text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

text: JOAQUIM GOES

text: COLUMBIA UNIVERSITY

characteristic: completeness software

characteristic: contamination score

text: protist culture

text: Oman

text: Bandar Al Khairan

text: Coastal ocean

text: not provided

text: Noctiluca scintillans

characteristic: host taxid

text: JOAQUIM GOES | SENJIE LIN

characteristic: identified by

text: metagenome-assembled genome

characteristic: investigation type

text: Protist: Noctiluca scintillans

text: ocean

characteristic: local environmental context

text: protist metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Algiphilus sp.

characteristic: organism

text: **OTHER SOMATIC ANIMAL TISSUE**

characteristic: organism part

text: ASG

characteristic: project name

text: Endosymbiont

characteristic: sample derived from

text: uncultured Algiphilus sp.

text: Pacbio Sequel II

characteristic: sequencing method

characteristic: specimen id

text: N

text: PROKKA (version 1.14.5)

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: 1e278958-a431-4333-85d0-ab31df96b810-asg-MAGScoT_cleanbin_000012


status: PUBLIC

text: Yes

tag: attribute

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

tag: Namespace:Tree of Life Programme

characteristic: Submitter Id

text: Single contiguous sequence without gaps or ambiguities with a consensus error rate equivalent to Q50 or better

characteristic: assembly quality

text: Hifiasm-Meta (version 0.3-r061); Hifiasm (version 0.13-r308)

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

text: MAGScoT (version 1.0.0); MetaBat (version 2.15-15-gd6ea400); bin3C (version 0.3.3); MaxBin (version 2.7); MetaTOR

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: JOAQUIM GOES

characteristic: collected by

text: COLUMBIA UNIVERSITY

characteristic: collecting institution

characteristic: collection date

characteristic: completeness score

text: checkM (version 1.2.1); checkM_DB (release 2015-01-16)

unit: m

characteristic: depth

text: protist culture

characteristic: environmental medium

text: Oman

characteristic: geographic location (country and/or sea)

unit: DD

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Bandar Al Khairan

characteristic: geographic location (region and locality)

text: Coastal ocean

characteristic: habitat

text: not provided

characteristic: host life stage

text: Noctiluca scintillans

characteristic: host scientific name

text: JOAQUIM GOES | SENJIE LIN

text: COLUMBIA UNIVERSITY | UNIVERSITY OF CONNECTICUT

text: metagenome-assembled genome

text: Protist: Noctiluca scintillans

text: ocean

text: protist metagenome

text: uncultured Balneola sp.

text: **OTHER SOMATIC ANIMAL TISSUE**

text: ASG

text: Endosymbiont

characteristic: relationship

text: uncultured Balneola sp.

text: Pacbio Sequel II

text: N

characteristic: symbiont

text: PROKKA (version 1.14.5)

text: GTDB-TK (version 2.1.1); GTDB (release 207_v2)

text: taxonomic classification defined by topology and ANI

text: 4e734951-4aa5-40db-9b45-5208b6983269-asg-MAGScoT_cleanbin_000021


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

text: JOAQUIM GOES

text: COLUMBIA UNIVERSITY

characteristic: completeness software

characteristic: contamination score

text: protist culture

text: Oman

text: Bandar Al Khairan

text: Coastal ocean

text: not provided

text: Noctiluca scintillans

characteristic: host taxid

text: JOAQUIM GOES | SENJIE LIN

characteristic: identified by

text: metagenome-assembled genome

characteristic: investigation type

text: Protist: Noctiluca scintillans

text: ocean

characteristic: local environmental context

text: protist metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Bythopirellula sp.

characteristic: organism

text: **OTHER SOMATIC ANIMAL TISSUE**

characteristic: organism part

text: ASG

characteristic: project name

text: Endosymbiont

characteristic: sample derived from

text: uncultured Bythopirellula sp.

text: Pacbio Sequel II

characteristic: sequencing method

characteristic: specimen id

text: N

text: PROKKA (version 1.14.5)

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: ANI

text: cbae0062-da50-4e91-914f-fcb93d8f2564-asg-MAGScoT_cleanbin_000032


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: JOAQUIM GOES

characteristic: collected by

text: COLUMBIA UNIVERSITY

characteristic: collecting institution

characteristic: collection date

characteristic: completeness score

characteristic: depth

text: protist culture

characteristic: environmental medium

text: Oman

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Bandar Al Khairan

characteristic: geographic location (region and locality)

text: Coastal ocean

characteristic: habitat

text: not provided

characteristic: host life stage

text: Noctiluca scintillans

characteristic: host scientific name

text: JOAQUIM GOES | SENJIE LIN

text: metagenome-assembled genome

text: Protist: Noctiluca scintillans

text: ocean

text: protist metagenome

text: uncultured Candidatus Neptunochlamydia sp.

text: **OTHER SOMATIC ANIMAL TISSUE**

text: ASG

text: Endosymbiont

characteristic: relationship

text: Pacbio Sequel II

text: N

characteristic: symbiont

text: PROKKA (version 1.14.5)

text: 82f4331e-7d70-45c7-852b-c45dac674a05-asg-MAGScoT_cleanbin_000034

text: pyNocScin1.Candidatus_Neptunochlamydia_sp_1


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

text: JOAQUIM GOES

text: COLUMBIA UNIVERSITY

characteristic: completeness software

characteristic: contamination score

text: protist culture

text: Oman

text: Bandar Al Khairan

text: Coastal ocean

text: not provided

text: Noctiluca scintillans

characteristic: host taxid

text: JOAQUIM GOES | SENJIE LIN

characteristic: identified by

text: metagenome-assembled genome

characteristic: investigation type

text: Protist: Noctiluca scintillans

text: ocean

characteristic: local environmental context

text: protist metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Coraliomargarita sp.

characteristic: organism

text: **OTHER SOMATIC ANIMAL TISSUE**

characteristic: organism part

text: ASG

characteristic: project name

text: Endosymbiont

characteristic: sample derived from

text: uncultured Coraliomargarita sp.

text: Pacbio Sequel II

characteristic: sequencing method

characteristic: specimen id

text: N

text: PROKKA (version 1.14.5)

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: 5ed624b4-afd3-4d01-a3b1-a0d4b4f792fb-asg-MAGScoT_cleanbin_000028


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: JOAQUIM GOES

characteristic: collected by

text: COLUMBIA UNIVERSITY

characteristic: collecting institution

characteristic: collection date

characteristic: completeness score

characteristic: depth

text: protist culture

characteristic: environmental medium

text: Oman

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Bandar Al Khairan

characteristic: geographic location (region and locality)

text: Coastal ocean

characteristic: habitat

text: not provided

characteristic: host life stage

text: Noctiluca scintillans

characteristic: host scientific name

text: JOAQUIM GOES | SENJIE LIN

text: metagenome-assembled genome

text: Protist: Noctiluca scintillans

text: ocean

text: protist metagenome

text: uncultured Erythrobacter sp.

text: **OTHER SOMATIC ANIMAL TISSUE**

text: ASG

text: Endosymbiont

characteristic: relationship

text: uncultured Erythrobacter sp.

text: Pacbio Sequel II

text: N

characteristic: symbiont

text: PROKKA (version 1.14.5)

text: ANI

text: 0f1e717d-acef-4bfc-8787-64c51f2bd7c5-asg-MAGScoT_cleanbin_000008


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

text: JOAQUIM GOES

text: COLUMBIA UNIVERSITY

characteristic: completeness software

characteristic: contamination score

text: protist culture

text: Oman

text: Bandar Al Khairan

text: Coastal ocean

text: not provided

text: Noctiluca scintillans

characteristic: host taxid

text: JOAQUIM GOES | SENJIE LIN

characteristic: identified by

text: metagenome-assembled genome

characteristic: investigation type

text: Protist: Noctiluca scintillans

text: ocean

characteristic: local environmental context

text: protist metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Gilvibacter sp.

characteristic: organism

text: **OTHER SOMATIC ANIMAL TISSUE**

characteristic: organism part

text: ASG

characteristic: project name

text: Endosymbiont

characteristic: sample derived from

text: uncultured Gilvibacter sp.

text: Pacbio Sequel II

characteristic: sequencing method

characteristic: specimen id

text: N

text: PROKKA (version 1.14.5)

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: c1f4f319-9428-4c17-89df-66ef749ad341-asg-MAGScoT_cleanbin_000019


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: JOAQUIM GOES

characteristic: collected by

text: COLUMBIA UNIVERSITY

characteristic: collecting institution

characteristic: collection date

characteristic: completeness score

characteristic: depth

text: protist culture

characteristic: environmental medium

text: Oman

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Bandar Al Khairan

characteristic: geographic location (region and locality)

text: Coastal ocean

characteristic: habitat

text: not provided

characteristic: host life stage

text: Noctiluca scintillans

characteristic: host scientific name

text: JOAQUIM GOES | SENJIE LIN

text: metagenome-assembled genome

text: Protist: Noctiluca scintillans

text: ocean

text: protist metagenome

text: uncultured Henriciella sp.

text: **OTHER SOMATIC ANIMAL TISSUE**

text: ASG

text: Endosymbiont

characteristic: relationship

text: uncultured Henriciella sp.

