status: KILLED

text: RNA from whole blood

characteristic: ArrayExpress-CellType

characteristic: ArrayExpress-Compound

characteristic: ArrayExpress-DevelopmentalStage

characteristic: ArrayExpress-DiseaseState

characteristic: ArrayExpress-Dose

characteristic: ArrayExpress-Genotype

characteristic: ArrayExpress-GrowthCondition

characteristic: ArrayExpress-Immunoprecipitate

characteristic: ArrayExpress-OrganismPart

text: Normal

text: unknown

text: Homo sapiens

characteristic: ArrayExpress-TimePoint

text: SC

text: killed

characteristic: INSDC status

characteristic: SRA accession

text: RNA from whole blood derived from humans infected with Salmonella Typhi

characteristic: Sample Description

characteristic: Strain

text: 3663_T2___whole_blood_derived_from_typhoid_challenge-sc-1725399

text: human

text: Homo sapiens

text: Homo sapiens


text: RNA from whole blood

tag: attribute

text: Normal

characteristic: ArrayExpress-Phenotype

text: unknown

characteristic: ArrayExpress-Sex

text: Homo sapiens

characteristic: ArrayExpress-Species

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: killed

text: 1735_T2___whole_blood_derived_from_typhoid_challenge-sc-1725400

characteristic: Submitter Id

text: human

characteristic: common name

text: Homo sapiens

characteristic: organism

text: Homo sapiens


text: RNA from whole blood

characteristic: ArrayExpress-CellType

characteristic: ArrayExpress-Compound

characteristic: ArrayExpress-DevelopmentalStage

characteristic: ArrayExpress-DiseaseState

characteristic: ArrayExpress-Dose

characteristic: ArrayExpress-Genotype

characteristic: ArrayExpress-GrowthCondition

characteristic: ArrayExpress-Immunoprecipitate

characteristic: ArrayExpress-OrganismPart

text: Normal

text: unknown

text: Homo sapiens

characteristic: ArrayExpress-TimePoint

text: SC

text: killed

characteristic: INSDC status

text: 3415_T2___whole_blood_derived_from_typhoid_challenge-sc-1725401

text: human

text: Homo sapiens

text: Homo sapiens


text: RNA from whole blood

text: Normal

characteristic: ArrayExpress-Phenotype

text: unknown

characteristic: ArrayExpress-Sex

text: Homo sapiens

characteristic: ArrayExpress-Species

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC center name

text: killed

characteristic: SRA accession

characteristic: Sample Description

characteristic: Strain

text: 4559_T2___whole_blood_derived_from_typhoid_challenge-sc-1725402

text: human

text: Homo sapiens

text: Homo sapiens


text: RNA from whole blood

characteristic: ArrayExpress-CellType

characteristic: ArrayExpress-Compound

characteristic: ArrayExpress-DevelopmentalStage

characteristic: ArrayExpress-DiseaseState

characteristic: ArrayExpress-Dose

characteristic: ArrayExpress-Genotype

text: Normal

text: unknown

text: Homo sapiens

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: killed

text: 5180_T2___whole_blood_derived_from_typhoid_challenge-sc-1725403

characteristic: Submitter Id

text: human

characteristic: common name

text: Homo sapiens

characteristic: organism

text: Homo sapiens


text: RNA from whole blood

characteristic: ArrayExpress-GrowthCondition

characteristic: ArrayExpress-Immunoprecipitate

characteristic: ArrayExpress-OrganismPart

text: Normal

characteristic: ArrayExpress-Phenotype

text: unknown

characteristic: ArrayExpress-Sex

text: Homo sapiens

characteristic: ArrayExpress-Species

characteristic: ArrayExpress-TimePoint

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: killed

characteristic: INSDC status

text: 9932_T2___whole_blood_derived_from_typhoid_challenge-sc-1725404

text: human

text: Homo sapiens

text: Homo sapiens


text: RNA from whole blood

characteristic: ArrayExpress-CellType

characteristic: ArrayExpress-Compound

characteristic: ArrayExpress-DevelopmentalStage

characteristic: ArrayExpress-DiseaseState

characteristic: ArrayExpress-Dose

characteristic: ArrayExpress-Genotype

text: Normal

text: unknown

text: Homo sapiens

characteristic: External Id

text: SC

characteristic: INSDC center name

text: killed

characteristic: SRA accession

characteristic: Sample Description

characteristic: Strain

text: 4575_T2___whole_blood_derived_from_typhoid_challenge-sc-1725405

text: human

text: Homo sapiens

text: Homo sapiens


text: RNA from whole blood

characteristic: ArrayExpress-GrowthCondition

characteristic: ArrayExpress-Immunoprecipitate

characteristic: ArrayExpress-OrganismPart

text: Normal

characteristic: ArrayExpress-Phenotype

text: unknown

characteristic: ArrayExpress-Sex

text: Homo sapiens

characteristic: ArrayExpress-Species

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: killed

text: 7765_T2___whole_blood_derived_from_typhoid_challenge-sc-1725406

characteristic: Submitter Id

text: human

characteristic: common name

text: Homo sapiens

characteristic: organism

text: Homo sapiens


text: RNA from whole blood

characteristic: ArrayExpress-CellType

characteristic: ArrayExpress-Compound

characteristic: ArrayExpress-DevelopmentalStage

characteristic: ArrayExpress-DiseaseState

characteristic: ArrayExpress-Dose

characteristic: ArrayExpress-Genotype

text: Normal

text: unknown

text: Homo sapiens

characteristic: ArrayExpress-TimePoint

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: killed

characteristic: INSDC status

text: 7575_T2___whole_blood_derived_from_typhoid_challenge-sc-1725407

text: human

text: Homo sapiens

text: Homo sapiens


text: RNA from whole blood

characteristic: ArrayExpress-GrowthCondition

characteristic: ArrayExpress-Immunoprecipitate

characteristic: ArrayExpress-OrganismPart

text: Normal

characteristic: ArrayExpress-Phenotype

text: unknown

characteristic: ArrayExpress-Sex

text: Homo sapiens

characteristic: ArrayExpress-Species

characteristic: External Id

text: SC

characteristic: INSDC center name

text: killed

characteristic: SRA accession

characteristic: Sample Description

characteristic: Strain

text: 9180_T2___whole_blood_derived_from_typhoid_challenge-sc-1725408

text: human

text: Homo sapiens

text: Homo sapiens


text: RNA from whole blood

characteristic: ArrayExpress-CellType

characteristic: ArrayExpress-Compound

characteristic: ArrayExpress-DevelopmentalStage

characteristic: ArrayExpress-DiseaseState

characteristic: ArrayExpress-Dose

characteristic: ArrayExpress-Genotype

text: Normal

text: unknown

text: Homo sapiens

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: killed

text: 2467_T2___whole_blood_derived_from_typhoid_challenge-sc-1725409

characteristic: Submitter Id

text: human

characteristic: common name

text: Homo sapiens

characteristic: organism

text: Homo sapiens


text: RNA from whole blood

characteristic: ArrayExpress-GrowthCondition

characteristic: ArrayExpress-Immunoprecipitate

characteristic: ArrayExpress-OrganismPart

text: Normal

characteristic: ArrayExpress-Phenotype

text: unknown

characteristic: ArrayExpress-Sex

text: Homo sapiens

characteristic: ArrayExpress-Species

characteristic: ArrayExpress-TimePoint

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: killed

characteristic: INSDC status

text: 6425_T2___whole_blood_derived_from_typhoid_challenge-sc-1725410

text: human

text: Homo sapiens

text: Homo sapiens


text: RNA from whole blood

characteristic: ArrayExpress-CellType

characteristic: ArrayExpress-Compound

characteristic: ArrayExpress-DevelopmentalStage

characteristic: ArrayExpress-DiseaseState

characteristic: ArrayExpress-Dose

characteristic: ArrayExpress-Genotype

text: Normal

text: unknown

text: Homo sapiens

characteristic: External Id

text: SC

characteristic: INSDC center name

text: killed

characteristic: SRA accession

characteristic: Sample Description

characteristic: Strain

text: 528_T2___whole_blood_derived_from_typhoid_challenge-sc-1725411

text: human

text: Homo sapiens

text: Homo sapiens


text: RNA from whole blood

characteristic: ArrayExpress-GrowthCondition

characteristic: ArrayExpress-Immunoprecipitate

characteristic: ArrayExpress-OrganismPart

text: Normal

characteristic: ArrayExpress-Phenotype

text: unknown

characteristic: ArrayExpress-Sex

text: Homo sapiens

characteristic: ArrayExpress-Species

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: killed

text: 1640_T2___whole_blood_derived_from_typhoid_challenge-sc-1725412

characteristic: Submitter Id

text: human

characteristic: common name

text: Homo sapiens

characteristic: organism

text: Homo sapiens


text: RNA from whole blood

characteristic: ArrayExpress-CellType

characteristic: ArrayExpress-Compound

characteristic: ArrayExpress-DevelopmentalStage

characteristic: ArrayExpress-DiseaseState

characteristic: ArrayExpress-Dose

characteristic: ArrayExpress-Genotype

text: Normal

text: unknown

text: Homo sapiens

characteristic: ArrayExpress-TimePoint

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: killed

characteristic: INSDC status

text: 9956_T2___whole_blood_derived_from_typhoid_challenge-sc-1725413

text: human

text: Homo sapiens

text: Homo sapiens


text: RNA from whole blood

characteristic: ArrayExpress-GrowthCondition

characteristic: ArrayExpress-Immunoprecipitate

characteristic: ArrayExpress-OrganismPart

text: Normal

characteristic: ArrayExpress-Phenotype

text: unknown

characteristic: ArrayExpress-Sex

