text: University of Helsinki

text: public

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: fruit fly

characteristic: common name

text: transfection

characteristic: genetic modification

text: transfected with V5 tagged Myb ORF

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fresh specimen

characteristic: specimen with known storage state


status: PUBLIC

tag: attribute

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Helsinki

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:University of Helsinki

characteristic: Submitter Id

text: ArrayExpress

text: fruit fly

text: Protocols: Chromatin immunoprecipitation (ChIP)-assays were done as in Tuupanen et al.Nature Genetics 41, 885, 2009. ChIP-seq was performed essentially as described in (Tuupanen et al.Nature Genetics 41, 885, 2009) with the following modifications. ChIP for Myc and Max: S2 cells were formaldehyde crosslinked, sonicated and immunoprecipitated with the following set of antibodies (Santa Cruz Biotechnology, Inc.): Myc: dN-20 and d1-717, sc-15832 and sc-28207. Max: d1-160, sc-28209. IgG controls sc-2027 and sc-2028. ChIP for E2f and Myb: S2 cells were transiently transfected with plasmids (backbone pRmHa-1) containing metallothionein promoter driven Cterminally His-streptavidin binding peptide-3xV5 tagged Drosophila open reading frames. Expression of the genes was induced 24 hr after transfection by 0.5 mM CuSO4, and the incubation continued for 48 hr until formaldehyde crosslinking was done. Immunoprecipitations were made with 7.5 mg of monoclonal anti-V5 antibody (46-1157; Invitrogen) or IgG control antibody (sc-2025; Santa Cruz Biotechnology, Inc.) Chromatin immunoprecipitation (ChIP)-seq libraries were prepaired as in Tuupanen et al.Nature Genetics 41, 885, 2009. Library preparations were done by repairing the immunoprecipitated DNA using Klenow and T4 DNA polymerase and T4 polynucleotide kinase (MBI Fermentas, Vilnius, Latvia), and ligating the Illumina sequencing adapters according to manufacturers instructions.

characteristic: description

text: transfection

text: transfected with Myc tagged E2f ORF

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fresh specimen

characteristic: title

type: has member


text: University of Helsinki

text: public

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: fruit fly

text: transfection

text: transfected with V5 tagged E2f ORF

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fresh specimen


text: University of Helsinki

text: public

text: ArrayExpress

text: fruit fly

characteristic: common name

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fresh specimen


text: Homo sapiens

characteristic: ArrayExpress-Species

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: EMBL-EBI

text: public

text: ArrayExpress

text: baker's yeast

text: Protocols: Montalcino Grape, Cavalieri et al 2000 (PMID: 11035792). Cells were grown in YPD liquid medium for genomic DNA extraction DNA was extracted from 10 raise to 9 pelleted cells with the Qiagen Genomic DNA Isolation Kit following the manufacturer's instructions. Libraries were constructed using Illumina TruSeq DNA Sample Prep standard protocol. Briefly, 5 ug of high molecular weight genomic DNA (gDNA) was fragmented by Covaris sonication device. Following sonication, DNA fragments were end-repaired and A-tailed. Adapters were then ligated via a 3 prime thymine overhang. Finally, ligated fragments were amplified by PCR (10 cycles). insert sizes were about 400-500 bp as evaluated in an Agilent DNA 1000 Analyzer Chip.

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: frozen specimen

characteristic: specimen with known storage state

characteristic: strain


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SRA-Webin

characteristic: ENA-SUBMISSION-TOOL

text: IMSB

text: public

text: apple

text: McIntosh

characteristic: cultivar

text: genomic DNA isolated from leaves of an adult McIntosh apple tree

text: Germany

characteristic: geographic location (country and/or sea)

text: Malus domestica

text: Malus domestica


text: SRA-Webin

characteristic: External Id

text: IMSB

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: apple

text: McIntosh Wijcik

text: genomic DNA isolated from leaves of an adult columnar McIntosh Wijcik apple tree

text: Germany

text: Malus domestica

text: Malus domestica


E-MTAB-1633:Pbx IIBA IP

text: University of Manchester

text: public

text: E-MTAB-1633:Pbx IIBA IP

tag: Namespace:University of Manchester

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: house mouse

text: Protocols: The preparation of the material was as described in Kutejova et al., 2008. Second branchial arches are dissected (the whole tissue), crosslinked and frozen in order to pool enough for ChIP. Kutejova E, Engist B, Self M, Oliver G, Kirilenko P, Bobola N. Six2 functions redundantly immediately downstream of Hoxa2. Development. 2008. 135(8):1463-70. PMID: 18321982. ChIP assays were performed as described in Kutejova et al., 2008, with the following modifications for ChIP-seq. The crosslinked material was sonicated to 300 bp fragments (Vibracell sonicator, Sonics: 8 times for 10 seconds at 50% output). Immunoprecipitation was performed starting from 12 pairs of second branchial arches from E11.5 embryos and incubating overnight at 4oC with 3 ug of pan-Pbx antibodies or control IgG (Kutejova et al., 2008), followed by protein A beads (Invitrogen). Kutejova E, Engist B, Self M, Oliver G, Kirilenko P, Bobola N. Six2 functions redundantly immediately downstream of Hoxa2. Development. 2008. 135(8):1463-70. PMID: 18321982.

characteristic: description

text: embryo

characteristic: developmental stage

text: 11.5 day

characteristic: gestational age

text: Mus musculus

characteristic: organism

text: Mus musculus

text: second branchial arch

characteristic: organism part

text: Mus musculus

text: mixed sex

characteristic: sex

text: Pbx IIBA IP

characteristic: title


E-MTAB-1633:Pbx IIBA input

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: University of Manchester

text: public

text: E-MTAB-1633:Pbx IIBA input

text: ArrayExpress

text: house mouse

characteristic: common name

text: embryo

text: 11.5 day

text: Mus musculus

text: Mus musculus

text: second branchial arch

text: Mus musculus

text: mixed sex

text: Pbx IIBA input


text: Plasmodium vivax

characteristic: ArrayExpress-Species

characteristic: External Id

text: SC

characteristic: INSDC center name

text: public

text: malaria parasite P. vivax

text: Plasmodium vivax

text: Plasmodium vivax


characteristic: ENA-CHECKLIST

text: SRA-Webin

characteristic: ENA-SUBMISSION-TOOL

text: IMSB

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: apple

text: McIntosh

characteristic: cultivar

text: total RNA extracted from leaves of adult McIntosh apple trees

text: Germany

characteristic: geographic location (country and/or sea)

text: Malus domestica

text: Malus domestica


text: SRA-Webin

text: IMSB

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: apple

text: McIntosh Wijcik

text: total RNA extracted from leaves of adult columnar McIntosh Wijcik trees

characteristic: description

text: Germany

text: Malus domestica

characteristic: organism

text: Malus domestica


characteristic: ENA-FIRST-PUBLIC

text: AZ

text: public

text: E-MTAB-1627:Calu6_Xenograft_Treated_rep2

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: human

text: Protocols: Cells for tumour implantation were grown in DMEM supplemented with glutamine and 10% foetal calf serum and implanted subcutaneously in nude mice. ~50mg of tissue were cut from the frozen tumours and RNA isolated using the RNeasy Lipid Tissue Mini Kit (Qiagen) according to manufacturer's instructions. On-column DNase digestion was performed using the RNase-free DNase Kit (Qiagen). Total RNA was cleaned using the Ribominus concentration module (Invitrogen) and rRNA depletion was carried out with the Dynabeads mRNA purification kit (Invitrogen). Libraries enriched with polyA mRNA suitable for sequencing by the SOLiD platform were created using the SOLiD Total RNA Seq Kit supplied by Applied Biosystems in combination with the SOLiD RNA Barcoding Kit, Module 1-16. In each instance, RNase III digested polyA RNA was used as input into library creation and 15 cycles of amplification were employed to produce the final libraries.

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: frozen sample

characteristic: specimen with known storage state

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: AZ

characteristic: INSDC center name

text: public

text: E-MTAB-1627:Calu6_Xenograft_Control_rep2

text: ArrayExpress

text: human

characteristic: common name

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: frozen sample


text: AZ

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

text: LoVo

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: frozen sample


text: AZ

text: public

characteristic: INSDC status

text: E-MTAB-1627:Calu6_Xenograft_Control_rep1

text: ArrayExpress

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: frozen sample


text: AZ

text: public

text: E-MTAB-1627:Calu6_Xenograft_Treated_rep1

text: ArrayExpress

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: frozen sample


text: public

tag: Namespace:National Bureau of Plant Genetic Resources, New Delhi, India

text: ArrayExpress

text: sorghum

text: Protocols: Sorghum (Sorghum bicolor (L.) Moench) genotype drought tolerant and drought susceptible were grown at 28-32 degrees C day/night temperature with 12/12 h light/dark period in the phytotron glass house. Thirty days after sowing, drought stress was imposed by withholding the irrigation to one set of plants till the leaf relative water content reached to about 60-65%. Total RNA was isolated from the leaves using the TRIzol reagent (Invitrogen, USA), according to the manufacturer's protocol. The RNA quality was examined using gel electrophoresis (28S:18S > 1.5) and Bioanalyzer (Agilent 2100, RIN = 8.0). Small RNA sequencing libraries were prepared using Illumina Truseq small RNA Library preparation kit following manufacturer's protocol.

