text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_C3-sc-2013-11-13T13:06:32Z-1757476

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


status: PUBLIC

text: Danio rerio

tag: attribute

characteristic: ArrayExpress-Species

text: TL/AB

characteristic: ArrayExpress-StrainOrLine

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

text: SL6_12_D3-sc-2013-11-13T13:06:33Z-1757477

characteristic: Submitter Id

text: zebrafish

characteristic: common name

text: Danio rerio

characteristic: organism

text: Exome

characteristic: sample description

text: Danio rerio

text: TL/AB

characteristic: strain


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_A4-sc-2013-11-13T13:06:35Z-1757482

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_B4-sc-2013-11-13T13:06:36Z-1757483

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_C4-sc-2013-11-13T13:06:37Z-1757484

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_D4-sc-2013-11-13T13:06:38Z-1757485

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_A5-sc-2013-11-13T13:06:39Z-1757490

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_B5-sc-2013-11-13T13:06:40Z-1757491

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_C5-sc-2013-11-13T13:06:41Z-1757492

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_D5-sc-2013-11-13T13:06:42Z-1757493

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_A6-sc-2013-11-13T13:06:43Z-1757498

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_B6-sc-2013-11-13T13:06:44Z-1757499

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_C6-sc-2013-11-13T13:06:45Z-1757500

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_D6-sc-2013-11-13T13:06:46Z-1757501

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_A7-sc-2013-11-13T13:06:47Z-1757506

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_B7-sc-2013-11-13T13:06:49Z-1757507

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_C7-sc-2013-11-13T13:06:50Z-1757508

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_D7-sc-2013-11-13T13:06:51Z-1757509

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_A8-sc-2013-11-13T13:06:52Z-1757514

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_B8-sc-2013-11-13T13:06:53Z-1757515

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_C8-sc-2013-11-13T13:06:54Z-1757516

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_D8-sc-2013-11-13T13:06:55Z-1757517

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_A9-sc-2013-11-13T13:06:56Z-1757522

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_B9-sc-2013-11-13T13:06:57Z-1757523

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_C9-sc-2013-11-13T13:06:58Z-1757524

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_D9-sc-2013-11-13T13:07:02Z-1757525

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_A10-sc-2013-11-13T13:07:03Z-1757530

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_B10-sc-2013-11-13T13:07:04Z-1757531

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_C10-sc-2013-11-13T13:07:05Z-1757532

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_D10-sc-2013-11-13T13:07:06Z-1757533

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_A11-sc-2013-11-13T13:07:07Z-1757538

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_B11-sc-2013-11-13T13:07:08Z-1757539

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_C11-sc-2013-11-13T13:07:09Z-1757540

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_D11-sc-2013-11-13T13:07:10Z-1757541

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_A12-sc-2013-11-13T13:07:11Z-1757546

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_B12-sc-2013-11-13T13:07:12Z-1757547

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_C12-sc-2013-11-13T13:07:13Z-1757548

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Danio rerio

text: TL/AB

text: SC

text: public

text: SL6_12_D12-sc-2013-11-13T13:07:14Z-1757549

text: zebrafish

text: Danio rerio

text: Exome

text: Danio rerio

text: TL/AB


text: Haemonchus contortus

text: SC

text: public

text: Haemonchus_contortus-sc-2013-11-14T10:32:45Z-1764409

text: barber pole worm

text: Haemonchus contortus

text: ISE pool of 20 L3 (adp 1), WRS pool of 20 L3 (adp2), CAVR pool of 20 L3 (adp3), BXW pool of 20 L3 (adp 4), BXC pool of 20 L3 (adp 5), F86 pool of 24 L1 (adp 6), F101 pool of 24 L1 (adp 7), ISE individual L3 (adp 8), ISE individual L3 (adp 23), ISE individual L3 (adp 26), CAVR individual L3 (adp 31), CAVR individual L3 (adp 37), CAVR individual L3 (adp 41).

text: Haemonchus contortus


text: Haemonchus contortus

text: SC

text: public

text: Haemonchus_contortus-sc-2013-11-14T10:32:59Z-1764408

text: barber pole worm

text: Haemonchus contortus

text: Haemonchus contortus


characteristic: ArrayExpress-CellType

text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Pilot Study 1 Unstimulated Wild type Embryonic Stem Cell Derived Macrophages

text: Mus musculus


text: Mus musculus

characteristic: ArrayExpress-Species

text: SC

text: public

text: house mouse

text: Mus musculus

text: Pilot Study 1 Wild type Embryonic Stem Cell Derived Macrophages stimulated with Influenza

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Pilot Study 1 Wild type Embryonic Stem Cell Derived Macrophages stimulated with Plasmodium berghei infected red blood cells

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Pilot Study 1 Wild type Embryonic Stem Cell Derived Macrophages stimulated with Salmonella

text: Mus musculus


text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Pilot Study 1 Wild type Embryonic Stem Cell Derived Macrophages stimulated with R848 (Toll-like receptor agonist)

text: Homo sapiens


text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Pilot Study 1 Wild type Embryonic Stem Cell Derived Macrophages stimulated with LPS (Toll-like receptor agonist)

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Pilot Study 1 Wild type Embryonic Stem Cell Derived Macrophages stimulated with IFNg (cytokine)

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Pilot Study 1 Wild type Embryonic Stem Cell Derived Macrophages stimulated with Poly I:C (Toll-like receptor agonist)

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Pilot Study 1 Wild type Embryonic Stem Cell Derived Macrophages stimulated with CpG (Toll-like receptor agonist)

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Pilot Study 1 Wild type Embryonic Stem Cell Derived Macrophages stimulated with Flagelin (Toll-like receptor agonist)

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Pilot Study 1 Wild type Embryonic Stem Cell Derived Macrophages stimulated with Tri-Dap (Toll-like receptor agonist) + LPS 1ng/ml

text: Mus musculus


E-MTAB-2072:hESCs HERVH knockdown

text: GIS

text: public

text: E-MTAB-2072:hESCs HERVH knockdown

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: embryonic stem cell

characteristic: cell type

text: human

text: Protocols: The hESC line H1 (WA-01, passage 30) was cultured feeder-free in conditioned medium on Matrigel. The hESCs were passaged for expansion with 1 mg/ml collagenase IV (Gibco) every 5-7 days. For transfection, the hESCs were passaged with 0.25% trypsin (Invitrogen) for dissociation and transfected with 2 ug shRNA and 6 ul Mirus LT1 transfection reagent the following day. Trizol (Invitrogen) was used for extraction of total RNA from hESCs treated with control shRNA or HERVH shRNA for 5 days. RNA extracted from multiple samples was pooled. 4 ug total RNA was poly (A) enriched by incubating with oligo(dT) coated sepherose beads for two rounds (Ambion). The resultant enriched mRNA was fragmented, size selected and reverse transcribed according to the TruSeq RNA and DNA Sample Preparation Kits v2 (Illumina).

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: male

characteristic: sex

text: hESCs HERVH knockdown

characteristic: title

type: has member


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: GIS

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: embryonic stem cell

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: male

text: hESCs


characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:University of California, Irvine, Department of Ecology and Evolutionary Biology

characteristic: Submitter Id

text: ArrayExpress

text: tobacco hornworm

characteristic: common name

text: Protocols: Larvae raised on wheat germ-based diet at 26C, light 16 h / 25, 8h cycle. Pupae reared at 14C light 16h / 14C dark 8h for 3 weeks and then 27C light 12h / 25C dark 12h for 3 weeks. Sampled males and females. Extracted using the Qiagen Rneasy Mini Kit, following manufacturers guidelines Libraries were constructed using a strand-specific method from Zhong et al. (2011)

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Manduca sexta

characteristic: organism

text: Manduca sexta

text: head

characteristic: organism part

text: Manduca sexta

text: male

text: fresh specimen

characteristic: specimen with known storage state


text: University of California, Irvine, Department of Ecology and Evolutionary Biology

text: public

text: ArrayExpress

characteristic: broker name

text: tobacco hornworm

characteristic: description

text: adult

text: wild type genotype

text: Manduca sexta

text: Manduca sexta

text: head

text: Manduca sexta

text: female

characteristic: sex

text: fresh specimen

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: ArrayExpress

text: tobacco hornworm

text: adult

text: wild type genotype

text: Manduca sexta

text: Manduca sexta

text: head

text: Manduca sexta

text: male

text: fresh specimen


text: Mesonephric cell line

characteristic: ArrayExpress-OrganismPart

text: Mus Musculus

characteristic: ArrayExpress-Species

characteristic: ArrayExpress-StrainOrLine

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: house mouse

text: Mus musculus

text: RNA from cell line M15

characteristic: sample description

text: Mus musculus

characteristic: strain


text: public

characteristic: SRA accession

tag: Namespace:University of Veterinary Medicine Vienna

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: FeT-J

characteristic: cell line

text: T cell

characteristic: cell type

text: domestic cat

characteristic: common name

text: Protocols: T-cells (FeT-J) were cultivated as recommended by ATCC (CRL-11967) Cells were infected with feline immunodeficiency virus at a multiplicity of infection of 10 and harvested at 24 hpi. Controls were mock-infected and treated in the same way. Direct-zol RNA MiniPrep Kit (Zymo Research, Irvine, USA) following the manufacturers recommendations. TruSeq RNA Sample Prep Kit v2 (Illumina, San Diego, USA)

