characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Clinical Microbiomics A/S

characteristic: INSDC center name

text: public

text: terrestrial biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Vaginal

characteristic: delivery mode

text: Infant - 09-007 - Week 8 - Breast milk

text: faeces

characteristic: environmental medium

text: Breast milk

characteristic: formula

text: Italy

characteristic: geographic location (country and/or sea)

text: anthropogenic terrestrial biome

text: human feces metagenome

text: human feces metagenome

text: Illumina HiSeq

text: 09-007 - Week 8 - chrhmo_9_70


status: PUBLIC

tag: attribute

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Clinical Microbiomics A/S

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:Clinical Microbiomics A/S

characteristic: Submitter Id

text: terrestrial biome

text: Vaginal

text: Infant - 08-011 - Week 2 - Breast milk

characteristic: description

text: faeces

text: Breast milk

text: Italy

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: host subject id

text: anthropogenic terrestrial biome

characteristic: local environmental context

text: human feces metagenome

characteristic: organism

characteristic: project name

text: human feces metagenome

text: Illumina HiSeq

characteristic: sequencing method

text: 08-011 - Week 2 - chrhmo_9_71

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Clinical Microbiomics A/S

characteristic: INSDC center name

text: public

text: terrestrial biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Vaginal

characteristic: delivery mode

text: Infant - 08-011 - Week 1 - Breast milk

text: faeces

characteristic: environmental medium

text: Breast milk

characteristic: formula

text: Italy

characteristic: geographic location (country and/or sea)

text: anthropogenic terrestrial biome

text: human feces metagenome

text: human feces metagenome

text: Illumina HiSeq

text: 08-011 - Week 1 - chrhmo_9_72


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Clinical Microbiomics A/S

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: terrestrial biome

text: Vaginal

text: Infant - 08-012 - Week 2 - Control formula

characteristic: description

text: faeces

text: Control formula

text: Italy

characteristic: geographic location (latitude)

text: anthropogenic terrestrial biome

text: human feces metagenome

text: human feces metagenome

text: Illumina HiSeq

text: 08-012 - Week 2 - chrhmo_9_73


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Clinical Microbiomics A/S

text: public

text: terrestrial biome

text: Vaginal

text: Infant - 05-011 - Week 16 - 5HMO-Mix

text: faeces

text: Spain

characteristic: geographic location (longitude)

characteristic: host subject id

text: anthropogenic terrestrial biome

characteristic: local environmental context

text: human feces metagenome

characteristic: organism

characteristic: project name

text: human feces metagenome

text: Illumina HiSeq

characteristic: sequencing method

text: 05-011 - Week 16 - chrhmo_9_74

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Clinical Microbiomics A/S

characteristic: INSDC center name

text: public

text: terrestrial biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Vaginal

characteristic: delivery mode

text: Infant - 02-004 - Week 1 - Breast milk

text: faeces

characteristic: environmental medium

text: Breast milk

characteristic: formula

text: Spain

characteristic: geographic location (country and/or sea)

text: anthropogenic terrestrial biome

text: human feces metagenome

text: human feces metagenome

text: Illumina HiSeq

text: 02-004 - Week 1 - chrhmo_9_76


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Clinical Microbiomics A/S

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: terrestrial biome

text: Vaginal

text: Infant - 04-017 - Week 1 - 5HMO-Mix

characteristic: description

text: faeces

text: Spain

characteristic: geographic location (latitude)

text: anthropogenic terrestrial biome

text: human feces metagenome

text: human feces metagenome

text: Illumina HiSeq

text: 04-017 - Week 1 - chrhmo_9_77


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Clinical Microbiomics A/S

text: public

text: terrestrial biome

text: Vaginal

text: Infant - 04-011 - Week 8 - Control formula

text: faeces

text: Control formula

text: Spain

characteristic: geographic location (longitude)

characteristic: host subject id

text: anthropogenic terrestrial biome

characteristic: local environmental context

text: human feces metagenome

characteristic: organism

characteristic: project name

text: human feces metagenome

text: Illumina HiSeq

characteristic: sequencing method

text: 04-011 - Week 8 - chrhmo_9_78

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Clinical Microbiomics A/S

characteristic: INSDC center name

text: public

text: terrestrial biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Vaginal

characteristic: delivery mode

text: Infant - 08-011 - Week 4 - Breast milk

text: faeces

characteristic: environmental medium

text: Breast milk

characteristic: formula

text: Italy

characteristic: geographic location (country and/or sea)

text: anthropogenic terrestrial biome

text: human feces metagenome

text: human feces metagenome

text: Illumina HiSeq

text: 08-011 - Week 4 - chrhmo_9_79


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Clinical Microbiomics A/S

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: terrestrial biome

text: Vaginal

text: Infant - 03-028 - Week 8 - Control formula

characteristic: description

text: faeces

text: Control formula

text: Spain

characteristic: geographic location (latitude)

text: anthropogenic terrestrial biome

text: human feces metagenome

text: human feces metagenome

text: Illumina HiSeq

text: 03-028 - Week 8 - chrhmo_9_7


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Clinical Microbiomics A/S

text: public

text: terrestrial biome

text: Vaginal

text: Infant - 08-012 - Week 4 - Control formula

text: faeces

text: Control formula

text: Italy

characteristic: geographic location (longitude)

characteristic: host subject id

text: anthropogenic terrestrial biome

characteristic: local environmental context

text: human feces metagenome

characteristic: organism

characteristic: project name

text: human feces metagenome

text: Illumina HiSeq

characteristic: sequencing method

text: 08-012 - Week 4 - chrhmo_9_80

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Clinical Microbiomics A/S

characteristic: INSDC center name

text: public

text: terrestrial biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Vaginal

characteristic: delivery mode

text: Infant - 08-012 - Week 1 - Control formula

text: faeces

characteristic: environmental medium

text: Control formula

characteristic: formula

text: Italy

characteristic: geographic location (country and/or sea)

text: anthropogenic terrestrial biome

text: human feces metagenome

text: human feces metagenome

text: Illumina HiSeq

text: 08-012 - Week 1 - chrhmo_9_81


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Clinical Microbiomics A/S

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: terrestrial biome

text: Vaginal

text: Infant - 02-002 - Week 4 - 5HMO-Mix

characteristic: description

text: faeces

text: Spain

characteristic: geographic location (latitude)

text: anthropogenic terrestrial biome

text: human feces metagenome

text: human feces metagenome

text: Illumina HiSeq

text: 02-002 - Week 4 - chrhmo_9_82


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Clinical Microbiomics A/S

text: public

text: terrestrial biome

text: Caesarean section

text: Infant - 07-013 - 6 months - Control formula

text: faeces

text: Control formula

text: Germany

characteristic: geographic location (longitude)

characteristic: host subject id

text: anthropogenic terrestrial biome

characteristic: local environmental context

text: human feces metagenome

characteristic: organism

characteristic: project name

text: human feces metagenome

text: Illumina HiSeq

characteristic: sequencing method

text: 07-013 - 6 months - chrhmo_9_83

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Clinical Microbiomics A/S

characteristic: INSDC center name

text: public

text: terrestrial biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Vaginal

characteristic: delivery mode

text: Infant - 07-017 - 6 months - 5HMO-Mix

text: faeces

characteristic: environmental medium

characteristic: formula

text: Germany

characteristic: geographic location (country and/or sea)

text: anthropogenic terrestrial biome

text: human feces metagenome

text: human feces metagenome

text: Illumina HiSeq

text: 07-017 - 6 months - chrhmo_9_84


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Clinical Microbiomics A/S

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: terrestrial biome

text: Vaginal

text: Infant - 09-008 - Week 2 - Breast milk

characteristic: description

text: faeces

text: Breast milk

text: Italy

characteristic: geographic location (latitude)

text: anthropogenic terrestrial biome

text: human feces metagenome

text: human feces metagenome

text: Illumina HiSeq

text: 09-008 - Week 2 - chrhmo_9_85


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Clinical Microbiomics A/S

text: public

text: terrestrial biome

text: Vaginal

text: Infant - 05-014 - Week 1 - 5HMO-Mix

text: faeces

text: Spain

characteristic: geographic location (longitude)

characteristic: host subject id

text: anthropogenic terrestrial biome

characteristic: local environmental context

text: human feces metagenome

characteristic: organism

characteristic: project name

text: human feces metagenome

text: Illumina HiSeq

characteristic: sequencing method

text: 05-014 - Week 1 - chrhmo_9_86

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Clinical Microbiomics A/S

characteristic: INSDC center name

text: public

text: terrestrial biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Vaginal

characteristic: delivery mode

text: Infant - 04-007 - Week 8 - Breast milk

text: faeces

characteristic: environmental medium

text: Breast milk

characteristic: formula

text: Spain

characteristic: geographic location (country and/or sea)

text: anthropogenic terrestrial biome

text: human feces metagenome

text: human feces metagenome

text: Illumina HiSeq

text: 04-007 - Week 8 - chrhmo_9_87


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Clinical Microbiomics A/S

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: terrestrial biome

text: Vaginal

text: Infant - 03-024 - Week 12 - 5HMO-Mix

characteristic: description

text: faeces

text: Spain

characteristic: geographic location (latitude)

