text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-84-4


status: PUBLIC

tag: attribute

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: NCGR

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: rice

characteristic: common name

text: Oryza sativa

characteristic: organism

text: Oryza sativa

text: F2 line HRF15-84-5

characteristic: title


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-8-4


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-85-1


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-85-2


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-85-3


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-85-4


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-85-5


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-8-5


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-86-1


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-86-2


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-86-3


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-86-4


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-86-5


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-87-1


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-87-2


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-87-3


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-87-4


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-87-5


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-88-1


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-88-2


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-88-3


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-88-4


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-88-5


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-9-1


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-9-2


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-9-3


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-9-4


text: NCGR

text: public

text: rice

text: Oryza sativa

text: Oryza sativa

text: F2 line HRF15-9-5


U. bromivora UB2

text: public

text: U. bromivora UB2

tag: Namespace:Institute of Bioinformatics and Systems Biology

text: 125 bp-paired end Illumina sequencing of the Ustilago bromivora MAT-2 strain UB2. UB2 represent the compatible mating partner of the sequenced Ustilago bromivora MAT-1 strain UB1. De-novo assembly of UB2 was performed with SOAPdenovo2 with a kmer length of 91.

characteristic: description

text: Ustilago bromivora

text: Ustilago bromivora

characteristic: strain

text: Ustilago bromivora UB2 genome


text: UNIVERSITY OF CAPE TOWN

text: public

tag: Namespace:UNIVERSITY OF CAPE TOWN

characteristic: collection date

text: human

text: human-associated habitat

characteristic: environment (biome)

text: vaginal

characteristic: environment (feature)

text: vaginal swabs

characteristic: environment (material)

text: South Africa

characteristic: geographic location (country and/or sea)

text: 27.8540 E

unit: DD

characteristic: geographic location (latitude)

text: 26.2485 S

characteristic: geographic location (longitude)

text: human-vaginal

characteristic: human vaginal environmental package

text: mimarks-survey

characteristic: investigation type

text: Homo sapiens

text: WISH 16S rRNA vaginal microbiome

characteristic: project name

text: Homo sapiens

text: Illumina MiSeq

characteristic: sequencing method

text: Human vaginal microbiome


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF CAPE TOWN

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

text: human-associated habitat

text: vaginal

text: vaginal swabs

text: South Africa

text: 18.3764 E

text: 34.1292 S

text: human-vaginal

text: mimarks-survey

text: Homo sapiens

text: WISH 16S rRNA vaginal microbiome

text: Homo sapiens

text: Illumina MiSeq

text: Human vaginal microbiome


Ustilago bromivora UB2

text: Institute of Bioinformatics and Systems Biology

text: public

text: Ustilago bromivora UB2

characteristic: description

text: Ustilago bromivora

characteristic: organism

text: Ustilago bromivora

text: Ustilago bromivora UB2 genome

characteristic: title


text: Plasmodium vivax

characteristic: ArrayExpress-Species

text: SC

text: public

text: malaria parasite P. vivax

characteristic: common name

text: Plasmodium vivax

text: Biological replicate 1 Blood (schizont) stage

characteristic: sample description

text: Plasmodium vivax


text: Plasmodium vivax

text: SC

text: public

text: malaria parasite P. vivax

text: Plasmodium vivax

text: Biological replicate 2 Blood (schizont) stage

text: Plasmodium vivax


text: Plasmodium vivax

text: SC

text: public

text: malaria parasite P. vivax

text: Plasmodium vivax

text: Biological replicate 1 (PV563), Blood (schizont) stage

text: Plasmodium vivax


text: Plasmodium vivax

text: SC

text: public

text: malaria parasite P. vivax

text: Plasmodium vivax

text: Biological replicate 1 (PV565), Blood (schizont) stage

text: Plasmodium vivax


text: Plasmodium vivax

text: SC

text: public

text: malaria parasite P. vivax

text: Plasmodium vivax

text: Biological replicate 1 (PV568), Blood (schizont) stage

text: Plasmodium vivax


text: Plasmodium vivax

text: SC

text: public

text: malaria parasite P. vivax

text: Plasmodium vivax

text: Biological replicate 1 (PV417-3), Blood (schizont) stage

text: Plasmodium vivax


TT

text: EESC/USP

text: public

text: TT

characteristic: collection date

text: Sludge samples - Anaerobic Reactor

characteristic: environment (biome)

text: fermentations from organic wastewater

characteristic: environment (feature)

text: microbial consortia

characteristic: environment (material)

text: Brazil

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: metagenome

text: Butyric acid production - fermentations from organic wastewater

characteristic: project name

text: metagenome

text: Illumina

characteristic: sequencing method

text: Thermal Treatment

text: wastewater/sludge

characteristic: wastewater/sludge environmental package


AT

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EESC/USP

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: AT

characteristic: Submitter Id

text: Sludge samples - Anaerobic Reactor

text: fermentations from organic wastewater

text: microbial consortia

text: Brazil

text: metagenome

text: metagenome

text: metagenome

text: Illumina

text: Thermal Treatment

text: wastewater/sludge


text: public

tag: Namespace:Faculty of Medicine and Pharmacy of Rabat

text: Acinetobacter baumannii

characteristic: organism

text: Acinetobacter baumannii

characteristic: title


BNeg

text: CNRS

text: public

text: BNeg

characteristic: collection date

text: Abalone gut microbiota - Negative control

characteristic: description

text: marine

characteristic: environment (biome)

text: marine littoral zone

characteristic: environment (feature)

text: shellfish product

characteristic: environment (material)

text: France

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

text: metagenome

text: Abalone gut microbiota

text: metagenome

text: Illumina MiSeq

type: has member


E-MTAB-5143: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-5143:Sample 1

tag: Namespace:Karolinska Institutet, Department of Women's and Children's Health

unit: week

characteristic: age

text: ArrayExpress

characteristic: broker name

text: human

characteristic: common name

text: Protocols: Collection of clinical samples by surgery. Fresh tissues were dissected and immediately submerged in 5 volumes of RNAlater Stabilization Solution (Cat No. AM7020, Thermofisher Scientific, Waltham, MA), incubated at 4°C overnight and then transferred to -20°C. RNA was extracted from one fetal lung and seven urinary bladder samples by using TissueLyser LT (Cat No. 85600, QIAGEN, Hilden, Germany) and RNeasy Fibrous Tissue Mini Kit (cat. no. 74704, QIAGEN, Hilden, Germany). The RNA was measured both quantitatively and qualitatively using NanoDrop (Thermofisher Scientific, Waltham, MA) and Bioanalyzer 2100 (Agilent, Santa Clara, CA) instruments. Illumina TruSeq mRNA library protocol according to standard procedures.

