E-MTAB-12149:Sample 134

text: Universitat Pompeu Fabra

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12149:Sample 134

characteristic: Submitter Id

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 134

characteristic: title


E-MTAB-12149:Sample 135

status: PUBLIC

tag: attribute

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Universitat Pompeu Fabra

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-12149:Sample 135

tag: Namespace:Universitat Pompeu Fabra

text: ArrayExpress

characteristic: broker name

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: common name

text: Protocols: At 216h, cells were stained with C-Kit-APC-Cy7 (clone 2B8, Biolegend), CD41-PE (MWReg30, Biolegend), and CD45-APC (clone 30-F11, Biolegend), and deposited into 2 96-well plates as CD41+ and/or CD45+ cells. Cells were deposited into a lysis buffer as per the published Smart-Seq2 sequencing protocol, centrifuged and snap-frozen. Cell lysis with 0.2% Triton X-100, 1U/µl RNase inhibitor, Thermo Fisher Scientific Reverse transcription was performed using SuperScript II (Thermo Fisher Scientific) in the presence of 1 μM oligo-dT30VN (IDT), 1 μM Template-switching oligonucleotides (QIAGEN), and 1 M betaine. cDNA was amplified using the KAPA Hifi Hotstart ReadyMix (Kapa Biosystems) and IS PCR primer (IDT), with 22 cycles of amplification. Following purification with Agencourt Ampure XP beads (Beckmann Coulter), product size distribution and quantity were assessed on a Bioanalyzer using a High Sensitivity DNA Kit (Agilent Technologies). A total of 140 pg of the amplified cDNA was fragmented using Nextera XT (Illumina) and amplified with with double indexed Nextera PCR primers (IDT). Products of each well of the 96-well plate were pooled and purified twice with Agencourt Ampure XP beads (Beckmann Coulter). Final libraries were quantified and checked for fragment size distribution using a Bioanalyzer High Sensitivity DNA Kit (Agilent Technologies).

