characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: LMSU

text: human

text: adult

text: gastric carcinoma

characteristic: disease

text: wild type genotype

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: stomach

text: lymph node

text: Homo sapiens


status: PUBLIC

tag: attribute

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:Istituto di Ricerche Farmacologiche \"Mario Negri\" IRCCS

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: LMSU

text: human

characteristic: common name

text: Protocols: Collection of 5-10 million cells in PDS, and resuspension of the pellet in a buffer. Protocol: miRNeasy Mini Kit TruSeq Stranded Total RNA Sample Preparation Guide

characteristic: description

text: adult

characteristic: developmental stage

text: gastric carcinoma

text: wild type genotype

characteristic: genotype

text: not applicable

characteristic: isolate

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: stomach

characteristic: organism part

text: lymph node

characteristic: sampling site

text: Homo sapiens

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Istituto di Ricerche Farmacologiche \"Mario Negri\" IRCCS

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: human

text: adult

text: gastric adenocarcinoma

characteristic: disease

text: wild type genotype

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: stomach

text: liver

text: Homo sapiens


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: human

text: adult

text: gastric tubular adenocarcinoma

text: wild type genotype

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: stomach

text: lymph node

text: Homo sapiens


text: public

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: human

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: gastric tubular adenocarcinoma

text: wild type genotype

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: stomach

text: liver

text: Homo sapiens


text: public

text: ArrayExpress

text: human

text: adult

text: Signet Ring Cell Gastric Adenocarcinoma

text: wild type genotype

characteristic: genotype

text: not applicable

characteristic: isolate

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: stomach

characteristic: organism part

text: pleural effusion

characteristic: sampling site

text: Homo sapiens


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: human

text: adult

text: gastric adenocarcinoma

text: wild type genotype

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: stomach

text: pyloric lymph node

text: Homo sapiens

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: human

text: adult

text: gastric cancer

characteristic: disease

text: wild type genotype

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: stomach

text: G-DIF

characteristic: phenotype

characteristic: response to treatment

text: Homo sapiens


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: human

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: gastric cancer

text: wild type genotype

characteristic: genotype

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: stomach

text: G-DIF

text: low

text: Homo sapiens


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: ArrayExpress

text: human

text: adult

text: gastric cancer

text: wild type genotype

text: not applicable

characteristic: isolate

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: stomach

characteristic: organism part

text: G-INT

text: high

text: Homo sapiens


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: human

text: adult

text: gastric cancer

text: wild type genotype

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: stomach

text: G-DIF

text: high

text: Homo sapiens

characteristic: title


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: human

text: adult

text: gastric cancer

characteristic: disease

text: wild type genotype

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: stomach

text: G-INT

characteristic: phenotype

text: low

characteristic: response to treatment

text: Homo sapiens


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: ArrayExpress

text: Hs 746.T

text: human

characteristic: common name

text: Protocols: Xenograft protocol: Gastric cell lines are grown in the RPMI medium containing 10% fetal bovine serum. Sufficient number of the cells to be inoculated are harvested, intensively washed with PBS, and re- suspended in PBS. The number of the cells and the concentration are the followings: LMSU and NCI-N87 lines, 1x107 cells/0.2ml/flank; Hs746T line, 2.5x106 cells/0.2ml/flank. 2. Gastric cancer cells are subcutaneously inoculated on both flanks of 6-week old female nude mice (Nu/Nu) and let them grow until the size of the tumor reaches to 100-150 mm3 (about one week). 3. Tumor bearing mice are randomized according to the body weight and tumor size, and divided into two experimental groups (10-12 animals/ one group): treated with vehicle or with anti-tumor reagent (ATRA or AM580). 4. The animals are treated either with vehicle or anti-tumor reagents (15 mg/Kg of ATRA, or 0.3mg/Kg of AM580) for 5 days a week for 3 weeks. Body weight and the tumor size are monitored twice a week. 5. At the end of the treatment, animals are sacrificed, and tumor tissues are extracted and snap frozen. 6. RNA is extracted from the tumor tissues using miRNeasy Mini (Qiagen) kit and used for sample preparation for RNA sequencing analysis. Collection of 5-10 million cells in PDS, and resuspension of the pellet in a buffer. Protocol: miRNeasy Mini Kit TruSeq Stranded Total RNA Sample Preparation Guide

characteristic: description

text: adult

characteristic: developmental stage

text: gastric carcinoma

text: not applicable

text: skeletal muscle

characteristic: metastatic site

text: Homo sapiens

text: Homo sapiens

text: stomach

text: Homo sapiens

text: grown until neoplasm in mouse 2.5x106 cells/0.2ml/flank

characteristic: xenograft


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: LMSU

text: human

text: adult

text: gastric carcinoma

text: not applicable

characteristic: isolate

text: lymph node

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: stomach

characteristic: organism part

text: Homo sapiens

text: grown until neoplasm in mouse 1x107 cells/0.2ml/flank


characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: human

text: adult

text: gastric tubular adenocarcinoma

characteristic: disease

text: not applicable

text: liver

text: Homo sapiens

text: Homo sapiens

text: stomach

text: Homo sapiens

characteristic: title


name: WGS shortreads Closterium sp. Naga37s-1 150bpPE

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Tokyo University

text: public

tag: Namespace:Tokyo University

text: Closterium sp. Naga37s-1

text: Closterium sp. Naga37s-1

characteristic: strain


name: WGS shortreads Closterium sp. Shima19-9 150bpPE

characteristic: ENA-CHECKLIST

text: Tokyo University

text: public

text: Closterium sp. Shima19-9

text: Closterium sp. Shima19-9


name: WGS shortreads Closterium sp. Oda12-4-1 100bpPE

characteristic: ENA-FIRST-PUBLIC

text: Tokyo University

text: public

text: Closterium sp. Oda12-4-1

text: Closterium sp. Oda12-4-1


name: WGS shortreads Closterium sp. NIES-4583 100bpPE

text: Tokyo University

characteristic: INSDC center name

text: public

text: Closterium sp. Naga56-6

text: Closterium sp. Naga56-6

text: WGS shortreads Closterium sp. Naga56-6 100bpPE


name: WGS shortreads Closterium sp. Yama58-4 150bpPE

text: Tokyo University

characteristic: INSDC first public

text: public

text: Closterium sp. Yama58-4

text: Closterium sp. Yama58-4


name: WGS shortreads Closterium sp. Ho36-3 100bpPE

text: Tokyo University

text: public

text: Closterium sp. Ho36-3

text: Closterium sp. Ho36-3


name: Genome assembly Closterium sp. Naga37s-1

text: Tokyo University

text: public

text: Closterium sp. Naga37s-1

text: Closterium sp. Naga37s-1


Genome assembly Closterium sp. Yama58-4

text: Tokyo University

text: public

text: Genome assembly Closterium sp. Yama58-4

text: Closterium sp. Yama58-4

text: Closterium sp. Yama58-4

text: Genome assembly Closterium sp. Yama58-4


Transcriptome Closterium sp. Yama58-4

text: Tokyo University

text: public

text: Transcriptome Closterium sp. Yama58-4

text: cells in vegetative and mating stages

characteristic: description

text: cells in vegetative and mating stages

text: Closterium sp. Yama58-4

text: Closterium sp. Yama58-4

text: Transcriptome Closterium sp. Yama58-4


WGS longreads Closterium sp. Naga37s-1

text: Tokyo University

text: public

text: WGS longreads Closterium sp. Naga37s-1

text: Closterium sp. Naga37s-1

characteristic: organism

text: Closterium sp. Naga37s-1

text: WGS longreads Closterium sp. Naga37s-1


WGS longreads Closterium sp. Yama58-4

text: Tokyo University

text: public

text: WGS longreads Closterium sp. Yama58-4

text: Closterium sp. Yama58-4

text: Closterium sp. Yama58-4

text: WGS longreads Closterium sp. Yama58-4


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text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:885-31930

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:886-31931

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:886-31932

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:886-31933

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:886-31935

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:886-31936

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:886-31937

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:886-31938

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:886-31940

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:886-31941

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:886-31942

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:886-31943

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:886-31944

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:886-31946

text: metagenome

text: metagenome

text: Mice faeces


text: Leibniz Institute for Natural Product Research and Infection Biology

text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:886-31947

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:886-31948

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:887-31950

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:887-31951

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:887-31952

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:887-31953

text: metagenome

text: metagenome

text: Mice faeces


text: public

text: ena-SAMPLE-TAB-04-12-2022-11:06:21:887-31954

text: metagenome

text: metagenome

text: Mice faeces


text: public

tag: Namespace:Department of Biology, University of Florence

text: aquatic biome

characteristic: broad-scale environmental context

characteristic: collection date

text: crab organ

text: gill tissue material

characteristic: environmental medium

text: Hong Kong

characteristic: geographic location (country and/or sea)

unit: DD

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: marine biome

characteristic: local environmental context

text: crab metagenome

text: Bacterial community associated to the gills of Brachyran crabs

characteristic: project name

text: crab metagenome

text: 16S rRNA

characteristic: target gene

text: V3 – V4

characteristic: target subfragment

text: crab metagenome


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Department of Biology, University of Florence