text: Homo sapiens

characteristic: ArrayExpress-Species

characteristic: External Id

text: SC

characteristic: INSDC center name

text: killed

characteristic: SRA accession

characteristic: Sample Description

characteristic: Strain

text: 2911_T2___whole_blood_derived_from_typhoid_challenge-sc-1725414

text: human

text: Homo sapiens

text: Homo sapiens


text: RNA from whole blood

characteristic: ArrayExpress-CellType

characteristic: ArrayExpress-Compound

characteristic: ArrayExpress-DevelopmentalStage

characteristic: ArrayExpress-DiseaseState

characteristic: ArrayExpress-Dose

characteristic: ArrayExpress-Genotype

text: Normal

text: unknown

text: Homo sapiens

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: killed

text: RNA from whole blood derived from humans infected with Salmonella Typhi

text: 3655_T2___whole_blood_derived_from_typhoid_challenge-sc-1725415

characteristic: Submitter Id

text: human

characteristic: common name

text: Homo sapiens

characteristic: organism

text: Homo sapiens


text: RNA from whole blood

characteristic: ArrayExpress-GrowthCondition

characteristic: ArrayExpress-Immunoprecipitate

characteristic: ArrayExpress-OrganismPart

text: Normal

characteristic: ArrayExpress-Phenotype

text: unknown

characteristic: ArrayExpress-Sex

text: Homo sapiens

characteristic: ArrayExpress-Species

characteristic: ArrayExpress-TimePoint

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: killed

characteristic: INSDC status

text: 2329_T2___whole_blood_derived_from_typhoid_challenge-sc-1725416

text: human

text: Homo sapiens

text: Homo sapiens


text: RNA from whole blood

characteristic: ArrayExpress-CellType

characteristic: ArrayExpress-Compound

characteristic: ArrayExpress-DevelopmentalStage

characteristic: ArrayExpress-DiseaseState

characteristic: ArrayExpress-Dose

characteristic: ArrayExpress-Genotype

text: Normal

text: unknown

text: Homo sapiens

characteristic: External Id

text: SC

characteristic: INSDC center name

text: killed

characteristic: SRA accession

characteristic: Sample Description

characteristic: Strain

text: 4811_T2___whole_blood_derived_from_typhoid_challenge-sc-1725417

text: human

text: Homo sapiens

text: Homo sapiens


text: RNA from whole blood

characteristic: ArrayExpress-GrowthCondition

characteristic: ArrayExpress-Immunoprecipitate

characteristic: ArrayExpress-OrganismPart

text: Normal

characteristic: ArrayExpress-Phenotype

text: unknown

characteristic: ArrayExpress-Sex

text: Homo sapiens

characteristic: ArrayExpress-Species

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: killed

text: 7367_T2___whole_blood_derived_from_typhoid_challenge-sc-1725418

characteristic: Submitter Id

text: human

characteristic: common name

text: Homo sapiens

characteristic: organism

text: Homo sapiens


status: PUBLIC

characteristic: ArrayExpress-DevelopmentalStage

characteristic: ArrayExpress-Genotype

text: Whole embryo

text: female

text: Mus musculus

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: public

characteristic: INSDC status

text: house mouse

text: Mus musculus

text: 3' end enriched mRNA from mutant mouse embryo of allele Ccdc134tm1a(KOMP)wtsi, see http://www.sanger.ac.uk/mouseportal/search?query=ccdc134 for more information. This study forms part of the Deciphering the Mechanisms of Developmental Disorders (DMDD) project. Read 1 comprises a 5 base indexing sequence (AGAAG) from bases 6 to 10 followed by polyT.

characteristic: sample description

text: Mus musculus


text: Whole embryo

text: female

text: Mus musculus

characteristic: External Id

text: SC

characteristic: INSDC center name

text: public

characteristic: SRA accession

text: house mouse

text: Mus musculus

text: 3' end enriched mRNA from mutant mouse embryo of allele Ccdc134tm1a(KOMP)wtsi, see http://www.sanger.ac.uk/mouseportal/search?query=ccdc134 for more information. This study forms part of the Deciphering the Mechanisms of Developmental Disorders (DMDD) project. Read 1 comprises a 5 base indexing sequence (GCACG) from bases 6 to 10 followed by polyT.

text: Mus musculus


text: Whole embryo

characteristic: ArrayExpress-OrganismPart

text: male

characteristic: ArrayExpress-Sex

text: Mus musculus

text: SC

text: public

text: ccdc134_tm1a_heterozygous_2_1-sc-1795975

text: house mouse

text: Mus musculus

text: 3' end enriched mRNA from mutant mouse embryo of allele Ccdc134tm1a(KOMP)wtsi, see http://www.sanger.ac.uk/mouseportal/search?query=ccdc134 for more information. This study forms part of the Deciphering the Mechanisms of Developmental Disorders (DMDD) project. Read 1 comprises a 5 base indexing sequence (CAAGA) from bases 6 to 10 followed by polyT.

text: Mus musculus


text: Whole embryo

text: male

text: Mus musculus

characteristic: ArrayExpress-Species

text: SC

characteristic: INSDC first public

text: public

text: ccdc134_tm1a_heterozygous_2_2-sc-1795976

text: house mouse

text: Mus musculus

text: 3' end enriched mRNA from mutant mouse embryo of allele Ccdc134tm1a(KOMP)wtsi, see http://www.sanger.ac.uk/mouseportal/search?query=ccdc134 for more information. This study forms part of the Deciphering the Mechanisms of Developmental Disorders (DMDD) project. Read 1 comprises a 5 base indexing sequence (CGGCC) from bases 6 to 10 followed by polyT.

text: Mus musculus


text: Whole embryo

text: male

text: Mus musculus

text: SC

characteristic: INSDC last update

text: public

text: ccdc134_tm1a_heterozygous_3_1-sc-1795977

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: 3' end enriched mRNA from mutant mouse embryo of allele Ccdc134tm1a(KOMP)wtsi, see http://www.sanger.ac.uk/mouseportal/search?query=ccdc134 for more information. This study forms part of the Deciphering the Mechanisms of Developmental Disorders (DMDD) project. Read 1 comprises a 5 base indexing sequence (ACGGG) from bases 6 to 10 followed by polyT.

text: Mus musculus


text: Whole embryo

text: male

text: Mus musculus

text: SC

text: public

text: ccdc134_tm1a_heterozygous_3_2-sc-1795978

text: house mouse

characteristic: common name

text: Mus musculus

characteristic: organism

text: 3' end enriched mRNA from mutant mouse embryo of allele Ccdc134tm1a(KOMP)wtsi, see http://www.sanger.ac.uk/mouseportal/search?query=ccdc134 for more information. This study forms part of the Deciphering the Mechanisms of Developmental Disorders (DMDD) project. Read 1 comprises a 5 base indexing sequence (AGCGC) from bases 6 to 10 followed by polyT.

text: Mus musculus


characteristic: ArrayExpress-DevelopmentalStage

characteristic: ArrayExpress-Genotype

text: Whole embryo

text: male

text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: 3' end enriched mRNA from mutant mouse embryo of allele Ccdc134tm1a(KOMP)wtsi, see http://www.sanger.ac.uk/mouseportal/search?query=ccdc134 for more information. This study forms part of the Deciphering the Mechanisms of Developmental Disorders (DMDD) project. Read 1 comprises a 5 base indexing sequence (GAGGC) from bases 6 to 10 followed by polyT.

text: Mus musculus


text: Whole embryo

text: male

text: Mus musculus

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: house mouse

text: Mus musculus

text: 3' end enriched mRNA from mutant mouse embryo of allele Ccdc134tm1a(KOMP)wtsi, see http://www.sanger.ac.uk/mouseportal/search?query=ccdc134 for more information. This study forms part of the Deciphering the Mechanisms of Developmental Disorders (DMDD) project. Read 1 comprises a 5 base indexing sequence (CAGAG) from bases 6 to 10 followed by polyT.

text: Mus musculus


text: Whole embryo

text: male

text: Mus musculus

characteristic: ENA-LAST-UPDATE

text: SC

text: public

characteristic: INSDC status

text: house mouse

text: Mus musculus

text: 3' end enriched mRNA from mutant mouse embryo of allele Ccdc134tm1a(KOMP)wtsi, see http://www.sanger.ac.uk/mouseportal/search?query=ccdc134 for more information. This study forms part of the Deciphering the Mechanisms of Developmental Disorders (DMDD) project. Read 1 comprises a 5 base indexing sequence (CGCAA) from bases 6 to 10 followed by polyT.

text: Mus musculus


text: Whole embryo

text: male

text: Mus musculus

characteristic: External Id

text: SC

text: public

text: house mouse

text: Mus musculus

text: 3' end enriched mRNA from mutant mouse embryo of allele Ccdc134tm1a(KOMP)wtsi, see http://www.sanger.ac.uk/mouseportal/search?query=ccdc134 for more information. This study forms part of the Deciphering the Mechanisms of Developmental Disorders (DMDD) project. Read 1 comprises a 5 base indexing sequence (GCCGA) from bases 6 to 10 followed by polyT.

characteristic: sample description

text: Mus musculus


text: Whole embryo

text: male

text: Mus musculus

text: SC

characteristic: INSDC center name

text: public

characteristic: SRA accession

text: ccdc134_tm1a_heterozygous_6_1-sc-1795983

text: house mouse

text: Mus musculus

text: 3' end enriched mRNA from mutant mouse embryo of allele Ccdc134tm1a(KOMP)wtsi, see http://www.sanger.ac.uk/mouseportal/search?query=ccdc134 for more information. This study forms part of the Deciphering the Mechanisms of Developmental Disorders (DMDD) project. Read 1 comprises a 5 base indexing sequence (AACCG) from bases 6 to 10 followed by polyT.