text: Pacbio Sequel II

text: N

characteristic: symbiont

text: PROKKA (version 1.14.5)

text: e189a861-b7a1-4e33-8f25-91a900d50aef-asg-MAGScoT_cleanbin_000001


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

text: JOAQUIM GOES

text: COLUMBIA UNIVERSITY

characteristic: completeness software

characteristic: contamination score

text: protist culture

text: Oman

text: Bandar Al Khairan

text: Coastal ocean

text: not provided

text: Noctiluca scintillans

characteristic: host taxid

text: JOAQUIM GOES | SENJIE LIN

characteristic: identified by

text: metagenome-assembled genome

characteristic: investigation type

text: Protist: Noctiluca scintillans

text: ocean

characteristic: local environmental context

text: protist metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Hyphobacterium sp.

characteristic: organism

text: **OTHER SOMATIC ANIMAL TISSUE**

characteristic: organism part

text: ASG

characteristic: project name

text: Endosymbiont

characteristic: sample derived from

text: uncultured Hyphobacterium sp.

text: Pacbio Sequel II

characteristic: sequencing method

characteristic: specimen id

text: N

text: PROKKA (version 1.14.5)

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: 6089d609-16f9-4217-9451-1b5f80113935-asg-MAGScoT_cleanbin_000023


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

text: Single contiguous sequence without gaps or ambiguities with a consensus error rate equivalent to Q50 or better

characteristic: assembly quality

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: JOAQUIM GOES

characteristic: collected by

text: COLUMBIA UNIVERSITY

characteristic: collecting institution

characteristic: collection date

characteristic: completeness score

characteristic: depth

text: protist culture

characteristic: environmental medium

text: Oman

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Bandar Al Khairan

characteristic: geographic location (region and locality)

text: Coastal ocean

characteristic: habitat

text: not provided

characteristic: host life stage

text: Noctiluca scintillans

characteristic: host scientific name

text: JOAQUIM GOES | SENJIE LIN

text: metagenome-assembled genome

text: Protist: Noctiluca scintillans

text: ocean

text: protist metagenome

text: uncultured Labrenzia sp.

text: **OTHER SOMATIC ANIMAL TISSUE**

text: ASG

text: Endosymbiont

characteristic: relationship

text: uncultured Labrenzia sp.

text: Pacbio Sequel II

text: N

characteristic: symbiont

text: PROKKA (version 1.14.5)

text: 82b0bddf-abea-4ba9-b35d-ad7a9e1d5c78-asg-MAGScoT_cleanbin_000014


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: Hifiasm-Meta (version 0.3-r061); Hifiasm (version 0.13-r308)

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

text: MAGScoT (version 1.0.0); MetaBat (version 2.15-15-gd6ea400); bin3C (version 0.3.3); MaxBin (version 2.7); MetaTOR

characteristic: binning software

text: aquatic biome

text: JOAQUIM GOES

text: COLUMBIA UNIVERSITY

characteristic: completeness software

characteristic: contamination score

text: protist culture

text: Oman

text: Bandar Al Khairan

text: Coastal ocean

text: not provided

text: Noctiluca scintillans

characteristic: host taxid

text: JOAQUIM GOES | SENJIE LIN

characteristic: identified by

text: metagenome-assembled genome

characteristic: investigation type

text: Protist: Noctiluca scintillans

text: ocean

characteristic: local environmental context

text: protist metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Maricaulis sp.

characteristic: organism

text: **OTHER SOMATIC ANIMAL TISSUE**

characteristic: organism part

text: ASG

characteristic: project name

text: Endosymbiont

characteristic: sample derived from

text: uncultured Maricaulis sp.

text: Pacbio Sequel II

characteristic: sequencing method

characteristic: specimen id

text: N

text: PROKKA (version 1.14.5)

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: 29463d0b-82d5-4fa6-9fdf-1ef707fa354f-asg-MAGScoT_cleanbin_000004


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: JOAQUIM GOES

characteristic: collected by

text: COLUMBIA UNIVERSITY

characteristic: collecting institution

characteristic: collection date

characteristic: completeness score

text: checkM (version 1.2.1); checkM_DB (release 2015-01-16)

characteristic: depth

text: protist culture

characteristic: environmental medium

text: Oman

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Bandar Al Khairan

characteristic: geographic location (region and locality)

text: Coastal ocean

characteristic: habitat

text: not provided

characteristic: host life stage

text: Noctiluca scintillans

characteristic: host scientific name

text: JOAQUIM GOES | SENJIE LIN

text: COLUMBIA UNIVERSITY | UNIVERSITY OF CONNECTICUT

text: metagenome-assembled genome

text: Protist: Noctiluca scintillans

text: ocean

text: protist metagenome

text: uncultured Marivita sp.

text: **OTHER SOMATIC ANIMAL TISSUE**

text: ASG

text: Endosymbiont

characteristic: relationship

text: uncultured Marivita sp.

text: Pacbio Sequel II

text: N

characteristic: symbiont

text: PROKKA (version 1.14.5)

text: GTDB-TK (version 2.1.1); GTDB (release 207_v2)

text: 124b12d3-7836-45d0-8b83-e5fa7ed75128-asg-MAGScoT_cleanbin_000018


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

text: JOAQUIM GOES

text: COLUMBIA UNIVERSITY

characteristic: completeness software

characteristic: contamination score

text: protist culture

text: Oman

text: Bandar Al Khairan

text: Coastal ocean

text: not provided

text: Noctiluca scintillans

characteristic: host taxid

text: JOAQUIM GOES | SENJIE LIN

characteristic: identified by

text: metagenome-assembled genome

characteristic: investigation type

text: Protist: Noctiluca scintillans

text: ocean

characteristic: local environmental context

text: protist metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Methylophaga sp.

characteristic: organism

text: **OTHER SOMATIC ANIMAL TISSUE**

characteristic: organism part

text: ASG

characteristic: project name

text: Endosymbiont

characteristic: sample derived from

text: uncultured Methylophaga sp.

text: Pacbio Sequel II

characteristic: sequencing method

characteristic: specimen id

text: N

text: PROKKA (version 1.14.5)

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: 29b13962-5199-4abd-adbc-644fe8bac35b-asg-MAGScoT_cleanbin_000002


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: JOAQUIM GOES

characteristic: collected by

text: COLUMBIA UNIVERSITY

characteristic: collecting institution

characteristic: collection date

characteristic: completeness score

characteristic: depth

text: protist culture

characteristic: environmental medium

text: Oman

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Bandar Al Khairan

characteristic: geographic location (region and locality)

text: Coastal ocean

characteristic: habitat

text: not provided

characteristic: host life stage

text: Noctiluca scintillans

characteristic: host scientific name

text: JOAQUIM GOES | SENJIE LIN

text: metagenome-assembled genome

text: Protist: Noctiluca scintillans

text: ocean

text: protist metagenome

text: uncultured Allomuricauda sp.

text: **OTHER SOMATIC ANIMAL TISSUE**

text: ASG

text: Endosymbiont

characteristic: relationship

text: uncultured Allomuricauda sp.

text: Pacbio Sequel II

text: N

characteristic: symbiont

text: PROKKA (version 1.14.5)

text: taxonomic classification defined by topology and ANI

text: 0b114a7f-7aff-4a9d-8119-999fbbf9f4a8-asg-MAGScoT_cleanbin_000007


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

text: JOAQUIM GOES

text: COLUMBIA UNIVERSITY

characteristic: completeness software

characteristic: contamination score

text: protist culture

text: Oman

text: Bandar Al Khairan

text: Coastal ocean

text: not provided

text: Noctiluca scintillans

characteristic: host taxid

text: JOAQUIM GOES | SENJIE LIN

characteristic: identified by

text: metagenome-assembled genome

characteristic: investigation type

text: Protist: Noctiluca scintillans

text: ocean

characteristic: local environmental context

text: protist metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Nioella sp.

characteristic: organism

text: **OTHER SOMATIC ANIMAL TISSUE**

characteristic: organism part

text: ASG

characteristic: project name

text: Endosymbiont

characteristic: sample derived from

text: uncultured Nioella sp.

text: Pacbio Sequel II

characteristic: sequencing method

characteristic: specimen id

text: N

text: PROKKA (version 1.14.5)

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: 18a6cb6d-becc-4402-9610-0c60d1530d69-asg-MAGScoT_cleanbin_000015


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: JOAQUIM GOES

characteristic: collected by

text: COLUMBIA UNIVERSITY

characteristic: collecting institution

characteristic: collection date

characteristic: completeness score

characteristic: depth

text: protist culture

characteristic: environmental medium

text: Oman

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Bandar Al Khairan

characteristic: geographic location (region and locality)

text: Coastal ocean

characteristic: habitat

text: not provided

characteristic: host life stage

text: Noctiluca scintillans

characteristic: host scientific name

text: JOAQUIM GOES | SENJIE LIN

text: metagenome-assembled genome

text: Protist: Noctiluca scintillans

text: ocean

text: protist metagenome

text: uncultured Pseudohongiella sp.

text: **OTHER SOMATIC ANIMAL TISSUE**

text: ASG

text: Endosymbiont

characteristic: relationship

text: uncultured Pseudohongiella sp.

