text: Whole embryo

text: Danio rerio

text: Mixed

text: untreated

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: SC

characteristic: INSDC last update

text: public

characteristic: SRA accession

text: Nilo_0_1DMSO_28hpf_untreated_3-sc-2403654

text: zebrafish

characteristic: common name

text: Danio rerio

text: 3' end enriched mRNA from single wild type 28hpf embryo plus ERCC spike mix 2 (Ambion). A 8 base indexing sequence (TTACTCGC) is bases 13 to 20 of read 1 followed by CG and polyT.

text: Danio rerio

text: Mixed


status: PUBLIC

text: Pharyngula : Prim 5-Prim 15 - ZFS:0000029 - ZFS:0000030

tag: attribute

characteristic: ArrayExpress-DevelopmentalStage

text: Whole embryo

characteristic: ArrayExpress-OrganismPart

text: Danio rerio

characteristic: ArrayExpress-Species

text: Mixed

characteristic: ArrayExpress-StrainOrLine

text: untreated

characteristic: ArrayExpress-Treatment

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: Nilo_0_1DMSO_28hpf_untreated_4-sc-2403655

characteristic: Submitter Id

text: zebrafish

text: Danio rerio

characteristic: organism

text: 3' end enriched mRNA from single wild type 28hpf embryo plus ERCC spike mix 2 (Ambion). A 8 base indexing sequence (TCGTTAGC) is bases 13 to 20 of read 1 followed by CG and polyT.

characteristic: sample description

text: Danio rerio

text: Mixed

characteristic: strain


text: Whole embryo

text: Danio rerio

text: Mixed

text: untreated

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: SC

characteristic: INSDC last update

text: public

text: Nilo_0_1DMSO_28hpf_untreated_5-sc-2403656

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from single wild type 28hpf embryo plus ERCC spike mix 2 (Ambion). A 8 base indexing sequence (TACCGAGC) is bases 13 to 20 of read 1 followed by CG and polyT.

text: Danio rerio

text: Mixed


characteristic: ArrayExpress-DevelopmentalStage

text: Whole embryo

text: Danio rerio

text: Mixed

text: untreated

text: SC

text: public

characteristic: SRA accession

text: Nilo_0_1DMSO_28hpf_untreated_6-sc-2403657

text: zebrafish

characteristic: common name

text: Danio rerio

text: 3' end enriched mRNA from single wild type 28hpf embryo plus ERCC spike mix 2 (Ambion). A 8 base indexing sequence (TGTTCTCC) is bases 13 to 20 of read 1 followed by CG and polyT.

text: Danio rerio

text: Mixed


text: Whole embryo

characteristic: ArrayExpress-OrganismPart

text: Danio rerio

characteristic: ArrayExpress-Species

text: Mixed

characteristic: ArrayExpress-StrainOrLine

text: untreated

text: SC

text: public

text: Nilo_0_1DMSO_28hpf_untreated_7-sc-2403658

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from single wild type 28hpf embryo plus ERCC spike mix 2 (Ambion). A 8 base indexing sequence (TTCGCACC) is bases 13 to 20 of read 1 followed by CG and polyT.

text: Danio rerio

text: Mixed


text: Whole embryo

text: Danio rerio

text: Mixed

text: untreated

characteristic: ArrayExpress-Treatment

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

text: public

text: Nilo_0_1DMSO_28hpf_untreated_8-sc-2403659

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from single wild type 28hpf embryo plus ERCC spike mix 2 (Ambion). A 8 base indexing sequence (TTGCGTAC) is bases 13 to 20 of read 1 followed by CG and polyT.

text: Danio rerio

text: Mixed


text: Whole embryo

text: Danio rerio

text: Mixed

text: untreated

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: Nilo_0_1DMSO_28hpf_untreated_9-sc-2403660

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from single wild type 28hpf embryo plus ERCC spike mix 2 (Ambion). A 8 base indexing sequence (TCTACGAC) is bases 13 to 20 of read 1 followed by CG and polyT.

text: Danio rerio

text: Mixed


text: Whole embryo

text: Danio rerio

text: Mixed

text: untreated

text: SC

text: public

text: Nilo_0_1DMSO_28hpf_untreated_10-sc-2403661

characteristic: Submitter Id

text: zebrafish

text: Danio rerio

characteristic: organism

text: 3' end enriched mRNA from single wild type 28hpf embryo plus ERCC spike mix 2 (Ambion). A 8 base indexing sequence (TGACAGAC) is bases 13 to 20 of read 1 followed by CG and polyT.

characteristic: sample description

text: Danio rerio

text: Mixed


text: Whole embryo

text: Danio rerio

text: Mixed

text: untreated

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: Nilo_0_1DMSO_28hpf_untreated_11-sc-2403662

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from single wild type 28hpf embryo plus ERCC spike mix 2 (Ambion). A 8 base indexing sequence (TAGAACAC) is bases 13 to 20 of read 1 followed by CG and polyT.

text: Danio rerio

text: Mixed

characteristic: strain


text: Pharyngula : Prim 5-Prim 15 - ZFS:0000029 - ZFS:0000030

characteristic: ArrayExpress-DevelopmentalStage

text: Whole embryo

text: Danio rerio

text: Mixed

text: untreated

text: SC

characteristic: INSDC last update

text: public

characteristic: SRA accession

text: Nilo_0_1DMSO_28hpf_untreated_12-sc-2403663

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from single wild type 28hpf embryo plus ERCC spike mix 2 (Ambion). A 8 base indexing sequence (TCATCCTA) is bases 13 to 20 of read 1 followed by CG and polyT.

text: Danio rerio

text: Mixed


E-MTAB-3875:Sample 1

text: GIBH,CAS

text: public

text: E-MTAB-3875:Sample 1

text: ArrayExpress

characteristic: broker name

text: mouse embryonic fibroblast cell

characteristic: cell type

text: house mouse

characteristic: common name

text: Protocols: The MEF were expressed with CypD or treated with paraquat and mastoparan. RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols

characteristic: description

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: control

characteristic: stimulus

text: 129 mouse strain

text: Sample 1

characteristic: title

type: has member


E-MTAB-3875:Sample 2

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: GIBH,CAS

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-3875:Sample 2

text: ArrayExpress

text: mouse embryonic fibroblast cell

text: house mouse

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: FLAG-tagged Cyclophilin D

text: 129 mouse strain

text: Sample 2


E-MTAB-3875:Sample 3

text: GIBH,CAS

text: public

characteristic: INSDC status

text: E-MTAB-3875:Sample 3

characteristic: Submitter Id

text: ArrayExpress

text: mouse embryonic fibroblast cell

text: house mouse

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: Flag

text: 129 mouse strain

text: Sample 3


E-MTAB-3875:Sample 4

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: GIBH,CAS

text: public

text: E-MTAB-3875:Sample 4

text: ArrayExpress

text: mouse embryonic fibroblast cell

text: house mouse

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: mastoparan

text: 129 mouse strain

characteristic: strain

text: Sample 4


E-MTAB-3875:Sample 5

text: GIBH,CAS

characteristic: INSDC last update

text: public

characteristic: SRA accession

text: E-MTAB-3875:Sample 5

text: ArrayExpress

text: mouse embryonic fibroblast cell

text: house mouse

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Paraquat

text: 129 mouse strain

text: Sample 5


text: Homo Sapien

characteristic: ArrayExpress-Species

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Growing

characteristic: ArrayExpress-Phenotype

text: female

characteristic: ArrayExpress-Sex

text: Homo Sapien

text: SC

text: public

text: human

characteristic: common name

text: Homo sapiens

text: Homo sapiens


text: Senescence

text: female

text: Homo Sapien

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Hatching:Long-pec - Hatching:Pec-fin - ZFS:0000033 - ZFS:0000034

characteristic: ArrayExpress-DevelopmentalStage

text: wild type

characteristic: ArrayExpress-Genotype

text: Whole embryo

characteristic: ArrayExpress-OrganismPart

text: Danio rerio

text: AB

characteristic: ArrayExpress-StrainOrLine

characteristic: ArrayExpress-TimePoint

text: uninjected

characteristic: ArrayExpress-Treatment

text: SC

text: public

text: zebrafish

text: Danio rerio

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Sanger strain at 54hpf plus ERCC spike mix 2 (Ambion).