text: 30 days old leaf

characteristic: developmental stage

text: no drought stress

characteristic: environmental stress

text: drought susceptible

characteristic: genotype

text: Sorghum bicolor

text: Sorghum bicolor

text: leaf

characteristic: organism part

text: Sorghum bicolor

text: frozen specimen


text: EBI

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Urmia

text: Kaboudan

text: Asiatic mouflon

text: Asiatic Mouflon IROO-D6-0006 from NextGen project

characteristic: description

text: 108 months

characteristic: estimated age

text: Iran

characteristic: geographic location (country and/or sea)

text: 37.485 degrees

characteristic: latitude

text: 45.599 degrees

characteristic: longitude

text: Ovis orientalis

characteristic: organism

characteristic: sampling date

text: Ovis orientalis

text: male

characteristic: sex

text: Ovis orientalis


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EBI

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: urumie

text: Kaboudan

text: Asiatic mouflon

characteristic: common name

text: Asiatic Mouflon IROO-D6-5104 from NextGen project

text: 96 months

text: Iran

text: 37.48705 degrees

text: 45.63713 degrees

text: Ovis orientalis

text: Ovis orientalis

text: male

text: Ovis orientalis

characteristic: title


text: EBI

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Hamedan

text: Asiatic mouflon

text: Asiatic Mouflon IROO-J11-0602 from NextGen project

text: Iran

text: 34.704635 degrees

text: 48.862971 degrees

text: Ovis orientalis

text: Ovis orientalis

text: female

text: Ovis orientalis


text: EBI

text: public

characteristic: Submitter Id

text: Hamedan

text: Asiatic mouflon

text: Asiatic Mouflon IROO-J11-0905 from NextGen project

characteristic: description

text: 60 months

characteristic: estimated age

text: Iran

text: 34.643225 degrees

text: 48.621857 degrees

text: Ovis orientalis

text: Ovis orientalis

text: male

text: Ovis orientalis


text: EBI

text: public

text: Golpayegan

text: Mute

text: Asiatic mouflon

text: Asiatic Mouflon IROO-N13-5061 from NextGen project

text: 24 months

text: Iran

characteristic: geographic location (country and/or sea)

text: 33.697 degrees

characteristic: latitude

text: 50.804 degrees

characteristic: longitude

text: Ovis orientalis

text: Ovis orientalis

text: female

text: Ovis orientalis


text: National Bureau of Plant Genetic Resources, New Delhi, India

text: public

text: ArrayExpress

characteristic: broker name

text: sorghum

text: 30 days old leaf

characteristic: developmental stage

text: drought stress

characteristic: environmental stress

text: drought tolerant

characteristic: genotype

text: Sorghum bicolor

characteristic: organism

text: Sorghum bicolor

text: leaf

characteristic: organism part

text: Sorghum bicolor

text: frozen specimen

characteristic: specimen with known storage state


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: sorghum

characteristic: common name

text: 30 days old leaf

text: no drought stress

text: drought tolerant

text: Sorghum bicolor

text: Sorghum bicolor

text: leaf

text: Sorghum bicolor

text: frozen specimen

characteristic: title


text: Anopheles gambiae

characteristic: ArrayExpress-Species

text: SC

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: African malaria mosquito

text: Anopheles gambiae

text: Anopheles gambiae


text: public

tag: Namespace:Department of Biochemistry, University of Cambridge, UK

text: ArrayExpress

characteristic: broker name

text: fission yeast

text: Protocols: Cells were grown in Edinburgh Minimal Medium (EMM; Moreno et al., 1991, Methods Enzymol. 194, 795-823.) at 32C. RNA was extracted using a hot phenol extraction method as described in Lyne et al. (2003) BMC Genomics 4:27 Total RNA was prepared using a hot-phenol extraction protocol. 10 ug of poly(A) selected mRNA were incubated with 1/9 volume of RNA fragmentation reagents (Ambion, Life Technologies) at 70 degrees C for 4 min 30 sec. The reaction was stopped by adding 1/9 volume of stop solution (Ambion, Life Technologies) and transferring the samples to 4 degrees C. Polyadenylated fragmented RNA was purified using oligo(dT) magnetic beads (Life Technologies). 200 ul of beads were washed in binding buffer (20 mM Tris-HCl pH 7.0, 2 mM EDTA, 1 M LiCl). 50 ul of binding buffer was added to 50 ul of fragmented RNA, and the mix was incubated at 65 degrees C for 2 minutes and then transferred on ice. The RNA was then added to the beads, and incubated at room temperature for 5 minutes. The beads were washed twice in wash buffer (10 mM Tris-HCl pH 7.0, 1 mM EDTA, 0.15 M LiCl). RNA was eluted by resuspending the beads in 22 ul of 10 mM Tris pH 8.0 and incubating at 80 degrees C for 2 minutes. The remaining RNA in lysis buffer was incubated with the beads once more and washed as described above, and the two eluates combined. For reverse transcription, 11 ul of purified RNA fragments were mixed with 1 ul of 10 mM dNTPs and 1 ul of 50 uM RT primer, incubated at 65 degrees C for 5 minutes and transferred to ice. 4 ul of 5X FFS buffer (Invitrogen, Life Technologies), 1 ul of SuperaseIN (Ambion, Life Technologies), 1 ul of 0.1 M DTT and 1 ul of Superscript III (Invitrogen, Life Technologies) were added, and the reaction incubated at 48 degrees C for 40 minutes. RNA was hydrolyzed by adding 2.3 ul of 1 M NaOH and incubating at 95 degrees C for 15 minutes, and the solution neutralized with 2.3 ul of 1 M HCl. The cDNA was purified using Agencourt AMPure magnetic beads (Beckman Coulter). 46 ul of beads were added to the cDNA solution (~1.85 volumes), and the beads washed twice with 180 ul of freshly prepared 70 % ethanol. The cDNA was eluted by resuspending the beads in 40 ul of water. A second round of purification was performed as above, except that a lower ratio of beads to sample (1.6 volumes) was used. This second round is essential for the complete removal of leftover RT primer, which can otherwise circularise and be amplified by PCR. 8 ul of cDNA were circularised using Circligase II (Epicentre) as follows: 0.5 ul of 50 mM MnCl2, 1 ul of 10X Reaction buffer and 0.5 ul of enzyme were added, and the reaction incubated at 60 degrees C for 60 minutes and at 80 degrees C for 10 minutes. PCR amplification was performed using Phusion High Fidelity Polymerase (Thermo Scientific). 2 ul of circularised cDNA were used as a template, and amplified in a 50 ul volume as described by the manufacture. Primers P3 and P5 were used at a final concentration of 0.2 uM. PCR amplification was performed in two steps: four cycles using an annealing temperature of 66 degrees C, followed by a variable number of cycles at 72 degrees C. Small scale reactions were performed to determine the optimal number of cycles, which ranged between 12 and 18 (including both stages).

characteristic: description

text: Schizosaccharomyces pombe

text: Schizosaccharomyces pombe

text: Schizosaccharomyces pombe

text: 972 h-

characteristic: strain


text: Department of Biochemistry, University of Cambridge, UK

text: public

text: ArrayExpress

text: fission yeast

text: Schizosaccharomyces pombe

characteristic: organism

text: Schizosaccharomyces pombe

text: Schizosaccharomyces pombe

text: 972 h-


E-MTAB-1631:Meis IBA IP exp1

text: University of Manchester

text: public

text: E-MTAB-1631:Meis IBA IP exp1

text: ArrayExpress

text: house mouse

text: Protocols: The preparation of the material was as described in Kutejova et al., 2008. First branchial arches are dissected (the whole tissue), crosslinked and frozen in order to pool enough for ChIP. Kutejova E, Engist B, Self M, Oliver G, Kirilenko P, Bobola N. Six2 functions redundantly immediately downstream of Hoxa2. Development. 2008. 135(8):1463-70. PMID: 18321982. ChIP assays were performed as described in Kutejova et al., 2008, with the following modifications for ChIP-seq. The crosslinked material was sonicated to 300 bp fragments (Vibracell sonicator, Sonics: 8 times for 10 seconds at 50% output). Immunoprecipitation was performed starting from 12 pairs of first branchial arches from E11.5 embryos and incubating overnight at 4oC with 3 ug of pan-Meis antibodies or control IgG (Kutejova et al., 2008), followed by protein A beads (Invitrogen). Kutejova E, Engist B, Self M, Oliver G, Kirilenko P, Bobola N. Six2 functions redundantly immediately downstream of Hoxa2. Development. 2008. 135(8):1463-70. PMID: 18321982.