text: Mus musculus


text: Whole embryo

characteristic: ArrayExpress-OrganismPart

text: male

characteristic: ArrayExpress-Sex

text: Mus musculus

text: SC

text: public

text: ccdc134_tm1a_heterozygous_6_2-sc-1795984

text: house mouse

text: Mus musculus

text: 3' end enriched mRNA from mutant mouse embryo of allele Ccdc134tm1a(KOMP)wtsi, see http://www.sanger.ac.uk/mouseportal/search?query=ccdc134 for more information. This study forms part of the Deciphering the Mechanisms of Developmental Disorders (DMDD) project. Read 1 comprises a 5 base indexing sequence (CCAAC) from bases 6 to 10 followed by polyT.

text: Mus musculus


text: JIC

characteristic: INSDC first public

text: public

text: tomato

text: Solanum lycopersicum

text: Solanum lycopersicum

characteristic: title

type: has member


text: female

text: Mus Musculus

characteristic: ArrayExpress-Species

characteristic: ArrayExpress-TimePoint

text: SC

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: EpiSC

text: Mus musculus


text: female

text: Mus Musculus

text: SC

text: public

text: house mouse

characteristic: common name

text: Mus musculus

characteristic: organism

text: iPSC

text: Mus musculus


text: female

text: Mus Musculus

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: house mouse

text: Mus musculus

text: EpiSC

text: Mus musculus


text: Mus Musculus

characteristic: ENA-LAST-UPDATE

text: SC

text: public

characteristic: INSDC status

text: house mouse

text: Mus musculus

text: mESC

text: Mus musculus


characteristic: External Id

text: European Molecular Biology Laboratory

text: public

tag: Namespace:European Molecular Biology Laboratory

text: ArrayExpress

characteristic: broker name

text: baker's yeast

text: Protocols: Inoculate a 100 ml culture to OD 0.1 from a 5 ml of overnight growth of a single yeast colony in appropriate growth medium. Grow the temperature sensitive strain in permissive temperature (24C) to OD 1.0 and then apply heat shock by addition of hot (65C) growth medium to the growing cells to bring the culture temperature to 37C. Harvest the cells at the required time points after applying the heat shock. To extract total RNA yeast cells were lysed by vortexing with glass beads in 2ml tube with FastPrep. RNA was then cleaned by phenol:chlorophorm extraction followed by ethanol precipitation and DNase treatment. In summary 10 microgrammes of total RNA from budding yeast and 1 microgramme of total RNA from fission yeast was fragmented, purified, retrotranscribed, end-repaired, ligated, amplified and finally size selected. Full protocol is describe in An efficient method for genome-wide polyadenylation site mapping and RNA quantification Wilkening et al., 2013

characteristic: description

text: control

characteristic: genotype

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: mating type a

characteristic: sex

text: Mat a, his3 delta, leu2-3, ura3-52, rpb1::HIS3 with plasmid RY2522

characteristic: strain


text: European Molecular Biology Laboratory

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: ArrayExpress

text: baker's yeast

text: puf3 delta

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: mating type a

characteristic: title


text: ESC

characteristic: ArrayExpress-CellType

text: embryonic stem cell line

characteristic: ArrayExpress-DevelopmentalStage

text: AB2.2. Rex1-GFP

characteristic: ArrayExpress-Genotype

characteristic: ArrayExpress-GrowthCondition

text: male

characteristic: ArrayExpress-Sex

text: Mus Musculus

characteristic: ArrayExpress-Species

text: AB2.2. Rex1-GFP

characteristic: ArrayExpress-StrainOrLine

text: SC

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: mRNAseq Nextera library made from AB2.2 Rex1-GFP. Cells sorted using 5uM Hoechst staining for G1 phase and lysed on 5/12/2013

characteristic: sample description

text: Mus musculus

text: AB2.2. Rex1-GFP


text: ESC

text: embryonic stem cell line

text: AB2.2. Rex1-GFP

text: Mus Musculus

text: AB2.2. Rex1-GFP

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

text: public

characteristic: INSDC status

text: house mouse

characteristic: common name

text: Mus musculus

characteristic: organism

text: mRNAseq Nextera library made from AB2.2 Rex1-GFP. Cells sorted using 5uM Hoechst staining for G2M phase and lysed on 5/12/2013

text: Mus musculus

text: AB2.2. Rex1-GFP


text: ESC

characteristic: ArrayExpress-CellType

text: embryonic stem cell line

text: AB2.2. Rex1-GFP

text: Mus Musculus

text: AB2.2. Rex1-GFP

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: house mouse

text: Mus musculus

text: mRNAseq Nextera library made from AB2.2 Rex1-GFP. Cells sorted using 5uM Hoechst staining for G1 phase and lysed on 6/12/2013

text: Mus musculus

text: AB2.2. Rex1-GFP

characteristic: strain


text: ESC

text: embryonic stem cell line

characteristic: ArrayExpress-DevelopmentalStage

text: AB2.2. Rex1-GFP

characteristic: ArrayExpress-Genotype

characteristic: ArrayExpress-GrowthCondition

text: Mus Musculus

characteristic: ArrayExpress-Species

text: AB2.2. Rex1-GFP

text: SC

text: public

text: house mouse

text: Mus musculus

text: mRNAseq Nextera library made from AB2.2 Rex1-GFP. Cells sorted using 5uM Hoechst staining for S phase and lysed on 6/12/2013

text: Mus musculus

text: AB2.2. Rex1-GFP


text: Hospital Clinic de Barcelona

characteristic: INSDC last update

text: public

tag: Namespace:Hospital Clinic de Barcelona

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: embryonic stem cell

characteristic: cell type

text: human

text: Protocols: The differentiation protocol is described in Cho, C.H. et al. Inhibition of activin/nodal signalling is necessary for pancreatic differentiation of human pluripotent stem cells. Diabetologia 55, 3284-3295 (2012) In vitro human pancreatic progenitor cells were fixed, sonicated and processed for ChIP as described (van Arensbergen, J. et al. Genome Res 20:722, 2010) using 1-1.5ug of the following antibodies: rabbit anti-H3K4me1 (ab-8895), goat anti-Pdx1 (Chris Wright, BCBC AB2027), goat anti-FOXA2 (sc-6554), rabbit anti-GATA6 (sc-9055X), rabbit anti-HNF1B(sc-22840-X), rabbit anti-ONECUT1 (sc-13050). The immunoprecipitated DNA was modified for sequencing following the Illumina sequencing following the manufacturer protocol (Preparing Sample for ChIP Sequencing of DNA (11257047 Rev A)).

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

characteristic: title


text: male

characteristic: ArrayExpress-Sex

text: Mus musculus

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

text: public

characteristic: INSDC status

text: Lentiviral_mouse_genome_wide_gRNA_library_verion_1_preparation_2_replicated_on_plate_1-sc-1806289

text: house mouse

characteristic: common name

text: Mus musculus

characteristic: organism

text: PCR products

characteristic: sample description

text: Mus musculus


text: male

text: Mus musculus

characteristic: ArrayExpress-Species

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: Lentiviral_mouse_genome_wide_gRNA_library_verion_1_preparation_2_replicated_in_liquid_1-sc-1806290

text: house mouse

text: Mus musculus

text: PCR products

text: Mus musculus


characteristic: INSDC last update

text: public

tag: Namespace:Department of Plant and Environmental Sciences/CIGENE, Norwegian University of Life Sciences

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: bread wheat

text: Chinese Spring

characteristic: cultivar

text: Protocols: Bread wheat cv Chinese Spring plants were grown in phytotrone chambers with cycles of 16 h of light at 20C and darkness of 8h at 15C. Each room held 75 pots with three plants each. Plants were tagged at anthesis and the middle part of ears were harvested at 10, 20 and 30 DPA and stored at -80C. Seeds were dissected using dry ice and covered by RNAlater-ICE (Life Technologies, NY, USA) under the dissecting microscope. Embryos were removed and grains cut in slices for isolation of the aleuron layer, transfer cells and starchy endosperm. Dissected tissues were frozen in liquid nitrogen and stored at -80C for subsequent RNA isolation. Tissues from 15 pots per room were pooled before RNA isolation. Two replicate samples were made per room, giving a total of four replicates per tissue and time points. Total RNA was extracted from frozen plant material using the RNeasy Lipid Tissue Mini kit (QIAGEN, Hilden, Germany; http://www.qiagen.com/applications/plant). Illumina TruSeq RNA Sample Preparation Kits v2

text: 20 days post anthesis

characteristic: developmental stage

text: Triticum aestivum

text: Triticum aestivum

text: starchy endosperm

characteristic: organism part

text: Triticum aestivum

text: frozen specimen

characteristic: specimen with known storage state


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: Department of Plant and Environmental Sciences/CIGENE, Norwegian University of Life Sciences