characteristic: sample description

text: Danio rerio

text: AB


text: wild type

text: Whole embryo

text: Danio rerio

text: AB

text: Injected with 2%Phenol Red in 7H9/OADS

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: Submitter Id

text: zebrafish

text: Danio rerio

characteristic: organism

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Sanger strain mock injected with 8nl of 2%Phenol Red in 7H9/OADS at 48hpf and collected 6 hours post infection. The RNA also contains ERCC spike mix 2 (Ambion).

text: Danio rerio

text: AB


text: 109 CFU per embryo

characteristic: ArrayExpress-Dose

text: wild type

text: Whole embryo

text: Danio rerio

characteristic: ArrayExpress-Species

text: AB

text: Injected with wild type Mycobacterium marimum in 2%Phenol Red in 7H9/OADS

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: SC

characteristic: INSDC last update

text: public

characteristic: SRA accession

text: zebrafish

text: Danio rerio

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Sanger strain injected with 8nl of Mycobacterium marinum, pathogen load of 109 CFU in 2%Phenol Red in 7H9/OADS at 48hpf and collected 6 hours post infection. The RNA also contains ERCC spike mix 2 (Ambion).

text: Danio rerio

text: AB

characteristic: strain


characteristic: ArrayExpress-DevelopmentalStage

text: 342 CFU per embryo

text: wild type

characteristic: ArrayExpress-Genotype

text: Whole embryo

characteristic: ArrayExpress-OrganismPart

text: Danio rerio

text: AB

characteristic: ArrayExpress-StrainOrLine

characteristic: ArrayExpress-TimePoint

text: Injected with mmpL7 Mycobacterium marimum in 2%Phenol Red in 7H9/OADS

text: SC

text: public

text: zebrafish

characteristic: common name

text: Danio rerio

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Sanger strain injected with 8nl of mmpL7 Mycobacterium marinum, pathogen load of 342 CFU in 2%Phenol Red in 7H9/OADS at 48hpf and collected 6 hours post infection. The RNA also contains ERCC spike mix 2 (Ambion).

text: Danio rerio

text: AB


text: Larval:Protruding-mouth - ZFS:0000035

text: wild type

text: Whole embryo

text: Danio rerio

text: AB

text: uninjected

characteristic: ArrayExpress-Treatment

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: zebrafish

text: Danio rerio

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Sanger strain at 72hpf plus ERCC spike mix 2 (Ambion).

characteristic: sample description

text: Danio rerio

text: AB


text: Larval:Protruding-mouth - ZFS:0000035

text: wild type

text: Whole embryo

text: Danio rerio

characteristic: ArrayExpress-Species

text: AB

text: Injected with 2%Phenol Red in 7H9/OADS

characteristic: ENA-CHECKLIST

text: SC

text: public

characteristic: INSDC status

characteristic: Submitter Id

text: zebrafish

text: Danio rerio

characteristic: organism

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Sanger strain mock injected with 8nl of 2%Phenol Red in 7H9/OADS at 48hpf and collected 24 hours post infection. The RNA also contains ERCC spike mix 2 (Ambion).

text: Danio rerio

text: AB


text: Larval:Protruding-mouth - ZFS:0000035

characteristic: ArrayExpress-DevelopmentalStage

text: 109 CFU per embryo

characteristic: ArrayExpress-Dose

text: wild type

text: Whole embryo

text: Danio rerio

text: AB

characteristic: ENA-FIRST-PUBLIC

text: SC

characteristic: INSDC last update

text: public

characteristic: SRA accession

text: zebrafish

text: Danio rerio

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Sanger strain injected with 8nl of Mycobacterium marinum, pathogen load of 109 CFU in 2%Phenol Red in 7H9/OADS at 48hpf and collected 24 hours post infection. The RNA also contains ERCC spike mix 2 (Ambion).

text: Danio rerio

text: AB

characteristic: strain


text: Larval:Protruding-mouth - ZFS:0000035

text: 342 CFU per embryo

text: wild type

characteristic: ArrayExpress-Genotype

text: Whole embryo

characteristic: ArrayExpress-OrganismPart

text: Danio rerio

text: AB

characteristic: ArrayExpress-StrainOrLine

characteristic: ArrayExpress-TimePoint

characteristic: ArrayExpress-Treatment

text: SC

text: public

text: zebrafish

characteristic: common name

text: Danio rerio

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Sanger strain injected with 8nl of mmpL7 Mycobacterium marinum, pathogen load of 342 CFU in 2%Phenol Red in 7H9/OADS at 48hpf and collected 24 hours post infection. The RNA also contains ERCC spike mix 2 (Ambion).

text: Danio rerio

text: AB


text: wild type

text: Whole embryo

text: Danio rerio

characteristic: ArrayExpress-Species

text: AB

text: Injected with 2%Phenol Red in PBS

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: zebrafish

text: Danio rerio

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Sanger strain mock injected with 8nl of 2%Phenol Red in PBS at 48hpf and collected 6 hours post infection. The RNA also contains ERCC spike mix 2 (Ambion).

characteristic: sample description

text: Danio rerio

text: AB


characteristic: ArrayExpress-DevelopmentalStage

text: 332 CFU per embryo

characteristic: ArrayExpress-Dose

text: wild type

text: Whole embryo

text: Danio rerio

text: AB

text: Injected with Salmonella typhimurium in 2%Phenol Red in PBS

characteristic: ENA-CHECKLIST

text: SC

text: public

characteristic: INSDC status

characteristic: Submitter Id

text: zebrafish

text: Danio rerio

characteristic: organism

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Sanger strain injected with 8nl of Salmonella typhimurium, pathogen load of 332 CFU in 2%Phenol Red in PBS at 48hpf and collected 6 hours post infection. The RNA also contains ERCC spike mix 2 (Ambion).

text: Danio rerio

text: AB


text: 1288 CFU per embryo

text: wild type

characteristic: ArrayExpress-Genotype

text: Whole embryo

characteristic: ArrayExpress-OrganismPart

text: Danio rerio

text: AB

text: Injected with Salmonella Weltevreden in 2%Phenol Red in PBS

characteristic: ENA-FIRST-PUBLIC

text: SC

characteristic: INSDC last update

text: public

characteristic: SRA accession

text: zebrafish

text: Danio rerio

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Sanger strain injected with 8nl of Salmonella weltevreden, pathogen load of 1288 CFU in 2%Phenol Red in PBS at 48hpf and collected 6 hours post infection. The RNA also contains ERCC spike mix 2 (Ambion).

text: Danio rerio

text: AB

characteristic: strain


text: Larval:Protruding-mouth - ZFS:0000035

text: wild type

text: Whole embryo

text: Danio rerio

characteristic: ArrayExpress-Species

text: AB

characteristic: ArrayExpress-StrainOrLine

characteristic: ArrayExpress-TimePoint

text: Injected with 2%Phenol Red in PBS

characteristic: ArrayExpress-Treatment

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: zebrafish

characteristic: common name

text: Danio rerio

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Sanger strain mock injected with 8nl of 2%Phenol Red in PBS at 48hpf and collected 24 hours post infection. The RNA also contains ERCC spike mix 2 (Ambion).

text: Danio rerio

text: AB


text: Larval:Protruding-mouth - ZFS:0000035

characteristic: ArrayExpress-DevelopmentalStage

text: 332 CFU per embryo

characteristic: ArrayExpress-Dose

text: wild type

text: Whole embryo

text: Danio rerio

text: AB

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: zebrafish

text: Danio rerio

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Sanger strain injected with 8nl of Salmonella typhimurium, pathogen load of 332 CFU in 2%Phenol Red in PBS at 48hpf and collected 24 hours post infection. The RNA also contains ERCC spike mix 2 (Ambion).

characteristic: sample description

text: Danio rerio

text: AB


text: Larval:Protruding-mouth - ZFS:0000035

text: 1288 CFU per embryo

text: wild type

characteristic: ArrayExpress-Genotype

text: Whole embryo

characteristic: ArrayExpress-OrganismPart

text: Danio rerio

text: AB

characteristic: ENA-CHECKLIST

text: SC

text: public

characteristic: INSDC status

characteristic: Submitter Id

text: zebrafish

text: Danio rerio

characteristic: organism

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Sanger strain injected with 8nl of Salmonella weltevreden, pathogen load of 1288 CFU in 2%Phenol Red in PBS at 48hpf and collected 24 hours post infection. The RNA also contains ERCC spike mix 2 (Ambion).

