characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Yes

text: Canada

text: Atlantic Highlands

text: lake surface water

text: Lac des Îles

text: lake water metagenome

text: lake water metagenome


status: PUBLIC

tag: attribute

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:Centre for Structural and Functional Genomics

characteristic: Submitter Id

characteristic: common name

characteristic: description

text: Yes

text: Canada

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Atlantic Highlands

characteristic: geographic location (region and locality)

text: lake surface water

text: Lac du Marin-à-Gouin

text: lake water metagenome

characteristic: organism

text: lake water metagenome

text: Lake surface water 18S rRNA gene V7 region amplicons

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Centre for Structural and Functional Genomics

text: public

text: Yes

text: Canada

text: Atlantic Highlands

text: lake surface water

text: Lac Bertrand

text: lake water metagenome

text: lake water metagenome


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Yes

text: Canada

text: Atlantic Highlands

text: lake surface water

text: Lac de l'Est

text: lake water metagenome

text: lake water metagenome


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Yes

text: Canada

text: Atlantic Highlands

text: lake surface water

text: Lac de la Dame

text: lake water metagenome

text: lake water metagenome


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Yes

text: Canada

text: Atlantic Highlands

text: lake surface water

text: Lac Volet

text: lake water metagenome

text: lake water metagenome


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Yes

text: Canada

text: Atlantic Highlands

text: lake surface water

text: Lac Fortin

text: lake water metagenome

text: lake water metagenome


text: public

characteristic: common name

characteristic: description

text: Yes

text: Canada

text: Atlantic Highlands

text: lake surface water

text: Lac des Trois Milles

text: lake water metagenome

text: lake water metagenome


text: public

text: Yes

text: Canada

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: Atlantic Highlands

text: lake surface water

text: Lac à la Truite

text: lake water metagenome

text: lake water metagenome


text: public

text: Yes

text: Canada

characteristic: geographic location (longitude)

text: Atlantic Highlands

characteristic: geographic location (region and locality)

text: lake surface water

text: Petit lac Saint-François

text: lake water metagenome

text: lake water metagenome


text: public

text: Yes

text: Canada

text: Atlantic Highlands

text: lake surface water

text: Étang Burbank

text: lake water metagenome

characteristic: organism

text: lake water metagenome

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Yes

text: Canada

text: Atlantic Highlands

text: lake surface water

text: Lac Montjoie

text: lake water metagenome

text: lake water metagenome


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Yes

text: Canada

text: Atlantic Highlands

text: lake surface water

text: Lac des Français

text: lake water metagenome

text: lake water metagenome


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Yes

text: Canada

text: Atlantic Highlands

text: lake surface water

text: Spooner Pond

text: lake water metagenome

text: lake water metagenome


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Yes

text: Canada

text: Atlantic Highlands

text: lake surface water

text: Lac Brais

text: lake water metagenome

text: lake water metagenome


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Little White Lake

text: lake water metagenome

text: lake water metagenome


text: public

characteristic: common name

characteristic: description

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Otter Lake

text: lake water metagenome

text: lake water metagenome


text: public

text: Yes

text: Canada

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: Semi-Arid Plateaux

text: lake surface water

text: Pillar Lake

text: lake water metagenome

text: lake water metagenome


text: public

text: Yes

text: Canada

characteristic: geographic location (longitude)

text: Semi-Arid Plateaux

characteristic: geographic location (region and locality)

text: lake surface water

text: Bolean Lake

text: lake water metagenome

text: lake water metagenome


text: public

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Swan Lake

text: lake water metagenome

characteristic: organism

text: lake water metagenome

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Kalamalka Lake

text: lake water metagenome

text: lake water metagenome


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Shannon Lake

text: lake water metagenome

text: lake water metagenome


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Upper Buse Lake

text: lake water metagenome

text: lake water metagenome


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Roche Lake

text: lake water metagenome

text: lake water metagenome


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Scuitto Lake

text: lake water metagenome

text: lake water metagenome


text: public

characteristic: common name

characteristic: description

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Douglas Lake

text: lake water metagenome

text: lake water metagenome


text: public

text: Yes

text: Canada

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: Semi-Arid Plateaux

text: lake surface water

text: Kentucky Lake

text: lake water metagenome

text: lake water metagenome


text: public

text: Yes

text: Canada

characteristic: geographic location (longitude)

text: Semi-Arid Plateaux

characteristic: geographic location (region and locality)

