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characteristic: External Id

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characteristic: broker name

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characteristic: collecting institution

characteristic: collection date

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characteristic: common name

text: United Kingdom

text: England|Knepp Castle Estate

characteristic: geographic location (region and locality)

text: NOT COLLECTED

characteristic: habitat

text: EMMA SHERLOCK

text: NATURAL HISTORY MUSEUM

text: adult

characteristic: lifestage

text: Eisenia andrei

text: WHOLE ORGANISM

characteristic: organism part

text: DTOL

characteristic: project name

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characteristic: sample collection device or method

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text: NOT COLLECTED

characteristic: sex

text: 7553ad84-1719-4b95-a066-eff11c962573-DTOL-specimen

characteristic: tolid

type: derived from


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characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

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text: adult

text: Eisenia andrei

characteristic: organism

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text: 80a209e7-73a5-4a9c-8ec9-35d5b7d2711b-DTOL-specimen

characteristic: title


characteristic: ENA-LAST-UPDATE

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tag: Namespace:ANSES Ploufragan

characteristic: collection date

text: colistin resistant

characteristic: description

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characteristic: host health state

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text: Escherichia coli


text: Harper Adams University

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characteristic: INSDC status

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tag: Namespace:Harper Adams University

characteristic: Submitter Id

text: cattle

characteristic: common name

text: Environmental Sample

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characteristic: environment (biome)

text: rumen

characteristic: environment (feature)

text: digesta

characteristic: environment (material)

text: United Kingdom

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: host-associated

characteristic: host-associated environmental package

characteristic: investigation type

text: Bos taurus

characteristic: project name

text: Bos taurus

text: Illumina Miseq

characteristic: sequencing method


text: Burkholderia pseudomallei

characteristic: ArrayExpress-SPECIES

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

text: public

text: Burkholderia pseudomallei

text: Burkholderia pseudomallei

characteristic: organism

text: Burkholderia pseudomallei

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:Department of Biological Sciences University of Bergen, Bergen, Norway

characteristic: Submitter Id

unit: year

characteristic: age

text: ArrayExpress

characteristic: broker name

text: Atlantic cod

characteristic: common name

text: Protocols: Atlantic cod (G. morhua) were purchased from Havbruksstasjonen in Tromsø AS (Nofima, Tromsø, Norway) and kept in 500 L tanks in 10°C, 34 ppt seawater with a 12 h light/l2 h dark cycle at the Industrial and Aquatic Laboratory (Bergen, Norway). The fish, approximately 1.5 years old, body weight (bw) 332  69g (mean  standard deviation/) were fed with a commercial diet (Amber Neptune, Skretting, Stavanger, Norway) until the start of the treatment. The fish were not fed during exposure. In this experiment (Experiment 1), the exposure groups consisted of vehicle control, low, medium or high doses of each of EE2, BPA and MXC. Each of the compounds EE2, BPA and MXC were dissolved in vehicle (1% DMSO, 25% kolliphor in PBS) and injected at low, medium or high doses of EE2: 10, 50 or 250 nanomole (nmol)/kg body weight (bw); BPA: 8, 40 or 200 micromole (μmol)/kg bw; and MXC: 8 or 40 μmol/kg bw. Sampling was performed 3 days after injection by killing the fish with a blow to the head. Biometric data, body weight, liver weight, gonadal weight, body length, and Total RNA extraction from each frozen liver sample was performed using TRI Reagent (Sigma) according to the manufacturer’s protocols. The concentration and quality of total RNA was assessed using a NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA), and the Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA). For experiment 1, a total of 24 liver samples (n = 3-4 per group) were analyzed. RNA sequencing was performed at the Genomics Core Facility at the University of Bergen, as previously described (Yadetie et al., 2018). RNA samples from individual liver samples (0.4 μg total RNA per sample) were sequenced according to Illumina TruSeq® Stranded mRNA Sample Preparation Guide on Illumina HiSeq 4000 (Illumina, Inc., San Diego, CA, USA).