text: anthropogenic terrestrial biome

text: human feces metagenome

text: human feces metagenome

text: Illumina HiSeq

text: 03-024 - Week 12 - chrhmo_9_8


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Clinical Microbiomics A/S

text: public

text: terrestrial biome

text: Vaginal

text: Infant - 04-021 - Week 2 - Control formula

text: faeces

text: Control formula

text: Spain

characteristic: geographic location (longitude)

characteristic: host subject id

text: anthropogenic terrestrial biome

characteristic: local environmental context

text: human feces metagenome

characteristic: organism

characteristic: project name

text: human feces metagenome

text: Illumina HiSeq

characteristic: sequencing method

text: 04-021 - Week 2 - chrhmo_9_90

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Clinical Microbiomics A/S

characteristic: INSDC center name

text: public

text: terrestrial biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Caesarean section

characteristic: delivery mode

text: Infant - 09-006 - Week 8 - Breast milk

text: faeces

characteristic: environmental medium

text: Breast milk

characteristic: formula

text: Italy

characteristic: geographic location (country and/or sea)

text: anthropogenic terrestrial biome

text: human feces metagenome

text: human feces metagenome

text: Illumina HiSeq

text: 09-006 - Week 8 - chrhmo_9_91


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Clinical Microbiomics A/S

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: terrestrial biome

text: Vaginal

text: Infant - 08-013 - Week 1 - 5HMO-Mix

characteristic: description

text: faeces

text: Italy

characteristic: geographic location (latitude)

text: anthropogenic terrestrial biome

text: human feces metagenome

text: human feces metagenome

text: Illumina HiSeq

text: 08-013 - Week 1 - chrhmo_9_92


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Clinical Microbiomics A/S

text: public

text: terrestrial biome

text: Vaginal

text: Infant - 08-011 - Week 8 - Breast milk

text: faeces

text: Breast milk

text: Italy

characteristic: geographic location (longitude)

characteristic: host subject id

text: anthropogenic terrestrial biome

characteristic: local environmental context

text: human feces metagenome

characteristic: organism

characteristic: project name

text: human feces metagenome

text: Illumina HiSeq

characteristic: sequencing method

text: 08-011 - Week 8 - chrhmo_9_93

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Clinical Microbiomics A/S

characteristic: INSDC center name

text: public

text: terrestrial biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Vaginal

characteristic: delivery mode

text: Infant - 08-012 - Week 8 - Control formula

text: faeces

characteristic: environmental medium

text: Control formula

characteristic: formula

text: Italy

characteristic: geographic location (country and/or sea)

text: anthropogenic terrestrial biome

text: human feces metagenome

text: human feces metagenome

text: Illumina HiSeq

text: 08-012 - Week 8 - chrhmo_9_94


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Clinical Microbiomics A/S

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: terrestrial biome

text: Vaginal

text: Infant - 04-061 - Week 2 - Breast milk

characteristic: description

text: faeces

text: Breast milk

text: Spain

characteristic: geographic location (latitude)

text: anthropogenic terrestrial biome

text: human feces metagenome

text: human feces metagenome

text: Illumina HiSeq

text: 04-061 - Week 2 - chrhmo_9_9


Ceratophyllum submersum

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Ceratophyllum submersum

tag: Namespace:Institute of Plant Biology, TU Braunschweig

text: DNA extracted from Ceratophyllum submersum

text: Germany

text: Ceratophyllum submersum

characteristic: organism

text: Ceratophyllum submersum

text: Ceratophyllum submersum

characteristic: title


Digitalis purpurea

text: Institute of Plant Biology, TU Braunschweig

characteristic: INSDC center name

text: public

text: Digitalis purpurea

characteristic: collection date

text: common foxglove

characteristic: common name

text: DNA extracted from Digitalis purpurea

text: Germany

text: Digitalis purpurea

text: Digitalis purpurea

text: Digitalis purpurea


text: Anopheles gambiae

characteristic: ArrayExpress-SPECIES

text: SC

text: public

text: not provided

text: African malaria mosquito

text: not provided

characteristic: geographic location (country and/or sea)

text: Anopheles gambiae

text: Anopheles gambiae


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: IRB Barcelona, BIST

text: public

tag: Namespace:IRB Barcelona, BIST

text: 8 to 10

unit: week

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

text: Protocols: To induce pulmonary fibrosis 8-10-week-old C57BL/6 wild-type mice were anesthetized by intraperitoneal injection of a mix containing ketamine (75 mg/kg) and medetomidine (1 mg/kg). Animals were placed on a Tilting WorkStand for rodents (EMC Hallowell) and intubated intratracheally with a 24GA catheter (BD Biosciences), and delivered 30 ul aqueous iron solution containing a concentration of 8,3 mM Fe(II)Sulfate and 8,3 mM Fe(III)Nitrate (in total 16,5 mM iron), control animals received 30 μl phosphate buffered saline (PBS). Iron solution was sterile filtered with a 0.22 µm pore size syringe filter. Mice receiving intratracheal iron developed within a day sepsis-like symptoms, with severe weight-loss, from which day recovered on the fourth day post-iron. We found that treatment with a daily dose of subcutaneous buprenorphine (0.1 mg/kg) considerably mitigated these symptoms, and the overall mortality in this model remained very low (<10%). Mice were sacrificed in CO2 chambers, and lungs were removed, separated into lobes, frozen on dry ice, and stored at -80 °C until the day of nuclei isolation. Nuclei were isolated from the lung lobes using the Chromium 10X nuclei isolation kit following the manufacturer´s instructions. Three single nuclei suspensions were used for transcriptome analysis at IRB Barcelona Functional Genomics Core Facility. Briefly, nuclei isolated using the 10x genomics Chromium Nuclei Isolation with RNase Inhibitor Kit (10x Genomics), were filtered using a 40 μm flowmi cell strainer (SP Bel-Art), and quality controlled on a LUNA-FL automated fluorescence cell counter (Logos biosystems). The suspensions were used to target between 10,000 and 12,000 nuclei per sample. Partition into GEMs was performed using Chip G and the 3’ v3.1 chemistry (10X Genomics). Barcoded cDNA was amplified for 13 cycles, quantified, and quality controlled on the Bioanalyzer 2100 using a high sensitivity DNA assay (Agilent). The generated illumina-compatible libraries were quantified using the Qubit dsDNA HS assay (Invitrogen), quality controlled with the Bioanalyzer 2100 DNA HS assay (Agilent) and used to generate an equimolar pool.

text: juvenile stage

characteristic: developmental stage

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

text: not applicable

characteristic: isolate

text: Mus musculus

text: Mus musculus

text: lung

characteristic: organism part

text: Mus musculus

text: male

characteristic: sex

characteristic: stimulus

characteristic: strain

text: Control


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: IRB Barcelona, BIST

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: 8 to 10

text: ArrayExpress

text: house mouse

characteristic: description

text: juvenile stage

text: normal

text: wild type genotype

text: not applicable

text: Mus musculus

characteristic: organism

text: Mus musculus

text: lung

text: Mus musculus

text: male

text: aqueous iron solution

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CEA-MIRCEN

text: public

characteristic: collection date

text: Starting library of dsDNA SELEX

text: France

characteristic: geographic location (country and/or sea)

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: dsDNA SELEX against WT FOXL2 Round01

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: dsDNA SELEX against WT FOXL2 Round02

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: dsDNA SELEX against WT FOXL2 Round03

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: dsDNA SELEX against WT FOXL2 Round04

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: dsDNA SELEX against WT FOXL2 Round05

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: dsDNA SELEX against WT FOXL2 Round06

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: dsDNA SELEX against mut FOXL2 Round01

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: dsDNA SELEX against mut FOXL2 Round02

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: dsDNA SELEX against mut FOXL2 Round03

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: dsDNA SELEX against mut FOXL2 Round04

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: dsDNA SELEX against mut FOXL2 Round05

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: dsDNA SELEX against mut FOXL2 Round06

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: ssRNA SELEX against WT FOXL2 Round01

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: ssRNA SELEX against WT FOXL2 Round02

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: ssRNA SELEX against WT FOXL2 Round03

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: ssRNA SELEX against WT FOXL2 Round04

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: ssRNA SELEX against WT FOXL2 Round05

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: ssRNA SELEX against WT FOXL2 Round06

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: ssRNA SELEX against mut FOXL2 Round01

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: ssRNA SELEX against mut FOXL2 Round02

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: ssRNA SELEX against mut FOXL2 Round03

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: ssRNA SELEX against mut FOXL2 Round04

