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characteristic: geographic location (latitude)

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text: Oxygen shapes trophic interactions of a chitin-degrading soil microbiome

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characteristic: ENA-FIRST-PUBLIC

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characteristic: ENA-CHECKLIST

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characteristic: ENA-FIRST-PUBLIC

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characteristic: ENA-FIRST-PUBLIC

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characteristic: ENA-FIRST-PUBLIC

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characteristic: ENA-FIRST-PUBLIC

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text: soil

text: Germany

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: ATATAC

text: uncultured bacterium

characteristic: project name

text: uncultured bacterium

text: pyrosequencing

characteristic: sequencing method

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: UNIVERSITY OF BAYREUTH

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: soil

text: agricultural soil

text: soil

text: Germany

text: mimarks-survey

text: ATCATC

text: uncultured bacterium

text: uncultured bacterium

text: pyrosequencing


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF BAYREUTH

text: public

text: soil

text: agricultural soil

characteristic: environment (feature)

text: soil

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

text: mimarks-survey

characteristic: miscellaneous environmental package

text: ATCTGC

characteristic: multiplex identifiers

text: uncultured bacterium

characteristic: organism

characteristic: pcr primers

text: uncultured bacterium

text: pyrosequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: UNIVERSITY OF BAYREUTH

text: public

text: soil

characteristic: environment (biome)

text: agricultural soil

text: soil

text: Germany

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: ACACTG

text: uncultured bacterium

characteristic: project name

text: uncultured bacterium

text: pyrosequencing

characteristic: sequencing method

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF BAYREUTH

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: soil

text: agricultural soil

text: soil

text: Germany

text: mimarks-survey

text: AGCACG

text: uncultured bacterium

text: uncultured bacterium

text: pyrosequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: UNIVERSITY OF BAYREUTH

text: public

text: soil

text: agricultural soil

characteristic: environment (feature)

text: soil

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

text: mimarks-survey

characteristic: miscellaneous environmental package

text: AGTATG

characteristic: multiplex identifiers

text: uncultured bacterium

characteristic: organism

characteristic: pcr primers

text: uncultured bacterium

text: pyrosequencing


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF BAYREUTH

text: public

text: soil

characteristic: environment (biome)

text: agricultural soil

text: soil

text: Germany

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: ATAGTG

text: uncultured bacterium

characteristic: project name

text: uncultured bacterium

text: pyrosequencing

characteristic: sequencing method

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: UNIVERSITY OF BAYREUTH

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: soil

text: agricultural soil

text: soil

text: Germany

text: mimarks-survey

text: TACAGC

text: uncultured bacterium

text: uncultured bacterium

text: pyrosequencing


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF BAYREUTH

text: public

text: soil

text: agricultural soil

characteristic: environment (feature)

text: soil

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

text: mimarks-survey

characteristic: miscellaneous environmental package

text: TAGATC

characteristic: multiplex identifiers

text: uncultured bacterium

characteristic: organism

characteristic: pcr primers

text: uncultured bacterium

text: pyrosequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: UNIVERSITY OF BAYREUTH

text: public

text: soil

characteristic: environment (biome)

text: agricultural soil

text: soil

text: Germany

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: TAGCAC

text: uncultured bacterium

characteristic: project name

text: uncultured bacterium

text: pyrosequencing

characteristic: sequencing method

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF BAYREUTH

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: soil

text: agricultural soil

text: soil

text: Germany

text: mimarks-survey

text: TAGTGC

text: uncultured bacterium

text: uncultured bacterium

text: pyrosequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: UNIVERSITY OF BAYREUTH

text: public

text: soil

text: agricultural soil

characteristic: environment (feature)

text: soil

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

text: mimarks-survey

characteristic: miscellaneous environmental package

text: TATCGC

characteristic: multiplex identifiers

text: uncultured bacterium

characteristic: organism

characteristic: pcr primers

text: uncultured bacterium

text: pyrosequencing


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF BAYREUTH

text: public

text: soil

characteristic: environment (biome)

text: agricultural soil

text: soil

text: Germany

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: TCACGC

text: uncultured bacterium

characteristic: project name

text: uncultured bacterium

text: pyrosequencing

characteristic: sequencing method

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: UNIVERSITY OF BAYREUTH

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: soil

text: agricultural soil

text: soil

text: Germany

text: mimarks-survey

text: TCTAGC

text: uncultured bacterium

text: uncultured bacterium

text: pyrosequencing


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF BAYREUTH

text: public

text: soil

text: agricultural soil

characteristic: environment (feature)

text: soil

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

text: mimarks-survey

characteristic: miscellaneous environmental package

text: TCTCAC

characteristic: multiplex identifiers

text: uncultured bacterium

characteristic: organism

characteristic: pcr primers

text: uncultured bacterium

text: pyrosequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: UNIVERSITY OF BAYREUTH

text: public

text: soil

characteristic: environment (biome)

text: agricultural soil

text: soil

text: Germany

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: TGACAC

text: uncultured bacterium

characteristic: project name

text: uncultured bacterium

text: pyrosequencing

characteristic: sequencing method

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF BAYREUTH

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: soil

text: agricultural soil

text: soil

text: Germany

text: mimarks-survey

text: TGCATC

text: uncultured bacterium

text: uncultured bacterium

text: pyrosequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: UNIVERSITY OF BAYREUTH

text: public

text: soil

text: agricultural soil

characteristic: environment (feature)

text: soil

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

text: mimarks-survey

characteristic: miscellaneous environmental package

text: TGTCTC

characteristic: multiplex identifiers

text: uncultured bacterium

characteristic: organism

characteristic: pcr primers

text: uncultured bacterium

text: pyrosequencing


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF BAYREUTH

text: public

text: soil

characteristic: environment (biome)

text: agricultural soil

text: soil

text: Germany

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: TGTGAC

text: uncultured bacterium

characteristic: project name

text: uncultured bacterium

text: pyrosequencing

characteristic: sequencing method

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: UNIVERSITY OF BAYREUTH

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: soil

text: agricultural soil

text: soil

text: Germany

text: mimarks-survey

text: TACACG

text: uncultured bacterium

text: uncultured bacterium

text: pyrosequencing


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF BAYREUTH

text: public

text: soil

text: agricultural soil

characteristic: environment (feature)

text: soil

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

text: mimarks-survey

characteristic: miscellaneous environmental package

text: TACGTG

characteristic: multiplex identifiers

text: uncultured bacterium

characteristic: organism

characteristic: pcr primers

text: uncultured bacterium

text: pyrosequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: UNIVERSITY OF BAYREUTH

