiling protein DNA interactions in zebrafish embryos. We apply modified a CUT&RUN method to generate high resolution maps of enrichment for H3K4me3 H3K27me3 H3K9me3 and RNA polymerase II during zebrafish gastrulation. Using this data we identify a conserved subset of developmental genes that are enriched in both H3K4me3 and H3K27me3 during gastrulation and we demonstrate the increased effectiveness of CUT&RUN for detecting protein enrichment at repetitive sequences with reduced mappability. Our work demonstrates the power of combining CUT&RUN with the strengths of the zebrafish system to better understand the changing embryonic chromatin landscape and its roles in shaping development. Overall design: CUT&RUN in 6hpf zebrafish embryos for H3K27me3 H3K4me3 H3K9me3 and pol II. Experiments performed in duplicate with an IgG control.,,,,H 2,H 2,,strain:not collected|isolate:Similar in size|breed:AB wild type|ecotype:Illumina sequencing|age:4 months|dev stage:adult|sex:not collected|tissue:Liver and brain|biomaterial provider:CZRC|replicate:replicate =H 2|BioSampleModel:Model organism or animal,,,,,,,,,H 2,FRAS210007516 2r,FRAS210007516 2r,2.0g/L;h=96h;zebrafish,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP324442,,,H_96h_2_1.fq.gz H_96h_2_2.fq.gz,fastq fastq,6161230800.0,20537436.0,H 96h 2 1.fq.gz,0:150 1:150,A:1637006263;C:1449880253;G:1451565756;T:1622634286;N:144242,150,150,,,1637006263,1449880253,1451565756,1622634286,144242,SRX11311650,SRS9340848,SRA1252645,Shandong Normal University|School of geography and environment,"Genetics, University of Goergia",2,0.93477,0.93452,0.02553,0.02539,0.72395,0.72494,0.49506,0.49921,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,United States,2021-06-30,Adult,Adult,Multi-tissue,Multi-system 64976,SRR14999369,SRX11311649,SRS9340847,SRP324442,PRJNA738523,Identification of chromatin states during zebrafish gastrulation using CUT&RUN and CUT&Tag,GSE178343,Other,Here we describe successful implementation of CUT&RUN for profiling protein DNA interactions in zebrafish embryos. We apply modified a CUT&RUN method to generate high resolution maps of enrichment for H3K4me3 H3K27me3 H3K9me3 and RNA polymerase II during zebrafish gastrulation. Using this data we identify a conserved subset of developmental genes that are enriched in both H3K4me3 and H3K27me3 during gastrulation and we demonstrate the increased effectiveness of CUT&RUN for detecting protein enrichment at repetitive sequences with reduced mappability. Our work demonstrates the power of combining CUT&RUN with the strengths of the zebrafish system to better understand the changing embryonic chromatin landscape and its roles in shaping development. Overall design: CUT&RUN in 6hpf zebrafish embryos for H3K27me3 H3K4me3 H3K9me3 and pol II. Experiments performed in duplicate with an IgG control.,,,,H 1,H 1,,strain:not collected|isolate:Similar in size|breed:AB wild type|ecotype:Illumina sequencing|age:4 months|dev stage:adult|sex:not collected|tissue:Liver and brain|biomaterial provider:CZRC|replicate:replicate=H 1|BioSampleModel:Model organism or animal,,,,,,,,,H 1,FRAS210007516 1r,FRAS210007516 1r,2.0g/L;h=96h;zebrafish,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP324442,,,H_96h_1_1.fq.gz H_96h_1_2.fq.gz,fastq fastq,6624273900.0,22080913.0,H 96h 1 1.fq.gz,0:150 1:150,A:1755735186;C:1561147696;G:1566612960;T:1740622508;N:155550,150,150,,,1755735186,1561147696,1566612960,1740622508,155550,SRX11311649,SRS9340847,SRA1252645,Shandong Normal University|School of geography and environment,"Genetics, University of Goergia",2,0.93425,0.93322,0.0254,0.0252,0.72606,0.72669,0.50622,0.50832,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,United States,2021-06-30,Adult,Adult,Multi-tissue,Multi-system 64977,SRR14999370,SRX11311648,SRS9340845,SRP324442,PRJNA738523,Identification of chromatin states during zebrafish