text: Homo sapiens

text: Homo sapiens

text: lung

characteristic: organism part

text: Homo sapiens

text: Sample 1


E-MTAB-5143:Sample 2

text: Karolinska Institutet, Department of Women's and Children's Health

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-5143:Sample 2

characteristic: Submitter Id

text: ArrayExpress

text: human

characteristic: description

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: urinary bladder

text: Homo sapiens

text: Sample 2

characteristic: title


E-MTAB-5143:Sample 3

characteristic: ENA-CHECKLIST

text: public

text: E-MTAB-5143:Sample 3

text: ArrayExpress

text: human

text: Homo sapiens

text: Homo sapiens

text: urinary bladder

text: Homo sapiens

text: Sample 3


E-MTAB-5143:Sample 4

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-5143:Sample 4

text: ArrayExpress

text: human

text: Homo sapiens

text: Homo sapiens

text: urinary bladder

text: Homo sapiens

text: Sample 4


E-MTAB-5143:Sample 5

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-5143:Sample 5

text: ArrayExpress

text: human

text: Homo sapiens

text: Homo sapiens

text: urinary bladder

text: Homo sapiens

text: Sample 5


E-MTAB-5143:Sample 6

characteristic: External Id

text: public

text: E-MTAB-5143:Sample 6

text: 6 to 6.5

text: ArrayExpress

text: human

text: Homo sapiens

text: Homo sapiens

text: urinary bladder

text: Homo sapiens

text: Sample 6


E-MTAB-5143:Sample 7

characteristic: INSDC center name

text: public

text: E-MTAB-5143:Sample 7

text: ArrayExpress

text: human

text: Homo sapiens

text: Homo sapiens

text: urinary bladder

text: Homo sapiens

text: Sample 7


E-MTAB-5143:Sample 8

text: public

text: E-MTAB-5143:Sample 8

characteristic: age

text: ArrayExpress

text: human

text: Homo sapiens

text: Homo sapiens

text: urinary bladder

text: Homo sapiens

text: Sample 8


text: CNRS

text: public

characteristic: collection date

text: Abalone gut microbiota - L. digitata - Feb12 - Cage 1

text: marine

characteristic: environment (biome)

text: marine littoral zone

characteristic: environment (feature)

text: shellfish product

characteristic: environment (material)

text: France

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: metagenome

text: Abalone gut microbiota

characteristic: project name

text: metagenome

text: Illumina MiSeq

characteristic: sequencing method


characteristic: ENA-CHECKLIST

text: CNRS

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Abalone gut microbiota - L. digitata - Feb12 - Cage 2

characteristic: description

text: marine

text: marine littoral zone

text: shellfish product

text: France

text: host-associated

text: metagenome

text: metagenome

characteristic: organism

text: Abalone gut microbiota

text: metagenome

text: Illumina MiSeq

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CNRS

characteristic: INSDC center name

text: public

characteristic: collection date

text: Abalone gut microbiota - L. digitata - Feb12 - Cage 3

text: marine

characteristic: environment (biome)

text: marine littoral zone

characteristic: environment (feature)

text: shellfish product

characteristic: environment (material)

text: France

text: host-associated

text: metagenome

text: metagenome

text: Abalone gut microbiota

text: metagenome

text: Illumina MiSeq


characteristic: ENA-CHECKLIST

text: CNRS

text: public

text: Abalone gut microbiota - L. digitata - Apr12 - Cage 1

text: marine

text: marine littoral zone

text: shellfish product

text: France

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: metagenome

text: Abalone gut microbiota

characteristic: project name

text: metagenome

text: Illumina MiSeq

characteristic: sequencing method


text: CNRS

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Abalone gut microbiota - L. digitata - Apr12 - Cage 2

characteristic: description

text: marine

text: marine littoral zone

text: shellfish product

text: France

text: host-associated

text: metagenome

text: metagenome

characteristic: organism

text: Abalone gut microbiota

text: metagenome

text: Illumina MiSeq

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CNRS

characteristic: INSDC center name

text: public

characteristic: collection date

text: Abalone gut microbiota - L. digitata - Apr12 - Cage 3

text: marine

characteristic: environment (biome)

text: marine littoral zone

characteristic: environment (feature)

text: shellfish product

characteristic: environment (material)

text: France

text: host-associated

text: metagenome

text: metagenome

text: Abalone gut microbiota

text: metagenome

text: Illumina MiSeq


characteristic: ENA-CHECKLIST

text: BIRMINGHAM UNIVERSITY

text: public

tag: Namespace:BIRMINGHAM UNIVERSITY

text: MTBC

characteristic: common name

text: MTBC

text: Nigeria

characteristic: geographic location (country and/or sea)

text: diseased

characteristic: host health state

text: Human

characteristic: host scientific name

text: MTBC

characteristic: isolate

text: Sputum

characteristic: isolation source

text: Mycobacterium tuberculosis

text: Mycobacterium tuberculosis


text: BIRMINGHAM UNIVERSITY

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: MTBC

characteristic: description

text: Nigeria

text: diseased

text: Human

text: MTBC

text: Sputum

text: Mycobacterium africanum

characteristic: organism

text: Mycobacterium africanum


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CNRS

characteristic: INSDC center name

text: public

characteristic: collection date

text: Abalone gut microbiota -S. latissima - Feb12 - Cage 1

text: marine

characteristic: environment (biome)

text: marine littoral zone

text: shellfish product

text: France

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: metagenome

text: Abalone gut microbiota

characteristic: project name

text: metagenome

text: Illumina MiSeq

characteristic: sequencing method

characteristic: title


characteristic: ENA-CHECKLIST

text: CNRS

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Abalone gut microbiota -S. latissima - Feb12 - Cage 2

text: marine

text: marine littoral zone

characteristic: environment (feature)

text: shellfish product

characteristic: environment (material)

text: France

characteristic: geographic location (country and/or sea)

text: host-associated

text: metagenome

text: metagenome

text: Abalone gut microbiota

text: metagenome

text: Illumina MiSeq


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CNRS

characteristic: INSDC center name

text: public

characteristic: Submitter Id

characteristic: collection date

text: Abalone gut microbiota -S. latissima - Feb12 - Cage 3

characteristic: description

text: marine

text: marine littoral zone

text: shellfish product

text: France

text: host-associated

text: metagenome

text: metagenome

characteristic: organism

text: Abalone gut microbiota

text: metagenome

text: Illumina MiSeq


text: CNRS

text: public

text: Abalone gut microbiota -P. palmata - Feb12 - Cage 1

text: marine

characteristic: environment (biome)

text: marine littoral zone

text: shellfish product

text: France

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: metagenome

text: Abalone gut microbiota

characteristic: project name

text: metagenome

text: Illumina MiSeq

characteristic: sequencing method

characteristic: title


characteristic: ENA-CHECKLIST

text: CNRS

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Abalone gut microbiota -P. palmata - Feb12 - Cage 2