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: ssRNA SELEX against mut FOXL2 Round05

text: France

text: synthetic construct

text: synthetic construct


text: CEA-MIRCEN

text: public

text: ssRNA SELEX against mut FOXL2 Round06

text: France

text: synthetic construct

text: synthetic construct


text: Plasmodium falciparum

characteristic: ArrayExpress-SPECIES

text: SC

text: public

text: not provided

text: malaria parasite P. falciparum

characteristic: common name

text: not provided

text: Plasmodium falciparum

text: Plasmodium falciparum


text: Plasmodium Falciparum

characteristic: ENA-CHECKLIST

text: SC

text: public

text: not provided

text: malaria parasite P. falciparum

text: not provided

text: Plasmodium falciparum

text: Plasmodium falciparum


characteristic: ENA-FIRST-PUBLIC

text: public

tag: Namespace:IGH, CNRS-University Montpellier, UMR9002

text: house mouse

text: DMC1 ChIP-SSDS of mutant mice, replicate 1

text: Mus musculus

text: Mus musculus


text: IGH, CNRS-University Montpellier, UMR9002

characteristic: INSDC center name

text: public

text: house mouse

text: DMC1 ChIP-SSDS of control mice, replicate 2

text: Mus musculus

text: Mus musculus


text: Plasmodium vivax

text: SC

characteristic: INSDC first public

text: public

text: not provided

text: malaria parasite P. vivax

text: not provided

text: Plasmodium vivax

text: Plasmodium vivax


ExpE

text: Mary Lyon Centre, MRC Harwell Institute

characteristic: INSDC last update

text: public

text: ExpE

tag: Namespace:Mary Lyon Centre, MRC Harwell Institute

text: house mouse

text: Tgfbr3 floxed

text: Tgfbr3 Cas9 capture from CRISPR/Cas9 flox project G0 animal

characteristic: generation

text: Mary Lyon Centre, MRC Harwell Institute

characteristic: locus

text: Mus musculus

text: Mus musculus

text: Spleen


ExpD

text: Mary Lyon Centre, MRC Harwell Institute

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ExpD

characteristic: Submitter Id

text: house mouse

text: Tgfbr3 floxed

text: Tgfbr3 Cas9 capture from CRISPR/Cas9 flox project G1 animal

text: Mary Lyon Centre, MRC Harwell Institute

text: Mus musculus

text: Mus musculus

text: Spleen


text: EASY

text: Salmonidae

characteristic: Family

text: Coregonus

characteristic: Genus

text: public

text: Visual inspection

text: Salmoniformes

text: Flash frozen

text: Leif Andersson

text: Uppsala University

text: ena-SAMPLE-TAB-01-06-2023-10:27:38:581-23108

tag: Namespace:National Bioinformatics Infrastructure Sweden

text: about 3 hours

characteristic: broker name

text: Leif Andersson

text: Uppsala University

characteristic: collecting institution

text: vendace

characteristic: depth

text: Specimen collected as a representative individual for its species in the VR-EBP project for purpose of WGS and genome annotation

characteristic: description

text: Sweden

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Sela�n

characteristic: geographic location (region and locality)

text: Freshwater lake

characteristic: habitat

text: Leif Andersson

text: Uppsala University

text: adult

characteristic: lifestage

text: Coregonus albula

characteristic: organism

text: muscle tissue

characteristic: organism part

characteristic: project name

text: Fishing with net

characteristic: sample collection device or method

text: Coregonus albula

text: Male

characteristic: sex

characteristic: title

characteristic: tolid


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

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:London School of Hygiene and Tropical Medicine

characteristic: Submitter Id

characteristic: collection date

text: African malaria mosquito

characteristic: common name

text: Amplicons from DRC Anopheles funestus

text: Democratic Republic of the Congo

characteristic: geographic location (country and/or sea)

text: Anopheles funestus

text: Anopheles funestus


text: London School of Hygiene and Tropical Medicine

text: public

text: African malaria mosquito

text: Amplicons from DRC Anopheles funestus

characteristic: description

text: Democratic Republic of the Congo

text: Anopheles funestus

characteristic: organism

text: Anopheles funestus


text: University of Cologne

text: public

tag: Namespace:University of Cologne

text: human

text: Cell line

text: Germany

text: Homo sapiens

text: Homo sapiens

characteristic: title


text: University of Padova

text: public

tag: Namespace:University of Padova

text: Environment associated with an animal part or small animal

characteristic: broad-scale environmental context

text: Bacteria isolated from active galleries of Xylosandrus crassiusculus

text: Plant-associated environment

characteristic: environmental medium

text: Italy

unit: DD

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Terrestrial natural environment

characteristic: local environmental context

text: Erwinia typographi

text: Exploring the association between Erwinia typographi and ambrosia beetles

characteristic: project name

text: Erwinia typographi

text: Genome data


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Lund university

characteristic: INSDC center name

characteristic: INSDC first public

text: public

tag: Namespace:Lund university

text: sputum

text: Sweden

text: human metagenome

text: human metagenome


text: Lund university

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: BAL

text: Sweden

text: human metagenome

text: human metagenome


text: Lund university

text: public

text: H. influenzae sample

characteristic: description

text: Sweden

characteristic: geographic location (country and/or sea)

text: not provided

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: not provided

characteristic: isolate

text: sputum

text: Haemophilus influenzae

characteristic: organism

text: Haemophilus influenzae

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Lund university

text: public

text: H. influenzae sample

text: Sweden

text: not provided

text: Homo sapiens

text: not provided

text: BAL

text: Haemophilus influenzae

text: Haemophilus influenzae


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Lund university

text: public

text: not provided

text: H. influenzae sample

text: not provided

text: not provided

text: not provided

text: not provided

text: not provided

text: Haemophilus influenzae

text: Haemophilus influenzae


text: KAUST Centre of Desert Agriculture

characteristic: INSDC center name

characteristic: INSDC first public

text: public

tag: Namespace:KAUST Centre of Desert Agriculture

text: not provided

text: DeepConsensus

text: not provided

text: Aegilops umbellulata

text: Aegilops umbellulata


text: KAUST Centre of Desert Agriculture

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: not provided

text: Dovetail OmniC

text: not provided

text: Aegilops umbellulata

text: Aegilops umbellulata


text: UCSC

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: human

characteristic: common name

text: individual from Casa Concha, Cusco, Peru, 1240k SNP-Capture

text: Peru

text: Homo sapiens

text: Homo sapiens

text: archaeological bone / tooth


text: UCSC

text: public

characteristic: collection date

text: human

text: individual from Kusicancha, Cusco, Peru, 1240k SNP-Capture

characteristic: description

text: Peru

characteristic: geographic location (country and/or sea)

text: Homo sapiens

text: Homo sapiens

text: archaeological bone / tooth


text: UCSC

text: public

text: human

text: individual from Kanamarka, Cusco, Peru, 1240k SNP-Capture

text: Peru

text: Homo sapiens

text: Homo sapiens

text: archaeological bone / tooth


text: UCSC

text: public

text: human

text: individual from Machu Picchu, 1240k SNP-Capture

text: Peru

text: Homo sapiens

text: Homo sapiens

text: archaeological bone / tooth


text: UCSC

text: public

text: human

text: individual from Ollaytaytambo, Urubamba Valey, Cusco, Peru, 1240k SNP-Capture

text: Peru

text: Homo sapiens

text: Homo sapiens

text: archaeological bone / tooth


text: UCSC

text: public

text: human

text: individual from Qotakalli, Cusco, Peru, 1240k SNP-Capture

text: Peru

text: Homo sapiens

text: Homo sapiens

text: archaeological bone / tooth


text: UCSC

text: public

text: human

text: individual from Sacsahuaman, Cusco, Peru, 1240k SNP-Capture

text: Peru

text: Homo sapiens

text: Homo sapiens

text: archaeological bone / tooth


Genome assembly

text: KAUST Centre of Desert Agriculture

text: public

text: Genome assembly

text: not provided

text: Chromosome-scale assembly

text: not provided

text: Aegilops umbellulata

text: Aegilops umbellulata


text: Haukeland University Hospital

text: public

tag: Namespace:Haukeland University Hospital

characteristic: broad-scale environmental context

text: PE = Pleural empyema, n = patient number

text: pleural effusion material [ENVO_02000033]

characteristic: environmental medium

text: Norway

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: human associated habitat [ENVO:00009003]

characteristic: local environmental context

text: human metagenome

text: Study of community-acquried pleural infections

characteristic: project name

text: human metagenome

text: targeted amplicon sequencing

characteristic: sequencing method


E-MTAB-13045:Sample 1

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-13045:Sample 1

tag: Namespace:Mildred Scheel School of Oncology, University Hospital Cologne

text: ArrayExpress

characteristic: broker name

text: missing: third party data

text: human

text: Protocols: Cells were harvested during treatment with erlotinib, osimertinib, trametinib and dasatinib, following re-growth after treatment cessation or from untreated control cells RNA was extracted using the PicoPure RNA isolation kit following the manufacturer's instruction Libraries were constructed with the Lexogen 3' UTR RNA-sequencing kits

text: adult

characteristic: developmental stage

text: lung adenocarcinoma

characteristic: disease

text: EGFR mutation

characteristic: genotype

text: missing: data agreement established pre-2023

text: not applicable

characteristic: isolate

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

characteristic: organism part

text: drug resistant

characteristic: phenotype

text: Homo sapiens

text: Sample 1

characteristic: title


E-MTAB-13045:Sample 10

text: Mildred Scheel School of Oncology, University Hospital Cologne

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13045:Sample 10

characteristic: Submitter Id

text: ArrayExpress

text: missing: third party data

characteristic: collection date

text: human

characteristic: common name

characteristic: description

text: adult

text: lung adenocarcinoma

text: EGFR mutation

characteristic: geographic location (country and/or sea)