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

characteristic: disease

characteristic: genotype

text: gastruloid culture

characteristic: growth condition

text: Mus musculus

characteristic: organism

text: Mus musculus

text: embryoid body

characteristic: organism part

text: embryonic stem cell

characteristic: progenitor cell type

text: Mus musculus

text: Sample 135


E-MTAB-12149:Sample 136

text: Universitat Pompeu Fabra

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12149:Sample 136

characteristic: Submitter Id

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 136

characteristic: title


E-MTAB-12149:Sample 137

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Universitat Pompeu Fabra

characteristic: INSDC center name

text: public

text: E-MTAB-12149:Sample 137

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 137


E-MTAB-12149:Sample 138

text: Universitat Pompeu Fabra

characteristic: INSDC first public

text: public

text: E-MTAB-12149:Sample 138

text: ArrayExpress

characteristic: broker name

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: common name

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 138


E-MTAB-12149:Sample 139

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 139

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

characteristic: disease

characteristic: genotype

text: gastruloid culture

characteristic: growth condition

text: Mus musculus

characteristic: organism

text: Mus musculus

text: embryoid body

characteristic: organism part

text: embryonic stem cell

text: Mus musculus

text: Sample 139


E-MTAB-12149:Sample 140

text: Universitat Pompeu Fabra

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12149:Sample 140

characteristic: Submitter Id

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

characteristic: progenitor cell type

text: Mus musculus

text: Sample 140


E-MTAB-12149:Sample 141

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 141

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 141

characteristic: title


E-MTAB-12149:Sample 142

text: Universitat Pompeu Fabra

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-12149:Sample 142

text: ArrayExpress

characteristic: broker name

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: common name

characteristic: description

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 142


E-MTAB-12149:Sample 143

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 143

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

characteristic: developmental stage

text: normal

characteristic: disease

characteristic: genotype

text: gastruloid culture

characteristic: growth condition

text: Mus musculus

characteristic: organism

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 143


E-MTAB-12149:Sample 144

text: Universitat Pompeu Fabra

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12149:Sample 144

characteristic: Submitter Id

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

characteristic: organism part

text: embryonic stem cell

text: Mus musculus

text: Sample 144


E-MTAB-12149:Sample 145

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 145

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

characteristic: progenitor cell type

text: Mus musculus

text: Sample 145


E-MTAB-12149:Sample 146

text: Universitat Pompeu Fabra

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-12149:Sample 146

text: ArrayExpress

characteristic: broker name

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: common name

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 146

characteristic: title


E-MTAB-12149:Sample 147

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 147

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

characteristic: disease

characteristic: genotype

text: gastruloid culture

characteristic: growth condition

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 147


E-MTAB-12149:Sample 148

text: Universitat Pompeu Fabra

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12149:Sample 148

characteristic: Submitter Id

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

characteristic: organism

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 148


E-MTAB-12149:Sample 149

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 149

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

characteristic: organism part

text: embryonic stem cell

text: Mus musculus

text: Sample 149


E-MTAB-12149:Sample 150

text: Universitat Pompeu Fabra

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-12149:Sample 150

text: ArrayExpress

characteristic: broker name

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: common name

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

characteristic: progenitor cell type

text: Mus musculus

text: Sample 150


E-MTAB-12149:Sample 151

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 151

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

characteristic: disease

characteristic: genotype

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 151

characteristic: title


E-MTAB-12149:Sample 152

text: Universitat Pompeu Fabra

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12149:Sample 152

characteristic: Submitter Id

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

characteristic: growth condition

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 152


E-MTAB-12149:Sample 153

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 153

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

characteristic: organism

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 153


E-MTAB-12149:Sample 154

text: Universitat Pompeu Fabra

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-12149:Sample 154

text: ArrayExpress

characteristic: broker name

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: common name

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

characteristic: organism part

text: embryonic stem cell

text: Mus musculus

text: Sample 154


E-MTAB-12149:Sample 155

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 155

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

characteristic: disease

characteristic: genotype

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

characteristic: progenitor cell type

text: Mus musculus

text: Sample 155


E-MTAB-12149:Sample 156

text: Universitat Pompeu Fabra

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12149:Sample 156

characteristic: Submitter Id

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 156

characteristic: title


E-MTAB-12149:Sample 157

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 157

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

characteristic: growth condition

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 157


E-MTAB-12149:Sample 158

text: Universitat Pompeu Fabra

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-12149:Sample 158

text: ArrayExpress

characteristic: broker name

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: common name

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

characteristic: organism

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 158


E-MTAB-12149:Sample 159

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 159

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

characteristic: disease

characteristic: genotype

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

characteristic: organism part

text: embryonic stem cell

text: Mus musculus

text: Sample 159


E-MTAB-12149:Sample 160

text: Universitat Pompeu Fabra

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12149:Sample 160

characteristic: Submitter Id

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

characteristic: progenitor cell type

text: Mus musculus

text: Sample 160


E-MTAB-12149:Sample 161

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 161

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 161

characteristic: title


E-MTAB-12149:Sample 162

text: Universitat Pompeu Fabra

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-12149:Sample 162

text: ArrayExpress

characteristic: broker name

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: common name

text: embryo stage

text: normal

text: gastruloid culture

characteristic: growth condition

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 162


E-MTAB-12149:Sample 163

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 163

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

characteristic: disease

characteristic: genotype

text: gastruloid culture

text: Mus musculus

characteristic: organism

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 163


E-MTAB-12149:Sample 164

text: Universitat Pompeu Fabra

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12149:Sample 164

characteristic: Submitter Id

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

characteristic: organism part

text: embryonic stem cell

text: Mus musculus

text: Sample 164


E-MTAB-12149:Sample 165

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 165

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

characteristic: progenitor cell type

text: Mus musculus

text: Sample 165


E-MTAB-12149:Sample 166

text: Universitat Pompeu Fabra

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-12149:Sample 166

text: ArrayExpress

characteristic: broker name

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: common name

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 166

characteristic: title


E-MTAB-12149:Sample 167

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 167

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

characteristic: disease

characteristic: genotype

text: gastruloid culture

characteristic: growth condition

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 167


E-MTAB-12149:Sample 168

text: Universitat Pompeu Fabra

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12149:Sample 168

characteristic: Submitter Id

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

characteristic: organism

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 168


E-MTAB-12149:Sample 169

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 169

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

characteristic: organism part

text: embryonic stem cell

text: Mus musculus

text: Sample 169


E-MTAB-12149:Sample 170

text: Universitat Pompeu Fabra

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-12149:Sample 170

text: ArrayExpress

characteristic: broker name

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: common name

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

characteristic: progenitor cell type

text: Mus musculus

text: Sample 170


E-MTAB-12149:Sample 171

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 171

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

characteristic: disease

characteristic: genotype

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 171

characteristic: title


E-MTAB-12149:Sample 172

text: Universitat Pompeu Fabra

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12149:Sample 172

characteristic: Submitter Id

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

characteristic: growth condition

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 172


E-MTAB-12149:Sample 173

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 173

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

characteristic: organism

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 173


E-MTAB-12149:Sample 174

text: Universitat Pompeu Fabra

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-12149:Sample 174

text: ArrayExpress

characteristic: broker name

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: common name

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

characteristic: organism part

text: embryonic stem cell

text: Mus musculus

text: Sample 174


E-MTAB-12149:Sample 175

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 175

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

characteristic: disease

characteristic: genotype

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

characteristic: progenitor cell type

text: Mus musculus

text: Sample 175


E-MTAB-12149:Sample 176

text: Universitat Pompeu Fabra

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12149:Sample 176

characteristic: Submitter Id

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 176

characteristic: title


E-MTAB-12149:Sample 177

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 177

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

characteristic: growth condition

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 177


E-MTAB-12149:Sample 178

text: Universitat Pompeu Fabra

