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characteristic: ArrayExpress-StrainOrLine

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characteristic: Submitter Id

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text: RNA extracted from mesoderm cells of mouse strain C57Bl/6 x Sv145

text: Mus musculus

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status: PUBLIC

text: Mesoderm

tag: attribute

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characteristic: sample description

text: Mus musculus

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text: Mus musculus

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text: Mus musculus

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text: Mus musculus

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characteristic: ENA-FIRST-PUBLIC

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text: Mus musculus

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characteristic: INSDC first public

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text: Mesoderm

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text: Mus musculus

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characteristic: INSDC status

characteristic: SRA accession

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text: Mus musculus

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text: Mesoderm

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text: Mus musculus

text: C57Bl/6 x Sv129

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characteristic: common name

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text: RNA extracted from mesoderm cells of mouse strain C57Bl/6 x Sv136

text: Mus musculus

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text: Mesoderm

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text: Mus musculus

text: C57Bl/6 x Sv129

text: SC

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text: house mouse

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text: RNA extracted from mesoderm cells of mouse strain C57Bl/6 x Sv144

characteristic: sample description

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characteristic: ArrayExpress-StrainOrLine

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characteristic: Submitter Id

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text: RNA extracted from mesoderm cells of mouse strain C57Bl/6 x Sv148

text: Mus musculus

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text: MEF

characteristic: ArrayExpress-CellType

characteristic: ArrayExpress-DevelopmentalStage

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characteristic: ArrayExpress-Species

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characteristic: ENA-CHECKLIST

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text: SC

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text: RNA strain C57Bl/6 x Sv134

text: Mus musculus

text: C57Bl/6 x Sv129


text: MEF

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characteristic: External Id

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characteristic: INSDC center name

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characteristic: INSDC last update

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text: Mus musculus

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text: MEF

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characteristic: INSDC status

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characteristic: common name

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text: MEF

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characteristic: ArrayExpress-StrainOrLine

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characteristic: Submitter Id

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characteristic: sample description

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characteristic: ArrayExpress-CellType

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text: SC

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text: house mouse

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text: Mus musculus

text: C57Bl/6 x Sv129


text: MEF

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characteristic: ArrayExpress-Species

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characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

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text: Mus musculus

text: C57Bl/6 x Sv129


text: MEF

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text: Mus musculus

text: C57Bl/6 x Sv129

characteristic: External Id

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characteristic: INSDC center name

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characteristic: INSDC last update

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text: house mouse

text: Mus musculus

text: RNA strain C57Bl/6 x Sv131

text: Mus musculus

text: C57Bl/6 x Sv129


text: MEF

text: Mesoderm

text: mixed

text: Mus musculus

text: C57Bl/6 x Sv129

text: SC

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characteristic: INSDC status

characteristic: SRA accession

text: house mouse

characteristic: common name

text: Mus musculus

characteristic: organism

text: RNA strain C57Bl/6 x Sv132

text: Mus musculus

text: C57Bl/6 x Sv129


text: MEF

text: Mesoderm

text: mixed

text: Mus musculus

text: C57Bl/6 x Sv129

characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: RNA strain C57Bl/6 x Sv133

characteristic: sample description

text: Mus musculus

text: C57Bl/6 x Sv129

characteristic: strain


text: MEF

characteristic: ArrayExpress-CellType

characteristic: ArrayExpress-DevelopmentalStage

text: Mesoderm

characteristic: ArrayExpress-OrganismPart

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characteristic: ArrayExpress-Sex

text: Mus musculus

text: C57Bl/6 x Sv129

text: SC

text: public

text: house mouse

text: Mus musculus

text: RNA strain C57Bl/6 x Sv142

text: Mus musculus

text: C57Bl/6 x Sv129


text: MEF

text: Mesoderm

text: mixed

text: Mus musculus

characteristic: ArrayExpress-Species

text: C57Bl/6 x Sv129

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: house mouse

text: Mus musculus

text: RNA strain C57Bl/6 x Sv143

text: Mus musculus

text: C57Bl/6 x Sv129


text: MEF

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text: mixed

text: Mus musculus

text: C57Bl/6 x Sv129

characteristic: External Id

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characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

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text: house mouse

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text: RNA strain C57Bl/6 x Sv144

text: Mus musculus

text: C57Bl/6 x Sv129


text: MEF

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text: mixed

text: Mus musculus

text: C57Bl/6 x Sv129

text: SC

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characteristic: INSDC status

characteristic: SRA accession

text: house mouse

characteristic: common name

text: Mus musculus

characteristic: organism

text: RNA strain C57Bl/6 x Sv145

text: Mus musculus

text: C57Bl/6 x Sv129


text: MEF

text: Mesoderm

text: mixed

text: Mus musculus

text: C57Bl/6 x Sv129

characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: RNA strain C57Bl/6 x Sv146

characteristic: sample description

text: Mus musculus

text: C57Bl/6 x Sv129

characteristic: strain


text: MEF

characteristic: ArrayExpress-CellType

characteristic: ArrayExpress-DevelopmentalStage

text: Mesoderm

characteristic: ArrayExpress-OrganismPart

text: mixed

characteristic: ArrayExpress-Sex

text: Mus musculus

text: C57Bl/6 x Sv129

text: SC

text: public

text: house mouse

text: Mus musculus

text: RNA strain C57Bl/6 x Sv139

text: Mus musculus

text: C57Bl/6 x Sv129


text: MEF

text: Mesoderm

text: mixed

text: Mus musculus

characteristic: ArrayExpress-Species

text: C57Bl/6 x Sv129

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: house mouse

text: Mus musculus

text: RNA strain C57Bl/6 x Sv140

text: Mus musculus

text: C57Bl/6 x Sv129


text: MEF

text: Mesoderm

text: mixed

text: Mus musculus

text: C57Bl/6 x Sv129

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: house mouse

text: Mus musculus

text: RNA strain C57Bl/6 x Sv141

text: Mus musculus

text: C57Bl/6 x Sv129


text: MEF

text: Mesoderm

text: mixed

text: Mus musculus

text: C57Bl/6 x Sv129

text: SC

text: public

characteristic: INSDC status

characteristic: SRA accession

text: house mouse

characteristic: common name

text: Mus musculus

characteristic: organism

text: RNA strain C57Bl/6 x Sv147

text: Mus musculus

text: C57Bl/6 x Sv129


text: MEF

text: Mesoderm

text: mixed

text: Mus musculus

text: C57Bl/6 x Sv129

characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: RNA strain C57Bl/6 x Sv148

characteristic: sample description

text: Mus musculus

text: C57Bl/6 x Sv129

characteristic: strain


text: UNC-ChapelHill

text: public

text: ArrayExpress

characteristic: broker name

text: human

text: Protocols: Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters.

characteristic: description

text: clear cell renal carcinoma

characteristic: disease

text: SETD2 normal

characteristic: genotype

characteristic: individual

text: Homo sapiens

text: Homo sapiens

text: kidney

characteristic: organism part

text: Homo sapiens

text: frozen specimen

characteristic: specimen with known storage state

characteristic: title

type: has member


characteristic: ENA-CHECKLIST

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characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNC-ChapelHill

characteristic: INSDC center name

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characteristic: INSDC last update

text: public

text: ArrayExpress

text: human

text: clear cell renal carcinoma

text: SETD2 mutant

text: Homo sapiens

text: Homo sapiens

text: kidney

text: Homo sapiens

text: frozen specimen


text: UNC-ChapelHill

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: human

characteristic: common name

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text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: kidney

text: Homo sapiens

text: frozen specimen


text: UNC-ChapelHill

text: public

text: ArrayExpress

characteristic: broker name

text: human

characteristic: description

text: clear cell renal carcinoma

characteristic: disease

text: Homo sapiens

text: Homo sapiens

text: kidney

text: Homo sapiens

text: frozen specimen


text: UNC-ChapelHill

text: public

text: ArrayExpress

text: human

text: normal

text: SETD2 normal

characteristic: genotype

characteristic: individual

text: Homo sapiens

text: Homo sapiens

text: kidney

characteristic: organism part

text: Homo sapiens

text: frozen specimen

characteristic: specimen with known storage state


text: Mus musculus

characteristic: ArrayExpress-Species

text: C57 Bl/6

characteristic: ArrayExpress-StrainOrLine

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: B6_1_S_RNA-sc-2013-10-11T15:59:47Z-1721848

text: house mouse

text: Mus musculus

characteristic: sample description

text: Mus musculus

text: C57 Bl/6

characteristic: strain


text: Mus musculus

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: C3_4_S_RNA-sc-2013-10-11T15:59:50Z-1721849

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: C3_1_S_RNA-sc-2013-10-11T15:59:53Z-1721852

text: house mouse

characteristic: common name

text: Mus musculus

characteristic: organism

text: Mus musculus


text: Mus musculus

text: C57 Bl/6

text: SC

text: public

text: B6_4_S_RNA-sc-2013-10-11T15:59:56Z-1721854

text: house mouse

text: Mus musculus

text: Mus musculus

text: C57 Bl/6


text: Mus musculus

text: C57 Bl/6

text: SC

text: public

text: B6_19_S_RNA-sc-2013-10-11T15:59:59Z-1721857

text: house mouse

text: Mus musculus

text: Mus musculus

text: C57 Bl/6


text: Mus musculus

text: SC

text: public

text: C3_16_S_RNA-sc-2013-10-11T16:00:00Z-1721858

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: C57 Bl/6

text: SC

text: public

text: B6_16_S_RNA-sc-2013-10-11T16:00:01Z-1721859

text: house mouse

text: Mus musculus

text: Mus musculus

text: C57 Bl/6


text: Mus musculus

text: C57 Bl/6

text: SC

text: public

text: B6_10_S_RNA-sc-2013-10-11T16:00:04Z-1721861

text: house mouse

text: Mus musculus

text: Mus musculus

text: C57 Bl/6


text: Mus musculus

text: SC

text: public

text: C3_19_S_RNA-sc-2013-10-11T16:00:05Z-1721862

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: C3_22_S_RNA-sc-2013-10-11T16:00:06Z-1721864