text: lake surface water

text: Paradise Lake

text: lake water metagenome

text: lake water metagenome


text: public

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Elkhart Lake

text: lake water metagenome

characteristic: organism

text: lake water metagenome

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Nicola Lake

text: lake water metagenome

text: lake water metagenome


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Munro Lake

text: lake water metagenome

text: lake water metagenome


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Skaha Lake

text: lake water metagenome

text: lake water metagenome


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Green Lake

text: lake water metagenome

text: lake water metagenome


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Vaseux Lake

text: lake water metagenome

text: lake water metagenome


text: public

characteristic: common name

characteristic: description

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Mahoney Lake

text: lake water metagenome

text: lake water metagenome


text: public

text: Yes

text: Canada

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: Semi-Arid Plateaux

text: lake surface water

text: Silver Lake

text: lake water metagenome

text: lake water metagenome


text: public

text: Yes

text: Canada

characteristic: geographic location (longitude)

text: Semi-Arid Plateaux

characteristic: geographic location (region and locality)

text: lake surface water

text: Anderson Lake

text: lake water metagenome

text: lake water metagenome


text: public

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Gun Lake

text: lake water metagenome

characteristic: organism

text: lake water metagenome

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Chapperon Lake

text: lake water metagenome

text: lake water metagenome


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Whitewood Lake

text: lake water metagenome

text: lake water metagenome


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Pimainus Lakes

text: lake water metagenome

text: lake water metagenome


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Shambrook Lake

text: lake water metagenome

text: lake water metagenome


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Yes

text: Canada

text: Semi-Arid Plateaux

text: lake surface water

text: Cultus Lake

text: lake water metagenome

text: lake water metagenome


text: Quadram Institute Bioscience

text: public

tag: Namespace:Quadram Institute Bioscience

text: COVID-19 Genomics UK Consortium

characteristic: broker name

text: Quadram Institute Bioscience

characteristic: collecting institution

characteristic: collection date

text: not provided

characteristic: collector name

text: not provided

characteristic: definition for seropositive sample

text: United Kingdom

text: England

text: not provided

characteristic: host common name

text: not provided

characteristic: host health state

text: Human

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: not provided

characteristic: isolate

text: Severe acute respiratory syndrome coronavirus 2

characteristic: receipt date

text: active surveillance in response to outbreak

characteristic: sample capture status

text: not provided

characteristic: serotype (required for a seropositive sample)

text: not provided

characteristic: virus identifier


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Birmingham

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:University of Birmingham

text: COVID-19 Genomics UK Consortium

text: University of Birmingham

text: not provided

text: not provided

text: United Kingdom

characteristic: geographic location (country and/or sea)

text: England

characteristic: geographic location (region and locality)

text: not provided

text: not provided

text: Human

text: not provided

text: not provided

text: not provided

characteristic: organism

text: not provided

characteristic: title

text: not provided


text: public

tag: Namespace:Virology Department, Sheffield Teaching Hospitals NHS Foundation Trust/Department of Infection, Immunity and Cardiovascular Disease, The Medical School, University of Sheffield

characteristic: Submitter Id

text: COVID-19 Genomics UK Consortium

characteristic: broker name

characteristic: collecting institution

characteristic: collection date

text: not provided

characteristic: collector name

text: not provided

characteristic: definition for seropositive sample

text: United Kingdom

text: England

text: not provided

characteristic: host common name

text: not provided

characteristic: host health state

text: Human

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: not provided

characteristic: isolate

characteristic: receipt date

text: not provided

text: not provided


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:Northumbria University / South Tees Hospitals NHS Foundation Trust / North Cumbria Integrated Care NHS Foundation Trust / North Tees and Hartlepool NHS Foundation Trust / Newcastle Hospitals NHS Foundation Trust

text: COVID-19 Genomics UK Consortium

text: not provided

text: not provided

text: United Kingdom

characteristic: geographic location (country and/or sea)

text: England

text: not provided

text: not provided

text: Human

text: not provided

text: not provided

text: not provided

characteristic: sample capture status

text: not provided

characteristic: serotype (required for a seropositive sample)

text: not provided

characteristic: virus identifier


text: Northumbria University / South Tees Hospitals NHS Foundation Trust / North Cumbria Integrated Care NHS Foundation Trust / North Tees and Hartlepool NHS Foundation Trust / Newcastle Hospitals NHS Foundation Trust

text: public

characteristic: Submitter Id

text: COVID-19 Genomics UK Consortium

characteristic: broker name

characteristic: collecting institution

characteristic: collection date

text: not provided

characteristic: collector name

text: not provided

characteristic: definition for seropositive sample

text: United Kingdom

text: England

characteristic: geographic location (region and locality)

text: not provided

characteristic: host common name

text: not provided

characteristic: host health state

text: Human

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

text: not provided

characteristic: organism

text: not provided

characteristic: title

text: not provided


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Virology Department, Sheffield Teaching Hospitals NHS Foundation Trust/Department of Infection, Immunity and Cardiovascular Disease, The Medical School, University of Sheffield