text: Danio rerio

text: AB


text: Hatching:Long-pec - Hatching:Pec-fin - ZFS:0000033 - ZFS:0000034

text: wild type

text: Whole embryo

text: Danio rerio

characteristic: ArrayExpress-Species

text: AB

characteristic: ArrayExpress-StrainOrLine

text: uninjected

characteristic: ENA-FIRST-PUBLIC

text: SC

characteristic: INSDC last update

text: public

characteristic: SRA accession

text: zebrafish

text: Danio rerio

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Imperial strain at 54hpf plus ERCC spike mix 2 (Ambion).

text: Danio rerio

text: AB

characteristic: strain


characteristic: ArrayExpress-DevelopmentalStage

text: wild type

text: Whole embryo

text: Danio rerio

text: AB

characteristic: ArrayExpress-TimePoint

text: Injected with PBS

characteristic: ArrayExpress-Treatment

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: zebrafish

characteristic: common name

text: Danio rerio

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Imperial strain mock injected with 1nl of PBS at 48hpf and collected 6 hours post infection. The RNA also contains ERCC spike mix 2 (Ambion).

text: Danio rerio

text: AB


text: 1000 CFU per embryo

characteristic: ArrayExpress-Dose

text: wild type

characteristic: ArrayExpress-Genotype

text: Whole embryo

text: Danio rerio

text: AB

text: Injected with wild type Shigella M90T in PBS

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: zebrafish

text: Danio rerio

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Imperial strain injected with 1nl of wild type Shigella 90T, pathogen load of 1000/embryo in PBS at 48hpf and collected 6 hours post infection. The RNA also contains ERCC spike mix 2 (Ambion).

characteristic: sample description

text: Danio rerio

text: AB


text: 1000 CFU per embryo

text: wild type

text: Whole embryo

characteristic: ArrayExpress-OrganismPart

text: Danio rerio

characteristic: ArrayExpress-Species

text: AB

text: Injected with mutant Shigella T3SS in PBS

characteristic: ENA-CHECKLIST

text: SC

text: public

characteristic: INSDC status

characteristic: Submitter Id

text: zebrafish

text: Danio rerio

characteristic: organism

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Imperial strain injected with 1nl of mutant Shigella T3SS, pathogen load of 1000/embryo in PBS at 48hpf and collected 6 hours post infection. The RNA also contains ERCC spike mix 2 (Ambion).

text: Danio rerio

text: AB


text: Larval:Protruding-mouth - ZFS:0000035

characteristic: ArrayExpress-DevelopmentalStage

text: wild type

text: Whole embryo

text: Danio rerio

text: AB

characteristic: ArrayExpress-StrainOrLine

text: uninjected

characteristic: ENA-FIRST-PUBLIC

text: SC

characteristic: INSDC last update

text: public

characteristic: SRA accession

text: zebrafish

text: Danio rerio

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Imperial strain at 72hpf plus ERCC spike mix 2 (Ambion).

text: Danio rerio

text: AB

characteristic: strain


text: Larval:Protruding-mouth - ZFS:0000035

text: wild type

characteristic: ArrayExpress-Genotype

text: Whole embryo

text: Danio rerio

text: AB

characteristic: ArrayExpress-TimePoint

text: Injected with PBS

characteristic: ArrayExpress-Treatment

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: zebrafish

characteristic: common name

text: Danio rerio

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Imperial strain mock injected with 1nl of PBS at 48hpf and collected 24 hours post infection. The RNA also contains ERCC spike mix 2 (Ambion).

text: Danio rerio

text: AB


text: Larval:Protruding-mouth - ZFS:0000035

text: 1000 CFU per embryo

characteristic: ArrayExpress-Dose

text: wild type

text: Whole embryo

characteristic: ArrayExpress-OrganismPart

text: Danio rerio

text: AB

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: zebrafish

text: Danio rerio

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Imperial strain injected with 1nl of wild type Shigella 90T, pathogen load of 1000/embryo in PBS at 48hpf and collected 24 hours post infection. The RNA also contains ERCC spike mix 2 (Ambion).

characteristic: sample description

text: Danio rerio

text: AB


text: Larval:Protruding-mouth - ZFS:0000035

characteristic: ArrayExpress-DevelopmentalStage

text: 1000 CFU per embryo

text: wild type

text: Whole embryo

text: Danio rerio

characteristic: ArrayExpress-Species

text: AB

characteristic: ENA-CHECKLIST

text: SC

text: public

characteristic: INSDC status

characteristic: Submitter Id

text: zebrafish

text: Danio rerio

characteristic: organism

text: Total RNA from a pool of 5 zebrafish embryos from the AB_Imperial strain injected with 1nl of mutant Shigella T3SS, pathogen load of 1000/embryo in PBS at 48hpf and collected 24 hours post infection. The RNA also contains ERCC spike mix 2 (Ambion).

text: Danio rerio

text: AB


text: Plasmodium vivax

characteristic: ENA-FIRST-PUBLIC

text: SC

characteristic: INSDC last update

text: public

characteristic: SRA accession

text: malaria parasite P. vivax

text: Plasmodium vivax

text: Plasmodium vivax


characteristic: ENA-LAST-UPDATE

text: UCSDMI

text: public

characteristic: age

text: days

characteristic: age unit

characteristic: altitude

characteristic: anonymized name

text: False

characteristic: antibiotics after birth

text: True

characteristic: antibiotics at birth

text: True

text: female

characteristic: babygender m f

text: UBERON:feces

characteristic: body habitat

text: UBERON:feces

characteristic: body product

text: UBERON:feces

characteristic: body site

text: Feces

text: 6/14/12 0:00

text: human

text: human gut metagenome

text: GAZ:United States of America

characteristic: country

text: C

characteristic: delivery vvaginal ccs icsinoc

characteristic: depth

text: Feces swab

characteristic: description

text: BF

characteristic: diet

text: BF

text: breasfedformula

text: True

characteristic: elevation

characteristic: env

text: ENVO:urbanbiome

characteristic: env biome

text: ENVO:human-associated habitat

characteristic: env feature

text: ENVO:feces

characteristic: env matter

text: MestizoHispano

characteristic: ethnicgroup

text: True

characteristic: extracted DNA avail now

characteristic: family number

text: NEG

characteristic: gbs

text: True

text: True

text: Ashford

characteristic: hospital

text: human

characteristic: host common name

characteristic: host subject id

characteristic: host taxid

characteristic: latitude

characteristic: longitude

text: B

characteristic: motherorbaby m b

text: human gut metagenome

text: no

text: True

characteristic: physical samp avail now

text: NYU

text: NYU

text: False

characteristic: planned sampling day 0 1 3 7 14 30 60 90 365

characteristic: preservation method n2 frozen 70frozenn2rna laterfreshphenol c

text: True

characteristic: public

text: completed

text: Feces

text: sequenced (16S)

text: human gut metagenome

text: female

text: PuertoRico

text: UPR

text: Feces

text: Development Ecology of the Human Microbiome - Longitudinal Study of babies

text: Patillas


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: age

text: days

characteristic: age unit

characteristic: altitude

characteristic: anonymized name

text: False

characteristic: antibiotics after birth

text: True

characteristic: antibiotics at birth

text: True

text: female

characteristic: babygender m f

text: UBERON:feces

characteristic: body habitat

text: UBERON:feces

characteristic: body product

text: UBERON:feces

characteristic: body site

text: Feces

text: 6/23/12 0:00

text: Onedaywithoutbreastfeedingbecausemotherison_antibiotics_

characteristic: comment

text: human

characteristic: common name

text: human gut metagenome

text: GAZ:United States of America

characteristic: country

text: C

characteristic: delivery vvaginal ccs icsinoc

characteristic: depth

text: feces swab

characteristic: description

text: BF

characteristic: diet

text: BF

text: breasfedformula

text: True

characteristic: elevation

characteristic: env

text: ENVO:urbanbiome

characteristic: env biome

text: ENVO:human-associated habitat

characteristic: env feature

text: ENVO:feces

text: MestizoHispano

text: True

text: NEG

text: True

text: True

text: Ashford

text: human

text: B

text: human gut metagenome

characteristic: organism

text: no

text: True

text: NYU

text: NYU

text: False

text: True

text: completed

text: Feces

text: sequenced (16S)