text: Felis catus

characteristic: organism

text: Felis catus

text: Felis catus

text: fresh specimen

characteristic: specimen with known storage state


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Veterinary Medicine Vienna

text: public

text: ArrayExpress

text: FeT-J

text: T cell

text: domestic cat

characteristic: description

text: Felis catus

text: Felis catus

text: Felis catus

text: fresh specimen

characteristic: title


text: cultured human neurons

characteristic: ArrayExpress-CellType

text: MeCP2 shRNA 2

characteristic: ArrayExpress-Genotype

text: Brain

characteristic: ArrayExpress-OrganismPart

text: female

characteristic: ArrayExpress-Sex

text: Homo sapiens

characteristic: ArrayExpress-Species

text: day 9

characteristic: ArrayExpress-TimePoint

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: human

text: Homo sapiens

text: Total cDNA from human neurons

text: Homo sapiens


text: cultured human neurons

text: scrambled shRNA

text: Brain

text: female

text: Homo sapiens

text: day 9

text: SC

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: human

characteristic: common name

text: Homo sapiens

characteristic: organism

text: Total cDNA from human neurons

characteristic: sample description

text: Homo sapiens


text: cultured human neurons

text: MeCP2 overexpression

text: Brain

text: female

text: Homo sapiens

text: day 9

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

text: public

text: human

text: Homo sapiens

text: Total cDNA from human neurons

text: Homo sapiens


text: cultured human neurons

characteristic: ArrayExpress-CellType

text: control overexpression

characteristic: ArrayExpress-Genotype

text: Brain

characteristic: ArrayExpress-OrganismPart

text: female

text: Homo sapiens

text: day 9

text: SC

text: public

text: human

text: Homo sapiens

text: Total cDNA from human neurons

text: Homo sapiens


text: cultured human neurons

text: MeCP2 shRNA 3

text: Brain

text: female

characteristic: ArrayExpress-Sex

text: Homo sapiens

characteristic: ArrayExpress-Species

text: day 9

characteristic: ArrayExpress-TimePoint

text: SC

text: public

text: human

text: Homo sapiens

text: Total cDNA from human neurons

text: Homo sapiens


text: cultured human neurons

text: control non-infected

text: Brain

text: female

text: Homo sapiens

text: day 9

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: human

text: Homo sapiens

text: Total cDNA from human neurons

text: Homo sapiens


text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:Laboratory of Molecular Medicine and Genomics, Department of Medicine and Surgery, University of Salerno, Baronissi, Italy.

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: human

text: Protocols: Human breast cancer ZR75.1 cells were used to produce stable clones expressing ER-beta tagged with 3xFlag-tag respectively at the N-term (ZR-flag-ER-beta). All were grown in Dulbeccos modified Eagles medium (DMEM), supplemented with 10% fetal bovine serum (FBS) (both from Invitrogen SpA, San Giuliano, Milanese, Italy), 100 U/ml penicillin, 100 mg/ml streptomycin, 250 ng/ml Amfotericin-B, 50 ug/ml G418 (normal growing condition). For G0-G1 synchronization cells were plated at 40% confluence in steroid-free medium (phenol red-free DMEM medium, with 5% fetal bovine serum pre-treated with dextran-coated charcoal and antibiotics) and maintained for 5 days without any additional scompound Cells were harvested in absence of estrogen stimuli Total RNA was extracted using TRIZOL reagent (Invitrogen) according to the manufacturer instructions. 1ug of total RNA was used in a library preparation according to the Illumina TruSeq small RNA sample preparation protocol rev. E (Illumina, USA).

characteristic: description

text: breast cancer

characteristic: disease

text: wild type

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Laboratory of Molecular Medicine and Genomics, Department of Medicine and Surgery, University of Salerno, Baronissi, Italy.

text: public

text: ArrayExpress

text: human

characteristic: common name

text: breast cancer

text: ER-beta expression

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: human

text: Protocols: Human breast cancer MCF-7 wt were used to produce stable clones expressing ER-beta tagged with TAP-tag at the N-term(Nt-ER-beta ) as previously described. All were grown in Dulbeccos modified Eagles medium (DMEM), supplemented with 10% fetal bovine serum (FBS) (both from Invitrogen SpA, San Giuliano, Milanese, Italy), 100 U/ml penicillin, 100 mg/ml streptomycin, 250 ng/ml Amfotericin-B, 50 ug/ml G418 (normal growing condition). For G0-G1 synchronization cells were plated at 40% confluence in steroid-free medium (phenol red-free DMEM medium, with 5% fetal bovine serum pre-treated with dextran-coated charcoal and antibiotics) and maintained for 5 days without any additional compound. Cells were harvested in absence of estrogen stimuli Total RNA was extracted using TRIZOL reagent (Invitrogen) according to the manufacturer instructions. 1ug of total RNA was used in a library preparation according to the Illumina TruSeq small RNA sample preparation protocol rev. E (Illumina, USA).

text: breast adenocarcinoma

text: ER-beta expression

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


text: La Sapienza University of Rome

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:La Sapienza University of Rome

text: ArrayExpress

text: human

text: Protocols: HeLaS3 cells were grown in DMEM medium supplemented with 10% (v/v) fetal bovine serum, 2mM L-Glutamine and Penicillin-Streptomycin. Nuclei of 350 x 10E+6 HeLaS3 cells were lysed in IP-buffer supplemented with RNasin (Promega). Nuclear lysates were clarified and pre-cleared in the presence of Protein G-sepharose beads for 2 hr 4 degrees C under constant rotation and then filtered through a 0.45 um filter. Lysate aliquots were taken out as Input for RNA and protein isolation. Antibody anti-AGO2 (11A9, Ascenion) and isotype-matched IgG (mock_IP) were coupled to Protein G-sepharose beads for 2 h at 4 degrees C in IP-buffer containing 1 mg/ml heparin (Sigma). The pre-cleared nuclear lysate was incubated with antibody-coupled beads overnight at 4 degrees C under constant rotation. IP samples were washed once with IP-buffer for 5 min at 4 degrees C, and three times with IP-wash buffer (50 mM Tris-HCl, pH 7.5; 300 mM NaCl; 5 mM MgCl2; and 0.05% Nonidet P-40) at 4 degrees C. An aliquot was taken out for western blot in order to check immunoprecipitation efficiency. For RNA isolation, Input and IP samples were DNAseI- and Proteinase K-treated. Total RNA and co-precipitated RNA was extracted by phenol:chloroform:isopropyl alcohol and precipitated in ethanol. Small RNA libraries were constructed using the TruSeq SmallRNA Sample preparation kit (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: frozen specimen

characteristic: specimen with known storage state


text: Larval - day 5 ZFS:0000037

characteristic: ArrayExpress-DevelopmentalStage

text: Whole Embryo

characteristic: ArrayExpress-OrganismPart

text: Danio rerio

characteristic: ArrayExpress-Species

text: mixed

characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically abnormal embryos from pipejam clutch 1. A 5 base indexing sequence (GAGGC) is bases 6 to 10 of read 1 followed by polyT.

characteristic: sample description

text: Danio rerio

text: mixed

characteristic: strain


text: Larval - day 5 ZFS:0000037

text: Whole Embryo

text: Danio rerio

text: mixed

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically normal embryos from pipejam clutch 1. A 5 base indexing sequence (AGAAG) is bases 6 to 10 of read 1 followed by polyT.

text: Danio rerio

text: mixed


text: Larval - day 5 ZFS:0000037

text: Whole Embryo

text: Danio rerio

text: mixed

characteristic: External Id

text: SC

text: public

text: zebrafish

characteristic: common name

text: Danio rerio

characteristic: organism

text: 3' end enriched mRNA from morphologically abnormal embryos from pipejam clutch 2. A 5 base indexing sequence (CAGAG) is bases 6 to 10 of read 1 followed by polyT.

text: Danio rerio

text: mixed


text: Larval - day 5 ZFS:0000037

text: Whole Embryo

text: Danio rerio

text: mixed

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically normal embryos from pipejam clutch 2. A 5 base indexing sequence (GCACG) is bases 6 to 10 of read 1 followed by polyT.

text: Danio rerio

text: mixed


text: Larval - day 5 ZFS:0000037

characteristic: ArrayExpress-DevelopmentalStage

text: Whole Embryo

text: Danio rerio

text: mixed

text: SC

text: public

characteristic: INSDC status

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically abnormal embryos from pipejam clutch 3. A 5 base indexing sequence (CGCAA) is bases 6 to 10 of read 1 followed by polyT.

text: Danio rerio

text: mixed


text: Larval - day 5 ZFS:0000037

text: Whole Embryo

characteristic: ArrayExpress-OrganismPart

text: Danio rerio

characteristic: ArrayExpress-Species

text: mixed

text: SC

text: public

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically normal embryos from pipejam clutch 3. A 5 base indexing sequence (CAAGA) is bases 6 to 10 of read 1 followed by polyT.

text: Danio rerio

text: mixed


text: Larval - day 5 ZFS:0000037

text: Whole Embryo

text: Danio rerio

text: mixed

characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

characteristic: SRA accession

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically abnormal embryos from pipejam clutch 4. A 5 base indexing sequence (GCCGA) is bases 6 to 10 of read 1 followed by polyT.

text: Danio rerio

text: mixed


text: Larval - day 5 ZFS:0000037

text: Whole Embryo

text: Danio rerio

text: mixed

text: SC

text: public

characteristic: Submitter Id

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically normal embryos from pipejam clutch 4. A 5 base indexing sequence (CGGCC) is bases 6 to 10 of read 1 followed by polyT.

characteristic: sample description

text: Danio rerio

text: mixed


text: Larval - day 5 ZFS:0000037

text: Whole Embryo

text: Danio rerio

text: mixed

characteristic: ENA-CHECKLIST

text: SC

text: public

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically abnormal embryos from pipejam clutch 5. A 5 base indexing sequence (AACCG) is bases 6 to 10 of read 1 followed by polyT.