text: embryo

characteristic: developmental stage

text: 11.5 day

characteristic: gestational age

text: Mus musculus

text: Mus musculus

text: first branchial arch

characteristic: organism part

text: Mus musculus

text: mixed sex

characteristic: sex

text: Meis IBA IP exp1


E-MTAB-1631:Meis IBA input exp1

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Manchester

characteristic: INSDC center name

text: public

text: E-MTAB-1631:Meis IBA input exp1

text: ArrayExpress

text: house mouse

text: embryo

text: 11.5 day

text: Mus musculus

text: Mus musculus

text: first branchial arch

text: Mus musculus

text: mixed sex

text: Meis IBA input exp1


E-MTAB-1631:Meis IBA IP exp2

text: University of Manchester

characteristic: INSDC first public

text: public

text: E-MTAB-1631:Meis IBA IP exp2

text: ArrayExpress

text: house mouse

characteristic: common name

text: embryo

text: 11.5 day

text: Mus musculus

text: Mus musculus

text: first branchial arch

text: Mus musculus

text: mixed sex

text: Meis IBA IP exp2

characteristic: title


text: Danio rerio

characteristic: ArrayExpress-Species

text: SC

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ILBZfGRC5521619-sc-2013-04-26T15:11:36Z-1616796

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521620-sc-2013-04-26T15:11:37Z-1616797

characteristic: Submitter Id

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521622-sc-2013-04-26T15:11:40Z-1616799

text: zebrafish

text: Danio rerio

characteristic: organism

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521623-sc-2013-04-26T15:11:42Z-1616800

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521625-sc-2013-04-26T15:11:44Z-1616802

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521626-sc-2013-04-26T15:11:45Z-1616803

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521628-sc-2013-04-26T15:11:48Z-1616805

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521629-sc-2013-04-26T15:11:49Z-1616806

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521631-sc-2013-04-26T15:11:52Z-1616808

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521632-sc-2013-04-26T15:11:53Z-1616809

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521634-sc-2013-04-26T15:11:55Z-1616811

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521635-sc-2013-04-26T15:11:57Z-1616812

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521637-sc-2013-04-26T15:11:59Z-1616814

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521638-sc-2013-04-26T15:12:00Z-1616815

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521640-sc-2013-04-26T15:12:02Z-1616817

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521641-sc-2013-04-26T15:12:03Z-1616818

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521643-sc-2013-04-26T15:12:07Z-1616820

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521644-sc-2013-04-26T15:12:08Z-1616821

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521646-sc-2013-04-26T15:12:10Z-1616823

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521647-sc-2013-04-26T15:12:11Z-1616824

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521649-sc-2013-04-26T15:12:13Z-1616826

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521650-sc-2013-04-26T15:12:15Z-1616827

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521652-sc-2013-04-26T15:12:17Z-1616829

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521653-sc-2013-04-26T15:12:18Z-1616830

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521655-sc-2013-04-26T15:12:20Z-1616832

text: zebrafish

text: Danio rerio

text: Danio rerio


E-MTAB-1632:Meis IIBA IP exp1

text: University of Manchester

text: public

text: E-MTAB-1632:Meis IIBA IP exp1

text: ArrayExpress

characteristic: broker name

text: house mouse

text: Protocols: The preparation of the material was as described in Kutejova et al., 2008. Second branchial arches are dissected (the whole tissue), crosslinked and frozen in order to pool enough for ChIP. Kutejova E, Engist B, Self M, Oliver G, Kirilenko P, Bobola N. Six2 functions redundantly immediately downstream of Hoxa2. Development. 2008. 135(8):1463-70. PMID: 18321982. ChIP assays were performed as described in Kutejova et al., 2008, with the following modifications for ChIP-seq. The crosslinked material was sonicated to 300 bp fragments (Vibracell sonicator, Sonics: 8 times for 10 seconds at 50% output). Immunoprecipitation was performed starting from 12 pairs of second branchial arches from E11.5 embryos and incubating overnight at 4oC with 3 ug of pan-Meis antibodies or control IgG (Kutejova et al., 2008), followed by protein A beads (Invitrogen). Kutejova E, Engist B, Self M, Oliver G, Kirilenko P, Bobola N. Six2 functions redundantly immediately downstream of Hoxa2. Development. 2008. 135(8):1463-70. PMID: 18321982.

characteristic: description

text: embryo

characteristic: developmental stage

text: 11.5 day

text: Mus musculus

text: Mus musculus

text: second branchial arch

text: Mus musculus

text: mixed sex

text: Meis IIBA IP exp1


E-MTAB-1632:Meis IIBA input exp2

text: University of Manchester

text: public

text: E-MTAB-1632:Meis IIBA input exp2

text: ArrayExpress

text: house mouse

text: embryo

text: 11.5 day

characteristic: gestational age

text: Mus musculus

text: Mus musculus

text: second branchial arch

characteristic: organism part

text: Mus musculus

text: mixed sex

characteristic: sex

text: Meis IIBA input exp2


E-MTAB-1632:Meis IIBA IP exp2

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Manchester

text: public

text: E-MTAB-1632:Meis IIBA IP exp2

text: ArrayExpress

text: house mouse

text: embryo

text: 11.5 day

text: Mus musculus

text: Mus musculus

text: second branchial arch

text: Mus musculus

text: mixed sex

text: Meis IIBA IP exp2


text: Danio rerio

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ILBZfGRC5521659-sc-2013-04-26T15:12:25Z-1616836

text: zebrafish

characteristic: common name

text: Danio rerio

text: Danio rerio


text: Danio rerio

characteristic: ArrayExpress-Species

text: SC

characteristic: INSDC last update

text: public

text: ILBZfGRC5521661-sc-2013-04-26T15:12:27Z-1616838

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ILBZfGRC5521662-sc-2013-04-26T15:12:29Z-1616839

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521664-sc-2013-04-26T15:12:31Z-1616841

characteristic: Submitter Id

text: zebrafish

text: Danio rerio

characteristic: organism

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521665-sc-2013-04-26T15:12:32Z-1616842

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521667-sc-2013-04-26T15:12:34Z-1616844

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521668-sc-2013-04-26T15:12:37Z-1616845

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521670-sc-2013-04-26T15:12:39Z-1616847

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521671-sc-2013-04-26T15:12:40Z-1616848

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521673-sc-2013-04-26T15:12:43Z-1616850

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521674-sc-2013-04-26T15:12:44Z-1616851

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521676-sc-2013-04-26T15:12:47Z-1616853

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521677-sc-2013-04-26T15:12:48Z-1616854

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521679-sc-2013-04-26T15:12:53Z-1616856

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521680-sc-2013-04-26T15:12:55Z-1616857

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521682-sc-2013-04-26T15:12:57Z-1616859

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521683-sc-2013-04-26T15:12:58Z-1616860

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521685-sc-2013-04-26T15:13:00Z-1616862

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521686-sc-2013-04-26T15:13:01Z-1616863

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521688-sc-2013-04-26T15:13:03Z-1616865

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521689-sc-2013-04-26T15:13:05Z-1616866

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521691-sc-2013-04-26T15:13:07Z-1616868

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521692-sc-2013-04-26T15:13:11Z-1616869

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521694-sc-2013-04-26T15:13:13Z-1616871

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521695-sc-2013-04-26T15:13:15Z-1616872

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Plasmodium vivax

text: SC

text: public

text: malaria parasite P. vivax

text: Plasmodium vivax

text: Plasmodium vivax


text: Plasmodium vivax

text: SC

text: public

text: 543STDY5515716-sc-2013-04-29T10:41:08Z-1610484

text: malaria parasite P. vivax

text: Plasmodium vivax

text: Plasmodium vivax


text: 24 hpf

characteristic: ArrayExpress-DevelopmentalStage

text: Wildtype

characteristic: ArrayExpress-Genotype

text: Danio rerio

text: SAT/WIK

characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

text: fSAT_mWIK_A_24h-sc-2013-05-02T10:40:55Z-1621630

text: zebrafish

text: Danio rerio

text: Whole embryo RNA

characteristic: sample description

text: Danio rerio

text: SAT/WIK

characteristic: strain


text: 48 hpf

text: Wildtype

text: Danio rerio

text: SAT/WIK

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: fSAT_mWIK_B_48h-sc-2013-05-02T10:41:01Z-1621633

text: zebrafish

text: Danio rerio

text: Whole embryo RNA

text: Danio rerio

text: SAT/WIK


text: 24 hpf

text: Wildtype

text: Danio rerio

text: WIK/SAT

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: fWIK_mSAT_B_24h-sc-2013-05-02T10:41:05Z-1621636

text: zebrafish

text: Danio rerio

text: Whole embryo RNA

text: Danio rerio

text: WIK/SAT


text: Danio rerio

characteristic: External Id

text: SC

text: public

text: ILBZfGRC5521698-sc-2013-04-26T15:13:19Z-1616875

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

characteristic: INSDC center name

text: public

text: ILBZfGRC5521700-sc-2013-04-26T15:13:21Z-1616877

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

characteristic: INSDC first public

text: public

text: ILBZfGRC5521701-sc-2013-04-26T15:13:22Z-1616878

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521703-sc-2013-04-26T15:13:24Z-1616880

text: zebrafish

characteristic: common name

text: Danio rerio

text: Danio rerio


text: Danio rerio

characteristic: ArrayExpress-Species

text: SC

text: public

text: ILBZfGRC5521704-sc-2013-04-26T15:13:25Z-1616881

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

characteristic: INSDC last update

text: public

text: ILBZfGRC5521706-sc-2013-04-26T15:13:27Z-1616883

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

characteristic: INSDC status

text: ILBZfGRC5521707-sc-2013-04-26T15:13:28Z-1616884

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

characteristic: SRA accession

text: ILBZfGRC5521709-sc-2013-04-26T15:13:31Z-1616886

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521712-sc-2013-04-26T15:13:34Z-1616889

