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text: pig

text: Jejunum RNAseq of Pig4, day 29, sample group CON

text: tissue

text: Netherlands

text: jejunum

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Wageningen University and Research

text: public

text: temperate biome

text: pig

text: Jejunum RNAseq of Pig5, day 29, sample group EF

characteristic: description

text: tissue

characteristic: environmental medium

text: Netherlands

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: jejunum

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Wageningen University and Research

text: public

text: temperate biome

text: pig

text: Jejunum RNAseq of Pig6, day 29, sample group CON

text: tissue

text: Netherlands

text: jejunum

characteristic: local environmental context

text: Sus scrofa

characteristic: organism

characteristic: project name

text: Sus scrofa

characteristic: title


text: Wageningen University and Research

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: temperate biome

text: pig

characteristic: common name

text: Jejunum RNAseq of Pig7, day 29, sample group EF

text: tissue

text: Netherlands

characteristic: geographic location (longitude)

text: jejunum

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Wageningen University and Research

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: temperate biome

characteristic: broad-scale environmental context

characteristic: collection date

text: pig

text: Jejunum RNAseq of Pig8, day 29, sample group CON

text: tissue

text: Netherlands

text: jejunum

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Wageningen University and Research

text: public

text: temperate biome

text: pig

text: Jejunum RNAseq of Pig9, day 29, sample group EF

characteristic: description

text: tissue

characteristic: environmental medium

text: Netherlands

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: jejunum

text: Sus scrofa

text: Sus scrofa


text: Wageningen University and Research

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: temperate biome

text: pig

text: Jejunum RNAseq of Pig10, day 29, sample group CON

text: tissue

text: Netherlands

text: jejunum

characteristic: local environmental context

text: Sus scrofa

characteristic: organism

characteristic: project name

text: Sus scrofa

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Wageningen University and Research

characteristic: INSDC last update

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characteristic: INSDC status

text: temperate biome

text: pig

characteristic: common name

text: Jejunum RNAseq of Pig11, day 29, sample group EF

text: tissue

text: Netherlands

characteristic: geographic location (longitude)

text: jejunum

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Wageningen University and Research

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: temperate biome

characteristic: broad-scale environmental context

characteristic: collection date

text: pig

text: Jejunum RNAseq of Pig12, day 29, sample group CON

text: tissue

text: Netherlands

text: jejunum

text: Sus scrofa

text: Sus scrofa


text: Wageningen University and Research

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: temperate biome

text: pig

text: Jejunum RNAseq of Pig13, day 29, sample group EF

characteristic: description

text: tissue

characteristic: environmental medium

text: Netherlands

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: jejunum

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Wageningen University and Research

text: public

text: temperate biome

text: pig

text: Jejunum RNAseq of Pig14, day 29, sample group CON

text: tissue

text: Netherlands

text: jejunum

characteristic: local environmental context

text: Sus scrofa

characteristic: organism

characteristic: project name

text: Sus scrofa

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Wageningen University and Research

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: temperate biome

text: pig

characteristic: common name

text: Jejunum RNAseq of Pig15, day 29, sample group EF

text: tissue

text: Netherlands

characteristic: geographic location (longitude)

text: jejunum

text: Sus scrofa

text: Sus scrofa


text: Wageningen University and Research

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: temperate biome

characteristic: broad-scale environmental context

characteristic: collection date

text: pig

text: Jejunum RNAseq of Pig16, day 29, sample group CON

text: tissue

text: Netherlands

text: jejunum

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Wageningen University and Research

text: public

text: temperate biome

text: pig

text: Jejunum RNAseq of Pig17, day 29, sample group CON

characteristic: description

text: tissue

characteristic: environmental medium

text: Netherlands

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: jejunum

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Wageningen University and Research

text: public

text: temperate biome

text: pig

text: Jejunum RNAseq of Pig18, day 29, sample group EF

text: tissue

text: Netherlands

text: jejunum

characteristic: local environmental context

text: Sus scrofa

characteristic: organism

characteristic: project name

text: Sus scrofa

characteristic: title


text: Wageningen University and Research

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: temperate biome

text: pig

characteristic: common name

text: Jejunum RNAseq of Pig19, day 29, sample group EF

text: tissue

text: Netherlands

characteristic: geographic location (longitude)

text: jejunum

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Wageningen University and Research

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: temperate biome

characteristic: broad-scale environmental context

characteristic: collection date

text: pig

text: Jejunum RNAseq of Pig20, day 29, sample group CON

text: tissue

text: Netherlands

text: jejunum

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Wageningen University and Research

text: public

text: temperate biome

text: pig

text: Colon RNAseq of Pig1, day 29, sample group EF

characteristic: description

text: tissue

characteristic: environmental medium

text: Netherlands

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: colon

text: Sus scrofa

text: Sus scrofa


text: Wageningen University and Research

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: temperate biome

text: pig

text: Colon RNAseq of Pig2, day 29, sample group CON

text: tissue

text: Netherlands

text: colon

characteristic: local environmental context

text: Sus scrofa

characteristic: organism

characteristic: project name

text: Sus scrofa

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Wageningen University and Research

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: temperate biome

text: pig

characteristic: common name

text: Colon RNAseq of Pig3, day 29, sample group EF

text: tissue

text: Netherlands

characteristic: geographic location (longitude)

text: colon

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Wageningen University and Research

