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text: public

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characteristic: geographic location (country and/or sea)

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text: not provided

text: not provided

text: Severe acute respiratory syndrome coronavirus 2


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Danish Covid-19 Genome Consortium

text: Original

text: Denmark

characteristic: geographic location (country and/or sea)

characteristic: geographic location (region and locality)

text: Human

characteristic: host common name

text: n_infections=4,last_infection_date=2021-09-13

characteristic: host description

text: not provided

text: Homo sapiens

text: not provided

text: not provided

text: not provided


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: public

text: Danish Covid-19 Genome Consortium

text: Original

text: Denmark

text: Human

text: n_infections=4,last_infection_date=2021-03-08

text: not provided

text: Homo sapiens

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: not provided

text: active surveillance in response to outbreak

characteristic: sample capture status


characteristic: INSDC center name

text: public

characteristic: INSDC status

text: Danish Covid-19 Genome Consortium

text: Original

text: Denmark

text: Human

text: n_infections=4,last_infection_id=hCoV-19/Denmark/DCGC-686638/2022

text: not provided

characteristic: host health state

text: Homo sapiens

text: not provided

text: not provided

text: not provided

characteristic: isolate

characteristic: organism

characteristic: title


text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collecting institution

characteristic: collection date

text: Danish Covid-19 Genome Consortium

characteristic: collector name

text: Original

characteristic: description

text: Denmark

text: Human

text: n_infections=4,last_infection_date=2022-03-28

text: not provided

text: Homo sapiens

text: not provided

text: not provided

text: not provided


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: public

text: Danish Covid-19 Genome Consortium

text: Original

text: Denmark

characteristic: geographic location (country and/or sea)

characteristic: geographic location (region and locality)

text: Human

characteristic: host common name

text: n_infections=4,last_infection_date=2022-07-11

characteristic: host description

text: not provided

text: Homo sapiens

text: not provided

text: not provided

text: not provided


characteristic: INSDC center name

text: public

characteristic: INSDC status

text: Department of Clinical Microbiology, Vejle Sygehus

text: Danish Covid-19 Genome Consortium

text: Original

text: Denmark

text: Human

text: n_infections=4,last_infection_id=hCoV-19/Denmark/DCGC-595743/2022

text: not provided

text: Homo sapiens

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: not provided

characteristic: sample capture status


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Danish Covid-19 Genome Consortium

text: Original

text: Denmark

text: Human

text: n_infections=4,last_infection_date=2022-01-24

text: not provided

characteristic: host health state

text: Homo sapiens

text: not provided

text: not provided

text: not provided

characteristic: isolate

characteristic: organism

characteristic: title


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: Statens Serum Institut and the Danish Covid19 Genome Consortium (DCGC)

text: public

characteristic: collecting institution

characteristic: collection date

text: Danish Covid-19 Genome Consortium

characteristic: collector name

text: Original

characteristic: description

text: Denmark

text: Human

text: n_infections=4,last_infection_date=2022-06-20

text: not provided

text: Homo sapiens

text: not provided

text: not provided

text: not provided


text: LABRIS

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: isolate from chicken meat

text: Estonia

characteristic: geographic location (country and/or sea)

text: Salmonella enterica

text: Salmonella enterica

text: Pathogen: Salmonella Mbandaka


text: INSTITUTE OF APPLIED BIOSCIENCES - CERTH

text: public

text: Department of Microbiology, Medical School, Aristotle University of Thessaloniki, Thessaloniki, Greece

text: not provided

characteristic: common name

text: Greece

text: Kozani

characteristic: geographic location (region and locality)

text: human

characteristic: host common name

text: not provided

text: Homo sapiens

characteristic: host scientific name

text: not provided

characteristic: host sex

characteristic: host subject id

text: RNA


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: not provided

text: Greece

text: Thessaloniki

text: human

text: not provided

characteristic: host health state

text: Homo sapiens

text: not provided

text: RNA

characteristic: isolate

characteristic: organism

characteristic: sample capture status


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: public

characteristic: collecting institution

characteristic: collection date

text: not provided

characteristic: collector name

text: Greece

text: Athens

text: human

text: not provided

text: Homo sapiens

text: not provided

text: RNA

characteristic: title


characteristic: INSDC center name

text: public

characteristic: INSDC status

text: not provided

characteristic: common name

characteristic: description

text: Greece

characteristic: geographic location (country and/or sea)

text: Achaia

characteristic: geographic location (region and locality)

text: human

text: not provided

text: Homo sapiens

text: not provided

text: RNA


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: not provided

text: Greece

text: Kalivia

text: human

characteristic: host common name

text: not provided

text: Homo sapiens

characteristic: host scientific name

text: not provided

characteristic: host sex

characteristic: host subject id

text: RNA


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: public

text: not provided

text: Greece

text: Korinthos

text: human

text: not provided

characteristic: host health state

text: Homo sapiens

text: not provided

text: RNA

characteristic: isolate

characteristic: organism

characteristic: sample capture status


characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: collecting institution

