characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: UCL

text: public

text: ArrayExpress

text: not collected

text: human

text: Protocols: Lung tissue for this project was obtained from the MRC-Wellcome Trust Human Developmental Biology Resource (https://www.hdbr.org). The HDBR obtain human embryonic and fetal samples from medical or surgical terminations of pregnancy. We requested lung tissue samples from fetuses aged between 8 and 20 post-conception weeks (pcw). We received whole lungs or lung fragments in refrigerated Hibernate E medium. Any trachea or non-lung tissue was removed by dissection. After removing culture medium from organoids and washing with PBS, 1 ml ice-cold Matrigel Cell Recovery Solution (Corning, 354253) was added per well and incubated for 45 min at 4°C. Organoids were washed with ice-cold PBS, centrifuged at 200 g, 4°C, then utilized in subsequent experiments. For RNA extraction, organoids were lysed in 350 μl RLT buffer and total RNA was extracted using the RNeasy Mini Kit (Qiagen), according to manufacturer’s instructions. RNA yields were measured using Nanodrop 1000. Single-cell gene expression organoid libraries were built using 10X Chromium Single Cell 5' v2 kit. CD45+ cells were thawed and counted, assessing viability using Trypan Blue. Cells were stained using the TotalSeq™- C antibody panel (Biolegend) where possible (some samples were not stained), prior to immediate processing for 10x 5’ single-cell capture using the Chromium Next GEM Single Cell V(D)J Reagent Kit, v 1.1, according to the manufacturer’s protocol. The Chromium Next GEM Single Cell V(D)J Reagent Kit, v 1.1 was used for scRNAseq library construction for unstained samples.  The manufacturer’s protocol (10X Genomics) was followed using individual Chromium i7 Samples Indices. abTCR or BCR enrichment

text: normal

characteristic: disease

text: not collected

text: control organoid of human embryo

characteristic: growth condition

characteristic: individual

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: lung

text: 10x 5' v2

text: Homo sapiens

text: male


status: PUBLIC

tag: attribute

text: UCL

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

unit: week

characteristic: age

text: ArrayExpress

characteristic: broker name

text: not collected

characteristic: collection date

text: human

characteristic: common name

characteristic: description

characteristic: developmental stage

text: normal

text: not collected

characteristic: geographic location (country and/or sea)

text: IL-1β organoid of human embryo

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

characteristic: organism part

text: 10x 5' v2

characteristic: protocol

text: Homo sapiens

text: male

characteristic: sex

characteristic: title


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: UCL

text: public

text: ArrayExpress

text: not collected

text: human

text: normal

characteristic: disease

text: not collected

text: IL-13 organoid of human embryo

characteristic: growth condition

characteristic: individual

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: lung

text: 10x 5' v2

text: Homo sapiens

text: male


text: UCL

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: 12 pcw

characteristic: age

text: ArrayExpress

characteristic: broker name

text: not collected

text: human

text: Protocols: Lung tissue for this project was obtained from the MRC-Wellcome Trust Human Developmental Biology Resource (https://www.hdbr.org). The HDBR obtain human embryonic and fetal samples from medical or surgical terminations of pregnancy. We requested lung tissue samples from fetuses aged between 8 and 20 post-conception weeks (pcw). We received whole lungs or lung fragments in refrigerated Hibernate E medium. Any trachea or non-lung tissue was removed by dissection. To enrich lung samples for CD45+ immune cells, we utilised fluorescence activated cell sorting (FACS). Cells were first blocked, to prevent non-specific antibody binding, using Human TruStain FcX (Biolegend, 422301) and then stained for 30 minutes on ice, using flurochrome-conjugated antibodies, CD45-PE, CD31-BV421, EpCAM-APC and CD235a-FITC. After staining, cells were resuspended in buffer containing DAPI, to enable the determination of live versus dead cells. FACS was performed on a BD FACS Aria. Appropriate ‘fluorescence minus one’ controls were used to determine FACS gating. Samples were gated to allow the collection of live single cells that were negative for CD235a (red blood cells), CD31 (endothelial cells) and EpCAM (epithelial cells), and positive for CD45 (immune cells). CD45+ immune cells were frozen prior to CITE-Seq or scRNAseq. Nucleic acid was extracted according to the standard protocol of the Chromium single cell 5'V1 kit. abTCR or BCR enrichment

text: embryo stage

text: normal

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: abTCR

text: Homo sapiens

text: male


text: UCL

text: public

text: ArrayExpress

text: not collected

characteristic: collection date

text: human

characteristic: common name

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

text: not collected

characteristic: geographic location (country and/or sea)