text: human gut metagenome

text: female

text: PuertoRico

text: UPR

text: Feces

text: Patillas


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: age

text: days

characteristic: age unit

characteristic: altitude

characteristic: anonymized name

text: False

characteristic: antibiotics after birth

text: True

characteristic: antibiotics at birth

text: True

text: male

text: UBERON:feces

text: UBERON:feces

text: UBERON:feces

text: Feces

text: 11/4/12 0:00

text: human

text: human gut metagenome

text: GAZ:United States of America

text: I

text: feces swab

text: BF

text: BF

text: breasfedformula

text: True

text: ENVO:urbanbiome

text: ENVO:human-associated habitat

text: ENVO:feces

characteristic: env matter

text: MestizoHispano

characteristic: ethnicgroup

text: True

characteristic: extracted DNA avail now

characteristic: family number

text: NEG

characteristic: gbs

text: True

text: True

characteristic: height m

text: RCM

characteristic: hospital

text: human

characteristic: host common name

characteristic: host subject id

characteristic: host taxid

characteristic: latitude

characteristic: longitude

text: B

characteristic: motherorbaby m b

text: human gut metagenome

text: no

text: True

characteristic: physical samp avail now

text: NYU

text: NYU

text: False

characteristic: planned sampling day 0 1 3 7 14 30 60 90 365

characteristic: preservation method n2 frozen 70frozenn2rna laterfreshphenol c

text: True

text: completed

text: Feces

text: sequenced (16S)

text: human gut metagenome

text: male

text: PuertoRico

text: UPR

text: Feces

text: Vieques


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: age

text: days

characteristic: age unit

characteristic: altitude

characteristic: anonymized name

text: False

characteristic: antibiotics after birth

text: True

characteristic: antibiotics at birth

text: True

text: male

characteristic: babygender m f

text: UBERON:feces

characteristic: body habitat

text: UBERON:feces

characteristic: body product

text: UBERON:feces

characteristic: body site

text: Feces

text: 11/11/12 0:00

text: human

characteristic: common name

text: human gut metagenome

text: GAZ:United States of America

characteristic: country

text: I

characteristic: delivery vvaginal ccs icsinoc

characteristic: depth

text: feces swab

characteristic: description

text: BF

characteristic: diet

text: BF

text: breasfedformula

text: True

characteristic: elevation

characteristic: env

text: ENVO:urbanbiome

characteristic: env biome

text: ENVO:human-associated habitat

characteristic: env feature

text: ENVO:feces

text: MestizoHispano

text: True

text: NEG

text: True

text: True

text: RCM

text: human

text: B

text: human gut metagenome

characteristic: organism

text: no

text: True

text: NYU

text: NYU

text: False

text: True

characteristic: public

text: completed

text: Feces

text: sequenced (16S)

text: human gut metagenome

text: male

text: PuertoRico

text: UPR

text: Feces

text: Vieques


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: age

text: days

characteristic: age unit

characteristic: altitude

characteristic: anonymized name

text: False

characteristic: antibiotics after birth

text: True

characteristic: antibiotics at birth

text: True

text: female

text: UBERON:feces

text: UBERON:feces

text: UBERON:feces

text: Feces

text: 11/14/12 0:00

text: human

text: human gut metagenome

text: GAZ:United States of America

text: I

text: feces swab

text: FS

text: FS

text: Formulasolids

text: True

text: ENVO:urbanbiome

text: ENVO:human-associated habitat

text: ENVO:feces

characteristic: env matter

text: MestizoHispano

characteristic: ethnicgroup

text: True

characteristic: extracted DNA avail now

characteristic: family number

text: NEG

characteristic: gbs

text: True

text: True

characteristic: height m

text: RCM

characteristic: hospital

text: human

characteristic: host common name

characteristic: host subject id

characteristic: host taxid

characteristic: latitude

characteristic: longitude

text: B

characteristic: motherorbaby m b

text: human gut metagenome

text: no

text: True

characteristic: physical samp avail now

text: NYU

text: NYU

text: False

characteristic: planned sampling day 0 1 3 7 14 30 60 90 365

characteristic: preservation method n2 frozen 70frozenn2rna laterfreshphenol c

text: True

text: completed

text: Feces

text: sequenced (16S)

text: human gut metagenome

text: female

text: PuertoRico

text: UPR

text: Feces

text: Dorado


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: age

text: days

characteristic: age unit

characteristic: altitude

characteristic: anonymized name

text: False

characteristic: antibiotics after birth

text: True

characteristic: antibiotics at birth

text: True

text: female

characteristic: babygender m f

text: UBERON:feces

characteristic: body habitat

text: UBERON:feces

characteristic: body product

text: UBERON:feces

characteristic: body site

text: Feces

text: 11/23/12 0:00

text: human

characteristic: common name

text: human gut metagenome

text: GAZ:United States of America

characteristic: country

text: I

characteristic: delivery vvaginal ccs icsinoc

characteristic: depth

text: feces swab

characteristic: description

text: FS

characteristic: diet

text: FS

text: Formulasolids

text: True

characteristic: elevation

characteristic: env

text: ENVO:urbanbiome

characteristic: env biome

text: ENVO:human-associated habitat

characteristic: env feature

text: ENVO:feces

text: MestizoHispano

text: True

text: NEG

text: True

text: True

text: RCM

text: human

text: B

text: human gut metagenome

characteristic: organism

text: no

text: True

text: NYU

text: NYU

text: False

text: True

text: completed

text: Feces

text: sequenced (16S)

text: human gut metagenome

text: female

text: PuertoRico

text: UPR

text: Feces

text: Dorado


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: age

text: days

characteristic: age unit

characteristic: altitude

characteristic: anonymized name

text: False

characteristic: antibiotics after birth

text: True

text: True

text: female

text: UBERON:feces

text: UBERON:feces

text: UBERON:feces

text: Feces

text: 12/7/12 0:00

text: 2daysagowasintroducedtodesserts_babyfoodsandjuices

characteristic: comment

text: human

text: human gut metagenome

text: GAZ:United States of America

text: I

text: feces swab

text: FS

text: FS

text: Formulasolids

text: True

text: ENVO:urbanbiome

text: ENVO:human-associated habitat

text: ENVO:feces

characteristic: env matter

text: MestizoHispano

characteristic: ethnicgroup

text: True

characteristic: extracted DNA avail now

characteristic: family number

text: NEG

characteristic: gbs

text: True

text: True

characteristic: height m

text: RCM

characteristic: hospital

text: human

characteristic: host common name

characteristic: host subject id

characteristic: host taxid

characteristic: latitude

characteristic: longitude

text: B

characteristic: motherorbaby m b

text: human gut metagenome

text: no

text: True

characteristic: physical samp avail now

text: NYU

text: NYU

text: False

characteristic: planned sampling day 0 1 3 7 14 30 60 90 365

characteristic: preservation method n2 frozen 70frozenn2rna laterfreshphenol c

text: True

text: completed

text: Feces

text: sequenced (16S)

text: human gut metagenome

text: female

text: PuertoRico

text: UPR

text: Feces

text: Dorado


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: age

text: days

characteristic: age unit

characteristic: altitude

characteristic: anonymized name

text: False

characteristic: antibiotics after birth

text: False

characteristic: antibiotics at birth

text: True

text: male

characteristic: babygender m f

text: UBERON:feces

characteristic: body habitat

text: UBERON:feces

characteristic: body product

text: UBERON:feces

characteristic: body site

text: Feces

text: 5/3/13 0:00

text: human

characteristic: common name

text: human gut metagenome

text: GAZ:United States of America

characteristic: country

text: V

characteristic: delivery vvaginal ccs icsinoc

characteristic: depth

text: feces swab

characteristic: description

text: B

characteristic: diet

text: B

text: exclusiSBreast

text: True

characteristic: elevation

characteristic: env

text: ENVO:urbanbiome

characteristic: env biome

text: ENVO:human-associated habitat

characteristic: env feature

text: ENVO:feces

text: MestizoHispano

text: True

text: NEG

text: True

text: True

text: human

text: B

text: human gut metagenome

characteristic: organism

text: no

text: True

text: NYU

text: NYU

text: False

text: True

characteristic: public

text: completed

text: Feces

characteristic: sample type

text: sequenced (16S)

text: human gut metagenome

text: male

text: PuertoRico

text: UPR

text: Feces

text: SanJuan


text: male

characteristic: ArrayExpress-Sex

text: Mus musculus

characteristic: ArrayExpress-Species

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: Mus musculus


text: University of Washington

text: public

tag: Namespace:University of Washington

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: embryonic stem cell

characteristic: cell type

text: human

characteristic: common name

text: Protocols: DNA was extracted and purified from each cell type using Qiagen kit according to the manufactor's instrcutions. Reduced Representation Bisulfite Sequencing (RRBS) was performed on 500 ng of genomic DNA per each iPSC lines, parental cells and two independent batch of H9 hESC as previously described (Gu et al., 2010).