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: COVID-19 Genomics UK Consortium

text: not provided

text: not provided

text: United Kingdom

characteristic: geographic location (country and/or sea)

text: England

text: not provided

text: not provided

text: Human

text: not provided

text: not provided

characteristic: host subject id

text: not provided

characteristic: isolate

characteristic: receipt date

text: not provided

text: not provided


text: public

tag: Namespace:Originating lab: Wales Specialist Virology Centre Sequencing lab: Pathogen Genomics Unit

characteristic: Submitter Id

text: COVID-19 Genomics UK Consortium

characteristic: broker name

characteristic: collecting institution

characteristic: collection date

text: not provided

characteristic: collector name

text: not provided

characteristic: definition for seropositive sample

text: United Kingdom

text: Wales

characteristic: geographic location (region and locality)

text: not provided

characteristic: host common name

text: not provided

characteristic: host health state

text: Human

characteristic: host scientific name

text: not provided

text: not provided

text: not provided

characteristic: sample capture status

text: not provided

characteristic: serotype (required for a seropositive sample)

text: not provided

characteristic: virus identifier


COG-UK/BIRM-BCFHOM

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University of Birmingham

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: COG-UK/BIRM-BCFHOM

text: COVID-19 Genomics UK Consortium

text: University of Birmingham

text: not provided

text: not provided

text: United Kingdom

characteristic: geographic location (country and/or sea)

text: England

text: not provided

text: not provided

text: Human

text: not provided

characteristic: host sex

text: not provided

text: not provided

characteristic: organism

text: not provided

text: COG-UK/BIRM-BCFHOM

characteristic: title

text: not provided


text: Originating lab: Wales Specialist Virology Centre Sequencing lab: Pathogen Genomics Unit

text: public

characteristic: Submitter Id

text: COVID-19 Genomics UK Consortium

characteristic: broker name

characteristic: collecting institution

characteristic: collection date

text: not provided

characteristic: collector name

text: not provided

characteristic: definition for seropositive sample

text: United Kingdom

text: Wales

characteristic: geographic location (region and locality)

text: not provided

characteristic: host common name

text: not provided

characteristic: host health state

text: Human

characteristic: host scientific name

text: not provided

text: not provided

characteristic: host subject id

text: not provided

characteristic: isolate

characteristic: receipt date

text: not provided

text: not provided


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:The Francis Crick Insitute | UCL Queen Square Institute of Neurology

text: ArrayExpress

text: human

characteristic: common name

text: Protocols: HEK293 cells were grown in monolayer to 90% confluency on 150mm dishes with DMEM 10% FBS media prior to UVC crosslinking. Cells were washed once with 10ml of 1x PBS, and UVC crosslinked (254nm) at 150mJ/cm2 on an ice-filled tray with a Stratalinker 2400. Cells are then scraped off the dish on ice in PBS, and spun down at 250G at 4oC. Subsequently, cells are resuspended in 10ml of 1x PBS and counted with Countess automated cell counter (ThermoFisher). 1 million cells were distributed to individual eppendorf tubes, pelleted at 500G at 4oC, and snap frozen on dry ice to be stored at -80oC. Each cell pellet was lysed in 1ml CLIP lysis buffer. RNA is fragmented in lysate with RNase I at 0.1 U/ml. For each PTBP1 immunoprecipitation, 2ug of mouse monoclonal antibody (sc-56701) was used with 100ul of protein G beads for 1ml of protein lysate. After SDS-PAGE and membrane transfer, crosslinked complexes was excised to isolate the associated RNAs. iCLIP2 libraries were produced according to the published iCLIP2 protocol.

characteristic: description

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


text: The Francis Crick Insitute | UCL Queen Square Institute of Neurology

text: public

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: human

text: Protocols: HEK293 cells were grown in monolayer to 90% confluency on 150mm dishes with DMEM 10% FBS media prior to UVC crosslinking. Cells were washed once with 10ml of 1x PBS, and UVC crosslinked (254nm) at 150mJ/cm2 on an ice-filled tray with a Stratalinker 2400. Cells are then scraped off the dish on ice in PBS, and spun down at 250G at 4oC. Subsequently, cells are resuspended in 10ml of 1x PBS and counted with Countess automated cell counter (ThermoFisher). 1 million cells were distributed to individual eppendorf tubes, pelleted at 500G at 4oC, and snap frozen on dry ice to be stored at -80oC. Each cell pellet was lysed in 1ml CLIP lysis buffer. RNA is fragmented in lysate with RNase I at 0.1 U/ml. For each PTBP1 immunoprecipitation, 2ug of mouse monoclonal antibody (sc-56701) was used with 100ul of protein G beads for 1ml of protein lysate. After SDS-PAGE and membrane transfer, crosslinked complexes was excised to isolate the associated RNAs. Library construction followed the iiCLIP protocol.