text: Pacbio Sequel II

text: N

characteristic: symbiont

text: PROKKA (version 1.14.5)

text: ANI

text: 2178906c-86c6-4142-9643-b81ba60d889a-asg-MAGScoT_cleanbin_000013


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

text: JOAQUIM GOES

text: COLUMBIA UNIVERSITY

characteristic: completeness software

characteristic: contamination score

text: protist culture

text: Oman

text: Bandar Al Khairan

text: Coastal ocean

text: not provided

text: Noctiluca scintillans

characteristic: host taxid

text: JOAQUIM GOES | SENJIE LIN

characteristic: identified by

text: metagenome-assembled genome

characteristic: investigation type

text: Protist: Noctiluca scintillans

text: ocean

characteristic: local environmental context

text: protist metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Roseivirga sp.

characteristic: organism

text: **OTHER SOMATIC ANIMAL TISSUE**

characteristic: organism part

text: ASG

characteristic: project name

text: Endosymbiont

characteristic: sample derived from

text: uncultured Roseivirga sp.

text: Pacbio Sequel II

characteristic: sequencing method

characteristic: specimen id

text: N

text: PROKKA (version 1.14.5)

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: ANI

text: 1816a8d2-4ef9-4de2-a692-df8efc939ad3-asg-MAGScoT_cleanbin_000027


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

characteristic: broad-scale environmental context

text: JOAQUIM GOES

characteristic: collected by

text: COLUMBIA UNIVERSITY

characteristic: collecting institution

characteristic: collection date

characteristic: completeness score

characteristic: depth

text: protist culture

characteristic: environmental medium

text: Oman

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Bandar Al Khairan

characteristic: geographic location (region and locality)

text: Coastal ocean

characteristic: habitat

text: not provided

characteristic: host life stage

text: Noctiluca scintillans

characteristic: host scientific name

text: JOAQUIM GOES | SENJIE LIN

text: metagenome-assembled genome

text: Protist: Noctiluca scintillans

text: ocean

text: protist metagenome

text: uncultured Rubripirellula sp.

text: **OTHER SOMATIC ANIMAL TISSUE**

text: ASG

text: Endosymbiont

characteristic: relationship

text: uncultured Rubripirellula sp.

text: Pacbio Sequel II

text: N

characteristic: symbiont

text: PROKKA (version 1.14.5)

text: taxonomic novelty determined using RED

text: 158dcd57-8eee-47c9-8bbd-29dba14fc16d-asg-MAGScoT_cleanbin_000031


text: Yes

characteristic: 16S recovered

text: PROKKA (version 1.14.5)

characteristic: 16S recovery software

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Nova Southeastern University

characteristic: GAL

text: JoeLopez NSU0024101

text: Tree of Life Programme

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Minimap2 (version 2.24-r1122)

characteristic: MAG coverage software

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

characteristic: assembly software

text: NOVA SOUTHEASTERN UNIVERSITY

characteristic: barcoding center

text: coverage; graph; hic-mapping

characteristic: binning parameters

characteristic: binning software

text: aquatic biome

text: JOAQUIM GOES

text: COLUMBIA UNIVERSITY

characteristic: completeness software

characteristic: contamination score

text: protist culture

text: Oman

text: Bandar Al Khairan

text: Coastal ocean

text: not provided

text: Noctiluca scintillans

characteristic: host taxid

text: JOAQUIM GOES | SENJIE LIN

characteristic: identified by

text: metagenome-assembled genome

characteristic: investigation type

text: Protist: Noctiluca scintillans

text: ocean

characteristic: local environmental context

text: protist metagenome

characteristic: metagenomic source

characteristic: number of standard tRNAs extracted

text: uncultured Verrucomicrobiales bacterium

characteristic: organism

text: **OTHER SOMATIC ANIMAL TISSUE**

characteristic: organism part

text: ASG

characteristic: project name

text: Endosymbiont

characteristic: sample derived from

text: uncultured Verrucomicrobiales bacterium

text: Pacbio Sequel II

characteristic: sequencing method

characteristic: specimen id

text: N

text: PROKKA (version 1.14.5)

characteristic: tRNA extraction software

characteristic: taxonomic classification

text: b9ef5787-e5b8-46a8-b469-4aacb84dc668-asg-MAGScoT_cleanbin_000026


text: Plasmodium falciparum

characteristic: ArrayExpress-SPECIES

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: malaria parasite P. falciparum

characteristic: common name

text: Plasmodium falciparum

text: Plasmodium falciparum

characteristic: title


text: umea university, dept molecular biology

text: public

tag: Namespace:umea university, dept molecular biology

text: 1 to 4

unit: day

characteristic: age

text: ArrayExpress

characteristic: broker name

text: astrocyte

text: house mouse

text: Protocols: Cortical astrocytes and neurons were generated. In brief, astrocytes were isolated from neonatal mice between postnatal day 1 and 4. Cerebral cortices were isolated in HBSS (Gibco) containing 0.5% penicillin and streptomycin (Gibco) and 0.4% glucose. Tissues were dissociated by trituration and seeded in poly-d-lysine-coated T-75 tissue culture flasks. Astrocytes were grown in Dulbecco’s modified Eagle’s medium (DMEM) supplemented with 10% heat-inactivated FBS (Thermo Fisher Scientific), 0.2% penicillin and streptomycin (Gibco) and 2 mM L-glutamine (Gibco). Primary cortical neurons were isolated from the cerebral cortices at embryonic day 17 and seeded onto poly-d-lysine-coated wells. Neurons were grown in neurobasal plus medium (Gibco) supplemented with B27 plus supplement (Gibco), 0.2% penicillin and streptomycin. Microglia were isolated from the astrocyte cultures as previously described [23] and grown in (DMEM) supplemented with 10% heat-inactivated FBS (Thermo Fisher Scientific), 0.2% penicillin and streptomycin (Gibco) and 2 mM L-glutamine (Gibco) and conditioned astrocytes medium (1:1). Monolayers of neurons (MOI 0.01), astrocytes (MOI 0.1) and microglia (MOI 1) were infected with LGTV or TBEV for 1 h at 37˚C and 5% CO2 before the inoculum was removed and replaced with fresh medium. Cell supernatant was harvested at the indicated time points and viral titers were determined by focus forming assay. Total RNA from infected or mock-treated monocultures was extracted using Nucleospin RNA plus mini kit (Macherey-Nagel) according to manufacturer’s instructions. The Smart-Seq2 protocol was used to produce fragmented cDNA with Nextera sequencing adapters.

characteristic: description

text: juvenile stage

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Mus musculus

characteristic: organism

text: Mus musculus

text: brain

characteristic: organism part

characteristic: rna concentration

text: Mus musculus

text: mixed

characteristic: sex

characteristic: strain


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: umea university, dept molecular biology

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: 1 to 4

text: ArrayExpress

text: astrocyte

text: house mouse

text: juvenile stage

text: IFNAR -/-

text: Mus musculus

text: Mus musculus

text: brain

text: Mus musculus

text: mixed


text: umea university, dept molecular biology

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: 1 to 4

text: ArrayExpress

text: microglial cell

text: house mouse

characteristic: common name

text: juvenile stage

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: brain

text: Mus musculus

text: mixed

characteristic: title


text: umea university, dept molecular biology

text: public

text: 1 to 4

characteristic: age

text: ArrayExpress

characteristic: broker name

text: microglial cell

text: house mouse

characteristic: description

text: juvenile stage

characteristic: developmental stage

text: IFNAR -/-

characteristic: genotype

text: Mus musculus

characteristic: organism

text: Mus musculus

text: brain

text: Mus musculus

text: mixed


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: INSERM, Gustave Roussy

text: public

tag: Namespace:INSERM, Gustave Roussy

text: ArrayExpress

text: non responder

characteristic: clinical history

text: human

text: Protocols: Fresh cut slides from FFPE histological samples with cell compound evaluation by pathologist No RNA extraction was performed as per manufacturer protocol (direct cell lysis of selected tumor areas) HTG EdgeSeq Oncology Biomarker Panel (OBP) from HTG Molecular, preparation according to Manufacturer