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: C57 Bl/6

text: SC

text: public

text: B6_22_S_RNA-sc-2013-10-11T16:00:09Z-1721866

text: house mouse

text: Mus musculus

text: Mus musculus

text: C57 Bl/6


text: Mus musculus

text: SC

text: public

text: C3_11_S_RNA-sc-2013-10-11T16:00:11Z-1721868

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: C57 Bl/6

text: SC

text: public

text: B6_23_S_RNA-sc-2013-10-11T16:00:13Z-1721870

text: house mouse

text: Mus musculus

text: Mus musculus

text: C57 Bl/6


text: Mus musculus

text: C57 Bl/6

text: SC

text: public

text: B6_2_S_RNA-sc-2013-10-11T16:00:15Z-1721872

text: house mouse

text: Mus musculus

text: Mus musculus

text: C57 Bl/6


text: Mus musculus

text: SC

text: public

text: C3_5_S_RNA-sc-2013-10-11T16:00:16Z-1721873

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: C3_23_S_RNA-sc-2013-10-11T16:00:17Z-1721874

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: C57 Bl/6

text: SC

text: public

text: B6_17_S_RNA-sc-2013-10-11T16:00:20Z-1721877

text: house mouse

text: Mus musculus

text: Mus musculus

text: C57 Bl/6


text: Mus musculus

text: SC

text: public

text: C3_2_S_RNA-sc-2013-10-11T16:00:21Z-1721878

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: C57 Bl/6

text: SC

text: public

text: B6_20_S_RNA-sc-2013-10-11T16:00:22Z-1721879

text: house mouse

text: Mus musculus

text: Mus musculus

text: C57 Bl/6


text: Mus musculus

text: SC

text: public

text: C3_17_S_RNA-sc-2013-10-11T16:00:23Z-1721880

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: C3_20_S_RNA-sc-2013-10-11T16:00:31Z-1721885

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: C57 Bl/6

text: SC

text: public

text: B6_14_S_RNA-sc-2013-10-11T16:00:32Z-1721886

text: house mouse

text: Mus musculus

text: Mus musculus

text: C57 Bl/6


text: Mus musculus

text: C57 Bl/6

text: SC

text: public

text: B6_6_S_RNA-sc-2013-10-11T16:00:33Z-1721887

text: house mouse

text: Mus musculus

text: Mus musculus

text: C57 Bl/6


text: Mus musculus

text: SC

text: public

text: C3_18_S_RNA-sc-2013-10-11T16:00:34Z-1721888

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: C57 Bl/6

text: SC

text: public

text: B6_24_S_RNA-sc-2013-10-11T16:00:34Z-1721889

text: house mouse

text: Mus musculus

text: Mus musculus

text: C57 Bl/6


text: Mus musculus

text: C57 Bl/6

text: SC

text: public

text: B6_18_S_RNA-sc-2013-10-11T16:00:36Z-1721891

text: house mouse

text: Mus musculus

text: Mus musculus

text: C57 Bl/6


text: Mus musculus

text: SC

text: public

text: C3_12_S_RNA-sc-2013-10-11T16:00:37Z-1721892

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: C3_15_S_RNA-sc-2013-10-11T16:00:41Z-1721896

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: C57 Bl/6

text: SC

text: public

text: B6_15_S_RNA-sc-2013-10-11T16:00:42Z-1721897

text: house mouse

text: Mus musculus

text: Mus musculus

text: C57 Bl/6


text: Mus musculus

text: C57 Bl/6

text: SC

text: public

text: B6_3_S_RNA-sc-2013-10-11T16:00:44Z-1721898

text: house mouse

text: Mus musculus

text: Mus musculus

text: C57 Bl/6


text: Mus musculus

text: SC

text: public

text: C3_6_S_RNA-sc-2013-10-11T16:00:45Z-1721899

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: C57 Bl/6

text: SC

text: public

text: B6_21_S_RNA-sc-2013-10-11T16:00:46Z-1721900

text: house mouse

text: Mus musculus

text: Mus musculus

text: C57 Bl/6


text: Mus musculus

text: SC

text: public

text: C3_3_S_RNA-sc-2013-10-11T16:00:48Z-1721903

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: C57 Bl/6

text: SC

text: public

text: B6_12_S_RNA-sc-2013-10-11T16:00:49Z-1721904

text: house mouse

text: Mus musculus

text: Mus musculus

text: C57 Bl/6


text: Mus musculus

text: SC

text: public

text: C3_21_S_RNA-sc-2013-10-11T16:00:52Z-1721906

text: house mouse

text: Mus musculus

text: Mus musculus


E-MTAB-1952:MCF7 cells

text: National Yang-Ming University

text: public

text: E-MTAB-1952:MCF7 cells

tag: Namespace:National Yang-Ming University

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: human breast cancer cell

characteristic: cell type

text: human

text: Protocols: MCF7 cells were cultured in RPMI1640 medium (GIBCO/BRL) supplemented with 10% (v/v) fetal bovine serum (GIBCO/BRL), 2.0 g/L sodium bicarbonate, and were incubated in a humidified 37 degrees C incubator with 5% CO2. Immunoprecipitation was performed according to the manufacturer's protocol (Upstate Biotechnology, Inc., Lake Placid, NY) with slight modifications. MCF7 cells were fixed for 10 min with 1% of formaldehyde at room temperature, and then quenched with a final of 1M of glycine. The cells were lysed and the chromatin was sonicated to 200-500 bp fragments with a Bioruptor (Diagenode, Sparta, NJ). Chromatin was immunoprecipitated by using RNA polymerase II (ab5408-100; Abcam) and Protein A Agarose beads. The beads were washed once with each washing buffer, including low salt immune complex wash buffer, high salt immune complex wash buffer, and LiCl immune complex wash buffer, and twice with 1X TE buffer. Precipitates were eluted with 1% of SDS and 100 mM of NaHCO3. The samples were heated at 65 degrees C for 6 hr in order to reverse cross-link, extracted with phenol/chloroform, ethanol-precipitated. The sequencing libraries were constructed from immunoprecipitated and input DNA using TruSeq ChIP Sample Preparation Kit (Illumina Inc., USA) according to the manufacturer's instruction. The fragmented DNA was end repaired following by addition 3'-A to the ends and ligation of adapters. The adapter-ligated DNA library was sized-selected (300-500 bp) on a 2% agarose gel and amplified by PCR for 16 cycles with the use of KAPA HiFi DNA Polymerase (Kapa Biosystems).

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: female

characteristic: sex

text: MCF7 cells

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

tag: Namespace:Department of Chemistry and Chemical Biology, Harvard University

text: ArrayExpress

text: baker's yeast

text: Protocols: The experimental protocol was essentially identical to what was previously described (Zhou & O'Shea, 2011). Briefly, 6 L of diploid (ASH79) was grown overnight in low fluorescence medium (-TRP -LEU) and then split into six 1L cultures. 40, 30, 20, 10, 5 and 0 min before the cultures reached an OD600 nm of 0.150 1-NM-PP1 was added to a final concentration of 3 uM. Cells were then crosslinked with 1% formaldehyde (final concentration) for 15 minutes at room temperature and quenched for 5 minutes with 125 mM glycine (final concentration). Cells were collected by centrifugation and immediately washed (10 mM Tris pH 7.5, 100 mM NaCl). The cell pellet was then dried and snap frozen in liquid nitrogen. The experimental protocol was essentially identical to what was previously described (Zhou & O'Shea, 2011). Briefly, 6 L of diploid (ASH79) was grown overnight in low fluorescence medium (-TRP -LEU) and then split into six 1L cultures. 40, 30, 20, 10, 5 and 0 min before the cultures reached an OD600 nm of 0.150 1-NM-PP1 was added to a final concentration of 3 uM. Cells were then crosslinked with 1% formaldehyde (final concentration) for 15 minutes at room temperature and quenched for 5 minutes with 125 mM glycine (final concentration). Cells were collected by centrifugation and immediately washed (10 mM Tris pH 7.5, 100 mM NaCl). The cell pellet was then dried and snap frozen in liquid nitrogen. The frozen cell pellet was thawed and 200 uL lysis buffer was added (50 mM HEPES, pH 7.5, 150 mM NaCl, 2 mM EDTA, 1% Triton X-100, 0.1% Sodium deoxycholate, complete protease inhibitor cocktail tablets (Roche cComplete Mini version 10, 1 tablet per 10 mL buffer)). The cells were then mechanically lysed with glass beads and bead beating. The cell pellets were then washed twice with MNase reaction buffer (10 mM Tris pH 7.5, 50 mM NaCl, 5 mM MgCl2, 1 mM CaCl2, 1 mM bME), resuspended in 750 uL MNase buffer and digested to primarily mononuclesomes with 0.75-1.5 U of MNase at 37 degrees C for 30 minutes. Subsequently samples were quenched by addition of 15 uL EDTA (500 mM). Debris was removed by centrifugation and 16 uL SDS (20%) and 30 uL proteinase K (10 mg/mL) were added to the supernatant. Crosslinks were then reversed and proteins digested by incubation at 65 degrees C overnight. The DNA was then purified twice by phenol/chloroform/isoamy alcohol extraction (25:24:1) and followed by precipitation in 1 mL ethanol at -20 degrees C. Precipitated DNA was resuspended in RNase A (0.2 mg/mL in TE buffer) and residual RNA removed by digesting for 1 hour at 37 degrees C. The samples were then purified using the PCR Purification Kit (Qiagen) and run on a 1.5% agarose gel for 60 minutes. The mononucleosome bands at ca. 150 bp were excised and purified on a Freeze 'N Squeeze DNA gel extraction column (BioRad). The DNA was then collected by ethanol precipitation. Sequencing libraries were prepared following the Illumina Multiplexed paired-end protocol. Adapters with a different index (0 min: ATCACG, 5 min: CGATGT, 10 min: TTAGGC, 20 min: TGACCA, 30 min: ACAGTG and 40 min: GCCAAT) for each timepoint were ligated onto the nucleosomal DNA fragments and the sequencing library amplified by 8 cycles of PCR.