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-12149:Sample 178

text: ArrayExpress

characteristic: broker name

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: common name

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

characteristic: organism

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 178


E-MTAB-12149:Sample 179

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 179

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

characteristic: disease

characteristic: genotype

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

characteristic: organism part

text: embryonic stem cell

text: Mus musculus

text: Sample 179


E-MTAB-12149:Sample 180

text: Universitat Pompeu Fabra

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12149:Sample 180

characteristic: Submitter Id

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

characteristic: progenitor cell type

text: Mus musculus

text: Sample 180


E-MTAB-12149:Sample 181

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 181

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 181

characteristic: title


E-MTAB-12149:Sample 182

text: Universitat Pompeu Fabra

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-12149:Sample 182

text: ArrayExpress

characteristic: broker name

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: common name

text: embryo stage

text: normal

text: gastruloid culture

characteristic: growth condition

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 182


E-MTAB-12149:Sample 183

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 183

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

characteristic: disease

characteristic: genotype

text: gastruloid culture

text: Mus musculus

characteristic: organism

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 183


E-MTAB-12149:Sample 184

text: Universitat Pompeu Fabra

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12149:Sample 184

characteristic: Submitter Id

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

characteristic: organism part

text: embryonic stem cell

text: Mus musculus

text: Sample 184


E-MTAB-12149:Sample 185

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 185

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

characteristic: progenitor cell type

text: Mus musculus

text: Sample 185


E-MTAB-12149:Sample 186

text: Universitat Pompeu Fabra

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-12149:Sample 186

text: ArrayExpress

characteristic: broker name

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: common name

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 186

characteristic: title


E-MTAB-12149:Sample 187

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 187

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

characteristic: disease

characteristic: genotype

text: gastruloid culture

characteristic: growth condition

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 187


E-MTAB-12149:Sample 188

text: Universitat Pompeu Fabra

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12149:Sample 188

characteristic: Submitter Id

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

characteristic: organism

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 188


E-MTAB-12149:Sample 189

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 189

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

characteristic: organism part

text: embryonic stem cell

text: Mus musculus

text: Sample 189


E-MTAB-12149:Sample 190

text: Universitat Pompeu Fabra

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-12149:Sample 190

text: ArrayExpress

characteristic: broker name

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: common name

text: embryo stage

text: normal

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

characteristic: progenitor cell type

text: Mus musculus

text: Sample 190


E-MTAB-12149:Sample 191

text: Universitat Pompeu Fabra

text: public

text: E-MTAB-12149:Sample 191

text: ArrayExpress

text: mouse embryonic stem cell line cell

text: house mouse

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

characteristic: disease

characteristic: genotype

text: gastruloid culture

text: Mus musculus

text: Mus musculus

text: embryoid body

text: embryonic stem cell

text: Mus musculus

text: Sample 191

characteristic: title


E-MTAB-11277:Sample 1

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-11277:Sample 1

tag: Namespace:WASHINGTON UNIVERSITY SCHOOL OF MEDICINE

characteristic: Submitter Id

unit: week

characteristic: age

text: ArrayExpress

text: house mouse

text: Protocols: The mice were sacrificed and the fecal samples were collected. Mice were housed in an enhanced barrier specific pathogen-free facility under a strict 12-hour light cycle. Mice were maintained on a C57BL/6 background. All study protocols were approved by the Washington University Animal Studies Committee. Mice were fed irradiated standard diet (PicoLab Rodent Chow 20, Purina Mills; containing 20% protein), isocaloric protein-free diet (Envigo # TD.99328), or isocaloric 6% protein diet (Envigo # TD.90016). DNA was isolated using Qiagen QIAmp DNA Stool Kit, according to the kit protocol. Total DNA concentration and purity was obtained from an absorbance ratio at 260nm and 280nm. 14 PCR amplicons, representing all 9 16S variable regions, were constructed using the Fluidigm Access Array System. 5ng/ul of DNA were input into each reaction. The sample inlets consisted of 1X High Fidelity FastStart Reaction Buffer without MgCl2 (Roche), 4.5nM MgCl2 (Roche), 5% DMSO (Roche), 200uM PCR Grade Nucleotide Mix (Roche), 0.05 U/μL 5 U/μL FastStart High Fidelity Enzyme Blend (Roche), 1X Access Array Loading Reagent (Fluidigm), 1ul DNA, and water. The primers were added to the assay inlets at 200nM forward and reverse primers with 1X Access Array Loading Reagent. The samples were harvested after PCR amplification was performed on the BioMark HD system from Fluidigm. Each sample was harvested and indexed using unique 10 base pair sequences with 14 rounds of PCR to incorporate each index sequence. All samples were pooled into 48 sample libraries and cleaned using bead purification.

text: adult

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

characteristic: sex

characteristic: strain

text: Sample 1


E-MTAB-11277:Sample 10

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: WASHINGTON UNIVERSITY SCHOOL OF MEDICINE

characteristic: INSDC center name

text: public

text: E-MTAB-11277:Sample 10

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: male

text: Sample 10


E-MTAB-11277:Sample 11

characteristic: INSDC first public

text: public

text: E-MTAB-11277:Sample 11

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

text: Sample 11


E-MTAB-11277:Sample 12

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-11277:Sample 12

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

text: Sample 12

characteristic: title


E-MTAB-11277:Sample 13

text: public

characteristic: SRA accession

text: E-MTAB-11277:Sample 13

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

characteristic: sex

text: Sample 13


E-MTAB-11277:Sample 14

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-11277:Sample 14

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

characteristic: strain

text: Sample 14


E-MTAB-11277:Sample 15

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-11277:Sample 15

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: male

text: Sample 15


E-MTAB-11277:Sample 16

text: public

text: E-MTAB-11277:Sample 16

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

text: Sample 16


E-MTAB-11277:Sample 17

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-11277:Sample 17

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

text: Sample 17

characteristic: title


E-MTAB-11277:Sample 18

text: public

characteristic: SRA accession

text: E-MTAB-11277:Sample 18

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

characteristic: sex

text: Sample 18


E-MTAB-11277:Sample 19

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-11277:Sample 19

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

characteristic: strain

text: Sample 19


E-MTAB-11277:Sample 2

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-11277:Sample 2

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: male

text: Sample 2


E-MTAB-11277:Sample 20

text: public

text: E-MTAB-11277:Sample 20

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

text: Sample 20


E-MTAB-11277:Sample 21

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-11277:Sample 21

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

text: Sample 21

characteristic: title


E-MTAB-11277:Sample 22

text: public

characteristic: SRA accession

text: E-MTAB-11277:Sample 22

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

characteristic: sex

text: Sample 22


E-MTAB-11277:Sample 23

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-11277:Sample 23

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

characteristic: strain

text: Sample 23


E-MTAB-11277:Sample 24

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-11277:Sample 24

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: male

text: Sample 24


E-MTAB-11277:Sample 25

text: public

text: E-MTAB-11277:Sample 25

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

text: Sample 25


E-MTAB-11277:Sample 26

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-11277:Sample 26

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

text: Sample 26

characteristic: title


E-MTAB-11277:Sample 27

text: public

characteristic: SRA accession

text: E-MTAB-11277:Sample 27

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

characteristic: sex

text: Sample 27


E-MTAB-11277:Sample 28

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-11277:Sample 28

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

characteristic: strain

text: Sample 28


E-MTAB-11277:Sample 29

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-11277:Sample 29

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: male

text: Sample 29


E-MTAB-11277:Sample 3

text: public

text: E-MTAB-11277:Sample 3

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

text: Sample 3


E-MTAB-11277:Sample 4

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-11277:Sample 4

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

text: Sample 4

characteristic: title


E-MTAB-11277:Sample 5

text: public

characteristic: SRA accession

text: E-MTAB-11277:Sample 5

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

characteristic: sex

text: Sample 5


E-MTAB-11277:Sample 6

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-11277:Sample 6

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

characteristic: strain

text: Sample 6


E-MTAB-11277:Sample 7

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-11277:Sample 7

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: male

text: Sample 7


E-MTAB-11277:Sample 8

text: public

text: E-MTAB-11277:Sample 8

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

text: Sample 8


E-MTAB-11277:Sample 9

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-11277:Sample 9

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: male

text: Sample 9

characteristic: title


text: public

characteristic: SRA accession

tag: Namespace:VTT Technical Research Centre of Finland Ltd

characteristic: Submitter Id

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: VTT Technical Research Centre of Finland Ltd

text: public

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


E-MTAB-11253:Sample 1

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-11253:Sample 1

tag: Namespace:Laboratory of Molecular Medicine and Genomics

text: ArrayExpress

text: lung cancer cell

text: human

text: Protocols: A549 and H358 cells were used and treated for 5 days. Cells were collected and homogenized in Trizol Reagent (Lab. Prof. Feliciello); total RNA extraction was performed with an RNA Clean and Concentrator Kit (Zymo Research Corp., Irvine, CA, USA), following the manufacturer’s instructions RNA purity and integrity were assessed with a Nanodrop 2000c spectrophotometer (Thermo Fisher Scientific, Waltham, MA, USA) and a 4200 TapeStation instrument (Agilent Technologies, Santa Clara, CA, USA), respectively. For RNA purity, an A260/280 ratio of 2.0 and a A260/230 ratio of 2.0-2.2 were considered acceptable; for RNA integrity, an RNA Integrity Number (RIN) of 9.0-10.0 has been obtained for all samples, indicating the absence of degradation and high integrity of RNA samples. For a precise estimation of the RNA concentration, a Qubit 2.0 fluorometer assay (Thermo Fisher Scientific, Waltham, MA, USA) has been employed