text: public

text: soil

characteristic: environment (biome)

text: agricultural soil

text: soil

text: Germany

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: TACTAG

text: uncultured bacterium

characteristic: project name

text: uncultured bacterium

text: pyrosequencing

characteristic: sequencing method

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF BAYREUTH

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: soil

text: agricultural soil

text: soil

text: Germany

text: mimarks-survey

text: TAGCTG

text: uncultured bacterium

text: uncultured bacterium

text: pyrosequencing


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: UNIVERSITY OF BAYREUTH

text: public

text: soil

text: agricultural soil

characteristic: environment (feature)

text: soil

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

text: mimarks-survey

characteristic: miscellaneous environmental package

text: TATATG

characteristic: multiplex identifiers

text: uncultured bacterium

characteristic: organism

characteristic: pcr primers

text: uncultured bacterium

text: pyrosequencing


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: UNIVERSITY OF BAYREUTH

text: public

text: soil

characteristic: environment (biome)

text: agricultural soil

text: soil

text: Germany

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: TATCAG

text: uncultured bacterium

characteristic: project name

text: uncultured bacterium

text: pyrosequencing

characteristic: sequencing method

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:Max Planck Institute for Biogeochemistry

characteristic: Submitter Id

characteristic: collection date

unit: m

characteristic: depth

text: Arctic tundra

text: floodplain

text: soil

text: Russia

characteristic: geographic location (elevation)

text: 68.3647 N

text: 161.2022 E

text: metagenome

text: metagenome

text: Drainage Chersky

text: metagenome

text: Illumina MiSeq

text: soil

characteristic: soil environmental package

text: 16S Chersky 2013


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: Max Planck Institute for Biogeochemistry

text: public

text: Arctic tundra

characteristic: environment (biome)

text: floodplain

characteristic: environment (feature)

text: soil

characteristic: environment (material)

text: Russia

characteristic: geographic location (country and/or sea)

text: 68.3647 N

characteristic: geographic location (latitude)

text: 161.2022 E

characteristic: geographic location (longitude)

text: metagenome

text: metagenome

characteristic: organism

text: Drainage Chersky

text: metagenome

text: Illumina MiSeq

text: soil

text: 16S Chersky 2013


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: UBERON:feces

characteristic: body habitat

text: UBERON:feces

characteristic: body product

text: UBERON:feces

characteristic: body site

characteristic: description

text: True

characteristic: elevation

text: grassland biome

characteristic: env biome

text: animal-associated habitat

characteristic: env feature

text: host-associated

characteristic: env package

text: feces

text: Passeriformes

characteristic: family

text: Hirundo

characteristic: genus

text: USA:CO

characteristic: geo loc name

text: grassland

characteristic: habitat

text: barn swallow

characteristic: host common name

text: Hirundo rustica erythrogaster

characteristic: host scientific name

characteristic: host subject id

characteristic: host taxid

characteristic: latitude

text: adult

characteristic: life stage

characteristic: longitude

text: gut metagenome

text: UCSD

text: False

text: stool

characteristic: sample type

text: gut metagenome

text: male

characteristic: sex

text: Barn swallow social network microbiome 2014

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: UBERON:feces

characteristic: body habitat

text: UBERON:feces

characteristic: body product

text: UBERON:feces

characteristic: body site

characteristic: description

text: True

characteristic: elevation

text: grassland biome

characteristic: env biome

text: animal-associated habitat

text: host-associated

text: feces

text: Passeriformes

text: Hirundo

text: USA:CO

text: grassland

text: barn swallow

text: Hirundo rustica erythrogaster

text: adult

text: gut metagenome

characteristic: organism

text: UCSD

text: False

text: stool

text: gut metagenome

text: female


characteristic: ENA-CHECKLIST

text: UCSDMI

text: public

text: UBERON:feces

text: UBERON:feces

text: UBERON:feces

text: True

text: grassland biome

text: animal-associated habitat

characteristic: env feature

text: host-associated

characteristic: env package

text: feces

text: Passeriformes

characteristic: family

text: Hirundo

characteristic: genus

text: USA:CO

characteristic: geo loc name

text: grassland

characteristic: habitat

text: barn swallow

characteristic: host common name

text: Hirundo rustica erythrogaster

characteristic: host scientific name

text: UT

characteristic: host subject id

characteristic: host taxid

characteristic: latitude

text: adult

characteristic: life stage

characteristic: longitude

text: gut metagenome

text: UCSD

text: False

text: stool

characteristic: sample type

text: gut metagenome

text: female

characteristic: sex

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: UBERON:feces

characteristic: body habitat

text: UBERON:feces

characteristic: body product

text: UBERON:feces

characteristic: body site

characteristic: description

text: True

characteristic: elevation

text: grassland biome

characteristic: env biome

text: animal-associated habitat

text: host-associated

text: feces

text: Passeriformes

text: Hirundo

text: USA:CO

text: grassland

text: barn swallow

text: Hirundo rustica erythrogaster

text: adult

text: gut metagenome

characteristic: organism

text: UCSD

text: False

text: stool

text: gut metagenome

text: male


characteristic: ENA-CHECKLIST

text: UCSDMI

text: public

text: UBERON:feces

text: UBERON:feces

text: UBERON:feces

text: True

text: grassland biome

text: animal-associated habitat

characteristic: env feature

text: host-associated

characteristic: env package

text: feces

text: Passeriformes

characteristic: family

text: Hirundo

characteristic: genus

text: USA:CO

characteristic: geo loc name

text: grassland

characteristic: habitat

text: barn swallow

characteristic: host common name

text: Hirundo rustica erythrogaster

characteristic: host scientific name

characteristic: host subject id

characteristic: host taxid

characteristic: latitude

text: adult

characteristic: life stage

characteristic: longitude

text: gut metagenome

text: UCSD

text: False

text: stool

characteristic: sample type

text: gut metagenome

text: female

characteristic: sex

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Gurdon Institute

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:Gurdon Institute

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: Protocols: Animals were harvested and washed 3X in M9 buffer. Syncronised population of L1 animals were grown until young adult stage. For heat stress, animals were heat-shocked at 37℃ for 4hrs with food. For starvation experiments, young adult stage animals were plated on either food plates for control or on empty plates for starvation at 20℃ for 4hrs. Settled animals were mixed with Trisure reagent, bead beaten using zirconia beads, and the RNA is extracted using chloroform. For total RNA sequencing, Illumina Ribozero kit is used to remove ribosomal RNA from 1ug of total RNA prior to library preparation. RNA sequencing libraries are prepared using NEB Next Ultra library preparation kit.