characteristic: Submitter Id

text: zebrafish

text: Danio rerio

text: Danio rerio


text: 48 hpf

text: Wildtype

text: Danio rerio

text: SAT/WIK

text: SC

text: public

text: fSAT_mWIK_A_48h-sc-2013-05-02T10:40:58Z-1621631

text: zebrafish

text: Danio rerio

characteristic: organism

text: Whole embryo RNA

text: Danio rerio

text: SAT/WIK


text: 24 hpf

characteristic: ArrayExpress-DevelopmentalStage

text: Wildtype

text: Danio rerio

text: SAT/WIK

text: SC

text: public

text: fSAT_mWIK_B_24h-sc-2013-05-02T10:41:00Z-1621632

text: zebrafish

text: Danio rerio

text: Whole embryo RNA

text: Danio rerio

text: SAT/WIK


text: 24 hpf

text: Wildtype

characteristic: ArrayExpress-Genotype

text: Danio rerio

text: WIK/SAT

text: SC

text: public

text: fWIK_mSAT_A_24h-sc-2013-05-02T10:41:02Z-1621634

text: zebrafish

text: Danio rerio

text: Whole embryo RNA

text: Danio rerio

text: WIK/SAT


text: 48 hpf

text: Wildtype

text: Danio rerio

text: WIK/SAT

characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

text: fWIK_mSAT_A_48h-sc-2013-05-02T10:41:03Z-1621635

text: zebrafish

text: Danio rerio

text: Whole embryo RNA

text: Danio rerio

text: WIK/SAT


text: 48 hpf

text: Wildtype

text: Danio rerio

text: WIK/SAT

text: SC

text: public

text: fWIK_mSAT_B_48h-sc-2013-05-02T10:41:06Z-1621637

text: zebrafish

text: Danio rerio

text: Whole embryo RNA

characteristic: sample description

text: Danio rerio

text: WIK/SAT


text: EMBL European Bioinformatics Institute

text: public

tag: Namespace:EMBL European Bioinformatics Institute

text: 2 week

characteristic: age

text: ArrayExpress

characteristic: broker name

text: Japanese rice

text: Nipponbare

characteristic: cultivar

text: Protocols: Oryza sativa L. japonica nipponbare seedlings were grown in growth chambers to the 2-3 leaf stage. At 2 weeks old, they were subjected to salt stress treatment by watering with 300 mM NaCl solution (or normal watering for control plants). Treatment was applied at 10:00 PST (2 hours post-dawn). Seedling shoots (stem and leaves) were sampled at 1 hour, 5 hours, and 24 hours post-treatment. Total cellular RNA was extracted using RNA Plant Reagent (Life Technologies) and treated with RNase-free Turbo DNase (Life Technologies) followed by a clean-up step using Plant RNeasy kits (Qiagen). Concentration, integrity and extent of contamination by ribosomal RNA were assessed using ND-1000 spectrophotometer (Thermo Fisher Scientific) and Bioanalyzer 2100 (Agilent Technologies). For details see Fox et al. (2009) Applications for Ultra-high-Throughput Sequencing. In: Belostotsky (ed.), Plant Systems Biology, vol. 553, pp. 79--108. Libraries were prepared using the TruSeq(TM) RNA Sample Preparation Kits (v2).

characteristic: description

text: seedling, two leaves visible, three leaves visible

characteristic: developmental stage

text: Oryza sativa Japonica Group

text: Oryza sativa Japonica Group

text: shoot axis, vascular leaf

characteristic: organism part

text: Oryza sativa Japonica Group

characteristic: title


text: Plasmodium vivax

characteristic: ArrayExpress-Species

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: malaria parasite P. vivax

characteristic: common name

text: Plasmodium vivax

text: Plasmodium vivax


text: Homo sapiens

text: SC

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: human

text: Homo sapiens

characteristic: organism

text: Homo sapiens


text: ES Cells

characteristic: ArrayExpress-CellType

text: NanogGFP

characteristic: ArrayExpress-Genotype

text: male

characteristic: ArrayExpress-Sex

text: Mus Musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: BSSeq from ESCs

characteristic: sample description

text: Mus musculus


text: Anopheles gambiae

text: SC

text: public

text: African malaria mosquito

text: Anopheles gambiae

text: Anopheles gambiae


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521618-sc-2013-04-26T15:11:32Z-1616795

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521624-sc-2013-04-26T15:11:43Z-1616801

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521627-sc-2013-04-26T15:11:47Z-1616804

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521630-sc-2013-04-26T15:11:50Z-1616807

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521633-sc-2013-04-26T15:11:54Z-1616810

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521636-sc-2013-04-26T15:11:58Z-1616813

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521639-sc-2013-04-26T15:12:01Z-1616816

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521642-sc-2013-04-26T15:12:05Z-1616819

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521645-sc-2013-04-26T15:12:09Z-1616822

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521648-sc-2013-04-26T15:12:12Z-1616825

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521651-sc-2013-04-26T15:12:16Z-1616828

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521654-sc-2013-04-26T15:12:19Z-1616831

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521660-sc-2013-04-26T15:12:26Z-1616837

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521663-sc-2013-04-26T15:12:30Z-1616840

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521666-sc-2013-04-26T15:12:33Z-1616843

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521669-sc-2013-04-26T15:12:38Z-1616846

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521672-sc-2013-04-26T15:12:41Z-1616849

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521675-sc-2013-04-26T15:12:45Z-1616852

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521678-sc-2013-04-26T15:12:49Z-1616855

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521681-sc-2013-04-26T15:12:56Z-1616858

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521684-sc-2013-04-26T15:12:59Z-1616861

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521687-sc-2013-04-26T15:13:02Z-1616864

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521690-sc-2013-04-26T15:13:06Z-1616867

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521696-sc-2013-04-26T15:13:16Z-1616873

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521699-sc-2013-04-26T15:13:20Z-1616876

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521702-sc-2013-04-26T15:13:23Z-1616879

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521705-sc-2013-04-26T15:13:26Z-1616882

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521708-sc-2013-04-26T15:13:30Z-1616885

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: ILBZfGRC5521711-sc-2013-04-26T15:13:33Z-1616888

text: zebrafish

text: Danio rerio

text: Danio rerio


characteristic: ENA-CHECKLIST

text: SRA-Webin

characteristic: ENA-SUBMISSION-TOOL

text: UNIV-WUE

text: public

text: red mason bee

text: outward bound nest

characteristic: description

text: Osmia bicornis

text: Osmia bicornis

text: Chambers

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SRA-Webin

characteristic: External Id

text: UNIV-WUE

text: public

text: red mason bee

text: inward bound nest

text: Osmia bicornis

text: Osmia bicornis

text: Chambers


text: Wildtype

text: Olfactory epithelium

characteristic: ArrayExpress-OrganismPart

text: male

text: Rattus norvegicus

characteristic: ArrayExpress-Species

text: Brown Norway

characteristic: ArrayExpress-StrainOrLine

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Norway rat

characteristic: common name

text: Rattus norvegicus

text: RN_OE3 : Protocols: 3 grouped housed male and female Brown Norway rats were euthanized at 10 weeks their olfactory epithelium were dissected and the RNA was extracted immediately and stored at -80 degrees Celsius. RNA was extracted using the RNAeasy kit using a disposable Rance free plastic grinder to homogenize the sample according to manufactor's instructions. All RNA was subsequently quantified with a UV-Vis spectrophotometer and visualized for quality using RNA integrity analysis.

text: Rattus norvegicus

text: Brown Norway

characteristic: strain


text: Wildtype

characteristic: ArrayExpress-Genotype

text: Vomeronasal organ

text: male

text: Rattus norvegicus

text: Brown Norway

text: SC

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Norway rat

text: Rattus norvegicus

characteristic: organism

text: RN_VNO3 : Protocols: 3 grouped housed male and female Brown Norway rats were euthanized at 10 weeks their vomeronasal organs were dissected and the RNA was extracted immediately and stored at -80 degrees Celsius. RNA was extracted using the RNAeasy kit using a disposable Rance free plastic grinder to homogenize the sample according to manufactor's instructions. All RNA was subsequently quantified with a UV-Vis spectrophotometer and visualized for quality using RNA integrity analysis.

text: Rattus norvegicus

text: Brown Norway


text: Mouse

text: SC

text: public

text: SC_PLXm5529205-sc-2013-05-09T16:01:10Z-1624699

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mouse

text: SC

text: public

text: SC_PLXm5529208-sc-2013-05-09T16:01:15Z-1624702

text: house mouse

text: Mus musculus

text: Mus musculus


text: ERIBA, RuG , UMC Groningen

text: public

tag: Namespace:ERIBA, RuG , UMC Groningen

text: 6 week

characteristic: age

text: ArrayExpress

characteristic: broker name

text: Norway rat

text: Protocols: Animals were grown in animal facility RNA was extracted with standard Invitrogen Trizol kit Depletion of rRNA using Ribo-minus enriched paired-end libraries for SOLiD sequencer were constructed according to Applied Biosystems protocol

characteristic: description

text: adult

characteristic: developmental stage

text: hypertension

characteristic: disease state

text: Rattus norvegicus

text: Rattus norvegicus

text: liver

characteristic: organism part

text: Rattus norvegicus

text: frozen specimen

characteristic: specimen with known storage state

text: SHR/OlaIpcv

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: ERIBA, RuG , UMC Groningen