characteristic: collection date

text: not provided

characteristic: collector name

text: Greece

text: Xanthi

text: human

text: not provided

text: Homo sapiens

text: not provided

text: RNA

characteristic: title


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: not provided

characteristic: common name

characteristic: description

text: Greece

characteristic: geographic location (country and/or sea)

text: Katerini

characteristic: geographic location (region and locality)

text: human

text: not provided

text: Homo sapiens

text: not provided

text: RNA


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: public

text: not provided

text: Greece

text: Domokοs

text: human

characteristic: host common name

text: not provided

text: Homo sapiens

characteristic: host scientific name

text: not provided

characteristic: host sex

characteristic: host subject id

text: RNA


characteristic: INSDC center name

text: public

characteristic: INSDC status

text: not provided

text: Greece

text: Ligourio

text: human

text: not provided

characteristic: host health state

text: Homo sapiens

text: not provided

text: RNA

characteristic: isolate

characteristic: organism

characteristic: sample capture status


text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collecting institution

characteristic: collection date

text: not provided

characteristic: collector name

text: Greece

text: Patra

text: human

text: not provided

text: Homo sapiens

text: not provided

text: RNA

characteristic: title


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: public

text: not provided

characteristic: common name

characteristic: description

text: Greece

characteristic: geographic location (country and/or sea)

text: Veria

characteristic: geographic location (region and locality)

text: human

text: not provided

text: Homo sapiens

text: not provided

text: RNA


characteristic: INSDC center name

text: public

characteristic: INSDC status

text: not provided

text: Greece

text: Sparta

text: human

characteristic: host common name

text: not provided

text: Homo sapiens

characteristic: host scientific name

text: not provided

characteristic: host sex

characteristic: host subject id

text: RNA


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: not provided

text: Greece

text: Corfu

text: human

text: not provided

characteristic: host health state

text: Homo sapiens

text: not provided

text: RNA

characteristic: isolate

characteristic: organism

characteristic: sample capture status


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: public

characteristic: collecting institution

characteristic: collection date

text: not provided

characteristic: collector name

text: Greece

text: Arta

text: human

text: not provided

text: Homo sapiens

text: not provided

text: RNA

characteristic: title


characteristic: INSDC center name

text: public

characteristic: INSDC status

text: not provided

characteristic: common name

characteristic: description

text: Greece

characteristic: geographic location (country and/or sea)

text: Serres

characteristic: geographic location (region and locality)

text: human

text: not provided

text: Homo sapiens

text: not provided

text: RNA


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: not provided

text: Greece

text: Syros

text: human

characteristic: host common name

text: not provided

text: Homo sapiens

characteristic: host scientific name

text: not provided

characteristic: host sex

characteristic: host subject id

text: RNA


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: public

text: not provided

text: Greece

text: Chalkidiki

text: human

text: not provided

characteristic: host health state

text: Homo sapiens

text: not provided

text: RNA

characteristic: isolate

characteristic: organism

characteristic: sample capture status


characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: collecting institution

characteristic: collection date

text: not provided

characteristic: collector name

text: Greece

text: Nafplio

text: human

text: not provided

text: Homo sapiens

text: not provided

text: RNA

characteristic: title


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: not provided

characteristic: common name

characteristic: description

text: Greece

characteristic: geographic location (country and/or sea)

text: Athens

characteristic: geographic location (region and locality)