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

text: abTCR

text: Homo sapiens

text: male


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: UCL

text: public

text: ArrayExpress

text: not collected

text: human

text: embryo stage

text: normal

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

characteristic: organism part

text: abTCR

characteristic: protocol

text: Homo sapiens

text: female

characteristic: sex

characteristic: title


text: UCL

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ArrayExpress

text: not collected

text: human

text: embryo stage

text: normal

characteristic: disease

text: not collected

characteristic: growth condition

text: HDBR 14732+ 14776+14794+14787+14806+15024

characteristic: individual

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: lung

text: abTCR

text: Homo sapiens

text: Mixed


text: UCL

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: not collected

characteristic: collection date

text: human

characteristic: common name

text: embryo stage

text: normal

text: not collected

text: HDBR 15332+15383

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: abTCR

text: Homo sapiens

text: male


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: UCL

text: public

text: ArrayExpress

text: not collected

text: human

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

text: not collected

characteristic: geographic location (country and/or sea)

text: HDBR 15503+15404

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

text: abTCR

text: Homo sapiens

text: Mixed


text: UCL

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: 20 pcw

text: ArrayExpress

text: not collected

text: human

text: embryo stage

text: normal

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

characteristic: organism part

text: abTCR

characteristic: protocol

text: Homo sapiens

text: female

characteristic: sex

characteristic: title


text: UCL

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: 12 pcw

text: ArrayExpress

text: not collected

text: human

text: embryo stage

text: normal

characteristic: disease

text: not collected

characteristic: growth condition

characteristic: individual

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: lung

text: abTCR

text: Homo sapiens

text: female


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: UCL

text: public

text: 12 pcw

characteristic: age

text: ArrayExpress

characteristic: broker name

text: not collected

characteristic: collection date

text: human

characteristic: common name

text: embryo stage

text: normal

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: abTCR

text: Homo sapiens


text: UCL

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: 20 pcw

text: ArrayExpress

text: not collected

text: human

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

text: not collected

characteristic: geographic location (country and/or sea)

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

text: abTCR

text: Homo sapiens

text: Mixed


text: UCL

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: 20 pcw

text: ArrayExpress

text: not collected

text: human

text: embryo stage

text: normal

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

characteristic: organism part

text: abTCR

characteristic: protocol

text: Homo sapiens

text: male

characteristic: sex

characteristic: title


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: UCL

text: public

text: 12 pcw

text: ArrayExpress

text: not collected

text: human

text: embryo stage

text: normal

characteristic: disease

text: not collected

characteristic: growth condition

characteristic: individual

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: lung

text: BCR

text: Homo sapiens

text: male


text: UCL

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: age

text: ArrayExpress

characteristic: broker name

text: not collected

characteristic: collection date

text: human

characteristic: common name

text: embryo stage

text: normal

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: BCR

text: Homo sapiens

text: male


text: UCL

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: not collected

text: human

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

text: not collected

characteristic: geographic location (country and/or sea)

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

text: BCR

text: Homo sapiens

text: Mixed


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: UCL

text: public

text: ArrayExpress

text: not collected

text: human

text: embryo stage

text: normal

text: not collected

text: HDBR 15332+15383

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

characteristic: organism part

text: BCR

characteristic: protocol

text: Homo sapiens

text: male

characteristic: sex

characteristic: title


text: UCL

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: 20 pcw

text: ArrayExpress

text: not collected

text: human

text: embryo stage

text: normal

characteristic: disease

text: not collected

characteristic: growth condition

characteristic: individual

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: lung

text: BCR

text: Homo sapiens

text: female


text: UCL

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: 12 pcw

characteristic: age

text: ArrayExpress

characteristic: broker name

text: not collected

characteristic: collection date

text: human

characteristic: common name

text: embryo stage

text: normal

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: BCR

text: Homo sapiens

text: female


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: UCL

text: public

text: 20 pcw

text: ArrayExpress

text: not collected

text: human

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

text: not collected

characteristic: geographic location (country and/or sea)