text: TPK1M164G TPK2M147G TPK3M165G msn4::TRP1/LEU2 MSN2-mCherry NHP6a-iRFP::kanMX

characteristic: genotype

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: diploid

characteristic: ploidy

text: Saccharomyces cerevisiae

text: fresh specimen

characteristic: specimen with known storage state

text: 10 minute

characteristic: time


characteristic: External Id

text: Department of Chemistry and Chemical Biology, Harvard University

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: diploid

text: Saccharomyces cerevisiae

text: fresh specimen

characteristic: strain

text: 0 minute


text: public

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: baker's yeast

characteristic: common name

characteristic: description

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae

text: diploid

text: Saccharomyces cerevisiae

text: fresh specimen

text: 30 minute


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: diploid

text: Saccharomyces cerevisiae

text: fresh specimen

text: 40 minute

characteristic: title


text: public

text: ArrayExpress

text: baker's yeast

characteristic: genotype

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: diploid

characteristic: ploidy

text: Saccharomyces cerevisiae

text: fresh specimen

characteristic: specimen with known storage state

text: 5 minute

characteristic: time


characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: diploid

text: Saccharomyces cerevisiae

text: fresh specimen

text: 20 minute


text: Harvard University

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:Harvard University

characteristic: Submitter Id

text: ArrayExpress

text: NS

characteristic: cell cycle stage

characteristic: cell line

text: human

text: Protocols: HeLa cells were grown in standard DMEM media with sodium pyruvate (Gibco #11995073) with 10 % Bovine serum (Gibco #16170078), 1% PenStrep (Gibco #15140) and 1% Antibiotic-Antimycotic agent (Gibco # 15240). HFF cells were grown in standard DMEM media with sodium pyruvate (Gibco #11995073) with 10 % FBS (BenchMark #100-101), 1% PenStrep (Gibco #15140) and 1% Antibiotic-Antimycotic agent (Gibco # 15240). K562 cells were maintained in standard RPMI-1640 media with 2 mM L-glutamine (Gibco #22400-089) with 10% FBS (BenchMark #100-101), 1% PenStrep (Gibco #15140) and 1% Antibiotic-Antimycotic agent (Gibco # 15240). Hi-C was performed following (Lieberman and van Berkum et al., Science, 2009) with modifications detailed in (Naumova et al., 2013).

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


characteristic: ENA-CHECKLIST

text: Harvard University

text: public

text: ArrayExpress

characteristic: broker name

text: M

text: human

characteristic: common name

characteristic: description

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: Tongji University

text: public

tag: Namespace:Tongji University

text: ArrayExpress

text: human

text: Protocols: The human embryonic kidney 293 cells (HEK 293) were cultured at 37C in 5% CO2 as adherent monolayer in Dulbecco modified Eagle medim(DMEM) (Hiclone) supplemented with L-glutamine and 10% fetal bovine serum (FBS) (Hiclone). BPA powder was dissolved in the dimethyl sulfoxide (DMSO) and added to culture medium. The final concentration of BPA and DMSO is 10-6 M and 10-3 M, respectively. For BPA treatment, cells were treated with 10-6 M BPA for 48h. Meanwhile, cells cultured in BPA-free medium were used as the control. Total RNA was extracted from each sample using Trizol reagent (Invitrogen) according to the manufacturers instructions. mRNA enrichment and library preparation were performed at BGI-Shenzhen (sequencing service provider).

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: fresh specimen

characteristic: title


name: E-MTAB-1929:E15.5 Insm1^EGFP/Pdx1^CFP embryos 2

characteristic: External Id

text: Vanderbilt University

text: public

tag: Namespace:Vanderbilt University

text: ArrayExpress

text: house mouse

text: pool of 3 E15.5 Insm1^EGFP/Pdx1^CFP Het/Het embryos Protocols: Embryos were isolated from mice on specified day of development; the presence of vaginal plug at noon was considered as E0.5. Heterozygous embryos were identified using a fluorescent microscope, and embryos obtained from heterozygous interbreeding were genotyped using custom-designed TaqMan primers and probes. Tissues were dissociated with Accumax (Sigma) at 37 C. Flow Cytometry experiments were performed in the VMC Flow Cytometry Shared Resource on a BD Aria I or II.

text: embryonic day 15.5

characteristic: embryo stage

text: embryo stage

characteristic: life cycle stage

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Insm1tm2(GFP.Cre)Mgn/Pdx1tm2(CFP)Mgn mouse strain

characteristic: strain

text: E15.5 Insm1^EGFP/Pdx1^CFP embryos 2


name: E-MTAB-1929:E15.5 Insm1^EGFP/Pdx1^CFP embryos 3

text: Vanderbilt University

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: house mouse

text: pool of 8 E15.5 Insm1^EGFP/Pdx1^CFP Het/Het embryos Protocols: Embryos were isolated from mice on specified day of development; the presence of vaginal plug at noon was considered as E0.5. Heterozygous embryos were identified using a fluorescent microscope, and embryos obtained from heterozygous interbreeding were genotyped using custom-designed TaqMan primers and probes. Tissues were dissociated with Accumax (Sigma) at 37 C. Flow Cytometry experiments were performed in the VMC Flow Cytometry Shared Resource on a BD Aria I or II.

text: embryonic day 15.5

text: embryo stage

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: E15.5 Insm1^EGFP/Pdx1^CFP embryos 3


name: E-MTAB-1929:E15.5 Insm1^GFP/GFP embryos 1

text: Vanderbilt University

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

text: pool of 2 E15.5 Insm1^GFP/GFP embryos Protocols: Embryos were isolated from mice on specified day of development; the presence of vaginal plug at noon was considered as E0.5. Heterozygous embryos were identified using a fluorescent microscope, and embryos obtained from heterozygous interbreeding were genotyped using custom-designed TaqMan primers and probes. Tissues were dissociated with Accumax (Sigma) at 37 C. Flow Cytometry experiments were performed in the VMC Flow Cytometry Shared Resource on a BD Aria I or II.

text: embryonic day 15.5

text: embryo stage

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Insm1tm2Mgn mouse strain

text: E15.5 Insm1^GFP/GFP embryos 1


name: E-MTAB-1929:E18.5 Insm1^EGFP/Pdx1^CFP embryos 2

characteristic: ENA-CHECKLIST

text: Vanderbilt University

text: public

text: ArrayExpress

characteristic: broker name

text: house mouse

text: pool of 2 E15.5 Insm1^EGFP/Pdx1^CFP Het/Het embryos Protocols: Embryos were isolated from mice on specified day of development; the presence of vaginal plug at noon was considered as E0.5. Heterozygous embryos were identified using a fluorescent microscope, and embryos obtained from heterozygous interbreeding were genotyped using custom-designed TaqMan primers and probes. Tissues were dissociated with Accumax (Sigma) at 37 C. Flow Cytometry experiments were performed in the VMC Flow Cytometry Shared Resource on a BD Aria I or II.

text: embryonic day 18.5

text: embryo stage

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: E18.5 Insm1^EGFP/Pdx1^CFP embryos 2


E-MTAB-1929:E15.5 Insm1^GFP/+ embryos 1

text: Vanderbilt University

text: public

text: E-MTAB-1929:E15.5 Insm1^GFP/+ embryos 1

text: ArrayExpress

text: house mouse

characteristic: common name

text: pool of 2 E15.5 Insm1^GFP/+ embryos Protocols: Embryos were isolated from mice on specified day of development; the presence of vaginal plug at noon was considered as E0.5. Heterozygous embryos were identified using a fluorescent microscope, and embryos obtained from heterozygous interbreeding were genotyped using custom-designed TaqMan primers and probes. Tissues were dissociated with Accumax (Sigma) at 37 C. Flow Cytometry experiments were performed in the VMC Flow Cytometry Shared Resource on a BD Aria I or II.

characteristic: description

text: embryonic day 15.5

text: embryo stage

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Insm1tm2Mgn mouse strain

text: E15.5 Insm1^GFP/+ embryos 1


name: E-MTAB-1929:E15.5 Insm1^EGFP/Pdx1^CFP embryos 1

characteristic: ENA-FIRST-PUBLIC

text: Vanderbilt University

text: public

text: ArrayExpress

text: house mouse

text: pool of 4 E15.5 Insm1^EGFP/Pdx1^CFP Het/Het embryos Protocols: Embryos were isolated from mice on specified day of development; the presence of vaginal plug at noon was considered as E0.5. Heterozygous embryos were identified using a fluorescent microscope, and embryos obtained from heterozygous interbreeding were genotyped using custom-designed TaqMan primers and probes. Tissues were dissociated with Accumax (Sigma) at 37 C. Flow Cytometry experiments were performed in the VMC Flow Cytometry Shared Resource on a BD Aria I or II.

text: embryonic day 15.5

text: embryo stage

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: E15.5 Insm1^EGFP/Pdx1^CFP embryos 1


name: E-MTAB-1929:E18.5 Insm1^EGFP/Pdx1^CFP embryos 1

characteristic: ENA-LAST-UPDATE

text: Vanderbilt University

text: public

text: ArrayExpress

text: house mouse

text: pool of 7 E15.5 Insm1^EGFP/Pdx1^CFP Het/Het embryos Protocols: Embryos were isolated from mice on specified day of development; the presence of vaginal plug at noon was considered as E0.5. Heterozygous embryos were identified using a fluorescent microscope, and embryos obtained from heterozygous interbreeding were genotyped using custom-designed TaqMan primers and probes. Tissues were dissociated with Accumax (Sigma) at 37 C. Flow Cytometry experiments were performed in the VMC Flow Cytometry Shared Resource on a BD Aria I or II.