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: embryonic stem cell

characteristic: progenitor cell type

text: Homo sapiens

characteristic: title


characteristic: ENA-CHECKLIST

text: University of Washington

text: public

text: ArrayExpress

text: peripheral blood mononuclear cell

text: human

characteristic: individual

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: peripheral blood mononuclear cell

text: Homo sapiens


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Washington

text: public

text: ArrayExpress

text: induced pluripotent stem cell

text: human

characteristic: ipsc clone number

text: Homo sapiens

text: Homo sapiens

text: peripheral blood mononuclear cell

text: Homo sapiens


text: University of Washington

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: fibroblast

text: human

text: Homo sapiens

text: Homo sapiens

text: fibroblast

text: Homo sapiens


text: University of Washington

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: induced pluripotent stem cell

text: human

text: Homo sapiens

text: Homo sapiens

text: fibroblast

text: Homo sapiens


text: University of California, Irvine

text: public

tag: Namespace:University of California, Irvine

text: ArrayExpress

text: squinting bush brown

characteristic: common name

text: Protocols: Bicyclus anynana butterflies were reared at 17Â°C and 27Â°C to produce the dry and wet season forms. RNA was extracted using TRIzol from the heads of 12 individual animals ~0-3 hours after eclosing Illumina TruSeq Kit

characteristic: description

text: dry season

characteristic: growth condition

text: Bicyclus anynana

text: Bicyclus anynana

text: head

characteristic: organism part

text: Bicyclus anynana

text: female

characteristic: sex

unit: Celsius

characteristic: temperature


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: University of California, Irvine

text: public

text: ArrayExpress

text: squinting bush brown

text: wet season

text: Bicyclus anynana

characteristic: organism

text: Bicyclus anynana

text: head

text: Bicyclus anynana

text: female

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of California, Irvine

characteristic: INSDC center name

text: public

text: ArrayExpress

text: squinting bush brown

text: dry season

text: Bicyclus anynana

text: Bicyclus anynana

text: head

text: Bicyclus anynana

text: male


text: University of California, Irvine

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: squinting bush brown

text: wet season

text: Bicyclus anynana

text: Bicyclus anynana

text: head

text: Bicyclus anynana

text: male


text: Leibniz Institute on Aging - Fritz Lipmann Institute (FLI)

text: public

characteristic: SRA accession

tag: Namespace:Leibniz Institute on Aging – Fritz Lipmann Institute (FLI)

characteristic: Submitter Id

unit: day

characteristic: age

text: turquoise killifish

characteristic: individual name

text: Nothobranchius furzeri

text: Nothobranchius furzeri

text: male

text: GRZ

characteristic: strain

text: brain

characteristic: tissue

text: Nothobranchius furzeri GRZ GRZ1, 85 days old, brain


text: public

text: turquoise killifish

characteristic: common name

text: Nothobranchius furzeri

text: Nothobranchius furzeri

text: male

characteristic: sex

text: GRZ

text: brain

text: Nothobranchius furzeri GRZ GRZ2, 85 days old, brain


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: IPK-Gatersleben

text: public

text: domesticated barley

text: Sequencing of barley BACs, that constitute the MTP of chromosome 5H

characteristic: description

text: Hordeum vulgare subsp. vulgare

text: Hordeum vulgare subsp. vulgare


characteristic: ENA-LAST-UPDATE

text: EMBL-EBI

text: public

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: Neural stem cell

characteristic: cell type

text: human

text: Protocols: GNS and NS cells were cultured using serum-free basal media supplemented with B27 and N2 culture supplements (Life Technologies). Growth factors EGF and FGF-2 (20 ng/ml) were added. Culture vessels were coated with Laminin (Sigma) for 3 hr at 10 ug/ml prior to use. Alternatively media was directly supplemented with 1 ug/ml Laminin. GNS cells were routinely grown to confluence, dissociated using Accutase (Sigma), and then split 1:3 to 1:7. Medium was replaced every 3-7 days. T75 flasks pre-coated with laminin (10ug/ml) were seeded with four million cells. 24h after seeding cells were washed with PBS and replaced with media containing BMP4 (20ng/ml, Sigma Aldrich) but no EGF of FGF-2. Cells from BMP4-treated flasks were harvested at the time points indicated. Media was replaced every 8 days throughout the time course. Additional BMP4 was added (without media exchange) every 4 days. Total RNA was extracted with the RNeasy Mini Kit (Qiagen), including a genomic DNA removal step. mRNA was isolated with the NEBNext Poly(A) mRNA Magnetic Isolation Module (NEB) and libraries were prepared with NEBNext mRNA Library Prep Master Mix Set for Illumina (NEB) according to the manufacturer's protocol.

text: Normal

characteristic: disease

text: Homo sapiens

characteristic: organism

text: Homo sapiens

characteristic: passage

text: Homo sapiens

characteristic: title


characteristic: External Id

text: EMBL-EBI

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

text: Neural stem cell

text: human

text: Normal

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: bone morphogenic protein

characteristic: stimulus

characteristic: time


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EMBL-EBI

text: public

text: ArrayExpress

text: Neural stem cell

text: human

characteristic: common name

characteristic: description

text: glioblastoma multiforme

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Grade IV

characteristic: tumor grading


text: EMBL-EBI

text: public

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: Neural stem cell

characteristic: cell type

text: human

text: glioblastoma multiforme

characteristic: disease

text: Homo sapiens

characteristic: organism

text: Homo sapiens

characteristic: passage

text: Homo sapiens

text: bone morphogenic protein

text: Grade IV


characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:Department of Plant Biotechnology and Bioinformatics, Ghent University

characteristic: age

text: ArrayExpress

text: thale cress

text: Protocols: Four third leaves were harvested The third true leaf, composed of proliferating and expanding cells at the moment of harvesting were dissected and flash frozen in liquid nitrogen immediately upon harvest. The seeds were sown in 85g +/- 1g of Saniflor compost (Van Isreal N.V., Geraardsbergen, Belgium) with an absolute water content of +/- 70%. The seeds were covered with plastic foil until 5 DAS, when the automated watering was started. When runs with mutants were performed, the pots were randomized to homogenously mix mutant and wild-type plants. All plants were watered daily from 5 days after stratification (DAS) until 11 DAS with a WW regime of 2.2 gwater/gsoil. At 12 DAS, half of the pots (random positions) were maintained at the WW regime, while the other half were not watered until the end of the experiment at 17 DAS. Arabidopsis Col-0 were grown under a long-day regime (light from 6AM until 10PM, intensity 110-120 μmol m-2 s-1) at 21°C. All reported experiments were performed on the WIWAM platform (http://www.wiwam.be). In our setup, four seedlings were grown per pot in order to grow 864 seedlings simultaneously on the platform. All plants were watered daily from 5 days after stratification (DAS) until 11 DAS with a WW regime of 2.2 gwater/gsoil. At 12 DAS, half of the pots (random positions) were maintained at the WW regime, while the other half were not watered until the end of the experiment at 17 DAS. RNA was extracted using Trizol (Invitrogen) according to the manufacturer’s instructions. DNase treatment was performed on-column with the RNase-free DNase kit (Promega). The samples were further purified on column with the RNeasy Mini Kit (Qiagen) according to the manufacturer’s instructions. Samples were eluted in RNase-free water. Library preparation was done with the TruSeq RNA Sample Preparation Kit (Illumina). Quality was checked with the Bioanalyzer 2100 (Agilent), and clusters were generated through amplification using the TruSeq SE Cluster Kit (Illumina).

characteristic: ecotype

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Leaf 3

characteristic: organism part

characteristic: sampling time

text: Arabidopsis thaliana

text: well-watered

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: Department of Plant Biotechnology and Bioinformatics, Ghent University