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

text: BCR

text: Homo sapiens

text: Mixed


text: UCL

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: 12 pcw

text: ArrayExpress

text: not collected

text: human

text: embryo stage

text: normal

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

characteristic: organism part

text: CITE

characteristic: protocol

text: Homo sapiens

text: male

characteristic: sex

characteristic: title


text: UCL

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: not collected

text: human

text: embryo stage

text: normal

characteristic: disease

text: not collected

characteristic: growth condition

characteristic: individual

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: lung

text: CITE

text: Homo sapiens

text: Mixed


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: UCL

text: public

characteristic: age

text: ArrayExpress

characteristic: broker name

text: not collected

characteristic: collection date

text: human

characteristic: common name

text: embryo stage

text: normal

text: not collected

text: HDBR 15332+15383

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: CITE

text: Homo sapiens

text: male


text: UCL

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ArrayExpress

text: not collected

text: human

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

text: not collected

characteristic: geographic location (country and/or sea)

text: HDBR 15503+15404

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

text: CITE

text: Homo sapiens

text: Mixed


text: UCL

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: 20 pcw

text: ArrayExpress

text: not collected

text: human

text: embryo stage

text: normal

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

characteristic: organism part

text: CITE

characteristic: protocol

text: Homo sapiens

text: Mixed

characteristic: sex

characteristic: title


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: UCL

text: public

text: ArrayExpress

text: not collected

text: human

text: Protocols: Lung tissue for this project was obtained from the MRC-Wellcome Trust Human Developmental Biology Resource (https://www.hdbr.org). The HDBR obtain human embryonic and fetal samples from medical or surgical terminations of pregnancy. We requested lung tissue samples from fetuses aged between 8 and 20 post-conception weeks (pcw). We received whole lungs or lung fragments in refrigerated Hibernate E medium. Any trachea or non-lung tissue was removed by dissection. To enrich lung samples for CD45+ immune cells, we utilised fluorescence activated cell sorting (FACS). Cells were first blocked, to prevent non-specific antibody binding, using Human TruStain FcX (Biolegend, 422301) and then stained for 30 minutes on ice, using flurochrome-conjugated antibodies, CD45-PE, CD31-BV421, EpCAM-APC and CD235a-FITC. After staining, cells were resuspended in buffer containing DAPI, to enable the determination of live versus dead cells. FACS was performed on a BD FACS Aria. Appropriate ‘fluorescence minus one’ controls were used to determine FACS gating. Samples were gated to allow the collection of live single cells that were negative for CD235a (red blood cells), CD31 (endothelial cells) and EpCAM (epithelial cells), and positive for CD45 (immune cells). CD45+ immune cells were frozen prior to CITE-Seq or scRNAseq. Nucleic acid was extracted according to the standard protocol of the Chromium single cell 5'V1 kit. abTCR or BCR enrichment γδ TCR V(D)J libraries were prepared as previously described by Mimitou et al. 2019 https://www.nature.com/articles/s41592-019-0392-0

text: embryo stage

text: normal

characteristic: disease

text: not collected

characteristic: growth condition

characteristic: individual

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: lung

text: gdTCR

text: Homo sapiens

text: Mixed


text: UCL

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: age

text: ArrayExpress

characteristic: broker name

text: not collected

characteristic: collection date

text: human

characteristic: common name

text: embryo stage

text: normal

text: not collected

text: HDBR 15332+15383

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: gdTCR

text: Homo sapiens

text: male


text: UCL

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: 20 pcw

text: ArrayExpress

text: not collected

text: human

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

text: not collected

characteristic: geographic location (country and/or sea)