text: lung cancer

characteristic: disease

text: Homo sapiens

text: Homo sapiens

text: lung

characteristic: organism part

text: Homo sapiens

text: Sample 1


E-MTAB-11253:Sample 10

characteristic: External Id

text: Laboratory of Molecular Medicine and Genomics

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-11253:Sample 10

text: ArrayExpress

text: lung cancer cell

text: human

text: lung cancer

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens

text: Sample 10


E-MTAB-11253:Sample 11

text: public

text: E-MTAB-11253:Sample 11

text: ArrayExpress

characteristic: broker name

text: lung cancer cell

text: human

characteristic: common name

text: lung cancer

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

text: Homo sapiens

text: Sample 11


E-MTAB-11253:Sample 12

characteristic: INSDC last update

text: public

text: E-MTAB-11253:Sample 12

text: ArrayExpress

text: lung cancer cell

text: human

characteristic: description

text: lung cancer

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens

text: Sample 12


E-MTAB-11253:Sample 2

text: public

characteristic: INSDC status

text: E-MTAB-11253:Sample 2

text: ArrayExpress

text: lung cancer cell

text: human

text: lung cancer

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens

text: Sample 2


E-MTAB-11253:Sample 3

text: public

text: E-MTAB-11253:Sample 3

text: ArrayExpress

text: lung cancer cell

text: human

text: lung cancer

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens

text: Sample 3

characteristic: title


E-MTAB-11253:Sample 13

text: public

characteristic: SRA accession

text: E-MTAB-11253:Sample 13

text: ArrayExpress

text: lung cancer cell

text: human

text: lung cancer

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens

text: Sample 13


E-MTAB-11253:Sample 14

text: public

text: E-MTAB-11253:Sample 14

characteristic: Submitter Id

text: ArrayExpress

text: lung cancer cell

text: human

text: lung cancer

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens

text: Sample 14


E-MTAB-11253:Sample 15

characteristic: ENA-CHECKLIST

text: public

text: E-MTAB-11253:Sample 15

text: ArrayExpress

text: lung cancer cell

text: human

text: lung cancer

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens

text: Sample 15


E-MTAB-11253:Sample 4

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-11253:Sample 4

text: ArrayExpress

text: lung cancer cell

text: human

text: lung cancer

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens

text: Sample 4


E-MTAB-11253:Sample 5

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-11253:Sample 5

text: ArrayExpress

text: lung cancer cell

text: human

text: lung cancer

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens

text: Sample 5


E-MTAB-11253:Sample 6

text: public

text: E-MTAB-11253:Sample 6

text: ArrayExpress

text: lung cancer cell

text: human

text: lung cancer

characteristic: disease

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens

text: Sample 6


E-MTAB-11253:Sample 16

text: public

text: E-MTAB-11253:Sample 16

text: ArrayExpress

text: lung cancer cell

text: human

text: lung cancer

text: Homo sapiens

text: Homo sapiens

text: lung

characteristic: organism part

text: Homo sapiens

text: Sample 16


E-MTAB-11253:Sample 17

characteristic: External Id

text: public

text: E-MTAB-11253:Sample 17

text: ArrayExpress

text: lung cancer cell

text: human

text: lung cancer

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens

text: Sample 17


E-MTAB-11253:Sample 18

characteristic: INSDC center name

text: public

text: E-MTAB-11253:Sample 18

text: ArrayExpress

text: lung cancer cell

text: human

text: lung cancer

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens

text: Sample 18


E-MTAB-11253:Sample 7

characteristic: INSDC first public

text: public

text: E-MTAB-11253:Sample 7

text: ArrayExpress

text: lung cancer cell

text: human

text: lung cancer

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens

text: Sample 7


E-MTAB-11253:Sample 8

text: public

text: E-MTAB-11253:Sample 8

text: ArrayExpress

characteristic: broker name

text: lung cancer cell

text: human

text: lung cancer

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens

text: Sample 8


E-MTAB-11253:Sample 9

text: public

text: E-MTAB-11253:Sample 9

text: ArrayExpress

text: lung cancer cell

text: human

characteristic: common name

text: lung cancer

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens

text: Sample 9


text: Plasmodium ovale

characteristic: ArrayExpress-Species

text: SC

text: public

text: malaria parasite P. ovale

text: Plasmodium ovale

characteristic: organism

text: cDNA from postGEM-RT cleanup of MSC10

text: Plasmodium ovale

text: Plasmodium ovale


text: Plasmodium ovale

text: SC

characteristic: INSDC last update

text: public

text: malaria parasite P. ovale

text: Plasmodium ovale

text: cDNA from postGEM-RT cleanup of MSC9

text: Plasmodium ovale

text: Plasmodium ovale


text: Pseudomonas aeruginosa PAO1

characteristic: ArrayExpress-SPECIES

text: P.aeruginosa PA01

text: SC

text: public

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tag: Namespace:High Definition Disease Modelling Lab, Stem Cell and Organoid Epigenetics, IEO, European Institute of Oncology, IRCCS, Milan, Italy.  Department of Oncology and Hemato-oncology, University of Milan, Milan, Italy.