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: temperate biome

characteristic: broad-scale environmental context

characteristic: collection date

text: pig

text: Colon RNAseq of Pig4, day 29, sample group CON

text: tissue

text: Netherlands

text: colon

text: Sus scrofa

text: Sus scrofa


text: Wageningen University and Research

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: temperate biome

text: pig

text: Colon RNAseq of Pig5, day 29, sample group EF

characteristic: description

text: tissue

characteristic: environmental medium

text: Netherlands

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: colon

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Wageningen University and Research

text: public

text: temperate biome

text: pig

text: Colon RNAseq of Pig7, day 29, sample group EF

text: tissue

text: Netherlands

text: colon

characteristic: local environmental context

text: Sus scrofa

characteristic: organism

characteristic: project name

text: Sus scrofa

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Wageningen University and Research

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: temperate biome

text: pig

characteristic: common name

text: Colon RNAseq of Pig8, day 29, sample group CON

text: tissue

text: Netherlands

characteristic: geographic location (longitude)

text: colon

text: Sus scrofa

text: Sus scrofa


text: Wageningen University and Research

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: temperate biome

characteristic: broad-scale environmental context

characteristic: collection date

text: pig

text: Colon RNAseq of Pig9, day 29, sample group EF

text: tissue

text: Netherlands

text: colon

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Wageningen University and Research

text: public

text: temperate biome

text: pig

text: Colon RNAseq of Pig10, day 29, sample group CON

characteristic: description

text: tissue

characteristic: environmental medium

text: Netherlands

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: colon

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Wageningen University and Research

text: public

text: temperate biome

text: pig

text: Colon RNAseq of Pig11, day 29, sample group EF

text: tissue

text: Netherlands

text: colon

characteristic: local environmental context

text: Sus scrofa

characteristic: organism

characteristic: project name

text: Sus scrofa

characteristic: title


text: Wageningen University and Research

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: temperate biome

text: pig

characteristic: common name

text: Colon RNAseq of Pig12, day 29, sample group CON

text: tissue

text: Netherlands

characteristic: geographic location (longitude)

text: colon

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Wageningen University and Research

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: temperate biome

characteristic: broad-scale environmental context

characteristic: collection date

text: pig

text: Colon RNAseq of Pig13, day 29, sample group EF

text: tissue

text: Netherlands

text: colon

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Wageningen University and Research

text: public

text: temperate biome

text: pig

text: Colon RNAseq of Pig14, day 29, sample group CON

characteristic: description

text: tissue

characteristic: environmental medium

text: Netherlands

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: colon

text: Sus scrofa

text: Sus scrofa


text: Wageningen University and Research

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: temperate biome

text: pig

text: Colon RNAseq of Pig15, day 29, sample group EF

text: tissue

text: Netherlands

text: colon

characteristic: local environmental context

text: Sus scrofa

characteristic: organism

characteristic: project name

text: Sus scrofa

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Wageningen University and Research

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: temperate biome

text: pig

characteristic: common name

text: Colon RNAseq of Pig16, day 29, sample group CON

text: tissue

text: Netherlands

characteristic: geographic location (longitude)

text: colon

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Wageningen University and Research

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: temperate biome

characteristic: broad-scale environmental context

characteristic: collection date

text: pig

text: Colon RNAseq of Pig17, day 29, sample group CON

text: tissue

text: Netherlands

text: colon

text: Sus scrofa

text: Sus scrofa


text: Wageningen University and Research

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: temperate biome

text: pig

text: Colon RNAseq of Pig18, day 29, sample group EF

characteristic: description

text: tissue

characteristic: environmental medium

text: Netherlands

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: colon

text: Sus scrofa

text: Sus scrofa


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Wageningen University and Research

text: public

text: temperate biome

text: pig

text: Colon RNAseq of Pig19, day 29, sample group EF

text: tissue

text: Netherlands

text: colon

characteristic: local environmental context

text: Sus scrofa

characteristic: organism

characteristic: project name

text: Sus scrofa

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Wageningen University and Research

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: temperate biome

text: pig

characteristic: common name

text: Colon RNAseq of Pig20, day 29, sample group CON

text: tissue

text: Netherlands

characteristic: geographic location (longitude)

text: colon

text: Sus scrofa

text: Sus scrofa


text: NETHERLANDS CANCER INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

tag: Namespace:NETHERLANDS CANCER INSTITUTE

characteristic: Submitter Id

text: house mouse

text: naive

text: Mus musculus

text: Mus musculus


text: NETHERLANDS CANCER INSTITUTE

text: public

text: house mouse

text: resistant

characteristic: description

text: Mus musculus

text: Mus musculus


characteristic: ENA-CHECKLIST

text: public

tag: Namespace:West of Scotland Specialist Virology Centre, NHSGGC / MRC-University of Glasgow Centre for Virus Research

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

characteristic: geographic location (country and/or sea)

text: Scotland

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

text: Severe acute respiratory syndrome coronavirus 2

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


name: E-MTAB-12753:58d CellTagging Airway Organoids

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:Department of Cell and Developmental Biology, Department of Internal Medicine, Department of Biomedical Engineering, University of Michigan Medical School, Ann Arbor, MI