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

text: gdTCR

text: Homo sapiens

text: Mixed


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: UCL

text: public

text: 20 pcw

text: ArrayExpress

text: not collected

text: human

text: embryo stage

text: normal

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

characteristic: organism part

text: gdTCR

characteristic: protocol

text: Homo sapiens

text: male

characteristic: sex

characteristic: title


text: UCL

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: 12 pcw

text: ArrayExpress

text: not collected

text: human

text: Protocols: Lung tissue for this project was obtained from the MRC-Wellcome Trust Human Developmental Biology Resource (https://www.hdbr.org). The HDBR obtain human embryonic and fetal samples from medical or surgical terminations of pregnancy. We requested lung tissue samples from fetuses aged between 8 and 20 post-conception weeks (pcw). We received whole lungs or lung fragments in refrigerated Hibernate E medium. Any trachea or non-lung tissue was removed by dissection. To enrich lung samples for CD45+ immune cells, we utilised fluorescence activated cell sorting (FACS). Cells were first blocked, to prevent non-specific antibody binding, using Human TruStain FcX (Biolegend, 422301) and then stained for 30 minutes on ice, using flurochrome-conjugated antibodies, CD45-PE, CD31-BV421, EpCAM-APC and CD235a-FITC. After staining, cells were resuspended in buffer containing DAPI, to enable the determination of live versus dead cells. FACS was performed on a BD FACS Aria. Appropriate ‘fluorescence minus one’ controls were used to determine FACS gating. Samples were gated to allow the collection of live single cells that were negative for CD235a (red blood cells), CD31 (endothelial cells) and EpCAM (epithelial cells), and positive for CD45 (immune cells). CD45+ immune cells were frozen prior to CITE-Seq or scRNAseq. Nucleic acid was extracted according to the standard protocol of the Chromium single cell 5'V1 kit. CD45+ cells were thawed and counted, assessing viability using Trypan Blue. Cells were stained using the TotalSeq™- C antibody panel (Biolegend) where possible (some samples were not stained), prior to immediate processing for 10x 5’ single-cell capture using the Chromium Next GEM Single Cell V(D)J Reagent Kit, v 1.1, according to the manufacturer’s protocol. The Chromium Next GEM Single Cell V(D)J Reagent Kit, v 1.1 was used for scRNAseq library construction for unstained samples.  abTCR or BCR enrichment

text: embryo stage

text: normal

characteristic: disease

text: not collected

characteristic: growth condition

characteristic: individual

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: lung

text: GEX

text: Homo sapiens

text: male


text: UCL

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: not collected

characteristic: collection date

text: human

characteristic: common name

text: embryo stage

text: normal

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: GEX

text: Homo sapiens

text: Mixed


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: UCL

text: public

text: ArrayExpress

text: not collected

text: human

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

text: not collected

characteristic: geographic location (country and/or sea)