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

text: Homo sapiens

text: Sample 10


E-MTAB-13045:Sample 11

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-13045:Sample 11

text: ArrayExpress

characteristic: broker name

text: missing: third party data

text: human

text: adult

characteristic: developmental stage

text: lung adenocarcinoma

text: EGFR mutation

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

text: Homo sapiens

text: Sample 11


E-MTAB-13045:Sample 12

text: public

text: E-MTAB-13045:Sample 12

text: ArrayExpress

text: missing: third party data

text: human

text: adult

text: lung adenocarcinoma

characteristic: disease

text: EGFR mutation

characteristic: genotype

text: not applicable

characteristic: isolate

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

characteristic: organism part

text: drug resistant

characteristic: phenotype

text: Homo sapiens

text: Sample 12

characteristic: title


E-MTAB-13045:Sample 13

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13045:Sample 13

characteristic: Submitter Id

text: ArrayExpress

text: missing: third party data

characteristic: collection date

text: human

characteristic: common name

text: adult

text: lung adenocarcinoma

text: EGFR mutation

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

text: Homo sapiens

text: Sample 13


E-MTAB-13045:Sample 14

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-13045:Sample 14

text: ArrayExpress

text: missing: third party data

text: human

characteristic: description

text: adult

text: lung adenocarcinoma

text: EGFR mutation

characteristic: geographic location (country and/or sea)

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

text: Homo sapiens

text: Sample 14


E-MTAB-13045:Sample 2

text: public

text: E-MTAB-13045:Sample 2

text: ArrayExpress

characteristic: broker name

text: missing: third party data

text: human

text: adult

characteristic: developmental stage

text: lung adenocarcinoma

characteristic: disease

text: EGFR mutation

characteristic: genotype

text: not applicable

characteristic: isolate

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

characteristic: organism part

text: drug resistant

text: Homo sapiens

text: Sample 2


E-MTAB-13045:Sample 3

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13045:Sample 3

characteristic: Submitter Id

text: ArrayExpress

text: missing: third party data

text: human

text: adult

text: lung adenocarcinoma

text: EGFR mutation

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

characteristic: phenotype

text: Homo sapiens

text: Sample 3

characteristic: title


E-MTAB-13045:Sample 4

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-13045:Sample 4

text: ArrayExpress

text: missing: third party data

characteristic: collection date

text: human

characteristic: common name

text: adult

text: lung adenocarcinoma

text: EGFR mutation

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

text: Homo sapiens

text: Sample 4


E-MTAB-13045:Sample 5

text: public

text: E-MTAB-13045:Sample 5

text: ArrayExpress

characteristic: broker name

text: missing: third party data

text: human

characteristic: description

text: adult

characteristic: developmental stage

text: lung adenocarcinoma

characteristic: disease

text: EGFR mutation

characteristic: genotype

characteristic: geographic location (country and/or sea)

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

text: Homo sapiens

text: Sample 5


E-MTAB-13045:Sample 6

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13045:Sample 6

characteristic: Submitter Id

text: ArrayExpress

text: missing: third party data

text: human

text: adult

text: lung adenocarcinoma

text: EGFR mutation

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

characteristic: organism part

text: drug resistant

text: Homo sapiens

text: Sample 6


E-MTAB-13045:Sample 7

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-13045:Sample 7

text: ArrayExpress

text: missing: third party data

text: human

text: adult

text: lung adenocarcinoma

text: EGFR mutation

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

characteristic: phenotype

text: Homo sapiens

text: Sample 7

characteristic: title


E-MTAB-13045:Sample 8

text: public

text: E-MTAB-13045:Sample 8

text: ArrayExpress

characteristic: broker name

text: missing: third party data

characteristic: collection date

text: human

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: lung adenocarcinoma

characteristic: disease

text: EGFR mutation

characteristic: genotype

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

text: Homo sapiens

text: Sample 8


E-MTAB-13045:Sample 9

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13045:Sample 9

characteristic: Submitter Id

text: ArrayExpress

text: missing: third party data

text: human

text: adult

text: lung adenocarcinoma

text: EGFR mutation

characteristic: geographic location (country and/or sea)

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

text: Homo sapiens

text: Sample 9


E-MTAB-13046:Sample 1

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-13046:Sample 1

text: ArrayExpress

text: missing: third party data

text: human

text: Protocols: Cells were harvested after resistant clones had been grown successfully Total RNA was extracted using Qiagen RNeasy kits, followed by DNAse digest Libraries were constructed with Lexogen 3' UTR RNA-seq kits according to manufacturer's instruction

text: adult

text: lung adenocarcinoma

text: EGFR mutation

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

characteristic: organism part

text: drug resistant

text: parental

characteristic: replicate

text: Homo sapiens

text: Sample 1


E-MTAB-13046:Sample 10

text: public

text: E-MTAB-13046:Sample 10

text: ArrayExpress

characteristic: broker name

text: missing: third party data

characteristic: collection date

text: human

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: lung adenocarcinoma

characteristic: disease

text: EGFR mutation

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

characteristic: phenotype

text: Homo sapiens

text: Sample 10

characteristic: title


E-MTAB-13046:Sample 11

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13046:Sample 11

characteristic: Submitter Id

text: ArrayExpress

text: missing: third party data

text: human

text: adult

text: lung adenocarcinoma

text: EGFR mutation

characteristic: genotype

characteristic: geographic location (country and/or sea)

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

text: Homo sapiens

text: Sample 11


E-MTAB-13046:Sample 12

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-13046:Sample 12

text: ArrayExpress

text: missing: third party data

text: human

text: adult

text: lung adenocarcinoma

text: EGFR mutation

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

characteristic: organism part

text: drug resistant

characteristic: replicate

text: Homo sapiens

text: Sample 12


E-MTAB-13046:Sample 13

text: public

text: E-MTAB-13046:Sample 13

text: ArrayExpress

characteristic: broker name

text: missing: third party data

characteristic: collection date

text: human

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: lung adenocarcinoma

characteristic: disease

text: EGFR mutation

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

characteristic: phenotype

text: parental

text: Homo sapiens

text: Sample 13

characteristic: title


E-MTAB-13046:Sample 14

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13046:Sample 14

characteristic: Submitter Id

text: ArrayExpress

text: missing: third party data

text: human

text: adult

text: lung adenocarcinoma

text: EGFR mutation

characteristic: genotype

characteristic: geographic location (country and/or sea)

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

text: parental

text: Homo sapiens

text: Sample 14


E-MTAB-13046:Sample 15

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-13046:Sample 15

text: ArrayExpress

text: missing: third party data

text: human

text: adult

text: lung adenocarcinoma

text: EGFR mutation

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

characteristic: organism part

text: drug resistant

characteristic: replicate

text: Homo sapiens

text: Sample 15


E-MTAB-13046:Sample 16

text: public

text: E-MTAB-13046:Sample 16

text: ArrayExpress

characteristic: broker name

text: missing: third party data

characteristic: collection date

text: human

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: lung adenocarcinoma

characteristic: disease

text: EGFR mutation

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

characteristic: phenotype

text: Homo sapiens

text: Sample 16

characteristic: title


E-MTAB-13046:Sample 17

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13046:Sample 17

characteristic: Submitter Id

text: ArrayExpress

text: missing: third party data

text: human

text: adult

text: lung adenocarcinoma

text: EGFR mutation

characteristic: genotype

characteristic: geographic location (country and/or sea)

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

text: Homo sapiens

text: Sample 17


E-MTAB-13046:Sample 2

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-13046:Sample 2

text: ArrayExpress

text: missing: third party data

text: human

text: adult

text: lung adenocarcinoma

text: EGFR mutation

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

characteristic: organism part

text: drug resistant

characteristic: replicate

text: Homo sapiens

text: Sample 2


E-MTAB-13046:Sample 3

text: public

text: E-MTAB-13046:Sample 3

text: ArrayExpress

characteristic: broker name

text: missing: third party data

characteristic: collection date

text: human

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: lung adenocarcinoma

characteristic: disease

text: EGFR mutation

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

characteristic: phenotype

text: Homo sapiens

text: Sample 3

characteristic: title


E-MTAB-13046:Sample 4

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13046:Sample 4

characteristic: Submitter Id

text: ArrayExpress

text: missing: third party data

text: human

text: adult

text: lung adenocarcinoma

text: EGFR mutation

characteristic: genotype

characteristic: geographic location (country and/or sea)

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

text: Homo sapiens

text: Sample 4


E-MTAB-13046:Sample 5

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-13046:Sample 5

text: ArrayExpress

text: missing: third party data

text: human

text: adult

text: lung adenocarcinoma

text: EGFR mutation

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

characteristic: organism part

text: drug resistant

text: parental

characteristic: replicate

text: Homo sapiens

text: Sample 5


E-MTAB-13046:Sample 6

text: public

text: E-MTAB-13046:Sample 6

text: ArrayExpress

characteristic: broker name

text: missing: third party data

characteristic: collection date

text: human

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: lung adenocarcinoma

characteristic: disease

text: EGFR mutation

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

characteristic: phenotype

text: Homo sapiens

text: Sample 6

characteristic: title


E-MTAB-13046:Sample 7

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-13046:Sample 7

characteristic: Submitter Id

text: ArrayExpress

text: missing: third party data

text: human

text: adult

text: lung adenocarcinoma

text: EGFR mutation

characteristic: genotype

characteristic: geographic location (country and/or sea)