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: aquatic biome

text: crab organ

text: gill tissue material

text: Hong Kong

text: marine biome

text: crab metagenome

text: crab metagenome

text: 16S rRNA

text: V3 – V4

text: crab metagenome

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: terrestrial biome

characteristic: broad-scale environmental context

text: crab organ

characteristic: description

text: gill tissue material

text: Hong Kong

text: mangrove biome

text: crab metagenome

characteristic: organism

text: crab metagenome

text: 16S rRNA

text: V3 – V4

text: crab metagenome


text: IRBBarcelona

text: public

unit: year

characteristic: age

text: ArrayExpress

characteristic: broker name

text: A375, BRAF mutant-A375 isogenic cell line

text: human

characteristic: common name

text: Protocols: Cells were cultured in 75cm2 flasks with DMEM 10%FCS 1% penicillin/streptomycin at 37°C/5%CO2. A375 parental cells remained untreated. A375-MAPKi resistant cells, A375-etomoxir cells and A375-ranolazine cells had been made resistant to vemurafenib by treating the cells with 5 uM vemurafenib for one week followed by continuous culture under 0.5 uM vemurafenib until ressitant colonies arose. All these 3 cell lines were cultured with 0.5 μM vemurafenib up until cell processing for scRNAseq. A375-etomoxir cells had been selected with 100 μM etomoxir during acquisition of resistance to vemurafenib, but no longer after that. A375-ranolazine cells had been previously selected with 100 μM ranolazine during acquisition of resistance to vemurafenib, but no longer after that. Cells were trypsinised and resuspended in fresh medium before being passed through a cell strainer to obtain a single-cell suspension. Samples were centrifuged again for at 300g 5 min 4°C , resuspended in FACS buffer (sterile-filtered 1% FCS, 2mM EDTA, 25mM HEPES in 1X PBS). Following, incubation with 1ug/mL DAPI for 30 min on ice and darkness, samples were washed with FACS buffer, centrifuged at 300g 4°C 5 min twice. FACS isolation was issued gating DAPI negative population (live cells) and double discrimination of singles and doublets. Then cells were sorted into individual tubes per group condition, 15000 cells per group. Cell integrity and number was assessed by trypan blue and bright-field microscopy in every condition. Live cells were encapsulated intro droplets and libraries were prepared using Chromium Single Cell Reagents kit v3.1 according to the manufacturer’s protocol. RNA extraction is performed within single cell v3.1 gel beads as described by manufacturer 10X genomics. Reverse transcription is then procured within each sample and the results is GEMs with barcoded full-length cDNA from poly-adenylated mRNA.Immediately, following the Gel GEM generation, the Gel Bead is dissolved, primers are released, and any copartitioned cell is lysed. Primer containing: an Illumina TruSeq Read 1 (read 1 sequencing primer), 16 nt 10x Barcode, 12 nt unique molecular identifier (UMI) and 30 nt poly(dT). Sequence are mixed with the cell lysate and a Master Mix containing reverse transcription (RT) reagents. Incubation of the GEMs produces barcoded, full-length cDNA from poly-adenylated mRNA. For the generation of the libraries, the kit for Next GEM Single Cell 3’ Reagents Kits v3.1 (Dual Index) has been used, pooling four samples per library (labeling each sample with hashtag oligonucleotides). After incubation, GEMs are broken, and pooled fractions are recovered. Silane magnetic beads are used to purify the first-strand cDNA from the post GEM-RT reaction mixture, which includes biochemical leftover reagents and primers. Barcoded, full-length cDNA is amplified via PCR to generate sufficient mass for library construction.

text: adult

characteristic: developmental stage

text: melanoma

characteristic: disease

text: BRAF V600E mutation

characteristic: genotype

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: skin

characteristic: organism part

text: parental, vemurafenib-resistant

characteristic: phenotype

text: neoplasm

characteristic: sampling site

text: Homo sapiens

text: female

characteristic: sex


BvA

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: BvA

tag: Namespace:CENTER FOR BIOTECHNOLOGY, BIELEFELD UNIVERSITY

characteristic: Submitter Id

text: BR12 tolerant line inoculated replicate 1

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvB

text: CENTER FOR BIOTECHNOLOGY, BIELEFELD UNIVERSITY

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: BvB

text: BR12 tolerant line inoculated replicate 2

characteristic: description

text: Beta vulgaris subsp. vulgaris

characteristic: organism

text: Beta vulgaris subsp. vulgaris


BvC

text: public

text: BvC

text: BR12 tolerant line inoculated replicate 3

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvD

text: public

text: BvD

text: U1Bv susceptible line inoculated replicate 1

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvE

text: public

text: BvE

text: U1Bv susceptible line inoculated replicate 2

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvF

text: public

text: BvF

text: U1Bv susceptible line inoculated replicate 3

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvG

text: public

text: BvG

text: U2Bv tolerant line inoculated replicate 1

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvH

text: public

text: BvH

text: U2Bv tolerant line inoculated replicate 2

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvI

text: public

text: BvI

text: U2Bv tolerant line inoculated replicate 3

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvJ

text: public

text: BvJ

text: SUS3 susceptible line inoculated replicate 1

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvK

text: public

text: BvK

text: SUS3 susceptible line inoculated replicate 2

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvL

text: public

text: BvL

text: SUS3 susceptible line inoculated replicate 3

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvM

text: public

text: BvM

text: BR12 tolerant line not inoculated replicate 1

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvN

text: public

text: BvN

text: BR12 tolerant line not inoculated replicate 2

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvO

text: public

text: BvO

text: BR12 tolerant line not inoculated replicate 3

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvP

text: public

text: BvP

text: U1Bv susceptible line not inoculated replicate 1

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvQ

text: public

text: BvQ

text: U1Bv susceptible line not inoculated replicate 2

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvR

text: CENTER FOR BIOTECHNOLOGY, BIELEFELD UNIVERSITY

text: public

text: BvR

text: U1Bv susceptible line not inoculated replicate 3

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvS

text: public

text: BvS

text: U2Bv tolerant line not inoculated replicate 1

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvT

text: public

text: BvT

text: U2Bv tolerant line not inoculated replicate 2

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvU

text: public

text: BvU

text: U2Bv tolerant line not inoculated replicate 3

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvV

text: public

text: BvV

text: SUS3 susceptible line not inoculated replicate 1

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvW

text: public

text: BvW

text: SUS3 susceptible line not inoculated replicate 2

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


BvX

text: public

text: BvX

text: SUS3 susceptible line not inoculated replicate 3

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for U2Bv

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: RNA-Seq reads of young leaf untreated of genotype U2Bv

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: RNA-Seq reads of syncytia and surrounding roots of genotype U2Bv

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: RNA-Seq reads of healthy lateral root of genotype U2Bv