characteristic: description

text: juvenile stage

characteristic: developmental stage

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

text: Gadus morhua

text: Gadus morhua

text: liver

characteristic: organism part

text: Gadus morhua

text: female

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Department of Biological Sciences University of Bergen, Bergen, Norway

text: public

text: ArrayExpress

text: Atlantic cod

text: juvenile stage

text: normal

text: wild type genotype

text: Gadus morhua

characteristic: organism

text: Gadus morhua

text: liver

text: Gadus morhua

text: female


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:Dept. of Clinical and Molecular Medicine Norwegian University of Science and Technology (NTNU)

unit: day

text: GTTTCG,TAGCTT

characteristic: barcode

text: ArrayExpress

text: house mouse

text: Protocols: For stool collection, previously cohabitating mice littermates were separated into individual cages for a duration of 30 minutes. After said period all stool pellets were collected, snap frozen in liquid nitrogen and stored at -80C until further processing. Tamoxifen (Sigma-Aldrich, T5648-1G) was dissolved in 50ml of Corn Oil (Sigma-Aldrich, C8267-500ML) at a 20 mg/ml concentration and stored at 4°C. To induce Lsd1 recombination, 8-12-week-old mice were administered daily via oral gavage with 0.1ml of Tamoxifen for a duration of 5 days. Genomic DNA extraction from frozen stool (snap frozen in liquid N2) samples was done using the QIAamp Fast DNA Stool Mini Kit (Qiagen, Cat. No. 51604) according to protocol. Lysis temperature was adjusted to 95℃. 16S rDNA Amplicon Metagenomic Sequencing of bacterial gDNA derived from mouse stool was outsourced to Novogene UK. Amplicon library of the V4 region was obtained using the 515F (5’-GTGCCAGCMGCCGCGGTAA-3') and 806R (5’- GGACTACHVGGGTWTCTAAT -3') primer pairs connected with barcodes (see sample table for barcodes). The PCR products with proper size were selected by 2% agarose gel electrophoresis. Same amount of PCR products from each sample was pooled, end-repaired, A-tailed and further ligated with Illumina adapters.

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: individual

text: GTGCCAGCMGCCGCGGTAA,GGACTACHVGGGTWTCTAAT

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

characteristic: phenotype

text: Mus musculus

text: female

characteristic: strain

characteristic: title


text: Dept. of Clinical and Molecular Medicine Norwegian University of Science and Technology (NTNU)

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: age

text: CGTACG,TAGCTT

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: GGTAGC,TAGCTT

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female

characteristic: sex


text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ACTGAT,TAGCTT

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: individual

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

characteristic: phenotype

text: Mus musculus

text: female

characteristic: strain

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: age

text: CAACTA,TAGCTT

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: CATTTT,TAGCTT

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: Submitter Id

text: CCAACA,TAGCTT

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: individual

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

characteristic: phenotype

text: Mus musculus

text: female

characteristic: strain

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: age

text: GTTTCG,GGCTAC

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: CGTACG,GGCTAC

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: Submitter Id

text: GGTAGC,GGCTAC

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: individual

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

characteristic: phenotype

text: Mus musculus

text: female

characteristic: strain

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: age

text: ACTGAT,GGCTAC

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: CAACTA,GGCTAC

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: Submitter Id

text: CATTTT,GGCTAC

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: individual

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

characteristic: phenotype

text: Mus musculus

text: female

characteristic: strain

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: age

text: CCAACA,GGCTAC

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: GTTTCG,CTTGTA

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: Submitter Id

text: CGTACG,CTTGTA

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: individual

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

characteristic: phenotype

text: Mus musculus

text: female

characteristic: strain

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: age

text: GGTAGC,CTTGTA

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ACTGAT,CTTGTA

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: Submitter Id

text: CAACTA,CTTGTA

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: individual

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

characteristic: phenotype

text: Mus musculus

text: female

characteristic: strain

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: age

text: CATTTT,CTTGTA

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: CCAACA,CTTGTA

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: Submitter Id

text: GTTTCG,AGTCAA

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: individual

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

characteristic: phenotype

text: Mus musculus

text: female

characteristic: strain

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: age

text: CGTACG,AGTCAA

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: GGTAGC,AGTCAA

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: Submitter Id

text: ACTGAT,AGTCAA

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: individual

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

characteristic: phenotype

text: Mus musculus

text: female

characteristic: strain

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: age

text: CAACTA,AGTCAA

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: CATTTT,AGTCAA

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: Submitter Id

text: CCAACA,AGTCAA

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: individual

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

characteristic: phenotype

text: Mus musculus

text: female

characteristic: strain

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: age

text: GTTTCG,AGTTCC

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: CGTACG,AGTTCC

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: Submitter Id

text: GGTAGC,AGTTCC

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: individual

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

characteristic: phenotype

text: Mus musculus

text: female

characteristic: strain

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: age

text: ACTGAT,AGTTCC

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: CAACTA,AGTTCC

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: Submitter Id

text: CATTTT,AGTTCC

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: individual

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

characteristic: phenotype

text: Mus musculus

text: female

characteristic: strain

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: age

text: CCAACA,AGTTCC

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: Villin driven knockout of Lsd1

text: Mus musculus

text: female


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: CGTACG,ATCACG

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

text: Mus musculus

text: male

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: Submitter Id

text: GGTAGC,ATCACG

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: individual

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

characteristic: phenotype

text: Mus musculus

text: male

characteristic: strain

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: age

text: ACTGAT,ATCACG

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: Villin driven knockout of Lsd1

text: Mus musculus

text: male


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: CAACTA,ATCACG

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

text: Mus musculus

text: male

characteristic: sex


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: Submitter Id

text: CATTTT,ATCACG

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: individual

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

characteristic: phenotype

text: Mus musculus

text: male

characteristic: strain

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: age

text: CCAACA,ATCACG

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: Villin-CreERT2 +; Lsd1 fl/fl