characteristic: description

text: young adult

characteristic: developmental stage

characteristic: growth condition

text: Caenorhabditis elegans

characteristic: organism

text: Caenorhabditis elegans

text: Caenorhabditis elegans

characteristic: strain

type: has member


text: Gurdon Institute

text: public

text: ArrayExpress

text: young adult

text: fed, 20C

text: Caenorhabditis elegans

text: Caenorhabditis elegans

text: Caenorhabditis elegans

characteristic: title


characteristic: ENA-CHECKLIST

text: Gurdon Institute

text: public

text: ArrayExpress

text: young adult

text: starved, 20C

text: Caenorhabditis elegans

text: Caenorhabditis elegans

text: Caenorhabditis elegans


E-MTAB-4904:Sample 1

characteristic: ENA-FIRST-PUBLIC

text: EMBL

text: public

text: E-MTAB-4904:Sample 1

text: ArrayExpress

text: embryonic stem cell

characteristic: cell type

text: house mouse

characteristic: common name

text: Protocols: Mouse ESCs were maintained without feeders in “LIF+serum” medium (DMEM (high glucose, no glutamine, with sodium bicarbonate, Invitrogen) supplemented with 15% ES-qualified EmbryoMax Fetal Calf Serum (Millipore), 10 ng/ml murine LIF (EMBL Protein Expression and Purification Core Facility), 1x Non-Essential Amino Acids, 2 mM L-glutamine, 1 mM sodium pyruvate, 100 U/ml penicillin and 100 μg/ml strep- tomycin, 0.1 mM 2-mercaptoethanol (all Invitrogen) on culture dishes (Nunc) coated with 0.1% gelatin (Sigma) solution and cultured at 37◦C with 5% CO2. Medium was changed daily and cells were passaged every other day with 0.05% Trypsin-EDTA (Invitrogen) at a passaging ratio of 1/6- 1/12. N2B27 medium was prepared from a 1:1 mixture of DMEM/F12 (without HEPES, with L-glutamine) and neurobasal medium with 0.5x B-27 (without vitamin A) and 0.5x N-2 supplements, 100 U/ml penicillin and 100 μg/ml streptomycin, 0.25 mM L-glutamine, 0.1 mM 2-mercaptoethanol (all Invitrogen), 10 μg/ml BSA fraction V and 10 μg/ml human recombinant insulin (both Sigma). mESCs were differentiated towards an endodermal progenitor fate following the method described by Borowiak et al. (cell Stem Cell, 2009). Briefly, mESCs were seeded at a density of 2500 cells per cm2 onto 0.1% gelatin coated dishes one day prior to the start of the differentiation procedure. The following day, cells were rinsed in D-PBS and switched to endodermal differentiation medium (Advanced RPMI 1640 (ThermoFisher), 1 μM IDE-1 (Tocris), 0.2% (v/v) fetal calf serum (Millipore), 2 mM L-glutamine (Sigma)). Samples collected 24 h after switching to the differentiation regime are referred to as “day 1” differentiation samples. Medium was replaced every other day. mESCs were differentiated towards a mesodermal progenitor fate following the protocol described in Torres et al. (PLoS ONE, 2012). Briefly, mESCs were seeded at a density of 2500 cells per cm2 onto 0.1% gelatin coated dishes one day prior to the start of the differentiation procedure. The following day, cells were rinsed in D-PBS and switched to mesodermal differentiation medium (Glasgow’s MEM (ThermoFisher), 10% (v/v) KnockOut Serum Replacement (ThermoFisher), 0.1 mM 2-mercaptoethanol (Invitrogen), 1x non-essential amino acids (Gibco) and 1 mM sodium pyruvate (Gibco)). Medium was replaced every other day. mESCs were differentiated towards an ectodermal progenitor fate following the protocol developed by Ying et al. (Nature Biotechnology 2003). Briefly, mESCs were seeded at a density of 7500 cells per cm2 onto 0.1% gelatin coated dishes one day prior to the start of the differentiation procedure. The following day, cells were washed in D-PBS and switched to N2B27 medium. all-trans-Retinoic acid (Sigma) was added at 1 μM to the differentiation medium 24h after the start of the differentiation procedure. Medium was replaced every three to four days. mESCs were differentiated towards an Epiblast Stem Cell like state by culture in N2B27 medium supplemented with 12 ng/ml murine FGF2 and 20 ng/ml murine Activin A (both PeproTech). Medium was changed daily and cells were passaged every other day with StemPro Accutase (Invitrogen) at a passaging ratio of 1/3–1/6. Barcoded mRNA libraries were prepared using TruSeq RNA Sample Preparation (Illumina) following the manufacturer's instructions.

text: 1 day after differentiation

text: N2B27 Retinoic Acid ectodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 1


E-MTAB-4904:Sample 10

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMBL

characteristic: INSDC center name

text: public

text: E-MTAB-4904:Sample 10

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 5 day after differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 10


E-MTAB-4904:Sample 11

text: EMBL

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-4904:Sample 11

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 6 day after differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 11