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

text: Homo sapiens

text: Sample 7


E-MTAB-13046:Sample 8

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-13046:Sample 8

text: ArrayExpress

text: missing: third party data

text: human

text: adult

text: lung adenocarcinoma

text: EGFR mutation

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

characteristic: organism part

text: drug resistant

characteristic: replicate

text: Homo sapiens

text: Sample 8


E-MTAB-13046:Sample 9

text: public

text: E-MTAB-13046:Sample 9

text: ArrayExpress

characteristic: broker name

text: missing: third party data

characteristic: collection date

text: human

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: lung adenocarcinoma

characteristic: disease

text: EGFR mutation

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: drug resistant

characteristic: phenotype

text: parental

text: Homo sapiens

text: Sample 9

characteristic: title


text: NIOO-KNAW

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Rhizosphere soil

characteristic: broad-scale environmental context

unit: m

characteristic: depth

text: Rhizosphere soil

characteristic: elevation

text: Soil

characteristic: environmental medium

text: Netherlands

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Rhizosphere soil

characteristic: local environmental context

text: soil metagenome

text: Smart-farming

characteristic: project name

text: soil metagenome


UWBM 44133

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Institute for Systems Genomics

characteristic: INSDC center name

text: public

text: UWBM 44133

tag: Namespace:Institute for Systems Genomics

text: unknown

text: University of Washington Burke Museum

characteristic: collecting institution

characteristic: collection date

text: Spoon-billed sandpiper

characteristic: common name

text: Promethion long reads of reference tree

characteristic: description

text: Russia

text: RUSSIA: Chukotskiy Avtonomnyy Okrug; Anadyr', 62 km S, 36 km E; near mouth of Avtatkuul River; 64.183, 178.25

characteristic: geographic location (region and locality)

text: Unknown

characteristic: habitat

text: not provided

characteristic: lifestage

text: Calidris pygmaea

characteristic: organism

text: muscle tissue

characteristic: organism part

text: ORG.one

text: Calidris pygmaea

text: Female

characteristic: sex

text: sequence


text: CARDIFF UNIVERSITY

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:CARDIFF UNIVERSITY

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: macrophage

text: not provided

text: house mouse

text: Protocols: Resident peritoneal macrophages (pMΦs) were obtained via peritoneal lavage with 5 ml lavage solution (PBS (Invitrogen) supplemented with 5 mM EDTA and 4% foetal calf serum (FCS)). Lavages of the same genotype were pooled together for flow cytometric cell sorting prior to nucleic acid extraction. Total RNA extraction was performed using miRNeasy Micro Kit (Qiagen) accordingly to manufacturer’s instructions. Paired-end reads from Illumina sequencing were trimmed with Trim Galore and assessed for quality using FastQC using default parameters.Reads were mapped to the mouse GRCm38 reference genome using STAR and counts were assigned to transcripts using featureCounts with the GRCm38.84 Ensembl gene build GTF. Both the reference genome and GTF were downloaded from the Ensembl FTP site. Differential gene expression analyses used the DESeq2 packageGenes were discarded from the analysis differential expression failed to be significant (significance: adj.pval < 0.05, Benjamini-Hochberg correction for multiple testing).

text: adult

characteristic: developmental stage

text: Gata-6 knockout

characteristic: genotype

text: not provided

characteristic: geographic location (country and/or sea)

text: not applicable

characteristic: isolate

text: Mus musculus

text: Mus musculus

text: peritoneal cavity

text: Mus musculus

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CARDIFF UNIVERSITY

characteristic: INSDC center name

text: public

text: ArrayExpress

text: macrophage

text: not provided

characteristic: collection date

text: house mouse

characteristic: common name

characteristic: description

text: adult

text: wild type genotype

text: not provided

text: not applicable

text: Mus musculus

text: Mus musculus

text: peritoneal cavity

text: Mus musculus


E-MTAB-13044:Endoderm 1

text: Hebrew University, Genetics Department

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: Secondary Id

text: E-MTAB-13044:Endoderm 1

tag: Namespace:Hebrew University, Genetics Department

text: NCBI

text: endodermal cell

text: not provided

text: human

text: human

text: Protocols: Cells were washed with PBS and trypsinized Qiagen RNeasy Kit KAPA Stranded mRNA-Seq Kit

text: embryo

text: not provided

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: inner cell mass

characteristic: organism part

text: embryonic stem cell

characteristic: progenitor cell type

characteristic: replicate

text: Homo sapiens

text: Homo sapiens

text: Endoderm 1


E-MTAB-13044:Endoderm 2

tag: attribute

text: Hebrew University, Genetics Department

text: public

characteristic: SRA accession

text: E-MTAB-13044:Endoderm 2

characteristic: Submitter Id

text: NCBI

characteristic: broker name

text: endodermal cell

text: not provided

text: human

text: human

text: embryo

characteristic: developmental stage

text: not provided

characteristic: geographic location (country and/or sea)

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: inner cell mass

text: embryonic stem cell

text: Homo sapiens

text: Homo sapiens

text: Endoderm 2

characteristic: title


E-MTAB-13044:Endoderm 3

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Hebrew University, Genetics Department

characteristic: INSDC center name

text: public

text: E-MTAB-13044:Endoderm 3

text: NCBI

text: endodermal cell

text: not provided

characteristic: collection date

text: human

characteristic: common name

text: human

text: embryo

text: not provided

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: inner cell mass

text: embryonic stem cell

text: Homo sapiens

text: Homo sapiens

text: Endoderm 3


text: not applicable

characteristic: ArrayExpress-SEX

text: Plasmodium falciparum Dd2

characteristic: ArrayExpress-SPECIES

characteristic: ENA-CHECKLIST

text: Not Applicable

characteristic: GENDER

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Plasmodium falciparum Dd2

text: United Kingdom

text: Plasmodium falciparum Dd2

characteristic: organism

text: Plasmodium falciparum Dd2


text: Siriyiri

characteristic: Community

text: Wa

characteristic: District

text: CGE

text: public

text: Upper West

characteristic: Region

characteristic: SRA accession

text: DTU_2022_1013975_1_MG_GH-EE-PB61_S0_L001_R1_001

characteristic: Submitter Id

text: Northern

characteristic: Zone

text: DTU-GE

characteristic: broker name

text: Urban setting with concrete housing-farm isolated from settlement

characteristic: description

text: Ghana

characteristic: geographic location (country and/or sea)

text: Sus scrofa domesticus

characteristic: host scientific name

text: faeces

text: metagenome

characteristic: sampleID

text: metagenome


text: Amanokrom

text: Akwapim North

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CGE

characteristic: INSDC center name

text: public

text: Eastern

text: DTU_2022_1013982_1_MG_GH-EE-SC34_S76_L003_R1_001

text: Southern

text: DTU-GE

characteristic: collection date

text: Rural setting with concrete housing- farm near households

text: Ghana

text: Sus scrofa domesticus

text: faeces

text: metagenome

text: metagenome

characteristic: title


text: Adjei Kojo

characteristic: Community

text: Ashiaman

characteristic: District

text: CGE

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Gt.Accra

text: DTU_2022_1013985_1_MG_GH-EE-AK47_S3_L003_R1_001

text: Southern

text: DTU-GE

text: Ghana

text: Sus scrofa domesticus

text: faeces

text: metagenome

characteristic: organism

text: metagenome


text: Nerebehi

text: Atwima

text: CGE

text: public

text: Ashanti

characteristic: Region

characteristic: SRA accession

text: DTU_2022_1014001_1_MG_GH-EE-ST37_S12_L003_R1_001

characteristic: Submitter Id

text: Middle

characteristic: Zone

text: DTU-GE

characteristic: broker name

text: Rural setting with concrete housing- farm Isolated from settlement

characteristic: description

text: Ghana

text: Sus scrofa domesticus

text: faeces

text: metagenome

text: metagenome


text: Kokosua

text: Ayensuanu

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: CGE

text: public

text: Eastern

text: DTU_2022_1013979_1_MG_GH-EE-ANY42_S71_L003_R1_001

text: Southern

text: DTU-GE

text: Rural setting with wooden and concrete housing- farm isolated from settlement

text: Ghana

characteristic: geographic location (country and/or sea)