text: public

text: ArrayExpress

text: bread wheat

text: Chinese Spring

characteristic: description

text: 20 days post anthesis

text: Triticum aestivum

text: Triticum aestivum

text: starchy endosperm

text: Triticum aestivum

text: frozen specimen

characteristic: title


characteristic: External Id

text: public

characteristic: INSDC status

text: ArrayExpress

text: bread wheat

characteristic: common name

text: Chinese Spring

text: 10 days post anthesis

text: Triticum aestivum

characteristic: organism

text: Triticum aestivum

text: whole endosperm

text: Triticum aestivum

text: frozen specimen


characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: ArrayExpress

text: bread wheat

text: Chinese Spring

text: 30 days post anthesis

text: Triticum aestivum

text: Triticum aestivum

text: starchy endosperm

text: Triticum aestivum

text: frozen specimen


characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: bread wheat

text: Chinese Spring

text: 20 days post anthesis

text: Triticum aestivum

text: Triticum aestivum

text: aleuron layer

text: Triticum aestivum

text: frozen specimen


text: public

text: ArrayExpress

text: bread wheat

text: Chinese Spring

characteristic: cultivar

text: 30 days post anthesis

characteristic: developmental stage

text: Triticum aestivum

text: Triticum aestivum

text: aleuron layer and starchy endosperm

characteristic: organism part

text: Triticum aestivum

text: frozen specimen


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: ArrayExpress

text: bread wheat

text: Chinese Spring

text: 20 days post anthesis

text: Triticum aestivum

text: Triticum aestivum

text: whole endosperm

text: Triticum aestivum

text: frozen specimen

characteristic: specimen with known storage state


characteristic: ENA-LAST-UPDATE

text: public

text: ArrayExpress

text: bread wheat

text: Chinese Spring

characteristic: description

text: 20 days post anthesis

text: Triticum aestivum

text: Triticum aestivum

text: transfer cells

text: Triticum aestivum

text: frozen specimen

characteristic: title


text: Homo Sapien

characteristic: ArrayExpress-Species

characteristic: External Id

text: SC

text: public

characteristic: INSDC status

text: human

characteristic: common name

text: Homo sapiens

text: Homo sapiens


characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

tag: Namespace:Department of Biochemistry, University of Cambridge, UK

text: ArrayExpress

text: fission yeast

text: Protocols: Cells were grown in yeast extract medium (Moreno et al., 1991, Methods Enzymol. 194, 795-823) at 32C, incubated for 5 minutes with 100 ug/ml cycloheximide, pelleted at 4C and frozen in liquid N2 RNA was extracted using a hot phenol extraction method as described in Lyne et al. (2003) BMC Genomics 4:27. Polyadenylated RNA was purified from 150 ug of total RNA using oligo-dT25 magnetic beads (Life Technologies) following the manufacturers instructions. Purified mRNA was fragmented by mixing 20 ul of mRNA with 20 ul of 2X alkaline fragmentation buffer (2 mM EDTA, 100 mM Na2CO3) followed by incubation for 15 minutes at 95C. Samples were run on 15% TBE-urea gels (Life Technologies), and fragments of around 28 nucleotides were extracted from the gel. Both mRNA and ribosomal footprint gel-purified samples were processed identically. RNA samples were purified using Purelink RNA microcolumns (Life Technologies) as described by the manufacturer, except that the samples were initially passed through the column in the presence of 70% ethanol (to favour binding of small RNAs). Samples were then treated with poly nucleotide kinase (PNK, Fermentas) and polyadenylated using 12 units of poly-(A) polymerase (NEB) at 37C for 45 minutes. Reverse transcription reactions were performed using custom primers containing an anchored oligo(dT), 4 nucleotides of known sequence used for multiplexing, and 5 random nucleotides that serve as unique molecular identifiers. Reverse transcription products were gel-purified and circularised using CircLigase II (Epicentre), and amplified by PCR with custom library primers for 12 or 15 cycles.

text: Schizosaccharomyces pombe

characteristic: organism

text: Schizosaccharomyces pombe

text: Schizosaccharomyces pombe

text: 968 h90

characteristic: strain


text: Department of Biochemistry, University of Cambridge, UK

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: fission yeast

text: Schizosaccharomyces pombe

text: Schizosaccharomyces pombe

text: Schizosaccharomyces pombe

text: 968 h90


text: female

characteristic: ArrayExpress-Sex

text: Mouse

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: house mouse

text: Mus musculus

text: Mus musculus


text: male

text: Mouse

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: house mouse

text: Mus musculus

text: Mus musculus


text: GSC

text: public

text: thale cress

text: A description of each epiRIL can be found in Colome-Tatche et al, PNAS 2012.

characteristic: description

text: Arabidopsis thaliana

text: Arabidopsis thaliana

characteristic: title


text: HCC38 Breast Cancer Cell Line

characteristic: ArrayExpress-CellType

text: female

text: Homo sapiens

characteristic: ArrayExpress-Species

characteristic: External Id

text: SC

text: public

text: human

text: Homo sapiens

text: single cell Whole Genome Amplification Product

characteristic: sample description

text: Homo sapiens


characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: ArrayExpress

text: fission yeast

characteristic: common name

text: Protocols: Cells were grown in yeast extract mediumGood synchrony is essential to achieving high temporal resolution of expression profiles. We therefore used thermosensitive mutants of the meiotic inhibitor Pat1p. Meiosis was induced as follows: cells of the indicated phenotype were grown in minimal medium containing 2% glucose (EMM, Moreno et al., 1991, Methods Enzymol. 194, 795-823) plus 0.5% NH4Cl, and then resuspended in EMM without NH4Cl (EMM-N) and incubated for 14 h at 25C. Meiosis was started by shifting the cells to 34C in the presence of 0.05% NH4Cl. Samples were collected from vegetative cells (time -14 h), and at the indicated times after the temperature shift. at 32C, incubated for 5 minutes with 100 ug/ml cycloheximide, pelleted at 4C and frozen in liquid N2 RNA was extracted using a hot phenol extraction method as described in Lyne et al. (2003) BMC Genomics 4:27. Polyadenylated RNA was purified from 300-450 ug of total RNA using oligo-dT25 magnetic beads (Life Technologies) following the manufacturer's instructions. Purified mRNA was fragmented by mixing 20 ul of mRNA with 20 ul of 2X alkaline fragmentation buffer (2 mM EDTA, 100 mM Na2CO3) followed by incubation for 15 minutes at 95 degrees C. Samples were run on 15% TBE-urea gels (Life Technologies), and fragments of around 28 nucleotides were extracted from the gel. Both mRNA and ribosomal footprint gel-purified samples were processed identically. RNA samples were purified using Purelink RNA microcolumns (Life Technologies) as described by the manufacturer, except that the samples were initially passed through the column in the presence of 70% ethanol (to favour binding of small RNAs). Samples were then treated with poly nucleotide kinase (PNK, Fermentas) and polyadenylated using 12 units of poly-(A) polymerase (NEB) at 37C for 45 minutes. Reverse transcription reactions were performed using custom primers containing an anchored oligo(dT), 4 nucleotides of known sequence used for multiplexing, and 5 random nucleotides that serve as unique molecular identifiers. Reverse transcription products were gel-purified and circularised using CircLigase II (Epicentre), and amplified by PCR with custom library primers for 12 or 15 cycles.

text: Schizosaccharomyces pombe

text: Schizosaccharomyces pombe

text: Schizosaccharomyces pombe

text: pat1 diploid


text: European Molecular Biology Laboratory

characteristic: INSDC last update

text: public

characteristic: SRA accession

text: ArrayExpress

text: fruit fly

text: Protocols: 1g of frozen embryos were dounce-homogenized, 20 times with a loose pestle and 10 times with a tight pestle, in 10 ml of chilled HB buffer (15 mM Tris-HCl (pH 7.4), 0.34 M sucrose, 15 mM NaCl, 60 mM KCl, 0.2 mM EDTA and 0.2 mM EGTA) on ice. The lysate was filtered through 2 layers of Miracloth and spun at 3,500g for 10 min to pellet the nuclei. The nuclei were then washed in 10 ml of chilled HB buffer, spun at 3,500g for 10 min and resuspended in 3 ml of PBTB buffer (5% (wt/vol) BSA, 0.1% (vol/vol) Triton X-100 in PBS). The nuclei were dissociated by passing them ten times through a 20-G needle and then ten times through a 22-G needle using a 5-ml syringe, and filtered through a 20-μm Sefar Nitex membrane. The nuclei were stained with a mouse anti-SBP antibody at 1:100 for 1 h, nutating at 4 μC. Primary antibody was washed by adding 6 ml of PBTB, spining for 10 min at 1,000g and discarding the supernatant. The niclei were then stained with an anti-mouse Alexa488 antibody at 1:100 in 3 ml of PBTB and incubated for 1 h while nutating at 4 μC. Secondary antibody was washed by adding 6 ml of PBTB, spining for 10 min at 1,000g and discarding the supernatant. The nuclei were resuspended in 3 ml of PBTB and subjected to FACS sorting. After sorting, the purity was evaluated by microscopy. The nuclei were spun at 3,500g for 15 min, and 30 million nuclei aliquots were frozen in liquid nitrogen. 30 million nuclei were resuspended in 500μl 1.2x restriction buffer (60μl 10x DpnII buffer, 440μl H2O). The nuclei were placed at 37C and 0.3% SDS was added before 1h incubation at 37C, shaking gently. 2% Triton X-100 was added to the nuclei before incubating for an additional 1h at 37C, shaking gently. 400U of the DpnII restriction enzyme were added, and the nuclei where incubated overnight at 37C, shaking gently. The next day, 1.6% SDS was added and the nuclei were incubated for 20 min at 65C, shaking gently. The nuclei were transferred in 5ml of 1.4x ligation buffer with 1% Triton X-100 and incubated 1h at 37C, shaking gently. 100U of ligase were added and the reaction was incubated for 4hrs at 16C, followed by 30min at room temperature. The chromatin was de-crosslinked by adding 300μg of proteinase K and incubating overnight at 65C. The next day, 300μg of RNaseA were added to the reaction before 45min incubation at 37C. The DNA was purified by phenol/chloroform followed by ethanol precipitation, and resuspended in 150μl of Tris pH7.5. Libraries were amplified from 320 ng of 4C template using touchdown PCR (94C 2min; 8 cycles of 94C 15sec, 55C 1min, 68C 5sec; 18 cycles of 94C 15sec, 63C 1min, 63C 5sec + 10sec per cycle; 68C 10sec; 22C forever). 100 libraries were multiplexed in equi-molar ratio and sequenced on two HiSeq2000 lanes using 100 bp single-end reads.