E-MTAB-4904:Sample 12

text: EMBL

text: public

characteristic: SRA accession

text: E-MTAB-4904:Sample 12

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: embryonic stem cell

text: house mouse

text: Protocols: Mouse ESCs were maintained without feeders in “LIF+serum” medium (DMEM (high glucose, no glutamine, with sodium bicarbonate, Invitrogen) supplemented with 15% ES-qualified EmbryoMax Fetal Calf Serum (Millipore), 10 ng/ml murine LIF (EMBL Protein Expression and Purification Core Facility), 1x Non-Essential Amino Acids, 2 mM L-glutamine, 1 mM sodium pyruvate, 100 U/ml penicillin and 100 μg/ml strep- tomycin, 0.1 mM 2-mercaptoethanol (all Invitrogen) on culture dishes (Nunc) coated with 0.1% gelatin (Sigma) solution and cultured at 37◦C with 5% CO2. Medium was changed daily and cells were passaged every other day with 0.05% Trypsin-EDTA (Invitrogen) at a passaging ratio of 1/6- 1/12. N2B27 medium was prepared from a 1:1 mixture of DMEM/F12 (without HEPES, with L-glutamine) and neurobasal medium with 0.5x B-27 (without vitamin A) and 0.5x N-2 supplements, 100 U/ml penicillin and 100 μg/ml streptomycin, 0.25 mM L-glutamine, 0.1 mM 2-mercaptoethanol (all Invitrogen), 10 μg/ml BSA fraction V and 10 μg/ml human recombinant insulin (both Sigma). mESCs were differentiated towards an endodermal progenitor fate following the method described by Borowiak et al. (cell Stem Cell, 2009). Briefly, mESCs were seeded at a density of 2500 cells per cm2 onto 0.1% gelatin coated dishes one day prior to the start of the differentiation procedure. The following day, cells were rinsed in D-PBS and switched to endodermal differentiation medium (Advanced RPMI 1640 (ThermoFisher), 1 μM IDE-1 (Tocris), 0.2% (v/v) fetal calf serum (Millipore), 2 mM L-glutamine (Sigma)). Samples collected 24 h after switching to the differentiation regime are referred to as “day 1” differentiation samples. Medium was replaced every other day. mESCs were differentiated towards a mesodermal progenitor fate following the protocol described in Torres et al. (PLoS ONE, 2012). Briefly, mESCs were seeded at a density of 2500 cells per cm2 onto 0.1% gelatin coated dishes one day prior to the start of the differentiation procedure. The following day, cells were rinsed in D-PBS and switched to mesodermal differentiation medium (Glasgow’s MEM (ThermoFisher), 10% (v/v) KnockOut Serum Replacement (ThermoFisher), 0.1 mM 2-mercaptoethanol (Invitrogen), 1x non-essential amino acids (Gibco) and 1 mM sodium pyruvate (Gibco)). Medium was replaced every other day. mESCs were differentiated towards an ectodermal progenitor fate following the protocol developed by Ying et al. (Nature Biotechnology 2003). Briefly, mESCs were seeded at a density of 7500 cells per cm2 onto 0.1% gelatin coated dishes one day prior to the start of the differentiation procedure. The following day, cells were washed in D-PBS and switched to N2B27 medium. all-trans-Retinoic acid (Sigma) was added at 1 μM to the differentiation medium 24h after the start of the differentiation procedure. Medium was replaced every three to four days. mESCs were differentiated towards an Epiblast Stem Cell like state by culture in N2B27 medium supplemented with 12 ng/ml murine FGF2 and 20 ng/ml murine Activin A (both PeproTech). Medium was changed daily and cells were passaged every other day with StemPro Accutase (Invitrogen) at a passaging ratio of 1/3–1/6. Barcoded miRNA libraries were prepared using NEBNext Multiplex Small RNA Library Prep Set for Illumina (New England Biolabs) following the manufacturer's instructions

text: 6 day after differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 12


E-MTAB-4904:Sample 13

text: EMBL

text: public

text: E-MTAB-4904:Sample 13

text: ArrayExpress

text: embryonic stem cell

text: house mouse

characteristic: description

text: 1 day after differentiation

characteristic: developmental stage

text: IDE1 endodermal differentiation

characteristic: growth condition

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 13


E-MTAB-4904:Sample 14

text: EMBL

text: public

text: E-MTAB-4904:Sample 14

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 1 day after differentiation

text: IDE1 endodermal differentiation

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: Sample 14

characteristic: title


E-MTAB-4904:Sample 15

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: EMBL

text: public

text: E-MTAB-4904:Sample 15

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 2 day after differentiation

text: IDE1 endodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 15


E-MTAB-4904:Sample 16

text: EMBL

text: public

text: E-MTAB-4904:Sample 16

text: ArrayExpress

text: embryonic stem cell

characteristic: cell type

text: house mouse

characteristic: common name

text: 2 day after differentiation

text: IDE1 endodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 16


E-MTAB-4904:Sample 17

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMBL

text: public

text: E-MTAB-4904:Sample 17

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 3 day after differentiation

text: IDE1 endodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 17


E-MTAB-4904:Sample 18

text: EMBL

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-4904:Sample 18

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 3 day after differentiation

text: IDE1 endodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 18


E-MTAB-4904:Sample 19

text: EMBL

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-4904:Sample 19

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 4 day after differentiation

text: IDE1 endodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 19


E-MTAB-4904:Sample 2

text: EMBL

text: public

characteristic: SRA accession

text: E-MTAB-4904:Sample 2

characteristic: Submitter Id

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 1 day after differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 2


E-MTAB-4904:Sample 20

text: EMBL

text: public

text: E-MTAB-4904:Sample 20

text: ArrayExpress

characteristic: broker name

text: embryonic stem cell

text: house mouse

characteristic: description

text: 4 day after differentiation

text: IDE1 endodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 20


E-MTAB-4904:Sample 21

text: EMBL

text: public

text: E-MTAB-4904:Sample 21

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 5 day after differentiation

characteristic: developmental stage

text: IDE1 endodermal differentiation

characteristic: growth condition

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 21


E-MTAB-4904:Sample 22

text: EMBL

text: public

text: E-MTAB-4904:Sample 22

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 5 day after differentiation

text: IDE1 endodermal differentiation

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: Sample 22

characteristic: title


E-MTAB-4904:Sample 23

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: EMBL

text: public

text: E-MTAB-4904:Sample 23

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 6 day after differentiation

text: IDE1 endodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 23


E-MTAB-4904:Sample 24

text: EMBL

text: public

text: E-MTAB-4904:Sample 24

text: ArrayExpress

text: embryonic stem cell

characteristic: cell type

text: house mouse

characteristic: common name

text: 6 day after differentiation

text: IDE1 endodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 24


E-MTAB-4904:Sample 25

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMBL

text: public

text: E-MTAB-4904:Sample 25

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 2 day after differentiation

text: N2B27 Activin+FGF EpiSC differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 25


E-MTAB-4904:Sample 26

text: EMBL

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-4904:Sample 26

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 2 day after differentiation

text: N2B27 Activin+FGF EpiSC differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 26


E-MTAB-4904:Sample 27

text: EMBL

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-4904:Sample 27

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 3 day after differentiation

text: N2B27 Activin+FGF EpiSC differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 27


E-MTAB-4904:Sample 28

text: EMBL

text: public

characteristic: SRA accession

text: E-MTAB-4904:Sample 28

characteristic: Submitter Id

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 3 day after differentiation

text: N2B27 Activin+FGF EpiSC differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 28


E-MTAB-4904:Sample 29

text: EMBL

text: public

text: E-MTAB-4904:Sample 29

text: ArrayExpress

characteristic: broker name

text: embryonic stem cell

text: house mouse

characteristic: description

text: 4 day after differentiation

text: N2B27 Activin+FGF EpiSC differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 29