text: Danio rerio

text: mixed

characteristic: strain


text: Larval - day 5 ZFS:0000037

text: Whole Embryo

text: Danio rerio

text: mixed

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: zebrafish

text: Danio rerio

text: 3' end enriched mRNA from morphologically normal embryos from pipejam clutch 5. A 5 base indexing sequence (ACGGG) is bases 6 to 10 of read 1 followed by polyT.

text: Danio rerio

text: mixed


text: Larval - day 5 ZFS:0000037

text: Whole Embryo

text: Danio rerio

text: mixed

characteristic: External Id

text: SC

text: public

text: zebrafish

characteristic: common name

text: Danio rerio

text: 3' end enriched mRNA from morphologically abnormal embryos from pipejam clutch 6. A 5 base indexing sequence (CCAAC) is bases 6 to 10 of read 1 followed by polyT.

text: Danio rerio

text: mixed


text: Larval - day 5 ZFS:0000037

text: Whole Embryo

text: Danio rerio

text: mixed

text: SC

characteristic: INSDC center name

text: public

text: zebrafish

text: Danio rerio

characteristic: organism

text: 3' end enriched mRNA from morphologically normal embryos from pipejam clutch 6. A 5 base indexing sequence (AGCGC) is bases 6 to 10 of read 1 followed by polyT.

text: Danio rerio

text: mixed


characteristic: ArrayExpress-CellType

text: Homo sapiens

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: human

text: Homo sapiens

text: single cell Whole Genome Amplification Product

text: Homo sapiens


text: Homo sapiens

text: SC

text: public

characteristic: INSDC status

text: human

text: Homo sapiens

text: single cell Whole Transcriptome Amplification Product

text: Homo sapiens


text: HTZ1::mycx9 HSF1::flagx3

characteristic: ArrayExpress-Genotype

text: Saccharomyces cerevisiae

characteristic: ArrayExpress-Species

characteristic: ArrayExpress-TimePoint

text: SC

text: public

text: baker's yeast

text: Saccharomyces cerevisiae

text: Chromatin Immunoprecipitation of HSF1::flag - flag antibody

text: Saccharomyces cerevisiae


text: HTZ1::mycx9 HSF1::flagx3

text: Saccharomyces cerevisiae

characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: baker's yeast

text: Saccharomyces cerevisiae

text: Chromatin Immunoprecipitation of HTZ1::mycx9 - myc antibody

text: Saccharomyces cerevisiae


text: HTZ1::mycx9 HSF1::flagx3

text: Saccharomyces cerevisiae

characteristic: ENA-CHECKLIST

text: SC

text: public

text: baker's yeast

text: Saccharomyces cerevisiae

text: Chromatin Immunoprecipitation of RNA Pol II - RNA Pol II antibody

characteristic: sample description

text: Saccharomyces cerevisiae

characteristic: strain


text: HTZ1::mycx9 HSF1::flagx3

text: Saccharomyces cerevisiae

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

text: public

text: baker's yeast

text: Saccharomyces cerevisiae

text: input wt

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

text: SC

characteristic: INSDC center name

text: public

text: baker's yeast

characteristic: common name

text: Saccharomyces cerevisiae

characteristic: organism

text: input htz1mutant

text: Saccharomyces cerevisiae


text: HTZ1::mycx9 HSF1::flagx3

text: Saccharomyces cerevisiae

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: baker's yeast

text: Saccharomyces cerevisiae

text: Chromatin Immunoprecipitation of H3 - H3 antibody

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

characteristic: ArrayExpress-Genotype

text: Saccharomyces cerevisiae

text: SC

text: public

characteristic: INSDC status

text: htz1_mutant_HSF1_ChIP_30C_0min-sc-1770101

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

characteristic: ArrayExpress-Species

characteristic: ArrayExpress-TimePoint

text: SC

text: public

text: htz1_mutant_HSF1_ChIP_30C_5min-sc-1770102

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

characteristic: SRA accession

text: htz1_mutant_HSF1_ChIP_34C_5min-sc-1770103

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

characteristic: ENA-CHECKLIST

text: SC

text: public

text: htz1_mutant_HSF1_ChIP_39C_5min-sc-1770104

characteristic: Submitter Id

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

text: SC

text: public

text: htz1_mutant_HSF1_ChIP_30C_15min-sc-1770105

text: baker's yeast

text: Saccharomyces cerevisiae

characteristic: sample description

text: Saccharomyces cerevisiae

characteristic: strain


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: htz1_mutant_HSF1_ChIP_34C_15min-sc-1770106

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

characteristic: External Id

text: SC

characteristic: INSDC center name

text: public

text: htz1_mutant_HSF1_ChIP_39C_15min-sc-1770107

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

text: SC

text: public

text: htz1_mutant_HSF1_ChIP_30C_30min-sc-1770109

text: baker's yeast

characteristic: common name

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: htz1_mutant_HSF1_ChIP_34C_30min-sc-1770110

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

characteristic: ArrayExpress-Genotype

text: Saccharomyces cerevisiae

text: SC

text: public

characteristic: INSDC status

text: htz1_mutant_HSF1_ChIP_39C_30min-sc-1770112

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

characteristic: ArrayExpress-Species

characteristic: ArrayExpress-TimePoint

text: SC

text: public

text: htz1_mutant_RNApol_II_ChIP_30C_0min-sc-1770114

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

characteristic: SRA accession

text: htz1_mutant_RNApol_II_ChIP_30C_5min-sc-1770116

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

characteristic: ENA-CHECKLIST

text: SC

text: public

text: htz1_mutant_RNApol_II_ChIP_34C_5min-sc-1770119

characteristic: Submitter Id

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

text: SC

text: public

text: htz1_mutant_RNApol_II_ChIP_39C_5min-sc-1770121

text: baker's yeast

text: Saccharomyces cerevisiae

characteristic: sample description

text: Saccharomyces cerevisiae

characteristic: strain


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: htz1_mutant_RNApol_II_ChIP_30C_15min-sc-1770123

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

characteristic: External Id

text: SC

characteristic: INSDC center name

text: public

text: htz1_mutant_RNApol_II_ChIP_34C_15min-sc-1770125

text: baker's yeast

text: Saccharomyces cerevisiae

text: Chromatin Immunoprecipitation of RNA Pol II - RNA Pol II antibody

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

text: SC

text: public

text: htz1_mutant_RNApol_II_ChIP_39C_15min-sc-1770127

text: baker's yeast

characteristic: common name

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: htz1_mutant_RNApol_II_ChIP_30C_30min-sc-1770128

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

characteristic: ArrayExpress-Genotype

text: Saccharomyces cerevisiae

text: SC

text: public

characteristic: INSDC status

text: htz1_mutant_RNApol_II_ChIP_34C_30min-sc-1770129

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

characteristic: ArrayExpress-Species

characteristic: ArrayExpress-TimePoint

text: SC

text: public

text: htz1_mutant_RNApol_II_ChIP_39C_30min-sc-1770130

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

characteristic: SRA accession

text: baker's yeast

text: Saccharomyces cerevisiae

text: Chromatin Immunoprecipitation of H3 - H3 antibody

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

characteristic: ENA-CHECKLIST

text: SC

text: public

text: htz1_mutant_H3_ChIP_30C_15min-sc-1770135

characteristic: Submitter Id

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

text: SC

text: public

text: htz1_mutant_H3_ChIP_34C_15min-sc-1770136

text: baker's yeast

text: Saccharomyces cerevisiae

characteristic: sample description

text: Saccharomyces cerevisiae

characteristic: strain


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: htz1_mutant_H3_ChIP_39C_15min-sc-1770137

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

characteristic: External Id

text: SC

characteristic: INSDC center name

text: public

text: htz1_mutant_H3_ChIP_30C_30min-sc-1770138

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

text: SC

text: public

text: htz1_mutant_H3_ChIP_34C_30min-sc-1770139

text: baker's yeast

characteristic: common name

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae


text: htz1 HSF1::flagx3

text: Saccharomyces cerevisiae

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: htz1_mutant_H3_ChIP_39C_30min-sc-1770140