text: human

text: not provided

text: Homo sapiens

text: not provided

text: RNA


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: public

text: not provided

text: Greece

text: Achaia

text: human

characteristic: host common name

text: not provided

text: Homo sapiens

characteristic: host scientific name

text: not provided

characteristic: host sex

characteristic: host subject id

text: RNA


text: Institute of tropical medicine

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: Bangladesh

text: diseased

characteristic: host health state

text: homo sapien

characteristic: isolate

text: Sputum

text: Mycobacterium tuberculosis

characteristic: organism

text: Mycobacterium tuberculosis

text: MDR-TB sample from Bangladesh


text: public

characteristic: SRA accession

text: Health Center of Soufli

characteristic: collecting institution

characteristic: collection date

text: not provided

characteristic: collector name

text: Greece

text: Soufli

text: human

text: not provided

text: Homo sapiens

text: not provided

characteristic: sample capture status

characteristic: title


characteristic: ENA first public

text: EMBL-EBI

text: public

characteristic: Submitter Id

unit: week

characteristic: age

text: ArrayExpress

characteristic: broker name

text: not collected

text: human

characteristic: common name

text: Protocols: Protocol carried out by HDBR to extract specimen from a fetal donor.  Human fetal lung organoids were derived and maintained as previously described (Nikolic et al., 2017). In brief, human foetal lung tissues were treated with Dispase (8 U/ml Thermo Fisher Scientific, 17105041) at room temperature (RT) for 2 min to digest mesenchymal connections. Mesothelium and mesenchymal cells were carefully removed by needles. Branching epithelial tips were micro-dissected by needles, transferred into Matrigel (356231, Corning) and seeded in a 24 well low-attachment plate (M9312-100EA, Greiner) with 4-5 tips per 50 μl Matrigel dome per well. The plate was incubated at 37°C for 5-10 min until the Matrigel domes solidified. 600 μl of self-renewing differentiation medium was added. Organoids were cultured under standard tissue culture conditions (37°C, 5% CO2), maintained in self-renewing medium and passaged by mechanically breaking using P200 pipettes every 4-7 days. Organoids were then fully dissociated into single cells by incubation with prewarmed TrypLE (Thermo Fisher Scientific, 12605028) for 15-20 min with trituration every 5 min.  Libraries were prepared according to the standard protocol of the Chromium 5'V1 kit.

characteristic: description

text: Carnegie stage 22

characteristic: developmental stage

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

text: not collected

characteristic: geographic location (country and/or sea)

text: organoid culture

characteristic: growth condition

characteristic: individual

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: male

characteristic: sex


characteristic: ENA-CHECKLIST

text: EMBL-EBI

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: not collected

characteristic: collection date

text: human

text: Carnegie stage 22

text: normal

text: deltaNp63alpha overexpression

text: not collected

text: organoid culture

text: not applicable

characteristic: isolate

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens

text: male


characteristic: ENA first public

text: EMBL-EBI

text: public

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: not collected

text: human

text: Carnegie stage 22

text: normal

text: ASCL1 overexpression

text: not collected

text: organoid culture

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: male

characteristic: title


text: EMBL-EBI

text: public

text: ArrayExpress

text: not collected

text: human

characteristic: common name

characteristic: description

text: Carnegie stage 22

characteristic: developmental stage

text: normal

characteristic: disease

text: NEUROD1 overexpression

characteristic: genotype

text: not collected

text: organoid culture

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: male


characteristic: ENA-CHECKLIST

text: EMBL-EBI

text: public

text: ArrayExpress

text: not collected

text: human

text: Carnegie stage 22

text: normal

text: NEUROG3 overexpression

text: not collected

characteristic: geographic location (country and/or sea)

text: organoid culture

characteristic: growth condition

characteristic: individual

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: male

characteristic: sex


text: EMBL-EBI

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: not collected

characteristic: collection date

text: human

text: Carnegie stage 22

text: normal

text: RFX6 overexpression

text: not collected

text: organoid culture

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: male


characteristic: ENA first public

text: EMBL-EBI

text: public

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: not collected

text: human

text: Carnegie stage 22

text: normal

text: TFAP2A overexpression

text: not collected

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens

text: male


text: EMBL-EBI

text: public

text: ArrayExpress

text: not collected

text: human

characteristic: common name

characteristic: description

text: Carnegie stage 22

characteristic: developmental stage

text: normal

characteristic: disease

text: PAX9 overexpression

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: male

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: External Id

text: East Malling Research

characteristic: INSDC last update

text: public

tag: Namespace:East Malling Research

text: 16S amplicon sequences of rhizosphere from various rootstock genotypes planted in rows and alleyway as an indicator of ARD in Worcestershire, England

text: rhizosphere

characteristic: environment (biome)

text: Apple orchard

characteristic: environment (feature)

text: Apple rhizosphere

characteristic: environment (material)

text: United Kingdom

characteristic: geographic location (country and/or sea)

text: metagenome

characteristic: investigation type

text: soil metagenome

characteristic: project name

text: soil metagenome

text: Illumina MiSeq V3

characteristic: sequencing method

text: Apple rhizosphere microbiome of various rootstocks planted in alley and tree station


characteristic: ENA first public

text: East Malling Research

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ITS amplicon sequences of rhizosphere from various rootstock genotypes planted in rows and alleyway as an indicator of ARD in Worcestershire, England

text: rhizosphere

text: Apple orchard

text: Apple rhizosphere

text: United Kingdom

text: metagenome

text: soil metagenome

text: soil metagenome

text: Illumina MiSeq V3


text: UNIVERSITY OF LIVERPOOL

text: public

tag: Namespace:UNIVERSITY OF LIVERPOOL

characteristic: collection date

text: house mouse

characteristic: common name

characteristic: description

text: Mus musculus

text: Mus musculus gut

text: Mus musculus gut mucosa

text: United Kingdom

unit: DD

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: mimarks-survey

text: Mus musculus

characteristic: organism

text: CF Tenapanor

text: Mus musculus

text: Illumina


characteristic: ENA-CHECKLIST

characteristic: External Id

text: UNIVERSITY OF LIVERPOOL

characteristic: INSDC last update

text: public

text: common carp

text: Cyprinus�carpio

characteristic: environment (biome)