E-MTAB-4904:Sample 3

text: EMBL

text: public

text: E-MTAB-4904:Sample 3

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 2 day after differentiation

characteristic: developmental stage

characteristic: growth condition

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 3


E-MTAB-4904:Sample 30

text: EMBL

text: public

text: E-MTAB-4904:Sample 30

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 4 day after differentiation

text: N2B27 Activin+FGF EpiSC differentiation

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: Sample 30

characteristic: title


E-MTAB-4904:Sample 31

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: EMBL

text: public

text: E-MTAB-4904:Sample 31

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 5 day after differentiation

text: N2B27 Activin+FGF EpiSC differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 31


E-MTAB-4904:Sample 32

text: EMBL

text: public

text: E-MTAB-4904:Sample 32

text: ArrayExpress

text: embryonic stem cell

characteristic: cell type

text: house mouse

characteristic: common name

text: 5 day after differentiation

text: N2B27 Activin+FGF EpiSC differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 32


E-MTAB-4904:Sample 33

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMBL

text: public

text: E-MTAB-4904:Sample 33

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 6 day after differentiation

text: N2B27 Activin+FGF EpiSC differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 33


E-MTAB-4904:Sample 34

text: EMBL

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-4904:Sample 34

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 6 day after differentiation

text: N2B27 Activin+FGF EpiSC differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 34


E-MTAB-4904:Sample 35

text: EMBL

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-4904:Sample 35

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 7 day after differentiation

text: N2B27 Activin+FGF EpiSC differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 35


E-MTAB-4904:Sample 36

text: EMBL

text: public

characteristic: SRA accession

text: E-MTAB-4904:Sample 36

characteristic: Submitter Id

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 7 day after differentiation

text: N2B27 Activin+FGF EpiSC differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 36


E-MTAB-4904:Sample 37

text: EMBL

text: public

text: E-MTAB-4904:Sample 37

text: ArrayExpress

characteristic: broker name

text: embryonic stem cell

text: house mouse

characteristic: description

text: 8 day after differentiation

text: N2B27 Activin+FGF EpiSC differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 37


E-MTAB-4904:Sample 38

text: EMBL

text: public

text: E-MTAB-4904:Sample 38

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 9 day after differentiation

characteristic: developmental stage

text: N2B27 Activin+FGF EpiSC differentiation

characteristic: growth condition

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 38


E-MTAB-4904:Sample 39

text: EMBL

text: public

text: E-MTAB-4904:Sample 39

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 9 day after differentiation

text: N2B27 Activin+FGF EpiSC differentiation

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: Sample 39

characteristic: title


E-MTAB-4904:Sample 4

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: EMBL

text: public

text: E-MTAB-4904:Sample 4

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 2 day after differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 4


E-MTAB-4904:Sample 40

text: EMBL

text: public

text: E-MTAB-4904:Sample 40

text: ArrayExpress

text: embryonic stem cell

characteristic: cell type

text: house mouse

characteristic: common name

text: 12 day after differentiation

text: N2B27 Activin+FGF EpiSC differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 40


E-MTAB-4904:Sample 41

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMBL

text: public

text: E-MTAB-4904:Sample 41

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 13 day after differentiation

text: N2B27 Activin+FGF EpiSC differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 41


E-MTAB-4904:Sample 42

text: EMBL

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-4904:Sample 42

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 13 day after differentiation

text: N2B27 Activin+FGF EpiSC differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 42


E-MTAB-4904:Sample 43

text: EMBL

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-4904:Sample 43

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 0 day after differentiation

text: LIF+serum

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 43


E-MTAB-4904:Sample 44

text: EMBL

text: public

characteristic: SRA accession

text: E-MTAB-4904:Sample 44

characteristic: Submitter Id

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 0 day after differentiation

text: LIF+serum

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 44


E-MTAB-4904:Sample 45

text: EMBL

text: public

text: E-MTAB-4904:Sample 45

text: ArrayExpress

characteristic: broker name

text: embryonic stem cell

text: house mouse

characteristic: description

text: 0 day after differentiation

text: LIF+serum

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 45


E-MTAB-4904:Sample 46

text: EMBL

text: public

text: E-MTAB-4904:Sample 46

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 1 day after differentiation

characteristic: developmental stage

text: GMEM KSR mesodermal differentiation

characteristic: growth condition

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 46


E-MTAB-4904:Sample 47

text: EMBL

text: public

text: E-MTAB-4904:Sample 47

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 1 day after differentiation

text: GMEM KSR mesodermal differentiation

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: Sample 47

characteristic: title


E-MTAB-4904:Sample 48

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: EMBL

text: public

text: E-MTAB-4904:Sample 48

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 2 day after differentiation

text: GMEM KSR mesodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 48


E-MTAB-4904:Sample 49

text: EMBL

text: public

text: E-MTAB-4904:Sample 49

text: ArrayExpress

text: embryonic stem cell

characteristic: cell type

text: house mouse

characteristic: common name

text: 2 day after differentiation

text: GMEM KSR mesodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 49


E-MTAB-4904:Sample 5

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMBL

text: public

text: E-MTAB-4904:Sample 5

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 3 day after differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 5


E-MTAB-4904:Sample 50

text: EMBL

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-4904:Sample 50

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 3 day after differentiation

text: GMEM KSR mesodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 50


E-MTAB-4904:Sample 51

text: EMBL

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-4904:Sample 51

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 3 day after differentiation

text: GMEM KSR mesodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 51


E-MTAB-4904:Sample 52

text: EMBL

text: public

characteristic: SRA accession

text: E-MTAB-4904:Sample 52

characteristic: Submitter Id

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 4 day after differentiation

text: GMEM KSR mesodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 52


E-MTAB-4904:Sample 53

text: EMBL

text: public

text: E-MTAB-4904:Sample 53

text: ArrayExpress

characteristic: broker name

text: embryonic stem cell

text: house mouse

characteristic: description

text: 4 day after differentiation

text: GMEM KSR mesodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 53


E-MTAB-4904:Sample 54

text: EMBL

text: public

text: E-MTAB-4904:Sample 54

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 5 day after differentiation

characteristic: developmental stage

text: GMEM KSR mesodermal differentiation

characteristic: growth condition

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 54


E-MTAB-4904:Sample 55

text: EMBL

text: public

text: E-MTAB-4904:Sample 55

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 5 day after differentiation

text: GMEM KSR mesodermal differentiation

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: Sample 55

characteristic: title


E-MTAB-4904:Sample 56

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: EMBL

text: public

text: E-MTAB-4904:Sample 56

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 6 day after differentiation

text: GMEM KSR mesodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 56


E-MTAB-4904:Sample 57

text: EMBL

text: public

text: E-MTAB-4904:Sample 57

text: ArrayExpress

text: embryonic stem cell

characteristic: cell type

text: house mouse

characteristic: common name

text: 6 day after differentiation

text: GMEM KSR mesodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 57


E-MTAB-4904:Sample 58

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMBL

text: public

text: E-MTAB-4904:Sample 58

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 9 day after differentiation

text: GMEM KSR mesodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 58


E-MTAB-4904:Sample 59

text: EMBL

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-4904:Sample 59

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 9 day after differentiation

text: GMEM KSR mesodermal differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 59