text: embryonic day 18.5

text: embryo stage

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: E18.5 Insm1^EGFP/Pdx1^CFP embryos 1

characteristic: title


name: E-MTAB-1929:E15.5 Insm1^GFP/GFP embryos 2

characteristic: External Id

text: Vanderbilt University

text: public

text: ArrayExpress

text: house mouse

text: pool 1 of 5 E15.5 Insm1^GFP/GFP embryos Protocols: Embryos were isolated from mice on specified day of development; the presence of vaginal plug at noon was considered as E0.5. Heterozygous embryos were identified using a fluorescent microscope, and embryos obtained from heterozygous interbreeding were genotyped using custom-designed TaqMan primers and probes. Tissues were dissociated with Accumax (Sigma) at 37 C. Flow Cytometry experiments were performed in the VMC Flow Cytometry Shared Resource on a BD Aria I or II.

text: embryonic day 15.5

characteristic: embryo stage

text: embryo stage

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Insm1tm2Mgn mouse strain

text: E15.5 Insm1^GFP/GFP embryos 2


name: E-MTAB-1929:E18.5 Insm1^EGFP/Pdx1^CFP embryos 3

text: Vanderbilt University

text: public

text: ArrayExpress

text: house mouse

text: embryonic day 18.5

text: embryo stage

characteristic: life cycle stage

text: Mus musculus

text: Mus musculus

text: Mus musculus

characteristic: strain

text: E18.5 Insm1^EGFP/Pdx1^CFP embryos 3


name: E-MTAB-1929:E15.5 Insm1^GFP/GFP embryos 3

text: Vanderbilt University

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: house mouse

text: pool 2 of 5 E15.5 Insm1^GFP/GFP embryos Protocols: Embryos were isolated from mice on specified day of development; the presence of vaginal plug at noon was considered as E0.5. Heterozygous embryos were identified using a fluorescent microscope, and embryos obtained from heterozygous interbreeding were genotyped using custom-designed TaqMan primers and probes. Tissues were dissociated with Accumax (Sigma) at 37 C. Flow Cytometry experiments were performed in the VMC Flow Cytometry Shared Resource on a BD Aria I or II.

text: embryonic day 15.5

text: embryo stage

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Insm1tm2Mgn mouse strain

text: E15.5 Insm1^GFP/GFP embryos 3


E-MTAB-1929:E15.5 Insm1^GFP/+ embryos 2

text: Vanderbilt University

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-1929:E15.5 Insm1^GFP/+ embryos 2

text: ArrayExpress

text: house mouse

text: pool of 3 E15.5 Insm1^GFP/+ embryos Protocols: Embryos were isolated from mice on specified day of development; the presence of vaginal plug at noon was considered as E0.5. Heterozygous embryos were identified using a fluorescent microscope, and embryos obtained from heterozygous interbreeding were genotyped using custom-designed TaqMan primers and probes. Tissues were dissociated with Accumax (Sigma) at 37 C. Flow Cytometry experiments were performed in the VMC Flow Cytometry Shared Resource on a BD Aria I or II.

text: embryonic day 15.5

text: embryo stage

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Insm1tm2Mgn mouse strain

text: E15.5 Insm1^GFP/+ embryos 2


E-MTAB-1929:E15.5 Insm1^GFP/+ embryos 3

text: Vanderbilt University

text: public

characteristic: SRA accession

text: E-MTAB-1929:E15.5 Insm1^GFP/+ embryos 3

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

text: pool of 5 E15.5 Insm1^GFP/+ embryos Protocols: Embryos were isolated from mice on specified day of development; the presence of vaginal plug at noon was considered as E0.5. Heterozygous embryos were identified using a fluorescent microscope, and embryos obtained from heterozygous interbreeding were genotyped using custom-designed TaqMan primers and probes. Tissues were dissociated with Accumax (Sigma) at 37 C. Flow Cytometry experiments were performed in the VMC Flow Cytometry Shared Resource on a BD Aria I or II.

text: embryonic day 15.5

text: embryo stage

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Insm1tm2Mgn mouse strain

text: E15.5 Insm1^GFP/+ embryos 3


characteristic: ENA-CHECKLIST

text: public

tag: Namespace:College of Life Science and Technology, Tongji University, Shanghai, China

text: ArrayExpress

characteristic: broker name

text: fruit fly

text: Protocols: Stocks used are UAS-mCD8GFP, UAS-Brm-IR (#31712), and Hs-Gal4 from Bloomington Stock Center (http://flystocks.bio.indiana.edu). All transgenes are in the third chromosome. We crossed UAS-Brm-IR males with Hs-Gal4 females to generate the transgenic strain containing UAS-Brm-IR and Hs-Gal4 for Brm knockdown (experimental group, short for BrmIR). Similarly, the transgenic strain containing UAS-mCD8GFP and Hs-Gal4 (control group, short for GFP) was generated by crossing UAS-mCD8GFP males with Hs-Gal4 females and expected to remove the influence of UAS-Gal4 system. Both control and experimental group flies were cultured at normal temperature (25C) for 83.5h (i.e., the third larvae stage) after fertilization. Next, they were cultured at 37C for 30 min to knockdown Brm by the expression of Brm shRNA through heatshock in waterbath, and followed recovery at 25C for 4.5hr. Repeat the heatshock-and-recovery treatment twice, but with recovery time of 3.5hr and 2hr, respectively. Then, the larvae were collected and used in this study. These two groups of flies were denoted as GFP37 and BrmIR37, respectively. Meanwhile, the two groups of flies were cultured at 25C all the time in parallel after fertilization as negative controls. These flies were denoted as GFP25 and BrmIR25, respectively. Total RNA was extracted from 95-99h larvae using TRIzol (Invitrogen). Reverse transcription was performed on 500ng of total RNA in 10uL reaction system for each sample using PrimeScript RT Master Mix Perfect Real Time Kit (TAKARA, Code: DRR036A). The Realtime PCR was carried out in triplicate using F-416L DyNAmoTM ColorFlash SYBR Green qPCR Kit (Thermo). The RNA sequencing libraries were constructed from the extracted RNA using standard Illumina libraries prep protocols.

text: larval stage

characteristic: developmental stage

text: control

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fresh specimen

characteristic: specimen with known storage state


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: College of Life Science and Technology, Tongji University, Shanghai, China

text: public

text: ArrayExpress

text: fruit fly

characteristic: common name

characteristic: description

text: larval stage

text: Brm knockdown

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fresh specimen


characteristic: 1000 Genomes dataset

characteristic: External Id

text: public

tag: Namespace:University of Geneva Medical School, Department of Genetic Medicine and Development

text: ArrayExpress

characteristic: cell line

text: lymphoblastoid

characteristic: cell type

text: human

text: Protocols: Lymphoblastoid cell lines were obtained from Coriell (http://ccr.coriell.org) and cultured in RPMI-1640 medium (Lonza) with 10% fetal calf serun (FCS). Frozen cells were thawed and transferred to T25 flasks containing 15 ml of medium. At a density of 0.3 x 10^6 cells/m cells were transferred to TubeSpin Bioreactor 50 tubes (TPP) in 5 ml of same medium containing 10% FCS and 0.1% Pluronic F-68 (Sigma-Aldrich). The cultures were agitated at 180 rpm with 5% CO2 and 85% humidity. When the cell density reached 2-3 x 10^6 cells/ml, the culture was diluted to 0.3 x 10^6 cells/ml and transferred to a 250-ml glass bottle. The culture was agitated at 110 rpm with 5% CO2 but no humidity. Eventually, the cells were scaled-up serially in 500-ml, 1-L, and 5-L glass bottles filled to a maximum of 40% of the nominal volume. Total RNA was extracted from flash frozen cell pellets using the TRIzol Reagent (Invitrogen) according to manufacturer's instructions. No DNAse treatment of the RNA samples was performed. Total RNA quality was assessed with Bioanalyzer RNA 6000 Nano Kit (Agilent) and RNA quantity was measured with Qubit 2.0 (Invitrogen) RNA Broad range kit according to manufacturer's instructions. Sequencing libraries were prepared with TruSeq RNA Sample Prep Kit v2 high-throughput protocol (Illumina) according to manufacturer's instructions.

characteristic: individual

text: Homo sapiens

text: Homo sapiens

text: HapMap YRI

characteristic: population

text: Yoruba

characteristic: population name

text: Homo sapiens

text: male

characteristic: sex

characteristic: title


characteristic: ENA-CHECKLIST

text: University of Geneva Medical School, Department of Genetic Medicine and Development

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: lymphoblastoid

text: human

text: Homo sapiens

text: Homo sapiens

text: HapMap CEU

text: CEPH

text: Homo sapiens

text: male


characteristic: 1000 Genomes dataset

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: ArrayExpress

text: lymphoblastoid

text: human

characteristic: common name

characteristic: description

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: HapMap CEU

text: CEPH

text: Homo sapiens

text: female


characteristic: External Id

text: public

text: ArrayExpress

characteristic: cell line

text: lymphoblastoid

characteristic: cell type

text: human

characteristic: individual

text: Homo sapiens

text: Homo sapiens

text: HapMap YRI

characteristic: population

text: Yoruba

characteristic: population name

text: Homo sapiens

text: female


text: male

characteristic: ArrayExpress-Sex

text: Mus Musculus

characteristic: ArrayExpress-Species

characteristic: ENA-CHECKLIST

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: house mouse

text: Mus musculus

text: mESC

characteristic: sample description

text: Mus musculus


characteristic: 1000 Genomes dataset

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: lymphoblastoid

text: human

text: Protocols: Lymphoblastoid cell lines were obtained from Coriell (http://ccr.coriell.org) and cultured in RPMI-1640 medium (Lonza) with 10% fetal calf serun (FCS). Frozen cells were thawed and transferred to T25 flasks containing 15 ml of medium. At a density of 0.3 x 10^6 cells/m cells were transferred to TubeSpin Bioreactor 50 tubes (TPP) in 5 ml of same medium containing 10% FCS and 0.1% Pluronic F-68 (Sigma-Aldrich). The cultures were agitated at 180 rpm with 5% CO2 and 85% humidity. When the cell density reached 2-3 x 10^6 cells/ml, the culture was diluted to 0.3 x 10^6 cells/ml and transferred to a 250-ml glass bottle. The culture was agitated at 110 rpm with 5% CO2 but no humidity. Eventually, the cells were scaled-up serially in 500-ml, 1-L, and 5-L glass bottles filled to a maximum of 40% of the nominal volume. Nuclei were isolated and nucleotides washed off at 4 degrees C, leaving RNA polymerases engaged in transcription bound to DNA. 5M nuclei per sample were then used for letting the polymerases run-on for ~100 nts using Br-UTP, alpha-P32-labeled CTP for tracking the nascent RNA through the experiment and sarkosyl for blocking new transcription initiation events. RNA was isolated and hydrolyzed. Subsequently, the nascent RNA was pulled down with agarose beads carrying antibodies for Br-UTP. 5' and 3' adapters were then ligated to nascent RNA, fulfilling another round of immuno-enrichment after each step. Finally, the nascent RNA library was converted to cDNA, PCR amplified and purified, yielding 2 libraries per sample. Given the way they were purified from the agarose gel, one library is of longer insert size (termed long) than the other (termed short). Sequencing libraries were prepared with TruSeq RNA Sample Prep Kit v2 high-throughput protocol (Illumina) according to manufacturer's instructions.