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: Wetsus

text: public

text: ditch

text: soil metagenome

text: nitrate

text: A

characteristic: replicate

text: soil metagenome

characteristic: title


text: Wetsus

text: public

text: ind

text: activated sludge metagenome

text: methanogenic

text: B

text: activated sludge metagenome


text: Wetsus

text: public

text: ind

text: activated sludge metagenome

text: nitrate

text: B

text: activated sludge metagenome


text: Wetsus

text: public

text: ind

text: activated sludge metagenome

text: iron

text: B

text: activated sludge metagenome


text: Wetsus

text: public

text: ind

text: activated sludge metagenome

text: inoculum

text: activated sludge metagenome


text: Wetsus

text: public

text: mun

text: activated sludge metagenome

text: inoculum

text: activated sludge metagenome


text: Wetsus

text: public

text: soil

text: soil metagenome

text: inoculum

text: soil metagenome


text: Wetsus

text: public

text: ditch

text: soil metagenome

text: methanogenic

text: A

text: soil metagenome


text: Wetsus

text: public

text: ditch

text: soil metagenome

text: iron

text: B

text: soil metagenome


text: Wetsus

text: public

text: ditch

text: soil metagenome

text: inoculum

text: soil metagenome


text: Wetsus

text: public

text: ditch

text: soil metagenome

text: methanogenic

text: B

text: soil metagenome


text: Wetsus

text: public

text: ditch

text: soil metagenome

text: iron

text: A

text: soil metagenome


text: Wetsus

text: public

text: ditch

text: soil metagenome

text: aerobic

text: A

text: soil metagenome


text: Wetsus

text: public

text: ditch

text: soil metagenome

text: aerobic

text: B

text: soil metagenome


text: Wetsus

text: public

text: ditch

text: soil metagenome

text: sulphate

text: B

text: soil metagenome


text: Wetsus

text: public

text: ind

text: activated sludge metagenome

text: sulphate

text: B

text: activated sludge metagenome


text: Wetsus

text: public

text: ind

text: activated sludge metagenome

text: sulphate

text: A

text: activated sludge metagenome


text: Wetsus

text: public

text: ind

text: activated sludge metagenome

text: aerobic

text: B

text: activated sludge metagenome


text: Wetsus

text: public

text: ind

text: activated sludge metagenome

text: aerobic

text: A

text: activated sludge metagenome


text: Wetsus

text: public

text: mun

text: activated sludge metagenome

text: aerobic

text: A

text: activated sludge metagenome


text: Wetsus

text: public

text: mun

text: activated sludge metagenome

text: aerobic

text: B

text: activated sludge metagenome


text: Wetsus

text: public

text: mun

text: activated sludge metagenome

text: nitrate

text: A

text: activated sludge metagenome


text: Wetsus

text: public

text: mun

text: activated sludge metagenome

text: nitrate

text: B

text: activated sludge metagenome


text: Wetsus

text: public

text: mun

text: activated sludge metagenome

text: sulphate

text: A

text: activated sludge metagenome


text: Wetsus

text: public

text: mun

text: activated sludge metagenome

text: methanogenic

text: B

text: activated sludge metagenome


text: Wetsus

text: public

text: mun

text: activated sludge metagenome

text: sulphate

text: B

text: activated sludge metagenome


text: Wetsus

text: public

text: mun

text: activated sludge metagenome

text: methanogenic

text: A

text: activated sludge metagenome


text: Wetsus

text: public

text: blank

text: blank sample

text: blank sample


text: Wetsus

text: public

text: soil

text: soil metagenome

text: methanogenic

text: A

text: soil metagenome


text: Wetsus

text: public

text: soil

text: soil metagenome

text: methanogenic

text: B

text: soil metagenome


text: Wetsus

text: public

text: soil

text: soil metagenome

text: sulphate

text: A

text: soil metagenome


text: Wetsus

text: public

text: soil

text: soil metagenome

text: nitrate

text: A

text: soil metagenome


text: Wetsus

text: public

text: soil

text: soil metagenome

text: iron

text: A

text: soil metagenome


text: Wetsus

text: public

text: soil

text: soil metagenome

text: iron

text: B

text: soil metagenome


text: Wetsus

text: public

text: soil

text: soil metagenome

text: aerobic

text: B

text: soil metagenome


text: Wetsus

text: public

text: soil

text: soil metagenome

text: aerobic

text: A

text: soil metagenome


text: Wetsus

text: public

text: soil

text: soil metagenome

text: sulphate

text: B

text: soil metagenome


text: LSHTM

text: public

text: human

characteristic: common name

text: human faecal isolate

text: Homo sapiens

text: Homo sapiens

text: human faecal isolate


name: WGS shortreads Closterium sp. NIES-261 100bpPE

text: Tokyo University

text: public

text: Closterium sp. NIES-261

text: Closterium sp. NIES-261

characteristic: strain


name: WGS shortreads Closterium sp. NIES-4319 100bpPE

text: Tokyo University

text: public

text: Closterium sp. NIES-4319

text: Closterium sp. NIES-4319


name: WGS shortreads Closterium sp. NIES-4320 100bpPE

text: Tokyo University

text: public

text: Closterium sp. NIES-4320

text: Closterium sp. NIES-4320


name: WGS shortreads Closterium sp. NIES-62 100bpPE

text: Tokyo University

text: public

text: Closterium sp. NIES-62

text: Closterium sp. NIES-62


name: WGS shortreads Closterium sp. NIES-63 100bpPE

text: Tokyo University

text: public

text: Closterium sp. NIES-63

text: Closterium sp. NIES-63


name: WGS shortreads Closterium sp. NIES-64 100bpPE

text: Tokyo University

text: public

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64


name: WGS shortreads Closterium sp. NIES-65 100bpPE

text: Tokyo University

text: public

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65


name: WGS shortreads Closterium sp. NIES-2666 150bpPE

text: Tokyo University

text: public

text: Closterium sp. NIES-2666

text: Closterium sp. NIES-2666


name: WGS shortreads Closterium sp. NIES-4321 150bpPE

text: Tokyo University

text: public

text: Closterium sp. NIES-4321

text: Closterium sp. NIES-4321


name: WGS shortreads Closterium sp. NIES-4581 150bpPE

text: Tokyo University

text: public

text: Closterium sp. NIES-4581

text: Closterium sp. NIES-4581


name: WGS shortreads Closterium sp. NIES-4582 150bpPE

text: Tokyo University

text: public

text: Closterium sp. NIES-4582

text: Closterium sp. NIES-4582


name: WGS shortreads Closterium sp. NIES-53 150bpPE

text: Tokyo University

text: public

text: Closterium sp. NIES-53

text: Closterium sp. NIES-53


name: WGS shortreads Closterium sp. NIES-54 150bpPE

text: Tokyo University

text: public

text: Closterium sp. NIES-54

text: Closterium sp. NIES-54


name: WGS shortreads Closterium sp. NIES-58 150bpPE

text: Tokyo University

text: public

text: Closterium sp. NIES-58

text: Closterium sp. NIES-58


name: WGS shortreads Closterium sp. NIES-59 150bpPE

text: Tokyo University

text: public

text: Closterium sp. NIES-59

text: Closterium sp. NIES-59


name: WGS shortreads Closterium sp. NIES-65 150bpPE

text: Tokyo University

text: public

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65


text: public

text: Illumina WGS reads for line BR01 (BCN tolerant)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for line BR02 (BCN tolerant)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for line BR03 (BCN tolerant)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for line BR04 (BCN tolerant)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for line BR05 (BCN tolerant)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for line BR06 (BCN tolerant)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: CENTER FOR BIOTECHNOLOGY, BIELEFELD UNIVERSITY

text: public

text: Illumina WGS reads for line BR07 (BCN tolerant)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for line BR08 (BCN tolerant)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for line BR09 (BCN tolerant)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for Pool-Low (BCN tolerant)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for line BR28 (BCN susceptible)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for line BR29 (BCN susceptible)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for line BR30 (BCN susceptible)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for line BR31 (BCN susceptible)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for line BR32 (BCN susceptible)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for line BR33 (BCN susceptible)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for line BR34 (BCN susceptible)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for line BR35 (BCN susceptible)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for line BR36 (BCN susceptible)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for Pool-High (BCN susceptible)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for parent line U1Bv (BCN susceptible)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: public

text: Illumina WGS reads for parent line U2Bv (BCN tolerant)

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


text: CENTER FOR BIOTECHNOLOGY, BIELEFELD UNIVERSITY

text: public

text: Illumina WGS reads for F1 generation of cross between U1Bv and U2Bv

text: Beta vulgaris subsp. vulgaris

text: Beta vulgaris subsp. vulgaris


Genome assembly Closterium sp. NIES-64

text: Tokyo University

text: public

text: Genome assembly Closterium sp. NIES-64

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64

text: Genome assembly Closterium sp. NIES-64


Genome assembly Closterium sp. NIES-65

text: Tokyo University

text: public

text: Genome assembly Closterium sp. NIES-65

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65

text: Genome assembly Closterium sp. NIES-65


Genome assembly Closterium sp. NIES-53

text: Tokyo University

text: public

text: Genome assembly Closterium sp. NIES-53

text: Closterium sp. NIES-53

text: Closterium sp. NIES-53

text: Genome assembly Closterium sp. NIES-53


Genome assembly Closterium sp. NIES-54

text: Tokyo University

text: public

text: Genome assembly Closterium sp. NIES-54

text: Closterium sp. NIES-54

text: Closterium sp. NIES-54

text: Genome assembly Closterium sp. NIES-54


name: Transcriptome Closterium sp. mating group II-A

text: Tokyo University

text: public

text: cells in vegetative stages and mating stages (mixture of NIES-53 and NIES-54)

text: Closterium sp. mating group II-A

text: Closterium sp. mating group II-A

text: mixture of NIES-53 and NIES-54


name: Transcriptome Closterium sp. mating group II-B

text: Tokyo University

text: public

text: cells in vegetative stages and mating stages (mixture of NIES-64 and NIES-65)