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: Villin driven knockout of Lsd1

text: Mus musculus

text: male


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characteristic: INSDC center name

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characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: CTCAGA,ATCACG

text: ArrayExpress

text: house mouse

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text: Villin-CreERT2 +; Lsd1 fl/fl

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: Villin driven knockout of Lsd1

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text: male

characteristic: sex


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characteristic: ENA-FIRST-PUBLIC

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characteristic: Submitter Id

text: GTTTCG,ATCACG

characteristic: barcode

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text: adult

text: Villin-CreERT2 +; Lsd1 fl/+

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characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: wild type phenotype

characteristic: phenotype

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characteristic: strain

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characteristic: organism

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text: feces

text: wild type phenotype

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text: male

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text: feces

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text: male


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characteristic: organism

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text: feces

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text: male

characteristic: sex


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text: ArrayExpress

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text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: wild type phenotype

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-LAST-UPDATE

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text: public

characteristic: Submitter Id

text: GGTAGC,TGACCA

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characteristic: individual

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text: Mus musculus

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text: feces

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text: female

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text: female


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text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: wild type phenotype

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-CHECKLIST

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text: public

characteristic: Submitter Id

text: CATTTT,TGACCA

characteristic: barcode

text: ArrayExpress

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text: adult

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text: Mus musculus

text: Mus musculus

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text: wild type phenotype

characteristic: phenotype

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text: female


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characteristic: INSDC status

characteristic: SRA accession

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text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: wild type phenotype

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text: female

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text: CGTACG,GCCAAT

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text: Mus musculus

text: Mus musculus

text: feces

text: wild type phenotype

characteristic: phenotype

text: Mus musculus

text: female

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text: Villin-CreERT2 +; Lsd1 fl/+

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text: Mus musculus

text: Mus musculus

text: feces

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text: wild type phenotype

text: Mus musculus

text: female


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text: Mus musculus

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text: Mus musculus

text: feces

text: wild type phenotype

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text: female

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text: CAACTA,GCCAAT

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text: adult

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text: Mus musculus

text: feces

text: wild type phenotype

characteristic: phenotype

text: Mus musculus

text: female

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text: public

characteristic: age

text: CATTTT,GCCAAT

text: ArrayExpress

characteristic: broker name

text: house mouse

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text: Villin-CreERT2 +; Lsd1 fl/+

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text: Mus musculus

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text: wild type phenotype

text: Mus musculus

text: female


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text: Villin-CreERT2 +; Lsd1 fl/+

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: wild type phenotype

text: Mus musculus

text: female

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text: public

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text: GTTTCG,CAGATC

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text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/+

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text: Mus musculus

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text: Mus musculus

text: female

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text: public

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text: adult

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text: Villin-CreERT2 +; Lsd1 fl/+

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text: Mus musculus

text: Mus musculus

text: feces

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text: wild type phenotype

text: Mus musculus

text: female


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text: public

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characteristic: SRA accession

text: GGTAGC,CAGATC

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/+

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: wild type phenotype

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: Submitter Id

text: ACTGAT,CAGATC

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/+

characteristic: individual

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: wild type phenotype

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text: Mus musculus

text: female

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text: public

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text: CAACTA,CAGATC

text: ArrayExpress

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text: adult

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text: Villin-CreERT2 +; Lsd1 fl/+

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: wild type phenotype

text: Mus musculus

text: female


characteristic: ENA-CHECKLIST

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text: public

characteristic: INSDC status

characteristic: SRA accession

text: CATTTT,CAGATC

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/+

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: wild type phenotype

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: Submitter Id

text: CCAACA,CAGATC

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/+

characteristic: individual

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text: Mus musculus

text: Mus musculus

text: feces

text: wild type phenotype

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text: Mus musculus

text: female

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text: public

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text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

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text: adult

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text: Villin-CreERT2 +; Lsd1 fl/+