text: Homo sapiens

text: Homo sapiens

text: HapMap CEU

text: CEPH

text: Homo sapiens

text: female

characteristic: sex

characteristic: title


characteristic: External Id

text: public

text: ArrayExpress

characteristic: cell line

text: lymphoblastoid

characteristic: cell type

text: human

characteristic: common name

characteristic: description

characteristic: individual

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: HapMap CEU

characteristic: population

text: CEPH

characteristic: population name

text: Homo sapiens

text: male


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: EMBL

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

text: myeloid comitted progenitor cells

text: house mouse

text: Protocols: Bone marrow was isolated from hindlegs (femur, tibia), hips (ilium) and backbone (vertebra). Muscle, connective tissue and spinal cord were removed, bones were crushed in RPMI/ 2 percent FBS (Gibco, Carlsbad, CA) using mortar and pestle. Single cell-suspensions were made by flushing through a 40 um filter mesh. Cell numbers and viability were determined using a ViCell Counter (Beckman Coulter, Brea, CA). To deplete lineage-positive cells, total bone marrow was stained 30 minutes with a combination of the following monoclonal rat antibodies directed against mature cell specific lineage markers: anti-CD4 (clone GK1.5), anti-CD8a (53.6.7), anti-CD11b (M1/70), anti-B220 (RA3.6B2), anti-GR1 (RB6.8C5) and anti-TER119 (Ter119). Labeled cells were incubated for 20 minutes with polyclonal sheep anti-rat IgG coated magnetic Dynabeads (Invitrogen, Hercules, CA) at a ratio 2:1 beads to cell and depleted using a magnet, enriching for the lineage-negative (Linneg) cell fraction. Beads were washed twice with RPMI/ 2 percent FBS to harvest residual cell fractions. Centrifugation steps were carried out at 1,500 rpm and 4 degrees C for 5 minutes (5810r, Eppendorf, Hamburg, Germany). To specify multipotent and myeloid progenitor fractions, the Linneg fraction was stained 30 minutes using the following rat monoclonal fluorochrome-coupled antibodies: anti-CD4 (GK1.5), anti-CD8a (53.6.7), anti-CD11b (M1/70), anti-B220 (RA3-6B2), anti-Gr1 (RB6.8C5) and anti-Ter119, all phycoerythrobilin-cyanine dye 7 (PE-Cy7) conjugated; anti-CD117/c-Kit (2B8)- PE; anti-Sca-1 (D7)-Alexa700. Lineage antibodies for depletion of mature effector cells were purified and conjugated in our laboratory according to standard protocols. Monoclonal antibody conjugates were purchased from eBioscience (San Diego, CA) or BioLegend (San Diego, CA). All antibodies were titrated prior to use. Cell sorting was performed on a FACS Aria I or FACS Aria II (Becton Dickinson, San Jose, CA) at the DKFZ Flow Cytometry Service Unit, Heidelberg, Germany. The following sort parameters were used: 70 um nozzle; 15,000 evt/s.; 70 psi. Multipotent hematopoietic stem/progenitor cells (LS+K) and myeloid comitted progenitor cells (LS-K) were obtained by sorting LinnegSca-1+c-Kit+ and LinnegSca-1+c-Kit-, respectively, in biological triplicate. Sorted cells were collected into ice-cold RNA lysis buffer (ARCTURUS(R) PicoPure(R) RNA Isolation Kit (Life Technologies, Invitrogen)) and stored at -80 degrees C until further usage. Of note, to determine sample's purity we re-sorted a fraction of each population (each population showed a purity greater than 95 percent). Total RNA isolation was performed from the indicated populations using ARCTURUS(R) PicoPure(R) RNA Isolation Kit (Life Technologies, Invitrogen) according to the manufacturer's instructions. DNAse treatment was performed using RNAse-free DNAse Set (Qiagen). Total RNA was used for quality controls and for normalization of starting material. cDNA-libraries were generated with 10 ng of total RNA using the SMARTer(TM) Ultra Low RNA Kit for Illumina Sequencing (Clontech) according to the manufacturer's indications. Of note, twelve cycles were used for the amplification of cDNA respectively. Paired-end adaptors were applied to each population. Sequencing was performed with the HiSeq2000 device (Illumina) and one sample per lane.

text: adult early hematopoiesis

characteristic: developmental stage

text: wild type

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: fresh specimen

characteristic: specimen with known storage state

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EMBL

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: multipotent hematopoietic stem/progenitor cells

text: house mouse

text: adult early hematopoiesis

text: wild type

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: fresh specimen

characteristic: title


text: Hatching - long pec - pec fin - ZFS:0000033 - ZFS:0000034

characteristic: ArrayExpress-DevelopmentalStage

text: Whole Embryo

characteristic: ArrayExpress-OrganismPart

text: Danio rerio

characteristic: ArrayExpress-Species

text: mixed

characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

text: ZMP_phenotype_32_2_mutant-sc-2013-10-17T10:16:20Z-1727404

text: zebrafish

characteristic: common name

text: Danio rerio

characteristic: organism

text: 3' end enriched mRNA from morphologically abnormal embryos from ZMP phenotype 32 clutch 2. A 5 base indexing sequence (GAGGC) is bases 6 to 10 of read 1 followed by polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi-bin/Projects/D_rerio/zmp/search.pl?q=zmp_ph32

characteristic: sample description

text: Danio rerio

text: mixed


text: Whole Embryo

text: Danio rerio

text: mixed

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ZMP_phenotype_32_2_sibling-sc-2013-10-17T10:16:23Z-1727405

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically normal embryos from ZMP phenotype 32 clutch 2. A 5 base indexing sequence (AGAAG) is bases 6 to 10 of read 1 followed by polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi-bin/Projects/D_rerio/zmp/search.pl?q=zmp_ph32

text: Danio rerio

text: mixed


text: Whole Embryo

text: Danio rerio

text: mixed

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

text: public

characteristic: INSDC status

text: ZMP_phenotype_32_3_mutant-sc-2013-10-17T10:16:24Z-1727406

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically abnormal embryos from ZMP phenotype 32 clutch 3. A 5 base indexing sequence (CAGAG) is bases 6 to 10 of read 1 followed by polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi-bin/Projects/D_rerio/zmp/search.pl?q=zmp_ph32

text: Danio rerio

text: mixed

characteristic: strain


text: Whole Embryo

text: Danio rerio

text: mixed

text: SC

text: public

characteristic: SRA accession

text: ZMP_phenotype_32_3_sibling-sc-2013-10-17T10:16:26Z-1727407

characteristic: Submitter Id

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically normal embryos from ZMP phenotype 32 clutch 3. A 5 base indexing sequence (GCACG) is bases 6 to 10 of read 1 followed by polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi-bin/Projects/D_rerio/zmp/search.pl?q=zmp_ph32

text: Danio rerio

text: mixed


characteristic: ArrayExpress-DevelopmentalStage

text: Whole Embryo

characteristic: ArrayExpress-OrganismPart

text: Danio rerio

text: mixed

text: SC

text: public

text: ZMP_phenotype_32_4_mutant-sc-2013-10-17T10:16:27Z-1727408

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically abnormal embryos from ZMP phenotype32 clutch 4. A 5 base indexing sequence (CGCAA) is bases 6 to 10 of read 1 followed by polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi-bin/Projects/D_rerio/zmp/search.pl?q=zmp_ph32

text: Danio rerio

text: mixed


text: Whole Embryo

text: Danio rerio

characteristic: ArrayExpress-Species

text: mixed

characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

text: ZMP_phenotype_32_4_sibling-sc-2013-10-17T10:16:28Z-1727409

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically normal embryos from ZMP phenotype 32 clutch 4. A 5 base indexing sequence (CAAGA) is bases 6 to 10 of read 1 followed by polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi-bin/Projects/D_rerio/zmp/search.pl?q=zmp_ph32

text: Danio rerio

text: mixed


text: Whole Embryo

text: Danio rerio

text: mixed

text: SC

text: public

text: ZMP_phenotype_32_5_mutant-sc-2013-10-17T10:16:29Z-1727410

text: zebrafish

characteristic: common name

text: Danio rerio

characteristic: organism

text: 3' end enriched mRNA from morphologically abnormal embryos from ZMP phenotype 32 clutch 5. A 5 base indexing sequence (GCCGA) is bases 6 to 10 of read 1 followed by polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi-bin/Projects/D_rerio/zmp/search.pl?q=zmp_ph32

text: Danio rerio

text: mixed


text: Whole Embryo

text: Danio rerio

text: mixed

characteristic: ENA-CHECKLIST

text: SC

text: public

text: ZMP_phenotype_32_5_sibling-sc-2013-10-17T10:16:30Z-1727411

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically normal embryos from ZMP phenotype 32 clutch 5. A 5 base indexing sequence (CGGCC) is bases 6 to 10 of read 1 followed by polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi-bin/Projects/D_rerio/zmp/search.pl?q=zmp_ph32

characteristic: sample description

text: Danio rerio

text: mixed


text: Hatching - long pec - pec fin - ZFS:0000033 - ZFS:0000034

text: Whole Embryo

text: Danio rerio

text: mixed

characteristic: ENA-FIRST-PUBLIC

text: SC

characteristic: INSDC center name

text: public

text: ZMP_phenotype_32_6_mutant-sc-2013-10-17T10:16:31Z-1727412

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically abnormal embryos from ZMP phenotype 32 clutch 6. A 5 base indexing sequence (AACCG) is bases 6 to 10 of read 1 followed by polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi-bin/Projects/D_rerio/zmp/search.pl?q=zmp_ph32

text: Danio rerio

text: mixed


text: Whole Embryo

text: Danio rerio

text: mixed

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ZMP_phenotype_32_6_sibling-sc-2013-10-17T10:16:32Z-1727413