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae


text: wt

characteristic: ArrayExpress-Genotype

text: Saccharomyces cerevisiae

text: SC

text: public

characteristic: INSDC status

text: WT_untagged_control_30C_15min-sc-1770141

text: baker's yeast

text: Saccharomyces cerevisiae

text: untagged control myc - myc antibody

text: Saccharomyces cerevisiae


text: wt

text: Saccharomyces cerevisiae

characteristic: ArrayExpress-Species

characteristic: ArrayExpress-TimePoint

text: SC

text: public

text: WT_untagged_control_39C_15min-sc-1770142

text: baker's yeast

text: Saccharomyces cerevisiae

text: untagged control myc - myc antibody

text: Saccharomyces cerevisiae


text: Saccharomyces cerevisiae

characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

characteristic: SRA accession

text: htz1_mutant_untagged_control_30C15min-sc-1770143

text: baker's yeast

text: Saccharomyces cerevisiae

text: untagged control flag - flag antibody

text: Saccharomyces cerevisiae


text: Saccharomyces cerevisiae

characteristic: ENA-CHECKLIST

text: SC

text: public

text: htz1_mutant_untagged_control_34C15min-sc-1770144

characteristic: Submitter Id

text: baker's yeast

text: Saccharomyces cerevisiae

text: untagged control flag - flag antibody

text: Saccharomyces cerevisiae


text: Saccharomyces cerevisiae

text: SC

text: public

text: htz1_mutant_untagged_control_39C15min-sc-1770145

text: baker's yeast

text: Saccharomyces cerevisiae

text: untagged control flag - flag antibody

characteristic: sample description

text: Saccharomyces cerevisiae

characteristic: strain


text: female

characteristic: ArrayExpress-Sex

text: Gorilla beringei graueri

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: eastern lowland gorilla

text: Gorilla beringei graueri

text: DNA form blood. Align sequence to custom mt reference sequence provided by customer

text: Gorilla beringei graueri


text: male

text: Gorilla beringei graueri

characteristic: External Id

text: SC

characteristic: INSDC center name

text: public

text: eastern lowland gorilla

characteristic: common name

text: Gorilla beringei graueri

text: Gorilla beringei graueri


text: female

text: Gorilla gorilla gorilla

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: western lowland gorilla

text: Gorilla gorilla gorilla

characteristic: organism

text: Gorilla gorilla gorilla


text: male

text: Gorilla gorilla gorilla

characteristic: ArrayExpress-Species

text: SC

text: public

characteristic: INSDC status

text: western lowland gorilla

text: Gorilla gorilla gorilla

text: Gorilla gorilla gorilla


text: Gorilla gorilla gorilla

text: SC

text: public

text: western lowland gorilla

text: Gorilla gorilla gorilla

text: Gorilla gorilla gorilla


text: male

text: Gorilla gorilla gorilla

text: SC

text: public

text: western lowland gorilla

text: Gorilla gorilla gorilla

text: DNA from lymphoblastoid cell line. Align sequence to custom mt reference sequence provided by customer

text: Gorilla gorilla gorilla


text: female

text: Gorilla beringei beringei

text: SC

text: public

text: eastern mountain gorilla

text: Gorilla beringei beringei

text: Gorilla beringei beringei


text: male

text: Gorilla beringei beringei

text: SC

text: public

text: eastern mountain gorilla

text: Gorilla beringei beringei

text: Gorilla beringei beringei


text: female

text: Gorilla gorilla graueri

text: SC

text: public

text: eastern lowland gorilla

text: Gorilla beringei graueri

text: Gorilla beringei graueri


text: male

text: Gorilla gorilla graueri

text: SC

text: public

text: eastern lowland gorilla

text: Gorilla beringei graueri

text: Gorilla beringei graueri


text: male

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: DNA from saliva. Align sequence to custom mt reference sequence provided by customer

text: Homo sapiens


text: female

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: male

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: female

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: male

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Mus Musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: mESC

text: Mus musculus


text: female

text: Mus Musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Oocyte

text: Mus musculus


text: female

text: Mus Musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Germ Cell

text: Mus musculus


text: Sapienza University of Rome

text: public

tag: Namespace:Sapienza University of Rome

text: ArrayExpress

characteristic: broker name

text: Jurkat

characteristic: cell line

text: human

text: Protocols: Jurkat cells were grown in RPMI medium supplemented with 10% (v/v) fetal bovine serum, 2mM L-Glutamine and Penicillin-Streptomycin. Nuclei of 350 x 10E+6 Jurkat cells were lysed in IP-buffer supplemented with RNasin (Promega). Nuclear lysates were clarified and pre-cleared in the presence of Protein G-sepharose beads for 2 hr 4 degrees C under constant rotation and then filtered through a 0.45 um filter. Lysate aliquots were taken out as Input for RNA and protein isolation. Antibody anti-AGO2 (11A9, Ascenion) and isotype-matched IgG (mock_IP) were coupled to Protein G-sepharose beads for 2 h at 4 degrees C in IP-buffer containing 1 mg/ml heparin (Sigma). The pre-cleared nuclear lysate was incubated with antibody-coupled beads overnight at 4 degrees C under constant rotation. IP samples were washed once with IP-buffer for 5 min at 4 degrees C, and three times with IP-wash buffer (50 mM Tris-HCl, pH 7.5; 300 mM NaCl; 5 mM MgCl2; and 0.05% Nonidet P-40) at 4 degrees C. An aliquot was taken out for western blot in order to check immunoprecipitation efficiency. For RNA isolation, Input and IP samples were DNAseI- and Proteinase K-treated. Total RNA and co-precipitated RNA was extracted by phenol:chloroform:isopropyl alcohol and precipitated in ethanol. Small RNA libraries were constructed using the TruSeq SmallRNA Sample preparation kit (Illumina)

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: frozen specimen

characteristic: specimen with known storage state

characteristic: title


text: L1 larvae

characteristic: ArrayExpress-DevelopmentalStage

text: mixed

text: Dracunculus medinensis

characteristic: ENA-CHECKLIST

text: SC

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Guinea worm

text: Dracunculus medinensis

text: mixed sex L1 larvae

characteristic: sample description

text: Dracunculus medinensis


text: adult

text: female

characteristic: ArrayExpress-Sex

text: Dracunculus medinensis

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC center name

text: public

text: Guinea worm

text: Dracunculus medinensis

text: section of adult female worm

text: Dracunculus medinensis


text: Danio rerio

characteristic: ArrayExpress-Species

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: zebrafish

characteristic: common name

text: Danio rerio

characteristic: organism

text: Danio rerio


text: Homo sapiens

text: SC

text: public

characteristic: INSDC status

text: AAVS1_AKT2_oligo1_GFP_positive-sc-1772755

text: human

text: Homo sapiens

text: Pool of PCR products

text: Homo sapiens


text: Homo sapiens

text: SC

text: public

text: AAVS1_AKT2_oligo2_GFP_positive-sc-1772756

text: human

text: Homo sapiens

text: Pool of PCR products

text: Homo sapiens


text: Homo sapiens

text: SC

text: public

text: AAVS1_AKT2_oligo3_GFP_positive-sc-1772757

text: human

text: Homo sapiens

text: Pool of PCR products

text: Homo sapiens


text: Homo sapiens

text: SC

text: public

text: AAVS1_AKT2_oligo4_GFP_positive-sc-1772758

text: human

text: Homo sapiens

text: Pool of PCR products

text: Homo sapiens


text: Homo sapiens

text: SC

text: public

text: AAVS1_AKT2_oligo5_GFP_positive-sc-1772759

text: human

text: Homo sapiens

text: Pool of PCR products

text: Homo sapiens


text: Homo sapiens

text: SC

text: public

text: AAVS1_AKT2_oligo6_GFP_positive-sc-1772760

text: human

text: Homo sapiens

text: Pool of PCR products

text: Homo sapiens


text: Homo sapiens

text: SC

text: public

text: AAVS1_AKT2_cont1_GFP_positive-sc-1772761

text: human

text: Homo sapiens

text: Pool of PCR products

text: Homo sapiens


text: Homo sapiens

text: SC

text: public

text: AAVS1_AKT2_cont2_GFP_positive-sc-1772762

text: human

text: Homo sapiens

text: Pool of PCR products

text: Homo sapiens


characteristic: ArrayExpress-CellType

text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Developmental Assay Unstimulated Wild type Embryonic Stem Cell Derived Macrophages

text: Mus musculus


text: Wild type Embryonic Stem Cell Derived Macrophages

text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: DEV_ASSAY_IRAK1KO_ESDM_Unstim_A-sc-1772765

text: house mouse

text: Mus musculus

text: Developmental Assay Unstimulated IRAK-1 Knock-out Embryonic Stem Cell Derived Macrophages

text: Mus musculus


text: IRAK-1 Knock-out Embryonic Stem Cell Derived Macrophages

text: Mus musculus

text: SC

text: public

text: DEV_ASSAY_IRAK1KO_ESDM_Unstim_B-sc-1772766

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Developmental Assay Wild type Embryonic Stem Cell Derived Macrophages stimulated with uninfected red blood cells

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Developmental Assay IRAK-1 Knock-out Embryonic Stem Cell Derived Macrophages stimulated with uninfected red blood cells

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Developmental Assay Wild type Embryonic Stem Cell Derived Macrophages stimulated with Plasmodium berghei infected red blood cells

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Developmental Assay IRAK-1 Knock-out Embryonic Stem Cell Derived Macrophages stimulated with Plasmodium berghei infected red blood cells

text: Mus musculus


text: OMP-GFP (+/-)

characteristic: ArrayExpress-Genotype

text: Vomeronasal epithelium

characteristic: ArrayExpress-OrganismPart

text: male

text: Mus musculus

characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

text: house mouse

text: Mus musculus

text: Nextera library made from RNA extracted from single VSNs (pool of 3 animals)

text: Mus musculus

characteristic: strain


text: cultured human neurons

text: control overexpression

text: Brain

text: female

text: Homo sapiens

text: day 9

characteristic: ArrayExpress-TimePoint

characteristic: ENA-CHECKLIST

text: SC

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: human

text: Homo sapiens

text: Total cDNA from human neurons

characteristic: sample description

text: Homo sapiens


text: cultured human neurons

text: MeCP2 shRNA 3

text: Brain

text: female

characteristic: ArrayExpress-Sex

text: Homo sapiens

text: day 9

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC center name

text: public

text: human

text: Homo sapiens

text: Total cDNA from human neurons

text: Homo sapiens


text: cultured human neurons

text: control non-infected

text: Brain

text: female

text: Homo sapiens

characteristic: ArrayExpress-Species

text: day 9

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: human

characteristic: common name

text: Homo sapiens

characteristic: organism

text: Total cDNA from human neurons

text: Homo sapiens


text: European Molecular Biology Laboratory

text: public

characteristic: INSDC status

tag: Namespace:European Molecular Biology Laboratory

text: ArrayExpress

characteristic: broker name

text: baker's yeast

text: Protocols: Grow single colony overnight in 5ml YPD at 30C unless the growth media is otherwise specified in sample annotations. Dilute in 50-100ml desired medium with starting OD600=0.1. Grow to OD600=1.0. Harvest cells for total RNA extraction. Flash frozen pellets of exponentially growing TAP tagged cells (OD600 0.5-0.8) were mechanically lysed with glass beads using a FastPrep24 agitator. An aliquot of each cell lysate was used as an input control. Cell lysates were subjected to immunoprecipitation with Dyna M280 sheep anti-rabbit IgG beads (Invitrogen) for 2h at 4??C. RNA-protein complex was released by TEV protease cleavage of the TAP-tag. The input RNA was purified by phenol:chloroform:isoamyl alcohol extraction. In summary 10 ug of total RNA was fragmented, purified, retrotranscribed, end-repaired, ligated, amplified and finally size selected. Full protocol is describe in An efficient method for genome-wide polyadenylation site mapping and RNA quantification Wilkening et al., 2013