text: marine

text: marine littoral zone

characteristic: environment (feature)

text: shellfish product

characteristic: environment (material)

text: France

characteristic: geographic location (country and/or sea)

text: host-associated

text: metagenome

text: metagenome

text: Abalone gut microbiota

text: metagenome

text: Illumina MiSeq


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CNRS

characteristic: INSDC center name

text: public

characteristic: Submitter Id

characteristic: collection date

text: Abalone gut microbiota -P. palmata - Feb12 - Cage 3

characteristic: description

text: marine

text: marine littoral zone

text: shellfish product

text: France

text: host-associated

text: metagenome

text: metagenome

characteristic: organism

text: Abalone gut microbiota

text: metagenome

text: Illumina MiSeq


text: CNRS

text: public

text: Abalone gut microbiota -U. lactuca - Feb12 - Cage 1

text: marine

characteristic: environment (biome)

text: marine littoral zone

text: shellfish product

text: France

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: metagenome

text: Abalone gut microbiota

characteristic: project name

text: metagenome

text: Illumina MiSeq

characteristic: sequencing method

characteristic: title


characteristic: ENA-CHECKLIST

text: CNRS

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Abalone gut microbiota -U. lactuca - Feb12 - Cage 2

text: marine

text: marine littoral zone

characteristic: environment (feature)

text: shellfish product

characteristic: environment (material)

text: France

characteristic: geographic location (country and/or sea)

text: host-associated

text: metagenome

text: metagenome

text: Abalone gut microbiota

text: metagenome

text: Illumina MiSeq


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CNRS

characteristic: INSDC center name

text: public

characteristic: Submitter Id

characteristic: collection date

text: Abalone gut microbiota -U. lactuca - Feb12 - Cage 3

characteristic: description

text: marine

text: marine littoral zone

text: shellfish product

text: France

text: host-associated

text: metagenome

text: metagenome

characteristic: organism

text: Abalone gut microbiota

text: metagenome

text: Illumina MiSeq


text: CNRS

text: public

text: Abalone gut microbiota -S. latissima - Apr12 - Cage 1

text: marine

characteristic: environment (biome)

text: marine littoral zone

text: shellfish product

text: France

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: metagenome

text: Abalone gut microbiota

characteristic: project name

text: metagenome

text: Illumina MiSeq

characteristic: sequencing method

characteristic: title


characteristic: ENA-CHECKLIST

text: CNRS

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Abalone gut microbiota -S. latissima - Apr12 - Cage 2

text: marine

text: marine littoral zone

characteristic: environment (feature)

text: shellfish product

characteristic: environment (material)

text: France

characteristic: geographic location (country and/or sea)

text: host-associated

text: metagenome

text: metagenome

text: Abalone gut microbiota

text: metagenome

text: Illumina MiSeq


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CNRS

characteristic: INSDC center name

text: public

characteristic: Submitter Id

characteristic: collection date

text: Abalone gut microbiota -S. latissima - Apr12 - Cage 3

characteristic: description

text: marine

text: marine littoral zone

text: shellfish product

text: France

text: host-associated

text: metagenome

text: metagenome

characteristic: organism

text: Abalone gut microbiota

text: metagenome

text: Illumina MiSeq


text: CNRS

text: public

text: Abalone gut microbiota -P. palmata - Apr12 - Cage 1

text: marine

characteristic: environment (biome)

text: marine littoral zone

text: shellfish product

text: France

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: metagenome

text: Abalone gut microbiota

characteristic: project name

text: metagenome

text: Illumina MiSeq

characteristic: sequencing method

characteristic: title


characteristic: ENA-CHECKLIST

text: CNRS

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Abalone gut microbiota -P. palmata - Apr12 - Cage 2

text: marine

text: marine littoral zone

characteristic: environment (feature)

text: shellfish product

characteristic: environment (material)

text: France

characteristic: geographic location (country and/or sea)

text: host-associated

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text: marine

text: marine littoral zone

characteristic: environment (feature)

text: shellfish product

characteristic: environment (material)

text: France

characteristic: geographic location (country and/or sea)

text: host-associated

text: metagenome

text: metagenome

text: Abalone gut microbiota

text: metagenome

text: Illumina MiSeq


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CNRS

characteristic: INSDC center name

text: public

characteristic: Submitter Id

characteristic: collection date

text: Abalone gut microbiota -P. palmata - Jan13 - Cage 3

characteristic: description

text: marine

text: marine littoral zone

text: shellfish product

text: France

text: host-associated

text: metagenome

text: metagenome

characteristic: organism

text: Abalone gut microbiota

text: metagenome

text: Illumina MiSeq


text: CNRS

text: public

text: Abalone gut microbiota -U. lactuca - Jan13 - Cage 1

text: marine

characteristic: environment (biome)

text: marine littoral zone

text: shellfish product

text: France

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: metagenome

text: Abalone gut microbiota

characteristic: project name

text: metagenome

text: Illumina MiSeq

characteristic: sequencing method

characteristic: title


characteristic: ENA-CHECKLIST

text: CNRS

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Abalone gut microbiota -U. lactuca - Jan13 - Cage 2

text: marine

text: marine littoral zone

characteristic: environment (feature)

text: shellfish product

characteristic: environment (material)

text: France

characteristic: geographic location (country and/or sea)

text: host-associated

text: metagenome

text: metagenome

text: Abalone gut microbiota

text: metagenome

text: Illumina MiSeq


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CNRS

characteristic: INSDC center name

text: public

characteristic: Submitter Id

characteristic: collection date

text: Abalone gut microbiota -U. lactuca - Jan13 - Cage 3

characteristic: description

text: marine

text: marine littoral zone

text: shellfish product

text: France

text: host-associated

text: metagenome

text: metagenome

characteristic: organism

text: Abalone gut microbiota

text: metagenome

text: Illumina MiSeq


Tibet

text: CEBITEC

text: public

text: Tibet

text: Draft genome sequence of Rhizobium tibeticum CCBAU85039

text: Trigonella archiducis-nicolai (Sirj.) Vassilcz.