text: Closterium sp. mating group II-B

text: Closterium sp. mating group II-B

text: mixture of NIES-64 and NIES-65


WGS longreads Closterium sp. NIES-53

text: Tokyo University

text: public

text: WGS longreads Closterium sp. NIES-53

text: Closterium sp. NIES-53

text: Closterium sp. NIES-53

text: WGS longreads Closterium sp. NIES-53


WGS longreads Closterium sp. NIES-54

text: Tokyo University

text: public

text: WGS longreads Closterium sp. NIES-54

text: Closterium sp. NIES-54

text: Closterium sp. NIES-54

text: WGS longreads Closterium sp. NIES-54


WGS longreads Closterium sp. NIES-64

text: Tokyo University

text: public

text: WGS longreads Closterium sp. NIES-64

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64

text: WGS longreads Closterium sp. NIES-64


WGS longreads Closterium sp. NIES-65

text: Tokyo University

text: public

text: WGS longreads Closterium sp. NIES-65

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65

text: WGS longreads Closterium sp. NIES-65


name: Transcriptome Closterium sp. NIES-64 Lstage Replicate 1

text: Tokyo University

text: public

text: cells one hour after shift from dark to light

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64


name: Transcriptome Closterium sp. NIES-64 Lstage Replicate 2

text: Tokyo University

text: public

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64


name: Transcriptome Closterium sp. NIES-64 Lstage Replicate 3

text: Tokyo University

text: public

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64


name: Transcriptome Closterium sp. NIES-64 Dstage Replicate 1

text: Tokyo University

text: public

text: cells one hour after shift from light to dark

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64


name: Transcriptome Closterium sp. NIES-64 Dstage Replicate 2

text: Tokyo University

text: public

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64


name: Transcriptome Closterium sp. NIES-64 Dstage Replicate 3

text: Tokyo University

text: public

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64


name: Transcriptome Closterium sp. NIES-64 Mstage Replicate 1

text: Tokyo University

text: public

text: cells in nitrogen-depleted mating-inducing medium for 8h

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64


name: Transcriptome Closterium sp. NIES-64 Mstage Replicate 2

text: Tokyo University

text: public

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64


name: Transcriptome Closterium sp. NIES-64 Mstage Replicate 3

text: Tokyo University

text: public

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64


name: Transcriptome Closterium sp. NIES-64 C8hstage Replicate 1

text: Tokyo University

text: public

text: cells in mating-induced conditioned medium for 8h

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64


name: Transcriptome Closterium sp. NIES-64 C8hstage Replicate 2

text: Tokyo University

text: public

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64


name: Transcriptome Closterium sp. NIES-64 C8hstage Replicate 3

text: Tokyo University

text: public

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64


name: Transcriptome Closterium sp. NIES-64 C24hstage Replicate 1

text: Tokyo University

text: public

text: cells in mating-induced conditioned medium for 24h

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64


name: Transcriptome Closterium sp. NIES-64 C24hstage Replicate 2

text: Tokyo University

text: public

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64


name: Transcriptome Closterium sp. NIES-64 C24hstage Replicate 3

text: Tokyo University

text: public

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64


name: Transcriptome Closterium sp. NIES-65 Lstage Replicate 1

text: Tokyo University

text: public

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65


name: Transcriptome Closterium sp. NIES-65 Lstage Replicate 2

text: Tokyo University

text: public

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65


name: Transcriptome Closterium sp. NIES-65 Lstage Replicate 3

text: Tokyo University

text: public

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65


name: Transcriptome Closterium sp. NIES-65 Dstage Replicate 1

text: Tokyo University

text: public

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65


name: Transcriptome Closterium sp. NIES-65 Dstage Replicate 2

text: Tokyo University

text: public

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65


name: Transcriptome Closterium sp. NIES-65 Dstage Replicate 3

text: Tokyo University

text: public

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65


name: Transcriptome Closterium sp. NIES-65 Mstage Replicate 1

text: Tokyo University

text: public

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65


name: Transcriptome Closterium sp. NIES-65 Mstage Replicate 2

text: Tokyo University

text: public

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65


name: Transcriptome Closterium sp. NIES-65 Mstage Replicate 3

text: Tokyo University

text: public

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65


name: Transcriptome Closterium sp. NIES-65 C8hstage Replicate 1

text: Tokyo University

text: public

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65


name: Transcriptome Closterium sp. NIES-65 C8hstage Replicate 2

text: Tokyo University

text: public

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65


name: Transcriptome Closterium sp. NIES-65 C8hstage Replicate 3

text: Tokyo University

text: public

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65


name: Transcriptome Closterium sp. NIES-65 C24hstage Replicate 1

text: Tokyo University

text: public

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65


name: Transcriptome Closterium sp. NIES-65 C24hstage Replicate 2

text: Tokyo University

text: public

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65


name: Transcriptome Closterium sp. NIES-65 C24hstage Replicate 3

text: Tokyo University

text: public

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65


text: public

text: ena-SAMPLE-TAB-24-01-2023-13:37:14:998-423

tag: Namespace:Pharmaceutical Biosciences, Uppsala University

text: Paco Cardenas Karin Steffen

text: Sample was collected by ROV on board the R/V Nereus, at 96 m depth. The sex of the specimen could not be determined since it was not reproducing at the time of its collection and did not contain any observable larvae (specimen NR_1 in Koutsouveli et al. 2020)

text: adult

text: Sweden

characteristic: geographic location (country and/or sea)

text: Kosterfjord National Park, West of Yttre Vattenholmen

characteristic: geographic location (region and locality)

text: Paco Cardenas

text: 58.876233 11.101483

text: Geodia barretti

text: Geodia barretti

text: UPSZMC 184975

text: Wild type Geodia barretti


WGS 10x Closterium sp. NIES-64

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Tokyo University

text: public

text: WGS 10x Closterium sp. NIES-64

text: Closterium sp. NIES-64

text: Closterium sp. NIES-64

text: WGS 10x Closterium sp. NIES-64


WGS 10x Closterium sp. NIES-65

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Tokyo University

text: public

text: WGS 10x Closterium sp. NIES-65

text: Closterium sp. NIES-65

text: Closterium sp. NIES-65

text: WGS 10x Closterium sp. NIES-65


text: University of Helsinki

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:University of Helsinki

text: HAMBI microbial domain biological resource centre, Helsinki Institute of Life Science

text: Fomitopsis pinicola strain FBCC 1181 mitochondrial DNA

text: F. pinicola mycelium grown in malt extract liquid medium

text: Fomitopsis pinicola

text: Fomitopsis pinicola

text: FBCC 1181

text: F. pinicola 1181 mtDNA


text: Istituto di Ricerche Farmacologiche \"Mario Negri\" IRCCS

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: hepatocyte

text: human

text: Protocols: Collection of 5-10 million cells in PDS, and resuspension of the pellet in a buffer. Protocol: miRNeasy Mini Kit TruSeq Stranded Total RNA Sample Preparation Guide

text: juvenile stage

characteristic: developmental stage

text: Cornelia de Lange syndrome

characteristic: disease

text: missense point-mutation of NIPBL

characteristic: genetic modification

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: induced pluripotent stem cell

characteristic: progenitor cell type

text: Homo sapiens


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: induced pluripotent stem cell

text: human

characteristic: common name

characteristic: description

text: juvenile stage

text: Cornelia de Lange syndrome

text: missense point-mutation of NIPBL

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: mononuclear cell

text: Homo sapiens

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

text: ArrayExpress

text: hepatocyte

text: human

text: juvenile stage

text: Cornelia de Lange syndrome

text: NIPBL mutant correction

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: blood

text: induced pluripotent stem cell

text: Homo sapiens


text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: induced pluripotent stem cell

text: human

text: juvenile stage

characteristic: developmental stage

text: Cornelia de Lange syndrome

text: NIPBL mutant correction

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: blood

text: mononuclear cell

text: Homo sapiens


text: public

text: ArrayExpress

text: hepatocyte

text: human

text: adult

text: normal

characteristic: disease

characteristic: genetic modification

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: induced pluripotent stem cell

characteristic: progenitor cell type

text: Homo sapiens


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: induced pluripotent stem cell

text: human

characteristic: common name

characteristic: description

text: adult

text: normal

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: mononuclear cell

text: Homo sapiens


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: ArrayExpress

text: hepatocyte

text: human

text: Protocols: iPSC or differentiated cells were harvested with 1x Trypsine-EDTA. Well separated cells (5.000-10,000 cells /sample) were applied to Single Cell RNA sequencing analysis using Chromium Next GEM Single Cell 3’ Reagent Kits v3.1. Well separated cells (5.000-10,000 cells /sample) were applied to Single Cell RNA sequencing analysis using Chromium Next GEM Single Cell 3’ Reagent Kits v3.1.