characteristic: Submitter Id

text: ArrayExpress

text: primary human bud tip organoid line

text: human

characteristic: common name

text: Protocols: All tubes and pipette tips were pre-washed in 1X HBSS with 1% BSA to prevent cell adhesion to the plastic. 3D cultures (spheroids, LPOs, iBTOs) were removed from Matrigel using a P1000 pipette tip and vigorously pipetted in a 1.5 mL Eppendorf tube to remove as much Matrigel as possible. Tissue was centrifuged at 300g for 3 minutes at 4ºC, then excess media and Matrigel was removed. Tissue was digested to single cells using 0.5 mL TrypLE (Invitrogen, Cat#12605010) and incubated at 37ºC for 30 minutes, adding mechanical digestion with pipette every 10 minutes. After 30 minutes, trypsinization was quenched with 1X HBSS + 1% BSA. Cells were passed through a 40 µm filter (Bel-Art Flowmi, Cat#136800040) and centrifuged at 300g for 3 minutes at 4ºC. Cells were resuspended in 1 mL 1X HBSS + 1% BSA and counted using a hemocytometer, centrifuged at 300g for 3 minutes at 4ºC, and resuspended to a final concentration of 1,100 cells/µL. If samples were planned for combined submission, cells would be cryopreserved in CryoStor CS10 (Biolife Solutions, Cat#210102). If cryopreservation was used, cold CryoStor CS10 solution was added to the cells and mixed thoroughly and transferred to a cryovial. The cells were incubated at 2-8ºC for 10 minutes, then cryopreserved in using an isopropanol freezing container for 24 hours, then transferred to liquid nitrogen. Cells were thawed in a 37ºC water bath, washed in DMEM/F12 (Corning, Cat#10-092-CV) with 10% FBS, centrifuged at 300g for 5 minutes,and supernatant was removed. The pellet was then washed in HBSS + 1% BSA, then resuspended in 1 mL fresh HBSS + 1% BSA, passed through a 40 µm filter (Bel-Art Flowmi, Cat#136800040), and counted using a hemocytometer. Cells were centrifuged at 300g for 3 minutes at 4ºC and resuspended to a final concentration of 1,100 cells/µL. Approximately 100,000 fresh or thawed cells were put on ice and single cell libraries were immediately prepared at the 10X Chromium at the University of Michigan Sequencing Core with a target of 10,000 cells per sample. BTO Line Establishment and Culture: BTO lines were cultured as previously described. Briefly, distal lung tissue was dissected into 1 cm3 chunks and washed with sterile PBS. Tissue was digested using 1 mL Dispase (Corning, Cat#354235) for 30 min on ice. Digestion was then quenched with 1 mL 100% FBS (Thermo Fisher, Cat#35-015-CV) for 15 min on ice following by washing in 1 mL media containing DMEM-F12, 1% Penicillin-streptomycin (Thermo Fisher, Cat#15140122) and 10% FBS for 10 min on ice. Tissue was then mechanically dissociated further using a scalpel, forceps, and vigorous pipetting with a P1000 to remove mesenchyme from bud tip epithelium. Dissociated tissue was transferred to a 15 mL conical tube, washed with DMEM-F12 media described above and spun at 300g for 3 min at 4°C. After each wash, supernatant and separated mesenchyme was removed and fresh DMEM-F12 was added. These steps were repeated 3-5 times until all visible mesenchyme is removed. On final wash, remaining epithelium was transferred to a 1.5 mL microcentrifuge tube and cells were resuspended in Matrigel (Corning, Cat#354234). Cells were plated into 15 µL droplets and allowed to solidify. BTOs were fed 3F media (36) every 3 days and were passaged using 27G needle every 10-14 days. Airway Differentiation: Paradigm Airway differentiation was carried out as previously described. Briefly, BTOs were exposed to dual-SMAD activation (DSA) via 100ng/mL BMP4 (R&D Systems, Cat#314-BP-050) and 100ng/mL TGFβ1 (R&D Systems, Cat#240-B-002) in 3F media for 3 days. On the fourth day, BTOs were exposed to dual-SMAD inactivation (DSI) via 1µM A8301 (APExBIO, Cat#3133), 100ng/mL NOGGIN (R&D Systems, Cat#6057), 10µM Y-27632 (APExBIO, Cat#B1293) and 500ng/mL FGF10 (lab purified - see below) in serum-free basal media for 18 days (media changed every 3 - 4 days) with needle-passaging as needed. CellTag V1 lentivirus was thawed on ice and combined 1:1 with DSI media. 21-day differentiated BTOs were collected for transduction by dislodging Matrigel droplet with P1000 and transferring organoids into a 1.5 mL microcentrifuge tube. Samples were needle passaged by 2 passes through a 27G needle and spun down at 300g for 3 min at 4°C. Cells were resuspended in 1 mL of DSI media + 6µg/mL of polybrene and incubated at 37°C for 15 min with agitation every 2 minutes. Cells were again spun down at 300g for 3 min at 4°C and resuspended in 300 µL virus + DSI. Cells were incubated at 37C for 6hr with agitation every hour. Following transduction, cells were spun down again at 300g for 3 min, resuspended in Matrigel at 1:4 dilution, and fed with 0.5 mL DSI media. Immediately after tissue dissociation, single cell libraries were prepared on the 10x Chromium with a target of 5,000 cells. Chromium Single Cell 3’ Library & Gel Bead Kit v2, 16 rxns PN-120237 was used. Immediately after tissue dissociation, single cell libraries were prepared on the 10x Chromium with a target of 5,000 cells. Chromium Single Cell 3’ Library & Gel Bead Kit v2, 16 rxns PN-120237 was used.