characteristic: description

characteristic: genotype

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: mating type alpha

characteristic: sex

text: BY4742 MAT alpha, his3-delta-1, leu2-delta-0, lys2-delta-0, ura3-delta-0, pep4-delta-::KANR

characteristic: title


characteristic: ENA-CHECKLIST

text: European Molecular Biology Laboratory

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: baker's yeast

text: Protocols: Grow single colony overnight in 5ml YPD at 30C unless the growth media is otherwise specified in sample annotations. Dilute in 50-100ml desired medium with starting OD600=0.1. Grow to OD600=1.0. Harvest cells for total RNA extraction. Flash frozen pellets of exponentially growing TAP tagged cells (OD600 0.5-0.8) were mechanically lysed with glass beads using a FastPrep24 agitator. An aliquot of each cell lysate was used as an input control. Cell lysates were subjected to immunoprecipitation with Dyna M280 sheep anti-rabbit IgG beads (Invitrogen) for 2h at 4??C. RNA-protein complex was released by TEV protease cleavage of the TAP-tag. The immunoprecipitated RNA was purified by phenol:chloroform:isoamyl alcohol extraction. In summary 10 ug of total RNA was fragmented, purified, retrotranscribed, end-repaired, ligated, amplified and finally size selected. Full protocol is describe in An efficient method for genome-wide polyadenylation site mapping and RNA quantification Wilkening et al., 2013

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: mating type alpha

characteristic: strain


characteristic: ArrayExpress-CellType

text: Homo sapiens

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

text: public

text: human

text: Homo sapiens

text: single cell Whole Transcriptome Amplification Product

characteristic: sample description

text: Homo sapiens


name: E-MTAB-2125:Neural Stem Cell Biological Replicate 2

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

tag: Namespace:European Molecualr Biology Laboratory, Genome Biology Unit

text: ArrayExpress

text: ES-E14 cell

characteristic: cell line

text: neuronal stem cell

characteristic: cell type

text: house mouse

characteristic: common name

text: Protocols: 46C mouse embryonic stem cells (derived from E14tg2a cell line; ESC) were grown at 37degreesC in a 5percent (v/v) CO2 incubator in Glasgow Modified Eagles Medium (GMEM, Invitrogen), supplemented with 10 percent (v/v) fetal bovine serum (FBS) (Sigma), 2 ng/ml of in-house synthesized LIF, 1 mM 2-mercaptoethanol, Non-Essential Amino Acids (Gibco) and Na-pyruvate (Gibco), on gelatin-coated (0.1percent (v/v)) dishes. We used Accutase (Sigma) for cell dissociation (which we inactivated with cell culture medium according to the manufacturers recommendations). Cells were passaged every other day at a seeding density of 3 million cells for a 10-cm petri dish. Medium was exchanged every day. The ESCs were differentiatied to Neural Stem Cellss (NSC). Briefly, 46C ES cells were plated at the density of 2 million cells on gelatin-coated 10 cm petri dish in 50percent Dulbeco Modified Eagles Medium, 50percent F12 (DMEM/F12, Invitrogen) medium supplemented with N2 and B27 (Gibco), BSA (Gibco), Non-Essential Amino Acids (Gibco), glucose (final concentration of 0.03 M), HEPES (final concentration of 4.5 mM) and 0.1mM beta-mercaptoethanol (Differentiation medium). Medium was exchanged after 24 and 48 hours and the cultures grown for additional 72 hours. Cells were then gently dissociated using Accutase (Sigma), the GFP+ cell fraction (corresponding to c.a. 70 percent of cells) was FACSorted and seeded onto laminin (Sigma) coated 75 cm2 Nunc flask (final concentration of laminin 10 mg/cm2 of culture surface, coating time - minimum 4 hours at 37 degrees C). Subsequently, cells were grown in differentiation medium supplemented with in-house prepared recombinant murine EGF and bFGF (both at concentration of 10 mg/ml) until loss of GFP expression and uniform up-regulation of Nestin expression. Cells where passaged when reaching 80 percent confluence, medium as exchanged every day. Cells from confluent culture dishes were dissociated with Accutase (Sigma), washed two times with full medium and lysed in Trizol reagent (Invitrogen, 500 ul of Trizol reagent per 5 million cell pellet) and snap frozen. At the day of RNA isolation, cell-Trizol mixes were thawed for 10 minutes and RNA isolation performed according to manufacturers recommendations. Isolated RNA samples were inclubated with TURBO DNase (Ambion) according to manufacturers recommendations. RNA quality was assessed with an Agilent 2100 Bioanalyzer. Samples with RNA Integrity Number (RIN) larger than 9 were included for subsequent RNA-seq experiments. The libraries were prepared using a standard TruSeq protocol, using TruSeq Stranded mRNA Sample Preparation kit. Briefly, 3ug of total RNA was used per sample. RNA was re-suspended in 50 ul of nuclease free water and mixed with 50 ul of oligo-dT beads to bind the poly-A RNA. The RNA-bead suspension was mixed thoroughly by pipeting 6 times. The suspension was incubated at 65 degrees for 5 minutes and slowly cooled down to 4 degrees. Beands with the bound poly-A RNA were isolated with magnet. Beads were washed with Wasing Buffer by gentile pipeting beads with the wasing buffer 6 times. The samples were next incubated on the magnetic stand for 5 minutes, the supernatant discarded and 50 ul of elution buffer were added to the sample. The entire mix was pipeted six times, vial closed and incubated at the thermal cycler at 80 degrees for 2 minutes. The mix was chilled to 25 degrees. 50 ul of the Bead Binding buffer was add to each sample and mixed by pipeting as above. The mix was incubated for 5 minutes and beads isolated using the magnetic stand. Beads were washed as above with the wash buffer and left on the magnet for 5 minutes.The supernatant was discarder and the beads mixed with 19.5 ul of the Fragment, Prime, Finish Mix. The entire volume was gently mixed and the samples sealed and incubated on the thermal cycler for 8 minutes at 98 degrees and immediately chilled to 4 degrees. Samples were then centrifuged briefly, and the first strand cDNA was synthetised. The bead mix was placed on the magnetic stand for 5 minutes, 17 ul of the supernatant (containing the fragmented and primed mRNA) was pipeted to a new 0.3 ml PCR tube and 8 ul of the first strand synthesis ActD, superscript II mix was add to the vial, the tube content was mixed and centrifuged. The sample was incubated at 25 degrees for 10 min, 42 degrees for 15 minutes, at 70 degrees for 15 minutes and chilled to 4 degrees. To generate second strand: 5Ul of the resuspension buffer form the kit was added and then 20 ul of the thawed Second Strand Marking Master Mix and mixed with the solution. The samples were incubated at 16 degrees for 1 hour. The samples were brought to room temperature and the cDNA isolated with 90 ul of the Ampure XP beads. 80 percent ethanol solution was used in the washing steps of the Ampure isolation procedure. Beads were resuspended in 17.5 ul of the resuspension buffer and incubated for 2 minutes at room temp. 15 ul of the supernatant was transfered to a new 0.3 ml PCR tube. Then 2.5 ul of the resuspension buffer was added to the sample, the whole sample was mixed with 12.5 ul of the A-tailing Mix and incubated at 37 degrees for 30 minutes, 70 degrees for 5 minutes and held at 4 degrees. Immediately after, 2.5 ul of the resuspension buffer was added to the sample along withand 2.5 Ligation mix and 2.5 of RNA-Adapter mix. The samples were next centrifuged (280g for 1 min) and incubated at 30 degrees for 10 minutes. 5Ul of the Stop Ligation Buffer was added and mixed with the sample. CDNA was isolated using 42ul of Ampure Beads XP accoring to the TruSeq protocol. Samples were eluted with 22.5 ul of Resuspension buffer. 20 ul of the solution wasa trnsferred to a nw 0.3 ml PCR tube. 5ul of thawed PCR primer coctail and 25 ul of PCR master mix were added and Pcr reaction was performed (initail 98 degrees 30 sec followed by 15 cycles of 98 degrees for 10 sec, 60 degrees for 30 sec, 72 degrees for 30 sec, and a final incubation at 72 degrees for 5 min). The samples were than isolated with the Ampure Beads accoring to the TruSeq protocol.