text: juvenile stage

text: Cornelia de Lange syndrome

text: NIPBL mutant correction

characteristic: genotype

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: blood

text: induced pluripotent stem cell

text: Homo sapiens

text: female

characteristic: sex

text: end of differentiation

characteristic: time

characteristic: title


characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: hepatocyte

text: human

text: juvenile stage

characteristic: developmental stage

text: Cornelia de Lange syndrome

characteristic: disease

text: NIPBL mutant correction

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: blood

text: induced pluripotent stem cell

text: Homo sapiens

text: female

text: intermediate stage differentiation


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: induced pluripotent stem cell

text: human

characteristic: common name

characteristic: description

text: adult

text: normal

text: wild type genotype

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: mononuclear cell

characteristic: progenitor cell type

text: Homo sapiens

text: male

text: no differentiation


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: ArrayExpress

text: induced pluripotent stem cell

text: human

text: juvenile stage

text: Cornelia de Lange syndrome

text: heterozygous missense point-mutation of NIPBL

characteristic: genotype

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: mononuclear cell

text: Homo sapiens

text: female

characteristic: sex

text: no differentiation


characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: hepatocyte

text: human

text: juvenile stage

text: Cornelia de Lange syndrome

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: blood

text: induced pluripotent stem cell

text: Homo sapiens

text: female

text: intermediate stage differentiation

characteristic: time

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: hepatocyte

text: human

characteristic: common name

characteristic: description

text: juvenile stage

characteristic: developmental stage

text: Cornelia de Lange syndrome

characteristic: disease

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: blood

text: induced pluripotent stem cell

text: Homo sapiens

text: female

text: end of differentiation


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: ArrayExpress

text: induced pluripotent stem cell

text: human

text: juvenile stage

text: Cornelia de Lange syndrome

text: NIPBL mutant correction

characteristic: genotype

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: mononuclear cell

characteristic: progenitor cell type

text: Homo sapiens

text: female

text: no differentiation


characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: induced pluripotent stem cell

text: human

text: adult

text: normal

text: wild type genotype

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: mononuclear cell

text: Homo sapiens

text: female

characteristic: sex

text: no differentiation


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: induced pluripotent stem cell

text: human

characteristic: common name

text: Protocols: Collection of 50000 cells per replicate and resuspension of the pellet in TRIzol buffer - Resuspension of nuclei in the transposition reaction mix- Incubation of the transposition reaction- Purification using Qiagen MinElute PCR Purification Kit- Elution of transposed DNA in Elution BufferRefer to DOI: 10.1002/0471142727.mb2129s109 - Amplification of DNA fragments- Purification of amplified library using Qiagen MinElute PCR Purification Kit

characteristic: description

text: Cornelia de Lange syndrome

text: NIPBL mutant correction

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: blood

text: Homo sapiens

text: female

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: ArrayExpress

text: induced pluripotent stem cell

text: human

text: Cornelia de Lange syndrome

characteristic: disease

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: blood

text: Homo sapiens

text: female


characteristic: External Id

characteristic: INSDC last update

text: public

text: ArrayExpress

text: induced pluripotent stem cell

text: human

text: normal

text: wild type genotype

characteristic: genotype

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: Homo sapiens

text: male


text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: induced pluripotent stem cell

text: human

text: normal

text: wild type genotype

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: blood

text: Homo sapiens

text: female


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

text: hepatocyte

text: human

text: Protocols: Day 9 of hepatocyte differentiation. Collection of 50000 cells per replicate and resuspension of the pellet in TRIzol buffer - Resuspension of nuclei in the transposition reaction mix- Incubation of the transposition reaction- Purification using Qiagen MinElute PCR Purification Kit- Elution of transposed DNA in Elution BufferRefer to DOI: 10.1002/0471142727.mb2129s109 - Amplification of DNA fragments- Purification of amplified library using Qiagen MinElute PCR Purification Kit

text: Cornelia de Lange syndrome

text: NIPBL mutant correction

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: induced pluripotent stem cell

characteristic: progenitor cell type

text: Homo sapiens

text: female

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: ArrayExpress

text: hepatocyte

text: human

characteristic: common name

characteristic: description

text: Cornelia de Lange syndrome

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: blood

text: induced pluripotent stem cell

text: Homo sapiens

text: female

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Wetsus

characteristic: INSDC last update

text: public

characteristic: broad-scale environmental context

text: Charcoal

characteristic: environmental medium

text: Netherlands

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: local environmental context

text: activated carbon metagenome

characteristic: project name

text: activated carbon metagenome


characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: induced pluripotent stem cell

text: human

text: Protocols: Genomic DNA was extracted from iPSC and differentiated cells using DNeasy Blood and Tissue Kit (Qiagen). DNA was fragmented to approximately 550 bp long using Bioruptor (Diagenode, Seraing, Belgium). DNA library was prepared using DNATruSeq DNA PCR-Free Low Throughput Library Prep Kit (Illumina).

text: Cornelia de Lange syndrome

characteristic: disease

characteristic: genotype

text: not applicable

characteristic: isolate

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

characteristic: organism part

text: mononuclear cell

characteristic: progenitor cell type

text: Homo sapiens

text: female


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

text: ArrayExpress

text: induced pluripotent stem cell

text: human

characteristic: common name

characteristic: description

text: Cornelia de Lange syndrome

text: NIPBL mutant correction

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: blood

text: mononuclear cell

text: Homo sapiens

text: female

characteristic: sex

characteristic: title


text: Clemson University

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:Clemson University

characteristic: Submitter Id

text: anthropogenic terrestrial biome

characteristic: broad-scale environmental context

characteristic: collection date

text: human

text: supragingival plaque

text: air

characteristic: environmental medium

text: Nigeria

characteristic: geographic location (country and/or sea)

text: not collected

characteristic: geographic location (latitude)

text: not collected

characteristic: geographic location (longitude)

text: urban biome

characteristic: local environmental context

text: Homo sapiens

characteristic: project name

text: Homo sapiens

text: rpoC

characteristic: target gene


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Technical University of Denmark

characteristic: INSDC last update

text: public

tag: Namespace:Technical University of Denmark

text: Chilled, meat

characteristic: description

text: Denmark

text: diseased

characteristic: host health state

text: Campylobacter jejuni

characteristic: host scientific name

characteristic: isolate

text: Campylobacter jejuni

characteristic: organism

text: Campylobacter jejuni

characteristic: serovar


text: THE JACKSON LABORATORY

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: PromethION

characteristic: Instrument

characteristic: SRA accession

tag: Namespace:THE JACKSON LABORATORY

characteristic: Submitter Id

text: human

characteristic: common name

text: 20220510_220505_21-lee-006_PC24B149_3C_guppy-5.0.11-sup-prom_fastq_pass.fastq.gz

text: size fractionation

text: GENOMIC

text: WGS

text: Homo sapiens

text: Homo sapiens

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: THE JACKSON LABORATORY

text: public

text: PromethION

text: human

text: 20220503_220429_21-lee-006_PC24B149_1D_guppy-5.0.11-sup-prom_fastq_pass.fastq.gz

text: size fractionation

text: GENOMIC

text: WGS

text: Homo sapiens

text: Homo sapiens


characteristic: External Id

text: THE JACKSON LABORATORY

characteristic: INSDC last update

text: public

text: PromethION

text: human

text: 20220503_220427_21-lee-006_PC24B149_3E_guppy-5.0.11-sup-prom_fastq_pass.fastq.gz

text: size fractionation

text: GENOMIC

text: WGS

text: Homo sapiens

text: Homo sapiens


text: THE JACKSON LABORATORY

text: public

text: PromethION

text: human

text: 20220511_220506_21-lee-006_PC24B149_1D_guppy-5.0.11-sup-prom_fastq_pass.fastq.gz

text: size fractionation

text: GENOMIC

text: WGS

text: Homo sapiens

text: Homo sapiens


text: THE JACKSON LABORATORY

text: public

text: PromethION

text: human

text: 20220425_220420_21-lee-006_PC24B149_3F_guppy-5.0.11-sup-prom_fastq_pass.fastq.gz

text: size fractionation

text: GENOMIC

text: WGS

text: Homo sapiens

text: Homo sapiens


text: THE JACKSON LABORATORY

text: public

text: PromethION

text: human

text: 20220510_220504_21-lee-006_PC24B149_3C_guppy-5.0.11-sup-prom_fastq_pass.fastq.gz

text: size fractionation

text: GENOMIC

text: WGS

text: Homo sapiens

text: Homo sapiens


text: THE JACKSON LABORATORY

text: public

text: PromethION

text: human

text: 20220510_220504_21-lee-006_PC24B149_1D_guppy-5.0.11-sup-prom_fastq_pass.fastq.gz