characteristic: environment (biome)

text: root nodules

text: root nodules

text: China

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

characteristic: isolate

text: Rhizobium tibeticum

text: plant-associated

characteristic: plant-associated environmental package

text: Tibet

characteristic: project name

text: Rhizobium tibeticum

text: Illumina MiSeq

characteristic: sequencing method

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: TGAC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: bread wheat

characteristic: common name

text: Cadenza

characteristic: cultivar

characteristic: libraryid

text: Triticum aestivum

characteristic: sample name

text: Triticum aestivum

text: individual from the Cadenza TILLING population


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: WAGENINGEN UNIVERSITY

characteristic: INSDC center name

text: public

tag: Namespace:WAGENINGEN UNIVERSITY

characteristic: Submitter Id

characteristic: description

text: Tetradesmus obliquus

characteristic: organism

text: Tetradesmus obliquus

text: Scenedesmus obliquus genome wide shotgun project


Input-seq pairend

text: Sheng

text: public

text: Input-seq pairend

text: Saccharum officinarum

text: Saccharum officinarum

text: Sugarcane centromere Input-seq pairend

characteristic: title


characteristic: ENA-CHECKLIST

text: CIB, CAS

text: public

tag: Namespace:CIB, CAS

characteristic: collection date

unit: m

characteristic: depth

text: forest

characteristic: environment (biome)

text: forest

characteristic: environment (feature)

text: soil

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: metagenome

text: elevational bacteria diversity

characteristic: project name

text: metagenome

text: Miseq

characteristic: sequencing method

text: soil

characteristic: soil environmental package

text: elevational bacterial diversity


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:Evolution, Genome, Comportement, Ecologie UMR9191 CNRS - Universite Paris Sud

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: Mexican tetra

characteristic: common name

text: Protocols: Hyphessobrycon anisitsi and Astyanax mexicanus Pachon cave and Texas surface morphs were used. Sample collection included embryos and larvae encompassing stages from 10hpf (hours post-fertilisation) to 17dpf (days post-fertilisation), as well as dissected brains and olfactory epithelia from adults. Samples were immersed in Trizol (Invitrogen) and freezed at -80°C. Total RNA was extracted from the samples according to the manufacturer's instructions for Trizol Reagent (Invitrogen) mRNA were purified from total RNA (FastTrack mRNA isolation kit (Thermo Fischer)), fragmented (NEBNext Magnesium RNA fragmentation module, NEB) and treated with the TruSeq small RNA library preparation Kit (Illumina) according to the manufacturer recommendations. Final libraries were purified with AMPureXP kit (Beckman Coulter) instead of gel purification to recover all fragments. Library quality has been assessed on a bioanalyzer instrument (Agilent).

characteristic: description

text: embryo stage

characteristic: developmental stage

text: Astyanax mexicanus

text: Astyanax mexicanus

text: whole organism

characteristic: organism part

text: Pachon cave, Mexico

characteristic: origin

text: Cave

characteristic: sampling site

text: Astyanax mexicanus


characteristic: ENA-CHECKLIST

text: Evolution, Genome, Comportement, Ecologie UMR9191 CNRS - Universite Paris Sud

text: public

text: ArrayExpress

text: Mexican tetra

text: embryo stage

text: Astyanax mexicanus

characteristic: organism

text: Astyanax mexicanus

text: whole organism

text: Pachon cave, Mexico

text: Cave

text: Astyanax mexicanus

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: ArrayExpress

text: embryo stage

text: Hyphessobrycon anisitsi

text: Hyphessobrycon anisitsi

text: whole organism

text: Commercial stock

text: Hyphessobrycon anisitsi

text: EHa


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

text: Mexican tetra

text: embryo stage

text: Astyanax mexicanus

text: Astyanax mexicanus

text: whole organism

text: Pachon cave, Mexico

text: Cave

text: Astyanax mexicanus

text: EPa


text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: Mexican tetra

text: embryo stage

text: Astyanax mexicanus

text: Astyanax mexicanus

text: whole organism

text: San Solomon Spring, Texas, USA

text: Surface

text: Astyanax mexicanus

text: ESF


text: public

text: ArrayExpress

characteristic: broker name

text: Mexican tetra

characteristic: common name

characteristic: description

text: adult

text: Astyanax mexicanus

text: Astyanax mexicanus

text: brain

text: Pachon cave, Mexico

text: Cave

text: Astyanax mexicanus


text: public

text: ArrayExpress

text: Mexican tetra

text: adult

characteristic: developmental stage

text: Astyanax mexicanus

text: Astyanax mexicanus

text: olfactory epithelium

characteristic: organism part

text: Pachon cave, Mexico

characteristic: origin

text: Cave

text: Astyanax mexicanus


characteristic: ENA-CHECKLIST

text: public

text: ArrayExpress

text: Mexican tetra

text: adult

text: Astyanax mexicanus

characteristic: organism

text: Astyanax mexicanus

text: brain

text: San Solomon Spring, Texas, USA

text: Surface

characteristic: sampling site

text: Astyanax mexicanus


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: ArrayExpress

text: Mexican tetra

text: adult

text: Astyanax mexicanus

text: Astyanax mexicanus

text: olfactory epithelium

text: San Solomon Spring, Texas, USA

text: Surface

text: Astyanax mexicanus

characteristic: title


characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: Mexican tetra

text: embryo stage

text: Astyanax mexicanus

text: Astyanax mexicanus

text: whole organism

text: San Solomon Spring, Texas, USA

text: Surface

text: Astyanax mexicanus


text: UOM

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

characteristic: cell line

text: epithelial cell

characteristic: cell type

text: human

text: Protocols: The OE33 cells were cultured in RPMI media supplemented with 10% foetal bovine serum. To generate samples for RNA-seq analysis, OE33 cells (3 biological replicates) were transduced with lentiviruses expressing a dominant-negative (DN) FOS (DN-FOS) construct (pInducer-DN-FOS) or lacking an insert (control)(pInducer) and grown for a further 12 hours. Following transfection cells were treated with doxycycline (100 ng/ml) for 48 hours to induce DN-FOS expression and GFP positive cells were selected before harvesting RNA. RNA was extracted using RNeasy (Qiagen) according to the manufacturer's protocol. cDNA libraries were prepared following the TruSeq Stranded mRNA sample preparation protocol (Illumina)

text: esophageal adenocarcinoma

characteristic: disease

text: pInducer-DN-FOS

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: esophagus

text: doxycycline-mediated expression of dominant-negative FOS

characteristic: phenotype

text: Homo sapiens


characteristic: ENA-CHECKLIST

text: UOM

text: public

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: epithelial cell

text: human

characteristic: common name

characteristic: description

text: esophageal adenocarcinoma

text: pInducer

text: Homo sapiens

text: Homo sapiens

text: esophagus

characteristic: organism part

text: wild type

text: Homo sapiens


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIV-WUE

text: public

characteristic: collection date

text: honey bee

text: Agricultural Landscape

characteristic: environment (biome)

text: Honey-Bee Hive

characteristic: environment (feature)

text: Pollen

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: miscellaneous natural or artificial environment