characteristic: description

text: normal

characteristic: disease

text: airway differentiation culture

characteristic: growth condition

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

characteristic: organism part

text: Homo sapiens

text: 58d CellTagging Airway Organoids

characteristic: title


characteristic: ENA-CHECKLIST

text: NETHERLANDS CANCER INSTITUTE

text: public

text: human

text: Homo sapiens

text: Homo sapiens


characteristic: ENA-FIRST-PUBLIC

text: NETHERLANDS CANCER INSTITUTE

text: public

text: house mouse

text: Mus musculus

text: Mus musculus


characteristic: ENA-LAST-UPDATE

text: National Taiwan University Hospital

text: public

tag: Namespace:National Taiwan University Hospital

text: house mouse

text: Hyperplasia

text: Mus musculus

text: Mus musculus

text: HYP (DA1)


characteristic: External Id

text: National Taiwan University Hospital

text: public

text: house mouse

text: Hyperplasia

text: Mus musculus

text: Mus musculus

text: HYP (DAT2)


text: National Taiwan University Hospital

characteristic: INSDC center name

text: public

text: house mouse

text: Hyperplasia

text: Mus musculus

text: Mus musculus

text: HYP (DA3)


text: National Taiwan University Hospital

characteristic: INSDC first public

text: public

text: house mouse

text: Hyperplasia

text: Mus musculus

text: Mus musculus

text: HYP (DA4)


text: National Taiwan University Hospital

characteristic: INSDC last update

text: public

text: house mouse

text: Hyperplasia

text: Mus musculus

text: Mus musculus

text: HYP (DA5)


text: National Taiwan University Hospital

text: public

characteristic: INSDC status

text: house mouse

text: Dysplasia

text: Mus musculus

text: Mus musculus

text: DYP (DB1)


text: National Taiwan University Hospital

text: public

characteristic: SRA accession

text: house mouse

text: Dysplasia

text: Mus musculus

text: Mus musculus

text: DYP (DB2)


text: National Taiwan University Hospital

text: public

characteristic: Submitter Id

text: house mouse

text: Dysplasia

text: Mus musculus

text: Mus musculus

text: DYP (DB3)


text: National Taiwan University Hospital

text: public

text: house mouse

characteristic: common name

text: Dysplasia

text: Mus musculus

text: Mus musculus

text: DYP (DB4)


text: National Taiwan University Hospital

text: public

text: house mouse

text: Dysplasia

characteristic: description

text: Mus musculus

text: Mus musculus

text: DYP (DB5)


text: National Taiwan University Hospital

text: public

text: house mouse

text: Dysplasia

text: Mus musculus

text: Mus musculus

text: DYP (DB6)


text: National Taiwan University Hospital

text: public

text: house mouse

text: Invasive carcinoma

text: Mus musculus

text: Mus musculus

text: ICA (DC1)


text: National Taiwan University Hospital

text: public

text: house mouse

text: Carcinoma in situ

text: Mus musculus

text: Mus musculus

text: CIS (DC2)


text: National Taiwan University Hospital

text: public

text: house mouse

text: Invasive carcinoma

text: Mus musculus

text: Mus musculus

text: ICA (DC3)


text: National Taiwan University Hospital

text: public

text: house mouse

text: Carcinoma in situ

text: Mus musculus

text: Mus musculus

text: CIS (DC4)


text: National Taiwan University Hospital

text: public

text: house mouse

text: Carcinoma in situ

text: Mus musculus

text: Mus musculus

text: CIS (DC5)


text: National Taiwan University Hospital

text: public

text: house mouse

text: Invasive carcinoma

text: Mus musculus

text: Mus musculus

text: ICA (DC6)


text: National Taiwan University Hospital

text: public

text: house mouse

text: Invasive carcinoma

text: Mus musculus

text: Mus musculus

text: ICA (DC7)


text: National Taiwan University Hospital

text: public

text: house mouse

text: Carcinoma in situ

text: Mus musculus

text: Mus musculus

text: CIS (DC8)


text: National Taiwan University Hospital

text: public

text: house mouse

text: Normal tissue

text: Mus musculus

text: Mus musculus

text: Normal tissue (DD1)


text: UNIVERSITY OF BOLOGNA

text: public

tag: Namespace:UNIVERSITY OF BOLOGNA

characteristic: collection date

text: house mouse

text: Italy

characteristic: geographic location (country and/or sea)

text: mouse gut metagenome

text: mouse gut metagenome

text: Gut microbiota 16S sequencing


text: Marine Biological Association

text: public

tag: Namespace:Marine Biological Association

characteristic: broad-scale environmental context

unit: m

characteristic: depth

text: seawater bacterioplankton

characteristic: environmental medium

text: United Kingdom

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: local environmental context

text: seawater metagenome

characteristic: organism

text: 16S sequences of bacterioplankton of a tidal mixing front

characteristic: project name

text: seawater metagenome


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

tag: Namespace:Department of Molecular Microbiology John Innes Centre

text: ArrayExpress

characteristic: broker name

text: Protocols: Mycelial mass was harvested by centrifugation for 30 ml cultures grown overnight (14 hours). Streptomyces venezuelae NRRL B-65442 (Wild-type and BldB deletion strain and the BldB WhiJ9 double deletion strain were all grown in triplicates for in 30 ml shaken cultures at 30 degrees Celsius in the Maltose-Yeast extract-Malt Extract (MYM) medium supplemented with R2 trace element solution. The .bam files produced by aligning the reads to the genome were used as input to the featureCounts tool of the Bioconductor package Rsubread (version 2.0.0) along with a a .saf file containing coordinates of genes in the genome. This produced a table of counts of reads mapping to every gene in the genome. Mycelial pellets were washed with 1x PBS followed by lysis and RNA purification using the RNEasy kit (Quiagen). Purified RNA samples were treated with on-column DNase I (Qiagen), followed by an additional DNase I treatment (Turbo DNA-free, Invitrogen). rRNA depletion and Library construction were carried out by Genewiz (NJ, USA).