text: size fractionation

text: GENOMIC

text: WGS

text: Homo sapiens

text: Homo sapiens


text: public

tag: Namespace:Institute of Clinical Molecular Biology (IKMB)

text: human

text: Tooth from Grave X3003 from the Sejet Odekirkegard burial site in Denmark

characteristic: description

text: Homo sapiens

text: Homo sapiens


text: Institute of Clinical Molecular Biology (IKMB)

text: public

text: human

text: Tooth from Grave X52 from the Sct Drotten/Sct Trinitatis burial site in Viborg, Denmark

text: Homo sapiens

text: Homo sapiens


text: public

tag: Namespace:Institute of Biology, Biotechnology and Environmental Protection, Faculty of Natural Sciences, University of Silesia in Katowice

unit: day

characteristic: age

text: ArrayExpress

characteristic: broker name

text: Sebastian

characteristic: cultivar

text: Protocols: For RNA seq analyses, plant tissue (2 cm long fragments of the second leaf located 3 cm below leaf tip) was collected in four biological replicates, each containing fragments from 4 seedlings of control and drought-stressed plants of both genotypes [here only drought-treated samples are deposited]. Tissue was immediately frozen in liquid nitrogen and stored in -80oC degrees Drought stress was applied according to the previously described protocol (Daszkowska-Golec et al., 2019). Briefly, plants were grown in a greenhouse for 10 days after sowing (DAS) under optimal water conditions (14% vwc), 20/18°C day/night, 16/8 photoperiod and 420 μE m−2 s−1 light intensity, in boxes (400 × 140 × 175 mm) filled with soil containing a mixture of sandy loam and sand (7:2) supplied with a nutrient medium. Next, the soil moisture was decreased by withholding the irrigation. On 15 DAS, the soil moisture decreased to 3%, and plants were moved into a growth chamber, where the temperature regime was set to 25°C/20°C day/night, with a 16/8 hr photoperiod and 420 μEm−2 s−1 light intensity (Figure 1A). The severe drought stress (3–1.5% vwc) was applied for the next 10 days (16–25 DAS). The control plants were grown under the same conditions with optimal water supply (14% vwc) parallel to the drought-treated plants. The soil moisture was measured daily using a Time-domain reflectometer EasyTest (Institute of Agrophysics, Polish Academy of Sciences, Poland). Drought stress was applied according to the previously described protocol (Daszkowska-Golec et al., 2019). Briefly, plants were grown in a greenhouse for 10 days after sowing (DAS) under optimal water conditions (14% vwc), 20/18°C day/night, 16/8 photoperiod and 420 μE m−2 s−1 light intensity, in boxes (400 × 140 × 175 mm) filled with soil containing a mixture of sandy loam and sand (7:2) supplied with a nutrient medium. Next, the soil moisture was decreased by withholding the irrigation. On 15 DAS, the soil moisture decreased to 3%, and plants were moved into a growth chamber, where the temperature regime was set to 25°C/20°C day/night, with a 16/8 hr photoperiod and 420 μEm−2 s−1 light intensity (Figure 1A). The severe drought stress (3–1.5% vwc) was applied for the next 10 days (16–25 DAS). The control plants were grown under the same conditions with optimal water supply (14% vwc) parallel to the drought-treated plants. The soil moisture was measured daily using a Time-domain reflectometer EasyTest (Institute of Agrophysics, Polish Academy of Sciences, Poland). RNA was extracted with the use of miRvana kit with phenol according to manufacturer’s protocol cDNA libraries were prepared following Illumina TruSeq standard procedures and eventually

text: seedling development stage

characteristic: developmental stage

text: drought environment

characteristic: envrionmental stress

characteristic: genotype

text: not applicable

characteristic: isolate

text: Hordeum vulgare

text: Hordeum vulgare

text: leaf

characteristic: organism part

text: Hordeum vulgare


text: Institute of Biology, Biotechnology and Environmental Protection, Faculty of Natural Sciences, University of Silesia in Katowice

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: Sebastian

text: seedling development stage

text: drought environment

text: not applicable

text: Hordeum vulgare

characteristic: organism

text: Hordeum vulgare

text: leaf

text: Hordeum vulgare


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: ArrayExpress

text: Sebastian

text: seedling development stage

text: drought environment

text: wild type genotype

text: not applicable

text: Hordeum vulgare

text: Hordeum vulgare

text: leaf

text: Hordeum vulgare

characteristic: title


text: Orebro University Hospital

characteristic: INSDC last update

text: public

tag: Namespace:Orebro University Hospital

text: not provided, Not provided, Not provided

characteristic: country

text: EuroGASP

text: Homo sapiens

characteristic: host

text: Yes

text: Neisseria gonorrhoeae

text: Neisseria gonorrhoeae


E-MTAB-12804:Sample 1

text: public

text: E-MTAB-12804:Sample 1

tag: Namespace:Institute of Biology, Biotechnology and Environmental Protection, University of Silesia in Katowice

characteristic: age

text: ArrayExpress

characteristic: broker name

text: Sebastian

characteristic: cultivar

text: Protocols: For RNA seq analyses, plant tissue (2 cm long fragments of the second leaf located 3 cm below leaf tip) was collected in four biological replicates, each containing fragments from 4 seedlings of control and drought-stressed plants of both genotypes [here only drought-treated samples are deposited]. Tissue was immediately frozen in liquid nitrogen and stored in -80oC degrees Plants were grown in a greenhouse for 10 days after sowing (DAS) under optimal water conditions (14% vwc), 20/18°C day/night, 16/8 photoperiod and 420 μE m−2 s−1 light intensity, in boxes (400 × 140 × 175 mm) filled with soil containing a mixture of sandy loam and sand (7:2) supplied with a nutrient medium. On 15 DAS, plants were moved into a growth chamber, where the temperature regime was set to 25°C/20°C day/night, with a 16/8 hr photoperiod and 420 μEm−2 s−1 light intensity RNA was extracted with the use of miRvana kit with phenol according to manufacturer’s protocol cDNA libraries were prepared following Illumina TruSeq standard procedures and eventually sequenced in an Illumina NovaSeq6000 sequencer, producing 2x150 bp paired-end reads.

characteristic: description

text: seedling development stage

characteristic: developmental stage

characteristic: genotype

text: not applicable

text: Hordeum vulgare

text: Hordeum vulgare

text: leaf

text: Hordeum vulgare

text: Sample 1


E-MTAB-12804:Sample 2

text: Institute of Biology, Biotechnology and Environmental Protection, University of Silesia in Katowice