text: stage 10 to 11 embryo

characteristic: developmental stage

text: wild type

characteristic: genotype

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

characteristic: strain

text: 6 to 8 hour

characteristic: time


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: European Molecular Biology Laboratory

text: public

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: fruit fly

text: Protocols: 1g of frozen embryos were dounce-homogenized, 20 times with a loose pestle and 10 times with a tight pestle, in 10 ml of chilled HB buffer (15 mM Tris-HCl (pH 7.4), 0.34 M sucrose, 15 mM NaCl, 60 mM KCl, 0.2 mM EDTA and 0.2 mM EGTA) on ice. The lysate was filtered through 2 layers of Miracloth and spun at 3,500g for 10 min to pellet the nuclei. The nuclei were then washed in 10 ml of chilled HB buffer, spun at 3,500g for 10 min and resuspended in 3 ml of PBTB buffer (5% (wt/vol) BSA, 0.1% (vol/vol) Triton X-100 in PBS). The nuclei were dissociated by passing them ten times through a 20-G needle and then ten times through a 22-G needle using a 5-ml syringe, and filtered through a 20-μm Sefar Nitex membrane. The total number of nuclei was estimated by microscopy, and 30 million nuclei aliquots were frozen in liquid nitrogen. 30 million nuclei were resuspended in 500μl 1.2x restriction buffer (60μl 10x DpnII buffer, 440μl H2O). The nuclei were placed at 37C and 0.3% SDS was added before 1h incubation at 37C, shaking gently. 2% Triton X-100 was added to the nuclei before incubating for an additional 1h at 37C, shaking gently. 400U of the DpnII restriction enzyme were added, and the nuclei where incubated overnight at 37C, shaking gently. The next day, 1.6% SDS was added and the nuclei were incubated for 20 min at 65C, shaking gently. The nuclei were transferred in 5ml of 1.4x ligation buffer with 1% Triton X-100 and incubated 1h at 37C, shaking gently. 100U of ligase were added and the reaction was incubated for 4hrs at 16C, followed by 30min at room temperature. The chromatin was de-crosslinked by adding 300μg of proteinase K and incubating overnight at 65C. The next day, 300μg of RNaseA were added to the reaction before 45min incubation at 37C. The DNA was purified by phenol/chloroform followed by ethanol precipitation, and resuspended in 150μl of Tris pH7.5. Libraries were amplified from 320 ng of 4C template using touchdown PCR (94C 2min; 8 cycles of 94C 15sec, 55C 1min, 68C 5sec; 18 cycles of 94C 15sec, 63C 1min, 63C 5sec + 10sec per cycle; 68C 10sec; 22C forever). 100 libraries were multiplexed in equi-molar ratio and sequenced on two HiSeq2000 lanes using 100 bp single-end reads.

characteristic: description

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour

characteristic: title


characteristic: External Id

text: European Molecular Biology Laboratory

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: fruit fly

characteristic: common name

text: stage 6 to 7 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour


text: European Molecular Biology Laboratory

text: public

characteristic: SRA accession

text: E-MTAB-2180:4C_CRM_stumps_hbr_DME_MESO_6-8h_2

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

characteristic: developmental stage

text: wild type

characteristic: genotype

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: European Molecular Biology Laboratory

text: public

text: ArrayExpress

text: fruit fly

text: stage 6 to 7 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

characteristic: strain

text: 3 to 4 hour

characteristic: time


characteristic: External Id

text: European Molecular Biology Laboratory

characteristic: INSDC center name

text: public

text: E-MTAB-2180:4C_CRM_Con_2kb_3prime_MESO_6-8h_2

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: description

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour

characteristic: title


text: European Molecular Biology Laboratory

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-2180:4C_CRM_Con_2kb_3prime_WE_3-4h_2

text: ArrayExpress

text: fruit fly

characteristic: common name

text: stage 6 to 7 embryo

characteristic: developmental stage

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: European Molecular Biology Laboratory

text: public

text: E-MTAB-2180:4C_CRM_pdm2_CE8012_WE_3-4h_1

text: ArrayExpress

text: fruit fly

text: stage 6 to 7 embryo

text: wild type

characteristic: genotype

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: European Molecular Biology Laboratory

characteristic: INSDC center name

text: public

text: E-MTAB-2180:4C_CRM_Ubx_BXD-A_MESO_6-8h_2

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

characteristic: strain

text: 6 to 8 hour

characteristic: time


text: European Molecular Biology Laboratory

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-2180:4C_CRM_Con_1kb_3prime_WE_6-8h_1

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: description

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: European Molecular Biology Laboratory

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-2180:4C_CRM_eya_meso_eya_(1)_WE_3-4h_1

text: ArrayExpress

text: fruit fly

characteristic: common name

text: stage 6 to 7 embryo

characteristic: developmental stage

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: European Molecular Biology Laboratory

text: public

text: E-MTAB-2180:4C_CRM_pdm2_CE8012_MESO_6-8h_1

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

characteristic: genotype

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


text: European Molecular Biology Laboratory

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-2180:4C_CRM_pdm2_CE8012_MESO_6-8h_2

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

characteristic: strain

text: 6 to 8 hour

characteristic: time


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: European Molecular Biology Laboratory

text: public

text: E-MTAB-2180:4C_CRM_Con_1kb_3prime_MESO_6-8h_1

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: description

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: European Molecular Biology Laboratory

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-2180:4C_CRM_stumps_hbr_DME_WE_6-8h_2

text: ArrayExpress

text: fruit fly

characteristic: common name

text: stage 10 to 11 embryo

characteristic: developmental stage

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


text: European Molecular Biology Laboratory

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-2180:4C_CRM_Mef2_II-B[L]_NR_WE_6-8h_1

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

characteristic: genotype

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: European Molecular Biology Laboratory

characteristic: INSDC last update

text: public

text: E-MTAB-2180:4C_CRM_stumps_hbr_DME_MESO_6-8h_1

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

characteristic: strain

text: 6 to 8 hour

characteristic: time


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: European Molecular Biology Laboratory

text: public

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: description

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour

characteristic: title


text: European Molecular Biology Laboratory

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: fruit fly

characteristic: common name

text: stage 10 to 11 embryo

characteristic: developmental stage

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: European Molecular Biology Laboratory

text: public

text: ArrayExpress

text: fruit fly

text: stage 6 to 7 embryo

text: wild type

characteristic: genotype

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: European Molecular Biology Laboratory

characteristic: INSDC last update

text: public

text: E-MTAB-2180:4C_CRM_pdm2_CE8012_WE_6-8h_2

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

characteristic: strain

text: 6 to 8 hour

characteristic: time


text: European Molecular Biology Laboratory

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: description

text: stage 6 to 7 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: European Molecular Biology Laboratory

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-2180:4C_CRM_stumps_hbr_DME_WE_3-4h_1

text: ArrayExpress

text: fruit fly

characteristic: common name

text: stage 6 to 7 embryo

characteristic: developmental stage

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: European Molecular Biology Laboratory

text: public

text: E-MTAB-2180:4C_CRM_eya_meso_eya_(1)_WE_6-8h_2

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

characteristic: genotype

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


text: European Molecular Biology Laboratory

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-2180:4C_CRM_ap_ApME680_MESO_6-8h_2

text: ArrayExpress

text: fruit fly

text: Protocols: 1g of frozen embryos were dounce-homogenized, 20 times with a loose pestle and 10 times with a tight pestle, in 10 ml of chilled HB buffer (15 mM Tris-HCl (pH 7.4), 0.34 M sucrose, 15 mM NaCl, 60 mM KCl, 0.2 mM EDTA and 0.2 mM EGTA) on ice. The lysate was filtered through 2 layers of Miracloth and spun at 3,500g for 10 min to pellet the nuclei. The nuclei were then washed in 10 ml of chilled HB buffer, spun at 3,500g for 10 min and resuspended in 3 ml of PBTB buffer (5% (wt/vol) BSA, 0.1% (vol/vol) Triton X-100 in PBS). The nuclei were dissociated by passing them ten times through a 20-G needle and then ten times through a 22-G needle using a 5-ml syringe, and filtered through a 20-μm Sefar Nitex membrane. The nuclei were stained with a mouse anti-SBP antibody at 1:100 for 1 h, nutating at 4 μC. Primary antibody was washed by adding 6 ml of PBTB, spining for 10 min at 1,000g and discarding the supernatant. The niclei were then stained with an anti-mouse Alexa488 antibody at 1:100 in 3 ml of PBTB and incubated for 1 h while nutating at 4 μC. Secondary antibody was washed by adding 6 ml of PBTB, spining for 10 min at 1,000g and discarding the supernatant. The nuclei were resuspended in 3 ml of PBTB and subjected to FACS sorting. After sorting, the purity was evaluated by microscopy. The nuclei were spun at 3,500g for 15 min, and 30 million nuclei aliquots were frozen in liquid nitrogen. 30 million nuclei were resuspended in 500μl 1.2x restriction buffer (60μl 10x DpnII buffer, 440μl H2O). The nuclei were placed at 37C and 0.3% SDS was added before 1h incubation at 37C, shaking gently. 2% Triton X-100 was added to the nuclei before incubating for an additional 1h at 37C, shaking gently. 400U of the DpnII restriction enzyme were added, and the nuclei where incubated overnight at 37C, shaking gently. The next day, 1.6% SDS was added and the nuclei were incubated for 20 min at 65C, shaking gently. The nuclei were transferred in 5ml of 1.4x ligation buffer with 1% Triton X-100 and incubated 1h at 37C, shaking gently. 100U of ligase were added and the reaction was incubated for 4hrs at 16C, followed by 30min at room temperature. The chromatin was de-crosslinked by adding 300μg of proteinase K and incubating overnight at 65C. The next day, 300μg of RNaseA were added to the reaction before 45min incubation at 37C. The DNA was purified by phenol/chloroform followed by ethanol precipitation, and resuspended in 150μl of Tris pH7.5. Libraries were amplified from 320 ng of 4C template using touchdown PCR (94C 2min; 8 cycles of 94C 15sec, 55C 1min, 68C 5sec; 18 cycles of 94C 15sec, 63C 1min, 63C 5sec + 10sec per cycle; 68C 10sec; 22C forever). 100 libraries were multiplexed in equi-molar ratio and sequenced on two HiSeq2000 lanes using 100 bp single-end reads.