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: thale cress

characteristic: common name

characteristic: description

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Leaf 3

text: Arabidopsis thaliana

text: well-watered

characteristic: stimulus


characteristic: External Id

characteristic: INSDC center name

text: public

text: ArrayExpress

characteristic: broker name

text: thale cress

text: Arabidopsis thaliana

characteristic: organism

text: Arabidopsis thaliana

text: Leaf 3

text: Arabidopsis thaliana

text: drought


characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: thale cress

text: Protocols: PSB-D cell cultures were grown in continous darkness in MSMO medium. RNeasy Plant Mini Kit (Qiagen) and DNase I treated (Promega) Preparation of strand-specific cDNA libraries: Purification of poly-A containing mRNA molecules; mRNA fragmentation; Random primed cDNA synthesis (strand specific); Adapter ligation and adapter specific PCR amplification.

text: Arabidopsis thaliana

text: Arabidopsis thaliana

characteristic: replicate

text: Arabidopsis thaliana

text: Landsberg

characteristic: strain


characteristic: ENA-CHECKLIST

text: public

text: ArrayExpress

text: thale cress

text: Protocols: Seeds were surface-sterilized and sown in MS-agar medium and stratified at 4Â°C in darkness for 3 days, then germinated for one week under long days (16h light/8h dark) at 21Â°C. RNeasy Plant Mini Kit (Qiagen) and DNase I treated (Promega) preparation of strand-specific cDNA libraries: Purification of poly-A containing mRNA molecules; mRNA fragmentation; Random primed cDNA synthesis (strand specific); Adapter ligation and adapter specific PCR amplification.

text: seedling

characteristic: developmental stage

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Columbia

characteristic: title


E-MTAB-3917:Sample 1

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: Institut Curie, Paris, France

text: public

characteristic: SRA accession

text: E-MTAB-3917:Sample 1

tag: Namespace:Institut Curie, Paris, France

text: ArrayExpress

text: fruit fly

text: Protocols: Tissues were manually dissected and lysed directly for gDNA extraction. QIAamp DNA MicroKit (Qiagen) DNA Nano protocol from Illumina

text: neoplasm

characteristic: disease

characteristic: individual

text: Drosophila melanogaster

text: Drosophila melanogaster

text: intestine

characteristic: organism part

text: Drosophila melanogaster

text: male

characteristic: sex

text: Sample 1


E-MTAB-3917:Sample 2

characteristic: External Id

text: Institut Curie, Paris, France

characteristic: INSDC center name

text: public

text: E-MTAB-3917:Sample 2

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

characteristic: description

text: Drosophila melanogaster

text: Drosophila melanogaster

text: intestine

text: Drosophila melanogaster

text: male

text: Sample 2


E-MTAB-3917:Sample 3

text: Institut Curie, Paris, France

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-3917:Sample 3

text: ArrayExpress

text: fruit fly

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: head

text: Drosophila melanogaster

text: male

text: Sample 3


E-MTAB-3917:Sample 4

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Institut Curie, Paris, France

text: public

text: E-MTAB-3917:Sample 4

text: ArrayExpress

text: fruit fly

text: neoplasm

text: Drosophila melanogaster

text: Drosophila melanogaster

text: intestine

text: Drosophila melanogaster

text: male

text: Sample 4

characteristic: title


E-MTAB-3917:Sample 5

characteristic: ENA-LAST-UPDATE

text: Institut Curie, Paris, France

text: public

characteristic: SRA accession

text: E-MTAB-3917:Sample 5

text: ArrayExpress

text: fruit fly

text: Drosophila melanogaster

text: Drosophila melanogaster

text: intestine

text: Drosophila melanogaster

text: male

text: Sample 5


E-MTAB-3917:Sample 6

text: Institut Curie, Paris, France

text: public

text: E-MTAB-3917:Sample 6

text: ArrayExpress

text: fruit fly

characteristic: individual

text: Drosophila melanogaster

text: Drosophila melanogaster

text: head

characteristic: organism part

text: Drosophila melanogaster

text: male

text: Sample 6


E-MTAB-3917:Sample 7

characteristic: External Id

text: Institut Curie, Paris, France

text: public

text: E-MTAB-3917:Sample 7

text: ArrayExpress

text: fruit fly

text: neoplasm

characteristic: disease

text: Drosophila melanogaster

text: Drosophila melanogaster

text: intestine

text: Drosophila melanogaster

text: male

characteristic: sex

text: Sample 7


E-MTAB-3917:Sample 8

text: Institut Curie, Paris, France

characteristic: INSDC center name

text: public

text: E-MTAB-3917:Sample 8

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: fruit fly

text: Drosophila melanogaster

text: Drosophila melanogaster

text: intestine

text: Drosophila melanogaster

text: male

text: Sample 8


E-MTAB-3917:Sample 9

text: Institut Curie, Paris, France

characteristic: INSDC first public

text: public

text: E-MTAB-3917:Sample 9

text: ArrayExpress

text: fruit fly

characteristic: common name

characteristic: description

text: Drosophila melanogaster

text: Drosophila melanogaster

text: head

text: Drosophila melanogaster

text: male

text: Sample 9


characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:The 1st Affiliated Hospital of Anhui Medical University

text: ArrayExpress

text: somatic cell

characteristic: cell type

text: human

text: Protocols: Cumulus cells were obtained frome two groups of women (DOR group and control group) of comparable age undergoing ovarian hyperstimulation for IVF cycles. A total of 10 women were recruited, and the clinclic characteristics are presented in Table 1. Follicular development was monitored by vaginal ultrasound. All patients were administered human chorionic gonadotropin (10 000 IU Pregnyl, New Jersey; Organon or 0.25 mg Ovitrelle; Serono, Geneva) 34 to 36 hours before transvaginal oocyte collection under ultrasound guidance. Only the cumulusâoocyte complexes with metaphase II (MII) oocytes were included in this study. All patients were of Chinese Han. Cumulus oocyte complexes (COCs) were washed in phosphate-buffered saline and trimmed with a 30-gauge needle. The cumulus oophorus cells were collected and pooled by centrifuging at 15006g for 8 min and immediately frozen in liquid nitrogen until use. All the ten patients were stimulated with the standard long gonadotrophin-releasing hormone agonist (GnRHa, Diphereline; Ipsen Pharma. Biotech, Signes, France) protocol combined with the administration of recombinant FSH (Gonal-f, Merk Serono SA, Geneva, Switzerland). For oocyte retrieve, all patients underwent ovarian puncture (OPU) of follicles larger than 15 mm after 36 h of administration of 10 000 IU human chorionic gonadotrophin (hCG, LiZhu Pharma, ZhuHai, China). Only the cumulus'oocyte complexs with Metaphase II (MII) oocytes were included in this study. Total RNAs were extracted from the human CRCs and COCs using TRIzol reagents (Invitrogen). Library preparation and sequencing was performed at BGI-Shenzhen.

text: diminished ovarian reserve

text: pooled cells from five patients

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens

text: female

text: fresh specimen

characteristic: specimen with known storage state

text: DOR


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: The 1st Affiliated Hospital of Anhui Medical University