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text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: wild type phenotype

text: Mus musculus

text: female


characteristic: ENA-LAST-UPDATE

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characteristic: INSDC center name

characteristic: INSDC first public

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text: public

characteristic: INSDC status

characteristic: SRA accession

text: CGTACG,ACTTGA

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/+

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: wild type phenotype

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: Submitter Id

text: GGTAGC,ACTTGA

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/+

characteristic: individual

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: wild type phenotype

characteristic: phenotype

text: Mus musculus

text: female

characteristic: strain

characteristic: title


characteristic: ENA-LAST-UPDATE

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text: public

characteristic: age

text: ACTGAT,ACTTGA

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: Villin-CreERT2 +; Lsd1 fl/+

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: wild type phenotype

text: Mus musculus

text: female


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC center name

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characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: CAACTA,ACTTGA

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/+

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: wild type phenotype

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: Submitter Id

text: CATTTT,ACTTGA

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/+

characteristic: individual

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: wild type phenotype

characteristic: phenotype

text: Mus musculus

text: female

characteristic: strain

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: age

text: CCAACA,ACTTGA

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: Villin-CreERT2 +; Lsd1 fl/+

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: wild type phenotype

text: Mus musculus

text: female


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: GTTTCG,GATCAG

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/+

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: wild type phenotype

text: Mus musculus

text: male

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: Submitter Id

text: CGTACG,GATCAG

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/+

characteristic: individual

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: wild type phenotype

characteristic: phenotype

text: Mus musculus

text: male

characteristic: strain

characteristic: title


characteristic: ENA-LAST-UPDATE

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text: public

characteristic: age

text: GGTAGC,GATCAG

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: Villin-CreERT2 +; Lsd1 fl/+

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: wild type phenotype

text: Mus musculus

text: male


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC center name

characteristic: INSDC first public

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text: public

characteristic: INSDC status

characteristic: SRA accession

text: ACTGAT,GATCAG

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/+

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: wild type phenotype

text: Mus musculus

text: male

characteristic: sex


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: Submitter Id

text: CAACTA,GATCAG

characteristic: barcode

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/+

characteristic: individual

characteristic: linker primer sequence

text: Mus musculus

text: Mus musculus

text: feces

text: wild type phenotype

characteristic: phenotype

text: Mus musculus

text: male

characteristic: strain

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: age

text: CATTTT,GATCAG

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: Villin-CreERT2 +; Lsd1 fl/+

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: feces

characteristic: organism part

text: wild type phenotype

text: Mus musculus

text: male


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: CCAACA,GATCAG

text: ArrayExpress

text: house mouse

text: adult

text: Villin-CreERT2 +; Lsd1 fl/+

text: Mus musculus

characteristic: organism

text: Mus musculus

text: feces

text: wild type phenotype

text: Mus musculus

text: male

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UCB Biopharma SRL

text: public

tag: Namespace:UCB Biopharma SRL

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

text: Protocols: Unilateral, intrahippocampal kainic acid (ihKA) or NaCl injections were performed in adult male USP15-/- and WT littermates. Mice were anesthetized and received analgesic treatment (100 mg/kg ketamine, 5 mg/kg xylazine, 0.1 mg/kg atropine, i.p. and 4 mg/kg carprofen, s.c) and placed into a stereotaxic frame (David Kopf Instruments, CA, USA) in flat skull position. KA solution (50nl, 20 mM in 0,9% sterile NaCl, Tocris) was injected into the right dorsal hippocampus (coordinates from bregma (in mm): anterioposterior (AP) = -2.0, mediolateral (ML) = -1.4, dorsoventral (DV) = -1.9) with a metal cannula (Harry Rieck Edelstahl) connected to a Hamilton syringe (Hamilton Bonaduz AG) and a micropump. Controls received NaCl solution only. After injection, mice were transferred to their home cage and kept under video surveillance for at least 8h (mean 18.1h, range 8-23h). Mice were then kept in groups in their home cages and perfused at 4d after KA injection. Mice were anesthetized with ketamine (100 mg/kg) and medetomidine (Dormitor; 1 mg/kg) and transcardial perfusion was performed with 30 ml phosphate buffered saline (PBS, ph 7.4). Brains were excised immediately afterwards and both hippocampi were prepared in ice-cold PBS, snap frozen in individual RNAse-free, sterile tubes in liquid nitrogen and stored at -80°C until all samples were collected. Total RNA was extracted from both left and right mouse hippocampi using RNeasy Plus Mini Kit (Qiagen, 74134) following manufacturer’s instructions. RNA concentration was measured with a NanoDrop ND-1000 Spectrophotometer. RNA quality was assessed using the Bio-Rad Experion Automated Electrophoresis System (RQI ≥ 7.3). The NEBNext Ultra II Directional RNA Library Prep Kit for Illumina was used to process the sample(s). The sample preparation was performed according to the protocol \"NEBNext Ultra II Directional RNA Library Prep Kit for Illumina\" (NEB #E7760S/L). Briefly, mRNA was isolated from total RNA using the oligo-dT magnetic beads. After fragmentation of the mRNA, a cDNA synthesis was performed. This was used for ligation with the sequencing adapters and PCR amplicification of the resulting product. The quality and yield after sample preparation was measured with the Fragment Analyzer (see appendices). The size of the resulting products was consistent with the expected size distribution (a broad peak between 300-500 bp).