gastrulation using CUT&RUN and CUT&Tag,GSE178343,Other,Here we describe successful implementation of CUT&RUN for profiling protein DNA interactions in zebrafish embryos. We apply modified a CUT&RUN method to generate high resolution maps of enrichment for H3K4me3 H3K27me3 H3K9me3 and RNA polymerase II during zebrafish gastrulation. Using this data we identify a conserved subset of developmental genes that are enriched in both H3K4me3 and H3K27me3 during gastrulation and we demonstrate the increased effectiveness of CUT&RUN for detecting protein enrichment at repetitive sequences with reduced mappability. Our work demonstrates the power of combining CUT&RUN with the strengths of the zebrafish system to better understand the changing embryonic chromatin landscape and its roles in shaping development. Overall design: CUT&RUN in 6hpf zebrafish embryos for H3K27me3 H3K4me3 H3K9me3 and pol II. Experiments performed in duplicate with an IgG control.,,,,L 3,L 3,,strain:not collected|isolate:Similar in size|breed:AB wild type|ecotype:Illumina sequencing|age:4 months|dev stage:adult|sex:not collected|tissue:Liver and brain|biomaterial provider:CZRC|replicate:replicate =L 3|BioSampleModel:Model organism or animal,,,,,,,,,L 3,FRAS210007515 3r,FRAS210007515 3r,0.8g/L;h=96h;zebrafish,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP324442,,,L_96h_3_1.fq.gz L_96h_3_2.fq.gz,fastq fastq,6466250400.0,21554168.0,L 96h 3 1.fq.gz,0:150 1:150,A:1702486578;C:1534421173;G:1535282758;T:1693909718;N:150173,150,150,,,1702486578,1534421173,1535282758,1693909718,150173,SRX11311648,SRS9340845,SRA1252645,Shandong Normal University|School of geography and environment,"Genetics, University of Goergia",2,0.94324,0.94217,0.03039,0.02989,0.70278,0.70418,0.49161,0.49083,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,United States,2021-06-30,Adult,Adult,Multi-tissue,Multi-system 64978,SRR14999371,SRX11311647,SRS9340846,SRP324442,PRJNA738523,Identification of chromatin states during zebrafish gastrulation using CUT&RUN and CUT&Tag,GSE178343,Other,Here we describe successful implementation of CUT&RUN for profiling protein DNA interactions in zebrafish embryos. We apply modified a CUT&RUN method to generate high resolution maps of enrichment for H3K4me3 H3K27me3 H3K9me3 and RNA polymerase II during zebrafish gastrulation. Using this data we identify a conserved subset of developmental genes that are enriched in both H3K4me3 and H3K27me3 during gastrulation and we demonstrate the increased effectiveness of CUT&RUN for detecting protein enrichment at repetitive sequences with reduced mappability. Our work demonstrates the power of combining CUT&RUN with the strengths of the zebrafish system to better understand the changing embryonic chromatin landscape and its roles in shaping development. Overall design: CUT&RUN in 6hpf zebrafish embryos for H3K27me3 H3K4me3 H3K9me3 and pol II. Experiments performed in duplicate with an IgG control.,,,,L 2,L 2,,strain:not collected|isolate:Similar in size|breed:AB wild type|ecotype:Illumina sequencing|age:4 months|dev stage:adult|sex:not collected|tissue:Liver and brain|biomaterial provider:CZRC|replicate:replicate =L 2|BioSampleModel:Model organism or animal,,,,,,,,,L 2,FRAS210007515 2r,FRAS210007515 2r,0.8g/L;h=96h;zebrafish,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP324442,,,L_96h_2_1.fq.gz L_96h_2_2.fq.gz,fastq fastq,6804970800.0,22683236.0,L 96h 2 1.fq.gz,0:150 1:150,A:1788345091;C:1614590700;G:1621811406;T:1780069163;N:154440,150,150,,,1788345091,1614590700,1621811406,1780069163,154440,SRX11311647,SRS9340846,SRA1252645,Shandong Normal University|School of geography and environment,"Genetics, University of Goergia",2,0.94141,0.94045,0.03027,0.0302,0.70207,0.70234,0.48625,0.48905,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,United States,2021-06-30,Adult,Adult,Multi-tissue,Multi-system