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: fresh specimen

characteristic: specimen with known storage state

text: Neural Stem Cell Biological Replicate 2


name: E-MTAB-2125:Embryonic Stem Cell Biological Replicate 2

text: European Molecualr Biology Laboratory, Genome Biology Unit

text: public

characteristic: INSDC status

text: ArrayExpress

characteristic: broker name

text: ES-E14 cell

text: embryonic stem cell

text: house mouse

characteristic: description

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: fresh specimen

characteristic: title


name: E-MTAB-2125:Embryonic Stem Cell Biological Replicate 1

characteristic: ENA-CHECKLIST

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: ES-E14 cell

text: embryonic stem cell

text: house mouse

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: fresh specimen


name: E-MTAB-2125:Neural Stem Cell Biological Replicate 1

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: ArrayExpress

text: ES-E14 cell

text: neuronal stem cell

text: house mouse

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: fresh specimen

text: Neural Stem Cell Biological Replicate 1


characteristic: ArrayExpress-Genotype

text: MOE

characteristic: ArrayExpress-OrganismPart

text: Wildtype

characteristic: ArrayExpress-Phenotype

text: female

characteristic: ArrayExpress-Sex

text: Mouse

characteristic: ArrayExpress-Species

characteristic: ArrayExpress-StrainOrLine

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: house mouse

text: Mus musculus

text: Total RNA extracted from MOE

characteristic: sample description

text: Mus musculus

characteristic: strain


text: MOE

text: Wildtype

text: male

text: Mouse

text: SC

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: house mouse

characteristic: common name

text: Mus musculus

characteristic: organism

text: Total RNA extracted from MOE

text: Mus musculus


text: Tail

text: Immune compromised

text: female

text: NOD-scid Gamma.Cg-rkdc

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: Tail genomic DNA

text: Mus musculus

text: NOD-scid Gamma.Cg-rkdc


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: INRA Clermont-Ferrand - Theix

text: public

tag: Namespace:INRA Clermont-Ferrand - Theix

text: ArrayExpress

characteristic: broker name

text: bread wheat

text: Protocols: Wheat samples were grown on normal environnemental condition Total RNAs of hexaploid wheat cv Chinese Spring were extracted from 3 mg of each organs, according the Macheranagel protocol Library preparation was preformed according to TruSeq RNA Sample Preparation Guide (Illumina, Part # 15008136 REV. A). Reagents were taken from the Illumina TruSeq Sample Prep Kit -Set A (Illumina, CAT # RS-930-2001)

characteristic: description

text: metaphase I

characteristic: meiotic stage

text: Triticum aestivum

text: Triticum aestivum

text: stamen

characteristic: organism part

text: Triticum aestivum

text: fresh specimen

characteristic: specimen with known storage state

characteristic: title


text: INRA Clermont-Ferrand - Theix

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: bread wheat

text: zygotene-pachytene

text: Triticum aestivum

text: Triticum aestivum

text: stamen

text: Triticum aestivum

text: fresh specimen


text: INRA Clermont-Ferrand - Theix

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: bread wheat

text: latent-leptotene

text: Triticum aestivum

text: Triticum aestivum

text: stamen

text: Triticum aestivum

text: fresh specimen


text: INRA Clermont-Ferrand - Theix

text: public

text: ArrayExpress

text: bread wheat

characteristic: common name

text: diplotene-diakinesis

text: Triticum aestivum

characteristic: organism

text: Triticum aestivum

text: stamen

text: Triticum aestivum

text: fresh specimen


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Sapienza Universita di Roma

text: public

tag: Namespace:Sapienza Universita di Roma

text: ArrayExpress

characteristic: cell line

text: human

text: Protocols: HeLaS3 cells were grown in DMEM medium supplemented with 10% (v/v) fetal bovine serum, 2mM L-Glutamine and Penicillin-Streptomycin. Nuclei of 350 x 10E+6 HeLaS3 cells were lysed in IP-buffer supplemented with RNasin (Promega). Nuclear lysates were clarified and pre-cleared in the presence of Protein G-sepharose beads for 2 hr 4 degrees C under constant rotation and then filtered through a 0.45 um filter. Lysate aliquots were taken out as Input for RNA and protein isolation. Antibody anti-AGO1 (4B8, Ascenion) and isotype-matched IgG (mock_IP) were coupled to Protein G-sepharose beads for 2 h at 4 degrees C in IP-buffer containing 1 mg/ml heparin (Sigma). The pre-cleared nuclear lysate was incubated with antibody-coupled beads overnight at 4 degrees C under constant rotation. IP samples were washed once with IP-buffer for 5 min at 4 degrees C, and three times with IP-wash buffer (50 mM Tris-HCl, pH 7.5; 300 mM NaCl; 5 mM MgCl2; and 0.05% Nonidet P-40) at 4 degrees C. An aliquot was taken out for western blot in order to check immunoprecipitation efficiency. For RNA isolation, Input and IP samples were DNAseI- and Proteinase K-treated. Total RNA and co-precipitated RNA was extracted by phenol:chloroform:isopropyl alcohol and precipitated in ethanol. Small RNA libraries were constructed using the TruSeq SmallRNA Sample preparation kit (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: frozen specimen


characteristic: ENA-LAST-UPDATE

text: public

characteristic: SRA accession

tag: Namespace:Centre For Research in Agricultural Genomics (CRAG)

characteristic: Submitter Id

text: ArrayExpress

text: pig

text: Protocols: PK-15 cell line was used for viral stocks preparation and in vitro infections Cells were grown at 37C and 5% CO2 and maintained in Dulbeccos Modified Eagle Medium (DMEM) supplemented with 5% FCS, 100 ug/ml streptomycin and 100 IU/ml penicillin. A viral stock with a titre of 107,57 TCID50/mL was prepared in PK-15 cells for NIA-3 virulent strain and 108,49 TCID50/mL for Begonia attenuated strain. In the in vivo experimental infection, 9 animals were intranasally inoculated with 103 TCID50 NIA-3 virulent strain, 6 with the same dose of Begonia attenuated strain and 5 control animals with PBS. Total RNA was isolated using TRIzol reagent. Small RNA fraction from each sample was excised and isolated from denaturing 12.5% polyacrilamide gel electrophoresis (PAGE) using miSpikeTM (IDT, Coralville, USA) as internal size marker. 50 ug of total RNA for each sample were loaded on separate gels to avoid cross-contamination. Gels were stained with GelStar Acid Nucleic Gel Stain (Lonza, Basel, Switzerland) for UV visualization. Excised small RNA fraction were purified using Performa DTR gel filtration cartridges (EdgeBio, Gaithersburg, USA). Briefly, 3' and 5' linkers from miRCatTM kit (IDT, Coralville, USA) were ligated at both ends of the small RNAs in two separated reactions using a T4 RNA ligase without ATP (Fermentas, Germany) and T4 RNA ligase with ATP (Ambion, Austin, USA), respectively. Between 3' and 5' primer ligations, the 60 nt RNAs were purified by PAGE to eliminate unligated products. Then, linked products were used to perform a reverse transcription reaction using the SuperScriptTM III Reverse Transcriptase kit (InvitrogenTM, Carlsbad, USA) and the cDNA obtained was amplified with the Expand High Fidelity System (Roche, Germany). PCRs were done to amplify the cDNA with primers complementary to 3' and 5' linkers and, in addition, they included multiplex identifiers at the 5' end (a five nucleotide sequence tag) to allow differentiation between libraries. The number of PCR cycles was optimized for each sample, in order to minimize/avoid saturation, ranging from 21 to 30. Purification was carried out by using QIAquick PCR Purification Kit (Qiagen, Germany). Libraries were quantified with QubitTM fluorometer, Quant-ITTM (InvitrogenTM, Carlsbad, USA), prepared to a 1011 DNA molecules/uL and equimolecular pooled according to their indexes.

text: mock-infected

characteristic: disease

characteristic: individual

text: Sus scrofa

text: Sus scrofa

text: Sus scrofa

text: frozen specimen


characteristic: External Id

text: Centre For Research in Agricultural Genomics (CRAG)

text: public

text: 4 week

characteristic: age

text: ArrayExpress

characteristic: broker name

text: pig

text: Protocols: Cells were grown at 37C and 5% CO2 and maintained in Dulbeccos Modified Eagle Medium (DMEM) supplemented with 5% FCS, 100 ug/ml streptomycin and 100 IU/ml penicillin. A viral stock with a titre of 107,57 TCID50/mL was prepared in PK-15 cells for NIA-3 virulent strain and 108,49 TCID50/mL for Begonia attenuated strain. In the in vivo experimental infection, 9 animals were intranasally inoculated with 103 TCID50 NIA-3 virulent strain, 6 with the same dose of Begonia attenuated strain and 5 control animals with PBS. Total RNA was isolated using TRIzol reagent. Small RNA fraction from each sample was excised and isolated from denaturing 12.5% polyacrilamide gel electrophoresis (PAGE) using miSpikeTM (IDT, Coralville, USA) as internal size marker. 50 ug of total RNA for each sample were loaded on separate gels to avoid cross-contamination. Gels were stained with GelStar Acid Nucleic Gel Stain (Lonza, Basel, Switzerland) for UV visualization. Excised small RNA fraction were purified using Performa DTR gel filtration cartridges (EdgeBio, Gaithersburg, USA). Briefly, 3' and 5' linkers from miRCatTM kit (IDT, Coralville, USA) were ligated at both ends of the small RNAs in two separated reactions using a T4 RNA ligase without ATP (Fermentas, Germany) and T4 RNA ligase with ATP (Ambion, Austin, USA), respectively. Between 3' and 5' primer ligations, the 60 nt RNAs were purified by PAGE to eliminate unligated products. Then, linked products were used to perform a reverse transcription reaction using the SuperScriptTM III Reverse Transcriptase kit (InvitrogenTM, Carlsbad, USA) and the cDNA obtained was amplified with the Expand High Fidelity System (Roche, Germany). PCRs were done to amplify the cDNA with primers complementary to 3' and 5' linkers and, in addition, they included multiplex identifiers at the 5' end (a five nucleotide sequence tag) to allow differentiation between libraries. The number of PCR cycles was optimized for each sample, in order to minimize/avoid saturation, ranging from 21 to 30. Purification was carried out by using QIAquick PCR Purification Kit (Qiagen, Germany). Libraries were quantified with QubitTM fluorometer, Quant-ITTM (InvitrogenTM, Carlsbad, USA), prepared to a 1011 DNA molecules/uL and equimolecular pooled according to their indexes.