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

characteristic: strain

text: 6 to 8 hour

characteristic: time


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: European Molecular Biology Laboratory

text: public

text: E-MTAB-2180:4C_CRM_Mef2_II-B[L]_NR_WE_6-8h_2

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: fruit fly

text: Protocols: 1g of frozen embryos were dounce-homogenized, 20 times with a loose pestle and 10 times with a tight pestle, in 10 ml of chilled HB buffer (15 mM Tris-HCl (pH 7.4), 0.34 M sucrose, 15 mM NaCl, 60 mM KCl, 0.2 mM EDTA and 0.2 mM EGTA) on ice. The lysate was filtered through 2 layers of Miracloth and spun at 3,500g for 10 min to pellet the nuclei. The nuclei were then washed in 10 ml of chilled HB buffer, spun at 3,500g for 10 min and resuspended in 3 ml of PBTB buffer (5% (wt/vol) BSA, 0.1% (vol/vol) Triton X-100 in PBS). The nuclei were dissociated by passing them ten times through a 20-G needle and then ten times through a 22-G needle using a 5-ml syringe, and filtered through a 20-μm Sefar Nitex membrane. The total number of nuclei was estimated by microscopy, and 30 million nuclei aliquots were frozen in liquid nitrogen. 30 million nuclei were resuspended in 500μl 1.2x restriction buffer (60μl 10x DpnII buffer, 440μl H2O). The nuclei were placed at 37C and 0.3% SDS was added before 1h incubation at 37C, shaking gently. 2% Triton X-100 was added to the nuclei before incubating for an additional 1h at 37C, shaking gently. 400U of the DpnII restriction enzyme were added, and the nuclei where incubated overnight at 37C, shaking gently. The next day, 1.6% SDS was added and the nuclei were incubated for 20 min at 65C, shaking gently. The nuclei were transferred in 5ml of 1.4x ligation buffer with 1% Triton X-100 and incubated 1h at 37C, shaking gently. 100U of ligase were added and the reaction was incubated for 4hrs at 16C, followed by 30min at room temperature. The chromatin was de-crosslinked by adding 300μg of proteinase K and incubating overnight at 65C. The next day, 300μg of RNaseA were added to the reaction before 45min incubation at 37C. The DNA was purified by phenol/chloroform followed by ethanol precipitation, and resuspended in 150μl of Tris pH7.5. Libraries were amplified from 320 ng of 4C template using touchdown PCR (94C 2min; 8 cycles of 94C 15sec, 55C 1min, 68C 5sec; 18 cycles of 94C 15sec, 63C 1min, 63C 5sec + 10sec per cycle; 68C 10sec; 22C forever). 100 libraries were multiplexed in equi-molar ratio and sequenced on two HiSeq2000 lanes using 100 bp single-end reads.

characteristic: description

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: European Molecular Biology Laboratory

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-2180:4C_CRM_stumps_hbr_DME_WE_3-4h_2

text: ArrayExpress

text: fruit fly

characteristic: common name

text: stage 6 to 7 embryo

characteristic: developmental stage

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour


text: European Molecular Biology Laboratory

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-2180:4C_CRM_pdm2_CE8012_WE_3-4h_2

text: ArrayExpress

text: fruit fly

text: stage 6 to 7 embryo

text: wild type

characteristic: genotype

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: European Molecular Biology Laboratory

characteristic: INSDC last update

text: public

text: E-MTAB-2180:4C_CRM_Con_1kb_3prime_WE_6-8h_2

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

characteristic: strain

text: 6 to 8 hour

characteristic: time


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: European Molecular Biology Laboratory

text: public

text: E-MTAB-2180:4C_CRM_ap_ApME680_MESO_6-8h_1

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: description

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour

characteristic: title


text: European Molecular Biology Laboratory

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-2180:4C_CRM_Ubx_BXD-A_MESO_6-8h_1

text: ArrayExpress

text: fruit fly

characteristic: common name

text: stage 10 to 11 embryo

characteristic: developmental stage

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: European Molecular Biology Laboratory

text: public

text: E-MTAB-2180:4C_CRM_Mef2_II-B[L]_NR_WE_3-4h_1

text: ArrayExpress

text: fruit fly

text: stage 6 to 7 embryo

text: wild type

characteristic: genotype

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: European Molecular Biology Laboratory

characteristic: INSDC last update

text: public

text: E-MTAB-2180:4C_CRM_Mef2_II-B[L]_NR_WE_3-4h_2

text: ArrayExpress

text: fruit fly

text: stage 6 to 7 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

characteristic: strain

text: 3 to 4 hour

characteristic: time


text: European Molecular Biology Laboratory

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-2180:4C_CRM_eya_meso_eya_(1)_MESO_6-8h_1

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: description

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: European Molecular Biology Laboratory

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: fruit fly

characteristic: common name

text: stage 10 to 11 embryo

characteristic: developmental stage

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: European Molecular Biology Laboratory

text: public

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

characteristic: genotype

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


text: European Molecular Biology Laboratory

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

text: fruit fly

text: stage 6 to 7 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

characteristic: strain

text: 3 to 4 hour

characteristic: time


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: European Molecular Biology Laboratory

text: public

text: E-MTAB-2180:4C_CRM_Mef2_II-B[L]_NR_MESO_6-8h_1

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: description

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: European Molecular Biology Laboratory

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-2180:4C_CRM_eya_meso_eya_(1)_WE_3-4h_2

text: ArrayExpress

text: fruit fly

characteristic: common name

text: stage 6 to 7 embryo

characteristic: developmental stage

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour


text: European Molecular Biology Laboratory

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: fruit fly

text: stage 6 to 7 embryo

text: wild type

characteristic: genotype

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: European Molecular Biology Laboratory

characteristic: INSDC last update

text: public

text: E-MTAB-2180:4C_CRM_stumps_hbr_DME_WE_6-8h_1

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

characteristic: strain

text: 6 to 8 hour

characteristic: time


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: European Molecular Biology Laboratory

text: public

text: E-MTAB-2180:4C_CRM_eya_meso_eya_(1)_MESO_6-8h_2

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: description

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour

characteristic: title


text: European Molecular Biology Laboratory

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-2180:4C_CRM_eya_meso_eya_(1)_WE_6-8h_1

text: ArrayExpress

text: fruit fly

characteristic: common name

text: stage 10 to 11 embryo

characteristic: developmental stage

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: European Molecular Biology Laboratory

text: public

text: E-MTAB-2180:4C_CRM_Con_1kb_3prime_WE_3-4h_1

text: ArrayExpress

text: fruit fly

text: stage 6 to 7 embryo

text: wild type

characteristic: genotype

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: European Molecular Biology Laboratory

characteristic: INSDC last update

text: public

text: E-MTAB-2180:4C_CRM_Mef2_II-B[L]_NR_MESO_6-8h_2

text: ArrayExpress

text: fruit fly

text: Protocols: 1g of frozen embryos were dounce-homogenized, 20 times with a loose pestle and 10 times with a tight pestle, in 10 ml of chilled HB buffer (15 mM Tris-HCl (pH 7.4), 0.34 M sucrose, 15 mM NaCl, 60 mM KCl, 0.2 mM EDTA and 0.2 mM EGTA) on ice. The lysate was filtered through 2 layers of Miracloth and spun at 3,500g for 10 min to pellet the nuclei. The nuclei were then washed in 10 ml of chilled HB buffer, spun at 3,500g for 10 min and resuspended in 3 ml of PBTB buffer (5% (wt/vol) BSA, 0.1% (vol/vol) Triton X-100 in PBS). The nuclei were dissociated by passing them ten times through a 20-G needle and then ten times through a 22-G needle using a 5-ml syringe, and filtered through a 20-μm Sefar Nitex membrane. The nuclei were stained with a mouse anti-SBP antibody at 1:100 for 1 h, nutating at 4 μC. Primary antibody was washed by adding 6 ml of PBTB, spining for 10 min at 1,000g and discarding the supernatant. The niclei were then stained with an anti-mouse Alexa488 antibody at 1:100 in 3 ml of PBTB and incubated for 1 h while nutating at 4 μC. Secondary antibody was washed by adding 6 ml of PBTB, spining for 10 min at 1,000g and discarding the supernatant. The nuclei were resuspended in 3 ml of PBTB and subjected to FACS sorting. After sorting, the purity was evaluated by microscopy. The nuclei were spun at 3,500g for 15 min, and 30 million nuclei aliquots were frozen in liquid nitrogen. 30 million nuclei were resuspended in 500μl 1.2x restriction buffer (60μl 10x DpnII buffer, 440μl H2O). The nuclei were placed at 37C and 0.3% SDS was added before 1h incubation at 37C, shaking gently. 2% Triton X-100 was added to the nuclei before incubating for an additional 1h at 37C, shaking gently. 400U of the DpnII restriction enzyme were added, and the nuclei where incubated overnight at 37C, shaking gently. The next day, 1.6% SDS was added and the nuclei were incubated for 20 min at 65C, shaking gently. The nuclei were transferred in 5ml of 1.4x ligation buffer with 1% Triton X-100 and incubated 1h at 37C, shaking gently. 100U of ligase were added and the reaction was incubated for 4hrs at 16C, followed by 30min at room temperature. The chromatin was de-crosslinked by adding 300μg of proteinase K and incubating overnight at 65C. The next day, 300μg of RNaseA were added to the reaction before 45min incubation at 37C. The DNA was purified by phenol/chloroform followed by ethanol precipitation, and resuspended in 150μl of Tris pH7.5. Libraries were amplified from 320 ng of 4C template using touchdown PCR (94C 2min; 8 cycles of 94C 15sec, 55C 1min, 68C 5sec; 18 cycles of 94C 15sec, 63C 1min, 63C 5sec + 10sec per cycle; 68C 10sec; 22C forever). 100 libraries were multiplexed in equi-molar ratio and sequenced on two HiSeq2000 lanes using 100 bp single-end reads.