E-MTAB-4904:Sample 6

text: EMBL

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-4904:Sample 6

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 3 day after differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 6


E-MTAB-4904:Sample 60

text: EMBL

text: public

characteristic: SRA accession

text: E-MTAB-4904:Sample 60

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

text: Protocols: Mouse ESCs were maintained without feeders in “LIF+serum” medium (DMEM (high glucose, no glutamine, with sodium bicarbonate, Invitrogen) supplemented with 15% ES-qualified EmbryoMax Fetal Calf Serum (Millipore), 10 ng/ml murine LIF (EMBL Protein Expression and Purification Core Facility), 1x Non-Essential Amino Acids, 2 mM L-glutamine, 1 mM sodium pyruvate, 100 U/ml penicillin and 100 μg/ml strep- tomycin, 0.1 mM 2-mercaptoethanol (all Invitrogen) on culture dishes (Nunc) coated with 0.1% gelatin (Sigma) solution and cultured at 37◦C with 5% CO2. Medium was changed daily and cells were passaged every other day with 0.05% Trypsin-EDTA (Invitrogen) at a passaging ratio of 1/6- 1/12. N2B27 medium was prepared from a 1:1 mixture of DMEM/F12 (without HEPES, with L-glutamine) and neurobasal medium with 0.5x B-27 (without vitamin A) and 0.5x N-2 supplements, 100 U/ml penicillin and 100 μg/ml streptomycin, 0.25 mM L-glutamine, 0.1 mM 2-mercaptoethanol (all Invitrogen), 10 μg/ml BSA fraction V and 10 μg/ml human recombinant insulin (both Sigma). mESCs were differentiated towards an endodermal progenitor fate following the method described by Borowiak et al. (cell Stem Cell, 2009). Briefly, mESCs were seeded at a density of 2500 cells per cm2 onto 0.1% gelatin coated dishes one day prior to the start of the differentiation procedure. The following day, cells were rinsed in D-PBS and switched to endodermal differentiation medium (Advanced RPMI 1640 (ThermoFisher), 1 μM IDE-1 (Tocris), 0.2% (v/v) fetal calf serum (Millipore), 2 mM L-glutamine (Sigma)). Samples collected 24 h after switching to the differentiation regime are referred to as “day 1” differentiation samples. Medium was replaced every other day. mESCs were differentiated towards a mesodermal progenitor fate following the protocol described in Torres et al. (PLoS ONE, 2012). Briefly, mESCs were seeded at a density of 2500 cells per cm2 onto 0.1% gelatin coated dishes one day prior to the start of the differentiation procedure. The following day, cells were rinsed in D-PBS and switched to mesodermal differentiation medium (Glasgow’s MEM (ThermoFisher), 10% (v/v) KnockOut Serum Replacement (ThermoFisher), 0.1 mM 2-mercaptoethanol (Invitrogen), 1x non-essential amino acids (Gibco) and 1 mM sodium pyruvate (Gibco)). Medium was replaced every other day. mESCs were differentiated towards an ectodermal progenitor fate following the protocol developed by Ying et al. (Nature Biotechnology 2003). Briefly, mESCs were seeded at a density of 7500 cells per cm2 onto 0.1% gelatin coated dishes one day prior to the start of the differentiation procedure. The following day, cells were washed in D-PBS and switched to N2B27 medium. all-trans-Retinoic acid (Sigma) was added at 1 μM to the differentiation medium 24h after the start of the differentiation procedure. Medium was replaced every three to four days. mESCs were differentiated towards an Epiblast Stem Cell like state by culture in N2B27 medium supplemented with 12 ng/ml murine FGF2 and 20 ng/ml murine Activin A (both PeproTech). Medium was changed daily and cells were passaged every other day with StemPro Accutase (Invitrogen) at a passaging ratio of 1/3-1/6. Barcoded mRNA libraries were prepared using TruSeq RNA Sample Preparation (Illumina) following the manufacturer's instructions.

text: adult

text: differentiated adult tissue

text: Mus musculus

text: Mus musculus

text: brain

characteristic: organism part

text: Mus musculus

text: Sample 60


E-MTAB-4904:Sample 61

text: EMBL

text: public

text: E-MTAB-4904:Sample 61

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: description

text: embryo

characteristic: developmental stage

text: E7 mouse embryo

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 61


E-MTAB-4904:Sample 62

text: EMBL

text: public

text: E-MTAB-4904:Sample 62

text: ArrayExpress

text: house mouse

text: adult

text: differentiated adult tissue

characteristic: growth condition

text: Mus musculus

characteristic: organism

text: Mus musculus

text: heart

text: Mus musculus

text: Sample 62

characteristic: title


E-MTAB-4904:Sample 63

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: EMBL

text: public

text: E-MTAB-4904:Sample 63

text: ArrayExpress

text: house mouse

text: adult

text: differentiated adult tissue

text: Mus musculus

text: Mus musculus

text: kidney

text: Mus musculus

text: Sample 63


E-MTAB-4904:Sample 64

characteristic: ENA-LAST-UPDATE

text: EMBL

text: public

text: E-MTAB-4904:Sample 64

text: ArrayExpress

text: house mouse

characteristic: common name

text: adult

text: differentiated adult tissue

text: Mus musculus

text: Mus musculus

text: liver

text: Mus musculus

text: Sample 64


E-MTAB-4904:Sample 65

characteristic: External Id

text: EMBL

characteristic: INSDC center name

text: public

text: E-MTAB-4904:Sample 65

text: ArrayExpress

text: house mouse

text: adult

text: differentiated adult tissue

text: Mus musculus

text: Mus musculus

text: lung

text: Mus musculus

text: Sample 65


E-MTAB-4904:Sample 66

text: EMBL

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-4904:Sample 66

text: ArrayExpress

text: house mouse

text: adult

text: differentiated adult tissue

text: Mus musculus

text: Mus musculus

text: smooth muscle

text: Mus musculus

text: Sample 66


E-MTAB-4904:Sample 67

text: EMBL

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-4904:Sample 67

text: ArrayExpress

text: house mouse

text: adult

text: differentiated adult tissue

text: Mus musculus

text: Mus musculus

text: spleen

text: Mus musculus

text: Sample 67


E-MTAB-4904:Sample 68

text: EMBL

text: public

text: E-MTAB-4904:Sample 68

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

text: adult

text: differentiated adult tissue

text: Mus musculus

text: Mus musculus

text: thymus

characteristic: organism part

text: Mus musculus

text: Sample 68


E-MTAB-4904:Sample 7

text: EMBL

text: public

text: E-MTAB-4904:Sample 7

text: ArrayExpress

characteristic: broker name

text: embryonic stem cell

characteristic: cell type

text: house mouse

characteristic: description

text: 4 day after differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 7


E-MTAB-4904:Sample 8

text: EMBL

text: public

text: E-MTAB-4904:Sample 8

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 4 day after differentiation