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically normal embryos from ZMP phenotype 32 clutch 6. A 5 base indexing sequence (ACGGG) is bases 6 to 10 of read 1 followed by polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi-bin/Projects/D_rerio/zmp/search.pl?q=zmp_ph32

text: Danio rerio

text: mixed


text: Whole Embryo

text: Danio rerio

text: mixed

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

text: public

text: ZMP_phenotype_32_7_mutant-sc-2013-10-17T10:16:33Z-1727414

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically abnormal embryos from ZMP phenotype 32 clutch 7. A 5 base indexing sequence (CCAAC) is bases 6 to 10 of read 1 followed by polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi-bin/Projects/D_rerio/zmp/search.pl?q=zmp_ph32

text: Danio rerio

text: mixed


text: Whole Embryo

text: Danio rerio

text: mixed

text: SC

text: public

characteristic: INSDC status

text: ZMP_phenotype_32_7_sibling-sc-2013-10-17T10:16:34Z-1727415

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically normal embryos from ZMP phenotype 32 clutch 7. A 5 base indexing sequence (AGCGC) is bases 6 to 10 of read 1 followed by polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi-bin/Projects/D_rerio/zmp/search.pl?q=zmp_ph32

text: Danio rerio

text: mixed

characteristic: strain


E-MTAB-1969:SAMPLE5_M2c MACROPHAGES

text: public

characteristic: SRA accession

text: E-MTAB-1969:SAMPLE5_M2c MACROPHAGES

tag: Namespace:Department of Experimental Immunology, Academic Medical Center of the University of Amterdam

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: monocyte

characteristic: cell type

text: human

text: Protocols: Peripheral blood mononuclear cells (PBMCs) were isolated from buffy coats using Lymphoprep density gradient centrifugation. Monocytes were isolated by adherence to plastic and cultured in Iscove's modified Dulbecco's medium supplemented with 10% [v/v] heat-inactivated human pooled serum (HPS), penicillin (100 U/ml), streptomycin (100 ug/ml) and ciproxin (5 ug/ml) at 37C in a humidified atmosphere supplemented with 5% CO2. Monocytes were incubated for 5 days in the presence of different cytokines: IFN-gamma (250 U/ml) in combination with TNF-alpha (12.5 ng/ml) (M1), IL-4 (50 ng/ml) (M2a), IL-10 (50 ng/ml) (M2c) or medium alone. Total RNA was isolated from monocytes and 5-day cultured macrophages (unstimulated or cytokine-polarized), using TriPure Isolation Reagent (Roche) according to the manufacturers instructions. Library preparation was carried out following the SOLiD Total RNA-Seq Kit Protocol (PN 4445374, Life Technologies) according to the manufacturers protocol for Small RNA library preparation. Briefly, RNA samples were first enriched for their small RNA fraction, by size selection between 15nt and 40nt on 15% TBE-Urea acrylamide gels. The small RNA-enriched samples were hybridized and ligated for cDNA synthesis. cDNA libraries were further purified with the MinElute PCR Purification Kit (Qiagen). After a size-selection step on 10% TBE-Urea gels, cDNA samples were amplified on gel using 19 cycles instead of 15 recommended by the manufacturer. For multiplexing purposes, the cDNA samples were amplified using the SOLiD 3' Primers from the SOLiD RNA Barcoding Kit. cDNA libraries were purified using the PureLink PCR Micro Kit (Invitrogen) and subjected to a second round of size selection on gel and purification according to the manufacturers instructions. The quality of the cDNA library was assessed with a smear analysis using the Bioanalyzer 2100 software (Agilent).

characteristic: description

text: normal

characteristic: disease

text: Donor 1

characteristic: individual

text: Homo Sapiens

text: Homo sapiens

text: Homo sapiens

text: fresh specimen

characteristic: specimen with known storage state

text: SAMPLE5_M2c MACROPHAGES

characteristic: title


E-MTAB-1969:SAMPLE3_M1 MACROPHAGES

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Department of Experimental Immunology, Academic Medical Center of the University of Amterdam

text: public

text: E-MTAB-1969:SAMPLE3_M1 MACROPHAGES

text: ArrayExpress

text: monocyte

text: human

characteristic: common name

text: normal

text: Donor 1

text: Homo Sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens

text: fresh specimen

text: SAMPLE3_M1 MACROPHAGES


characteristic: ENA-LAST-UPDATE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

text: monocyte

text: human

text: Protocols: Peripheral blood mononuclear cells (PBMCs) were isolated from buffy coats using Lymphoprep density gradient centrifugation. Monocytes were isolated by adherence to plastic and cultured in Iscove's modified Dulbecco's medium supplemented with 10% [v/v] heat-inactivated human pooled serum (HPS), penicillin (100 U/ml), streptomycin (100 ug/ml) and ciproxin (5 ug/ml) at 37C in a humidified atmosphere supplemented with 5% CO2. Total RNA was isolated from monocytes and 5-day cultured macrophages (unstimulated or cytokine-polarized), using TriPure Isolation Reagent (Roche) according to the manufacturers instructions. Library preparation was carried out following the SOLiD Total RNA-Seq Kit Protocol (PN 4445374, Life Technologies) according to the manufacturers protocol for Small RNA library preparation. Briefly, RNA samples were first enriched for their small RNA fraction, by size selection between 15nt and 40nt on 15% TBE-Urea acrylamide gels. The small RNA-enriched samples were hybridized and ligated for cDNA synthesis. cDNA libraries were further purified with the MinElute PCR Purification Kit (Qiagen). After a size-selection step on 10% TBE-Urea gels, cDNA samples were amplified on gel using 19 cycles instead of 15 recommended by the manufacturer. For multiplexing purposes, the cDNA samples were amplified using the SOLiD 3' Primers from the SOLiD RNA Barcoding Kit. cDNA libraries were purified using the PureLink PCR Micro Kit (Invitrogen) and subjected to a second round of size selection on gel and purification according to the manufacturers instructions. The quality of the cDNA library was assessed with a smear analysis using the Bioanalyzer 2100 software (Agilent).

text: normal

text: Donor 1

text: Homo Sapiens

text: Homo sapiens

text: Homo sapiens

text: fresh specimen


E-MTAB-1969:SAMPLE4_M2a MACROPHAGES

characteristic: External Id

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-1969:SAMPLE4_M2a MACROPHAGES

text: ArrayExpress

text: monocyte

text: human

text: normal

text: Donor 1

text: Homo Sapiens

text: Homo sapiens

text: Homo sapiens

text: fresh specimen

text: SAMPLE4_M2a MACROPHAGES


text: public

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: monocyte

characteristic: cell type

text: human

text: normal

text: Donor 1

text: Homo Sapiens

text: Homo sapiens

text: Homo sapiens

text: fresh specimen


E-MTAB-1953:Wild type mESCs

text: public

text: E-MTAB-1953:Wild type mESCs

tag: Namespace:Department of Chemical Engineering, POSTECH, Pohang 790-784, South Korea

text: ArrayExpress

text: Pontinf/f; CreER ES cell

characteristic: cell line

text: embryonic stem cell

text: house mouse

text: Protocols: Used ES cells were cultured on gelatin-coated culture dishes under feeder-free conditions. ES cells were maintained in Dulbecco's modified Eagle medium (DMEM; Welgene), supplemented with 15% fetal bovine serum (FBS; Welgene), 0.055 mM beta-mercaptoethanol (GIBCO), 2 mM L-glutamine, 0.1 mM MEM nonessential amino acid, 5,000 units/ml penicillin/streptomycin, and 1,000 units/ml of LIF (Chemicon). Pontinf/f; CreER ES cells were derived from blastocysts from intercrosses between Pontinf/f; CreER and CreER transgenic mouse. CreER transgenic mice were purchased from Jackson laboratory. Oct4-depleted ES cells were generated by treating ZHBTc4 ES cells with tetracycline for 2 days. Pontin-depleted ES cells were generated by treating Pontinf/f; CreER ES cells with hydroxyl-tamoxifen (OHT) for 3 or 4 days. We obtained total RNAs from Pontinf/f; CreER ES cells at 0, 3, or 4 days post-treatment with OHT for wt ES cells, Pontin-depleted ES cells (OHT 3D) and Pontin-depleted ES cells (OHT 4D), respectively. We also isolated RNAs from ZHBTc4 ES cells at 2 days post-treatment with tetracycline for Oct4-depleted ES cells. Libraries were prepared for multiplex sequencing using Illumina True-seq RNA sample prep kit v2, according to the manufacturer's protocol.

characteristic: description

text: wild type

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: fresh specimen

characteristic: strain

text: Wild type mESCs


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Department of Chemical Engineering, POSTECH, Pohang 790-784, South Korea

text: public

text: ArrayExpress

text: embryonic stem cell

text: house mouse

text: gene knock out

characteristic: genetic modification

text: inducible Oct4 knockout

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: fresh specimen

characteristic: specimen with known storage state

characteristic: title


E-MTAB-1953:Pontin_KO_mESCs_OHT 3D

characteristic: ENA-LAST-UPDATE

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-1953:Pontin_KO_mESCs_OHT 3D

text: ArrayExpress

text: Pontinf/f; CreER ES cell

text: embryonic stem cell

text: house mouse

characteristic: common name

text: gene knock out

text: inducible Pontin knockout

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: fresh specimen

text: Pontin_KO_mESCs_OHT 3D


E-MTAB-1953:Pontin_KO_mESCs_OHT 5D

characteristic: External Id

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-1953:Pontin_KO_mESCs_OHT 5D

characteristic: Submitter Id

text: ArrayExpress

text: Pontinf/f; CreER ES cell

text: embryonic stem cell

text: house mouse

text: gene knock out

text: inducible Pontin knockout

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: fresh specimen

text: Pontin_KO_mESCs_OHT 5D


text: Plasmodium falciparum

characteristic: ArrayExpress-Species

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: Plasmodium falciparum


E-MTAB-1958:MCF7 cells

text: VGH-YM Genome Research Center

text: public

text: E-MTAB-1958:MCF7 cells

tag: Namespace:VGH-YM Genome Research Center

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: human

text: Protocols: MCF7 cells were cultured in RPMI1640 medium (GIBCO/BRL) supplemented with 10% (v/v) fetal bovine serum (GIBCO/BRL), 2.0 g/L sodium bicarbonate, and were incubated in a humidified 37C incubator with 5% CO2.