text: ArrayExpress

text: hiPSCs derived cortical brain organoid

text: human

text: Protocols: Micro-dissected fetal brain tissues were snap-frozen and stored at -80°C until RNA extraction. hiPSCs lines: Fibroblasts of CTL1 (phenotypically normal male without intellectual disability or other physician-diagnosed neuropsychiatric diagnosis) were received from BC Children's Hospital, Vancouver. CTL2 (male) hiPSC line was received from the Wellcome Trust Sanger Institute. CTL3 (male) hiPSC line was received from the university of Sheffield. Fibroblasts of CTL04 (female) were received from Genomic and Genetic Disorders Biobank at the IRCCS Casa Sollievo della Sofferenza, San Giovanni Rotondo (Italy, affiliated to the Telethon Network of Genetic Biobanks). hiPSC were cultured in TeSR-E8 medium (Stemcell technologies, 05990), with daily media change, at 37 °C, 5 % CO2 and 3 % O2 in standard incubators. hiPSC were grown on matrigel-coated dishes (Corning, 354248) and passaged using ReLeSRTM (Stemcell technologies, 05872). hiPSCs reprogramming: Skin fibroblasts from four healthy individuals were reprogrammed using non integrating self-replicating mRNAs as previously described (Yoshioka et al., 2013) (Stemgent, 00-0071) (CTL1, CTL3 and CTL4) or Sendai virus (CTL2) (CytoTune-iPS 2.0 Sendai Reprogramming Kit; Thermo Fisher Scientific, A16517). CBO were generated using an adaptation of the previously described protocol published by Pasca et al in 2015 (26005811), introducing orbital shaking on day 12 of differentiation as described in (31607568). Briefly, hiPSC were grown on feeders for 3-4 days in a medium composed of 80% DMEM/F12 medium (1:1), 20% Knockout serum (Thermo Fisher Scientific, 10828028), 1% Non-essential amino acids (NEAA, Lonza BE13- 14E), 0.1 mM cell culture grade 2-mercaptoethanol solution (Thermo Fisher Scientific, 31350010), 2 mM L-Glutamine (Thermo Fisher Scientific, 25030081), P/S 100 U/mL, and FGF2 at a final concentration of 20 ng/mL (Thermo Fisher Scientific, PHG0021). Daily media change was performed. Embryoid bodies (EB) were generated by detaching hiPSC with dispase for 40 minutes and plating on ultralow attachment 10 cm plates (Corning, 3262) in the first differentiating medium composed of 80% DMEM/F12 medium (1:1), 20% Knockout serum, 1% NEAA, 0.1 mM cell culture grade 2-mercaptoethanol solution, 2 mM L-Glutamine, P/S, 100 U/mL, 7,5 μM Dorsomorphin (MedChem express, HY-13418A), 10 μM TGFβ inhibitor SB431542 (MedChem express, HY-10431), and ROCK inhibitor 5 μM. EB were grown in normal oxygen incubators. EB were left undisturbed for 1 day and at 48h media change was performed with differentiation medium 1 without ROCK inhibitor. Dorsomorphin and TGFβ inhibitor are used to perform Dual-SMAD inhibition, pushing neuroectoderm specification. Dual-SMAD inhibition was performed for a total of 5 days, with daily media change. On day 6 the second differentiation medium was added until day 25 with daily media change for the first 12 days, and then every other day. The second differentiation medium was composed of neurobasal medium (Thermo Fisher Scientific, 12348017) supplemented with 1X B-27 supplement without vitamin A (Thermo Fisher Scientific 12587001), 2 mM L-Glutamine, P/S, 100 U/mL, 20 ng/mL FGF2and 20 ng/mL EGF (Thermo Fisher Scientific, PHG0313). Human FGF2 and EGF were used to amplify the pool of neural progenitors. On day 12, CBO were moved to ultra-low attachment 10 cm dishes and grown on shakers to enhance oxygen and nutrient supply. On day 26, FGF2 and EGF were replaced with 20 ng/mL brain-derived neurotrophic factor (BDNF, Peprotech 450-02) and 20 ng/mLneurotrophin-3 (NT3, Peprotech 450-03) to promote differentiation of neural progenitors towards the glutamatergic fate. From day 43 onwards, BDNF and NT3 were removed and from day 50 the medium was supplemented with Amphotericinβ to prevent mould formation. CBO were generated using an adaptation of the previously described protocol published by Pasca et al in 2015 (26005811), introducing orbital shaking on day 12 of differentiation as described in (31607568). Briefly, hiPSC were grown on feeders for 3-4 days in a medium composed of 80% DMEM/F12 medium (1:1), 20% Knockout serum (Thermo Fisher Scientific, 10828028), 1% Non-essential amino acids (NEAA, Lonza BE13- 14E), 0.1 mM cell culture grade 2-mercaptoethanol solution (Thermo Fisher Scientific, 31350010), 2 mM L-Glutamine (Thermo Fisher Scientific, 25030081), P/S 100 U/mL, and FGF2 at a final concentration of 20 ng/mL (Thermo Fisher Scientific, PHG0021). Daily media change was performed. Embryoid bodies (EB) were generated by detaching hiPSC with dispase for 40 minutes and plating on ultralow attachment 10 cm plates (Corning, 3262) in the first differentiating medium composed of 80% DMEM/F12 medium (1:1), 20% Knockout serum, 1% NEAA, 0.1 mM cell culture grade 2-mercaptoethanol solution, 2 mM L-Glutamine, P/S, 100 U/mL, 7,5 μM Dorsomorphin (MedChem express, HY-13418A), 10 μM TGFβ inhibitor SB431542 (MedChem express, HY-10431), and ROCK inhibitor 5 μM. EB were grown in normal oxygen incubators. EB were left undisturbed for 1 day and at 48h media change was performed with differentiation medium 1 without ROCK inhibitor. Dorsomorphin and TGFβ inhibitor are used to perform Dual-SMAD inhibition, pushing neuroectoderm specification. Dual-SMAD inhibition was performed for a total of 5 days, with daily media change. On day 6 the second differentiation medium was added until day 25 with daily media change for the first 12 days, and then every other day. The second differentiation medium was composed of neurobasal medium (Thermo Fisher Scientific, 12348017) supplemented with 1X B-27 supplement without vitamin A (Thermo Fisher Scientific 12587001), 2 mM L-Glutamine, P/S, 100 U/mL, 20 ng/mL FGF2and 20 ng/mL EGF (Thermo Fisher Scientific, PHG0313). Human FGF2 and EGF were used to amplify the pool of neural progenitors. On day 12, CBO were moved to ultra-low attachment 10 cm dishes and grown on shakers to enhance oxygen and nutrient supply. On day 26, FGF2 and EGF were replaced with 20 ng/mL brain-derived neurotrophic factor (BDNF, Peprotech 450-02) and 20 ng/mLneurotrophin-3 (NT3, Peprotech 450-03) to promote differentiation of neural progenitors towards the glutamatergic fate. From day 43 onwards, BDNF and NT3 were removed and from day 50 the medium was supplemented with Amphotericinβ to prevent mould formation. Total RNA was extracted from snap-frozen pellets of CBO at day 25, 50, 100, 150, 200, fetal brain tissues using the RNeasy Mini Kit (Qiagen, 74104). Purified RNA was quantified using a NanoDrop spectrophotometer and RNA quality was checked with an Agilent 2100 Bioanalyzer using the RNA nano kit (Agilent, 5067-1512). Library preparation for RNA sequencing was performed according to TruSeq Total RNA sample preparation protocol (Illumina, RS-122-2202), starting from 250 ng - 1 μg of total RNA. cDNA library quality was assessed at on Agilent 2100 Bioanalyzer, using the high sensitivity DNA kit (Agilent 5067-4626).