characteristic: developmental stage

characteristic: growth condition

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: Sample 8


E-MTAB-4904:Sample 9

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: EMBL

text: public

text: E-MTAB-4904:Sample 9

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: 5 day after differentiation

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 9

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIBE-IG

text: public

text: dog

characteristic: common name

text: Alpine Dachsbracke with Neuronal ceroid lipofuscinosis.

text: Canis lupus familiaris

text: Canis lupus familiaris


text: UNIVERSITY OF DELHI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

tag: Namespace:UNIVERSITY OF DELHI

characteristic: collection date

characteristic: depth

text: Terrestrial Biome

characteristic: environment (biome)

text: Habitat

characteristic: environment (feature)

text: Sediment

characteristic: environment (material)

text: India

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: hot springs metagenome

text: Metagenomic recovery of phage assemblage from Manikaran hot springs

characteristic: project name

text: hot springs metagenome

text: sediment

characteristic: sediment environmental package

text: Illumina

characteristic: sequencing method


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: LECA

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Fungal MOTU

characteristic: common name

text: sieving 2 mm

characteristic: composite design/sieving (if any)

text: F~UT Site 2 Quadrat 4

characteristic: description

text: meadow

text: unmown terrace

text: grassland soil

text: France

text: French Alps Lautaret

characteristic: geographic location (region and locality)

text: metagenome

text: doi: 10.1111/1365-2645.12014

characteristic: links to additional analysis

text: gatgatct:actagatc

characteristic: multiplex identifiers

text: soil metagenome

characteristic: organism

text: CAAGAGATCCGTTGTTGAAAGTT:GGAAGTAAAAGTCGTAACAAGG

characteristic: pcr primers

text: soil metagenome

text: Miseq pair-end 250 nt

text: soil

characteristic: soil environmental package

characteristic: target gene

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: GSC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: anonymized name

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1_ 078

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: GSC

text: public

characteristic: INSDC status

characteristic: SRA accession

text: sample_AWF_749906_B1_ 078

characteristic: Submitter Id

text: B1_ 078

text: Gut metagenome

characteristic: common name

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1_ 079

text: GSC

text: public

text: sample_AWF_749906_B1_ 079

text: B1_ 079

text: Gut metagenome

text: gut metagenome

characteristic: organism

text: gut metagenome


sample_AWF_749906_A1 158-2

text: GSC

text: public

text: sample_AWF_749906_A1 158-2

text: A1 158-2

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1_ 080

text: GSC

text: public

text: sample_AWF_749906_B1_ 080

text: B1_ 080

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_A1 108

text: GSC

text: public

text: sample_AWF_749906_A1 108

text: A1 108

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_A1 116

text: GSC

text: public

text: sample_AWF_749906_A1 116

text: A1 116

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1 058-2

text: GSC

text: public

text: sample_AWF_749906_B1 058-2

text: B1 058-2

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1 066

text: GSC

text: public

text: sample_AWF_749906_B1 066

text: B1 066

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_AI 008

text: GSC

text: public

text: sample_AWF_749906_AI 008

text: AI 008

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1 056

text: GSC

text: public

text: sample_AWF_749906_B1 056

text: B1 056

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1 058

text: GSC

text: public

text: sample_AWF_749906_B1 058

text: B1 058

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1 008-2

text: GSC

text: public

text: sample_AWF_749906_B1 008-2

text: B1 008-2

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1 016

text: GSC

text: public

text: sample_AWF_749906_B1 016

text: B1 016

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_A1 008-2

text: GSC

text: public

text: sample_AWF_749906_A1 008-2

text: A1 008-2

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1 166

text: GSC

text: public

text: sample_AWF_749906_B1 166

text: B1 166

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1 108-2

text: GSC

text: public

text: sample_AWF_749906_B1 108-2

text: B1 108-2

text: Gut metagenome

text: gut metagenome

text: gut metagenome


text: GSC

text: public

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_A1 066

text: GSC

text: public

text: sample_AWF_749906_A1 066

text: A1 066

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1 158-2

text: GSC

text: public

text: sample_AWF_749906_B1 158-2

text: B1 158-2

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1 156

text: GSC

text: public

text: sample_AWF_749906_B1 156

text: B1 156

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1 158

text: GSC

text: public

text: sample_AWF_749906_B1 158

text: B1 158

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_A1 058

text: GSC

text: public

text: sample_AWF_749906_A1 058

text: A1 058

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1 106

text: GSC

text: public

text: sample_AWF_749906_B1 106

text: B1 106

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_A1 058-2

text: GSC

text: public

text: sample_AWF_749906_A1 058-2

text: A1 058-2

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_A1 166

text: GSC

text: public

text: sample_AWF_749906_A1 166

text: A1 166

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_A1 158

text: GSC

text: public

text: sample_AWF_749906_A1 158

text: A1 158

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_A1 156

text: GSC

text: public

text: sample_AWF_749906_A1 156

text: A1 156

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1 006

text: GSC

text: public

text: sample_AWF_749906_B1 006

text: B1 006

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1 008

text: GSC

text: public

text: sample_AWF_749906_B1 008

text: B1 008

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_A1 108-2

text: GSC

text: public

text: sample_AWF_749906_A1 108-2

text: A1 108-2

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1 108

text: GSC

text: public

text: sample_AWF_749906_B1 108

text: B1 108

text: Gut metagenome

text: gut metagenome

text: gut metagenome


sample_AWF_749906_B1 116

text: GSC

text: public

text: sample_AWF_749906_B1 116

text: B1 116

text: Gut metagenome

text: gut metagenome

text: gut metagenome


text: University of Lubeck

text: public

tag: Namespace:University of Lubeck

characteristic: collection date

text: house mouse

characteristic: description

text: mice gut

characteristic: environmental package

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: investigation type

text: Mus musculus

text: Gut microbiota in conplastic strains.