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: 6 week

text: ArrayExpress

text: Norway rat

text: adult

text: normal

text: Rattus norvegicus

text: Rattus norvegicus

text: liver

text: Rattus norvegicus

text: frozen specimen

text: BN-Lx/Cub


text: Wildtype

characteristic: ArrayExpress-Genotype

text: Olfactory epithelium

characteristic: ArrayExpress-OrganismPart

text: male

characteristic: ArrayExpress-Sex

text: Rattus norvegicus

characteristic: ArrayExpress-Species

text: Brown Norway

characteristic: ArrayExpress-StrainOrLine

text: SC

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Norway rat

characteristic: common name

text: Rattus norvegicus

text: RN_OE1 : Protocols: 3 grouped housed male and female Brown Norway rats were euthanized at 10 weeks their olfactory epithelium were dissected and the RNA was extracted immediately and stored at -80 degrees Celsius. RNA was extracted using the RNAeasy kit using a disposable Rance free plastic grinder to homogenize the sample according to manufactor's instructions. All RNA was subsequently quantified with a UV-Vis spectrophotometer and visualized for quality using RNA integrity analysis.

characteristic: sample description

text: Rattus norvegicus

text: Brown Norway

characteristic: strain


text: Wildtype

text: Vomeronasal organ

text: male

text: Rattus norvegicus

text: Brown Norway

text: SC

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Norway rat

text: Rattus norvegicus

characteristic: organism

text: RN_VNO1 : Protocols: 3 grouped housed male and female Brown Norway rats were euthanized at 10 weeks their vomeronasal organs were dissected and the RNA was extracted immediately and stored at -80 degrees Celsius. RNA was extracted using the RNAeasy kit using a disposable Rance free plastic grinder to homogenize the sample according to manufactor's instructions. All RNA was subsequently quantified with a UV-Vis spectrophotometer and visualized for quality using RNA integrity analysis.

text: Rattus norvegicus

text: Brown Norway


text: Mouse

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: SC_PLXm5529203-sc-2013-05-09T16:01:01Z-1624697

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mouse

characteristic: External Id

text: SC

characteristic: INSDC center name

text: public

text: SC_PLXm5529206-sc-2013-05-09T16:01:12Z-1624700

text: house mouse

text: Mus musculus

text: Mus musculus


text: Dracunculus medinensis

text: Chad

text: SC

characteristic: INSDC first public

text: public

text: Dracunculus_medinensis-sc-2013-05-15T10:56:25Z-1629044

text: Guinea worm

text: Dracunculus medinensis

text: adult worm, dog host

text: Dracunculus medinensis

text: Chad


text: Plasmodium falciparum

text: SC

text: public

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: Plasmodium falciparum


characteristic: ENA-CHECKLIST

text: SRA-Webin

characteristic: ENA-SUBMISSION-TOOL

text: IPK-Gatersleben

text: public

text: domesticated barley

text: Exome capture of Barley cv. Barke

characteristic: description

text: Hordeum vulgare subsp. vulgare

text: Hordeum vulgare subsp. vulgare

text: Barke

characteristic: title


text: Wildtype

characteristic: ArrayExpress-Genotype

text: Olfactory epithelium

characteristic: ArrayExpress-OrganismPart

text: male

characteristic: ArrayExpress-Sex

text: Rattus norvegicus

characteristic: ArrayExpress-Species

text: Brown Norway

characteristic: ArrayExpress-StrainOrLine

text: SC

characteristic: INSDC last update

text: public

text: Norway rat

text: Rattus norvegicus

text: RN_OE2 : Protocols: 3 grouped housed male and female Brown Norway rats were euthanized at 10 weeks their olfactory epithelium were dissected and the RNA was extracted immediately and stored at -80 degrees Celsius. RNA was extracted using the RNAeasy kit using a disposable Rance free plastic grinder to homogenize the sample according to manufactor's instructions. All RNA was subsequently quantified with a UV-Vis spectrophotometer and visualized for quality using RNA integrity analysis.

text: Rattus norvegicus

text: Brown Norway


text: Wildtype

text: Vomeronasal organ

text: male

text: Rattus norvegicus

text: Brown Norway

text: SC

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Norway rat

characteristic: common name

text: Rattus norvegicus

text: RN_VNO2 : Protocols: 3 grouped housed male and female Brown Norway rats were euthanized at 10 weeks their vomeronasal organs were dissected and the RNA was extracted immediately and stored at -80 degrees Celsius. RNA was extracted using the RNAeasy kit using a disposable Rance free plastic grinder to homogenize the sample according to manufactor's instructions. All RNA was subsequently quantified with a UV-Vis spectrophotometer and visualized for quality using RNA integrity analysis.

characteristic: sample description

text: Rattus norvegicus

text: Brown Norway

characteristic: strain


text: Mouse

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: SC_PLXm5529204-sc-2013-05-09T16:01:07Z-1624698