text: bldB deletion

characteristic: genotype

text: Streptomyces venezuelae

text: Streptomyces venezuelae

text: whole organism

characteristic: organism part

text: Streptomyces venezuelae

text: NRRL B65442

characteristic: strain

text: bldB-A

characteristic: title


text: Department of Molecular Microbiology John Innes Centre

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: description

text: bldB deletion

text: Streptomyces venezuelae

text: Streptomyces venezuelae

text: whole organism

text: Streptomyces venezuelae

text: NRRL B65442

text: bldB-B


text: public

text: ArrayExpress

text: bldB deletion

text: Streptomyces venezuelae

characteristic: organism

text: Streptomyces venezuelae

text: whole organism

text: Streptomyces venezuelae

text: NRRL B65442

text: bldB-C


characteristic: ENA-CHECKLIST

text: public

text: ArrayExpress

text: bldB and whiJ9 deletion

text: Streptomyces venezuelae

text: Streptomyces venezuelae

text: whole organism

text: Streptomyces venezuelae

text: NRRL B65442


characteristic: ENA-FIRST-PUBLIC

text: public

text: ArrayExpress

text: wild type genotype

text: Streptomyces venezuelae

text: Streptomyces venezuelae

text: whole organism

text: Streptomyces venezuelae

text: NRRL B65442

text: WT-A


characteristic: ENA-LAST-UPDATE

text: public

text: ArrayExpress

text: wild type genotype

text: Streptomyces venezuelae

text: Streptomyces venezuelae

text: whole organism

text: Streptomyces venezuelae

text: NRRL B65442

text: WT-B


characteristic: External Id

text: public

text: ArrayExpress

text: wild type genotype

text: Streptomyces venezuelae

text: Streptomyces venezuelae

text: whole organism

text: Streptomyces venezuelae

text: NRRL B65442

text: WT-C


text: NIPH

characteristic: INSDC center name

text: public

text: ELIXIR-Norway

characteristic: collection date

text: S. pyogenes

characteristic: common name

text: GAS routine sample

text: Norway

characteristic: geographic location (country and/or sea)

text: not provided

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

characteristic: isolate

text: blood

text: Streptococcus pyogenes

text: Streptococcus pyogenes


text: NIPH

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ELIXIR-Norway

characteristic: broker name

text: S. pyogenes

text: GAS routine sample

text: Norway

text: not provided

text: Homo sapiens

text: biopsy thigh

text: Streptococcus pyogenes

text: Streptococcus pyogenes

characteristic: title


text: NIPH

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ELIXIR-Norway

text: N. meningitidis

text: Norway

text: not provided

text: Homo sapiens

text: blood

text: Neisseria meningitidis

text: Neisseria meningitidis


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: West of Scotland Specialist Virology Centre, NHSGGC / MRC-University of Glasgow Centre for Virus Research

text: public

text: COVID-19 Genomics UK Consortium

characteristic: collecting institution

text: not provided

characteristic: collector name

text: not provided

characteristic: definition for seropositive sample

text: United Kingdom

text: Scotland

characteristic: geographic location (region and locality)

text: not provided

characteristic: host common name

text: not provided

text: Human

text: not provided

characteristic: host sex

text: not provided

characteristic: host subject id

text: not provided

characteristic: organism

characteristic: sample capture status

text: not provided

characteristic: serotype (required for a seropositive sample)

text: not provided

characteristic: virus identifier


E-MTAB-12848:MOLM13 AZA 1

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: ArrayExpress

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-12848:MOLM13 AZA 1

text: ArrayExpress

characteristic: broker name

text: human

characteristic: common name

text: Protocols: MOLM-13 cells were detached from by addition of trypsin. Cells suspensions were quenched with medium and centrifuged at 400 x g for 5 minutes to pellet for subsequent extraction. MOLM-13 cells were cultured in RPMI1640 supplemented with 20% fetal bovine serum and 1% penicillin/streptomycin. Cells were treated with 7 µM 5-Azacytidine (Cayman Chemical 11164) for 48 hours. Total RNA was extracted using Trizol (Invitrogen) and purified using Direct-zol RNA Purification Kits (Zymo Research). Library construction was performed by Novogene UK (Cambridge, UK). A minimum of 1 ug (20 ng/μl) of high-quality total RNA (extracted using Trizol, Invitrogen, and purified using Direct-zol RNA Purification Kits, Zymo Research) was supplied for sequencing. Novogene UK constructed cDNA libraries by purification of messenger RNA using poly-T oligo-attached magnetic beads. After fragmentation, the first strand cDNA was synthesized using random hexamer primers followed by the second strand cDNA synthesis. The library was ready after end repair, A-tailing, adapter ligation, size selection, PCR amplification, and purification.

