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characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: spades.py --meta

characteristic: binning parameters

text: metagenomic bin from biosample SAMEA2622376

text: Ocean water

text: Ocean water

text: Ocean water

text: Pacific Ocean

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

characteristic: organism

characteristic: project name

characteristic: sample derived from

text: marine metagenome

text: Illumina

characteristic: sequencing method

characteristic: title


characteristic: ENA-CHECKLIST

text: ETH ZURICH

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

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text: spades.py --meta

characteristic: assembly software

text: metagenomic bin from biosample SAMEA4396468

text: Ocean water

text: Ocean water

text: Ocean water

characteristic: environment (material)

text: Atlantic Ocean

characteristic: geographic location (country and/or sea)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: ocean water

text: marine metagenome

characteristic: metagenomic source

text: marine metagenome

text: marine metagenome

text: Illumina


characteristic: ENA-FIRST-PUBLIC

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characteristic: External Id

text: ETH ZURICH

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: spades.py --meta

characteristic: binning parameters

characteristic: binning software

text: metagenomic bin from biosample SAMEA2620995

characteristic: description

text: Ocean water

characteristic: environment (biome)

text: Ocean water

characteristic: environment (feature)

text: Ocean water

text: Atlantic Ocean

characteristic: geographic location (latitude)

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

text: Biosynthetic potential of the global ocean microbiome

text: marine metagenome

text: Illumina


characteristic: ENA-CHECKLIST

text: ETH ZURICH

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: spades.py --meta

characteristic: assembly software

text: metagenomic bin from biosample SAMEA2620217

text: Ocean water

text: Ocean water

text: Ocean water

text: Indian Ocean

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

characteristic: organism

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text: marine metagenome

text: Illumina

characteristic: sequencing method

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characteristic: ENA-FIRST-PUBLIC

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text: ETH ZURICH

characteristic: INSDC center name

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text: public

text: spades.py --meta

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text: metagenomic bin from biosample SAMN05422121

text: Ocean water

text: Ocean water

text: Ocean water

characteristic: environment (material)

text: Atlantic Ocean

characteristic: geographic location (country and/or sea)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: ocean water

text: marine metagenome

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text: marine metagenome

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characteristic: SRA accession

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text: spades.py --meta

characteristic: assembly software

characteristic: binning software

text: metagenomic bin from biosample SAMEA2622429

characteristic: description

text: Ocean water

characteristic: environment (biome)

text: Ocean water

characteristic: environment (feature)

text: Ocean water

text: Pacific Ocean

characteristic: geographic location (latitude)

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

text: marine metagenome

text: Illumina


characteristic: ENA-FIRST-PUBLIC

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text: ETH ZURICH

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: spades.py --meta

characteristic: binning parameters

text: metagenomic bin from biosample SAMEA2622678

text: Ocean water

text: Ocean water

text: Ocean water

text: Pacific Ocean

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

characteristic: organism

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text: marine metagenome

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characteristic: sequencing method

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characteristic: INSDC status

characteristic: SRA accession

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text: spades.py --meta

characteristic: assembly software

text: metagenomic bin from biosample SAMEA2622716

text: Ocean water

text: Ocean water

text: Ocean water

characteristic: environment (material)

text: Pacific Ocean

characteristic: geographic location (country and/or sea)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: ocean water

text: marine metagenome

characteristic: metagenomic source

text: marine metagenome

text: marine metagenome

text: Illumina


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: ETH ZURICH

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: spades.py --meta

characteristic: binning parameters

characteristic: binning software

text: metagenomic bin from biosample SAMN07136746

characteristic: description

text: Ocean water

characteristic: environment (biome)

text: Ocean water

characteristic: environment (feature)

text: Ocean water

text: Pacific Ocean

characteristic: geographic location (latitude)

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

text: marine metagenome

text: Illumina


characteristic: ENA-CHECKLIST

text: ETH ZURICH

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: spades.py --meta

characteristic: assembly software

text: metagenomic bin from biosample SAMEA2623488

text: Ocean water

text: Ocean water

text: Ocean water

text: Atlantic Ocean

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

characteristic: organism

characteristic: project name

characteristic: sample derived from

text: marine metagenome

text: Illumina

characteristic: sequencing method

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characteristic: ENA-FIRST-PUBLIC