characteristic: miscellaneous environmental package

text: Apis mellifera

characteristic: organism

text: Honey-Bee Pollen Foraging

characteristic: project name

text: Apis mellifera

text: Illumina MiSeq

characteristic: sequencing method

text: Honey Bee Pollen

characteristic: title


NGre

characteristic: ENA-CHECKLIST

text: UNIV-WUE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: NGre

characteristic: Submitter Id

text: honey bee

characteristic: common name

text: Agricultural Landscape

text: Honey-Bee Hive

text: Pollen

text: Germany

text: mimarks-survey

text: Apis mellifera

text: Honey-Bee Pollen Foraging

text: Apis mellifera

text: Illumina MiSeq

text: Honey Bee Pollen


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: ED

text: public

text: ArrayExpress

characteristic: broker name

text: sheep

text: Protocols: At post-mortem the ileo-caecal lymph node (ICLN) from either diseased sheep with Paratuberculosis or uninfected control sheep were removed. The ICLN was treated with RNAlater RNA Stabilization Solution (Ambion) and stored at -80°C prior to RNA extraction (according to manufacturer’s instructions). Total RNA was extracted from the homogenized samples using a TRIzol ® Plus RNA Purification Kit (Ambion) as described by the manufacturer including DNase I treatment. RNA libraries were prepared by Edinburgh Genomics as per their standard protocol

characteristic: description

text: uninfected

characteristic: disease

text: Ovis aries

text: Ovis aries

text: lymph node

characteristic: organism part

text: Ovis aries


text: ED

text: public

text: ArrayExpress

text: sheep

text: Paucibacillary Paratuberculosis

text: Ovis aries

characteristic: organism

text: Ovis aries

text: lymph node

text: Ovis aries


text: ED

text: public

text: ArrayExpress

text: sheep

text: Multibacillary Paratuberculosis

text: Ovis aries

text: Ovis aries

text: lymph node

text: Ovis aries

characteristic: title


text: Rhodococcus erythropolis

characteristic: ArrayExpress-Species

characteristic: ArrayExpress-StrainOrLine

characteristic: ENA-CHECKLIST

text: SC

text: public

text: Rhodococcus erythropolis

text: Rhodococcus erythropolis

text: Rhodococcus erythropolis

characteristic: strain


text: Clostridium tertium

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Clostridium tertium

text: Clostridium tertium

text: Clostridium tertium


text: Corynebacterium bovis

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Corynebacterium bovis

characteristic: common name

text: Corynebacterium bovis

text: Corynebacterium bovis


text: Corynebacterium mycetoides

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

text: public

text: Corynebacterium mycetoides

text: Corynebacterium mycetoides

text: Corynebacterium mycetoides


text: Clostridium difficile

text: SC

text: public

text: Clostridium difficile

text: Clostridioides difficile

text: Clostridioides difficile


text: Clostridium cocleatum

text: SC

text: public

text: Clostridium cocleatum

text: [Clostridium] cocleatum

text: [Clostridium] cocleatum


text: Bordetella ansorpii

text: SC

text: public

text: Bordetella ansorpii

text: Bordetella ansorpii

text: Bordetella ansorpii


text: public

tag: Namespace:WELLCOME TRUST CENTRE FOR HUMAN GENETICS, UNIVERSITY OF OXFORD

text: house mouse

characteristic: description

text: France

characteristic: geographic location (country and/or sea)

text: Le Perrier, Valcivieres

characteristic: geographic location (region and locality)

characteristic: lat lon

text: Mus musculus

text: Mus musculus

text: Mus musculus domesticus

characteristic: sub species

text: Whole genome sequencing of 20 French and 20 Taiwanese wild mice


characteristic: ENA-CHECKLIST

text: WELLCOME TRUST CENTRE FOR HUMAN GENETICS, UNIVERSITY OF OXFORD

text: public

text: house mouse

text: France

text: Le Moulin de Collange, Saint-Antheme

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus domesticus

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: house mouse

text: France

text: Les Ballays, Saint-Martin-des-Olmes

text: Mus musculus

text: Mus musculus

text: Mus musculus domesticus


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: house mouse

text: France

text: Les Serves, Saint-Amant-Roche-Savine

text: Mus musculus

text: Mus musculus

text: Mus musculus domesticus


characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: SRA accession

text: house mouse

text: France

text: Thiolieres

text: Mus musculus

text: Mus musculus

text: Mus musculus domesticus


text: public

characteristic: Submitter Id

text: house mouse

characteristic: common name

text: France

text: Marioux, Bertignat

text: Mus musculus

text: Mus musculus

text: Mus musculus domesticus


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: house mouse

text: France

text: Chabrol, Cunlhat

text: Mus musculus

text: Mus musculus

text: Mus musculus domesticus


text: public

text: house mouse

characteristic: description

text: France

characteristic: geographic location (country and/or sea)

text: Lossedat, Cunlhat

text: Mus musculus

text: Mus musculus

text: Mus musculus domesticus


text: public

text: house mouse

text: France

text: Le Garet, Vertolaye

characteristic: geographic location (region and locality)

characteristic: lat lon

text: Mus musculus

text: Mus musculus

text: Mus musculus domesticus


characteristic: ENA-CHECKLIST

text: public

text: house mouse

text: France

text: Bosson, La Chapelle-Agnon

text: Mus musculus

text: Mus musculus

text: Mus musculus domesticus

characteristic: sub species


text: public

text: house mouse

text: France

text: Sauvanis, Bertignat

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus domesticus

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: house mouse

text: France

text: Boisseyre

text: Mus musculus

text: Mus musculus

text: Mus musculus domesticus


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: house mouse

text: France

text: Champciaux, Arlanc

text: Mus musculus

text: Mus musculus

text: Mus musculus domesticus


characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: SRA accession

text: house mouse

text: France

text: La grange, Saint-Bonnet-le-Bourg

text: Mus musculus

text: Mus musculus

text: Mus musculus domesticus


text: public

characteristic: Submitter Id

text: house mouse

characteristic: common name

text: France

text: Germalange, Saint-Alyre-d'Arlanc

text: Mus musculus

text: Mus musculus

text: Mus musculus domesticus


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: house mouse

text: France

text: Chadernolle, Marsac-en-Livradois

text: Mus musculus

text: Mus musculus

text: Mus musculus domesticus


text: public

text: house mouse

characteristic: description

text: France

characteristic: geographic location (country and/or sea)

text: La Thioliere, Saint-Clement-de-Valorgue

text: Mus musculus

text: Mus musculus

text: Mus musculus domesticus


text: public

text: house mouse

text: France

text: Eglisolles

characteristic: geographic location (region and locality)