characteristic: description

text: NIA3 infected

text: Sus scrofa

text: Sus scrofa

text: Sus scrofa

text: frozen specimen


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: 4 week

text: ArrayExpress

text: pig

text: Begonia infected

text: Sus scrofa

text: Sus scrofa

text: Sus scrofa

text: frozen specimen

characteristic: specimen with known storage state

characteristic: title


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: pig

characteristic: common name

text: Begonia infected

text: Sus scrofa

characteristic: organism

text: Sus scrofa

text: Sus scrofa

text: frozen specimen


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: ArrayExpress

characteristic: cell line

text: pig

text: mock-infected

text: Sus scrofa

text: Sus scrofa

text: Sus scrofa

text: frozen specimen


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: 4 week

text: ArrayExpress

text: pig

text: mock-infected

characteristic: disease

characteristic: individual

text: Sus scrofa

text: Sus scrofa

text: Sus scrofa

text: frozen specimen


characteristic: External Id

text: public

text: ArrayExpress

characteristic: broker name

text: pig

characteristic: description

text: NIA3 infected

text: Sus scrofa

text: Sus scrofa

text: Sus scrofa

text: frozen specimen


text: Tail

characteristic: ArrayExpress-OrganismPart

text: Wild Type

characteristic: ArrayExpress-Phenotype

text: female

characteristic: ArrayExpress-Sex

text: Mus musculus

characteristic: ArrayExpress-Species

text: CBA/CaJ

characteristic: ArrayExpress-StrainOrLine

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: house mouse

text: Mus musculus

text: DNA from control 1

characteristic: sample description

text: Mus musculus

text: CBA/CaJ

characteristic: strain


text: Tail

text: Wild Type

text: female

text: Mus musculus

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: house mouse

characteristic: common name

text: Mus musculus

characteristic: organism

text: DNA from control 2

text: Mus musculus


text: Tail

text: Wild Type

text: female

text: Mus musculus

characteristic: External Id

text: SC

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: DNA from mutant mouse

text: Mus musculus


text: Tail

characteristic: ArrayExpress-OrganismPart

text: Wild Type

characteristic: ArrayExpress-Phenotype

text: female

characteristic: ArrayExpress-Sex

text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: DNA from Tail

text: Mus musculus


text: UNIV-WUE

characteristic: INSDC center name

text: public

text: red mason bee

text: Osmia bicornis

text: Osmia bicornis

text: PollenSeq

characteristic: title


E-MTAB-2112:Control 2

characteristic: INSDC first public

text: public

text: E-MTAB-2112:Control 2

tag: Namespace:Boston Children's Hospital, Harvard Medical School

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: triple negative breast cancer cell

characteristic: cell type

text: human

text: Protocols: McCoy's for 24hrs 50 nM of miRNA Pulldown protocol + Trizol NEBNext Multiplex Small RNA Library Prep Set with modified adaptors and primers compatible for Ion Torrent Sequencing Platform

characteristic: description

text: Control miR Pulldown

characteristic: mirna

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: female

characteristic: sex

text: fresh specimen

characteristic: specimen with known storage state

text: Control 2


E-MTAB-2112:miR-522 1

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: Boston Children's Hospital, Harvard Medical School

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-2112:miR-522 1

text: ArrayExpress

text: triple negative breast cancer cell

text: human

characteristic: common name

text: miR-522 Pulldown

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens

text: female

text: fresh specimen

text: miR-522 1


E-MTAB-2112:Control 1

characteristic: External Id

characteristic: INSDC center name

text: public

characteristic: SRA accession

text: E-MTAB-2112:Control 1

characteristic: Submitter Id

text: ArrayExpress

text: triple negative breast cancer cell

text: human

text: Control miR Pulldown

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: female

text: fresh specimen

text: Control 1


E-MTAB-2112:miR-522 2

characteristic: INSDC first public

text: public

text: E-MTAB-2112:miR-522 2

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: triple negative breast cancer cell

text: human

text: miR-522 Pulldown

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: female

text: fresh specimen

text: miR-522 2

characteristic: title


E-MTAB-2119:Control 2

text: public

text: E-MTAB-2119:Control 2

text: ArrayExpress

text: triple negative breast cancer

characteristic: cell type

text: human

text: Protocols: McCoy's for 24hrs 50 nM of miRNA IMPACT protocol + Trizol NEBNext Small RNA Sample Prep Set for Illumina chemistry

characteristic: description

text: Control 2

characteristic: individual

text: Control miR Pulldown

characteristic: mirna

text: Homo sapiens

text: Homo sapiens

text: wild type

characteristic: phenotype

text: Homo sapiens

text: female

characteristic: sex

text: fresh specimen

text: Control 2


E-MTAB-2119:miR-522 1

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-2119:miR-522 1

text: ArrayExpress

text: triple negative breast cancer

text: human

text: miR-522 1

text: miR-522 Pulldown

text: Homo sapiens

text: Homo sapiens

text: wild type

text: Homo sapiens

text: female

text: fresh specimen

characteristic: specimen with known storage state

text: miR-522 1


E-MTAB-2119:Control 1

characteristic: External Id

characteristic: INSDC center name

text: public

characteristic: SRA accession

text: E-MTAB-2119:Control 1

characteristic: Submitter Id

text: ArrayExpress

text: triple negative breast cancer

text: human

characteristic: common name

text: Control 1

text: Control miR Pulldown

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: wild type

text: Homo sapiens

text: female

text: fresh specimen

text: Control 1


E-MTAB-2119:miR-522 2

characteristic: INSDC first public

text: public

text: E-MTAB-2119:miR-522 2

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: triple negative breast cancer

characteristic: cell type

text: human

characteristic: description

text: miR-522 2

text: miR-522 Pulldown

text: Homo sapiens

text: Homo sapiens

text: wild type

text: Homo sapiens

text: female

text: fresh specimen

text: miR-522 2

characteristic: title


text: male

characteristic: ArrayExpress-Sex

text: Mus Musculus

characteristic: ArrayExpress-Species

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: house mouse

text: Mus musculus

text: mESC

characteristic: sample description

text: Mus musculus


text: male

text: Mus Musculus

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: house mouse

text: Mus musculus

text: mTSC

text: Mus musculus


text: Sapienza Universita di Roma

characteristic: INSDC center name

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: human

characteristic: common name

text: Protocols: HeLaS3 cells were grown in DMEM supplemented with 10%FBS, pen/strep and L-glutamine. HeLaS3 cells were transfected with 10nMol/l siRNA using Interferin reagent (Polyplus) according to manufacturer instructions. Total RNA was extracted using Tri-reagent according to manufacturers protocol (Sigma). mRNA libraries were constructed using the TruSeq RNA Sample Preparation Kits v2 (Illumina) starting from total RNA

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: frozen specimen

characteristic: specimen with known storage state


text: iPSC derived neuron

characteristic: ArrayExpress-CellType

text: Homo sapiens

text: SC

characteristic: INSDC first public

text: public

text: human

text: Homo sapiens

characteristic: organism

text: Homo sapiens


text: iPSC derived neuron

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: single cell Whole Genome Amplification Product

text: Homo sapiens


text: iPSC

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: single cell WGA Product - Picoplex