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens

characteristic: title


text: public

text: ArrayExpress

text: human

text: Protocols: HEK293 cells were grown in monolayer to 90% confluency on 150mm dishes with DMEM 10% FBS media prior to UVC crosslinking. Cells were washed once with 10ml of 1x PBS, and UVC crosslinked (254nm) at 150mJ/cm2 on an ice-filled tray with a Stratalinker 2400. Cells are then scraped off the dish on ice in PBS, and spun down at 250G at 4oC. Subsequently, cells are resuspended in 10ml of 1x PBS and counted with Countess automated cell counter (ThermoFisher). 1 million cells were distributed to individual eppendorf tubes, pelleted at 500G at 4oC, and snap frozen on dry ice to be stored at -80oC. Each cell pellet was lysed in 1ml CLIP lysis buffer. RNA is fragmented in lysate with RNase I at 0.1 U/ml. For each PTBP1 immunoprecipitation, 2ug of mouse monoclonal antibody (sc-56701) was used with 100ul of protein G beads for 1ml of protein lysate. After SDS-PAGE and membrane transfer, crosslinked complexes was excised to isolate the associated RNAs. In parallel to PTBP1 IP, for iiCLIP input, 50μl of input crosslinked lysate was mixed with 50μl of pre-qashed SP3 beads for capturing protein-RNA complexes with 1:1 ratio of 100% EtOH. After SDS-PAGE and membrane transfer, crosslinked complexes was excised to isolate the associated RNAs. Library construction followed the iiCLIP protocol.

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


YFV Wildtype

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: public

text: YFV Wildtype

tag: Namespace:ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: Vero

text: Yellow fever virus isolated from vero cell culture

text: cell culture

text: Yellow fever virus

text: Yellow fever virus

characteristic: strain

text: Cell culture YFV


Strix (uil) Africa-3

characteristic: ENA-CHECKLIST

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: public

text: Strix (uil) Africa-3

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: Vero

text: Usutu virus isolated from vero cell culture

text: cell culture

text: Usutu virus

text: Usutu virus

text: Cell culture USUV


characteristic: ENA-FIRST-PUBLIC

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: public

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: Vero

text: West nile virus isolated from vero cell culture

text: cell culture

text: West Nile virus

text: West Nile virus

text: Cell culture WNV


Surinaam 2016

characteristic: ENA-LAST-UPDATE

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: public

text: Surinaam 2016

text: ERASMUS MC, UNIVERISTY MEDICAL CENTER

text: Vero

text: Zika virus isolated from vero cell culture

text: cell culture

text: Zika virus

text: Zika virus

text: Cell culture ZIKV


characteristic: External Id

text: UNIVERSITY OF CAMBRIDGE

text: public

tag: Namespace:UNIVERSITY OF CAMBRIDGE

text: ArrayExpress

text: trophoblast stem cell

text: human

text: Protocols: Placenta derived Okae et al. human trophoblast stem cells cultured in Okae et al. conditions (ttps://doi.org/10.1016/j.stem.2017.11.004). In addition, we sequenced SHEF6 primed human pluripotent stem cells as a control. Individual cells were manually isolated with a mouth pipette and subjected to single-cell full-lengths transcriptome profiling using a modified version of Smart-Seq2. For each sample, RNA separation was performed using biotinylated oligo-dT30VN-tailed oligonucleotides (IDT) conjugated to Dynabeads Streptavidin C1 (65001, Invitrogen) in an RNAse-inhibitor (RNAsin; N2615, Promega) supplemented buffer solution. Sequencing libraries were prepared according to an adapted version of the G&T protocol previously described.

text: embryo

characteristic: developmental stage

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: placenta

characteristic: organism part

text: Homo sapiens

characteristic: sex


text: UNIVERSITY OF CAMBRIDGE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: embryonic stem cell

text: human

characteristic: common name

text: embryo

text: normal

text: wild type genotype

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: embryo

text: Homo sapiens

text: female


text: Quadram Institute Bioscience

text: public

characteristic: Submitter Id

text: COVID-19 Genomics UK Consortium

characteristic: broker name

text: Quadram Institute Bioscience

characteristic: collecting institution

characteristic: collection date

text: not provided

characteristic: collector name

text: not provided

characteristic: definition for seropositive sample

text: United Kingdom

characteristic: geographic location (country and/or sea)

text: England

characteristic: geographic location (region and locality)

text: not provided

characteristic: host common name

text: not provided

characteristic: host health state

text: Human

characteristic: host scientific name

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: not provided

characteristic: isolate

characteristic: organism

characteristic: receipt date

characteristic: sample capture status

text: not provided

characteristic: serotype (required for a seropositive sample)

characteristic: title

text: not provided

characteristic: virus identifier


Alligator weed genomic DNA

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

text: Alligator weed genomic DNA

tag: Namespace:Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, University of Queensland

characteristic: Submitter Id

text: Genomic DNA extracted from leaf tissue of alligator weed collected at Rocklea, Queensland, Australia.

characteristic: description

text: Australia

text: Queensland

text: Alternanthera philoxeroides

text: Alternanthera philoxeroides

text: Genome-guided analysis of herbicide resistance in seven Australian weed species