text: public

characteristic: SRA accession

text: ArrayExpress

text: somatic cell

text: human

text: normal ovarian reserve

text: pooled cells from five patients

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: female

text: fresh specimen

text: NOR

characteristic: title


characteristic: External Id

text: Wellcome Trust Sanger Institute

text: public

tag: Namespace:Wellcome Trust Sanger Institute

text: standard

characteristic: amplification type

text: ArrayExpress

text: human

text: Protocols: PolyA+ RNAs from a panel of seven human tissues (brain, heart, kidney, liver, lung, spleen and testis) were purchased from Clontech Laboratories, Illumina Human Body Map (HBM) RNASeq data [ArrayExpress E-MTAB-513] was used to calculate RPKMs for all GENCODE v7 lncRNAs. We selected lncRNAs that were expressed in at least one HBM experiment with an RPKM > 5 and that were lacking CAGE/PET support in ENCODE cell line experiments. The spliced RNA sequences for the top 398 lncRNAs, ranked by the mean RPKM across cell lines, were extracted and used as input for primer design. Non-specific regions within the candidate sequences were masked in order to avoid RACE off-target products. These regions were established by aligning candidate sequences against all GENCODE v7 transcript sequences using the BLAST program. Regions having >80% similarity to any other GENCODE v7 transcript from a distinct locus were masked. Only stranded overlap was considered. We then generated for each candidate transcript all possible 5' and 3' RACE primers using Primer3 (http://sourceforge.net/projects/primer3) with the following parameters: PRIMER_INTERNAL_OPT_SIZE=25, PRIMER_INTERNAL_MIN_SIZE=23, PRIMER_INTERNAL_MAX_SIZE=27, PRIMER_INTERNAL_OPT_TM=70.0, PRIMER_INTERNAL_MIN_TM=68.0, PRIMER_INTERNAL_MAX_TM=72.0, PRIMER_INTERNAL_MIN_GC=50, PRIMER_INTERNAL_MAX_GC=70, PRIMER_INTERNAL_OPT_GC_PERCENT=60. Nested and non-nested 5' and 3' RACE products were obtained by using the Clontech SMART RACE cDNA Amplification kit and the Advantage 2 Proofreading Polymerase PCR kit (Clontech Laboratories) according to the manufacturer's instructions. Double-stranded cDNA synthesis, adaptor ligations to the synthesized cDNA and 12.5 μl final volume RACE reactions were performed according to the manufacturers' instructions. Nested RACEs were performed with 0.5 μl of the initial RACEs in a final volume of 12.5 μl. cDNA RACE samples were analyzed on a DNA 7500 Chip (2100 Bioanalyzer-Agilent Technologies) to assess fragment size and sample integrity. For samples with a mean fragment size of 2 Kbp or higher, 1 μg of material was subjected to nebulization and then used to to prepare a rapid ligation (RL) genomic shotgun library using the Rapid Library Preparation Method Manual (GS FLX+ Series - XL+ May 2011) (Roche 454 Life Sciences). For RACE samples with a mean fragment size smaller than 2 Kbp the nebulization step was avoided, starting library preparation directly with 800 ng of material. A modification was introduced in the small fragment removal of this library preparation, to allow only the removal of fragments under 400 bp instead of fragments under 650 bp. Then, the quality of the RL libraries was assessed by running an aliquot of the library in a High Sensitivity Chip (2100 Bioanalyzer-Agilent Technologies). Library quantification was performed generating a RL standard curve and using a 96-well Plate fluorometer, according to the manufacturer's instructions, and using the Rapid Library Quantitation Calculator (www.454.com/my454). Samples were titrated using the emPCR amplification Method Manual Lib-L SV(GS FLX+ Series- XL+. May 2011) (Roche 454 Life Sciences) in order to know the optimal point of copies per bead (cpb) needed to obtain a 10% enriched beads. Then, a large volume emulsion PCR was performed using the emPCR amplification Method Manual Lib-L LV(GS FLX+ Series- XL+. May 2011) (Roche 454 Life Sciences).

text: Homo sapiens

text: Homo sapiens

text: brain

characteristic: organism part

characteristic: race orientation

text: Homo sapiens

text: male

characteristic: sex


text: Wellcome Trust Sanger Institute

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: Submitter Id

text: standard

text: ArrayExpress

characteristic: broker name

text: human

characteristic: common name

text: Homo sapiens

text: Homo sapiens

text: heart

text: Homo sapiens

text: male


text: Wellcome Trust Sanger Institute

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: standard

text: ArrayExpress

text: human

characteristic: description

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: kidney

text: Homo sapiens

text: mixed sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: Wellcome Trust Sanger Institute

text: public

text: standard

text: ArrayExpress

text: human

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: male


characteristic: External Id

text: Wellcome Trust Sanger Institute

text: public

characteristic: SRA accession

text: standard

text: ArrayExpress

text: human

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens

text: mixed sex

characteristic: title


text: Wellcome Trust Sanger Institute

text: public

text: nested

characteristic: amplification type

text: ArrayExpress

text: human

text: Homo sapiens

text: Homo sapiens

text: brain

characteristic: organism part

characteristic: race orientation

text: Homo sapiens

text: male


text: Wellcome Trust Sanger Institute

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: nested

text: ArrayExpress

text: human

text: Homo sapiens

text: Homo sapiens

text: heart

text: Homo sapiens

text: male

characteristic: sex


text: Wellcome Trust Sanger Institute

text: public

characteristic: Submitter Id

text: nested

text: ArrayExpress

characteristic: broker name

text: human

characteristic: common name

text: Homo sapiens

text: Homo sapiens

text: kidney

text: Homo sapiens

text: mixed sex


text: Wellcome Trust Sanger Institute

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: nested

text: ArrayExpress

text: human

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: male


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Wellcome Trust Sanger Institute

text: public

text: nested

text: ArrayExpress

text: human

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

text: Homo sapiens

text: mixed sex


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Wellcome Trust Sanger Institute

text: public

characteristic: SRA accession

text: nested

text: ArrayExpress

text: human

text: Homo sapiens

text: Homo sapiens

text: spleen

text: Homo sapiens

text: mixed sex


text: Wellcome Trust Sanger Institute

text: public

text: nested

characteristic: amplification type

text: ArrayExpress

text: human

text: Homo sapiens

text: Homo sapiens

text: testis

characteristic: organism part

text: Homo sapiens

text: male

characteristic: title


text: Wellcome Trust Sanger Institute

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: standard

text: ArrayExpress

text: human

text: Homo sapiens

text: Homo sapiens

text: spleen

characteristic: race orientation

text: Homo sapiens

text: mixed sex


text: Wellcome Trust Sanger Institute

text: public

characteristic: Submitter Id

text: standard

text: ArrayExpress

characteristic: broker name

text: human

text: Homo sapiens

text: Homo sapiens

text: testis

text: Homo sapiens

text: male

characteristic: sex


text: acinar cell

characteristic: Characteristics [cell type

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:Vanderbilt University and University of Pennsylvania

characteristic: age

text: ArrayExpress

text: house mouse

characteristic: common name

text: Protocols: Mice were treated with doxycycline (Sigma) beginning at 6 to 8 weeks of age. The drug was dissolved in a 5% sucrose solution and provided ad libitum in lieu of the normal water supply. Pancreata were removed, perfused with 2 mg/mL collagenase P (Roche) in HBSS, minced and incubated in 37ďžĄC for 5 minutes. The cells were further dispersed by manual pipetting, washed with FACS staining buffer (R&D Systems), filtered through a 100 _m mesh cell strainer then centrifuged. Cell pellets were resuspended in AccuMax (Sigma) and DNase1 (3U, Ambion) and incubated at 37ďžĄC for 4 minutes. Afterwards, cells were washed with FACS staining buffer, centrifuged and resuspended in FACS buffer containing DNAse1 (1 U/ml, Ambion) and 1mM EDTA. DAPI was used to stain for cell viability at a dilution of 1:1000. Total RNA was isolated using TRIzol LS (Invitrogen) and column purification (Zymo Research), according to manufacturer's instructions. RNA was DNase-treated (Ambion) and integrity was assessed on the Bioanalyzer (Agilent). Total RNA was amplified using the Ovation RNA-seq system (Nugen, 7100-08). The library was constructed using the Illumina TruSeq DNA sample prep kits A&B, FC-121-1001 and FC-121-1002 with the standard Illumina methods (Bentley 2008). Median library insert length=155; adapter length=100; amount amplified=10 ng.

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: STOCK Ptf1atm1.1Mgn/Mmmh mouse strain

characteristic: strain


text: acinar cell

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Vanderbilt University and University of Pennsylvania

text: public

text: ArrayExpress

text: house mouse

characteristic: description

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: STOCK Ptf1atm1.1Mgn/Mmmh mouse strain


text: beta cell

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: ArrayExpress

text: house mouse

text: Protocols: Pancreata were removed, perfused with 2 mg/mL collagenase P (Roche) in HBSS, minced and incubated in 37ďžĄC for 5 minutes. The cells were further dispersed by manual pipetting, washed with FACS staining buffer (R&D Systems), filtered through a 100 _m mesh cell strainer then centrifuged. Cell pellets were resuspended in AccuMax (Sigma) and DNase1 (3U, Ambion) and incubated at 37ďžĄC for 4 minutes. Afterwards, cells were washed with FACS staining buffer, centrifuged and resuspended in FACS buffer containing DNAse1 (1 U/ml, Ambion) and 1mM EDTA. DAPI was used to stain for cell viability at a dilution of 1:1000. Total RNA was isolated using TRIzol LS (Invitrogen) and column purification (Zymo Research), according to manufacturer's instructions. RNA was DNase-treated (Ambion) and integrity was assessed on the Bioanalyzer (Agilent). Total RNA was amplified using the Ovation RNA-seq system (Nugen, 7100-08). The library was constructed using the Illumina TruSeq DNA sample prep kits A&B, FC-121-1001 and FC-121-1002 with the standard Illumina methods (Bentley 2008). Median library insert length=155; adapter length=100; amount amplified=10 ng.