text: adult

text: wild type genotype

characteristic: individual

text: not applicable

characteristic: isolate

text: Mus musculus

text: Mus musculus

text: hippocampal formation

text: left hippocampal formation

characteristic: sampling site

text: Mus musculus

text: male

text: Kainate (contralateral)

characteristic: stimulus

characteristic: strain

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCB Biopharma SRL

text: public

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

characteristic: genotype

text: not applicable

text: Mus musculus

text: Mus musculus

text: hippocampal formation

characteristic: organism part

text: left hippocampal formation

text: Mus musculus

text: male

text: Kainate (contralateral)


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UCB Biopharma SRL

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

text: not applicable

text: Mus musculus

characteristic: organism

text: Mus musculus

text: hippocampal formation

text: right hippocampal formation

text: Mus musculus

text: male

characteristic: sex

text: Kainate (ipsilateral)


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCB Biopharma SRL

text: public

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

text: adult

characteristic: individual

text: not applicable

characteristic: isolate

text: Mus musculus

text: Mus musculus

text: hippocampal formation

text: right hippocampal formation

characteristic: sampling site

text: Mus musculus

text: male

text: Kainate (ipsilateral)

characteristic: stimulus

characteristic: strain

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UCB Biopharma SRL

text: public

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: not applicable

text: Mus musculus

text: Mus musculus

text: hippocampal formation

characteristic: organism part

text: left hippocampal formation

text: Mus musculus

text: male

text: NaCl (contralateral)


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCB Biopharma SRL

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: house mouse

text: adult

text: not applicable

text: Mus musculus

characteristic: organism

text: Mus musculus

text: hippocampal formation

text: left hippocampal formation

text: Mus musculus

text: male

characteristic: sex

text: NaCl (contralateral)


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UCB Biopharma SRL

text: public

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

characteristic: individual

text: not applicable

characteristic: isolate

text: Mus musculus

text: Mus musculus

text: hippocampal formation

text: right hippocampal formation

characteristic: sampling site

text: Mus musculus

text: male

text: NaCl (ipsilateral)

characteristic: stimulus

characteristic: strain

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCB Biopharma SRL

text: public

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

characteristic: genotype

text: not applicable

text: Mus musculus

text: Mus musculus

text: hippocampal formation

characteristic: organism part

text: right hippocampal formation

text: Mus musculus

text: male

text: NaCl (ipsilateral)