characteristic: lat lon

text: Mus musculus

text: Mus musculus

text: Mus musculus domesticus


characteristic: ENA-CHECKLIST

text: public

text: house mouse

text: France

text: Sauvessanges

text: Mus musculus

text: Mus musculus

text: Mus musculus domesticus

characteristic: sub species


text: public

text: house mouse

text: France

text: Saint-Bonnet-le-Chastel

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus domesticus

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: house mouse

text: Taiwan

text: Hsin-Wu

text: Mus musculus

text: Mus musculus

text: Mus musculus castaneus


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: house mouse

text: Taiwan

text: Tai-Dong

text: Mus musculus

text: Mus musculus

text: Mus musculus castaneus


characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: SRA accession

text: house mouse

text: Taiwan

text: Hsin-Pu

text: Mus musculus

text: Mus musculus

text: Mus musculus castaneus


text: public

characteristic: Submitter Id

text: house mouse

characteristic: common name

text: Taiwan

text: Hou-Li

text: Mus musculus

text: Mus musculus

text: Mus musculus castaneus


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: house mouse

text: Taiwan

text: Da-Jia

text: Mus musculus

text: Mus musculus

text: Mus musculus castaneus


text: public

text: house mouse

characteristic: description

text: Taiwan

characteristic: geographic location (country and/or sea)

text: Tsao-Tun

text: Mus musculus

text: Mus musculus

text: Mus musculus castaneus


text: public

text: house mouse

text: Taiwan

text: Shi-Jou

characteristic: geographic location (region and locality)

characteristic: lat lon

text: Mus musculus

text: Mus musculus

text: Mus musculus castaneus


characteristic: ENA-CHECKLIST

text: public

text: house mouse

text: Taiwan

text: Lin-Nei

text: Mus musculus

text: Mus musculus

text: Mus musculus castaneus

characteristic: sub species


text: public

text: house mouse

text: Taiwan

text: Shi-Gang

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus castaneus

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: house mouse

text: Taiwan

text: Jia-Li

text: Mus musculus

text: Mus musculus

text: Mus musculus castaneus


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: house mouse

text: Taiwan

text: Ping-Dong City

text: Mus musculus

text: Mus musculus

text: Mus musculus castaneus


characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: SRA accession

text: house mouse

text: Taiwan

text: Chr-Shang

text: Mus musculus

text: Mus musculus

text: Mus musculus castaneus


text: public

characteristic: Submitter Id

text: house mouse

characteristic: common name

text: Taiwan

text: Guan-Shan

text: Mus musculus

text: Mus musculus

text: Mus musculus castaneus


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: house mouse

text: Taiwan

text: Shou-Feng

text: Mus musculus

text: Mus musculus

text: Mus musculus castaneus


text: public

text: house mouse

characteristic: description

text: Taiwan

characteristic: geographic location (country and/or sea)

text: Wu-Chiai

text: Mus musculus

text: Mus musculus

text: Mus musculus castaneus


text: public

text: house mouse

text: Taiwan

text: Jin-men

characteristic: geographic location (region and locality)

characteristic: lat lon

text: Mus musculus

text: Mus musculus

text: Mus musculus castaneus


characteristic: ENA-CHECKLIST

text: DTU-GE

text: public

text: DTU-GE

characteristic: broker name

characteristic: collection date

text: Denmark

text: mink

characteristic: host scientific name

text: Yes

characteristic: is the sequenced pathogen host associated?

characteristic: isolate

text: No

characteristic: note

text: Staphylococcus schleiferi

text: Staphylococcus schleiferi


characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF MELBOURNE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:UNIVERSITY OF MELBOURNE

text: New Zealand

text: not collected

characteristic: host health state

text: Human

text: Human

characteristic: isolation source

text: Staphylococcus aureus

characteristic: organism

text: Staphylococcus aureus

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF MELBOURNE

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: New Zealand

characteristic: geographic location (country and/or sea)

text: not collected

text: Human

text: MRS14-7 NZ

text: Human

text: Staphylococcus aureus

text: Staphylococcus aureus


text: ES/ipsc

characteristic: ArrayExpress-CellType

characteristic: ArrayExpress-Immunoprecipitate

text: Wild type

characteristic: ArrayExpress-Phenotype

text: mixed

characteristic: ArrayExpress-Sex

text: Sus scrofa

characteristic: ArrayExpress-Species

characteristic: ENA-CHECKLIST

text: SC

text: public

text: pig

characteristic: common name

text: Sus scrofa

characteristic: sample description

text: Sus scrofa


text: ES/ipsc

text: Wild type

text: mixed

text: Sus scrofa

characteristic: ENA-FIRST-PUBLIC

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: pig

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Innsbruck Medical University

text: public

tag: Namespace:Innsbruck Medical University

unit: year

characteristic: age

text: ArrayExpress

characteristic: broker name

text: human

text: Protocols: 50 ml of urine was collected from 15 patients of various stages of chronic kidney disease and 10 healthy controls.To remove the urinary cell debris or cells, samples were centrifuged at 1000 rpm for 10 min, followed by 2500 rpm for 10 min at 4°C. The supernatants were transferred to Beckmann tubes and centrifuged at 187 000 x g for 1 hr and 30 min at room temperature. The supernatants were saved and pellets were resuspended in 1 ml isolation solution [250 mM sucrose, 10 mM triethanolamine (pH 7.6)], followed by incubation with 50 µl 1 M dithiothreitol (DTT). Samples were vortexed vigorously, resuspended in supernatant and centrifuged again at 187 000 x g for 1 hr and 30 min at room temperature. Exosomes were resuspended in 100 µl DEPC-treated water and used for total RNA extraction. DEPC-treated water was added to samples to a final volume of 400 μl. Equal amounts of Tri-reagent (Sigma, USA) were added to each sample, and the mixture was incubated at 95oC for 5 min, cooled on ice to 4oC for 5 min, and incubated at room temperature for another 5 min. One volume of phenol chloroform isoamyl alcohol solution was added to the samples, which were centrifuged for 5 min at 13 000 rpm. The aqueous phase was carefully removed and transferred to a fresh tube. To remove residual phenol, a second chloroform extraction was carried out. Subsequently, the RNA was precipitated in two and a half volumes of ethanol and one-tenth volume of sodium acetate (3 M, pH 5.2). Samples were incubated at -80oC for 20 min and centrifuged at 13 000 rpm, 4oC, for 20 min. Pellets were washed with 70% ethanol, centrifuged at 13 000 rpm for 5 min and dissolved in 20 µl DEPC-treated water. For each sample, 10 ng of total RNA was reverse transcribed into cDNA, as described in the manufacturer’s instruction. The libraries were generated with Ion Total RNA-Seq Kit v2 following the manufacturer’s instructions, inhibiting cDNA synthesis of the adaptor byproducts and cDNA separation with magnetic bead-based technology. The samples are pooled and loaded on the Ion chip Kit v2 and sequenced on the Ion Proton sequencer