text: house mouse

text: Mus musculus

characteristic: organism

text: Mus musculus


text: Mouse

text: SC

text: public

text: SC_PLXm5529207-sc-2013-05-09T16:01:13Z-1624701

text: house mouse

text: Mus musculus

text: Mus musculus


text: Dracunculus medinensis

text: Chad

text: SC

text: public

text: Dracunculus_medinensis-sc-2013-05-15T10:56:15Z-1629043

text: Guinea worm

text: Dracunculus medinensis

text: adult worm, dog host

text: Dracunculus medinensis

text: Chad


characteristic: ENA-CHECKLIST

text: SRA-Webin

characteristic: ENA-SUBMISSION-TOOL

text: IPK-Gatersleben

text: public

text: domesticated barley

text: Exome capture of Barley cv. Bowman

characteristic: description

text: Hordeum vulgare subsp. vulgare

text: Hordeum vulgare subsp. vulgare

text: Bowman

characteristic: title


text: SRA-Webin

text: IPK-Gatersleben

characteristic: INSDC last update

text: public

text: domesticated barley

text: Exome capture of Barley cv. Morex

text: Hordeum vulgare subsp. vulgare

text: Hordeum vulgare subsp. vulgare

text: Morex


text: SRA-Webin

text: IPK-Gatersleben

text: public

characteristic: INSDC status

text: domesticated barley

text: Exome capture of Barley cv. Steptoe

text: Hordeum vulgare subsp. vulgare

text: Hordeum vulgare subsp. vulgare

text: Steptoe


text: SRA-Webin

text: IPK-Gatersleben

text: public

characteristic: SRA accession

text: domesticated barley

text: Exome capture of Barley cv. Borwina

text: Hordeum vulgare subsp. vulgare

text: Hordeum vulgare subsp. vulgare

text: Borwina


text: SRA-Webin

text: IPK-Gatersleben

text: public

characteristic: Submitter Id

text: domesticated barley

text: Exome capture of Barley cv. Foma

text: Hordeum vulgare subsp. vulgare

text: Hordeum vulgare subsp. vulgare

text: Foma


text: SRA-Webin

text: IPK-Gatersleben

text: public

text: domesticated barley

characteristic: common name

text: Exome capture of Barley cv. Gull

text: Hordeum vulgare subsp. vulgare

text: Hordeum vulgare subsp. vulgare

text: Gull


BEC_Vogelsanger Gold

text: SRA-Webin

text: IPK-Gatersleben

text: public

text: BEC_Vogelsanger Gold

text: domesticated barley

text: Exome capture of Barley cv. Vogelsanger Gold

text: Hordeum vulgare subsp. vulgare

text: Hordeum vulgare subsp. vulgare

text: Vogelsanger Gold


BEC_T. aestivum cv. Chinese Spring

text: SRA-Webin

text: IPK-Gatersleben

text: public

text: BEC_T. aestivum cv. Chinese Spring

text: bread wheat

text: Exome capture of Wheat cv. Chinese Spring

text: Triticum aestivum

text: Triticum aestivum

text: T. aestivum cv. Chinese Spring


text: SRA-Webin

text: IPK-Gatersleben

text: public

text: domesticated barley

text: Exome capture of Barley cv. Kindred

text: Hordeum vulgare subsp. vulgare

text: Hordeum vulgare subsp. vulgare

text: Kindred


BEC_Haruna Nijo

text: SRA-Webin

text: IPK-Gatersleben

text: public

text: BEC_Haruna Nijo

text: domesticated barley

text: Exome capture of Barley cv. Haruna Nijo

text: Hordeum vulgare subsp. vulgare

text: Hordeum vulgare subsp. vulgare

text: Haruna Nijo


text: SRA-Webin

text: IPK-Gatersleben

text: public

text: domesticated barley

text: Exome capture of Barley cv. Igri

text: Hordeum vulgare subsp. vulgare

text: Hordeum vulgare subsp. vulgare

text: Igri


text: SRA-Webin

text: IPK-Gatersleben

text: public

text: domesticated barley

text: Exome capture of Barley cv. Harrington

text: Hordeum vulgare subsp. vulgare

text: Hordeum vulgare subsp. vulgare

text: Harrington


E-MTAB-1671:Group VH - Pool YH7

text: School of Life Sciences

text: public

text: E-MTAB-1671:Group VH - Pool YH7

tag: Namespace:School of Life Sciences

text: ArrayExpress

characteristic: broker name

text: honey bee

text: Protocols: Bees were developing in a brood frame Varroa-free colony for 3 days after hatching from egg. Then entire the brood frame with bee larvae was transferred to a Varroa-infested colony with high levels of Deformed wing virus (DWV). Both Varroa-free colony and Varroa-infested colony were kept in outdoor flight cages, bees were fed with pollen sourced in Varroa-free region and with sugar syrup. Larvae of worker honeybee, Apis mellifra (day 3 of bee development), which were hatched from the eggs laid in a colony free from Varroa destructor mites and harbouring low levels of Deformed wing virus (DWV), were either left to develop in the same Varroa-free hive before sampling at pupal stage (day 15) (EnvironmentalHistory-NoTransfer), or were transferred to a Varroa-infested colony with high levels of DWV in bees and the mites (EnvironmentalHistory-TransferToVarroaColony). All transferred larvae were receiving the DWV strains present in this Varroa-infested colony with the food delivered by the nurse bees until capping on day 9. About half of these larvae were capped with Varroa mite and were subjected to the mite piercing and feeding on their haemolymph for 5 days during pupal development until sampling on day 14 (GrowthCondition -MiteFeeding), the rest of the pupae developed without the mite (GrowthCondition- NoMite). Exposure to the mite piercing and feeding resulted in about 1000-fold increase of the DWV levels in about 80% of the mite-exposed pupae (DiseaseState-HighDWV). In the rest of mite-exposed pupae the levels of DWV remained relatively low (DiseaseState-LowMidDWV) and were similar to those in the pupae not exposed to the mite. TRIzol reagent (Invitrogen) extraction of total RNA from individual whole pupae. Purification of the 15 to 40 nt RNA fraction using gel extraction. Small RNA (siRNA and miRNA) library cloning using Illumina TruSeq Small RNA Sample Preparation Kit according to manufactirers instructions

text: pupa

characteristic: developmental stage

characteristic: individual

text: Apis mellifera

text: Apis mellifera

text: Apis mellifera

text: Group VH - Pool YH7


E-MTAB-1671:Group VH - Pool YH3

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: School of Life Sciences

text: public

text: E-MTAB-1671:Group VH - Pool YH3

text: ArrayExpress

text: honey bee

text: pupa

text: Apis mellifera

text: Apis mellifera

text: Apis mellifera

text: Group VH - Pool YH3


E-MTAB-1671:Group VL - Pool YL4

characteristic: External Id

text: School of Life Sciences

characteristic: INSDC center name

text: public

text: E-MTAB-1671:Group VL - Pool YL4

text: ArrayExpress

text: honey bee

text: pupa

text: Apis mellifera

text: Apis mellifera

text: Apis mellifera

text: Group VL - Pool YL4


E-MTAB-1671:Group NV -  Pool YN6

text: School of Life Sciences

characteristic: INSDC first public

text: public

text: E-MTAB-1671:Group NV - Pool YN6

text: ArrayExpress

text: honey bee

text: pupa

text: Apis mellifera

characteristic: organism

text: Apis mellifera

text: Apis mellifera

text: Group NV - Pool YN6


E-MTAB-1671:Group VL - Pool YL8

text: School of Life Sciences

text: public

text: E-MTAB-1671:Group VL - Pool YL8

text: ArrayExpress

text: honey bee

text: pupa

text: Apis mellifera

text: Apis mellifera

text: Apis mellifera

text: Group VL - Pool YL8


E-MTAB-1671:Group C - Pool Y1

text: School of Life Sciences

text: public

text: E-MTAB-1671:Group C - Pool Y1

text: ArrayExpress

text: honey bee

text: pupa

text: Apis mellifera

text: Apis mellifera

text: Apis mellifera

text: Group C - Pool Y1


E-MTAB-1671:Group NV - Pool YN2

text: School of Life Sciences

text: public

text: E-MTAB-1671:Group NV - Pool YN2

text: ArrayExpress

text: honey bee

text: pupa

text: Apis mellifera

text: Apis mellifera

text: Apis mellifera

text: Group NV - Pool YN2


E-MTAB-1674:pMad 3 to 3.5 hr PI exp2

text: University of Manchester

text: public

text: E-MTAB-1674:pMad 3 to 3.5 hr PI exp2

text: ArrayExpress

text: fruit fly

text: Protocols: Embryos were collected from yw adults as in Saunders et al. 2013. Saunders et al. Extensive polymerase pausing during Drosophila axes patterning enables high-level and pliable transcription. 2013. Genes and Development. Published online May 15, 2013. http://dx.doi.org/10.1101/gad. 215459.113. Embryo ChIP was performed as described in Sandmann et al. 2006, except that 5% formaldehyde was used in the crosslinking solution. For PI samples, the guinea pig pre-immune serum was used instead of pMad antibody. Samples were sonicated for 30 min using a Bioruptor with 9 sec on, 1 min off cycles, on high-energy settings. Two independent biological replicates were performed for each ChIP at each time point. Sandmann T, Jakobsen JS, Furlong EE. ChIP-on-chip protocol for genome-wide analysis of transcription factor binding in Drosophila melanogaster embryos. 2006. Nature Protocols 1:2839-2855.

text: embryo stage

text: 3 to 3.5 hour

characteristic: gestational age

text: Drosophila melanogaster

text: Drosophila melanogaster

text: whole embryo

characteristic: organism part

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

text: pMad 3 to 3.5 hr PI exp2


E-MTAB-1674:pMad 3 to 3.5 hr IP exp1

text: University of Manchester

characteristic: INSDC last update

text: public

text: E-MTAB-1674:pMad 3 to 3.5 hr IP exp1

text: ArrayExpress

text: fruit fly

characteristic: description

text: embryo stage

text: 3 to 3.5 hour

text: Drosophila melanogaster

text: Drosophila melanogaster

text: whole embryo

text: Drosophila melanogaster

text: mixed sex

text: pMad 3 to 3.5 hr IP exp1

characteristic: title


E-MTAB-1674:pMad 3 to 3.5 hr PI exp1

text: University of Manchester

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-1674:pMad 3 to 3.5 hr PI exp1

characteristic: Submitter Id

text: ArrayExpress

text: fruit fly

text: embryo stage

text: 3 to 3.5 hour

text: Drosophila melanogaster

text: Drosophila melanogaster

text: whole embryo

text: Drosophila melanogaster

text: mixed sex

text: pMad 3 to 3.5 hr PI exp1


E-MTAB-1674:pMad 3 to 3.5 hr IP exp2

text: University of Manchester

text: public

text: E-MTAB-1674:pMad 3 to 3.5 hr IP exp2

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: embryo stage

characteristic: developmental stage

text: 3 to 3.5 hour

text: Drosophila melanogaster

text: Drosophila melanogaster

text: whole embryo

text: Drosophila melanogaster

text: mixed sex

text: pMad 3 to 3.5 hr IP exp2


E-MTAB-1674:pMad 2 to 2.5 hr IP exp1

text: University of Manchester

text: public

text: E-MTAB-1674:pMad 2 to 2.5 hr IP exp1

text: ArrayExpress

text: fruit fly

text: Drosophila melanogaster

text: Drosophila melanogaster

text: pMad 2 to 2.5 hr IP exp1


E-MTAB-1674:pMad 2 to 2.5 hr PI exp2

text: University of Manchester

text: public

text: E-MTAB-1674:pMad 2 to 2.5 hr PI exp2

text: ArrayExpress

text: fruit fly

text: Drosophila melanogaster

text: Drosophila melanogaster

text: pMad 2 to 2.5 hr PI exp2


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: University of Manchester

text: public

text: E-MTAB-1674:pMad 2 to 2.5 hr PI exp2

text: ArrayExpress

text: fruit fly

text: embryo stage

text: 2 to 2.5 hour

text: Drosophila melanogaster

text: Drosophila melanogaster

text: whole embryo

text: Drosophila melanogaster

text: mixed sex

text: pMad 2 to 2.5 hr PI exp2


E-MTAB-1674:pMad 2 to 2.5 hr IP exp1

characteristic: External Id

text: University of Manchester

characteristic: INSDC center name

text: public

text: E-MTAB-1674:pMad 2 to 2.5 hr IP exp1

text: ArrayExpress

text: fruit fly

text: embryo stage

text: 2 to 2.5 hour

text: Drosophila melanogaster

text: Drosophila melanogaster

text: whole embryo

text: Drosophila melanogaster

text: mixed sex

text: pMad 2 to 2.5 hr IP exp1


E-MTAB-1673:Brk 2 to 2.5 hr PI exp2

text: University of Manchester

characteristic: INSDC first public

text: public

text: E-MTAB-1673:Brk 2 to 2.5 hr PI exp2

text: ArrayExpress

text: fruit fly

text: Protocols: Embryos were collected from yw adults as in Saunders et al. 2013. Saunders et al. Extensive polymerase pausing during Drosophila axes patterning enables high-level and pliable transcription. 2013. Genes and Development. Published online May 15, 2013. http://dx.doi.org/10.1101/gad. 215459.113. Embryo ChIP was performed as described in Sandmann et al. 2006, except that 5% formaldehyde was used in the crosslinking solution. For PI samples, the guinea pig pre-immune serum was used instead of Brk antibody. Samples were sonicated for 30 min using a Bioruptor with 9 sec on, 1 min off cycles, on high-energy settings. Two independent biological replicates were performed for each ChIP at each time point. Sandmann T, Jakobsen JS, Furlong EE. ChIP-on-chip protocol for genome-wide analysis of transcription factor binding in Drosophila melanogaster embryos. 2006. Nature Protocols 1:2839-2855.