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: MCF7 cells


characteristic: 1000 Genomes dataset

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: University of Geneva Medical School, Department of Genetic Medicine and Development

text: public

text: ArrayExpress

text: lymphoblastoid cell

characteristic: cell type

text: human

text: Protocols: Lymphoblastoid cell lines were obtained from Coriell (http://ccr.coriell.org) and cultured in RPMI-1640 medium (Lonza) with 10% fetal calf serun (FCS). Frozen cells were thawed and transferred to T25 flasks containing 15 ml of medium. At a density of 0.3 x 10^6 cells/m cells were transferred to TubeSpin Bioreactor 50 tubes (TPP) in 5 ml of same medium containing 10% FCS and 0.1% Pluronic F-68 (Sigma-Aldrich). The cultures were agitated at 180 rpm with 5% CO2 and 85% humidity. When the cell density reached 2-3 x 10^6 cells/ml, the culture was diluted to 0.3 x 10^6 cells/ml and transferred to a 250-ml glass bottle. The culture was agitated at 110 rpm with 5% CO2 but no humidity. Eventually, the cells were scaled-up serially in 500-ml, 1-L, and 5-L glass bottles filled to a maximum of 40% of the nominal volume. 2-L cell cultures at a density of 0.8_0.9 x 10^6 cells/ml in 5-L bottles were mounted on a shaker and agitated at 70 rpm at room temperature. Formaldehyde (Sigma-Aldrich) was slowly added to a final concentration of 0.8% and agitation was continued for 7 min. The fixation was quenched by addition of 2.5 M glycine (Rectolab) to a final concentration of 0.125 M, and the culture was agitated as before for 5 min. The cells were collected by centrifugation at 2000 rpm for 5 min at 4 degrees C and then washed 4 times with cold PBS. The last centrifugation step was performed in 50-ml centrifuge tubes, each containing 50 x 10^6 cells. The final cell pellets were flash frozen in liquid nitrogen and stored at -80 degrees C. [H3K4me3, H3K27me3, H4K20me1, H3K27ac]: ChIP was carried out largely as suggested by O'Geen et al. 2006 (PMID:17140114), with modifications made to automatize the procedure. Briefly, cells were lysed by addition of cell lysis buffer, then nuclei were washed and subsequently lysed using nuclei lysis buffer. Chromatin was sheared with Covaris S220 sonicator. Sonication efficiency was assessed by running a sample of de-crosslinked DNA on a 1.5% agarose gel. Fragmented chromatin was diluted 10 fold (5 fold in case of H3K27ac IP) in ChIP dilution buffer and immunoprecipitated using respective antibodies. The immunoprecipitation assays were performed on Diagenode SX-8G IP-Star Compact automated system using Auto Histone ChIP-seq kit (Diagenode s.a., Belgium). A minimum of two IPs of 10^6 cells (2 x 10^6 in case of H3K27ac) per cell line was used. Replicates were pooled following RNase A and proteinase K treatments. DNA was purified with Qiagen DNA purification kit. DNA concentration was measured using Qubit apparatus (Life Technologies). Before proceeding with library preparation for sequencing, enrichment of the precipitated DNA was assessed by quantitative PCR. Of note, automatization of the procedure to reach the necessary throughput required by the project did not significantly modify the results. Paralleled chromatin IP of 10^7 cells performed manually using Dynabeads magnetic beads (Life Technologies) to collect chromatin-antibody complexes showed concordant results. ChIP libraries were prepared for sequencing with the Illumina ChIP-seq sample preparation kit (all pilot2 samples, except H3K27ac) and the TruSeq DNA sample prep kit (all pilot1 samples and pilot2 samples of H3K27ac), according to manufacturer's instructions. With the ChIP-seq kit, the number of PCR cycles used to amplify the libraries was either 18 (POLR2B) or 17 (all other assays). With the TruSeq kit, indexing adapters AD001-AD002 were used to index the samples, according to manufacturer's recommendations. ChIP DNA concentration was re-measured prior to library preparation. The starting amount of DNA was 6-10.5 ng (pilot2) or 2.5-10.5 ng (pilot1) per sample. Library quality and average fragment size was confirmed with Bioanalyzer 25-1000bp DNA analysis kit (Agilent).

text: Homo sapiens

text: Homo sapiens

text: HapMap CEU

characteristic: population

text: CEPH

characteristic: population name

text: Homo sapiens

text: female

characteristic: sex


characteristic: ENA-LAST-UPDATE

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: lymphoblastoid cell

text: human

characteristic: common name

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: HapMap YRI

text: Yoruba

text: Homo sapiens

text: female

characteristic: title


characteristic: External Id

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: lymphoblastoid cell

text: human

text: Homo sapiens

text: Homo sapiens

text: HapMap YRI

text: Yoruba

text: Homo sapiens

text: male


characteristic: 1000 Genomes dataset

characteristic: ENA-CHECKLIST

text: public

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: lymphoblastoid cell

text: human

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: HapMap CEU

text: CEPH

text: Homo sapiens

text: male


text: female

characteristic: ArrayExpress-Sex

text: Mus musculus

characteristic: ArrayExpress-Species

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: house mouse

text: Mus musculus

text: Mus musculus


text: female

text: Mus musculus

characteristic: ENA-LAST-UPDATE

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: CAST_EiJ-sc-2013-10-18T08:46:33Z-1727841

text: house mouse

text: Mus musculus

text: Mus musculus


text: Cambridge University

text: public

tag: Namespace:Cambridge University

text: ArrayExpress

characteristic: cell type

text: human

characteristic: common name

text: Protocols: Samples were prepared by direct perfusion of the tissue with buffered salt solution, followed by % formaldehyde. After 10 minutes, the tissue was removed and diced in 500 mM glycine buffer to neutralize the formaldehyde. After homogenization, the cells were rinsed with PBS. The animal tissues were crosslinked with formaldehyde treatment and chromatin fragmented to an average of 300 bp by sonication. Chromatin from an mass equivalent of 1/4 mouse liver was used for each ChIP experiment. Solexa libraries were prepared following the instructions of Illumina (Sample preparation for genomic DNA - version 2.2) with the following modifications. The ChIP-enriched DNA was not further fragmented. After end-repair and addition of an A base to the 3prime ends, the adapters were ligated to the ends of the DNA Fragments using 2 ul of fortyfold diluted Adapter oligo mix in a total reaction volume of 25 ul. Between these steps, the DNA was purified using the DNA Clean-and-Concentrator-5 kit (Zymo Research). Subsequently, the DNA was amplified by 18 cycles of PCR, purified with QIAquick PCR purification Kit, and eluted with 33.5 ul of 10 mM tris buffer at pH7.0. The PCR-product was sized fractionated on 2% agarose gel and a gel slice containing the 200-300 bp fragments was excised. The flowcells were prepared and processed according to the manufacturers protocols, with paired end sequencing for 75 cycles.

text: adult

characteristic: developmental stage

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: liver

characteristic: organism part

text: Homo sapiens

text: male

characteristic: sex

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: External Id

text: Cambridge University

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: human

text: adult

text: Homo sapiens

text: Homo sapiens

text: breast

text: Homo sapiens

text: female


text: OMP-GFP (+/-)

characteristic: ArrayExpress-Genotype

text: Olfactory epithelium

characteristic: ArrayExpress-OrganismPart

text: male

characteristic: ArrayExpress-Sex

text: Mus musculus

characteristic: ArrayExpress-Species

characteristic: ArrayExpress-StrainOrLine

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: sin_OSN_73-sc-2013-10-18T09:51:15Z-1727843

text: house mouse

text: Mus musculus

text: library from single OSNs

characteristic: sample description

text: Mus musculus

characteristic: strain


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ENA-LAST-UPDATE

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: sin_OSN_74-sc-2013-10-18T09:51:18Z-1727844

text: house mouse

characteristic: common name

text: Mus musculus

characteristic: organism

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ENA-CHECKLIST

characteristic: External Id

text: SC

characteristic: INSDC last update

text: public

text: sin_OSN_75-sc-2013-10-18T09:51:19Z-1727845

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

text: SC

text: public

characteristic: INSDC status

characteristic: SRA accession

text: sin_OSN_76-sc-2013-10-18T09:51:21Z-1727846

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

characteristic: ArrayExpress-Genotype

text: Olfactory epithelium

characteristic: ArrayExpress-OrganismPart

text: male

characteristic: ArrayExpress-Sex

text: Mus musculus

text: SC

text: public

text: sin_OSN_77-sc-2013-10-18T09:51:22Z-1727847

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ArrayExpress-Species

characteristic: ArrayExpress-StrainOrLine

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: sin_OSN_78-sc-2013-10-18T09:51:23Z-1727848