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UCB Biopharma SRL

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: house mouse

text: Protocols: Unilateral, intrahippocampal kainic acid (ihKA) or NaCl injections were performed in adult male USP15fl/fl Cre/+ mice and USP15fl/fl littermates. Mice were anesthetized and received analgesic treatment (100 mg/kg ketamine, 5 mg/kg xylazine, 0.1 mg/kg atropine, i.p. and 4 mg/kg carprofen, s.c) and placed into a stereotaxic frame (David Kopf Instruments, CA, USA) in flat skull position. KA solution (50nl, 20 mM in 0,9% sterile NaCl, Tocris) was injected into the right dorsal hippocampus (coordinates from bregma (in mm): anterioposterior (AP) = -2.0, mediolateral (ML) = -1.4, dorsoventral (DV) = -1.9) with a metal cannula (Harry Rieck Edelstahl) connected to a Hamilton syringe (Hamilton Bonaduz AG) and a micropump. Controls received NaCl solution only. After injection, mice were transferred to their home cage and kept under video surveillance for at least 8h (mean 18.1h, range 8-23h). Seven days later, mice were implanted with electrodes (anesthesia see above, additional 0.1 mg/kg buprenorphine). Custom-made platinum-iridium wire electrodes (Ø125 µm, Teflon-insulated, WPI) were implanted in both hippocampi (coordinates from bregma in mm: AP -2.0, ML -1.4/+1.4, DV -1.9) and two jeweler’s screws in the skull anterior to bregma served as ground and reference. Wires were soldered to a connector permanently mounted on the skull with cyanoacrylate and dental cement. Mice received buprenorphine and carprofen analgesia for the days after surgery. At day 18 after KA injection, tamoxifen treatment was applied for 5 days (day 21-25; Sigma-Aldrich, 0.15ml of a 10mg/ml solution in corn oil) to delete Usp15 expression. Perfusion was performed at day 46. Mice were anesthetized with ketamine (100 mg/kg) and medetomidine (Dormitor; 1 mg/kg) and transcardial perfusion was performed with 30 ml phosphate buffered saline (PBS, ph 7.4). Brains were excised immediately afterwards and both hippocampi were prepared in ice-cold PBS, snap frozen in individual RNAse-free, sterile tubes in liquid nitrogen and stored at -80°C until all samples were collected. Total RNA was extracted from both left and right mouse hippocampi using RNeasy Plus Mini Kit (Qiagen, 74134) following manufacturer’s instructions. RNA concentration was measured with a NanoDrop ND-1000 Spectrophotometer. RNA quality was assessed using the Bio-Rad Experion Automated Electrophoresis System (RQI ≥ 7.3). The NEBNext Ultra II Directional RNA Library Prep Kit for Illumina was used to process the sample(s). The sample preparation was performed according to the protocol \"NEBNext Ultra II Directional RNA Library Prep Kit for Illumina\" (NEB #E7760S/L). Briefly, mRNA was isolated from total RNA using the oligo-dT magnetic beads. After fragmentation of the mRNA, a cDNA synthesis was performed. This was used for ligation with the sequencing adapters and PCR amplicification of the resulting product. The quality and yield after sample preparation was measured with the Fragment Analyzer (see appendices). The size of the resulting products was consistent with the expected size distribution (a broad peak between 300-500 bp).

text: adult

text: not applicable

text: Mus musculus

characteristic: organism

text: Mus musculus

text: hippocampal formation

text: wild type phenotype

characteristic: phenotype

text: left hippocampal formation

text: Mus musculus

text: male

characteristic: sex


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCB Biopharma SRL

text: public

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

text: house mouse

text: adult

text: USP15fl/fl Cre/+

characteristic: individual

text: not applicable

characteristic: isolate

text: Mus musculus

text: Mus musculus

text: hippocampal formation

text: USP15 homozygous knockout

text: left hippocampal formation

characteristic: sampling site

text: Mus musculus

text: male

characteristic: strain

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UCB Biopharma SRL

characteristic: INSDC center name

text: public

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

characteristic: genotype

text: not applicable

text: Mus musculus

text: Mus musculus

text: hippocampal formation

characteristic: organism part

text: wild type phenotype

text: right hippocampal formation

text: Mus musculus

text: male


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCB Biopharma SRL

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: house mouse

text: adult

text: USP15fl/fl Cre/+

text: not applicable

text: Mus musculus

characteristic: organism

text: Mus musculus

text: hippocampal formation

text: USP15 homozygous knockout

characteristic: phenotype

text: right hippocampal formation

text: Mus musculus

text: male

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Natural History Museum

characteristic: GAL

text: NOT PROVIDED

text: EarlhamInstitute

text: public

characteristic: Submitter Id

text: NATURAL HISTORY MUSEUM

characteristic: barcoding center

text: COPO

text: EMMA SHERLOCK

text: NATURAL HISTORY MUSEUM

characteristic: collecting institution

characteristic: collection date

text: common brandling worm

text: United Kingdom

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: England|Knepp Castle Estate

characteristic: geographic location (region and locality)

text: NOT COLLECTED

characteristic: habitat

text: EMMA SHERLOCK

text: NATURAL HISTORY MUSEUM

text: adult

characteristic: lifestage

text: Eisenia andrei

text: WHOLE ORGANISM

text: DTOL

characteristic: project name

text: Hand Picked

characteristic: sample collection device or method

text: Eisenia andrei

text: NOT COLLECTED

text: 7c16567a-f783-4ff2-87b2-e3f464e5b4c3-DTOL-specimen

characteristic: title

characteristic: tolid


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Natural History Museum

text: NOT PROVIDED

text: EarlhamInstitute

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: NATURAL HISTORY MUSEUM

text: COPO

characteristic: broker name

text: EMMA SHERLOCK

text: NATURAL HISTORY MUSEUM

text: common brandling worm

characteristic: common name

text: United Kingdom

text: England|Knepp Castle Estate

text: NOT COLLECTED

text: EMMA SHERLOCK

text: NATURAL HISTORY MUSEUM

text: adult

text: Eisenia andrei

characteristic: organism

text: WHOLE ORGANISM

characteristic: organism part

text: DTOL

text: Hand Picked

text: Eisenia andrei

text: NOT COLLECTED

characteristic: sex

text: f533a4aa-0d19-4ccd-88f7-857f4f048cf6-DTOL-specimen


characteristic: ENA-FIRST-PUBLIC

text: Natural History Museum

characteristic: GAL

text: NOT PROVIDED

text: EarlhamInstitute

text: public

characteristic: Submitter Id

text: NATURAL HISTORY MUSEUM

characteristic: barcoding center

text: COPO

text: EMMA SHERLOCK

text: NATURAL HISTORY MUSEUM

characteristic: collecting institution

characteristic: collection date

text: common brandling worm

text: United Kingdom

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: England|Knepp Castle Estate