African boxthorn genomic DNA

text: Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, University of Queensland

text: public

text: African boxthorn genomic DNA

text: Genomic DNA extracted from leaf tissue of African boxthorn collected at Minden, Queensland, Australia.

text: Australia

characteristic: geographic location (country and/or sea)

text: Queensland

characteristic: geographic location (region and locality)

text: Lycium ferocissimum

characteristic: organism

text: Lycium ferocissimum


Fireweed genomic DNA

text: public

text: Fireweed genomic DNA

text: Genomic DNA extracted from leaf tissue of fireweed collected at Bellbird Park, Queensland, Australia.

text: Australia

text: Queensland

text: Senecio madagascariensis

text: Senecio madagascariensis


Lantana genomic DNA

text: public

text: Lantana genomic DNA

text: Genomic DNA extracted from leaf tissue of lantana collected at Bellbird Park, Queensland, Australia.

text: Australia

text: Queensland

text: Lantana camara

text: Lantana camara


Parthenium genomic DNA

text: public

text: Parthenium genomic DNA

text: Genomic DNA extracted from leaf tissue of parthernium collected from lab cultures at the Queensland Department of Agriculture and Fisheries, Ecoscience Precinct (Brisbane), grown from seeds collected at Mundubbera, Queensland.

text: Australia

text: Queensland

text: Parthenium hysterophorus

text: Parthenium hysterophorus


Rubber vine genomic DNA

text: public

text: Rubber vine genomic DNA

text: Genomic DNA extracted from leaf tissue of rubber vine collected from lab cultures at the University of Queensland, grown from seeds acquired from Tropical Weeds Research Centre, Charters Towers, Queensland, Australia.

text: Australia

text: Queensland

text: Cryptostegia grandiflora

text: Cryptostegia grandiflora


Water hyacinth genomic DNA

text: public

text: Water hyacinth genomic DNA

text: water hyacinth

characteristic: common name

text: Genomic DNA extracted from leaf tissue of water hyacinth collected at Carina, Queensland, Australia.

text: Australia

text: Queensland

text: Pontederia crassipes

text: Pontederia crassipes


text: public

tag: Namespace:CENTRO DE INVESTIGACION Y TECNOLOGIA AGROALIMENTARIA DE ARAGON

text: Centro de Investigacion y Tecnologia Agroalimentaria de Aragon

text: almond

text: 1-year-old Prunus dulcis shoot tip

text: Spain

text: Zuera, Zaragoza

text: 41.8630563850573, -0.6526712419313184

text: Prunus dulcis

text: Prunus dulcis

text: shoot tips

text: Diamar-Rootpac20 combination biological replicate 1 (RNA-Seq Illumina)

characteristic: title


text: CENTRO DE INVESTIGACION Y TECNOLOGIA AGROALIMENTARIA DE ARAGON

text: public

text: almond

text: 1-year-old Prunus dulcis shoot tip

text: Spain

text: Zuera, Zaragoza

text: 41.8630563850573, -0.6526712419313184

text: Prunus dulcis

text: Prunus dulcis

text: shoot tips

text: Diamar-Rootpac20 combination biological replicate 2 (RNA-Seq Illumina)


text: public

text: almond

text: 1-year-old Prunus dulcis shoot tip

text: Spain

text: Zuera, Zaragoza

text: 41.8630563850573, -0.6526712419313184

text: Prunus dulcis

text: Prunus dulcis

text: shoot tips

text: Diamar-Rootpac40 combination biological replicate 1 (RNA-Seq Illumina)


text: public

text: almond

text: 1-year-old Prunus dulcis shoot tip

text: Spain

text: Zuera, Zaragoza

text: 41.8630563850573, -0.6526712419313184

text: Prunus dulcis

text: Prunus dulcis

text: shoot tips

text: Diamar-Garnem combination biological replicate 2 (RNA-Seq Illumina)


text: Animal Breeding and Genomics Centre

text: public

tag: Namespace:Animal Breeding and Genomics Centre

text: sheep

text: Farm animals dedicated to replacement purposes must be carefully managed and selected to ensure the best reproductive traits, thus avoiding potentially adverse effects due to developmental programming issues. DNA methylation profiles transmitted across generations allow researchers to decode epigenetic regulation mechanisms in mammals and identify novel candidate genes correlated with phenotype differences in both, dams and offspring. Therefore, improving knowledge in the field of epigenetics and transgenerational effects caused by pre- and postnatal early nutritional events (e.g., feed restriction) is crucial for refining strategies dedicated to animal breeding. In the present study we determined differences in the biochemical profile, metabolome and global blood methylation patterns of F0 (between ewe lambs with or without early feed restricted) and F1 (female lambs born from F0) by reduced representation bisulfite sequencing (RRBS) technology. Our data show that functional categories such as those related to cellular processes, phosphorylation, nervous system, immunity response or reproductive function were significantly enriched in the F1-feed restricted (F1-RES) lambs due to differences in the methylation of genes in these categories. These F1-RES lambs did not show differences in feed efficiency during the replacement period but presented higher levels of insulin and triglycerides and reduced concentration of progesterone, whereas the metabolome profile demonstrated variations in the bile acid composition of both F1 groups. Taken together all these results suggest that transgenerational effects caused by early feed restriction of dams (F0) may persist in the F1 female lambs with negative consequences on genes involved in several (cellular) processes including reproductive traits.