text: adult

text: thyroid cancer

characteristic: disease

characteristic: htg batch

characteristic: individual

text: NRAS p.G12V

characteristic: mutated gene

text: Homo sapiens

text: Homo sapiens

text: thyroid gland

characteristic: organism part

text: non responder

characteristic: percist

text: non responder

characteristic: recist

text: neoplasm

characteristic: sampling site

text: Homo sapiens

unit: fraction

characteristic: tumor cell content


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: INSERM, Gustave Roussy

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: non responder

text: human

characteristic: common name

text: adult

text: thyroid cancer

text: NRAS p.Q61K

text: Homo sapiens

text: Homo sapiens

text: thyroid gland

text: non responder

text: non responder

text: Homo sapiens

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: INSERM, Gustave Roussy

text: public

text: ArrayExpress

text: non responder

characteristic: clinical history

text: human

characteristic: description

text: adult

characteristic: developmental stage

text: thyroid cancer

characteristic: disease

characteristic: htg batch

characteristic: individual

text: HRAS p.Q61R

characteristic: mutated gene

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: thyroid gland

text: non responder

text: non responder

text: Homo sapiens


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: INSERM, Gustave Roussy

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

text: responder

text: human

text: adult

text: thyroid cancer

text: HRAS p.G13R

text: Homo sapiens

text: Homo sapiens

text: thyroid gland

characteristic: organism part

text: responder

characteristic: percist

text: responder

characteristic: recist

text: Homo sapiens

characteristic: tumor cell content


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: INSERM, Gustave Roussy

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: responder

characteristic: clinical history

text: human

characteristic: common name

text: adult

text: thyroid cancer

text: NRAS p.Q61R

text: Homo sapiens

text: Homo sapiens

text: thyroid gland

text: responder

text: neoplasm

characteristic: sampling site

text: Homo sapiens

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: INSERM, Gustave Roussy

characteristic: INSDC center name

text: public

text: ArrayExpress

text: non responder

text: human

characteristic: description

text: adult

characteristic: developmental stage

text: thyroid cancer

characteristic: disease

characteristic: htg batch

characteristic: individual

text: NRAS p.Q61R

characteristic: mutated gene

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: thyroid gland

text: non responder

text: non responder

text: Homo sapiens


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: INSERM, Gustave Roussy

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: non responder

text: human

text: adult

text: thyroid cancer

text: Homo sapiens

text: Homo sapiens

text: thyroid gland

characteristic: organism part

text: responder

characteristic: percist

text: non responder

characteristic: recist

text: Homo sapiens

characteristic: tumor cell content


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: INSERM, Gustave Roussy

characteristic: INSDC center name

text: public

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: non responder

characteristic: clinical history

text: human

characteristic: common name

characteristic: description

text: adult

text: thyroid cancer

text: NRAS p.Q61K

text: Homo sapiens

text: Homo sapiens

text: thyroid gland

text: due

text: non responder

text: Homo sapiens

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC first public

text: public

tag: Namespace:UNIVERSITY OF MANCHESTER

unit: month

characteristic: age

text: ArrayExpress

text: hepatic stellate cell

text: house mouse

text: Protocols: Mouse livers were perfused under terminal anaesthesia with pronase/collagenase solution before excision, mechanical disruption and filtering steps to generate a cell suspension. Hepatic stellate cells were isolated using an optiprep density gradient. For quiescent samples, hepatic stellate cells were freshly processed without culture. For activated samples, hepatic stellate cells were cultured on plastic in 16% FBS supplemented media for 10 days prior to harvest into RLT buffer. Activated samples were from hepatic stellate cells cultured on plastic for 10 days in 16% FBS supplemented media. Cells were harvested in RLT buffer and processed using a Qiagen RNeasy kit following manufacturer’s instructions. Library preparation of samples was performed using the Illumina TruSeq Stranded mRNA Sample Preparation Kits (Illumina).

text: wild type genotype

characteristic: genotype

text: mouse 1

characteristic: individual

text: Mus musculus

characteristic: organism

text: Mus musculus

text: liver

text: quiescent

characteristic: phenotype

text: Mus musculus

text: male

characteristic: sex

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: hepatic stellate cell

text: house mouse

text: wild type genotype

text: mouse 2

text: Mus musculus

text: Mus musculus

text: liver

characteristic: organism part

text: quiescent

text: Mus musculus

text: male


characteristic: ENA-CHECKLIST

text: UNIVERSITY OF MANCHESTER

text: public

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: hepatic stellate cell

text: house mouse

characteristic: common name

characteristic: description

text: wild type genotype

text: mouse 3

text: Mus musculus

text: Mus musculus

text: liver

text: quiescent

text: Mus musculus

text: male

characteristic: title


characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC first public

text: public

characteristic: age

text: ArrayExpress

text: hepatic stellate cell

text: house mouse

text: wild type genotype

characteristic: genotype

text: mouse 4

characteristic: individual

text: Mus musculus

characteristic: organism

text: Mus musculus

text: liver

text: quiescent

text: Mus musculus

text: male


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC center name

text: public

text: ArrayExpress

text: hepatic stellate cell

text: house mouse

text: wild type genotype

text: mouse 1

text: Mus musculus

text: Mus musculus

text: liver

text: activated

characteristic: phenotype

text: Mus musculus

text: male

characteristic: sex

characteristic: strain


characteristic: ENA-CHECKLIST

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: hepatic stellate cell

text: house mouse

text: wild type genotype

text: mouse 2

text: Mus musculus

text: Mus musculus

text: liver

characteristic: organism part

text: activated

text: Mus musculus

text: male


characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC first public

text: public

text: ArrayExpress

characteristic: broker name

text: hepatic stellate cell

text: house mouse

characteristic: common name

characteristic: description

text: wild type genotype

text: mouse 3

text: Mus musculus

text: Mus musculus

text: liver

text: activated

text: Mus musculus

text: male

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF MANCHESTER

text: public

characteristic: age

text: ArrayExpress

text: hepatic stellate cell

text: house mouse

text: wild type genotype

characteristic: genotype

text: mouse 4

characteristic: individual

text: Mus musculus

characteristic: organism

text: Mus musculus

text: liver

text: activated

text: Mus musculus

text: male


characteristic: ENA-CHECKLIST

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC center name

characteristic: INSDC last update

text: public

text: ArrayExpress

text: hepatic stellate cell

text: house mouse

text: Protocols: Three mouse livers were perfused under terminal anaesthesia with pronase/collagenase solution before excision, mechanical disruption and filtering steps to generate a pooled cell suspension. Hepatic stellate cells were isolated using an optiprep density gradient. For quiescent samples, hepatic stellate cells were freshly processed without culture. For activated samples, hepatic stellate cells were cultured on plastic in 16% FBS supplemented media for 10 days prior to harvest by scraping into PBS. Activated samples were from hepatic stellate cells cultured on plastic for 10 days in 16% FBS supplemented media. 200000 cells were pelleted and PBS washed. Isolation of Tn5 transposase-accessible DNA was performed using Active Motif Complete Cut&Tag Assay Kit Anti-Rabbit (Catalog no 53160) following manufacturer’s instructions. Primary antibodies used were the Cut&Tag Kit H3K9Me3 (Catalog no 39155; \Kit\) and Cell Signalling Technologies H3K9Me3 (Catalog no 13969, \CST\). Library preparation of samples was performed using the ActiveMotif Complete Cut&Tag Assay Kit Anti-Rabbit (Catalog no 53160) following manufacturer’s instructions.

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: liver

text: activated

characteristic: phenotype

text: Mus musculus

text: male

characteristic: sex

characteristic: strain


characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: hepatic stellate cell

text: house mouse

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: liver

characteristic: organism part

text: quiescent

text: Mus musculus

text: male


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF MANCHESTER

text: public

text: ArrayExpress

characteristic: broker name

text: hepatic stellate cell

text: house mouse

characteristic: common name

text: Protocols: Mouse livers were perfused under terminal anaesthesia with pronase/collagenase solution before excision, mechanical disruption and filtering steps to generate a cell suspension. Hepatic stellate cells were isolated using an optiprep density gradient. For quiescent samples, hepatic stellate cells were freshly processed without culture. For activated samples, hepatic stellate cells were cultured on plastic in 16% FBS supplemented media for 10 days prior to harvest into PBS. Activated samples were from hepatic stellate cells cultured on plastic for 10 days in 16% FBS supplemented media. 100000 cells were pelleted and PBS washed. Isolation of Tn5 transposase-accessible DNA was performed using ActiveMotif ATAC-seq kit (Catalog no 53150) following manufacturer’s instructions. Library preparation of samples was performed using the ActiveMotif ATAC-seq kit (Catalog no 53150) following manufacturer’s instructions.