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12804:Sample 2

text: ArrayExpress

text: Sebastian

text: seedling development stage

text: not applicable

characteristic: isolate

text: Hordeum vulgare

text: Hordeum vulgare

text: leaf

characteristic: organism part

text: Hordeum vulgare

text: Sample 2


E-MTAB-12804:Sample 3

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: E-MTAB-12804:Sample 3

characteristic: Submitter Id

text: ArrayExpress

text: Sebastian

text: seedling development stage

text: not applicable

text: Hordeum vulgare

characteristic: organism

text: Hordeum vulgare

text: leaf

text: Hordeum vulgare

text: Sample 3


E-MTAB-12804:Sample 4

characteristic: INSDC last update

text: public

text: E-MTAB-12804:Sample 4

characteristic: age

text: ArrayExpress

characteristic: broker name

text: Sebastian

text: seedling development stage

text: not applicable

text: Hordeum vulgare

text: Hordeum vulgare

text: leaf

text: Hordeum vulgare

text: Sample 4

characteristic: title


E-MTAB-12804:Sample 5

text: public

text: E-MTAB-12804:Sample 5

text: ArrayExpress

text: Sebastian

characteristic: cultivar

characteristic: description

text: seedling development stage

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: not applicable

text: Hordeum vulgare

text: Hordeum vulgare

text: leaf

text: Hordeum vulgare

text: Sample 5


E-MTAB-12804:Sample 6

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12804:Sample 6

text: ArrayExpress

text: Sebastian

text: seedling development stage

text: wild type genotype

text: not applicable

text: Hordeum vulgare

text: Hordeum vulgare

text: leaf

text: Hordeum vulgare

text: Sample 6


E-MTAB-12804:Sample 7

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-12804:Sample 7

text: ArrayExpress

text: Sebastian

text: seedling development stage

text: wild type genotype

text: not applicable

characteristic: isolate

text: Hordeum vulgare

text: Hordeum vulgare

text: leaf

characteristic: organism part

text: Hordeum vulgare

text: Sample 7


E-MTAB-12804:Sample 8

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: E-MTAB-12804:Sample 8

characteristic: Submitter Id

text: ArrayExpress

text: Sebastian

text: seedling development stage

text: wild type genotype

text: not applicable

text: Hordeum vulgare

characteristic: organism

text: Hordeum vulgare

text: leaf

text: Hordeum vulgare

text: Sample 8


text: Shanghai Tenth People's Hospital

characteristic: INSDC last update

text: public

tag: Namespace:Shanghai Tenth People's Hospital

text: ArrayExpress

characteristic: broker name

text: Protocols: Strains were maintained at -80˚C. Strains were streaked on YPD plates. The plates were incubated at 37˚C overnight. Then several colonies were picked up and suspended in DDW. Cell density was adjusted to 10,000 cells/ml, then 100µl of cell suspension was plated on YPD plates. The plates were incubated at 37˚C overnight. Colonies were picked up and suspended in DDW, then cell pellets were obtained by centrifuging at highest speed for 1min. We used the phenol-chloroform method to extract Genomic DNA. Cell pellets were suspended in 200µl of lysis buffer, add 100µl of acid washed glass beads, and 0,2ml phenol:chloroform:isoamyl alcohol (25:24:1). Vortex for 30min at 4˚C. Add 200µl TE pH7.5. Centrifuge for 5min at maximum speed. Transfer aqueous layer to a new 1.5ml EP tube. Add 1ml 100% ethanol. Precipitate 1h at -20˚C. Pellet DNA by centrifuging for 10min at maximum speed. Discard the supernatant. Add 400µl TE pH 7.5. Add 3ul of RNase A (10mg/ml). Incubate at 37˚C for 30min. Add 10µl of 3M NaOAc and 1ml of 100% ethanol. Mix by inversion. Precipitate 30min at -20˚C. Pellet DNA by centrifuging for 10min at maximum speed. Discard supernatant. Air-dry the pellet overnight. Resuspend in 50µl water. 1µg Genomic DNA was randomly fragmented by Covaris, followed by fragments selection by Agencourt AMPure XP-Medium kit to an average size of 200~400 bp. Selected fragments were end repaired and 3\"adenylate, then the adaptors were ligated to the end of these 3\"adenylate fragments. The products were amplified by PCR and purified by the Agencourt AMPure XP-Medium kit. The purified double stranded PCR products were heat denatured to single strand, then circularised by the splint oligo sequence. The single strand circle DNA (ssCirDNA) were formatted as the final library and qualified by QC.

text: wild type genotype

text: not applicable

text: Candida albicans

text: Candida albicans

text: whole organism

text: Candida albicans

characteristic: strain

characteristic: title


text: Shanghai Tenth People's Hospital

text: public

text: ArrayExpress

characteristic: description

characteristic: genotype

text: not applicable

text: Candida albicans

text: Candida albicans

text: whole organism

text: Candida albicans


characteristic: INSDC center name

characteristic: INSDC first public

text: public

tag: Namespace:University of Melbourne/ Florey institute of neuroscience and mental health

text: house mouse

characteristic: common name

text: Mus musculus

text: Mus musculus


tag: attribute

characteristic: ENA-CHECKLIST

text: University of Melbourne/ Florey institute of neuroscience and mental health

text: public

characteristic: INSDC status

characteristic: SRA accession

text: house mouse

text: Mus musculus

text: Mus musculus


name: SAMIN0000673-Transcriptome analysis of Dunaliella salina under optimum conditions - Control

characteristic: ENA-FIRST-PUBLIC

text: University of Hyderabad

text: public

tag: Namespace:University of Hyderabad

text: IBDC

text: Understanding the molecular mechanisms of environmental salinity stress tolerance and acclimation strategies by photosynthetic organisms facilitates accelerating the genetic improvement of tolerant economically important crops

text: Dunaliella salina

text: Dunaliella salina

text: CCAP 19/18


name: SAMIN0000674-Transcriptome analysis of Dunaliella salina under hypersaline - Treatment

characteristic: ENA-LAST-UPDATE

text: University of Hyderabad

text: public

text: IBDC

text: Dunaliella salina

text: Dunaliella salina

text: CCAP 19/18


characteristic: External Id

text: Orebro University Hospital

text: public

characteristic: country

text: Homo sapiens

characteristic: host

text: Yes

text: Neisseria gonorrhoeae

text: Neisseria gonorrhoeae


text: NTNU

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Salmo salar yolk sac fry

characteristic: broad-scale environmental context

characteristic: collection date

text: Atlantic salmon yolk sac fry raised in cell culture flasks, 44 DPI, Water sample

text: Fresh water

characteristic: environmental medium

text: Norway

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Water sample

characteristic: local environmental context

text: freshwater metagenome

characteristic: organism

characteristic: project name

text: freshwater metagenome

text: Illumina

characteristic: sequencing method


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: NTNU

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Salmo salar yolk sac fry

text: Atlantic salmon yolk sac fry raised in cell culture flasks, 45 DPI, Water sample

characteristic: description

text: Fresh water

text: Norway

text: Water sample

text: freshwater metagenome

text: freshwater metagenome

text: Illumina

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: NTNU

characteristic: INSDC last update

text: public

characteristic: Submitter Id

text: Salmo salar yolk sac fry

characteristic: broad-scale environmental context

characteristic: collection date

text: Atlantic salmon yolk sac fry raised in cell culture flasks, 46 DPI, Water sample

text: Fresh water

text: Norway

text: Water sample

text: freshwater metagenome

text: freshwater metagenome

text: Illumina


text: NTNU

text: public

text: Salmo salar yolk sac fry

text: Atlantic salmon yolk sac fry raised in cell culture flasks, 54 DPI, Water sample

text: Fresh water

characteristic: environmental medium

text: Norway

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Water sample

characteristic: local environmental context

text: freshwater metagenome

characteristic: organism

text: freshwater metagenome

text: Illumina


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CARDIFF UNIVERSITY

characteristic: INSDC center name

characteristic: INSDC first public

text: public

tag: Namespace:CARDIFF UNIVERSITY

text: 8 to 12

unit: week

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

text: Protocols: Wound tissue dissected from 2 mice (8 wounds in total, 4 wounds per mouse) to generate one sample were snap frozen in liquid N2 before being stored at -80 0C. For WT and Alox15-/- a total of four samples were generated at each timepoint Wounds were placed frozen into a pre-cooled pestle and mortar, then ground into a fine powder with liquid N2 added. Tri reagent (1 ml, Sigma-Aldrich, UK) was added. The sample was then transferred to RNAse-free tubes and bromochloropropane (200 µl, Sigma-Aldrich, UK) added before vortexing. Samples were placed on ice for 5 min, before being centrifuged at 15,000 g for 15 min at 4 oC. The upper aqueous phase was transferred to a new tube and 250 µl of 3 M sodium acetate (pH 5.5), 700 µl (100 %) propanol and 10 µl glycogen added, before incubation at -80 0C overnight. Samples were centrifuged at 15,000 g for 15 min at 40 C to pellet the RNA. The pellet was washed 3 times using 70 % ethanol, then allowed to air dry for 5 min. RNAse free water (50 µl) was added. Samples were cleaned using an RNeasy MinElute Cleanup Kit (Catalogue number 74204 Qiagen, MD, USA), using a column based clean up step. Sample (1 µl) was analysed using a NanoDrop™ 2000/2000c Spectrophotometer (ThermoFisher Scientific, Newport UK), and to ensure samples were free of contamination. All samples had absorbance 260/230 ratios of between 1.7 and 2.0, and 260/280 values between 1.8 to 2.1. Each RNA sample (5ul) was used to determine RNA integrity analysis (RIN) Total RNA quality was assessed using the Agilent 4200 TapeStation with RNA ScreenTape® (Agilent Technologies) and quantity with the Invitrogen™ Qubit-iT™ RNA HS Assay Kit (Fisher Scientific) according to the manufacturer’s instructions. Libraries were prepared from 300ng of total RNA with a RIN value > 7. Total RNA was depleted of ribosomal RNA and sequencing libraries prepared with the Illumina®TruSeq Stranded Total RNA Library Prep Gold (Illumina, Inc) kit using TruSeq CD Index Adapters1 (Illumina, Inc). The steps included the depletion of cytoplasmic and mitochondrial rRNA, depleted RNA fragmentation, 1st strand cDNA synthesis, 2nd strand cDNA synthesis, adenylation of 3’ ends, adapter ligation, DNA fragment enrichment by PCR amplification (10-cycles) and validation. The manufacturer’s instructions were followed except for the cleanup after the ribozero depletion step where Ampure®XP beads (Beckman Coulter) and 80% Ethanol were used. The libraries were validated using the Agilent 4200 TapeStation® with high-sensitivity D1000 ScreenTape® (Agilent Technologies) to ascertain the insert size, and the Invitrogen™ Qubit™ dsDNA HS Assay Kit (Fisher Scientific) used to perform the fluorometric quantitation. Following validation, the libraries were normalized to 4 nM, pooled together and clustered on the cBot™2 (Illumina, Inc) following the manufacturer’s recommendations.