text: Cyprinus�carpio gut

characteristic: environment (feature)

text: Cyprinus�carpio gut content

characteristic: environment (material)

text: United Kingdom

text: host-associated

text: mimarks-survey

text: Cyprinus carpio

text: BBSRC Fish (three species)

text: Cyprinus carpio

text: Illumina

characteristic: title


characteristic: ENA first public

text: UNIVERSITY OF LIVERPOOL

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: rainbow trout

text: Oncorhynchus�mykiss

text: Oncorhynchus�mykiss gut

text: Oncorhynchus�mykiss gut content

text: United Kingdom

characteristic: geographic location (country and/or sea)

text: host-associated

text: mimarks-survey

characteristic: investigation type

text: Oncorhynchus mykiss

text: BBSRC Fish (three species)

characteristic: project name

text: Oncorhynchus mykiss

text: Illumina

characteristic: sequencing method


text: UNIVERSITY OF LIVERPOOL

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Nile tilapia

characteristic: common name

characteristic: description

text: Oreochromis�niloticus

text: Oreochromis�niloticus gut

text: Oreochromis�niloticus gut content

text: United Kingdom

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

text: mimarks-survey

text: Oreochromis niloticus

text: BBSRC Fish (three species)

text: Oreochromis niloticus

text: Illumina


characteristic: ENA-CHECKLIST

characteristic: External Id

text: UNIVERSITY OF LIVERPOOL

characteristic: INSDC last update

text: public

text: common carp

text: Cyprinus�carpio

characteristic: environment (biome)

text: Cyprinus�carpio gut

characteristic: environment (feature)

text: Oreochromis�niloticus gut content

text: United Kingdom

text: host-associated

characteristic: host-associated environmental package

text: mimarks-survey

text: Cyprinus carpio

characteristic: organism

text: BBSRC Fish (three species)

text: Cyprinus carpio

text: Illumina


characteristic: ENA first public

text: BGI-Shenzhen

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: human

text: High Coverage sequenced by Complete Genomics (CG) Sequencer. File (BAM format) was converted from mapping result of CG standard pipeline.

text: Homo sapiens

text: Homo sapiens

text: Single cell isolated from SP1 of GBM07.

characteristic: title


text: BGI-Shenzhen

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: human

text: Homo sapiens

text: Homo sapiens

text: Single cell isolated from SP2 of GBM07.


text: BGI-Shenzhen

text: public

text: human

characteristic: common name

text: Homo sapiens

text: Homo sapiens

text: Single cell isolated from SP3 of GBM07.


text: BGI-Shenzhen

text: public

text: human

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: Single cell isolated from SP1 of GBM33.


text: BGI-Shenzhen

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: Single cell isolated from SP2 of GBM33.


text: BGI-Shenzhen

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: Single cell isolated from SP3 of GBM33.


text: BGI-Shenzhen

text: public

text: human

text: Low Coverage sequenced by Complete Genomics (CG) Sequencer. File (BAM format) was converted from mapping result of CG standard pipeline.

text: Homo sapiens

text: Homo sapiens

text: Single cell isolated from SP1 of GBM07.


text: BGI-Shenzhen

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: Single cell isolated from SP2 of GBM07.


text: BGI-Shenzhen

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: Single cell isolated from SP3 of GBM07.


text: BGI-Shenzhen

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: Single cell isolated from SP1 of GBM33.


text: BGI-Shenzhen

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: Single cell isolated from SP2 of GBM33.


text: BGI-Shenzhen

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: Single cell isolated from SP3 of GBM33.


text: BGI-Shenzhen

text: public

text: human

text: Raw reads of RNA-seq (BAM format) were generated by Ion Proton platform.

text: Homo sapiens

text: Homo sapiens

text: Bulk tumor specimen (SP1) isolated from GBM07.


text: BGI-Shenzhen

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: Bulk tumor specimen (SP2) isolated from GBM07.


text: BGI-Shenzhen

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: Bulk tumor specimen (SP3) isolated from GBM07.


text: BGI-Shenzhen

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: Bulk tumor specimen (SP1) isolated from GBM33.


text: BGI-Shenzhen

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: Bulk tumor specimen (SP2) isolated from GBM33.


text: BGI-Shenzhen

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: Bulk tumor specimen (SP3) isolated from GBM33.


text: BGI-Shenzhen

text: public

text: human

text: Raw reads of DNA-seq (BAM format, low coverage) were generated by Ion Proton platform.

text: Homo sapiens

text: Homo sapiens

text: Single cell isolated from normal brain tissue of NB01.