text: Sus scrofa domesticus

characteristic: host scientific name

text: faeces

text: metagenome

characteristic: sampleID

text: metagenome


text: Bamiri

characteristic: Community

text: Techiman South

characteristic: District

characteristic: External Id

text: CGE

characteristic: INSDC center name

text: public

text: Bono East

text: DTU_2022_1013995_1_MG_GH-EE-JY65_S27_L003_R1_001

text: Middle

text: DTU-GE

characteristic: collection date

text: Rural setting with concrete housing- farm isolated from settlement

text: Ghana

text: Sus scrofa domesticus

text: faeces

text: metagenome

text: metagenome

characteristic: title


text: Bonkua

text: Ayensuanu

text: CGE

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Eastern

characteristic: Region

characteristic: SRA accession

text: DTU_2022_1013981_1_MG_GH-EE-EOA39_S1_L001_R1_001

text: Southern

text: DTU-GE

text: Ghana

text: Sus scrofa domesticus

text: faeces

text: metagenome

characteristic: organism

text: metagenome


text: Soe Zuboko

text: Bolgatanga

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CGE

text: public

text: Upper East

text: DTU_2022_1013973_1_MG_GH-EE-CA63_S2_L003_R1_001

characteristic: Submitter Id

text: Northern

characteristic: Zone

text: DTU-GE

characteristic: broker name

text: Rural setting with mud housing-Farm near households

characteristic: description

text: Ghana

text: Sus scrofa domesticus

text: faeces

text: metagenome

text: metagenome


text: Amanokrom

characteristic: Community

text: Akwapim North

characteristic: District

characteristic: ENA-LAST-UPDATE

text: CGE

text: public

text: Eastern

text: DTU_2022_1013980_1_MG_GH-EE-KF52_S86_L003_R1_001

text: Southern

text: DTU-GE

text: Ghana

characteristic: geographic location (country and/or sea)

text: Sus scrofa domesticus

characteristic: host scientific name

text: faeces

text: metagenome

characteristic: sampleID

text: metagenome


text: Inchaban Nkawnta

text: Shama

characteristic: External Id

text: CGE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: Western

text: DTU_2022_1013989_1_MG_GH-EE-FKA76_S85_L003_R1_001

text: Southern

text: DTU-GE

characteristic: collection date

text: Urban setting with wooden and concrete housing-farm close to settlement

text: Ghana

text: Sus scrofa domesticus

text: faeces

text: metagenome

text: metagenome

characteristic: title


text: Bamiri

text: Techiman South

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CGE

text: public

characteristic: INSDC status

text: Bono East

characteristic: Region

characteristic: SRA accession

text: DTU_2022_1013994_1_MG_GH-EE-BB27_S1_L003_R1_001

text: Middle

text: DTU-GE

text: Ghana

text: Sus scrofa domesticus

text: faeces

text: metagenome

characteristic: organism

text: metagenome


text: Tuobodom

characteristic: Community

text: Techiman North

characteristic: District

text: CGE

text: public

text: Bono East

text: DTU_2022_1013992_1_MG_GH-EE-EJ37_S0_L001_R1_001

characteristic: Submitter Id

text: Middle

characteristic: Zone

text: DTU-GE

characteristic: broker name

text: Rural setting with wooden housing- farm close to settlement

characteristic: description

text: Ghana

text: Sus scrofa domesticus

text: faeces

text: metagenome

text: metagenome


text: Labadi

text: Ladma

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CGE

characteristic: INSDC center name

text: public

text: Gt.Accra

text: DTU_2022_1013987_1_MG_GH-EE-BAK63_S6_L003_R1_001

text: Southern

text: DTU-GE

text: Urban setting with wooden housing-farm isolated from settlement

text: Ghana

characteristic: geographic location (country and/or sea)

text: Sus scrofa domesticus

characteristic: host scientific name

text: faeces

text: metagenome

characteristic: sampleID

text: metagenome


text: Tuobodom

text: Techiman North

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CGE

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: Bono East

text: DTU_2022_1013993_1_MG_GH-EE-SAK32_S0_L001_R1_001

text: Middle

text: DTU-GE

characteristic: collection date

text: Rural setting with wooden housing- farm isolated from settlement

text: Ghana

text: Sus scrofa domesticus

text: faeces

text: metagenome

text: metagenome

characteristic: title


text: Soe

characteristic: Community

text: Bolgatanga

characteristic: District

text: CGE

text: public

characteristic: INSDC status

text: Upper East

characteristic: Region

characteristic: SRA accession

text: DTU_2022_1013972_1_MG_GH-EE-AS54_S75_L004_R1_001

text: Northern

text: DTU-GE

text: Rural setting with mud housing- farm near households.

text: Ghana

text: Sus scrofa domesticus

text: faeces

text: metagenome

characteristic: organism

text: metagenome


text: Abisim

text: Sunyani

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CGE

text: public

text: Bono

text: DTU_2022_1013996_1_MG_GH-EE-EAB56_S9_L004_R1_001

characteristic: Submitter Id

text: Middle

characteristic: Zone

text: DTU-GE

characteristic: broker name

text: Rural setting with concrete housing- farm close to settlement

characteristic: description

text: Ghana

text: Sus scrofa domesticus

text: faeces

text: metagenome

text: metagenome


text: Obosomase

text: Akwapim North

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CGE

characteristic: INSDC center name

text: public

text: Eastern

text: DTU_2022_1013983_1_MG_GH-EE-KN57_S0_L001_R1_001

text: Southern

text: DTU-GE

text: Urban setting with concrete housing-farm isolated from settlement

text: Ghana

characteristic: geographic location (country and/or sea)

text: Sus scrofa domesticus

characteristic: host scientific name

text: faeces

text: metagenome

characteristic: sampleID

text: metagenome


text: Katariga

characteristic: Community

text: Sagnerigu

characteristic: District

text: CGE

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: Northern

text: DTU_2022_1013976_1_MG_GH-EE-JKA41_S9_L003_R1_001

text: Northern

text: DTU-GE

characteristic: collection date

text: Ghana

text: Sus scrofa domesticus

text: faeces

text: metagenome

text: metagenome

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CGE

text: public

characteristic: INSDC status

text: Greater Accra

characteristic: Region

characteristic: SRA accession

text: DTU_2022_1013962_1_MG_GH-VS-DOM3_S6_L004_R1_001

text: Southern

text: DTU-GE

text: Industrial (Intensive Bred) From Live Bird Markets

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

characteristic: organism

text: metagenome


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CGE

text: public

text: Greater Accra

text: DTU_2022_1013961_1_MG_GH-VS-DOM2_S1_L003_R1_001

characteristic: Submitter Id

text: Southern

characteristic: Zone

text: DTU-GE

characteristic: broker name

characteristic: description

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome


text: CGE

characteristic: INSDC center name

text: public

text: Greater Accra

text: DTU_2022_1013941_1_MG_GH-VS-WEIJ8_S190_L004_R1_001

text: Southern

text: DTU-GE

text: Urban free-range from communities within Accra

text: Ghana

characteristic: geographic location (country and/or sea)

text: Gallus gallus domesticus

characteristic: host scientific name

text: caeca

text: metagenome

characteristic: sampleID

text: metagenome


text: CGE

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: Greater Accra

text: DTU_2022_1013954_1_MG_GH-VS-KAN3_S21_L002_R1_001

text: Southern

text: DTU-GE

characteristic: collection date

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CGE

text: public

characteristic: INSDC status

text: Greater Accra

characteristic: Region

text: DTU_2022_1013948_1_MG_GH-VS-DOM13_S0_L001_R1_001

text: Southern

text: DTU-GE

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CGE

text: public

text: Greater Accra

characteristic: SRA accession

text: DTU_2022_1013956_1_MG_GH-VS-KAN7_S0_L001_R1_001

text: Southern

text: DTU-GE

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

characteristic: organism

text: metagenome


text: CGE

text: public

text: Greater Accra

text: DTU_2022_1013963_1_MG_GH-VS-DOM4_S0_L001_R1_001

characteristic: Submitter Id

text: Southern

characteristic: Zone

text: DTU-GE

characteristic: broker name

characteristic: description

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome


text: CGE

characteristic: INSDC center name

text: public

text: Greater Accra

text: DTU_2022_1013951_1_MG_GH-VS-DOM16_S182_L004_R1_001

text: Southern

text: DTU-GE

text: Ghana

characteristic: geographic location (country and/or sea)

text: Gallus gallus domesticus

characteristic: host scientific name

text: caeca

text: metagenome

characteristic: sampleID

text: metagenome


text: CGE

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: Greater Accra

text: DTU_2022_1013953_1_MG_GH-VS-KAN2_S191_L004_R1_001

text: Southern

text: DTU-GE

characteristic: collection date

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CGE

text: public

characteristic: INSDC status

text: Greater Accra

characteristic: Region

text: DTU_2022_1013970_1_MG_GH-VS-DOM11_S48_L003_R1_001

text: Southern

text: DTU-GE

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CGE

text: public

text: Greater Accra

characteristic: SRA accession

text: DTU_2022_1013920_1_MG_GH-VS-ASH9_S11_L002_R1_001

text: Southern

text: DTU-GE

text: Rural free-range birds from live bird markets

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

characteristic: organism

text: metagenome


text: CGE

text: public

text: Greater Accra

text: DTU_2022_1013926_1_MG_GH-VS-ADA5_S176_L004_R1_001

characteristic: Submitter Id

text: Southern

characteristic: Zone

text: DTU-GE

characteristic: broker name

characteristic: description

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome


text: CGE

characteristic: INSDC center name

text: public

text: Greater Accra

text: DTU_2022_1013967_1_MG_GH-VS-DOM8_S0_L001_R1_001

text: Southern

text: DTU-GE

text: Ghana

characteristic: geographic location (country and/or sea)