text: embryo stage

text: 2 to 2.5 hour

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: Brk 2 to 2.5 hr PI exp2


E-MTAB-1673:Brk 3 to 3.5 hr IP exp2

text: University of Manchester

text: public

text: E-MTAB-1673:Brk 3 to 3.5 hr IP exp2

text: ArrayExpress

text: fruit fly

text: embryo stage

text: 3 to 3.5 hour

characteristic: gestational age

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: Brk 3 to 3.5 hr IP exp2


E-MTAB-1673:Brk 3 to 3.5 hr PI exp1

text: University of Manchester

text: public

text: E-MTAB-1673:Brk 3 to 3.5 hr PI exp1

text: ArrayExpress

text: fruit fly

text: embryo stage

text: 3 to 3.5 hour

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

characteristic: sex

text: Brk 3 to 3.5 hr PI exp1


E-MTAB-1673:Brk 2 to 2.5 hr IP exp1

text: University of Manchester

characteristic: INSDC last update

text: public

text: E-MTAB-1673:Brk 2 to 2.5 hr IP exp1

text: ArrayExpress

text: fruit fly

text: embryo stage

text: 2 to 2.5 hour

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: Brk 2 to 2.5 hr IP exp1


E-MTAB-1673:Brk 3 to 3.5 hr PI exp2

text: University of Manchester

text: public

text: E-MTAB-1673:Brk 3 to 3.5 hr PI exp2

text: ArrayExpress

text: fruit fly

characteristic: description

text: embryo stage

text: 3 to 3.5 hour

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: Brk 3 to 3.5 hr PI exp2


E-MTAB-1673:Brk 2 to 2.5 hr IP exp1

text: University of Manchester

text: public

text: E-MTAB-1673:Brk 2 to 2.5 hr IP exp1

text: ArrayExpress

text: fruit fly

text: embryo stage

text: 2 to 2.5 hour

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: Brk 2 to 2.5 hr IP exp1

characteristic: title


E-MTAB-1673:Brk 3 to 3.5 hr IP exp1

text: University of Manchester

text: public

characteristic: INSDC status

text: E-MTAB-1673:Brk 3 to 3.5 hr IP exp1

text: ArrayExpress

text: fruit fly

text: embryo stage

text: 3 to 3.5 hour

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: mixed sex

text: Brk 3 to 3.5 hr IP exp1


1: lycopersicum leaf

text: ICL-CFB

text: public

characteristic: SRA accession

text: 1: lycopersicum leaf

text: tomato

text: Heinz 1706

characteristic: cultivar

text: Leaf tissue was obtained from the 8th leaf from the apex of 8-week old plants, grown in a glasshouse supplemented with artificial light for a 16/8 h photoperiod at 120 μmol m-2 s-1 PAR (photosynthetically active radiation) irradiance.

text: Solanum lycopersicum

text: Solanum lycopersicum

text: 8th leaf from apex of 8 week old plant

characteristic: tissue

text: Solanum lycopersicum leaf


4: lycopersicum dehydrated leaf

text: ICL-CFB

text: public

text: 4: lycopersicum dehydrated leaf

characteristic: Submitter Id

text: tomato

characteristic: common name

text: Heinz 1706

text: Leaf tissue was obtained from the 8th leaf from the apex of 8-week old plants, grown in a glasshouse supplemented with artificial light for a 16/8 h photoperiod at 120 μmol m-2 s-1 PAR (photosynthetically active radiation) irradiance. Water stress was induced by placing the leaves on a dry filter paper, and allowing them to develop 24 hours, resulting in an estimated 30% loss of fresh-weight.

text: Solanum lycopersicum

text: Solanum lycopersicum

text: 8th leaf with 30% loss of fresh weight

text: Solanum lycopersicum dehydrated leaf


7: lycopersicum fruit

characteristic: ENA-FIRST-PUBLIC

text: ICL-CFB

text: public

text: 7: lycopersicum fruit

text: tomato

text: Heinz 1706

text: Solanum lycopersicum

text: Solanum lycopersicum

text: Mature green fruit

text: Solanum lycopersicum fruit


text: Mus musculus

characteristic: ArrayExpress-Species

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: 2581STDY5533630-sc-2013-05-20T13:56:40Z-1629156

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

characteristic: External Id

text: SC

characteristic: INSDC center name

text: public

text: 2581STDY5533639-sc-2013-05-20T13:56:49Z-1629165

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: SC

characteristic: INSDC first public

text: public

text: 2581STDY5533725-sc-2013-05-20T13:56:51Z-1629251

text: house mouse

text: Mus musculus

characteristic: organism

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: 2581STDY5533629-sc-2013-05-20T13:56:40Z-1629155

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: 2581STDY5533635-sc-2013-05-20T13:56:46Z-1629161

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: 2581STDY5533638-sc-2013-05-20T13:56:48Z-1629164

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: 2581STDY5533641-sc-2013-05-20T13:56:50Z-1629167

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: 2581STDY5533631-sc-2013-05-20T13:56:41Z-1629157

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: 2581STDY5533634-sc-2013-05-20T13:56:45Z-1629160

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: 2581STDY5533637-sc-2013-05-20T13:56:47Z-1629163

text: house mouse

text: Mus musculus

text: Mus musculus


text: Mus musculus

text: SC

text: public

text: 2581STDY5533640-sc-2013-05-20T13:56:50Z-1629166

text: house mouse

text: Mus musculus

text: Mus musculus


E-MTAB-1669:MLE iCLIP replicate 3

text: University Freiburg

text: public

text: E-MTAB-1669:MLE iCLIP replicate 3

tag: Namespace:University Freiburg

text: ArrayExpress

characteristic: broker name

text: clone 8

characteristic: cell line

text: wing disc derived

characteristic: cell type

text: fruit fly

text: Protocols: Clone 8 cells, expressing roX1 and roX2, were grown in M3 + 2% FCS + 5 ug/ml insulin + 2.5% fly extract at 25C. We have isolated nuclei, and used nuclear extracts in all experiments. We used Clone8 cells and antibodies against MLE (rat1) and MSL2 (d300, Santa Cruz). One 150mm dish of ~80% confluent cells is used per immunoprecipitation; 6uL from each antibody and 100uL slurry of Protein G (for MLE) or protein A (MSL2) Dynal beads (Invitrogen). The low-RNaseI (Ambion) concentration used for library-preparation was 0.5U/mL. Biological triplicates were tagged with different barcodes and mixed together after reverse-transcription.

text: 3rd instar larva

characteristic: developmental stage

text: CME W1 cl.8+

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: male

characteristic: sex

text: frozen specimen

characteristic: specimen with known storage state

text: MLE iCLIP replicate 3


E-MTAB-1669:MSL2 iCLIP replicate 3

text: University Freiburg

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-1669:MSL2 iCLIP replicate 3

text: ArrayExpress

text: clone 8

text: wing disc derived

text: fruit fly

characteristic: description

text: 3rd instar larva

text: CME W1 cl.8+

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: male

text: frozen specimen

text: MSL2 iCLIP replicate 3

characteristic: title


E-MTAB-1669:MSL2 iCLIP replicate 1

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: University Freiburg

text: public

text: E-MTAB-1669:MSL2 iCLIP replicate 1

characteristic: Submitter Id

text: ArrayExpress

text: clone 8

text: wing disc derived

text: fruit fly

characteristic: common name

text: 3rd instar larva

text: CME W1 cl.8+

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: male

text: frozen specimen

text: MSL2 iCLIP replicate 1


E-MTAB-1669:MSL2 iCLIP replicate 2

characteristic: External Id

text: University Freiburg

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-1669:MSL2 iCLIP replicate 2

text: ArrayExpress

text: clone 8

text: wing disc derived

text: fruit fly

text: 3rd instar larva

text: CME W1 cl.8+

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: Drosophila melanogaster

text: male

text: frozen specimen

text: MSL2 iCLIP replicate 2


E-MTAB-1669:MLE iCLIP replicate 1

text: University Freiburg

text: public

text: E-MTAB-1669:MLE iCLIP replicate 1

text: ArrayExpress

characteristic: broker name

text: clone 8

characteristic: cell line

text: wing disc derived

characteristic: cell type

text: fruit fly

text: 3rd instar larva

characteristic: developmental stage

text: CME W1 cl.8+

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: male

text: frozen specimen

text: MLE iCLIP replicate 1


E-MTAB-1669:MLE iCLIP replicate 2

text: University Freiburg

characteristic: INSDC last update

text: public

text: E-MTAB-1669:MLE iCLIP replicate 2

text: ArrayExpress

text: clone 8

text: wing disc derived

text: fruit fly

text: 3rd instar larva

text: CME W1 cl.8+

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Drosophila melanogaster

text: male

characteristic: sex

text: frozen specimen

characteristic: specimen with known storage state

text: MLE iCLIP replicate 2


text: TGAC

text: public

characteristic: INSDC status

characteristic: SRA accession

text: bread wheat

text: Wheat CS42 CSS 1AL flow-sorted DNA

characteristic: description

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 1AL flow-sorted DNA

characteristic: title


text: TGAC

text: public

characteristic: Submitter Id

text: bread wheat

characteristic: common name

text: Wheat CS42 CSS 1AS flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 1AS flow-sorted DNA