text: Mus musculus

text: Mus musculus

text: Mus musculus

characteristic: title


E-MTAB-3921:1d Dox 3TF-1

text: acinar cell

text: public

text: E-MTAB-3921:1d Dox 3TF-1

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: house mouse

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Gt (ROSA)26tm5(3TF.mCherry)Mgn

text: 1d Dox 3TF-1


E-MTAB-3921:1d Dox 3TF-2

text: acinar cell

characteristic: Characteristics [cell type

characteristic: INSDC last update

text: public

text: E-MTAB-3921:1d Dox 3TF-2

text: ArrayExpress

text: house mouse

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Gt (ROSA)26tm5(3TF.mCherry)Mgn

text: 1d Dox 3TF-2


E-MTAB-3921:1d Dox 3TF-3

text: acinar cell

text: public

characteristic: INSDC status

text: E-MTAB-3921:1d Dox 3TF-3

characteristic: age

text: ArrayExpress

text: house mouse

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Gt (ROSA)26tm5(3TF.mCherry)Mgn

text: 1d Dox 3TF-3


E-MTAB-3921:7d Dox 3TF-1

text: acinar cell

text: public

text: E-MTAB-3921:7d Dox 3TF-1

text: ArrayExpress

text: house mouse

characteristic: common name

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Gt (ROSA)26tm5(3TF.mCherry)Mgn

characteristic: strain

text: 7d Dox 3TF-1


E-MTAB-3921:7d Dox 3TF-2

text: acinar cell

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-3921:7d Dox 3TF-2

text: ArrayExpress

text: house mouse

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Gt (ROSA)26tm5(3TF.mCherry)Mgn

text: 7d Dox 3TF-2


E-MTAB-3921:7d Dox 3TF-3

text: acinar cell

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: E-MTAB-3921:7d Dox 3TF-3

text: ArrayExpress

text: house mouse

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Gt (ROSA)26tm5(3TF.mCherry)Mgn

text: 7d Dox 3TF-3


text: Yeast

characteristic: ArrayExpress-Phenotype

text: Saccharomyces cerevisiae

characteristic: ArrayExpress-Species

text: SC

text: public

text: baker's yeast

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae


text: cultured neurons

characteristic: ArrayExpress-CellType

text: Homo Sapiens

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: human

text: Homo sapiens

text: Total cDNA from human neurons

characteristic: sample description

text: Homo sapiens


text: female

characteristic: ArrayExpress-Sex

text: Mus musculus

text: SC

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: Lin_neg_bone marrow after transduction and replating

text: Mus musculus


text: spleen

characteristic: ArrayExpress-OrganismPart

text: Mouse

text: mus musculus

text: SC

text: public

characteristic: INSDC status

text: house mouse

characteristic: common name

text: Mus musculus

text: Mouse spleen

text: Mus musculus


status: KILLED

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: EBI

text: killed

text: fruit fly

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Test Sample

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EBI

text: killed

text: fruit fly

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Test Sample


text: female

text: Mus musculus

characteristic: ArrayExpress-Species

text: SC

text: public

text: house mouse

text: Mus musculus

characteristic: organism

text: Amplicon-Bisulphite library

text: Mus musculus


text: female

text: Mus musculus

text: SC

characteristic: INSDC center name

text: public

text: house mouse

text: Mus musculus

text: Mus musculus


characteristic: 1p/19q codeletion

text: LIGUE

characteristic: INSDC first public

text: public

unit: year

characteristic: age

text: ArrayExpress

characteristic: broker name

text: wild type genotype

text: human

text: Protocols: All samples were stored at -80C miRNA-Seq libraries are performed from at least 1ug of extracted total RNA with a RIN greater than 7. Before starting, total RNAs are purified with Trizol-GT & miRNeasy kit wich allows the selection of the small RNA fraction less than 100b. P-MTAB-40578

characteristic: description

text: Tumor

characteristic: disease staging

text: Low-grade oligodendroglioma

characteristic: histology

characteristic: histology grade

text: mutation

text: mutation

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: brain

characteristic: organism part

unit: month

text: Homo sapiens

text: yes

text: female

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: LIGUE

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: human

characteristic: common name

text: Tumor

text: Low-grade oligodendroglioma

text: wild type genotype

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: brain

text: Homo sapiens

text: yes

text: male


characteristic: 1p/19q codeletion

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: LIGUE

characteristic: INSDC center name

text: public

text: ArrayExpress

text: human

text: Tumor

text: Diffuse astrocytoma

text: mutation

text: wild type genotype

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: brain

text: Homo sapiens

text: yes

text: male

characteristic: title


text: LIGUE

characteristic: INSDC first public

text: public

characteristic: age

text: ArrayExpress

characteristic: broker name

text: human

characteristic: description

text: Tumor

characteristic: disease staging

text: Low-grade oligodendroglioma

characteristic: histology

text: wild type genotype

text: mutation

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: brain

text: Homo sapiens

text: yes

text: male


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: LIGUE

characteristic: INSDC last update

text: public

text: ArrayExpress

text: human

text: Tumor

text: Low-grade oligoastrocytoma

characteristic: histology grade

text: wild type genotype

text: mutation

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: brain

characteristic: organism part

text: Homo sapiens

text: yes

text: male

characteristic: sex


characteristic: 1p/19q codeletion

characteristic: ENA-LAST-UPDATE

text: LIGUE

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: human

characteristic: common name

text: Tumor

text: Low-grade oligoastrocytoma

text: mutation

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: brain

text: Homo sapiens

text: no

text: female


characteristic: External Id

text: LIGUE

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: age

text: ArrayExpress

text: wild type genotype

text: human

text: Tumor

text: Low-grade oligodendroglioma

text: wild type genotype

text: mutation

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: brain

text: Homo sapiens

text: yes

text: male

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: LIGUE

text: public

text: ArrayExpress

characteristic: broker name

text: wild type genotype

text: human

characteristic: description

text: Tumor

characteristic: disease staging

text: Low-grade oligoastrocytoma

characteristic: histology

text: mutation

text: mutation

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: brain

text: Homo sapiens

text: yes

text: female


characteristic: ENA-LAST-UPDATE

text: LIGUE

characteristic: INSDC last update

text: public

text: ArrayExpress

text: human

text: Tumor

text: Normal

text: Homo sapiens

text: Homo sapiens

text: brain

characteristic: organism part

text: Homo sapiens

text: yes


characteristic: 1p/19q codeletion

text: LIGUE

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: human

text: Tumor

text: Low-grade oligoastrocytoma

characteristic: histology grade

text: wild type genotype

text: mutation

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: brain

text: Homo sapiens

text: male

characteristic: sex


characteristic: External Id

text: LIGUE

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: age

text: ArrayExpress

text: human

characteristic: common name

text: Tumor

text: Diffuse astrocytoma

text: mutation

text: wild type genotype

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: brain

text: Homo sapiens

text: no

text: female


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: LIGUE

text: public

text: ArrayExpress

characteristic: broker name

text: wild type genotype

text: human

characteristic: description

text: Tumor

characteristic: disease staging

text: Low-grade oligoastrocytoma

text: mutation

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: brain

text: Homo sapiens

text: male

characteristic: title


characteristic: 1p/19q codeletion

characteristic: ENA-LAST-UPDATE

text: LIGUE

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: wild type genotype

text: human

text: Tumor

text: Low-grade oligodendroglioma

characteristic: histology

text: mutation

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: brain

characteristic: organism part

text: Homo sapiens

text: yes

text: female


characteristic: External Id

text: LIGUE

characteristic: INSDC center name

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: human

text: Tumor

text: Low-grade oligoastrocytoma

characteristic: histology grade

text: mutation

text: wild type genotype

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: brain

text: Homo sapiens

text: female

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: LIGUE

characteristic: INSDC first public

text: public

characteristic: age

text: ArrayExpress

text: human

characteristic: common name

text: Tumor

text: Low-grade oligoastrocytoma

text: wild type genotype

text: mutation

text: wild type genotype

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: brain

text: Homo sapiens

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