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characteristic: External Id

text: ETH ZURICH

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: spades.py --meta

characteristic: binning parameters

text: metagenomic bin from biosample SAMEA2622837

text: Ocean water

text: Ocean water

text: Ocean water

characteristic: environment (material)

text: Pacific Ocean

characteristic: geographic location (country and/or sea)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: ocean water

text: marine metagenome

characteristic: metagenomic source

text: marine metagenome

text: marine metagenome

text: Illumina


characteristic: ENA-CHECKLIST

text: ETH ZURICH

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: spades.py --meta

characteristic: assembly software

characteristic: binning software

text: metagenomic bin from biosample SAMN07136635

characteristic: description

text: Ocean water

characteristic: environment (biome)

text: Ocean water

characteristic: environment (feature)

text: Ocean water

text: Atlantic Ocean

characteristic: geographic location (latitude)

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

text: marine metagenome

text: Illumina


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: ETH ZURICH

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: spades.py --meta

text: tetra-nucleotide frequencies and co-abundance, --minContig 2000 --maxEdges 500

characteristic: binning parameters

text: metagenomic bin from biosample SAMEA4397239

text: Ocean water

text: Ocean water

text: Ocean water

text: Arctic Ocean

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

characteristic: organism

characteristic: project name

characteristic: sample derived from

text: marine metagenome

text: Illumina

characteristic: sequencing method

characteristic: title


characteristic: ENA-CHECKLIST

text: ETH ZURICH

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: spades.py --meta

characteristic: assembly software

text: metagenomic bin from biosample SAMN07136687

text: Ocean water

text: Ocean water

text: Ocean water

characteristic: environment (material)

text: Atlantic Ocean

characteristic: geographic location (country and/or sea)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: ocean water

text: marine metagenome

characteristic: metagenomic source

text: marine metagenome

text: marine metagenome

text: Illumina


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: ETH ZURICH

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: spades.py --meta

characteristic: binning parameters

characteristic: binning software

text: metagenomic bin from biosample SAMEA4398067

characteristic: description

text: Ocean water

characteristic: environment (biome)

text: Ocean water

characteristic: environment (feature)

text: Ocean water

text: Arctic Ocean

characteristic: geographic location (latitude)

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

text: marine metagenome

text: Illumina


characteristic: ENA-CHECKLIST

text: ETH ZURICH

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: spades.py --meta

characteristic: assembly software

text: metagenomic bin from biosample SAMN07137101

text: Ocean water

text: Ocean water

text: Ocean water

text: Atlantic Ocean

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

characteristic: organism

characteristic: project name

characteristic: sample derived from

text: marine metagenome

text: Illumina

characteristic: sequencing method

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: ETH ZURICH

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: spades.py --meta

characteristic: binning parameters

text: metagenomic bin from biosample SAMEA4397157

text: Ocean water

text: Ocean water

text: Ocean water

characteristic: environment (material)

text: Arctic Ocean

characteristic: geographic location (country and/or sea)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: ocean water

text: marine metagenome

characteristic: metagenomic source

text: marine metagenome

text: marine metagenome

text: Illumina


characteristic: ENA-CHECKLIST

text: ETH ZURICH

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: spades.py --meta

characteristic: assembly software

characteristic: binning software

text: metagenomic bin from biosample SAMN07136522

characteristic: description

text: Ocean water

characteristic: environment (biome)

text: Ocean water

characteristic: environment (feature)

text: Ocean water

text: Atlantic Ocean

characteristic: geographic location (latitude)

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

text: marine metagenome

text: Illumina


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: ETH ZURICH

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: spades.py --meta

characteristic: binning parameters

text: metagenomic bin from biosample SAMEA4398247

text: Ocean water

text: Ocean water

text: Ocean water

text: Arctic Ocean

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

characteristic: organism

text: Biosynthetic potential of the global ocean microbiome

characteristic: project name

characteristic: sample derived from

text: marine metagenome

text: Illumina

characteristic: sequencing method

characteristic: title


characteristic: ENA-CHECKLIST

text: ETH ZURICH

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: spades.py --meta

characteristic: assembly software

text: metagenomic bin from biosample SAMEA2622801

text: Ocean water

text: Ocean water

text: Ocean water

characteristic: environment (material)

text: Pacific Ocean

characteristic: geographic location (country and/or sea)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: ocean water

text: marine metagenome

characteristic: metagenomic source

text: marine metagenome

text: marine metagenome

text: Illumina


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text: public

tag: Namespace:Center for Molecular Biology of Heidelberg  University (ZMBH), DKFZ-ZMBH Alliance, Heidelberg, Germany.