characteristic: External Id

text: TGAC

characteristic: INSDC center name

text: public

text: bread wheat

text: Wheat CS42 CSS 1BL flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 1BL flow-sorted DNA


text: TGAC

characteristic: INSDC first public

text: public

text: bread wheat

text: Wheat CS42 CSS 1BS flow-sorted DNA

text: Triticum aestivum

characteristic: organism

text: Triticum aestivum

text: Wheat CS42 CSS 1BS flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 1DL flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 1DL flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 1DS flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 1DS flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 2BS flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 2BS flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 2DL flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 2DL flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 2DS flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 2DS flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 3DL flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 3DL flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 3DS flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 3DS flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 4AL flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 4AL flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 4AS flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 4AS flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 4BL flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 4BL flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 4BS flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 4BS flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 4DL flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 4DL flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 4DS flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 4DS flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 5AL flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 5AL flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 5AS flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 5AS flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 5BL flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 5BL flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 5BS flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 5BS flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 5DL flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 5DL flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 5DS flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 5DS flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 6AS flow-sorted DNA

text: Triticum aestivum

text: Triticum aestivum

text: Wheat CS42 CSS 6AS flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 6DL flow-sorted DNA analysed by CDC, U OF S

text: Triticum aestivum

text: Triticum aestivum

text: CDC, U OF S - Wheat CS42 CSS 6DL flow-sorted DNA


text: TGAC

text: public

text: bread wheat

text: Wheat CS42 CSS 6DS flow-sorted DNA analysed by CDC, U OF S

text: Triticum aestivum

text: Triticum aestivum

text: CDC, U OF S - Wheat CS42 CSS 6DS flow-sorted DNA


text: Danio rerio

characteristic: ArrayExpress-Species

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text: zebrafish

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text: zebrafish

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text: zebrafish

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text: zebrafish

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text: Danio rerio


text: Danio rerio

text: SC

text: public

text: CH73_38C19-sc-2013-05-28T14:23:07Z-1634001

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: CH73_61F15-sc-2013-05-28T14:23:10Z-1634004

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: CH73_75N19-sc-2013-05-28T14:23:13Z-1634007

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: DKEYP_120H10-sc-2013-05-28T14:23:16Z-1634010

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: CH73_329D14-sc-2013-05-28T14:22:57Z-1633993

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: CH73_33B6-sc-2013-05-28T14:23:02Z-1633996

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: CH73_352K16-sc-2013-05-28T14:23:05Z-1633999

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: CH73_48G12-sc-2013-05-28T14:23:08Z-1634002

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: CH73_72B8-sc-2013-05-28T14:23:11Z-1634005

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Signaling and Functional Genomics, DKFZ

text: public

tag: Namespace:Signaling and Functional Genomics, DKFZ

text: 21 day

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

text: Protocols: Evi floxed mice were crossed with K14-Cre mice to delete Evi gene in epithelial cells. Skin of 21 day old mice was collected from mutants and wildtype animals. After tissue digestion RNA from epidermal sheets was prepared. Three fully independent biological replicates where sampled. RNA was extracted from epidermal sheets of three wildtype and Evi-LOF mice. The poly(A)+ fraction was isolated from each of the six samples with the Dynabeads mRNA Purification Kit (Invitrogen). For each sample, a library for sequencing with a SOLiD4 sequencer was prepared. random primers with a hexamer adapter sequence were annealed to the 3' end of the mRNA and the first DNA strand synthesized. Following RNA digestion, the DNA was purified using Agencourt RNAClean XP Beads. Random primers were annealed to the DNA for second strand synthesis. Agencourt Ampure XP Bead selection was used to purify and size select the double stranded DNA. The library was amplified and barcoded.

text: adult

characteristic: developmental stage

text: wild type

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: epidermis

characteristic: organism part

text: Mus musculus


text: Signaling and Functional Genomics, DKFZ

text: public

characteristic: INSDC status

characteristic: SRA accession

text: 21 day

text: ArrayExpress

text: house mouse

characteristic: description

text: adult

text: gene knock out

characteristic: genetic modification

text: Evi floxed knockout

text: Mus musculus

text: Mus musculus

text: epidermis

text: Mus musculus


text: Danio rerio

characteristic: External Id

text: SC

text: public

text: CH73_333H20-sc-2013-05-28T14:22:57Z-1633994

characteristic: Submitter Id

text: zebrafish

characteristic: common name

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: CH73_343J12-sc-2013-05-28T14:23:03Z-1633997

text: zebrafish

text: Danio rerio

characteristic: organism

text: Danio rerio


text: Danio rerio

characteristic: ArrayExpress-Species

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: CH73_378E13-sc-2013-05-28T14:23:06Z-1634000

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

characteristic: INSDC last update

text: public

text: CH73_4A10-sc-2013-05-28T14:23:09Z-1634003

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: CH73_74O15-sc-2013-05-28T14:23:12Z-1634006

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Danio rerio

text: SC

text: public

text: DKEY_58P10-sc-2013-05-28T14:23:15Z-1634009

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Queen's University Belfast

text: public

tag: Namespace:Queen's University Belfast

text: 14 day

characteristic: age

characteristic: block

text: ArrayExpress

characteristic: broker name

text: velvet grass

text: Protocols: Arsenate tolerant and non-tolerant Holcus lanatus L. Genovars were selected randomly from a screened population, the arsenic uncontaminated Cruickshank Botanic Garden (CBG) and tillers of the plants were grown hydroponically for 2 weeks in 50ml individual centrifuge tubes with base of the tubes covered in tin-foil to block out light, in heated glasshouse at around 18C under supplemental sodium lamps. Plant tillers from arsenic tolerant (T) and non-tolerant (N) plants were grown hydroponically for 2 weeks in 50ml complete Hogland solution (plusP treatment) or 50ml Hogland solution minus Phosphate (minusP treatment). The experiment therefore investigated 4 treatments (TplusP, TminusP, NplusP, NminusP) and was repeated 2 time. Experiment1 was conducted on 4 plants (n=1), Experiment2 was conducted on 16 plants (n=4). dry roots and shoots for each replicate were ground under liquid nitrogen and total RNA was extrected using the Plant Rneasy kit (Qiagen), with additional on-column Dnase treatment. Extracted RNA of each sample was stored at -80C until shipping on dry ice for sequencing Illumina TrueSeq RNA sample preparation

text: Hogland solution minus phosphate

characteristic: growth condition

characteristic: individual

text: Holcus lanatus

text: Holcus lanatus L

text: Arsenic-non-tolerant

characteristic: phenotype

text: Holcus lanatus

text: fresh specimen

characteristic: specimen with known storage state

characteristic: title


characteristic: External Id

text: Queen's University Belfast

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: 14 day

text: ArrayExpress

text: velvet grass

text: Protocols: Arsenate tolerant and non-tolerant Holcus lanatus L. Genovars were selected randomly from a screened population, the arsenic uncontaminated Cruickshank Botanic Garden (CBG) and tillers of the plants were grown hydroponically for 2 weeks in 50ml individual centrifuge tubes with base of the tubes covered in tin-foil to block out light, in heated glasshouse at around 18C under supplemental sodium lamps. Plant tillers from arsenic tolerant (T) and non-tolerant (N) plants were grown hydroponically for 2 weeks in 50ml complete Hogland solution (plusP treatment) or 50ml Hogland solution minus Phosphate (minusP treatment). The experiment therefore investigated 4 treatments (TplusP, TminusP, NplusP, NminusP) and was repeated 2 time. Experiment1 was conducted on 4 plants (n=1), Experiment2 was conducted on 16 plants (n=4). dry roots and shoots for each replicate were ground under liquid nitrogen and total RNA was extrected using the Plant Rneasy kit (Qiagen), with additional on-column Dnase treatment. Extracted RNA of each sample was stored at -80C until shipping on dry ice for sequencing 454-TITANIUM, normalised total RNA

characteristic: description

text: Hogland solution minus phosphate

text: Holcus lanatus

text: Holcus lanatus L

text: Arsenic-non-tolerant

text: Holcus lanatus

text: fresh specimen


text: Queen's University Belfast

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: 14 day

text: ArrayExpress

text: velvet grass

characteristic: common name

text: Hogland solution minus phosphate

text: Holcus lanatus

characteristic: organism

text: Holcus lanatus L

text: Arsenic-tolerant

text: Holcus lanatus

text: fresh specimen


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: Queen's University Belfast

characteristic: INSDC last update

text: public

text: 14 day

characteristic: age

text: ArrayExpress

text: velvet grass

text: Hogland solution phosphatelus phosphate

text: Holcus lanatus

text: Holcus lanatus L

text: Arsenic-tolerant

text: Holcus lanatus

text: fresh specimen