characteristic: description

text: normal

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characteristic: growth condition

text: 3391B (CTL4)

characteristic: individual

text: Homo sapiens

text: Homo sapiens

text: zone of skin

characteristic: organism part

text: human induced pluripotent stem cell

characteristic: progenitor cell type

characteristic: replicate

text: Homo sapiens

text: female

characteristic: sex

unit: day

characteristic: time


characteristic: External Id

text: High Definition Disease Modelling Lab, Stem Cell and Organoid Epigenetics, IEO, European Institute of Oncology, IRCCS, Milan, Italy. Department of Oncology and Hemato-oncology, University of Milan, Milan, Italy.

characteristic: INSDC center name

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text: public

text: ArrayExpress

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characteristic: title


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characteristic: description

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text: A15461 (CTL1)

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text: 15 week 4 day

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text: spinal cord

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text: Homo sapiens

text: diencephalon

text: Homo sapiens

text: male


characteristic: External Id

characteristic: INSDC center name

text: public

text: 15 week 4 day

text: ArrayExpress

text: neural cell

text: human

text: embryo stage

text: normal

characteristic: disease

characteristic: individual

text: Homo sapiens

text: Homo sapiens

text: midbrain

characteristic: organism part

text: Homo sapiens

text: male

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: 15 week 4 day

text: ArrayExpress

characteristic: broker name

text: neural cell

text: human

text: embryo stage

text: normal

text: Homo sapiens

text: Homo sapiens

text: cerebellum

text: Homo sapiens

text: male

characteristic: sex


characteristic: ENA-LAST-UPDATE

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: 15 week 4 day

characteristic: age

text: ArrayExpress

text: neural cell

text: human

text: embryo stage

text: normal

text: Homo sapiens

text: Homo sapiens

text: pons

text: Homo sapiens

text: male

characteristic: time


characteristic: External Id

characteristic: INSDC center name

text: public

text: 15 week 4 day

text: ArrayExpress

text: neural cell

text: human

characteristic: common name

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: medulla oblongata

text: Homo sapiens

text: male


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: 13 week 5 day

text: ArrayExpress

text: neural cell

text: human

text: embryo stage

text: normal

characteristic: disease

characteristic: individual

text: Homo sapiens

text: Homo sapiens

text: cortex

characteristic: organism part

text: Homo sapiens

text: male

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: 13 week 5 day

text: ArrayExpress

characteristic: broker name

text: neural cell

text: human

text: embryo stage

text: normal

text: Homo sapiens

text: Homo sapiens

text: striatum

text: Homo sapiens

text: male

characteristic: sex


characteristic: External Id

characteristic: INSDC center name

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: 13 week 5 day

characteristic: age

text: ArrayExpress

text: neural cell

text: human

text: embryo stage

text: normal

text: Homo sapiens

text: Homo sapiens

text: diencephalon

text: Homo sapiens

text: male

characteristic: time


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: 13 week 5 day

text: ArrayExpress

text: neural cell

text: human

characteristic: common name

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: midbrain

text: Homo sapiens

text: male


characteristic: ENA-LAST-UPDATE

characteristic: INSDC first public

text: public

text: 13 week 5 day

text: ArrayExpress

text: neural cell

text: human

text: embryo stage

text: normal

characteristic: disease

characteristic: individual

text: Homo sapiens

text: Homo sapiens

text: cerebellum

characteristic: organism part

text: Homo sapiens

text: male

characteristic: title


characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: 13 week 5 day

text: ArrayExpress

characteristic: broker name

text: neural cell

text: human

text: embryo stage

text: normal

text: Homo sapiens

text: Homo sapiens

text: pons

text: Homo sapiens

text: male

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: 13 week 5 day

characteristic: age

text: ArrayExpress

text: neural cell

text: human

text: embryo stage

text: normal

text: Homo sapiens

text: Homo sapiens

text: medulla oblongata

text: Homo sapiens

text: male

characteristic: time


characteristic: ENA-LAST-UPDATE

characteristic: INSDC first public

text: public

text: ArrayExpress

text: hiPSCs derived cortical brain organoid

text: human

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: normal

text: brain organoid

characteristic: growth condition

text: KOLF2C1 (CTL2)

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: zone of skin

text: human induced pluripotent stem cell

characteristic: progenitor cell type

characteristic: replicate

text: Homo sapiens

text: male


characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

characteristic: broker name

text: human induced pluripotent stem cell

text: human

text: adult

text: normal

characteristic: disease

text: KOLF2C1 (CTL2)

characteristic: individual

text: Homo sapiens

text: Homo sapiens

text: zone of skin

characteristic: organism part

text: fibroblast

text: Homo sapiens

text: male

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: UOSi001-A cell line

text: hiPSCs derived cortical brain organoid

text: human

text: neonate

text: normal

text: brain organoid

text: MIFF1 (CTL3)

text: Homo sapiens

text: Homo sapiens

text: prepuce of penis

text: human induced pluripotent stem cell

text: Homo sapiens

text: male

characteristic: sex

characteristic: time


characteristic: External Id

text: public

text: ArrayExpress

text: UOSi001-A cell line

text: human induced pluripotent stem cell

text: human

characteristic: common name

characteristic: description

text: neonate

characteristic: developmental stage

text: normal

text: MIFF1 (CTL3)