characteristic: project name

text: Mus musculus

text: MiSeq

characteristic: sequencing method


characteristic: ArrayExpress-DevelopmentalStage

text: Whole embryo

characteristic: ArrayExpress-OrganismPart

text: Danio rerio

characteristic: ArrayExpress-Species

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: zebrafish

text: Danio rerio

text: 28_hpf_embryo_from_multiallelic_F2_generation_incross

characteristic: sample description

text: Danio rerio

characteristic: title


BGLY

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Evonik Nutrition & Care GmbH

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: BGLY

tag: Namespace:Evonik Nutrition & Care GmbH

characteristic: Submitter Id

text: Bacillus glycinifermentans

characteristic: organism

text: Bacillus glycinifermentans

text: First complete genome sequence of Bacillus glycinifermentans B-27


text: University of Lubeck

text: public

characteristic: collection date

text: human

characteristic: common name

characteristic: description

text: Germany

characteristic: geographic location (country and/or sea)

text: Head Control001

characteristic: investigation type

text: Homo sapiens

text: Microbiome of Psoriasis

characteristic: project name

text: Homo sapiens

text: MiSeq

characteristic: sequencing method

text: Head Control001


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: University of Lubeck

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: human

text: Germany

text: Knee Control002

text: Homo sapiens

text: Microbiome of Psoriasis

text: Homo sapiens

text: MiSeq

text: Knee Control002


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Lubeck

text: public

text: human

text: Germany

text: Head Control007

text: Homo sapiens

text: Microbiome of Psoriasis

text: Homo sapiens

text: MiSeq

text: Head Control007

characteristic: title


text: University of Lubeck

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: human

text: Germany

text: Knee Control007

text: Homo sapiens

text: Microbiome of Psoriasis

text: Homo sapiens

text: MiSeq

text: Knee Control007


text: University of Lubeck

text: public

characteristic: Submitter Id

characteristic: collection date

text: human

text: Germany

text: Back Control007

text: Homo sapiens

characteristic: organism

text: Microbiome of Psoriasis

text: Homo sapiens

text: MiSeq

text: Back Control007


text: University of Lubeck

text: public

text: human

characteristic: common name

characteristic: description

text: Germany

characteristic: geographic location (country and/or sea)

text: Elbow Control007

text: Homo sapiens

text: Microbiome of Psoriasis

text: Homo sapiens

text: MiSeq

text: Elbow Control007


text: University of Lubeck

text: public

text: human

text: Germany

text: Umbilicus Control007

characteristic: investigation type

text: Homo sapiens

text: Microbiome of Psoriasis

characteristic: project name

text: Homo sapiens

text: MiSeq

characteristic: sequencing method

text: Umbilicus Control007


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: University of Lubeck

characteristic: INSDC center name

text: public

text: human

text: Germany

text: Head Control008

text: Homo sapiens

text: Microbiome of Psoriasis

text: Homo sapiens

text: MiSeq

text: Head Control008


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Lubeck

characteristic: INSDC first public

text: public

text: human

text: Germany

text: Knee Control008

text: Homo sapiens

text: Microbiome of Psoriasis

text: Homo sapiens

text: MiSeq

text: Knee Control008


text: University of Lubeck

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: human

text: Germany

text: Back Control002

text: Homo sapiens

text: Microbiome of Psoriasis

text: Homo sapiens

text: MiSeq

text: Back Control002

characteristic: title


text: University of Lubeck

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: human

text: Germany

text: Elbow Control008

text: Homo sapiens

text: Microbiome of Psoriasis

text: Homo sapiens

text: MiSeq

text: Elbow Control008


text: University of Lubeck

text: public

text: human

characteristic: common name

characteristic: description

text: Germany

text: Umbilicus Control008

text: Homo sapiens

characteristic: organism

text: Microbiome of Psoriasis

text: Homo sapiens

text: MiSeq

text: Umbilicus Control008


text: University of Lubeck

text: public

text: human

text: Germany

characteristic: geographic location (country and/or sea)

text: Head Patient012

characteristic: investigation type

text: Homo sapiens

text: Microbiome of Psoriasis

characteristic: project name

text: Homo sapiens

text: MiSeq

text: Head Patient012


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: University of Lubeck

text: public

text: human

text: Germany

text: Elbow Patient012

text: Homo sapiens

text: Microbiome of Psoriasis

text: Homo sapiens

text: MiSeq

characteristic: sequencing method

text: Elbow Patient012


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Lubeck

characteristic: INSDC center name

text: public

text: human

text: Germany

text: Nonlesional Patient012

text: Homo sapiens

text: Microbiome of Psoriasis

text: Homo sapiens

text: MiSeq

text: Nonlesional Patient012


text: University of Lubeck

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: human

text: Germany

text: Umbilicus Patient012

text: Homo sapiens

text: Microbiome of Psoriasis

text: Homo sapiens

text: MiSeq

text: Umbilicus Patient012


text: University of Lubeck

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: human

text: Germany

text: Head Patient013

text: Homo sapiens

text: Microbiome of Psoriasis

text: Homo sapiens

text: MiSeq

text: Head Patient013

characteristic: title


text: University of Lubeck

text: public

characteristic: collection date

text: human

characteristic: common name

characteristic: description

text: Germany

text: Elbow Patient013

text: Homo sapiens

text: Microbiome of Psoriasis

text: Homo sapiens

text: MiSeq

text: Elbow Patient013


text: University of Lubeck

text: public

text: human

text: Germany

characteristic: geographic location (country and/or sea)

text: Nonlesional Patient013

characteristic: investigation type

text: Homo sapiens

characteristic: organism

text: Microbiome of Psoriasis

text: Homo sapiens

text: MiSeq

text: Nonlesional Patient013


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: University of Lubeck

text: public

text: human

text: Germany

text: Umbilicus Patient013

text: Homo sapiens

text: Microbiome of Psoriasis

characteristic: project name

text: Homo sapiens

text: MiSeq

text: Umbilicus Patient013


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Lubeck

text: public

text: human

text: Germany

text: Back Patient013

text: Homo sapiens

text: Microbiome of Psoriasis

text: Homo sapiens

text: MiSeq

characteristic: sequencing method

text: Back Patient013


text: University of Lubeck

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: human

text: Germany

text: Head Patient014

text: Homo sapiens

text: Microbiome of Psoriasis

text: Homo sapiens

text: MiSeq

text: Head Patient014