unit: week

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

text: Protocols: Livers were dissected from adult mice, cut into small pieces and flash-frozen in a 1.5 or 2 mL Eppendorf tube in liquid nitrogen. About 30-50 mg of liver tissue was used for each experiment. Each sample was homogenized with a micropestle in 400 μl ice-cold homogenization buffer (250 mM sucrose, 25 mM KCl, 5 mM MgCl2, 10 mM Tris-HCl (pH 8), 0.1% IGEPAL, 1 μM DTT, 0.4 U/μl Murine RNase Inhibitor (New England BioLabs, cat# M0314L), and 0.2 U/μl SUPERas-In (Ambion, cat# AM2694)). The homogenates were triturated gently by a P1000 tip for 10 times, incubated on ice for 5-10 minutes and then centrifuged at 100g for 1 minute at 4 degree to pellet any unlysed tissue chunks. The supernatant was transferred into another 1.5 mL Eppendorf tube and centrifuged at 400g for 4 minutes at 4 degree to collect nuclei. The nuclei were washed twice in 400 μl homogenization buffer and strained by a 40 μm Flowmi strainer (Sigma, BAH136800040) during the second wash step to remove nuclei aggregates. The final nuclei pellet was resuspended in 30-50 μl Nuclei buffer (10X Genomics, PN-2000207). To estimate the nuclei concentration, nuclei aliquots were diluted in PBS with Hoechst and PI DNA dyes and counted on Countess II FL Automated Cell Counter (Thermo Fisher Scientific, RRID: SCR_020236). Around 15,000 nuclei were used as input for the single-nuclei RNA-seq experiment. The Chromium Next GEM Single Cell 3ʹ Reagent Kits v3.1 (PN-1000121, PN-1000120 and PN-1000213) were used for generating the single-nuclei RNA-seq libraries following manufacturer’s instructions. Libraries were quantified on a Qubit Fluorometer (Thermo Fisher Scientific; RRID: SCR_018095) and checked on a Fragment Analyzer (Agilent; RRID: SCR_019417) for quality control.

characteristic: description

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: MOU 9W M2 020713

characteristic: individual

text: not applicable

characteristic: isolate

text: Mus musculus

text: Mus musculus

text: liver

characteristic: organism part

text: Mus musculus

text: male

characteristic: sex

characteristic: strain


characteristic: ENA-CHECKLIST

text: Center for Molecular Biology of Heidelberg  University (ZMBH), DKFZ-ZMBH Alliance, Heidelberg, Germany.

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

text: adult

text: wild type genotype

text: MOU 9W F3 020713

text: not applicable

text: Mus musculus

characteristic: organism

text: Mus musculus

text: liver

text: Mus musculus

text: female

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

text: adult

text: wild type genotype

text: MOU 9W F1 020713

text: not applicable

text: Mus musculus

text: Mus musculus

text: liver

text: Mus musculus

text: female


text: public

text: ArrayExpress

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: MOU 9W M3 020713

characteristic: individual

text: not applicable

characteristic: isolate

text: Mus musculus

text: Mus musculus

text: liver

characteristic: organism part

text: Mus musculus

text: male


characteristic: ENA-CHECKLIST

text: ETH ZURICH

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text: public

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characteristic: SRA accession

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text: spades.py --meta

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characteristic: binning parameters

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text: metagenomic bin from biosample SAMEA4398150

text: Ocean water

characteristic: environment (biome)

text: Ocean water

characteristic: environment (feature)

text: Ocean water

characteristic: environment (material)

text: Arctic Ocean

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: ocean water

text: marine metagenome

characteristic: metagenomic source

text: marine metagenome

characteristic: project name

characteristic: sample derived from

text: marine metagenome

text: Illumina

characteristic: sequencing method


characteristic: ENA-CHECKLIST

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text: ETH ZURICH

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: spades.py --meta

text: metagenomic bin from biosample SAMEA4396515

characteristic: description

text: Ocean water

text: Ocean water

text: Ocean water

text: Atlantic Ocean

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

characteristic: organism

text: marine metagenome

text: Illumina

characteristic: title


text: ETH ZURICH

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: spades.py --meta

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characteristic: binning parameters