text: Gallus gallus domesticus

characteristic: host scientific name

text: caeca

text: metagenome

characteristic: sampleID

text: metagenome


text: CGE

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: Greater Accra

text: DTU_2022_1013971_1_MG_GH-VS-DOM12_S25_L003_R1_001

text: Southern

text: DTU-GE

characteristic: collection date

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CGE

text: public

characteristic: INSDC status

text: Greater Accra

characteristic: Region

text: DTU_2022_1013959_1_MG_GH-VS-ADA11_S209_L004_R1_001

text: Southern

text: DTU-GE

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CGE

text: public

text: Greater Accra

characteristic: SRA accession

text: DTU_2022_1013952_1_MG_GH-VS-KAN1_S32_L001_R1_001

text: Southern

text: DTU-GE

text: Industrial (Intensive Bred) From Live Bird Markets

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

characteristic: organism

text: metagenome


text: CGE

text: public

text: Greater Accra

text: DTU_2022_1013915_1_MG_GH-VS-ASH4_S179_L004_R1_001

characteristic: Submitter Id

text: Southern

characteristic: Zone

text: DTU-GE

characteristic: broker name

characteristic: description

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome


text: CGE

characteristic: INSDC center name

text: public

text: Greater Accra

text: DTU_2022_1013968_1_MG_GH-VS-DOM9_S80_L003_R1_001

text: Southern

text: DTU-GE

text: Ghana

characteristic: geographic location (country and/or sea)

text: Gallus gallus domesticus

characteristic: host scientific name

text: caeca

text: metagenome

characteristic: sampleID

text: metagenome


text: CGE

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: Greater Accra

text: DTU_2022_1013969_1_MG_GH-VS-DOM10_S0_L001_R1_001

text: Southern

text: DTU-GE

characteristic: collection date

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CGE

text: public

characteristic: INSDC status

text: Greater Accra

characteristic: Region

text: DTU_2022_1013912_1_MG_GH-VS-ASH1_S24_L001_R1_001

text: Southern

text: DTU-GE

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CGE

text: public

text: Greater Accra

characteristic: SRA accession

text: DTU_2022_1013966_1_MG_GH-VS-DOM7_S15_L003_R1_001

text: Southern

text: DTU-GE

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

characteristic: organism

text: metagenome


text: CGE

text: public

text: Greater Accra

text: DTU_2022_1013927_1_MG_GH-VS-ADA6_S180_L004_R1_001

characteristic: Submitter Id

text: Southern

characteristic: Zone

text: DTU-GE

characteristic: broker name

characteristic: description

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome


text: CGE

characteristic: INSDC center name

text: public

text: Greater Accra

text: DTU_2022_1013958_1_MG_GH-VS-KAN9_S29_L002_R1_001

text: Southern

text: DTU-GE

text: Ghana

characteristic: geographic location (country and/or sea)

text: Gallus gallus domesticus

characteristic: host scientific name

text: caeca

text: metagenome

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text: metagenome


text: CGE

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text: Southern

text: DTU-GE

characteristic: collection date

text: Urban free-range from communities within Accra

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome

characteristic: title


characteristic: ENA-LAST-UPDATE

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text: CGE

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text: Southern

text: DTU-GE

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text: caeca

text: metagenome

text: metagenome


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text: Southern

text: DTU-GE

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

characteristic: organism

text: metagenome


text: CGE

text: public

text: Greater Accra

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characteristic: Submitter Id

text: Southern

characteristic: Zone

text: DTU-GE

characteristic: broker name

characteristic: description

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome


text: CGE

characteristic: INSDC center name

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text: Southern

text: DTU-GE

text: Ghana

characteristic: geographic location (country and/or sea)

text: Gallus gallus domesticus

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text: metagenome

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text: metagenome


text: CGE

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text: Southern

text: DTU-GE

characteristic: collection date

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

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characteristic: ENA-LAST-UPDATE

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text: CGE

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characteristic: INSDC status

text: Greater Accra

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text: Southern

text: DTU-GE

text: Rural free-range birds from live bird markets

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CGE

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text: Southern

text: DTU-GE

text: Industrial (Intensive Bred) From Live Bird Markets

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

characteristic: organism

text: metagenome


text: CGE

text: public

text: Greater Accra

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characteristic: Submitter Id

text: Southern

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text: DTU-GE

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text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome


text: CGE

characteristic: INSDC center name

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characteristic: geographic location (country and/or sea)

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characteristic: ENA-LAST-UPDATE

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text: Southern

text: DTU-GE

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CGE

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text: DTU_2022_1013924_1_MG_GH-VS-ADA3_S31_L002_R1_001

text: Southern

text: DTU-GE

text: Ghana

text: Gallus gallus domesticus

text: caeca

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text: metagenome


text: CGE

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text: DTU_2022_1013921_1_MG_GH-VS-ASH10_S35_L001_R1_001

characteristic: Submitter Id

text: Southern

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text: DTU-GE

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text: Ghana

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characteristic: INSDC center name

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text: DTU_2022_1013932_1_MG_GH-VS-KAN5_S12_L002_R1_001

text: Southern

text: DTU-GE

text: Ghana

characteristic: geographic location (country and/or sea)

text: Gallus gallus domesticus

characteristic: host scientific name

text: caeca

text: metagenome

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text: metagenome


text: CGE

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text: public

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text: DTU_2022_1013957_1_MG_GH-VS-KAN8_S202_L004_R1_001

text: Southern

text: DTU-GE

characteristic: collection date

text: Ghana

text: Gallus gallus domesticus

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text: metagenome

text: metagenome

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characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CGE

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text: DTU_2022_1013949_1_MG_GH-VS-DOM14_S16_L002_R1_001

text: Southern

text: DTU-GE

text: Urban free-range from communities within Accra

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

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characteristic: ENA-CHECKLIST

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text: CGE

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text: Southern

text: DTU-GE

text: Ghana

text: Gallus gallus domesticus

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text: metagenome


text: CGE

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text: DTU_2022_1013947_1_MG_GH-VS-WEIJ14_S208_L004_R1_001

characteristic: Submitter Id

text: Southern

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text: DTU-GE

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text: Ghana

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text: metagenome

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characteristic: INSDC center name

text: public

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text: DTU_2022_1013930_1_MG_GH-VS-ADA9_S195_L004_R1_001

text: Southern

text: DTU-GE

text: Ghana

characteristic: geographic location (country and/or sea)

text: Gallus gallus domesticus

characteristic: host scientific name

text: caeca

text: metagenome

characteristic: sampleID

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text: CGE

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text: public

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text: DTU_2022_1013936_1_MG_GH-VS-WEIJ3_S16_L001_R1_001

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text: DTU-GE

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text: Ghana

text: Gallus gallus domesticus

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text: CGE

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text: DTU_2022_1013922_1_MG_GH-VS-ADA1_S203_L004_R1_001

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text: Rural free-range birds from live bird markets

text: Ghana

text: Gallus gallus domesticus

text: caeca

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text: CGE

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text: Southern

text: DTU-GE

text: Ghana

text: Gallus gallus domesticus

text: caeca

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text: metagenome


text: CGE

text: public

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text: DTU_2022_1013937_1_MG_GH-VS-WEIJ4_S0_L001_R1_001

characteristic: Submitter Id

text: Southern

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text: DTU-GE

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text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome


text: CGE

characteristic: INSDC center name

text: public

text: Greater Accra

text: DTU_2022_1013914_1_MG_GH-VS-ASH3_S175_L004_R1_001

text: Southern

text: DTU-GE

text: Ghana

characteristic: geographic location (country and/or sea)

text: Gallus gallus domesticus

characteristic: host scientific name

text: caeca

text: metagenome

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text: public

text: Greater Accra

text: DTU_2022_1013940_1_MG_GH-VS-WEIJ7_S15_L001_R1_001

text: Southern

text: DTU-GE

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text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome

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characteristic: ENA-LAST-UPDATE