text: Ovis aries

text: Ovis aries

text: female

characteristic: sex

text: Assaf breed

text: blood

text: Methylation in sheeps in relation to feeding.


characteristic: ENA-CHECKLIST

text: FISABIO

text: public

characteristic: collection date

text: human gut metagenome

text: stool sample from subject 1701

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

characteristic: environment (feature)

text: human-associated habitat

characteristic: environment (material)

text: human-gut

characteristic: environmental package

text: Spain

unit: DD

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: human-gut

characteristic: human gut environmental package

text: metagenome

characteristic: investigation type

text: human gut metagenome

characteristic: project name

text: human gut metagenome

text: Illumina

characteristic: sequencing method

text: DNA metagenome from sample INT_1701


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FISABIO

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: human gut metagenome

text: stool sample from subject 1702

characteristic: description

text: terrestrial biome

text: human-associated habitat

text: human-associated habitat

text: human-gut

text: Spain

characteristic: geographic location (country and/or sea)

text: human-gut

text: metagenome

text: human gut metagenome

text: human gut metagenome

text: Illumina

text: DNA metagenome from sample INT_1702


characteristic: ENA-CHECKLIST

text: FISABIO

text: public

characteristic: collection date

text: human gut metagenome

characteristic: common name

text: stool sample from subject 1706

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

characteristic: environment (feature)

text: human-associated habitat

characteristic: environment (material)

text: human-gut

characteristic: environmental package

text: Spain

characteristic: geographic location (latitude)

text: human-gut

text: metagenome

text: human gut metagenome

characteristic: organism

text: human gut metagenome

text: Illumina

text: DNA metagenome from sample INT_1706

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FISABIO

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: human gut metagenome

text: stool sample from subject 1707

text: terrestrial biome

text: human-associated habitat

text: human-associated habitat

text: human-gut

text: Spain

characteristic: geographic location (longitude)

text: human-gut

characteristic: human gut environmental package

text: metagenome

characteristic: investigation type

text: human gut metagenome

characteristic: project name

text: human gut metagenome

text: Illumina

characteristic: sequencing method

text: DNA metagenome from sample INT_1707


characteristic: ENA-CHECKLIST

text: FISABIO

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: human gut metagenome

characteristic: common name

text: stool sample from subject 1708

characteristic: description

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

text: human-associated habitat

text: human-gut

text: Spain

characteristic: geographic location (country and/or sea)

text: human-gut

text: metagenome

text: human gut metagenome

text: human gut metagenome

text: Illumina

text: DNA metagenome from sample INT_1708


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FISABIO

characteristic: INSDC center name

text: public

text: human gut metagenome

text: stool sample from subject 1711

text: terrestrial biome

text: human-associated habitat

characteristic: environment (feature)

text: human-associated habitat

characteristic: environment (material)

text: human-gut

characteristic: environmental package

text: Spain

characteristic: geographic location (latitude)

text: human-gut

text: metagenome

text: human gut metagenome

characteristic: organism

text: human gut metagenome

text: Illumina

text: DNA metagenome from sample INT_1711

characteristic: title


characteristic: ENA-CHECKLIST

text: FISABIO

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: human gut metagenome

text: stool sample from subject 1712

text: terrestrial biome

text: human-associated habitat

text: human-associated habitat

text: human-gut

text: Spain

characteristic: geographic location (longitude)

text: human-gut

characteristic: human gut environmental package

text: metagenome

characteristic: investigation type

text: human gut metagenome

characteristic: project name

text: human gut metagenome

text: Illumina

characteristic: sequencing method

text: DNA metagenome from sample INT_1712


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FISABIO

characteristic: INSDC center name

text: public

characteristic: Submitter Id

characteristic: collection date

text: human gut metagenome

characteristic: common name

text: stool sample from subject 1814

characteristic: description

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

text: human-associated habitat

text: human-gut

text: Spain

characteristic: geographic location (country and/or sea)

text: human-gut

text: metagenome

text: human gut metagenome

text: human gut metagenome

text: Illumina

text: DNA metagenome from sample INT_1814


characteristic: ENA-CHECKLIST

text: FISABIO

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: human gut metagenome

text: stool sample from subject 1815

text: terrestrial biome

text: human-associated habitat

characteristic: environment (feature)