characteristic: description

text: chronic kidney disease

characteristic: disease

text: Stage IV

characteristic: disease staging

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: urine

characteristic: organism part

text: Homo sapiens

text: male

characteristic: sex

characteristic: title


characteristic: ENA-CHECKLIST

text: Innsbruck Medical University

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: human

characteristic: common name

text: chronic kidney disease

text: Stage I

text: Homo sapiens

text: Homo sapiens

text: urine

text: Homo sapiens

text: male


characteristic: ENA-FIRST-PUBLIC

text: Innsbruck Medical University

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

text: human

text: normal

text: healthy control

text: Homo sapiens

text: Homo sapiens

text: urine

text: Homo sapiens

text: male


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Innsbruck Medical University

text: public

characteristic: INSDC status

characteristic: age

text: ArrayExpress

text: human

text: chronic kidney disease

text: Stage III

text: Homo sapiens

text: Homo sapiens

text: urine

text: Homo sapiens

text: female


text: Innsbruck Medical University

text: public

text: ArrayExpress

characteristic: broker name

text: human

characteristic: description

text: chronic kidney disease

characteristic: disease

text: Stage I

characteristic: disease staging

text: Homo sapiens

text: Homo sapiens

text: urine

text: Homo sapiens

text: female


text: Innsbruck Medical University

text: public

text: ArrayExpress

text: human

text: chronic kidney disease

text: Stage IV

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: urine

characteristic: organism part

text: Homo sapiens

text: female

characteristic: sex

characteristic: title


characteristic: ENA-CHECKLIST

text: Innsbruck Medical University

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: human

characteristic: common name

text: chronic kidney disease

text: Stage III

text: Homo sapiens

text: Homo sapiens

text: urine

text: Homo sapiens

text: male


characteristic: ENA-FIRST-PUBLIC

text: Innsbruck Medical University

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

text: human

text: chronic kidney disease

text: Stage II

text: Homo sapiens

text: Homo sapiens

text: urine

text: Homo sapiens

text: female


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Innsbruck Medical University

text: public

characteristic: INSDC status

characteristic: age

text: ArrayExpress

text: human

text: chronic kidney disease

text: Stage II

text: Homo sapiens

text: Homo sapiens

text: urine

text: Homo sapiens

text: male


text: Innsbruck Medical University

text: public

text: ArrayExpress

characteristic: broker name

text: human

characteristic: description

text: normal

characteristic: disease

text: healthy control

characteristic: disease staging

text: Homo sapiens

text: Homo sapiens

text: urine

text: Homo sapiens

text: female


text: EMBL-EBI

text: public

text: ArrayExpress

text: epiblast

characteristic: cell type

text: house mouse

text: Protocols: Mice were kept in the Animal House in accordance with national and international guidelines. All experiments were approved by the Home Office. Mouse embryos were recovered at embryonic days E4.5 and E4.75 from naturally mated F1 (C57Bl6xCBA) or MF1 females by flushing the uterus with M2 medium. Embryos recovered at E5.0 were manually dissected from the decidua. To culture embryos through the pre- to post-implantation transition, the mural trophectoderm of E4.5 mouse embryos was manually removed as previously described (Bedzhov et al., 2014). Embryos were subsequently plated in 8 well μ-Slides (80826, Ibidi) for 24 h in IVC1 medium containing Advanced DMEM/F12 (12634010, ThermoFisher Scientific), 20% v/v heat-inactivated FBS (Stem Cell Institute), 2 mM L-Glutamine (25030024 ThermoFisher Scientific), 25 units/ml Penicillin/25 μg/ml Streptomycin (15140122, ThermoFisher Scientific), 1X ITS-X (10 mg/ml insulin, 5.5 mg/L transferrin, 0.0067 mg/L sodium selenite, 2 mg/L etholamine) (51500056, ThermoFisher Scientific), 8 nM β-estradiol (E8875, Sigma), 200 ng/ml Progesterone (P0130, Sigma), and 25 μM N-aceyl-L-cysteine (A7250, Sigma). CAG-GFP expressing mouse embryos were recovered at E4.5 (9a.m.), E4.75 (4p.m.) and E5.0 (11p.m.). The mural trophectoderm (E4.5 and E4.75 embryos) and the extraembryonic ectoderm (E5.0 embryos) were manually removed with a very finely pulled glass pipette. Embryos were then treated for 15 min at 4°C with Cell Dissociation Buffer (enzyme-free) (13150016, ThermoFisher Scientific) followed by pipetting with a narrow glass pipette. This treatment removed most of the primitive endoderm/visceral endoderm and polar trophectoderm cells. If remaining GFP-negative cells were observed, these were manually separated with a very finely pulled glass pipette. mRNA from the samples was amplified using the SMARTSeq2 protocol (Picelli et al., 2014), with the additional inclusion of ERCC spike-in control (1µl of 1:1,000,000 dilution of mix 1 [Ambion] per cell). Multiplex sequencing libraries were generated from amplified cDNA using Nextera XT (Illumina).

text: embryonic day 4.5

characteristic: developmental stage

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

characteristic: title


characteristic: ENA-CHECKLIST

text: EMBL-EBI

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: epiblast

text: house mouse

characteristic: common name

text: embryonic day 4.75

text: Mus musculus

text: Mus musculus

text: Mus musculus


characteristic: ENA-FIRST-PUBLIC

text: EMBL-EBI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

text: epiblast

text: house mouse

text: embryonic day 5

text: Mus musculus

text: Mus musculus

text: Mus musculus


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CEBITEC

text: public

characteristic: INSDC status

characteristic: collection date

text: Draft genome sequence of Agrobacterium sp. DSM 25558

text: leaf of Trifolium repens

characteristic: environment (biome)

text: leaf of Trifolium repens

characteristic: environment (feature)

text: leaf of Trifolium repens

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

characteristic: isolate

text: Agrobacterium sp. DSM 25558

text: plant-associated

characteristic: plant-associated environmental package

characteristic: project name

text: Agrobacterium sp. DSM 25558

text: Illumina MiSeq

characteristic: sequencing method


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Sichuan Agricultural University

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

unit: day

characteristic: age

text: ArrayExpress

characteristic: broker name

text: chicken

characteristic: common name

text: Protocols: Slaughter, blood and immune organ were harvested on 3, 5, 7, 14, 24, 30, 40 days post injected (dpi). The phenotype of infected tissues (including appearance, viability, and the amount of viral mRNA and protein) was used to guide the selection of samples for RNA-seq. At first day of age, ALV-challenged chicks were injected 100ul SCDY1 Avian leucosis virus subgroup J (supplied by College of Veterinary Medicine, Sichuan Agricultural University, Sichuan, China) based on the TCID 50 of this virus, while a control group was injected 100ul PBS per chicks. Total RNA was isolated from the RNA later preserved spleen samples with miRNeasy Mini kit (QIAGEN, Gemany) in accordance to the manufacturer’s protocol. RNA was quantified using the NanoPhotometer® spectrophotometer (Implen Inc., CA, USA). We then measured RNA concentration using Qubit® RNA Assay Kit in Qubit® 2.0 Flurometer (Life Technologies, CA, USA), and assessed RNA integrity using the RNA Nano 6000 Assay Kit in Bioanalyzer 2100 (Agilent Technologies, CA, USA). All the samples had a high RNA Integrity Number (RIN) score (>9.4). A total of 3ug of RNA per sample was submitted to the Novogene Bioinformatics Technology Co. Ltd (Beijing, China) for library generation and sequencing.