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: prepuce of penis

text: dermal fibroblast

characteristic: progenitor cell type

text: Homo sapiens

text: male


text: ED

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Norway rat

text: Telencephalon from E20 Rat embryo Champ1+/-

text: Rattus norvegicus

text: Rattus norvegicus


characteristic: ENA-CHECKLIST

text: ED

text: public

text: Norway rat

text: Telencephalon from E20 Rat embryo Champ1-/-

text: Rattus norvegicus

text: Rattus norvegicus

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: ED

text: public

text: Norway rat

text: Telencephalon from E20 Rat embryo Champ1+/+

text: Rattus norvegicus

text: Rattus norvegicus


characteristic: INSDC first public

text: public

characteristic: SRA accession

tag: Namespace:BOTANICAL INSTITUT UNIVERSITY OF COLOGNE

text: Hemiptera sp. BOLD:AAD6955

text: Hemiptera sp. BOLD:AAD6955


text: BOTANICAL INSTITUT UNIVERSITY OF COLOGNE

text: public

characteristic: Submitter Id

text: Hemiptera sp. BOLD:AAD6955

text: Hemiptera sp. BOLD:AAD6955


text: Institute for Medical Research Malaysia

text: public

tag: Namespace:Institute for Medical Research Malaysia

characteristic: collection date

text: clinical

text: Malaysia

characteristic: geographic location (country and/or sea)

text: not provided

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

characteristic: isolate

text: Human

text: Burkholderia pseudomallei

text: Burkholderia pseudomallei

text: studies of B. pseudomallei in HHS


text: <html>Sylvilagus floridanus </html>

characteristic: ArrayExpress-SPECIES

characteristic: External Id

text: SC

text: public

text: eastern cottontail

characteristic: common name

text: Sylvilagus floridanus

characteristic: organism

text: Sylvilagus floridanus


characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:NATIONAL HEART AND LUNG INSTITUTE, IMPERIAL COLLEGE LONDON

text: human

text: Feathers

characteristic: description

text: Homo sapiens

text: Homo sapiens


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: NATIONAL HEART AND LUNG INSTITUTE, IMPERIAL COLLEGE LONDON

text: public

text: human

text: Feathers

text: Homo sapiens

text: Homo sapiens

characteristic: title


characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: human

text: Controls

text: Homo sapiens

text: Homo sapiens


text: public

text: human

text: BAL

text: Homo sapiens

text: Homo sapiens


MockCom

text: public

text: MockCom

text: human

text: Mock

text: Homo sapiens

text: Homo sapiens

text: MockCom


Negative

text: public

text: Negative

text: human

text: Negative

text: Homo sapiens

text: Homo sapiens

text: Negative


text: public

text: human

text: Scope wash

text: Homo sapiens

text: Homo sapiens


text: Oscheius sp. DF5083

text: SC

text: public

text: Oscheius sp. DF5083

text: Oscheius sp. DF5083

text: Oscheius sp. DF5083

text: Oscheius sp. DF5083


text: Oscheius sp. JU1182

text: SC

text: public

text: Oscheius sp. JU1182

text: Oscheius sp. JU1182

text: Oscheius sp. JU1182

text: Oscheius sp. JU1182


text: Auanema freiburgensis

text: SC

text: public

text: Auanema freiburgensis

text: Auanema freiburgensis

text: Auanema freiburgensis

text: Auanema freiburgensis


text: Auanema sp. JU1783

text: SC

text: public

text: Auanema sp. JU1783

text: Auanema sp. JU1783

text: Auanema sp. JU1783

text: Auanema sp. JU1783


text: Auanema sp. APS25

text: SC

text: public

text: Auanema sp. APS25

text: Auanema sp. APS25

text: Auanema sp. APS25

text: Auanema sp. APS25


text: Auanema sp. JU3173

text: SC

text: public

text: Auanema sp. JU3173

text: Auanema sp. JU3173

text: Auanema sp. JU3173

text: Auanema sp. JU3173


text: Auanema sp. JU3284

text: SC

text: public

text: Auanema sp. JU3284

text: Auanema sp. JU3284

text: Auanema sp. JU3284

text: Auanema sp. JU3284


text: Oscheius sp. DF5120

text: SC

text: public

text: Oscheius sp. DF5120

text: Oscheius sp. DF5120

text: Oscheius sp. DF5120

text: Oscheius sp. DF5120


text: Auanema sp. APS23

text: SC

text: public

text: Auanema sp. APS23

text: Auanema sp. APS23

text: Auanema sp. APS23

text: Auanema sp. APS23


text: Oscheius sp. TWN1984

text: SC

text: public

text: Oscheius sp. TWN1984

text: Oscheius sp. TWN1984

text: Oscheius sp. TWN1984

text: Oscheius sp. TWN1984


text: Oscheius sp. JU75

text: SC

text: public

text: Oscheius sp. JU75

text: Oscheius sp. JU75

text: Oscheius sp. JU75

text: Oscheius sp. JU75


text: Oscheius sp. SB194

text: SC

text: public

text: Oscheius sp. SB194

text: Oscheius sp. SB194

text: Oscheius sp. SB194

text: Oscheius sp. SB194


text: Oscheius sp. EUK108

text: SC

text: public

text: Oscheius sp. EUK108

text: Oscheius sp. EUK108

text: Oscheius sp. EUK108

text: Oscheius sp. EUK108


text: Oscheius sp. SB147

text: SC

text: public

text: Oscheius sp. SB147

text: Oscheius sp. SB147

text: Oscheius sp. SB147

text: Oscheius sp. SB147


text: Oscheius dolichuroides

text: SC

text: public

text: Oscheius dolichuroides

text: Oscheius dolichuroides

text: Oscheius dolichuroides

text: Oscheius dolichuroides


text: Oscheius dolichura

text: SC

text: public

text: Oscheius dolichura

text: Oscheius dolichura

text: Oscheius dolichura

text: Oscheius dolichura


text: Oscheius sp. DF5102

text: SC

text: public

text: Oscheius sp. DF5102

text: Oscheius sp. DF5102

text: Oscheius sp. DF5102

text: Oscheius sp. DF5102


text: Oscheius myriophilus

text: SC

text: public

text: Oscheius myriophilus

text: Oscheius myriophilus

text: Oscheius myriophilus

text: Oscheius myriophilus


text: ED

text: public

text: human

text: Day 10

text: Homo sapiens

text: Homo sapiens

text: Cortical organoid


text: Children's Hospital of Philadelphia

text: public

tag: Namespace:Children's Hospital of Philadelphia

unit: year

characteristic: age

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: cardiomyocyte-like cell

characteristic: cell type

text: human

text: Protocols: Reprogramming of human, apparently healthy fibroblasts 8399 (Female, 19 yo), and 28808 (Male, 1 day old) was obtained by retroviral transduction of Oct3/4, Sox2, Klf-4, and c-Myc transcription factors as described in Li et al. (Mol. Ther., 2015: 23:1055). Fibroblasts 942 (Female, 5 yo) were de-differentiated using Sendai Viral reprogramming vectors as described in Shanmughapriya et al (Nat Commun, 2018; 9: 3449). The fibroblasts cells 8399, 28808 and 942 are commercially available at Coriell (Camden, NJ, USA). Reprogramming of human, apparently healthy lymphocytes SV20 (Male, 43 yo) was obtained using Sendai Viral reprogramming vectors as described in Shanmughapriya et al. (Nat Commun, 2018; 9: 3449). IPSC derived-cardiomyocytes were collected a week after the first transfection at approximately day 35 post-differentiation IPSC-derived cardiomyocytes were maintened in RPMI medium supplemented with B27 siRNA transfection was performed by using RNAiMax kit as per manufacturer's instruction RNA was extracted using RNAeasy kit (Qiagen) as per manufacturer's instructions Libraries were prepared using the TruSeq Stranded Total RNA Library Prep Kit with Ribo-Zero Gold (Illumina)