characteristic: description

text: adult

characteristic: developmental stage

text: acute myeloid leukemia

characteristic: disease

text: wild type genotype

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: Homo sapiens

text: MOLM13 AZA 1

characteristic: title


E-MTAB-12848:MOLM13 AZA 2

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: ArrayExpress

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12848:MOLM13 AZA 2

characteristic: Submitter Id

text: ArrayExpress

text: human

text: adult

text: acute myeloid leukemia

text: wild type genotype

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: Homo sapiens

text: MOLM13 AZA 2


E-MTAB-12848:MOLM13 AZA 3

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: ArrayExpress

characteristic: INSDC center name

text: public

text: E-MTAB-12848:MOLM13 AZA 3

text: ArrayExpress

text: human

text: adult

text: acute myeloid leukemia

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: blood

text: Homo sapiens

text: MOLM13 AZA 3


E-MTAB-12848:MOLM13 AZA_CB 1

text: ArrayExpress

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-12848:MOLM13 AZA_CB 1

text: ArrayExpress

characteristic: broker name

text: human

text: Protocols: MOLM-13 cells were detached from by addition of trypsin. Cells suspensions were quenched with medium and centrifuged at 400 x g for 5 minutes to pellet for subsequent extraction. MOLM-13 cells were cultured in RPMI1640 supplemented with 20% fetal bovine serum and 1% penicillin/streptomycin. Cells were treated with 450 nM CB-5083 (Cayman Chemical 19311) and 7 µM 5-Azacytidine (Cayman Chemical 11164) for 48 hours Total RNA was extracted using Trizol (Invitrogen) and purified using Direct-zol RNA Purification Kits (Zymo Research). Library construction was performed by Novogene UK (Cambridge, UK). A minimum of 1 ug (20 ng/μl) of high-quality total RNA (extracted using Trizol, Invitrogen, and purified using Direct-zol RNA Purification Kits, Zymo Research) was supplied for sequencing. Novogene UK constructed cDNA libraries by purification of messenger RNA using poly-T oligo-attached magnetic beads. After fragmentation, the first strand cDNA was synthesized using random hexamer primers followed by the second strand cDNA synthesis. The library was ready after end repair, A-tailing, adapter ligation, size selection, PCR amplification, and purification.

text: adult

text: acute myeloid leukemia

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: blood

text: Homo sapiens

text: MOLM13 AZA_CB 1


E-MTAB-12848:MOLM13 AZA_CB 2

text: ArrayExpress

text: public

text: E-MTAB-12848:MOLM13 AZA_CB 2

text: ArrayExpress

text: human

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: acute myeloid leukemia

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: blood

text: Homo sapiens

text: MOLM13 AZA_CB 2


E-MTAB-12848:MOLM13 AZA_CB 3

text: ArrayExpress

text: public

text: E-MTAB-12848:MOLM13 AZA_CB 3

text: ArrayExpress

text: human

text: adult

text: acute myeloid leukemia

characteristic: disease

text: wild type genotype

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: Homo sapiens

text: MOLM13 AZA_CB 3


E-MTAB-12848:MOLM13 CB 1

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: ArrayExpress

text: public

text: E-MTAB-12848:MOLM13 CB 1

text: ArrayExpress

text: human

text: Protocols: MOLM-13 cells were detached from by addition of trypsin. Cells suspensions were quenched with medium and centrifuged at 400 x g for 5 minutes to pellet for subsequent extraction. MOLM-13 cells were cultured in RPMI1640 supplemented with 20% fetal bovine serum and 1% penicillin/streptomycin. Cells were treated with 450 nM CB-5083 (Cayman Chemical 19311) for 48 hours Total RNA was extracted using Trizol (Invitrogen) and purified using Direct-zol RNA Purification Kits (Zymo Research). Library construction was performed by Novogene UK (Cambridge, UK). A minimum of 1 ug (20 ng/μl) of high-quality total RNA (extracted using Trizol, Invitrogen, and purified using Direct-zol RNA Purification Kits, Zymo Research) was supplied for sequencing. Novogene UK constructed cDNA libraries by purification of messenger RNA using poly-T oligo-attached magnetic beads. After fragmentation, the first strand cDNA was synthesized using random hexamer primers followed by the second strand cDNA synthesis. The library was ready after end repair, A-tailing, adapter ligation, size selection, PCR amplification, and purification.

text: adult

text: acute myeloid leukemia

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: blood

text: Homo sapiens

text: MOLM13 CB 1

characteristic: title


E-MTAB-12848:MOLM13 CB 2

text: ArrayExpress

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12848:MOLM13 CB 2

characteristic: Submitter Id

text: ArrayExpress

text: human

text: adult

text: acute myeloid leukemia

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: blood

text: Homo sapiens

text: MOLM13 CB 2


E-MTAB-12848:MOLM13 CB 3

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: ArrayExpress

text: public

text: E-MTAB-12848:MOLM13 CB 3

text: ArrayExpress

text: human

text: adult

text: acute myeloid leukemia

text: wild type genotype

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: Homo sapiens

text: MOLM13 CB 3


E-MTAB-12848:MOLM13 DMSO 1

text: ArrayExpress

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-12848:MOLM13 DMSO 1

text: ArrayExpress

text: human

text: Protocols: MOLM-13 cells were detached from by addition of trypsin. Cells suspensions were quenched with medium and centrifuged at 400 x g for 5 minutes to pellet for subsequent extraction. MOLM-13 cells were cultured in RPMI1640 supplemented with 20% fetal bovine serum and 1% penicillin/streptomycin. Cells were treated with 0.1% DMSO for 48 hours Total RNA was extracted using Trizol (Invitrogen) and purified using Direct-zol RNA Purification Kits (Zymo Research). Library construction was performed by Novogene UK (Cambridge, UK). A minimum of 1 ug (20 ng/μl) of high-quality total RNA (extracted using Trizol, Invitrogen, and purified using Direct-zol RNA Purification Kits, Zymo Research) was supplied for sequencing. Novogene UK constructed cDNA libraries by purification of messenger RNA using poly-T oligo-attached magnetic beads. After fragmentation, the first strand cDNA was synthesized using random hexamer primers followed by the second strand cDNA synthesis. The library was ready after end repair, A-tailing, adapter ligation, size selection, PCR amplification, and purification.