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

characteristic: strain

text: 6 to 8 hour

characteristic: time


text: European Molecular Biology Laboratory

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-2180:4C_CRM_pdm2_CE8012_WE_6-8h_1

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: fruit fly

text: Protocols: 1g of frozen embryos were dounce-homogenized, 20 times with a loose pestle and 10 times with a tight pestle, in 10 ml of chilled HB buffer (15 mM Tris-HCl (pH 7.4), 0.34 M sucrose, 15 mM NaCl, 60 mM KCl, 0.2 mM EDTA and 0.2 mM EGTA) on ice. The lysate was filtered through 2 layers of Miracloth and spun at 3,500g for 10 min to pellet the nuclei. The nuclei were then washed in 10 ml of chilled HB buffer, spun at 3,500g for 10 min and resuspended in 3 ml of PBTB buffer (5% (wt/vol) BSA, 0.1% (vol/vol) Triton X-100 in PBS). The nuclei were dissociated by passing them ten times through a 20-G needle and then ten times through a 22-G needle using a 5-ml syringe, and filtered through a 20-μm Sefar Nitex membrane. The total number of nuclei was estimated by microscopy, and 30 million nuclei aliquots were frozen in liquid nitrogen. 30 million nuclei were resuspended in 500μl 1.2x restriction buffer (60μl 10x DpnII buffer, 440μl H2O). The nuclei were placed at 37C and 0.3% SDS was added before 1h incubation at 37C, shaking gently. 2% Triton X-100 was added to the nuclei before incubating for an additional 1h at 37C, shaking gently. 400U of the DpnII restriction enzyme were added, and the nuclei where incubated overnight at 37C, shaking gently. The next day, 1.6% SDS was added and the nuclei were incubated for 20 min at 65C, shaking gently. The nuclei were transferred in 5ml of 1.4x ligation buffer with 1% Triton X-100 and incubated 1h at 37C, shaking gently. 100U of ligase were added and the reaction was incubated for 4hrs at 16C, followed by 30min at room temperature. The chromatin was de-crosslinked by adding 300μg of proteinase K and incubating overnight at 65C. The next day, 300μg of RNaseA were added to the reaction before 45min incubation at 37C. The DNA was purified by phenol/chloroform followed by ethanol precipitation, and resuspended in 150μl of Tris pH7.5. Libraries were amplified from 320 ng of 4C template using touchdown PCR (94C 2min; 8 cycles of 94C 15sec, 55C 1min, 68C 5sec; 18 cycles of 94C 15sec, 63C 1min, 63C 5sec + 10sec per cycle; 68C 10sec; 22C forever). 100 libraries were multiplexed in equi-molar ratio and sequenced on two HiSeq2000 lanes using 100 bp single-end reads.

characteristic: description

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour

characteristic: title


characteristic: ENA-CHECKLIST

text: European Molecular Biology Laboratory

text: killed

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: fruit fly

characteristic: common name

text: stage 10 to 11 embryo

characteristic: developmental stage

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


text: European Molecular Biology Laboratory

text: killed

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

characteristic: genotype

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


characteristic: External Id

text: European Molecular Biology Laboratory

characteristic: INSDC last update

text: killed

text: ArrayExpress

text: fruit fly

text: stage 6 to 7 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

characteristic: strain

text: 3 to 4 hour


text: European Molecular Biology Laboratory

characteristic: INSDC center name

text: killed

text: E-MTAB-2180:4C_CRM_stumps_hbr_DME_MESO_6-8h_2

characteristic: Submitter Id

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour

characteristic: time


text: European Molecular Biology Laboratory

text: killed

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: description

text: stage 6 to 7 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour

characteristic: title


characteristic: ENA-CHECKLIST

text: European Molecular Biology Laboratory

text: killed

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-2180:4C_CRM_Con_2kb_3prime_MESO_6-8h_2