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: induced pluripotent stem cell

characteristic: progenitor cell type

text: Homo sapiens

text: male

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: External Id

text: Children's Hospital of Philadelphia

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: IPSc 28808

text: cardiomyocyte-like cell

text: human

characteristic: common name

characteristic: description

text: infant

text: normal

text: wild type genotype

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: skin

text: induced pluripotent stem cell

text: Homo sapiens

text: male


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: Children's Hospital of Philadelphia

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: IPSc 8399

text: cardiomyocyte-like cell

text: human

text: adult

text: normal

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: skin

text: induced pluripotent stem cell

text: Homo sapiens

text: female

characteristic: title


text: Children's Hospital of Philadelphia

text: public

text: ArrayExpress

text: IPSc 942

characteristic: cell line

text: cardiomyocyte-like cell

characteristic: cell type

text: human

text: juvenile stage

characteristic: developmental stage

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: skin

characteristic: organism part

text: induced pluripotent stem cell

characteristic: progenitor cell type

text: Homo sapiens

text: female

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: External Id

text: The Hebrew University of Jerusalem

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:The Hebrew University of Jerusalem

text: Mediterranean fruit fly

characteristic: common name

text: Gut microbiome

characteristic: description

text: insect gut metagenome

characteristic: organism

text: insect gut metagenome

text: Medfly gut sample


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: The Hebrew University of Jerusalem

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Mediterranean fruit fly

text: Gut microbiome

text: insect gut metagenome

text: insect gut metagenome

text: Medfly gut sample e

characteristic: title


text: The Hebrew University of Jerusalem

text: public

text: gut microbiome

text: Gut microbiome

text: insect gut metagenome

text: insect gut metagenome

text: Medfly gut sample


text: mixed

characteristic: ArrayExpress-SEX

text: Caenorhabditis sinica

characteristic: ArrayExpress-SPECIES

text: Mixed

characteristic: GENDER

text: SC

text: public

text: Caenorhabditis sinica

text: Caenorhabditis sinica

text: Caenorhabditis sinica


text: mixed

text: Mesorhabditis spiculigera

characteristic: ENA-CHECKLIST

text: Mixed

text: SC

text: public

text: Mesorhabditis spiculigera

text: Mesorhabditis spiculigera

text: Mesorhabditis spiculigera


text: mixed

text: Mesorhabditis belari

characteristic: External Id

text: Mixed

text: SC

text: public

text: Mesorhabditis belari

text: Mesorhabditis belari

text: Mesorhabditis belari


text: mixed

text: Turbatrix aceti

text: Mixed

text: SC

characteristic: INSDC center name

text: public

text: Turbatrix aceti

text: Turbatrix aceti

text: Turbatrix aceti


text: mixed

text: Heterorhabditis bacteriophora

text: Mixed

text: SC

characteristic: INSDC last update

text: public

text: Heterorhabditis bacteriophora

text: Heterorhabditis bacteriophora

text: Heterorhabditis bacteriophora


text: Mycobacterium abscessus

text: SC

text: public

characteristic: INSDC status

text: Mycobacterium abscessus

text: Mycobacteroides abscessus

text: Mycobacteroides abscessus


text: WAGENINGEN UNIVERSITY

text: public

tag: Namespace:WAGENINGEN UNIVERSITY

text: Nile tilapia

characteristic: common name

text: Fin clip

text: Oreochromis niloticus

text: Oreochromis niloticus


text: NTU

text: public

text: ArrayExpress

characteristic: broker name

text: house mouse

text: Protocols: Mice were transcardially perfused with 0.9% saline at 4 °C to remove circulating blood, and brains were removed and collected into RNAlater (Thermofisher Scientific Ltd., UK) prior to storage at -20 °C for later analysis. Whole brain total RNA was extracted using a PureLink RNA Mini Kit (Thermofisher Scientific Ltd., UK). TruSeq Stranded mRNA LT Sample Prep Kit as per the manufacturer's instructions.

characteristic: description

text: wild type genotype

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: brain

characteristic: organism part

text: Mus musculus

text: male

characteristic: sex

characteristic: strain


text: Pseudomonas aeruginosa PAO27

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Pseudomonas aeruginosa PAO27

text: Pseudomonas aeruginosa PAO1

characteristic: organism

text: Pseudomonas aeruginosa PAO1


E-MTAB-11346:Cocaine 1

characteristic: ENA-CHECKLIST

characteristic: External Id

text: public

text: E-MTAB-11346:Cocaine 1

tag: Namespace:Dept. Biochemistry and Molecular Biology. Faculty of Medicine. Instituto de Neurociencias de Castilla y Leon (INCyL). University of Salamanca, Spain.

text: ArrayExpress

text: zebrafish

text: Protocols: At 72 hpf embryos were sacrificed by cold exposure, incubating the multiwell plates on crushed ice. Embryos were transferred to eppendorfs, medium was removed and they were frozen in N2(l). Tissue was stored at -80ºC until use. RNA was obtained using PureLinkTM RNA Mini Kit (Ambion Fisher Scientific) following the manufacturer´s instructions. In-column DNase I digestion (Invitrogen Fisher Scientific) was performed to remove the traces of gDNA. RNA concentration was initially determined with a NanoDrop 2000C spectrophotometer (Thermo Scientific), the purity of the sample was established according to the ratio of absorbances measured at 260/280 nm, and RNA integrity was check with a Bioanalyzer RNA (Agilent). Ribosomal RNA was depleted using RiboMinus™ RNA was fragmented, reverse transcrided using random hexamers, 3' and 5' adapters were attached and library was amplified by PCR

text: embryo

characteristic: developmental stage

unit: hour

text: wild type genotype

text: Danio rerio

text: Danio rerio

text: whole organism

text: Danio rerio

text: AB

text: Cocaine 1

characteristic: title