text: adult

text: acute myeloid leukemia

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: blood

text: Homo sapiens

text: MOLM13 DMSO 1


E-MTAB-12848:MOLM13 DMSO 2

text: ArrayExpress

text: public

text: E-MTAB-12848:MOLM13 DMSO 2

text: ArrayExpress

characteristic: broker name

text: human

characteristic: common name

characteristic: description

text: adult

text: acute myeloid leukemia

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: blood

text: Homo sapiens

text: MOLM13 DMSO 2


E-MTAB-12848:MOLM13 DMSO 3

text: ArrayExpress

text: public

text: E-MTAB-12848:MOLM13 DMSO 3

text: ArrayExpress

text: human

text: adult

characteristic: developmental stage

text: acute myeloid leukemia

characteristic: disease

text: wild type genotype

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: blood

text: Homo sapiens

text: MOLM13 DMSO 3


E-MTAB-12847:MOLM-13 DMSO 1

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-12847:MOLM-13 DMSO 1

tag: Namespace:College of Health, Medicine and Life Sciences, Division of Biosciences, Brunel University London

text: ArrayExpress

text: human

text: Protocols: MOLM-13 cells were detached from by addition of trypsin. Cells suspensions were quenched with medium and centrifuged at 400 x g for 5 minutes to pellet for subsequent extraction. MOLM-13 cells were cultured in RPMI1640 supplemented with 20% fetal bovine serum and 1% penicillin/streptomycin. MOLM-13 cells were treated with 0.1% DMSO for 48 hours Total RNA was extracted using Trizol (Invitrogen) and purified using Direct-zol RNA Purification Kits (Zymo Research). Library construction was performed using Illumina Truseq Stranded Total RNA library preparation with Ribozero rRNA depletion

text: adult

text: acute myeloid leukemia

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: Homo sapiens

text: MOLM-13 DMSO 1


E-MTAB-12847:MOLM-13 DMSO 2

text: College of Health, Medicine and Life Sciences, Division of Biosciences, Brunel University London

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12847:MOLM-13 DMSO 2

text: ArrayExpress

text: human

text: adult

text: acute myeloid leukemia

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: blood

text: Homo sapiens

text: MOLM-13 DMSO 2

characteristic: title


E-MTAB-12847:MOLM-13 FIDAS5 1

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: E-MTAB-12847:MOLM-13 FIDAS5 1

characteristic: Submitter Id

text: ArrayExpress

text: human

text: Protocols: MOLM-13 cells were detached from by addition of trypsin. Cells suspensions were quenched with medium and centrifuged at 400 x g for 5 minutes to pellet for subsequent extraction. MOLM-13 cells were cultured in RPMI1640 supplemented with 20% fetal bovine serum and 1% penicillin/streptomycin. MOLM-13 cells were treated with 3 µM FIDAS-5 for 48 hours Total RNA was extracted using Trizol (Invitrogen) and purified using Direct-zol RNA Purification Kits (Zymo Research). Library construction was performed using Illumina Truseq Stranded Total RNA library preparation with Ribozero rRNA depletion

text: adult

text: acute myeloid leukemia

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: blood

text: Homo sapiens

text: MOLM-13 FIDAS5 1


E-MTAB-12847:MOLM-13 FIDAS5 2

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-12847:MOLM-13 FIDAS5 2

text: ArrayExpress

text: human

text: adult

text: acute myeloid leukemia

text: wild type genotype

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: Homo sapiens

text: MOLM-13 FIDAS5 2


characteristic: INSDC last update

text: public

text: E-MTAB-12843:pG10_90_XVE_ZAT14_ESTRADIOL_R1_S4_R1

tag: Namespace:Department of Plant Biotechnology and Bioinformatics, Ghent University, Gent, Belgium  VIB Center for Plant Systems Biology, VIB, Gent, Belgium

unit: day

characteristic: age

text: ArrayExpress

characteristic: broker name

text: thale cress

characteristic: common name

characteristic: cultivar

text: Protocols: collection of Arabidopsis seedlings grown on ½ MS agar plates 8 hours after treatment with DMSO (1:1000, mock) or β-estradiol (50μM). Col-0 wild type plants or ZAT14 misexpressing plants with DMSO (mock) or β-estradiol (50μM) to induce ZAT14 expression total RNA extraction with a Spectrum Plant Total RNA Kit Library preparation was done using the TruSeq stranded RNA Sample Preparation Kit v2 (Illumina).

text: seedling development stage

text: ZAT14 estradiol inducible misexpression

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: whole organism

text: Arabidopsis thaliana


characteristic: ENA-CHECKLIST

text: Department of Plant Biotechnology and Bioinformatics, Ghent University, Gent, Belgium VIB Center for Plant Systems Biology, VIB, Gent, Belgium

text: public

text: E-MTAB-12843:pG10_90_XVE_ZAT14_ESTRADIOL_R2_S5_R1

text: ArrayExpress

text: thale cress

characteristic: description

text: seedling development stage

characteristic: developmental stage

text: ZAT14 estradiol inducible misexpression

characteristic: genotype

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: whole organism

text: Arabidopsis thaliana


characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12843:pG10_90_XVE_ZAT14_ESTRADIOL_R3_S6_R1

text: ArrayExpress

text: thale cress

text: seedling development stage

text: ZAT14 estradiol inducible misexpression

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: whole organism

characteristic: organism part

text: Arabidopsis thaliana


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: E-MTAB-12843:pG10_90_XVE_ZAT14_MOCK_R1_S1_R1

characteristic: Submitter Id

text: ArrayExpress

text: thale cress

text: seedling development stage

text: ZAT14 estradiol inducible misexpression

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: whole organism

text: Arabidopsis thaliana

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-12843:pG10_90_XVE_ZAT14_MOCK_R2_S2_R1