text: human-associated habitat

characteristic: environment (material)

text: human-gut

characteristic: environmental package

text: Spain

characteristic: geographic location (latitude)

text: human-gut

text: metagenome

text: human gut metagenome

characteristic: organism

text: human gut metagenome

text: Illumina

text: DNA metagenome from sample INT_1815

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FISABIO

characteristic: INSDC center name

text: public

characteristic: SRA accession

text: human gut metagenome

text: stool sample from subject 1816

text: terrestrial biome

text: human-associated habitat

text: human-associated habitat

text: human-gut

text: Spain

characteristic: geographic location (longitude)

text: human-gut

characteristic: human gut environmental package

text: metagenome

characteristic: investigation type

text: human gut metagenome

characteristic: project name

text: human gut metagenome

text: Illumina

characteristic: sequencing method

text: DNA metagenome from sample INT_1816


characteristic: ENA-CHECKLIST

text: FISABIO

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: Submitter Id

characteristic: collection date

text: human gut metagenome

characteristic: common name

text: stool sample from subject 1817

characteristic: description

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

text: human-associated habitat

text: human-gut

text: Spain

characteristic: geographic location (country and/or sea)

text: human-gut

text: metagenome

text: human gut metagenome

text: human gut metagenome

text: Illumina

text: DNA metagenome from sample INT_1817


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FISABIO

characteristic: INSDC center name

text: public

text: human gut metagenome

text: stool sample from subject 1818

text: terrestrial biome

text: human-associated habitat

characteristic: environment (feature)

text: human-associated habitat

characteristic: environment (material)

text: human-gut

characteristic: environmental package

text: Spain

characteristic: geographic location (latitude)

text: human-gut

text: metagenome

text: human gut metagenome

characteristic: organism

text: human gut metagenome

text: Illumina

text: DNA metagenome from sample INT_1818

characteristic: title


characteristic: ENA-CHECKLIST

text: FISABIO

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: human gut metagenome

text: stool sample from subject 1819

text: terrestrial biome

text: human-associated habitat

text: human-associated habitat

text: human-gut

text: Spain

characteristic: geographic location (longitude)

text: human-gut

characteristic: human gut environmental package

text: metagenome

characteristic: investigation type

text: human gut metagenome

characteristic: project name

text: human gut metagenome

text: Illumina

characteristic: sequencing method

text: DNA metagenome from sample INT_1819


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FISABIO

characteristic: INSDC center name

text: public

characteristic: Submitter Id

characteristic: collection date

text: human gut metagenome

characteristic: common name

text: stool sample from subject 1821

characteristic: description

text: terrestrial biome

characteristic: environment (biome)

text: human-associated habitat

text: human-associated habitat

text: human-gut

text: Spain

characteristic: geographic location (country and/or sea)

text: human-gut

text: metagenome

text: human gut metagenome

text: human gut metagenome

text: Illumina

text: DNA metagenome from sample INT_1821


characteristic: ENA-CHECKLIST

text: FISABIO

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: human gut metagenome

text: stool sample from subject 1824

text: terrestrial biome

text: human-associated habitat

characteristic: environment (feature)

text: human-associated habitat

characteristic: environment (material)

text: human-gut

characteristic: environmental package

text: Spain

characteristic: geographic location (latitude)

text: human-gut

text: metagenome

text: human gut metagenome

characteristic: organism

text: human gut metagenome

text: Illumina

text: DNA metagenome from sample INT_1824

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FISABIO

characteristic: INSDC center name

text: public

characteristic: SRA accession

text: human gut metagenome

text: stool sample from subject 1825

text: terrestrial biome

text: human-associated habitat

text: human-associated habitat

text: human-gut

text: Spain

characteristic: geographic location (longitude)

text: human-gut

characteristic: human gut environmental package

text: metagenome

characteristic: investigation type

text: human gut metagenome

characteristic: project name

text: human gut metagenome

text: Illumina

characteristic: sequencing method

text: DNA metagenome from sample INT_1825


characteristic: ENA-CHECKLIST

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:INRAE Ile de France Jouy en Josas - Antony

characteristic: Submitter Id

characteristic: collection date

text: Cells from a batch laboratory microcosm of anaerobic digestion, fed with formate, sampled at day 13 in reactor B3

characteristic: description

text: anaerobic bioreactor

characteristic: environment (biome)

text: anaerobic bioreactor

text: anaerobic sludge

text: France

characteristic: geographic location (country and/or sea)

text: Ile-de-France, Antony

characteristic: geographic location (region and locality)

text: metagenome

text: miscellaneous natural or artificial environment

characteristic: miscellaneous environmental package

text: metagenome

text: Viruses of methanogenic archaea in anaerobic digestion reactors fed with formate