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


text: European Molecular Biology Laboratory

text: killed

text: E-MTAB-2180:4C_CRM_Con_2kb_3prime_WE_3-4h_2

text: ArrayExpress

text: fruit fly

characteristic: common name

text: stage 6 to 7 embryo

characteristic: developmental stage

text: wild type

characteristic: genotype

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour


text: European Molecular Biology Laboratory

text: killed

text: E-MTAB-2180:4C_CRM_pdm2_CE8012_WE_3-4h_1

text: ArrayExpress

text: fruit fly

text: stage 6 to 7 embryo

text: wild type

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour


characteristic: External Id

text: European Molecular Biology Laboratory

characteristic: INSDC last update

text: killed

text: E-MTAB-2180:4C_CRM_Ubx_BXD-A_MESO_6-8h_2

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

text: 6 to 8 hour


text: European Molecular Biology Laboratory

characteristic: INSDC center name

text: killed

text: E-MTAB-2180:4C_CRM_Con_1kb_3prime_WE_6-8h_1

characteristic: Submitter Id

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: strain

text: 6 to 8 hour


text: European Molecular Biology Laboratory

text: killed

text: E-MTAB-2180:4C_CRM_eya_meso_eya_(1)_WE_3-4h_1

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: description

text: stage 6 to 7 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour

characteristic: time


characteristic: ENA-CHECKLIST

text: European Molecular Biology Laboratory

text: killed

characteristic: INSDC status

text: E-MTAB-2180:4C_CRM_pdm2_CE8012_MESO_6-8h_1

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour

characteristic: title


text: European Molecular Biology Laboratory

text: killed

characteristic: SRA accession

text: E-MTAB-2180:4C_CRM_pdm2_CE8012_MESO_6-8h_2

text: ArrayExpress

text: fruit fly

characteristic: common name

text: stage 10 to 11 embryo

characteristic: developmental stage

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


text: European Molecular Biology Laboratory

text: killed

text: E-MTAB-2180:4C_CRM_Con_1kb_3prime_MESO_6-8h_1

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

characteristic: genotype

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


characteristic: External Id

text: European Molecular Biology Laboratory

characteristic: INSDC last update

text: killed

text: E-MTAB-2180:4C_CRM_stumps_hbr_DME_WE_6-8h_2

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


text: European Molecular Biology Laboratory

characteristic: INSDC center name

text: killed

text: E-MTAB-2180:4C_CRM_Mef2_II-B[L]_NR_WE_6-8h_1

characteristic: Submitter Id

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

text: 6 to 8 hour


text: European Molecular Biology Laboratory

text: killed

text: E-MTAB-2180:4C_CRM_stumps_hbr_DME_MESO_6-8h_1

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: description

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: strain

text: 6 to 8 hour


characteristic: ENA-CHECKLIST

text: European Molecular Biology Laboratory

text: killed

characteristic: INSDC status

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour

characteristic: time


text: European Molecular Biology Laboratory

text: killed

characteristic: SRA accession

text: ArrayExpress

text: fruit fly

characteristic: common name

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour

characteristic: title


text: European Molecular Biology Laboratory

text: killed

text: ArrayExpress

text: fruit fly

text: stage 6 to 7 embryo

characteristic: developmental stage

text: wild type

characteristic: genotype

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour


characteristic: External Id

text: European Molecular Biology Laboratory

characteristic: INSDC last update

text: killed

text: E-MTAB-2180:4C_CRM_pdm2_CE8012_WE_6-8h_2

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


text: European Molecular Biology Laboratory

characteristic: INSDC center name

text: killed

characteristic: Submitter Id

text: ArrayExpress

text: fruit fly

text: Protocols: 1g of frozen embryos were dounce-homogenized, 20 times with a loose pestle and 10 times with a tight pestle, in 10 ml of chilled HB buffer (15 mM Tris-HCl (pH 7.4), 0.34 M sucrose, 15 mM NaCl, 60 mM KCl, 0.2 mM EDTA and 0.2 mM EGTA) on ice. The lysate was filtered through 2 layers of Miracloth and spun at 3,500g for 10 min to pellet the nuclei. The nuclei were then washed in 10 ml of chilled HB buffer, spun at 3,500g for 10 min and resuspended in 3 ml of PBTB buffer (5% (wt/vol) BSA, 0.1% (vol/vol) Triton X-100 in PBS). The nuclei were dissociated by passing them ten times through a 20-G needle and then ten times through a 22-G needle using a 5-ml syringe, and filtered through a 20-μm Sefar Nitex membrane. The nuclei were stained with a mouse anti-SBP antibody at 1:100 for 1 h, nutating at 4 μC. Primary antibody was washed by adding 6 ml of PBTB, spining for 10 min at 1,000g and discarding the supernatant. The niclei were then stained with an anti-mouse Alexa488 antibody at 1:100 in 3 ml of PBTB and incubated for 1 h while nutating at 4 μC. Secondary antibody was washed by adding 6 ml of PBTB, spining for 10 min at 1,000g and discarding the supernatant. The nuclei were resuspended in 3 ml of PBTB and subjected to FACS sorting. After sorting, the purity was evaluated by microscopy. The nuclei were spun at 3,500g for 15 min, and 30 million nuclei aliquots were frozen in liquid nitrogen. 30 million nuclei were resuspended in 500μl 1.2x restriction buffer (60μl 10x DpnII buffer, 440μl H2O). The nuclei were placed at 37C and 0.3% SDS was added before 1h incubation at 37C, shaking gently. 2% Triton X-100 was added to the nuclei before incubating for an additional 1h at 37C, shaking gently. 400U of the DpnII restriction enzyme were added, and the nuclei where incubated overnight at 37C, shaking gently. The next day, 1.6% SDS was added and the nuclei were incubated for 20 min at 65C, shaking gently. The nuclei were transferred in 5ml of 1.4x ligation buffer with 1% Triton X-100 and incubated 1h at 37C, shaking gently. 100U of ligase were added and the reaction was incubated for 4hrs at 16C, followed by 30min at room temperature. The chromatin was de-crosslinked by adding 300μg of proteinase K and incubating overnight at 65C. The next day, 300μg of RNaseA were added to the reaction before 45min incubation at 37C. The DNA was purified by phenol/chloroform followed by ethanol precipitation, and resuspended in 150μl of Tris pH7.5. Libraries were amplified from 320 ng of 4C template using touchdown PCR (94C 2min; 8 cycles of 94C 15sec, 55C 1min, 68C 5sec; 18 cycles of 94C 15sec, 63C 1min, 63C 5sec + 10sec per cycle; 68C 10sec; 22C forever). 100 libraries were multiplexed in equi-molar ratio and sequenced on two HiSeq2000 lanes using 100 bp single-end reads.

text: stage 6 to 7 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour


text: European Molecular Biology Laboratory

text: killed

text: E-MTAB-2180:4C_CRM_stumps_hbr_DME_WE_3-4h_1

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: description

text: stage 6 to 7 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

text: 3 to 4 hour


characteristic: ENA-CHECKLIST

text: European Molecular Biology Laboratory

text: killed

characteristic: INSDC status

text: E-MTAB-2180:4C_CRM_eya_meso_eya_(1)_WE_6-8h_2

text: ArrayExpress

text: fruit fly

text: Protocols: 1g of frozen embryos were dounce-homogenized, 20 times with a loose pestle and 10 times with a tight pestle, in 10 ml of chilled HB buffer (15 mM Tris-HCl (pH 7.4), 0.34 M sucrose, 15 mM NaCl, 60 mM KCl, 0.2 mM EDTA and 0.2 mM EGTA) on ice. The lysate was filtered through 2 layers of Miracloth and spun at 3,500g for 10 min to pellet the nuclei. The nuclei were then washed in 10 ml of chilled HB buffer, spun at 3,500g for 10 min and resuspended in 3 ml of PBTB buffer (5% (wt/vol) BSA, 0.1% (vol/vol) Triton X-100 in PBS). The nuclei were dissociated by passing them ten times through a 20-G needle and then ten times through a 22-G needle using a 5-ml syringe, and filtered through a 20-μm Sefar Nitex membrane. The total number of nuclei was estimated by microscopy, and 30 million nuclei aliquots were frozen in liquid nitrogen. 30 million nuclei were resuspended in 500μl 1.2x restriction buffer (60μl 10x DpnII buffer, 440μl H2O). The nuclei were placed at 37C and 0.3% SDS was added before 1h incubation at 37C, shaking gently. 2% Triton X-100 was added to the nuclei before incubating for an additional 1h at 37C, shaking gently. 400U of the DpnII restriction enzyme were added, and the nuclei where incubated overnight at 37C, shaking gently. The next day, 1.6% SDS was added and the nuclei were incubated for 20 min at 65C, shaking gently. The nuclei were transferred in 5ml of 1.4x ligation buffer with 1% Triton X-100 and incubated 1h at 37C, shaking gently. 100U of ligase were added and the reaction was incubated for 4hrs at 16C, followed by 30min at room temperature. The chromatin was de-crosslinked by adding 300μg of proteinase K and incubating overnight at 65C. The next day, 300μg of RNaseA were added to the reaction before 45min incubation at 37C. The DNA was purified by phenol/chloroform followed by ethanol precipitation, and resuspended in 150μl of Tris pH7.5. Libraries were amplified from 320 ng of 4C template using touchdown PCR (94C 2min; 8 cycles of 94C 15sec, 55C 1min, 68C 5sec; 18 cycles of 94C 15sec, 63C 1min, 63C 5sec + 10sec per cycle; 68C 10sec; 22C forever). 100 libraries were multiplexed in equi-molar ratio and sequenced on two HiSeq2000 lanes using 100 bp single-end reads.

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: strain

text: 6 to 8 hour


text: European Molecular Biology Laboratory

text: killed

characteristic: SRA accession

text: E-MTAB-2180:4C_CRM_ap_ApME680_MESO_6-8h_2

text: ArrayExpress

text: fruit fly

characteristic: common name

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour

characteristic: time


text: European Molecular Biology Laboratory

text: killed

text: E-MTAB-2180:4C_CRM_Mef2_II-B[L]_NR_WE_6-8h_2

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

characteristic: developmental stage

text: wild type

characteristic: genotype

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour

characteristic: title


characteristic: External Id

text: European Molecular Biology Laboratory

characteristic: INSDC last update

text: killed

text: E-MTAB-2180:4C_CRM_stumps_hbr_DME_WE_3-4h_2

text: ArrayExpress

text: fruit fly

text: stage 6 to 7 embryo

text: wild type

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour


text: European Molecular Biology Laboratory

characteristic: INSDC center name

text: killed

text: E-MTAB-2180:4C_CRM_pdm2_CE8012_WE_3-4h_2

characteristic: Submitter Id

text: ArrayExpress

text: fruit fly

text: stage 6 to 7 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour


text: European Molecular Biology Laboratory

text: killed

text: E-MTAB-2180:4C_CRM_Con_1kb_3prime_WE_6-8h_2

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: description

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


characteristic: ENA-CHECKLIST

text: European Molecular Biology Laboratory

text: killed

characteristic: INSDC status

text: E-MTAB-2180:4C_CRM_ap_ApME680_MESO_6-8h_1

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

text: 6 to 8 hour


text: European Molecular Biology Laboratory

text: killed

characteristic: SRA accession

text: E-MTAB-2180:4C_CRM_Ubx_BXD-A_MESO_6-8h_1

text: ArrayExpress

text: fruit fly

characteristic: common name

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: strain

text: 6 to 8 hour


text: European Molecular Biology Laboratory

text: killed

text: E-MTAB-2180:4C_CRM_Mef2_II-B[L]_NR_WE_3-4h_1

text: ArrayExpress

text: fruit fly

text: stage 6 to 7 embryo

characteristic: developmental stage

text: wild type

characteristic: genotype

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour

characteristic: time


characteristic: External Id

text: European Molecular Biology Laboratory

characteristic: INSDC last update

text: killed

text: E-MTAB-2180:4C_CRM_Mef2_II-B[L]_NR_WE_3-4h_2

text: ArrayExpress

text: fruit fly

text: stage 6 to 7 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour

characteristic: title


text: European Molecular Biology Laboratory

characteristic: INSDC center name

text: killed

text: E-MTAB-2180:4C_CRM_eya_meso_eya_(1)_MESO_6-8h_1

characteristic: Submitter Id

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


text: European Molecular Biology Laboratory

text: killed

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: description

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


characteristic: ENA-CHECKLIST

text: European Molecular Biology Laboratory

text: killed

characteristic: INSDC status

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour


text: European Molecular Biology Laboratory

text: killed

characteristic: SRA accession

text: ArrayExpress

text: fruit fly

characteristic: common name

text: stage 6 to 7 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

text: 3 to 4 hour


text: European Molecular Biology Laboratory

text: killed

text: E-MTAB-2180:4C_CRM_Mef2_II-B[L]_NR_MESO_6-8h_1

text: ArrayExpress

text: fruit fly

text: stage 10 to 11 embryo

characteristic: developmental stage

text: wild type

characteristic: genotype

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: strain

text: 6 to 8 hour


characteristic: External Id

text: European Molecular Biology Laboratory

characteristic: INSDC last update

text: killed

text: E-MTAB-2180:4C_CRM_eya_meso_eya_(1)_WE_3-4h_2

text: ArrayExpress

text: fruit fly

text: stage 6 to 7 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour

characteristic: time


text: European Molecular Biology Laboratory

characteristic: INSDC center name

text: killed

characteristic: Submitter Id

text: ArrayExpress

text: fruit fly

text: stage 6 to 7 embryo

text: wild type

text: egg laying

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 3 to 4 hour

characteristic: title


text: European Molecular Biology Laboratory

text: killed

text: E-MTAB-2180:4C_CRM_stumps_hbr_DME_WE_6-8h_1

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: description

text: stage 10 to 11 embryo

text: wild type

text: egg laying

characteristic: initial time point

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: 6 to 8 hour