characteristic: description

text: wild type genotype

text: mouse 1

text: Mus musculus

text: Mus musculus

text: liver

text: quiescent

text: Mus musculus

text: male

characteristic: title


characteristic: ENA-CHECKLIST

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC center name

text: public

characteristic: age

text: ArrayExpress

text: hepatic stellate cell

text: house mouse

text: wild type genotype

characteristic: genotype

text: mouse 2

characteristic: individual

text: Mus musculus

characteristic: organism

text: Mus musculus

text: liver

text: quiescent

text: Mus musculus

text: male


characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

text: hepatic stellate cell

text: house mouse

text: wild type genotype

text: mouse 4

text: Mus musculus

text: Mus musculus

text: liver

text: quiescent

characteristic: phenotype

text: Mus musculus

text: male

characteristic: sex

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF MANCHESTER

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: hepatic stellate cell

text: house mouse

text: wild type genotype

text: mouse 1

text: Mus musculus

text: Mus musculus

text: liver

characteristic: organism part

text: activated

text: Mus musculus

text: male


characteristic: ENA-CHECKLIST

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC center name

text: public

text: ArrayExpress

characteristic: broker name

text: hepatic stellate cell

text: house mouse

characteristic: common name

characteristic: description

text: wild type genotype

text: mouse 2

text: Mus musculus

text: Mus musculus

text: liver

text: activated

text: Mus musculus

text: male

characteristic: title


characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC first public

text: public

characteristic: age

text: ArrayExpress

text: hepatic stellate cell

text: house mouse

text: wild type genotype

characteristic: genotype

text: mouse 3

characteristic: individual

text: Mus musculus

characteristic: organism

text: Mus musculus

text: liver

text: activated

text: Mus musculus

text: male


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC last update

text: public

text: ArrayExpress

text: hepatic stellate cell

text: house mouse

text: wild type genotype

text: mouse 4

text: Mus musculus

text: Mus musculus

text: liver

text: activated

characteristic: phenotype

text: Mus musculus

text: male

characteristic: sex

characteristic: strain


characteristic: ENA-CHECKLIST

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

unit: week

text: ArrayExpress

text: innate lymphoid cell

text: house mouse

text: Protocols: We performed single-cell RNA sequencing from small intestine ILC as previously described (Fiancette et al., 2021). Briefly, Id2-CreERT2 ROSA26-tdRFP Bcl6-fl/fl and Id2-CreERT2 ROSA26-tdRFP control mice were treated with 5mg of tamoxifen in corn oil 5 times over the course of 2 weeks via oral gavage. Mice were sacrificed through cervical dislocation 3 weeks after the last dose. Fat and Peyer’s patches were removed from the small intestine, which was opened longitudinally and washed vigorously in PBS. Tissue was incubated for two concurrent rounds in PBS containing 1 mM EDTA, 1 mM dithiothreitol and 5 % FBS for 25 min at 37 °C with constant mixing. Then, tissues were washed in PBS and digested in complete RPMI with in 1 mg/ml collagenase VIII (Sigma-Aldrich) and 20 μg/ml DNase (Sigma-Aldrich) for 25 min at 37 °C. The digested tissues were filtered through a 70 μm nylon strainer and stained for fluorescence-activated cell sorting. Live CD45+ B220- CD11c- CD11b- CD3- CD5- TCRβ- TCRγδ- CD90.2+ CD127+ ROSA26-tdRFP+ ILC were sorted into PBS 10% FBS using a BD FACS Aria II. Sorted cells were passed through the 10x Chromium (10x Genomics) system as indicated on the manufacturer’s protocol (CG000315 Rev B), at a target recovery rate of 10,000 cells. cDNA library generation was performed as indicated in the protocol for Chromium Single Cell 3’ Reagent kits v3.1 (10x Genomics). Resulting libraries were prepared in parallel in a single batch.

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: Id2-CreERT2 ROSA26-tdRFP Bcl6-fl/fl

text: pool of 2 individuals

text: Mus musculus

text: Mus musculus

text: small intestine lamina propria

characteristic: organism part

text: Mus musculus

text: male

text: KO


characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF MANCHESTER

characteristic: INSDC first public

text: public

characteristic: age

text: ArrayExpress

characteristic: broker name

text: innate lymphoid cell

text: house mouse

characteristic: common name

characteristic: description

text: adult

text: normal

text: Id2-CreERT2 ROSA26-tdRFP

characteristic: genotype

text: pool of 2 individuals

text: Mus musculus

text: Mus musculus

text: small intestine lamina propria

text: Mus musculus

text: male

text: WT

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

text: Plectosphaerella cucumerina MPI-CAGE-AT-0143

tag: Namespace:Max Planck Institute for Plant Breeding Research

text: The fungal isolate originates from surface sterilized roots of Arabidopsis thaliana plants grown in Cologne Agricultural Soil (see protocol in Duran et al., 2018, doi: 10.1016/j.cell.2018.10.020)

text: Plectosphaerella cucumerina

characteristic: organism

text: Plectosphaerella cucumerina

characteristic: strain

text: Genome sequencing of an Arabidopsis thaliana root-isolated Plectosphaerella cucumerina isolate


text: Plasmodium falciparum

characteristic: ArrayExpress-SPECIES

characteristic: ENA-CHECKLIST

text: SC

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: Plasmodium falciparum


text: Anopheles gambiae

characteristic: ENA-FIRST-PUBLIC

text: SC

characteristic: INSDC first public

text: public

text: African malaria mosquito

text: Anopheles gambiae

text: Anopheles gambiae


text: public

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

text: Protocols: A miRNA analysis on Mitochondria of 4 tissues (liver, gastrocnemius skeletal muscle, testis, white adipose tissue) was performed by RNA-seq in 3 wild-type male CD1 mice, ~3 months old, maintained in a temperature-controlled room at 22 ± 2°C under a 12 h dark/light cycle with a standard pellet diet and unlimited access to water. Mitochondria were purified from freshly excised tissues (liver, gastrocnemius skeletal muscle, testis, white adipose tissue) using Qproteome Mitochondrial Isolation kit (Qiagen) according to manufacturer’s instructions with minor modifications and performing all the steps at 4°C. In order to remove RNA of nuclear origin present in the cytosol and eventually adsorbed on the outer mitochondrial membrane, mitochondria were treated with RNase A solution. Total RNA was purified from mitochondria by miRNeasy Mini Kit (Qiagen) according to the manufacturer’s protocol. The RNA integrity and concentration was evaluated by Agilent 2100 Bioanalyzer (Agilent Technologies). The mitochondrial RNA enrichment and eventual cytosolic RNA contamination were checked by RT-qPCR. Mitochondria and cytosolic RNAs were retrotranscribed by SensiFAST cDNA Synthesis kit (Bioline). Indexed libraries were prepared with NEXSmallRNA Seq v3 (PerkinElmer) according to the manufacturer’s instructions. Libraries were quantified using the Tape Station 2200 (Agilent Technologies) and Qubit Fluorometer 1.0 (Invitrogen Co., Carlsbad, CA). Libraries were pooled such that each index-tagged sample was present in equimolar amounts, with final concentration of the pooled samples of 2nM.

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: wild type genotype

characteristic: individual

text: Mus musculus

text: Mus musculus

text: liver

characteristic: organism part

text: Mus musculus

text: male

characteristic: sex

text: CD1 mus strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

text: ArrayExpress

text: house mouse

characteristic: description

text: adult

text: normal

text: wild type genotype

characteristic: genotype

text: Mus musculus

characteristic: organism

text: Mus musculus

text: gastrocnemius

text: Mus musculus

text: male

text: CD1 mus strain

characteristic: strain

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

text: adult

text: normal

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: white adipose tissue

text: Mus musculus

text: male

text: CD1 mus strain


text: public

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: wild type genotype

characteristic: individual

text: Mus musculus

text: Mus musculus

text: testis

characteristic: organism part

text: Mus musculus

text: male

text: CD1 mus strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Swedish museum of Natural HIstory

characteristic: INSDC last update

text: public

tag: Namespace:Swedish museum of Natural HIstory

text: Eurasian elk

text: Modern

characteristic: description

text: Alces alces

characteristic: organism

text: Alces alces

text: European moose


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC center name

text: public

tag: Namespace:ASST Grande Ospedale Metropolitano Niguarda

characteristic: collection date

text: Klebsiella pneumoniae ST512 KPC-31 OXA-181

text: Italy

characteristic: geographic location (country and/or sea)

text: Homo sapiens

characteristic: host scientific name

text: bronchial lavage

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

characteristic: title


text: ASST Grande Ospedale Metropolitano Niguarda

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Italy

text: Homo sapiens

text: rectal swab

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae


text: public

text: Italy

text: Homo sapiens

text: blood culture

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae


text: public

text: Italy

text: Homo sapiens

text: bronchial lavage

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae


text: public

text: Klebsiella pneumoniae ST512 KPC-3 OXA-181

text: Italy

text: Homo sapiens

text: blood culture

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae


text: Max Planck Institute for Plant Breeding Research

text: public

text: Flowpot gnotobiotic systems filled with peat matrix were inoculated with 84 bacterial strains and 22 fungal strains, then planted with Arabidopsis thaliana Col-0 sterilized seeds. Roots were harvested from planted pots after four weeks in culture. Two steps PCR protocol was then performed to amplify the V4-V7 fragment of bacterial 16S rRNA (primers 799F and 1192R). After purification, paired-end Illumina sequencing was performed.

text: plant metagenome

text: plant metagenome

text: Arabidopsis roots SynCom 16S community profiling (sample Roots2)


text: public

text: plant metagenome

text: plant metagenome

text: Arabidopsis roots SynCom 16S community profiling (sample Roots1)


text: public

text: plant metagenome

text: plant metagenome

text: Arabidopsis roots SynCom 16S community profiling (sample Roots3)


text: public

text: Flowpot gnotobiotic systems filled with peat matrix were inoculated with 84 bacterial strains and 22 fungal strains, then remained unplanted. Peat matrix was harvested from unplanted pots after four weeks incubation. Two steps PCR protocol was then performed to amplify the V4-V7 fragment of bacterial 16S rRNA (primers 799F and 1192R). After purification, paired-end Illumina sequencing was performed.

text: soil metagenome

text: soil metagenome

text: Peat matrix SynCom 16S community profiling (sample Matrix1)


text: public

text: soil metagenome

text: soil metagenome

text: Peat matrix SynCom 16S community profiling (sample Matrix3)


text: public

text: soil metagenome

text: soil metagenome

text: Peat matrix SynCom 16S community profiling (sample Matrix2)


text: public

text: Flowpot gnotobiotic systems filled with peat matrix were inoculated with 84 bacterial strains and 22 fungal strains, then planted with Arabidopsis thaliana Col-0 sterilized seeds. Roots were harvested from planted pots after four weeks in culture. Two steps PCR protocol was then performed to amplify the ITS1 fungal sequence (primers ITS1F and ITS2). After purification, paired-end Illumina sequencing was performed.