text: ArrayExpress

text: thale cress

text: seedling development stage

text: ZAT14 estradiol inducible misexpression

text: Arabidopsis thaliana

characteristic: organism

text: Arabidopsis thaliana

text: whole organism

text: Arabidopsis thaliana


text: public

text: E-MTAB-12843:pG10_90_XVE_ZAT14_MOCK_R3_S3_R1

characteristic: age

text: ArrayExpress

characteristic: broker name

text: thale cress

characteristic: common name

characteristic: cultivar

text: seedling development stage

text: ZAT14 estradiol inducible misexpression

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: whole organism

text: Arabidopsis thaliana


characteristic: ENA-CHECKLIST

text: public

text: ArrayExpress

text: thale cress

text: Protocols: collection of Arabidopsis seedlings grown on ½ MS agar plates 6 hours after treatment with DMSO (1:1000, mock) or dexamethasone (10μM). Col-0 wild type plants or SMB-GR misexpressing plants ; whole seedlings were harvested with DMSO (mock) or dexamethasone (10μM) to induce SMB-GR movement to the nucleus total RNA extraction with a Spectrum Plant Total RNA Kit Library preparation was done using the TruSeq stranded RNA Sample Preparation Kit v2 (Illumina).

characteristic: description

text: seedling development stage

characteristic: developmental stage

characteristic: genotype

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: whole organism

text: Arabidopsis thaliana


characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:Forest Botany and Tree Physiology, University of Geottingen

text: ArrayExpress

text: European beech

text: Protocols: Per plant: harvest of fine roots (< 2mm diameter) in the field, froozen in liquid nitrogen and transport to the lab on dry ice. Storage at -80°C until RNA extraction environmental samples Total RNA was extracted using the protocol of Chang S, Puryear J, Cairney J (1993, A simple and efficient method for isolating RNA from pine trees. Plant Mol Biol Rep 11:113-116). The RNA of four samples was pooled. The cDNA libraries were prepared using NEBNext Ultra RNA Library Prep Kit for Illumina (New England BioLabs, Frankfurt am Main, Germany) according to the manufactorer´s protocol

text: Schorfheide

characteristic: ecotype

text: Alb

characteristic: environmental history

text: wild type genotype

text: field study

characteristic: growth condition

text: Fagus sylvatica

text: Fagus sylvatica

text: root

characteristic: organism part

characteristic: sampling site

text: Fagus sylvatica


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Forest Botany and Tree Physiology, University of Geottingen

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: ArrayExpress

text: European beech

text: Schorfheide

text: Alb

text: wild type genotype

text: field study

text: Fagus sylvatica

characteristic: organism

text: Fagus sylvatica

text: root

text: Fagus sylvatica

characteristic: title


characteristic: ENA-CHECKLIST

text: public

text: ArrayExpress

characteristic: broker name

text: European beech

characteristic: common name

characteristic: description

text: Schorfheide

text: Hainich

text: wild type genotype

characteristic: genotype

text: field study

text: Fagus sylvatica

text: Fagus sylvatica

text: root

text: Fagus sylvatica


characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: European beech

text: Schorfheide

characteristic: ecotype

text: Schorfheide

characteristic: environmental history

text: wild type genotype

text: field study

text: Fagus sylvatica

text: Fagus sylvatica

text: root

text: Fagus sylvatica


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Ajou University School of Medicine

text: public

tag: Namespace:Ajou University School of Medicine

text: 16S rRNA

text: oral metagenome

text: oral metagenome

text: Healthy


text: Ajou University School of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: 16S rRNA

text: oral metagenome

text: oral metagenome

text: Gingivitis


text: Ajou University School of Medicine

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: 16S rRNA

text: oral metagenome

text: oral metagenome

text: Moderate periodontitis


text: Ajou University School of Medicine

text: public

text: 16S rRNA

text: oral metagenome

characteristic: organism

text: oral metagenome

text: Severe periodontitis

characteristic: title


characteristic: ENA-CHECKLIST

text: Wageningen University and Research

text: public

text: temperate biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Pig1 Jejunum sample for 16S (treatment group)

text: tissue

characteristic: environmental medium

text: Netherlands

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Jejunum

characteristic: local environmental context

text: gut metagenome

characteristic: project name

text: gut metagenome


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: Wageningen University and Research

text: public

characteristic: INSDC status

characteristic: SRA accession

text: temperate biome

text: Pig3 Jejunum sample for 16S (treatment group)

characteristic: description

text: tissue

text: Netherlands

text: Jejunum

text: gut metagenome

text: gut metagenome


characteristic: External Id

text: Wageningen University and Research

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: temperate biome

text: Pig4 Jejunum sample for 16S (control group)

text: tissue

text: Netherlands

text: Jejunum

text: gut metagenome

text: gut metagenome


characteristic: ENA-CHECKLIST

text: Wageningen University and Research

text: public

text: temperate biome

characteristic: broad-scale environmental context

characteristic: collection date

text: Pig5 Jejunum sample for 16S (treatment group)

text: tissue

text: Netherlands

text: Jejunum

text: gut metagenome

characteristic: organism

text: gut metagenome

characteristic: title


text: Wageningen University and Research

text: public

text: temperate biome

text: Pig6 Jejunum sample for 16S (control group)

text: tissue

characteristic: environmental medium

text: Netherlands

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Jejunum

characteristic: local environmental context

text: gut metagenome

text: gut metagenome


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: Wageningen University and Research

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