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text: CGE

text: public

characteristic: INSDC status

text: Greater Accra

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text: DTU_2022_1013919_1_MG_GH-VS-ASH8_S197_L004_R1_001

text: Southern

text: DTU-GE

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome


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characteristic: ENA-FIRST-PUBLIC

text: CGE

text: public

text: Greater Accra

characteristic: SRA accession

text: DTU_2022_1013945_1_MG_GH-VS-WEIJ12_S201_L004_R1_001

text: Southern

text: DTU-GE

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

characteristic: organism

text: metagenome


text: CGE

text: public

text: Greater Accra

text: DTU_2022_1013955_1_MG_GH-VS-KAN4_S25_L002_R1_001

characteristic: Submitter Id

text: Southern

characteristic: Zone

text: DTU-GE

characteristic: broker name

text: Industrial (Intensive Bred) From Live Bird Markets

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text: Ghana

text: Gallus gallus domesticus

text: caeca

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text: metagenome


text: CGE

characteristic: INSDC center name

text: public

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text: DTU_2022_1013942_1_MG_GH-VS-WEIJ9_S10_L002_R1_001

text: Southern

text: DTU-GE

text: Ghana

characteristic: geographic location (country and/or sea)

text: Gallus gallus domesticus

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text: caeca

text: metagenome

characteristic: sampleID

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text: CGE

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text: public

text: Greater Accra

text: DTU_2022_1013946_1_MG_GH-VS-WEIJ13_S204_L004_R1_001

text: Southern

text: DTU-GE

characteristic: collection date

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CGE

text: public

characteristic: INSDC status

text: Greater Accra

characteristic: Region

text: DTU_2022_1013916_1_MG_GH-VS-ASH5_S0_L001_R1_001

text: Southern

text: DTU-GE

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CGE

text: public

text: Greater Accra

characteristic: SRA accession

text: DTU_2022_1013925_1_MG_GH-VS-ADA4_S172_L004_R1_001

text: Southern

text: DTU-GE

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

characteristic: organism

text: metagenome


text: CGE

text: public

text: Greater Accra

text: DTU_2022_1013928_1_MG_GH-VS-ADA7_S185_L004_R1_001

characteristic: Submitter Id

text: Southern

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text: DTU-GE

characteristic: broker name

characteristic: description

text: Ghana

text: Gallus gallus domesticus

text: caeca

text: metagenome

text: metagenome


characteristic: INSDC center name

text: public

tag: Namespace:Medizinische Mikrobiologie und Hygiene Universitaetsklinikum Tuebingen

text: Germany

characteristic: geographic location (country and/or sea)

text: Enterobacter hormaechei subsp. steigerwaltii


text: Medizinische Mikrobiologie und Hygiene Universitaetsklinikum Tuebingen

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: Germany

text: Enterobacter hormaechei subsp. hoffmannii


text: public

characteristic: collection date

text: Germany

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Germany

text: Enterobacter hormaechei subsp. oharae

text: Enterobacter hormaechei subsp. oharae


text: public

characteristic: INSDC status

text: Germany

text: Enterobacter kobei

text: Enterobacter kobei


characteristic: ENA-CHECKLIST

text: public

text: Germany

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae


characteristic: ENA-FIRST-PUBLIC

text: public

text: Germany

text: Pseudomonas aeruginosa

text: Pseudomonas aeruginosa


text: public

characteristic: SRA accession

text: Germany

text: Staphylococcus aureus

text: Staphylococcus aureus


text: public

tag: Namespace:Centre for Discovery Brain Sciences, University of Edinburgh

characteristic: age

text: ArrayExpress

text: primary cell line

text: cortical neuron

text: not provided

text: house mouse

characteristic: common name

text: Protocols: For anesthesia/awake samples, mice were culled and cortices rapidly dissected for RNA-seq or TRAP-seq. For visual deprivation and light stimulus samples, mice were decapitated and visual cortices rapidly dissected for RNA-seq or TRAP-seq. For primary cortical neuronal cultures, cultures were placed into serum-free base medium only (control samples) or 100nm tetradotoxin (TTX samples) for 24 hrs, then gathered for RNA-seq. RNA extraction was carried out using the High Pure RNA Isolation Kit (Roche) as per manufacturer’s instructions. 3 wells of a 24 well cell-culture plate were lysed per sample and transferred into glass- fibre filter column assemblies. Following DNAse incubation for 15 minutes, the columns were washed, dried and RNA eluted in 30 μL of elution buffer. Low-yield RNA extraction (for example following ribosomal pulldown) was carried out using the Absolutely RNA Nanoprep kit (Agilent) as per manufacturer’s instructions. Samples were lysed in 100 μL of lysis buffer with β-mercaptoethanol; mixed with equal volume of 80% sulfolane and added to silica-based fibre filter columns. DNAse treatment was carried out for 15 mins; columns were washed and dried, and RNA eluted in 20 μL of pre-warmed 600C RNAse free water. Total RNA sequencing library preparation was performed by Edinburgh Genomics using Trueseq Stranded Total RNA V2 library preparation. At least 1 μg RNA per sample was utilised, with RNA-integrity number (RIN) > 7. TRAP-sequencing library preparation (along with sequencing of matched inputs where appropriate) was performed by Cambridge Genomic Services, utilising the Clonetech - SMART-Seq v4 Ultra Low input RNA library preparation.At least 1ng RNA was used per sample with RIN > 7.

text: mouse prenatal

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: not provided

text: not applicable

characteristic: isolate

text: Mus musculus

characteristic: organism

text: Mus musculus

text: brain

characteristic: organism part

text: RNA-seq

characteristic: protocol

text: Mus musculus

text: mixed cell culture

characteristic: sex

characteristic: strain


text: Centre for Discovery Brain Sciences, University of Edinburgh

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: primary cell line

text: cortical neuron

text: not provided

characteristic: collection date

text: house mouse

characteristic: description

text: mouse prenatal

text: wild type genotype

text: not provided

characteristic: geographic location (country and/or sea)

text: not applicable

text: Mus musculus

text: Mus musculus

text: brain

text: RNA-seq

text: Mus musculus

text: mixed cell culture

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: INSDC status

characteristic: SRA accession

text: 4 week

characteristic: age

text: ArrayExpress

text: not provided

text: house mouse

characteristic: common name

text: mouse postnatal

characteristic: developmental stage

text: not provided

text: not applicable

text: Mus musculus

text: Mus musculus

text: visual cortex

text: RNA-seq

text: Mus musculus

text: male


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: 4 week

text: ArrayExpress

text: not provided

text: house mouse

text: mouse postnatal

characteristic: genotype

text: not provided

text: not applicable

characteristic: isolate

text: Mus musculus

characteristic: organism

text: Mus musculus

text: visual cortex

characteristic: organism part

text: RNA-seq

characteristic: protocol

text: Mus musculus

text: female

characteristic: sex

characteristic: strain


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: 6 week

text: ArrayExpress

characteristic: broker name

text: not provided

characteristic: collection date

text: house mouse

characteristic: description

text: mouse postnatal

text: not provided

characteristic: geographic location (country and/or sea)

text: not applicable

text: Mus musculus

text: Mus musculus

text: cerebral cortex

text: RNA-seq

text: Mus musculus

text: female

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

text: 4 week

characteristic: age

text: ArrayExpress

text: not provided

text: house mouse

characteristic: common name

text: mouse postnatal

characteristic: developmental stage

text: not provided

text: not applicable

text: Mus musculus

text: Mus musculus

text: visual cortex

text: TRAP-seq

text: Mus musculus

text: male


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: 4 week

text: ArrayExpress

text: not provided

text: house mouse

text: mouse postnatal

characteristic: genotype

text: not provided

text: not applicable

characteristic: isolate

text: Mus musculus

characteristic: organism

text: Mus musculus

text: visual cortex

characteristic: organism part

text: TRAP-seq

characteristic: protocol

text: Mus musculus

text: female

characteristic: sex

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: 6 week

text: ArrayExpress

characteristic: broker name

text: not provided

characteristic: collection date

text: house mouse

characteristic: description

text: mouse postnatal

text: not provided

characteristic: geographic location (country and/or sea)

text: not applicable

text: Mus musculus

text: Mus musculus

text: cerebral cortex

text: TRAP-seq

text: Mus musculus

text: female

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: age

text: ArrayExpress

text: not provided

text: house mouse

characteristic: common name

text: mouse prenatal

characteristic: developmental stage

text: wild type genotype

text: not provided

text: not applicable

text: Mus musculus

text: Mus musculus

text: primary cortical neuron

text: RNA-seq

text: Mus musculus

text: mixed cell culture


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: TU Dresden

text: public

tag: Namespace:TU Dresden

text: sweet wormwood

text: Plant grown in greenhouse at TU Dresden (Germany) in 2021, originating from living collection of the Institut Botànic de Barcelona (Spain)

characteristic: estimated size

text: Germany

text: missing: lab stock

characteristic: geographic location (latitude)

text: missing: lab stock

characteristic: geographic location (longitude)

text: glasshouse

characteristic: growth facility

characteristic: isolation and growth condition

text: long day, natural light

characteristic: light regimen

text: Artemisia annua

characteristic: organism

text: Sweet wormwood

characteristic: organism common name

text: whole plant development stage (PO_0007033)

characteristic: plant developmental stage

text: soil

characteristic: plant growth medium

text: leaf

characteristic: plant structure

text: diploid

characteristic: ploidy

text: healthy

characteristic: sample health state

text: Artemisia annua

characteristic: source material identifiers


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: TU Dresden

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: salsify

characteristic: common name

text: Plant grown in greenhouse at TU Dresden (Germany) in 2021, originating from IPK Genebank of the Plant Genome Resources Center Gatersleben (Germany)

characteristic: description

text: Germany

characteristic: geographic location (country and/or sea)

text: missing: lab stock

text: missing: lab stock

text: glasshouse

text: long day, natural light

text: Tragopogon porrifolius

text: Salsify

text: soil

text: leaf

text: diploid

text: healthy

text: Tragopogon porrifolius

characteristic: title