text: plant metagenome

text: plant metagenome

text: Arabidopsis roots SynCom ITS community profiling (sample Roots2)


text: public

text: plant metagenome

text: plant metagenome

text: Arabidopsis roots SynCom ITS community profiling (sample Roots1)


text: public

text: plant metagenome

text: plant metagenome

text: Arabidopsis roots SynCom ITS community profiling (sample Roots3)


text: public

text: Flowpot gnotobiotic systems filled with peat matrix were inoculated with 84 bacterial strains and 22 fungal strains, then remained unplanted. Peat matrix was harvested from unplanted pots after four weeks incubation. Two steps PCR protocol was then performed to amplify the ITS1 fungal sequence (primers ITS1F and ITS2). After purification, paired-end Illumina sequencing was performed.

text: soil metagenome

text: soil metagenome

text: Peat matrix SynCom ITS community profiling (sample Matrix1)


text: public

text: soil metagenome

text: soil metagenome

text: Peat matrix SynCom ITS community profiling (sample Matrix3)


text: public

text: soil metagenome

text: soil metagenome

text: Peat matrix SynCom ITS community profiling (sample Matrix2)


text: public

tag: Namespace:UCL GOS Institute of Child Health, University College London

text: ArrayExpress

characteristic: broker name

text: primary cell line

text: keratinocyte

text: human

characteristic: common name

text: Protocols: Primary keratinocytes were isolated from patients with inflammatory skin disease in addition to controls which were subsequently immortalised (Lenti-HPV-16 E6/E7) RNA was extracted using the RNAeasy plus mini kit (Qiagen, Germany), using RLT buffer to lyse cells, 70-90% ethanol to precipitate the nucleic acids and nuclease free water to resuspend the RNA. cDNA libraries were prepared using the KAPA mRNA HyperPrep Kit (Roche)

text: juvenile

characteristic: developmental stage

text: normal

characteristic: disease

text: Homo sapiens

text: Homo sapiens

text: skin

characteristic: organism part

text: Homo sapiens


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCL GOS Institute of Child Health, University College London

characteristic: INSDC last update

text: public

text: ArrayExpress

text: primary cell line

text: keratinocyte

text: human

characteristic: description

text: juvenile

text: normal

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: skin

text: Homo sapiens


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC center name

text: public

text: ArrayExpress

text: primary cell line

text: keratinocyte

text: human

text: juvenile

text: inflammatory skin disease

text: Homo sapiens

text: Homo sapiens

text: skin

text: Homo sapiens


text: GEORGIA COLLEGE AND STATE UNIVERSITY

characteristic: INSDC first public

text: public

text: ena-SAMPLE-TAB-11-05-2023-01:59:12:420-1

tag: Namespace:GEORGIA COLLEGE AND STATE UNIVERSITY

text: house mouse

text: small intestinal orgnaoids

text: Japan

characteristic: geographic location (country and/or sea)

text: Mus musculus

text: Mus musculus

characteristic: title


text: GEORGIA COLLEGE AND STATE UNIVERSITY

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ena-SAMPLE-TAB-11-05-2023-01:59:12:425-2

characteristic: Submitter Id

text: house mouse

text: small intestinal orgnaoids

text: Japan

text: Mus musculus

text: Mus musculus


text: GEORGIA COLLEGE AND STATE UNIVERSITY

text: public

text: ena-SAMPLE-TAB-11-05-2023-01:59:12:426-3

text: house mouse

characteristic: common name

text: small intestinal orgnaoids

text: Japan

text: Mus musculus

text: Mus musculus


text: GEORGIA COLLEGE AND STATE UNIVERSITY

text: public

text: ena-SAMPLE-TAB-11-05-2023-01:59:12:426-5

text: house mouse

text: small intestinal orgnaoids

text: Japan

text: Mus musculus

text: Mus musculus


text: GEORGIA COLLEGE AND STATE UNIVERSITY

text: public

text: ena-SAMPLE-TAB-11-05-2023-01:59:12:427-6

text: house mouse

text: small intestinal orgnaoids

text: Japan

text: Mus musculus

text: Mus musculus


text: GEORGIA COLLEGE AND STATE UNIVERSITY

text: public

text: ena-SAMPLE-TAB-11-05-2023-01:59:12:427-7

text: house mouse

text: small intestinal orgnaoids

text: Japan

text: Mus musculus

text: Mus musculus


text: GEORGIA COLLEGE AND STATE UNIVERSITY

text: public

text: ena-SAMPLE-TAB-11-05-2023-01:59:12:429-8

text: house mouse

text: small intestinal orgnaoids

text: Japan

text: Mus musculus

text: Mus musculus


text: public

tag: Namespace:Center for Omics Sciences IRCCS San Raffaele Scientific Institute

text: ArrayExpress

characteristic: broker name

text: colorectal cancer cell

text: human

text: Protocols: Cells were trypsinized, harvested and washed with PBS 1%. Then, the pellet was immediately used for RNA extraction or frozen and stocked at -80°C until use. HCT116 cells were grown in DMEM supplemented with 10% Fetal Bovine Serum. About 1.2e6 HCT116 cells were plated on 6 cm plates. The day after cells were overnight infected with SCR or shPINK1 constructs. After 24h, Puromycin was added at 2ug/ml concentration for each plate. After three days of selection, cells were harvested for RNA extraction and sequencing. RNA extraction was performed using the RNeasy kit (74106) from Qiagen. Ribo minus total RNA stranded kit was used.

text: adult

characteristic: developmental stage

text: colorectal carcinoma

characteristic: disease

text: Homo sapiens

text: Homo sapiens

text: intestine

text: Homo sapiens

text: male

characteristic: sex


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Center for Omics Sciences IRCCS San Raffaele Scientific Institute

characteristic: INSDC last update

text: public

text: ArrayExpress

text: colorectal cancer cell

text: human

text: adult

text: colorectal carcinoma

text: Homo sapiens

text: Homo sapiens

text: intestine

characteristic: organism part

text: Homo sapiens

text: male


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: ArrayExpress

text: colorectal cancer cell

text: human

text: Protocols: Cells were trypsinized, harvested and washed with PBS 1%. Then, the pellet was immediately used for RNA extraction or frozen and stocked at -80°C until use. HCT116 cells were grown in DMEM supplemented with 10% Fetal Bovine Serum. Cells were plated, and after 24h were treated with FOLFOX or FOLFIRI at the following concentration: 5-FU 100µM + OXA 100µM (FOLFOX) or 5-FU 100µM + SN-38 100nM (FOLFIRI) for 8h or 16h. Then, cells were harvested for experimental purposes. For the combination with ULK1 inhibitor, SBI-0206965 was added at 100µM concentration for 8h or 16h. RNA extraction was performed using the RNeasy kit (74106) from Qiagen. Ribo minus total RNA stranded kit was used.

characteristic: description

text: adult

text: colorectal carcinoma

text: not applicable

characteristic: isolate

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: intestine

text: Homo sapiens

text: male


characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: ArrayExpress

text: colorectal cancer cell

text: human

text: adult

text: colorectal carcinoma

text: Homo sapiens

text: Homo sapiens

text: intestine

text: Homo sapiens

text: male

characteristic: title


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: colorectal cancer cell

text: human

characteristic: common name

text: Protocols: Cells were trypsinized, harvested and washed with PBS 1%. Then, the pellet was immediately used for RNA extraction or frozen and stocked at -80°C until use. HCT116 cells were grown in DMEM supplemented with 10% Fetal Bovine Serum. HT29 cells were grown in RPMI supplemented with 10% Fetal Bovine Serum and 1mM Sodium Pyruvate. Cells were plated, and after 24h were treated with FOLFOX or FOLFIRI at the following concentration: 5-FU 100µM + OXA 100µM (FOLFOX) or 5-FU 100µM + SN-38 100nM (FOLFIRI) for 8h or 16h. Then, cells were harvested for experimental purposes. For long term (2 weeks) treatments, cells were plated and exposed to 5-FU 10µM + OXA 1µM (FOLFOX) or 5-FU 10µM + SN-38 10nM (FOLFIRI). RNA extraction was performed using the RNeasy kit (74106) from Qiagen. Ribo minus total RNA stranded kit was used.

text: adult

text: colorectal carcinoma

text: Homo sapiens

text: Homo sapiens

text: intestine

text: Homo sapiens

text: male


characteristic: ENA-LAST-UPDATE

text: public

unit: year

characteristic: age

text: ArrayExpress

text: colorectal cancer cell

text: human

text: adult

characteristic: developmental stage

text: colorectal adenocarcinoma

characteristic: disease

text: Homo sapiens

text: Homo sapiens

text: intestine

text: Homo sapiens

text: female

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

characteristic: INSDC last update

text: public

text: ArrayExpress

text: colorectal cancer cell

text: human

text: Protocols: Cells were trypsinized, harvested and washed with PBS/0.04% BSA and immediately used. HCT116 cells were grown in DMEM supplemented with 10% Fetal Bovine Serum. Cells were plated, and after 24h were treated with FOLFOX or FOLFIRI at the following concentration: 5-FU 100µM + OXA 100µM (FOLFOX) or 5-FU 100µM + SN-38 100nM (FOLFIRI) for 8h or 16h. Then, cells were harvested for experimental purposes. For long term (2 weeks) treatments, cells were plated and exposed to 5-FU 10µM + OXA 1µM (FOLFOX) or 5-FU 10µM + SN-38 10nM (FOLFIRI). Nucleic acids were directly processed on intact cells following standard Chromium Single Cell 3' Reagent v3 chemistry protocol (10X Genomics) using Chromium platform (10x Genomics). Target cell recovery was 5'000. Libraries were prepared using Chromium Single Cell 3' Reagent v3 chemistry protocol (10X Genomics). Library quality was assessed using TapeStation (Agilent Technologies). Libraries were sequenced on NovaSeq 6000 platform (Illumina) aiming at 50'000 clusters/cell.