text: Homo sapiens


text: Plasmodium falciparum

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: Plasmodium falciparum


text: EBI

text: public

text: ENA

characteristic: broker name

characteristic: collection date

text: alpine birch

text: United Kingdom:Scotland, Dundreggan Estate

characteristic: country

characteristic: individual name

text: montane scrub

characteristic: isolation source

text: 57.2302 N 4.7549 W

characteristic: lat lon

text: Betula nana

text: Betula nana

text: twig cambium

characteristic: tissue type

text: BioSample entry for genome collection GCA_000327005

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EBI

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ENA

text: domesticated barley

text: Morex

characteristic: cultivar

text: Hordeum vulgare subsp. vulgare

text: Hordeum vulgare subsp. vulgare

text: vulgare

characteristic: sub species

text: BioSample entry for genome collection GCA_000326085


text: EBI

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ENA

text: Perigord truffle

characteristic: common name

text: Tuber melanosporum

characteristic: organism

text: Tuber melanosporum

characteristic: strain

text: BioSample entry for genome collection GCA_000151645


text: EBI

text: public

text: ENA

characteristic: broker name

text: European seabass

characteristic: individual name

text: Dicentrarchus labrax

text: Dicentrarchus labrax

text: male

characteristic: sex

text: BioSample entry for genome collection GCA_000180815


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: EBI

text: public

text: ENA

text: bread wheat

text: Chinese Spring

text: Triticum aestivum

text: Triticum aestivum

text: aestivum

text: BioSample entry for genome collection GCA_000210335

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EBI

characteristic: INSDC last update

text: public

text: ENA

text: barber pole worm

text: Haemonchus contortus

text: Haemonchus contortus

text: ISE/inbred ISE

text: BioSample entry for genome collection GCA_000469685


text: EBI

text: public

characteristic: INSDC status

text: ENA

text: carragheen

text: Chondrus crispus

text: Chondrus crispus

text: Stackhouse

text: BioSample entry for genome collection GCA_000350225


text: EBI

characteristic: INSDC center name

text: public

text: ENA

text: two-spotted spider mite

text: Tetranychus urticae

text: Tetranychus urticae

text: London

text: BioSample entry for genome collection GCA_000239435


text: EBI

characteristic: INSDC first public

text: public

text: ENA

text: southern root-knot nematode

text: Meloidogyne incognita

text: Meloidogyne incognita

text: Morelos

text: BioSample entry for genome collection GCA_000180415


text: EBI

text: public

characteristic: SRA accession

text: ENA

text: bread wheat

text: Triticum aestivum

text: Triticum aestivum

text: Chinese spring

text: BioSample entry for genome collection GCA_000334095


text: EBI

text: public

characteristic: Submitter Id

text: ENA

text: crab-eating macaque

text: Macaca fascicularis

text: Macaca fascicularis

text: BioSample entry for genome collection GCA_000222185


text: EBI

text: public

text: ENA

text: muskmelon

characteristic: common name

characteristic: cultivar

text: Cucumis melo

text: Cucumis melo

text: BioSample entry for genome collection GCA_000313045


text: EBI

text: public

text: ENA

text: western lowland gorilla

text: Gorilla gorilla gorilla

characteristic: organism

text: Gorilla gorilla gorilla

text: gorilla

characteristic: sub species

text: BioSample entry for genome collection GCA_000151905


text: EBI

text: public

text: ENA

characteristic: broker name

text: cacao

characteristic: individual name

text: Theobroma cacao

text: Theobroma cacao

text: BioSample entry for genome collection GCA_000208745


characteristic: ENA-CHECKLIST

text: EBI

text: public

text: ENA

text: pine wood nematode

text: Bursaphelenchus xylophilus

text: Bursaphelenchus xylophilus

text: Ka4C1 (inbred line)

characteristic: strain

text: BioSample entry for genome collection GCA_000231135


characteristic: ENA-FIRST-PUBLIC

text: EBI

text: public

text: ENA

text: bread wheat

text: Triticum aestivum

text: Triticum aestivum

text: Chinese spring

text: BioSample entry for genome collection GCA_000334135

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EBI

text: public

text: ENA

text: domesticated barley

text: Bowman

text: Hordeum vulgare subsp. vulgare

text: Hordeum vulgare subsp. vulgare

text: vulgare

text: BioSample entry for genome collection GCA_000326125


text: EBI

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ENA

text: wine grape

text: Vitis vinifera

text: Vitis vinifera

text: BioSample entry for genome collection GCA_000003745


text: EBI

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ENA

text: Pichia farinosa CBS 7064

text: Millerozyma farinosa CBS 7064

text: Millerozyma farinosa CBS 7064

text: CBS 7064

text: BioSample entry for genome collection GCA_000315895


E-MTAB-2143:HepG2 cells

text: University of Stuttgart

text: public

characteristic: SRA accession

text: E-MTAB-2143:HepG2 cells

tag: Namespace:University of Stuttgart

characteristic: Submitter Id

text: ArrayExpress

characteristic: cell line

text: human

text: Protocols: HepG2 cells were grown following ENCODE guidelines Chromatin IP kit (Active Motif) 15-60 micrograms of mononucleosomes were incubated overnight with HMIDs and were washed 1x High Salt Buffer, 1x Low Salt Buffer, 1x LiCl Buffer and 2x TE buffer, eluted in 1% SDS and DNA was extracted with Chromatin IP kit (Active Motif)

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: HepG2 cells


text: ESC

characteristic: ArrayExpress-CellType

text: embryonic stem cell line

characteristic: ArrayExpress-DevelopmentalStage

characteristic: ArrayExpress-Genotype

text: serum/LIF

characteristic: ArrayExpress-GrowthCondition

text: male

characteristic: ArrayExpress-Sex

text: Mus Musculus

characteristic: ArrayExpress-Species

characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

text: house mouse

characteristic: common name

text: Mus musculus

characteristic: organism

text: mRNAseq Nextera library made from G4 ES cell line from a male blastocyst from a C57BL/6Ncr male x 129S6/SvEvTac female

characteristic: sample description

text: Mus musculus


text: ESC

text: embryonic stem cell line

text: G4 ES cell line from a male blastocyst from a C57BL/6Ncr male x 129S6/SvEvTac female

text: serum/LIF

text: male

text: Mus Musculus

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: house mouse

text: Mus musculus

text: Mus musculus

characteristic: strain


text: ESC

characteristic: ArrayExpress-CellType

text: embryonic stem cell line

text: male

text: Mus Musculus

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: Mus musculus


text: ESC

text: embryonic stem cell line

characteristic: ArrayExpress-DevelopmentalStage

characteristic: ArrayExpress-Genotype

text: alternative 2i/LIF

characteristic: ArrayExpress-GrowthCondition

text: male

characteristic: ArrayExpress-Sex

text: Mus Musculus

characteristic: ArrayExpress-Species

text: SC

text: public

text: house mouse

text: Mus musculus

text: Mus musculus


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

characteristic: ArrayExpress-StrainOrLine

characteristic: ENA-CHECKLIST

text: SC

text: public

text: malaria parasite P. falciparum

characteristic: common name

text: Plasmodium falciparum

characteristic: organism

text: 40 PB Pooled -3 cycles A

characteristic: sample description

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -3cycles B

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -3 cycles C

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

characteristic: strain


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

characteristic: Submitter Id

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -6 cycles A

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -6 cycles B

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -6 cycles C

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -9 cycles A

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -9 cycles B

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -9 cycles C

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -12 cycles A

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -12 cycles B

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -12 cycles C

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -15 cycles A

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -15 cycles B

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -15 cycles C

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -18 cycles A

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -18 cycles B

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -18 cycles C

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -21 cycles A

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -21 cycles B

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -21 cycles C

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -24 cycles A

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -24 cycles B

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Plasmodium falciparum

text: NF54-PiggyBac Mutant

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: 40 PB Pooled -24 cycles C

text: Plasmodium falciparum

text: NF54-PiggyBac Mutant


text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Mus musculus


text: Neurons

characteristic: ArrayExpress-CellType

text: Adult

characteristic: ArrayExpress-DevelopmentalStage

text: MeCP2 GFP tagged

characteristic: ArrayExpress-Genotype

text: Chromotek GFP trap Agarose

characteristic: ArrayExpress-Immunoprecipitate

text: Brain

characteristic: ArrayExpress-OrganismPart

text: wildtype

characteristic: ArrayExpress-Phenotype

text: male

characteristic: ArrayExpress-Sex

text: Mus musculus

text: Bl6 MeCP2 GFP

text: SC

text: public

text: house mouse

text: Mus musculus

text: crosslinked and sonicated chromatin= Input from GFP high sample (MeCP2 GFP from 15 BL 6 male)

text: Mus musculus

text: Bl6 MeCP2 GFP


text: Glia

text: Adult

text: MeCP2 GFP tagged

text: Chromotek GFP trap Agarose

text: Brain

text: wildtype

text: male

text: Mus musculus

characteristic: ArrayExpress-Species

text: Bl6 MeCP2 GFP

characteristic: ArrayExpress-StrainOrLine

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: house mouse

characteristic: common name

text: Mus musculus

characteristic: organism

text: crosslinked and sonicated chromatin= Input from GFP low sample (MeCP2 GFP from 15 BL 6 male)

characteristic: sample description

text: Mus musculus

text: Bl6 MeCP2 GFP


text: Liver

text: Adult

text: MeCP2 GFP tagged

text: Chromotek GFP trap Agarose

text: Brain

text: wildtype

text: male

text: Mus musculus

text: Bl6 MeCP2 GFP

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

text: house mouse

text: Mus musculus

text: crosslinked and sonicated chromatin= Input from Liver control sample (MeCP2 GFP from 15 BL 6 male)

text: Mus musculus

text: Bl6 MeCP2 GFP


text: Neurons

characteristic: ArrayExpress-CellType

text: Adult

characteristic: ArrayExpress-DevelopmentalStage

text: MeCP2 GFP tagged

characteristic: ArrayExpress-Genotype

text: Chromotek GFP trap Agarose

characteristic: ArrayExpress-Immunoprecipitate

text: Brain

characteristic: ArrayExpress-OrganismPart

text: wildtype

text: male

text: Mus musculus

text: Bl6 MeCP2 GFP

text: SC

text: public

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: ChIP DNA from GFP high neurons (MeCP2 GFP from 15 BL 6 male)

text: Mus musculus

text: Bl6 MeCP2 GFP

characteristic: strain


text: Glia

text: Adult

text: MeCP2 GFP tagged

text: Chromotek GFP trap Agarose

text: Brain

text: wildtype

characteristic: ArrayExpress-Phenotype

text: male

characteristic: ArrayExpress-Sex

text: Mus musculus

characteristic: ArrayExpress-Species

text: Bl6 MeCP2 GFP

characteristic: ArrayExpress-StrainOrLine

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: house mouse

characteristic: common name

text: Mus musculus

text: ChIP DNA from GFP low glia (MeCP2 GFP from 15 BL 6 male)

text: Mus musculus

text: Bl6 MeCP2 GFP


text: Liver

text: Adult

text: MeCP2 GFP tagged

text: Chromotek GFP trap Agarose

text: Brain

text: wildtype

text: male

text: Mus musculus

text: Bl6 MeCP2 GFP

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: house mouse

text: Mus musculus

characteristic: organism

text: ChIP DNA from Liver control (MeCP2 GFP from 15 BL 6 male)

characteristic: sample description

text: Mus musculus

text: Bl6 MeCP2 GFP