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text: metagenomic bin from biosample SAMEA4397983

text: Ocean water

characteristic: environment (biome)

text: Ocean water

characteristic: environment (feature)

text: Ocean water

characteristic: environment (material)

text: Arctic Ocean

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

text: marine metagenome

text: Illumina


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text: ETH ZURICH

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text: public

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text: metagenomic bin from biosample SAMEA2622499

text: Ocean water

text: Ocean water

text: Ocean water

text: Pacific Ocean

text: metagenome

characteristic: investigation type

text: ocean water

text: marine metagenome

characteristic: metagenomic source

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text: ETH ZURICH

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text: metagenomic bin from biosample SAMEA2622822

characteristic: description

text: Ocean water

characteristic: environment (biome)

text: Ocean water

text: Ocean water

text: Pacific Ocean

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

characteristic: organism

text: marine metagenome

text: Illumina

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text: ETH ZURICH

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text: public

text: spades.py --meta

text: tetra-nucleotide frequencies and co-abundance, --minContig 2000 --maxEdges 500

text: metagenomic bin from biosample SAMEA2620786

text: Ocean water

text: Ocean water

characteristic: environment (feature)

text: Ocean water

characteristic: environment (material)

text: Indian Ocean

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

text: marine metagenome

text: Illumina


text: ETH ZURICH

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text: spades.py --meta

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text: metagenomic bin from biosample SAMEA4398360

text: Ocean water

text: Ocean water

text: Ocean water

text: Arctic Ocean

text: metagenome

characteristic: investigation type

text: ocean water

text: marine metagenome

characteristic: metagenomic source

text: marine metagenome

characteristic: project name

characteristic: sample derived from

text: marine metagenome

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characteristic: sequencing method


characteristic: ENA-CHECKLIST

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text: ETH ZURICH

characteristic: INSDC center name

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text: public

text: spades.py --meta

characteristic: binning software

text: metagenomic bin from biosample SAMEA4397118

characteristic: description

text: Ocean water

characteristic: environment (biome)

text: Ocean water

text: Ocean water

text: Arctic Ocean

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

characteristic: organism

text: marine metagenome

text: Illumina

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text: ETH ZURICH

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characteristic: SRA accession

characteristic: Submitter Id

text: spades.py --meta

characteristic: assembly software

characteristic: binning parameters

text: metagenomic bin from biosample SAMN07136809

text: Ocean water

text: Ocean water

characteristic: environment (feature)

text: Ocean water

characteristic: environment (material)

text: Pacific Ocean

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

text: marine metagenome

text: Illumina


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

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characteristic: External Id

text: ETH ZURICH

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: spades.py --meta

text: metagenomic bin from biosample SAMEA4397023

text: Ocean water

text: Ocean water

text: Ocean water

text: Arctic Ocean

text: metagenome

characteristic: investigation type

text: ocean water

text: marine metagenome

characteristic: metagenomic source

text: marine metagenome

characteristic: project name

characteristic: sample derived from

text: marine metagenome

text: Illumina

characteristic: sequencing method


text: ETH ZURICH

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text: spades.py --meta

characteristic: assembly software

characteristic: binning parameters

characteristic: binning software

text: metagenomic bin from biosample SAMEA2620672

characteristic: description

text: Ocean water

characteristic: environment (biome)

text: Ocean water

text: Ocean water

text: Indian Ocean

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

characteristic: organism

text: marine metagenome

text: Illumina

characteristic: title


characteristic: ENA-CHECKLIST

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text: ETH ZURICH

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text: public

text: spades.py --meta

text: metagenomic bin from biosample SAMEA2623808

text: Ocean water

text: Ocean water

characteristic: environment (feature)

text: Ocean water

characteristic: environment (material)

text: Atlantic Ocean

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

text: marine metagenome

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text: ETH ZURICH

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text: spades.py --meta

characteristic: assembly software

characteristic: binning parameters

text: metagenomic bin from biosample SAMEA2621198

text: Ocean water

text: Ocean water

text: Ocean water

text: Atlantic Ocean

text: metagenome

characteristic: investigation type

text: ocean water

text: marine metagenome

characteristic: metagenomic source

text: marine metagenome

text: Biosynthetic potential of the global ocean microbiome

characteristic: project name

characteristic: sample derived from

text: marine metagenome

text: Illumina

characteristic: sequencing method


characteristic: ENA-CHECKLIST

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text: ETH ZURICH

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: spades.py --meta

characteristic: binning software

text: metagenomic bin from biosample SAMEA2622765

characteristic: description

text: Ocean water

characteristic: environment (biome)

text: Ocean water

text: Ocean water

text: Pacific Ocean

text: metagenome

text: ocean water

text: marine metagenome

text: marine metagenome

characteristic: organism

text: marine metagenome

text: Illumina

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