text: adult

text: colorectal carcinoma

text: Homo sapiens

text: Homo sapiens

text: intestine

characteristic: organism part

text: Homo sapiens

text: male


text: QLD Health

characteristic: INSDC center name

characteristic: INSDC first public

text: public

tag: Namespace:QLD Health

characteristic: collection date

text: B. pseudomallei isolate

characteristic: description

text: Australia

characteristic: geographic location (country and/or sea)

text: diseased

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

characteristic: isolate

text: Clinical

text: Burkholderia pseudomallei

characteristic: organism

text: Burkholderia pseudomallei


characteristic: ENA-LAST-UPDATE

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: colorectal cancer cell

text: human

characteristic: common name

text: Protocols: Cells were trypsinized, harvested and washed with PBS/0.04% BSA and immediately used. HCT116 cells were grown in DMEM supplemented with 10% Fetal Bovine Serum. Cells were plated, and after 24h were treated with FOLFOX or FOLFIRI at the following concentration: 5-FU 100µM + OXA 100µM (FOLFOX) or 5-FU 100µM + SN-38 100nM (FOLFIRI) for 8h or 16h. Then, cells were harvested for experimental purposes. For long term (2 weeks) treatments, cells were plated and exposed to 5-FU 10µM + OXA 1µM (FOLFOX) or 5-FU 10µM + SN-38 10nM (FOLFIRI). Nucleic acids were directly processed on intact cells following standard Chromium Single Cell 3' Reagent v3 chemistry protocol (10X Genomics) using Chromium platform (10x Genomics). Target cell recovery was 5'000. Starting libraries prepared using Chromium Single Cell 3' Reagent v3 chemistry protocol (10X Genomics). cDNA were then amplified with KAPA HiFi HotStart ReadyMix (Roche) by using the following primers: 5’-GTGACTGGAGTTCAGACGTGTGCTCTTCCGATCTCCGACCACCGAACGCAACGCACGCA-3’ and ACACTCTTTCCCTACACGACGCTCTTCCGATCT, at the following PCR conditions: 95°C for 3 minutes, 98°C for 20 seconds, 65°C for 15 seconds, 72°C for 45 seconds and back to step 2, 13x followed by a 2 minute hold at 72°C. After a cleanup-SPRI beads selection, the eluted samples were again amplified by using P5 primer 5’-AATGATACGGCGACCACCGAGATCTACACTCTTTCCCTACACGA-3’ and multiplexed with ten different primers indicated in Supplementary Information and obtained from Illumina Inc. using the same PCR conditions and 6x rounds. The product was again purified by cleanup-SPRI beads selection.

text: adult

characteristic: developmental stage

text: colorectal carcinoma

text: Homo sapiens

text: Homo sapiens

text: intestine

text: Homo sapiens

text: male

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC last update

text: public

text: ArrayExpress

text: colorectal cancer cell

text: human

text: Protocols: Cells were trypsinized, harvested and washed with PBS/0.04% BSA and immediately used. HCT116 cells were grown in DMEM supplemented with 10% Fetal Bovine Serum. Cells were plated, and after 24h were treated with FOLFOX or FOLFIRI at the following concentration: 5-FU 100µM + OXA 100µM (FOLFOX) or 5-FU 100µM + SN-38 100nM (FOLFIRI) for 8h or 16h. Then, cells were harvested for experimental purposes. For long term (2 weeks) treatments, cells were plated and exposed to 5-FU 10µM + OXA 1µM (FOLFOX) or 5-FU 10µM + SN-38 10nM (FOLFIRI). Nucleic acids were directly processed on permeabilized nuclei following the “Nuclei Isolation for Single Cell ATAC Sequencing” protocol CG000169, Rev D (10X Genomics). Specifically, we prepared the nuclei suspension in order to get 5’000 nuclei as target nuclei recovery. Single-cell GET-seq was performed on Chromium platform (10x Genomics) following “Chromium Single Cell ATAC Reagent Kits” user manual version CG000168 Rev C. Tn5 and TnH were used in substitution of the 10X ATAC enzyme (10X Genomics) in the transposition mix assembly step. When a sequential Tn5 to TnH reaction was performed, a transposition mix containing 1.5 uL of Tn5 was incubated 30 min at 37 °C, then 1.5 uL of TnH was added and the reaction was continued for a total of 1 h incubation.

text: adult

text: colorectal carcinoma

characteristic: disease

text: Homo sapiens

text: Homo sapiens

text: intestine

characteristic: organism part

text: Homo sapiens

text: male

characteristic: sex


characteristic: INSDC first public

text: public

text: ArrayExpress

text: colorectal cancer cell

text: human

text: Protocols: Cells were trypsinized, harvested and washed with PBS/0.04% BSA and immediately used. HCT116 cells were grown in DMEM supplemented with 10% Fetal Bovine Serum Cells were plated, and after 24h were treated with FOLFOX or FOLFIRI at the following concentration: 5-FU 100µM + OXA 100µM (FOLFOX) or 5-FU 100µM + SN-38 100nM (FOLFIRI) for 8h or 16h. Then, cells were harvested for experimental purposes. For long term (2 weeks) treatments, cells were plated and exposed to 5-FU 10µM + OXA 1µM (FOLFOX) or 5-FU 10µM + SN-38 10nM (FOLFIRI). Nucleic acids were directly processed on permeabilized nuclei following the “Nuclei Isolation for Single Cell ATAC Sequencing” protocol CG000169, Rev D (10X Genomics). Specifically, we prepared the nuclei suspension in order to get 5’000 nuclei as target nuclei recovery. Single-cell GET-seq was performed on Chromium platform (10x Genomics) following “Chromium Single Cell ATAC Reagent Kits” user manual version CG000168 Rev C. Tn5 and TnH were used in substitution of the 10X ATAC enzyme (10X Genomics) in the transposition mix assembly step. When a sequential Tn5 to TnH reaction was performed, a transposition mix containing 1.5 uL of Tn5 was incubated 30 min at 37 °C, then 1.5 uL of TnH was added and the reaction was continued for a total of 1 h incubation.

characteristic: description

text: adult

text: colorectal carcinoma

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: intestine

text: Homo sapiens

text: male


characteristic: ENA-LAST-UPDATE

text: Research Centre for Natural Sciences

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:Research Centre for Natural Sciences

characteristic: collection date

text: human

text: HCT116 ancestral clone, high oxygen

text: Hungary

characteristic: geographic location (country and/or sea)

text: Homo sapiens

text: Homo sapiens


text: Research Centre for Natural Sciences

text: public

characteristic: Submitter Id

text: human

characteristic: common name

text: HCT116 clone 1, high oxygen

text: Hungary

text: Homo sapiens

text: Homo sapiens

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: Research Centre for Natural Sciences

text: public

text: human

text: HCT116 clone 2, high oxygen

text: Hungary

text: Homo sapiens

text: Homo sapiens


text: Research Centre for Natural Sciences

characteristic: INSDC center name

characteristic: INSDC last update

text: public

text: human

text: HCT116 ancestral clone, low oxygen

text: Hungary

text: Homo sapiens

text: Homo sapiens


text: Research Centre for Natural Sciences

text: public

text: human

text: HCT116 clone 1, low oxygen

text: Hungary

text: Homo sapiens

text: Homo sapiens


text: Research Centre for Natural Sciences

text: public

text: human

text: HCT116 clone 2, low oxygen

text: Hungary

text: Homo sapiens

text: Homo sapiens


text: Research Centre for Natural Sciences

text: public

text: human

text: HCT116+chr3 ancestral clone, high oxygen

text: Hungary

text: Homo sapiens

text: Homo sapiens


text: Research Centre for Natural Sciences

text: public

text: human

text: HCT116+chr3 clone 1, high oxygen

text: Hungary

text: Homo sapiens

text: Homo sapiens


text: Research Centre for Natural Sciences

text: public

text: human

text: HCT116+chr3 clone 2, high oxygen

text: Hungary

text: Homo sapiens

text: Homo sapiens


text: Research Centre for Natural Sciences

text: public

text: human

text: HCT116+chr3 ancestral clone, low oxygen

text: Hungary

text: Homo sapiens

text: Homo sapiens


text: Research Centre for Natural Sciences

text: public

text: human

text: HCT116+chr3 clone 1, low oxygen

text: Hungary

text: Homo sapiens

text: Homo sapiens


text: Research Centre for Natural Sciences

text: public

text: human

text: HCT116+chr3 clone 2, low oxygen

text: Hungary

text: Homo sapiens

text: Homo sapiens


text: MPI FOR DEVELOPMENTAL BIOLOGY

text: public

tag: Namespace:MPI FOR DEVELOPMENTAL BIOLOGY

text: Armenia

text: growth chamber

characteristic: growth facility

text: Thlaspi arvense

text: Thlaspi arvense


text: MPI FOR DEVELOPMENTAL BIOLOGY

characteristic: INSDC first public

text: public

text: Armenia

text: growth chamber

text: Thlaspi arvense

text: Thlaspi arvense


text: MPI FOR DEVELOPMENTAL BIOLOGY

text: public

text: Germany

text: growth chamber

text: Thlaspi arvense

text: Thlaspi arvense


text: MPI FOR DEVELOPMENTAL BIOLOGY

text: public

text: France

text: growth chamber

text: Thlaspi arvense

text: Thlaspi arvense


text: University of Basel (IPNA)