text: adult

characteristic: developmental stage

text: Alox15 -/-

characteristic: genotype

text: skin punch biopsy

characteristic: injury

text: not applicable

characteristic: isolate

text: Mus musculus

text: Mus musculus

text: skin of body

characteristic: organism part

text: Mus musculus

text: male

characteristic: sex

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CARDIFF UNIVERSITY

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: 8 to 12

text: ArrayExpress

text: house mouse

characteristic: description

text: adult

text: wild type genotype

text: skin punch biopsy

text: not applicable

text: Mus musculus

text: Mus musculus

text: skin of body

text: Mus musculus

text: male

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIST

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ena-SAMPLE-TAB-18-04-2023-06:45:34:337-17696

text: fruit fly

text: DGRP Line 370 Male Group Housing Rep1

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: male

text: Head

text: DGRP Line 370 Male Group Rep1


text: UNIST

text: public

text: ena-SAMPLE-TAB-18-04-2023-06:45:34:337-17697

text: fruit fly

characteristic: common name

text: DGRP Line 370 Male Group Housing Rep2

text: Drosophila melanogaster

text: Drosophila melanogaster

text: male

text: Head

text: DGRP Line 370 Male Group Rep2


text: UNIST

text: public

text: ena-SAMPLE-TAB-18-04-2023-06:45:34:337-17698

text: fruit fly

text: DGRP Line 370 Male Isolated Housing Rep1

text: Drosophila melanogaster

text: Drosophila melanogaster

text: male

text: Head

text: DGRP Line 370 Male Isolated Rep1


text: UNIST

text: public

text: ena-SAMPLE-TAB-18-04-2023-06:45:34:337-17699

text: fruit fly

text: DGRP Line 370 Male Isolated Housing Rep2

text: Drosophila melanogaster

text: Drosophila melanogaster

text: male

text: Head

text: DGRP Line 370 Male Isolated Rep2


text: public

tag: Namespace:Key Laboratory of Environmental and Applied Microbiology, CAS

text: animal

characteristic: broad-scale environmental context

characteristic: collection date

text: intestinal contents

characteristic: environmental medium

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: gut

characteristic: local environmental context

text: gut metagenome

text: fecal

characteristic: project name

text: gut metagenome

text: gut


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Key Laboratory of Environmental and Applied Microbiology, CAS

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: animal

text: intestinal contents

text: China

text: gut

text: gut metagenome

text: fecal

text: gut metagenome

text: gut


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: GSC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: lake water metagenome

text: lake water metagenome

text: Illumina sequencing of the 18S_V4 region (primers : 18S V4F515F/V4R951)

characteristic: title


text: GSC

text: public

text: sample_CEB_32644_Microstore-Tem-neg-PCR1

text: unidentified

characteristic: organism

text: unidentified


text: GSC

text: public

text: sample_CEB_32644_Microstore-Tem-neg-PCR2

text: unidentified

text: unidentified


text: GSC

text: public

text: lake water metagenome

text: lake water metagenome


text: Luxembourg Institute of Health

text: public

tag: Namespace:Luxembourg Institute of Health

characteristic: collection date

text: house mouse

characteristic: common name

text: Colon transcriptome of 15 day-old pup of 13SM colonised dam fed fiber-rich diet

characteristic: description

text: Luxembourg

characteristic: geographic location (country and/or sea)

text: Mus musculus

text: Mus musculus

text: Maternal gut microbiome composition and diet modulate early life immune development


text: Luxembourg Institute of Health

text: public

text: house mouse

text: Microbiome (16S rDNA) of 20 day-old pup of 13SM colonised dam fed FR diet

text: Luxembourg

text: Mus musculus

text: Mus musculus


text: Luxembourg Institute of Health

text: public

text: house mouse

text: Microbiome (16S rDNA) of 25 day-old pup of 13SM colonised dam fed FR diet

text: Luxembourg

text: Mus musculus

text: Mus musculus


text: Luxembourg Institute of Health

text: public

text: house mouse

text: Microbiome (16S rDNA) of 30 day-old pup of 13SM colonised dam fed FR diet

text: Luxembourg

text: Mus musculus

text: Mus musculus


text: UPPSALA UNIVERSITET

text: public

tag: Namespace:UPPSALA UNIVERSITET

text: sheep

text: Sheep humerus excavated in Kastelholm

text: 60.23, 20.08

text: Ovis aries

text: Ovis aries


text: UPPSALA UNIVERSITET

text: public

text: sheep

text: Sheep humerus excavated in Stora Förvar

text: 57.29, 17.97

text: Ovis aries

text: Ovis aries


text: Streptococcus pneumoniae

characteristic: ArrayExpress-SPECIES

text: SC

text: public

text: Streptococcus pneumoniae

text: Streptococcus pneumoniae

text: Streptococcus pneumoniae


characteristic: ENA-LAST-UPDATE

text: University Hospital Basel

text: public

tag: Namespace:University Hospital Basel

text: human

text: Homo sapiens

text: Homo sapiens


characteristic: External Id

text: public

tag: Namespace:Department of Molecular Microbiology John Innes Centre

text: ArrayExpress

characteristic: broker name

text: human

text: Protocols: Overnight grown LB liquid cultures were centrifuged to harvest the bacterial cells. The GenElute™ Bacterial Genomic DNA Kit (Sigma-Aldrich, USA) was used according to the manufacturer's instructions to extract DNA. Library construction was done by tagmentation using the Nextera tagmentaion kit.

text: wild type genotype

characteristic: genotype

text: rhizospheres of Chevallier and Tipple barley strains

characteristic: growth condition

text: Homo sapiens

text: Homo sapiens

text: whole organism

characteristic: organism part

text: Homo sapiens

characteristic: strain


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

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

text: human

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: whole organism

text: Homo sapiens


text: Wellcome Sanger Institute

characteristic: INSDC center name

characteristic: INSDC first public

text: public

tag: Namespace:Wellcome Sanger Institute

text: 55 to 60

characteristic: age

text: ArrayExpress

text: human

characteristic: common name

text: Protocols: Hearts were acquired after circulatory death (DCD) or after brain death (DBD). For DCD donors after confirmation of death there was a mandatory five-minute stand-off prior to sternotomy. In all cases the aorta was cross-clamped and cold cardioplegia solution was administered to the aortic root prior to cardiotomy. AV1, AV3, AV10, AV13 and AV14 were procured in the standard fashion and then immediately preserved with and transported on a hypothermic perfusion machine. AH2 was similarly preserved, but with immediate normothermic perfusion. It then underwent 4 hours of normothermic perfusion before samples were taken. For single nuclei sequencing, all donor samples were full-thickness myocardial tissues from the SAN, AVN, left and right atrium, left and right ventricles, interventricular septum and apex. Single nuclei were obtained from flash-frozen tissues using sectioning and mechanical homogenization. 5-10 mm thickness frozen tissues were first sectioned with cryostat in a 50 μm thickness section. All sections from each sample were homogenised using a 7 ml glass Dounce tissue grinder set (Merck) with 8–10 strokes of a loose pestle (A) and 8–10 strokes of a tight pestle (B) in homogenization buffer (250 mM sucrose, 25 mM KCl, 5 mM MgCl2, 10 mM Tris-HCl, 1 mM dithiothreitol (DTT), 1× protease inhibitor, 0.4 U μl−1 RNaseIn, 0.2 U μl−1 SUPERaseIn, 0.1% Triton X-100 in nuclease-free water). Homogenate was filtered through a 40-μm cell strainer (Corning). After centrifugation (500g, 5 min, 4 °C) the supernatant was removed and the pellet was resuspended in storage buffer (1× PBS, 4% bovine serum albumin (BSA), 0.2U μl−1 Protector RNaseIn). Nuclei were stained with 7-AAD Viability Staining Solution (BioLegend) and positive single nuclei were purified by fluorescent activated cell sorting (FACS) using MA900 Multi-Application Cell Sorter (Sony). Nuclei were further processed for 10x multiome paired RNA and ATACseq using the Chromium Controller (10X Genomics) according to the manufacturer’s protocol. cDNA library preparation was were carried out according to the manufacturer’s protocol.

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: wild type genotype

characteristic: individual

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: heart left ventricle

text: Homo sapiens

text: Male

characteristic: sex

characteristic: title