characteristic: geographic location (region and locality)

text: NOT COLLECTED

characteristic: habitat

text: EMMA SHERLOCK

text: NATURAL HISTORY MUSEUM

text: adult

characteristic: lifestage

text: Eisenia andrei

text: WHOLE ORGANISM

text: DTOL

characteristic: project name

text: Hand Picked

text: Eisenia andrei

text: NOT COLLECTED

text: bb2c7a98-1f75-4436-a93b-d3544549831e-DTOL-specimen


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF SZEGED

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:UNIVERSITY OF SZEGED

text: KSHV-positive primary effusion lymphoma cell line

text: primary lymphoma

text: Kaposi's sarcoma-associated herpesvirus dRNA 0h

characteristic: description

text: Homo sapiens

characteristic: host scientific name

text: human cell line

text: Human gammaherpesvirus 8

text: Human gammaherpesvirus 8

characteristic: title


characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF SZEGED

text: public

characteristic: Submitter Id

text: primary lymphoma

text: Kaposi's sarcoma-associated herpesvirus dRNA 24h

text: Homo sapiens

text: human cell line

text: Human gammaherpesvirus 8

characteristic: organism

text: Human gammaherpesvirus 8


text: UNIVERSITY OF SZEGED

text: public

text: primary lymphoma

text: Kaposi's sarcoma-associated herpesvirus 0h Hypoxia

text: Homo sapiens

text: human cell line

text: Human gammaherpesvirus 8

text: Human gammaherpesvirus 8


text: UNIVERSITY OF SZEGED

text: public

text: primary lymphoma

text: Kaposi's sarcoma-associated herpesvirus 24h Normoxia

text: Homo sapiens

text: human cell line

text: Human gammaherpesvirus 8

text: Human gammaherpesvirus 8


text: MDC

text: public

text: ena-SAMPLE-TAB-17-02-2023-07:35:24:952-1121

text: human

characteristic: common name

text: HeLa cells with LINC01128 gene knockout

text: Homo sapiens

text: Homo sapiens


text: MDC

text: public

text: ena-SAMPLE-TAB-17-02-2023-07:35:24:952-1122

text: human

text: HeLa cells with LINC01128 gene knockout

text: Homo sapiens

text: Homo sapiens


text: MDC

text: public

text: ena-SAMPLE-TAB-17-02-2023-07:35:24:952-1123

text: human

text: HeLa cells with LINC01128 gene knockout

text: Homo sapiens

text: Homo sapiens


text: MDC

text: public

text: ena-SAMPLE-TAB-17-02-2023-07:35:24:952-1124

text: human

text: HeLa cells wild type control

text: Homo sapiens

text: Homo sapiens


text: MDC

text: public

text: ena-SAMPLE-TAB-17-02-2023-07:35:24:952-1125

text: human

text: HeLa cells wild type control

text: Homo sapiens

text: Homo sapiens


text: MDC

text: public

text: ena-SAMPLE-TAB-17-02-2023-07:35:24:952-1126

text: human

text: HeLa cells wild type control

text: Homo sapiens

text: Homo sapiens


text: Shanghai Tenth People's Hospital

text: public

tag: Namespace:Shanghai Tenth People's Hospital

characteristic: adapter library

text: ArrayExpress

characteristic: broker name

text: Protocols: Strains were maintained at -80˚C. Strains were streaked on YPD plates. The plates were incubated at 37˚C overnight. Then several colonies were picked up and suspended in DDW. Cell density was adjusted to 10,000 cells/ml, then 100µl of cell suspension was plated on YPD plates. The plates were incubated at 37˚C overnight. Colonies were picked up and suspended in DDW, then cell pellets were obtained by centrifuging at highest speed for 1min. We used the phenol-chloroform method to extract Genomic DNA. Cell pellets were suspended in 200µl of lysis buffer, add 100µl of acid washed glass beads, and 0,2ml phenol:chloroform:isoamyl alcohol (25:24:1). Vortex for 30min at 4˚C. Add 200µl TE pH7.5. Centrifuge for 5min at maximum speed. Transfer aqueous layer to a new 1.5ml EP tube. Add 1ml 100% ethanol. Precipitate 1h at -20˚C. Pellet DNA by centrifuging for 10min at maximum speed. Discard the supernatant. Add 400µl TE pH 7.5. Add 3ul of RNase A (10mg/ml). Incubate at 37˚C for 30min. Add 10µl of 3M NaOAc and 1ml of 100% ethanol. Mix by inversion. Precipitate 30min at -20˚C. Pellet DNA by centrifuging for 10min at maximum speed. Discard supernatant. Air-dry the pellet overnight. Resuspend in 50µl water. "1µg Genomic DNA was randomly fragmented by Covaris, followed by fragments selection by Agencourt AMPure XP-Medium kit to an average size of 200~400 bp. Selected fragments were end repaired and 3\""adenylate, then the adaptors were ligated to the end of these 3\""adenylate fragments. The products were amplified by PCR and purified by the Agencourt AMPure XP-Medium kit. The purified double stranded PCR products were heat denatured to single strand, then circularised by the splint oligo sequence. The single strand circle DNA (ssCirDNA) were formatted as the final library and qualified by QC."