text: public

text: ancient DNA from bone

characteristic: Sample type

tag: Namespace:University of Basel (IPNA)

text: syphilis treponeme

text: W86 complete genome sequence (T.p. pallidum)

characteristic: description

text: Poland

text: Homo sapiens

characteristic: host scientific name

text: Individual W86

characteristic: isolate

text: Archaeological bone sample

text: Treponema pallidum subsp. pallidum

text: Treponema pallidum subsp. pallidum

text: pallidum

characteristic: strain


E-MTAB-12937:Sample 1

characteristic: ENA-LAST-UPDATE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12937:Sample 1

tag: Namespace:Institut de Biologie Valrose, iBV UMR CNRS 7277/Inserm 1091/Universite Cote d’Azur

text: ArrayExpress

characteristic: broker name

text: hMADS

text: fat cell

text: human

text: Protocols: hMADS adipocytes were transfected at day 10, with siRNA against PPAR alpha. hMADS adipocytes were transfected with control siRNA (siGFP) at day 10. hMADS adipocytes were treated with transfection reagent only at day 10. hMADS white adipocytes were converted to brown adipocytes at day 14 with 100 nM of Rosiglitazone for 4 days. phenol chloroform extraction PolyA library construction

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: multipotent adipose-derived stem cell

characteristic: progenitor cell type

text: NT-R

characteristic: replicate

text: Homo sapiens

text: Sample 1


E-MTAB-12937:Sample 10

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: Institut de Biologie Valrose, iBV UMR CNRS 7277/Inserm 1091/Universite Cote d’Azur

text: public

text: mock

characteristic: RNA interference

text: E-MTAB-12937:Sample 10

characteristic: Submitter Id

text: ArrayExpress

text: hMADS

text: fat cell

text: human

characteristic: common name

text: Protocols: hMADS adipocytes were transfected at day 10, with siRNA against PPAR alpha. hMADS adipocytes were transfected with control siRNA (siGFP) at day 10. hMADS adipocytes were not transfected at day 10. phenol chloroform extraction PolyA library construction

text: Homo sapiens

text: Homo sapiens

text: multipotent adipose-derived stem cell

text: NoSi+R

text: Homo sapiens

text: Rosiglitazone

characteristic: stimulus

text: Sample 10

characteristic: title


E-MTAB-12937:Sample 11

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: mock

text: E-MTAB-12937:Sample 11

text: ArrayExpress

text: hMADS

text: fat cell

text: human

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: multipotent adipose-derived stem cell

text: NoSi+R

text: Homo sapiens

text: Rosiglitazone

text: Sample 11


E-MTAB-12937:Sample 12

characteristic: ENA-LAST-UPDATE

text: public

characteristic: INSDC status

text: mock

characteristic: SRA accession

text: E-MTAB-12937:Sample 12

text: ArrayExpress

text: hMADS

text: fat cell

text: human

text: Homo sapiens

text: Homo sapiens

text: multipotent adipose-derived stem cell

text: NoSi+R

text: Homo sapiens

text: Rosiglitazone

text: Sample 12


E-MTAB-12937:Sample 13

text: public

text: GFP siRNA

text: E-MTAB-12937:Sample 13

text: ArrayExpress

characteristic: broker name

text: hMADS

text: fat cell

text: human

text: Protocols: hMADS adipocytes were transfected at day 10, with siRNA against PPAR alpha. hMADS adipocytes were treated with transfection reagent only at day 10. hMADS adipocytes were not transfected at day 10. hMADS white adipocytes were converted to brown adipocytes at day 14 with 100 nM of Rosiglitazone for 4 days. phenol chloroform extraction PolyA library construction

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: multipotent adipose-derived stem cell

characteristic: progenitor cell type

text: GFP-R

text: Homo sapiens

text: Sample 13


E-MTAB-12937:Sample 14

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: GFP siRNA

text: E-MTAB-12937:Sample 14

text: ArrayExpress

text: hMADS

text: fat cell

text: human

text: Homo sapiens

text: Homo sapiens

text: multipotent adipose-derived stem cell

text: GFP-R

characteristic: replicate

text: Homo sapiens

text: Sample 14


E-MTAB-12937:Sample 15

characteristic: External Id

text: public

text: GFP siRNA

characteristic: RNA interference

text: E-MTAB-12937:Sample 15

characteristic: Submitter Id

text: ArrayExpress

text: hMADS

text: fat cell

text: human

text: Homo sapiens

text: Homo sapiens

text: multipotent adipose-derived stem cell

text: GFP-R

text: Homo sapiens

text: Sample 15


E-MTAB-12937:Sample 16

text: public

text: GFP siRNA

text: E-MTAB-12937:Sample 16

text: ArrayExpress

text: hMADS

text: fat cell

text: human

characteristic: common name

text: Protocols: hMADS adipocytes were transfected at day 10, with siRNA against PPAR alpha. hMADS adipocytes were treated with transfection reagent only at day 10. hMADS adipocytes were not transfected at day 10. phenol chloroform extraction PolyA library construction

text: Homo sapiens

text: Homo sapiens

text: multipotent adipose-derived stem cell

text: GFP+R

text: Homo sapiens

text: Rosiglitazone

characteristic: stimulus

text: Sample 16

characteristic: title


E-MTAB-12937:Sample 17

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: GFP siRNA

text: E-MTAB-12937:Sample 17

text: ArrayExpress

text: hMADS

text: fat cell

text: human

text: Homo sapiens

text: Homo sapiens

text: multipotent adipose-derived stem cell

text: GFP+R

text: Homo sapiens

text: Rosiglitazone

text: Sample 17


E-MTAB-12937:Sample 18

characteristic: ENA-LAST-UPDATE

text: public

characteristic: INSDC status

text: GFP siRNA

text: E-MTAB-12937:Sample 18

text: ArrayExpress

text: hMADS

text: fat cell

text: human

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: multipotent adipose-derived stem cell

text: GFP+R

text: Homo sapiens

text: Rosiglitazone

text: Sample 18


E-MTAB-12937:Sample 19

text: public

text: PPARa siRNA

characteristic: SRA accession

text: E-MTAB-12937:Sample 19

text: ArrayExpress

characteristic: broker name

text: hMADS

text: fat cell

text: human

text: Protocols: hMADS adipocytes were transfected with control siRNA (siGFP) at day 10. hMADS adipocytes were treated with transfection reagent only at day 10. hMADS adipocytes were not transfected at day 10. hMADS white adipocytes were converted to brown adipocytes at day 14 with 100 nM of Rosiglitazone for 4 days. phenol chloroform extraction PolyA library construction

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: multipotent adipose-derived stem cell

text: PPARa-R

text: Homo sapiens

text: Sample 19


E-MTAB-12937:Sample 2

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-12937:Sample 2

text: ArrayExpress

text: hMADS

text: fat cell

text: human

text: Homo sapiens

text: Homo sapiens

text: multipotent adipose-derived stem cell

characteristic: progenitor cell type

text: NT-R

text: Homo sapiens

text: Sample 2


E-MTAB-12937:Sample 20

characteristic: External Id

text: public

text: PPARa siRNA

characteristic: RNA interference

text: E-MTAB-12937:Sample 20

text: ArrayExpress

text: hMADS

text: fat cell

text: human

text: Homo sapiens

text: Homo sapiens

text: multipotent adipose-derived stem cell

text: PPARa-R

characteristic: replicate

text: Homo sapiens

text: Sample 20


E-MTAB-12937:Sample 21

text: public

text: PPARa siRNA

text: E-MTAB-12937:Sample 21

characteristic: Submitter Id

text: ArrayExpress

text: hMADS

text: fat cell

text: human

characteristic: common name

text: Homo sapiens

text: Homo sapiens

text: multipotent adipose-derived stem cell

text: PPARa-R

text: Homo sapiens

text: Sample 21


E-MTAB-12937:Sample 22

characteristic: INSDC center name

text: public

text: PPARa siRNA

text: E-MTAB-12937:Sample 22

text: ArrayExpress

text: hMADS

text: fat cell

text: human

text: Protocols: hMADS adipocytes were transfected with control siRNA (siGFP) at day 10. hMADS adipocytes were treated with transfection reagent only at day 10. hMADS adipocytes were not transfected at day 10. phenol chloroform extraction PolyA library construction

text: Homo sapiens

text: Homo sapiens

text: multipotent adipose-derived stem cell

text: PPARa+R

text: Homo sapiens

text: Rosiglitazone

characteristic: stimulus

text: Sample 22

characteristic: title