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: sin_OSN_79-sc-2013-10-18T09:51:24Z-1727849

text: house mouse

text: Mus musculus

text: library from single OSNs

characteristic: sample description

text: Mus musculus

characteristic: strain


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: sin_OSN_80-sc-2013-10-18T09:51:25Z-1727850

text: house mouse

characteristic: common name

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ENA-CHECKLIST

characteristic: External Id

text: SC

text: public

text: sin_OSN_81-sc-2013-10-18T09:51:27Z-1727851

text: house mouse

text: Mus musculus

characteristic: organism

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

text: SC

characteristic: INSDC last update

text: public

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characteristic: SRA accession

text: sin_OSN_82-sc-2013-10-18T09:51:28Z-1727852

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

characteristic: ArrayExpress-Genotype

text: Olfactory epithelium

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text: male

text: Mus musculus

text: SC

text: public

text: sin_OSN_83-sc-2013-10-18T09:51:29Z-1727853

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

characteristic: ArrayExpress-Sex

text: Mus musculus

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characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

text: sin_OSN_84-sc-2013-10-18T09:51:30Z-1727854

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: sin_OSN_85-sc-2013-10-18T09:51:32Z-1727855

text: house mouse

text: Mus musculus

text: library from single OSNs

characteristic: sample description

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: sin_OSN_86-sc-2013-10-18T09:51:33Z-1727856

text: house mouse

text: Mus musculus

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text: Mus musculus

characteristic: strain


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ENA-CHECKLIST

characteristic: External Id

text: SC

text: public

text: sin_OSN_87-sc-2013-10-18T09:51:34Z-1727857

text: house mouse

characteristic: common name

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

text: SC

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: sin_OSN_88-sc-2013-10-18T09:51:35Z-1727858

text: house mouse

text: Mus musculus

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text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

characteristic: ArrayExpress-Genotype

text: Olfactory epithelium

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text: male

text: Mus musculus

text: SC

text: public

characteristic: SRA accession

text: sin_OSN_89-sc-2013-10-18T09:51:36Z-1727859

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

characteristic: ArrayExpress-Sex

text: Mus musculus

characteristic: ArrayExpress-Species

text: SC

text: public

text: sin_OSN_90-sc-2013-10-18T09:51:37Z-1727860

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ArrayExpress-StrainOrLine

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text: SC

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text: sin_OSN_91-sc-2013-10-18T09:51:38Z-1727861

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

text: SC

characteristic: INSDC center name

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text: public

text: sin_OSN_92-sc-2013-10-18T09:51:39Z-1727862

text: house mouse

text: Mus musculus

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characteristic: sample description

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ENA-CHECKLIST

characteristic: External Id

text: SC

text: public

text: sin_OSN_93-sc-2013-10-18T09:51:40Z-1727863

text: house mouse

text: Mus musculus

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text: Mus musculus

characteristic: strain


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

text: SC

characteristic: INSDC last update

text: public

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text: sin_OSN_94-sc-2013-10-18T09:51:41Z-1727864

text: house mouse

characteristic: common name

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

characteristic: ArrayExpress-Genotype

text: Olfactory epithelium

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text: male

text: Mus musculus

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text: sin_OSN_95-sc-2013-10-18T09:51:42Z-1727865

text: house mouse

text: Mus musculus

characteristic: organism

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

characteristic: ArrayExpress-Sex

text: Mus musculus

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text: SC

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characteristic: SRA accession

text: sin_OSN_96-sc-2013-10-18T09:51:43Z-1727866

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ArrayExpress-StrainOrLine

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: sin_OSN_97-sc-2013-10-18T09:51:44Z-1727867

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ENA-LAST-UPDATE

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: sin_OSN_98-sc-2013-10-18T09:51:46Z-1727868

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ENA-CHECKLIST

characteristic: External Id

text: SC

text: public

text: sin_OSN_99-sc-2013-10-18T09:51:48Z-1727869

text: house mouse

text: Mus musculus

text: library from single OSNs

characteristic: sample description

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

text: SC

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: sin_OSN_100-sc-2013-10-18T09:51:49Z-1727870

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus

characteristic: strain


text: OMP-GFP (+/-)

characteristic: ArrayExpress-Genotype

text: Olfactory epithelium

characteristic: ArrayExpress-OrganismPart

text: male

text: Mus musculus

text: SC

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text: sin_OSN_101-sc-2013-10-18T09:51:50Z-1727871

text: house mouse

characteristic: common name

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

characteristic: ArrayExpress-Sex

text: Mus musculus

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text: SC

text: public

text: sin_OSN_102-sc-2013-10-18T09:51:51Z-1727872

text: house mouse

text: Mus musculus

characteristic: organism

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ArrayExpress-StrainOrLine

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

characteristic: SRA accession

text: sin_OSN_103-sc-2013-10-18T09:51:52Z-1727873

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ENA-LAST-UPDATE

text: SC

characteristic: INSDC center name

text: public

text: sin_OSN_104-sc-2013-10-18T09:51:54Z-1727874

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ENA-CHECKLIST

characteristic: External Id

text: SC

characteristic: INSDC first public

text: public

text: sin_OSN_105-sc-2013-10-18T09:51:55Z-1727875

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

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characteristic: INSDC last update

text: public

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text: sin_OSN_106-sc-2013-10-18T09:51:56Z-1727876

text: house mouse

text: Mus musculus

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characteristic: sample description

text: Mus musculus


text: OMP-GFP (+/-)

characteristic: ArrayExpress-Genotype

text: Olfactory epithelium

characteristic: ArrayExpress-OrganismPart

text: male

text: Mus musculus

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text: sin_OSN_107-sc-2013-10-18T09:51:57Z-1727877

text: house mouse

text: Mus musculus

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text: Mus musculus

characteristic: strain


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

characteristic: ArrayExpress-Sex

text: Mus musculus

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text: SC

text: public

text: sin_OSN_108-sc-2013-10-18T09:51:58Z-1727878

text: house mouse

characteristic: common name

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

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characteristic: ENA-FIRST-PUBLIC

text: SC

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text: sin_OSN_109-sc-2013-10-18T09:51:59Z-1727879

text: house mouse

text: Mus musculus

characteristic: organism

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

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text: SC

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text: sin_OSN_110-sc-2013-10-18T09:52:01Z-1727880

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ENA-CHECKLIST

characteristic: External Id

text: SC

text: public

text: sin_OSN_111-sc-2013-10-18T09:52:02Z-1727881

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

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characteristic: INSDC first public

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text: public

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text: sin_OSN_112-sc-2013-10-18T09:52:03Z-1727882

text: house mouse

text: Mus musculus

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text: Mus musculus


text: OMP-GFP (+/-)

characteristic: ArrayExpress-Genotype

text: Olfactory epithelium

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text: male

text: Mus musculus

text: SC

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text: sin_OSN_113-sc-2013-10-18T09:52:04Z-1727883

text: house mouse

text: Mus musculus

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characteristic: sample description

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

characteristic: ArrayExpress-Sex

text: Mus musculus

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text: SC

text: public

text: sin_OSN_114-sc-2013-10-18T09:52:05Z-1727884

text: house mouse

text: Mus musculus

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text: Mus musculus

characteristic: strain


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ArrayExpress-StrainOrLine

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: sin_OSN_115-sc-2013-10-18T09:52:06Z-1727885

text: house mouse

characteristic: common name

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ENA-LAST-UPDATE

text: SC

characteristic: INSDC center name

text: public

text: sin_OSN_116-sc-2013-10-18T09:52:07Z-1727886

text: house mouse

text: Mus musculus

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text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

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characteristic: External Id

text: SC

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characteristic: SRA accession

text: sin_OSN_117-sc-2013-10-18T09:52:08Z-1727887

text: house mouse

text: Mus musculus

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text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

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text: public

text: sin_OSN_118-sc-2013-10-18T09:52:09Z-1727888

characteristic: Submitter Id

text: house mouse

text: Mus musculus

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text: Mus musculus


text: OMP-GFP (+/-)

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text: Olfactory epithelium

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text: male

text: Mus musculus

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characteristic: INSDC status

text: sin_OSN_119-sc-2013-10-18T09:52:10Z-1727889

text: house mouse

text: Mus musculus

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text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

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characteristic: ArrayExpress-Sex

text: Mus musculus

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text: SC

text: public

text: sin_OSN_120-sc-2013-10-18T09:52:12Z-1727890

text: house mouse

text: Mus musculus

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characteristic: sample description

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

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characteristic: ENA-FIRST-PUBLIC

text: SC

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text: sin_OSN_121-sc-2013-10-18T09:52:12Z-1727891

text: house mouse

text: Mus musculus

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text: Mus musculus

characteristic: strain


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

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characteristic: ENA-LAST-UPDATE

text: SC

characteristic: INSDC center name

text: public

text: sin_OSN_122-sc-2013-10-18T09:52:14Z-1727892

text: house mouse

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text: Mus musculus

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text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

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characteristic: External Id

text: SC

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text: sin_OSN_123-sc-2013-10-18T09:52:15Z-1727893

text: house mouse

text: Mus musculus

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text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

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characteristic: INSDC first public

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text: public

characteristic: SRA accession

text: sin_OSN_124-sc-2013-10-18T09:52:16Z-1727894

text: house mouse

text: Mus musculus

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text: Mus musculus


text: OMP-GFP (+/-)

characteristic: ArrayExpress-Genotype

text: Olfactory epithelium

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text: male

text: Mus musculus

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text: sin_OSN_125-sc-2013-10-18T09:52:17Z-1727895

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

characteristic: ArrayExpress-Sex

text: Mus musculus

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text: SC

text: public

characteristic: INSDC status

text: sin_OSN_126-sc-2013-10-18T09:52:18Z-1727896

text: house mouse

text: Mus musculus

text: library from single OSNs

text: Mus musculus


text: OMP-GFP (+/-)

text: Olfactory epithelium

text: male

text: Mus musculus

characteristic: ArrayExpress-StrainOrLine

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: sin_OSN_127-sc-2013-10-18T09:52:19Z-1727897

text: house mouse

text: Mus musculus

text: library from single OSNs

characteristic: sample description

text: Mus musculus