characteristic: description

text: Gallus gallus

characteristic: organism

text: Gallus gallus

text: spleen

characteristic: organism part

text: Gallus gallus

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF HOHENHEIM

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:UNIVERSITY OF HOHENHEIM

characteristic: collection date

text: chicken

text: Control diet supplemented with whey 6%

text: terrestrial

characteristic: environment (biome)

text: organic

characteristic: environment (feature)

text: organic

characteristic: environment (material)

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Gallus gallus

text: Laying Hens

text: Gallus gallus

text: illumina

text: Laying Hens Control


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF HOHENHEIM

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: chicken

characteristic: common name

text: Control Diet supplemented with corn

characteristic: description

text: terrestrial

text: organic

text: organic

text: Spain

text: host-associated

text: metagenome

text: Gallus gallus

text: Laying Hens

characteristic: project name

text: Gallus gallus

text: illumina

characteristic: sequencing method

text: Laying Hens ctrl corn


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF HOHENHEIM

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: collection date

text: chicken

text: Diet control was supplemented with probiotic based on Pediococcus acidilactici

text: terrestrial

characteristic: environment (biome)

text: organic

characteristic: environment (feature)

text: organic

text: Spain

text: host-associated

text: metagenome

text: Gallus gallus

characteristic: organism

text: Laying Hens

text: Gallus gallus

text: illumina

text: Laying Hengs Ctrl Probiotic

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: OX

characteristic: INSDC center name

text: public

characteristic: broker name

text: Neisseria meningitidis

text: Neisseria meningitidis


text: OX

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: unidentified

text: unidentified


text: OX

text: public

characteristic: description

text: Neisseria lactamica

text: Neisseria lactamica


characteristic: ENA-LAST-UPDATE

text: CHENGDU INSTITUTE OF BIOLOGY, CAS

text: public

tag: Namespace:CHENGDU INSTITUTE OF BIOLOGY, CAS

characteristic: depth

text: forest

text: forest

text: soil

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: metagenome

text: methane oxidizing bacteria

characteristic: project name

text: metagenome

text: Miseq

characteristic: sequencing method

text: soil

characteristic: soil environmental package

text: Elevational methane oxidizing bacteria diversity


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: Candiolo Cancer Institute

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:Candiolo Cancer Institute

characteristic: cell type

text: human

characteristic: common name

text: cell line

text: Homo sapiens

characteristic: organism

text: Homo sapiens

characteristic: title


characteristic: ENA-LAST-UPDATE

text: Candiolo Cancer Institute

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: human

text: Homo sapiens

text: Homo sapiens

text: barcoded cells


text: FSU-JENA

text: public

characteristic: collection date

text: 13C-CO2 SIP incubation, DNA extraction, Bottle B1, Heavy fraction

characteristic: description

text: Terrestrial subsurface

characteristic: environment (biome)

text: Carbonate aquifer

characteristic: environment (feature)

text: Groundwater

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: unidentified

text: Ecophysiology of uncultured Archaea in groundwater and carbonate rocks

characteristic: project name

text: unidentified

text: Illumina miseq

text: Filtered Groundwater from site H5-1

text: water

characteristic: water environmental package


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: FSU-JENA

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: 13C-CO2 SIP incubation, DNA extraction, Bottle B1, Light fraction

text: Terrestrial subsurface

text: Carbonate aquifer

text: Groundwater

text: Germany

text: mimarks-survey

text: unidentified

characteristic: organism

text: unidentified

text: Illumina miseq

characteristic: sequencing method

text: Filtered Groundwater from site H5-1

characteristic: title

text: water


characteristic: ENA-LAST-UPDATE

text: FSU-JENA

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: 13C-CO2 SIP incubation, DNA extraction, Bottle B2, Heavy fraction

characteristic: description

text: Terrestrial subsurface

characteristic: environment (biome)

text: Carbonate aquifer

characteristic: environment (feature)

text: Groundwater

characteristic: environment (material)

text: Germany

text: mimarks-survey

text: unidentified

text: unidentified

text: Illumina miseq

text: Filtered Groundwater from site H5-1

text: water


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FSU-JENA

text: public

text: 13C-CO2 SIP incubation, DNA extraction, Bottle B2, Light fraction

text: Terrestrial subsurface

text: Carbonate aquifer

text: Groundwater

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: unidentified

characteristic: project name

text: unidentified

text: Illumina miseq

text: Filtered Groundwater from site H5-1

text: water

characteristic: water environmental package


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FSU-JENA

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: 13C-CO2 SIP incubation, DNA extraction, Bottle B3, Heavy fraction

text: Terrestrial subsurface

text: Carbonate aquifer

text: Groundwater

text: Germany

text: mimarks-survey

text: unidentified

characteristic: organism

text: unidentified

text: Illumina miseq

characteristic: sequencing method

text: Filtered Groundwater from site H5-1

characteristic: title

text: water


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FSU-JENA

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: 13C-CO2 SIP incubation, DNA extraction, Bottle B3, Light fraction

characteristic: description

text: Terrestrial subsurface

characteristic: environment (biome)

text: Carbonate aquifer

characteristic: environment (feature)

text: Groundwater

characteristic: environment (material)

text: Germany

text: mimarks-survey

text: unidentified

text: unidentified

text: Illumina miseq

text: Filtered Groundwater from site H5-1

text: water


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: FSU-JENA

text: public

text: DNA extraction

text: Terrestrial subsurface

text: Carbonate aquifer

text: Groundwater

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: unidentified

characteristic: project name

text: unidentified

text: Illumina miseq

text: Filtered Groundwater from site H5-1

text: water

characteristic: water environmental package


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FSU-JENA

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: 13C-CO2 SIP incubation, DNA extraction, Bottle B11, Heavy fraction

text: Terrestrial subsurface

text: Carbonate aquifer

text: Groundwater

text: Germany

text: mimarks-survey

text: unidentified

characteristic: organism

text: unidentified

text: Illumina miseq

characteristic: sequencing method

text: Filtered Groundwater from site H5-2

characteristic: title

text: water