text: wild type genotype

characteristic: genotype

text: not applicable

characteristic: isolate

text: Candida auris

text: [Candida] auris

text: whole organism

characteristic: organism part

text: [Candida] auris

characteristic: strain


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Shanghai Tenth People's Hospital

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: aneuploid type

text: not applicable

text: Candida auris

text: [Candida] auris

text: whole organism

text: [Candida] auris


text: Shanghai Tenth People's Hospital

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

characteristic: description

text: wild type genotype

text: not applicable

text: Candida tropicalis

text: Candida tropicalis

text: whole organism

text: Candida tropicalis


characteristic: ENA-FIRST-PUBLIC

text: Shanghai Tenth People's Hospital

text: public

characteristic: Submitter Id

text: ArrayExpress

text: aneuploid type

text: not applicable

text: Candida tropicalis

characteristic: organism

text: Candida tropicalis

text: whole organism

text: Candida tropicalis

characteristic: title


text: public

tag: Namespace:Department of Medicine 1, Friedrich Alexander University, Erlangen-Nuremberg, Germany

unit: week

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

text: Protocols: Mice were sacrificed and its colon extracted post-mortem RNA was isolated using the PeqGold Total RNA Kit following manufacturers' instructions (Peqlab/VWR). Messenger RNA was purified from total RNA using poly-T oligo-attached magnetic beads. After fragmentation, the first strand cDNA was synthesized using random hexamer primers, followed by the second strand cDNA synthesis using either dUTP for directional library or dTTP for non-directional library. The library was checked with Qubit and real-time PCR for quantification and bioanalyzer for size distribution detection. Quantified libraries will be pooled and sequenced on Illumina platforms, according to effective library concentration and data amount.

text: adult

characteristic: developmental stage

text: experimental colitis

characteristic: disease

text: Stat2 KO

characteristic: genotype

text: not applicable

text: Mus musculus

text: Mus musculus

text: colon

text: distal colon

characteristic: sampling site

text: Mus musculus

text: male

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Department of Medicine 1, Friedrich Alexander University, Erlangen-Nuremberg, Germany

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: house mouse

text: adult

text: experimental colitis

text: Stat2 KO

text: not applicable

characteristic: isolate

text: Mus musculus

text: Mus musculus

text: colon

characteristic: organism part

text: distal colon

text: Mus musculus

text: male

characteristic: strain


characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

characteristic: description

text: adult

text: experimental colitis

text: wild type genotype

text: not applicable

text: Mus musculus

characteristic: organism

text: Mus musculus

text: colon

text: distal colon

text: Mus musculus

text: male

characteristic: title


text: CGE

text: public

text: DTU2020-121-PRJ1228-Klebsiella-pneumoniae-185_S31

text: DTU-GE

characteristic: broker name

text: Omid Pajand

text: Iran

characteristic: geographic location (country and/or sea)

text: Homo sapiens

characteristic: host scientific name

text: Klebsiella pneumoniae

text: UC

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CGE

text: public

text: DTU2020-144-PRJ1228-Klebsiella-ozoneae-500A

text: DTU-GE

text: Omid Pajand

text: Iran

text: Homo sapiens

text: Klebsiella pneumoniae subsp. Ozaenae

text: sputum

text: Klebsiella pneumoniae subsp. ozaenae

text: Klebsiella pneumoniae subsp. ozaenae