unit: °C

characteristic: sample storage temperature

unit: mL

characteristic: sample volume or weight for DNA extraction

text: metagenome

text: Illumina NextSeq 2x150 b

unit: ºC

characteristic: temperature


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: INRAE Ile de France Jouy en Josas - Antony

characteristic: INSDC center name

text: public

characteristic: SRA accession

text: Cells from a batch laboratory microcosm of anaerobic digestion, fed with formate, sampled at day 16 in reactor B2

text: anaerobic bioreactor

text: anaerobic bioreactor

characteristic: environment (feature)

text: anaerobic sludge

characteristic: environment (material)

text: France

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Ile-de-France, Antony

text: metagenome

characteristic: investigation type

text: metagenome

characteristic: organism

text: metagenome

text: Illumina NextSeq 2x150 b

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: Submitter Id

characteristic: collection date

text: Cells from a batch laboratory microcosm of anaerobic digestion, fed with formate, sampled at day 16 in reactor B2, SIP fraction 1 (light)

characteristic: description

text: anaerobic bioreactor

characteristic: environment (biome)

text: anaerobic bioreactor

text: anaerobic sludge

text: France

characteristic: geographic location (country and/or sea)

text: Ile-de-France, Antony

characteristic: geographic location (region and locality)

text: metagenome

text: metagenome

characteristic: project name

text: metagenome

text: Illumina NextSeq 2x150 b

characteristic: sequencing method


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

characteristic: SRA accession

text: Cells from a batch laboratory microcosm of anaerobic digestion, fed with formate, sampled at day 16 in reactor B2, SIP fraction 2 (inbetween light and heavy)

text: anaerobic bioreactor

text: anaerobic bioreactor

characteristic: environment (feature)

text: anaerobic sludge

characteristic: environment (material)

text: France

characteristic: geographic location (latitude)

text: Ile-de-France, Antony

text: metagenome

characteristic: miscellaneous environmental package

text: metagenome

characteristic: sample storage temperature

characteristic: sample volume or weight for DNA extraction

text: metagenome

text: Illumina NextSeq 2x150 b

characteristic: temperature


characteristic: ENA-CHECKLIST

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: Submitter Id

characteristic: collection date

text: Cells from a batch laboratory microcosm of anaerobic digestion, fed with formate, sampled at day 16 in reactor B2, SIP fraction 3 (heavy)

characteristic: description

text: anaerobic bioreactor

characteristic: environment (biome)

text: anaerobic bioreactor

text: anaerobic sludge

text: France

characteristic: geographic location (longitude)

text: Ile-de-France, Antony

text: metagenome

characteristic: investigation type

text: metagenome

characteristic: organism

text: metagenome

text: Illumina NextSeq 2x150 b

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

characteristic: SRA accession

text: Viruses from a batch laboratory microcosm of anaerobic digestion, fed with formate, sampled at day 13 in reactor B3

text: anaerobic bioreactor

text: anaerobic bioreactor

characteristic: environment (feature)

text: anaerobic sludge

characteristic: environment (material)

text: France

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: Ile-de-France, Antony

characteristic: geographic location (region and locality)

text: metagenome

text: metagenome

characteristic: project name

text: metagenome

text: Illumina NextSeq 2x150 b

characteristic: sequencing method


characteristic: ENA-CHECKLIST

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: Submitter Id

characteristic: collection date

text: Viruses from a batch laboratory microcosm of anaerobic digestion, fed with formate, sampled at day 16 in reactor B2

characteristic: description

text: anaerobic bioreactor

characteristic: environment (biome)

text: anaerobic bioreactor

text: anaerobic sludge

text: France

text: Ile-de-France, Antony

text: metagenome

characteristic: miscellaneous environmental package

text: metagenome

characteristic: sample storage temperature

characteristic: sample volume or weight for DNA extraction

text: metagenome

text: Illumina NextSeq 2x150 b

characteristic: temperature


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FISABIO - Public Health

characteristic: INSDC center name

text: public

characteristic: SRA accession

tag: Namespace:FISABIO - Public Health

text: mouse gut metagenome

characteristic: common name

text: germ-free and microbiota-depleted mouse models

text: mouse gut metagenome

characteristic: organism

text: mouse gut metagenome

characteristic: title


characteristic: ENA-CHECKLIST

text: INRA GRIGNON

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:INRA GRIGNON

text: Surface of a soft unpressed cheese

text: food metagenome

text: food metagenome

text: Commercial cheese


text: INRA GRIGNON

text: public

characteristic: Submitter Id

text: Surface of a pressed uncooked cheese

characteristic: description

text: food metagenome

text: food metagenome

text: Commercial cheese


text: INRA GRIGNON

text: public

text: Core of a blue-veined cheese

text: food metagenome

text: food metagenome

text: Commercial cheese


M

text: INRA GRIGNON

text: public

text: M

text: Mixture of commercial cheeses

text: food metagenome

text: food metagenome

text: Commercial cheese