text: HDBR 15332+15383

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

text: GEX

text: Homo sapiens

text: male


text: UCL

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ArrayExpress

text: not collected

text: human

text: embryo stage

text: normal

text: not collected

text: HDBR 15503+15404

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

characteristic: organism part

text: GEX

characteristic: protocol

text: Homo sapiens

text: Mixed

characteristic: sex

characteristic: title


text: UCL

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: 20 pcw

text: ArrayExpress

text: not collected

text: human

text: embryo stage

text: normal

characteristic: disease

text: not collected

characteristic: growth condition

characteristic: individual

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: lung

text: GEX

text: Homo sapiens

text: Mixed


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: UCL

text: public

characteristic: age

text: ArrayExpress

characteristic: broker name

text: not collected

characteristic: collection date

text: human

characteristic: common name

text: Protocols: Lung tissue for this project was obtained from the MRC-Wellcome Trust Human Developmental Biology Resource (https://www.hdbr.org). The HDBR obtain human embryonic and fetal samples from medical or surgical terminations of pregnancy. We requested lung tissue samples from fetuses aged between 8 and 20 post-conception weeks (pcw). We received whole lungs or lung fragments in refrigerated Hibernate E medium. Any trachea or non-lung tissue was removed by dissection. To enrich lung samples for CD45+ immune cells, we utilised fluorescence activated cell sorting (FACS). Cells were first blocked, to prevent non-specific antibody binding, using Human TruStain FcX (Biolegend, 422301) and then stained for 30 minutes on ice, using flurochrome-conjugated antibodies, CD45-PE, CD31-BV421, EpCAM-APC and CD235a-FITC. After staining, cells were resuspended in buffer containing DAPI, to enable the determination of live versus dead cells. FACS was performed on a BD FACS Aria. Appropriate ‘fluorescence minus one’ controls were used to determine FACS gating. Samples were gated to allow the collection of live single cells that were negative for CD235a (red blood cells), CD31 (endothelial cells) and EpCAM (epithelial cells), and positive for CD45 (immune cells). CD45+ immune cells were frozen prior to CITE-Seq or scRNAseq. Nucleic acid was extracted according to the standard protocol of the Chromium single cell 5'V1 kit. abTCR or BCR enrichment 10X targeted scRNA-seq (discontinued now) with immunology gene panel

text: embryo stage

text: normal

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens

text: male


text: UCL

characteristic: INSDC center name

text: public

characteristic: INSDC status

text: ArrayExpress

text: not collected

text: human

characteristic: description

text: embryo stage

characteristic: developmental stage

text: normal

text: not collected

characteristic: geographic location (country and/or sea)

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

text: Homo sapiens

text: Mixed


text: UCL

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: not collected

text: human

text: embryo stage

text: normal

text: not collected

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

characteristic: organism part

characteristic: protocol

text: Homo sapiens

text: female

characteristic: sex

characteristic: title


characteristic: ENA first public

characteristic: ENA-CHECKLIST

text: UCL

text: public

text: ArrayExpress

text: not collected

text: human

text: embryo stage

text: normal

characteristic: disease

text: not collected

characteristic: growth condition

text: HDBR 15503+15404

characteristic: individual

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens

text: Mixed


text: UCL

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: age

text: ArrayExpress

characteristic: broker name

text: not collected

characteristic: collection date

text: human

characteristic: common name

text: embryo stage

text: normal

text: not collected

text: HDBR 15503

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: lung

text: Homo sapiens


characteristic: Contains RNA extracts (sample codes)

characteristic: Cq (N1)

characteristic: Cq (N2)

characteristic: DNA concentration (Qubit)

characteristic: Date of amplification (ARTIC)

characteristic: Date of sending/transfer to sequencing location

characteristic: External Id

characteristic: Forward file name

text: National Institute of Biology

characteristic: INSDC last update

text: public

characteristic: No. replicate

characteristic: Reverse file name

characteristic: SRA accession

text: Department of Endocrinology, Diabetes and Metabolism, University Children's Hospital, University Medical Centre Ljubljana

characteristic: Sequenced where/how

text: INEXTVIR -20

characteristic: Storage location at NIB

tag: Namespace:National Institute of Biology

characteristic: Submitter Id

text: Sequenced wastewater sample from Central WWTP Maribor 2

characteristic: description

text: wastewater treatment plant influent

characteristic: environment (biome)

text: wastewater treatment plant

characteristic: environment (feature)

text: wastewater treatment plant influent

characteristic: environment (material)

text: Slovenia

characteristic: geographic location (country and/or sea)

unit: DD

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: virus

characteristic: investigation type

text: Severe acute respiratory syndrome coronavirus 2

characteristic: organism

text: Sequencing of Slovenian WW samples for SARS-CoV-2 variant detection

characteristic: project name

text: Illumina

characteristic: sequencing method

text: wastewater/sludge

characteristic: wastewater/sludge environmental package


text: Yeast

characteristic: ArrayExpress-PHENOTYPE

text: unknown

characteristic: ArrayExpress-SEX

text: Saccharomyces cerevisiae

characteristic: ArrayExpress-SPECIES

characteristic: ENA first public

characteristic: ENA-CHECKLIST

characteristic: External Id

text: Unknown

characteristic: GENDER

text: SC

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Yeast

characteristic: PHENOTYPE

text: baker's yeast

characteristic: common name

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

characteristic: title


Photobacterium phosphoreum S1

text: Norweian University of Life Sciences

text: public

characteristic: SRA accession

text: Photobacterium phosphoreum S1

tag: Namespace:Norweian University of Life Sciences

characteristic: Submitter Id

text: Christian Rene Karlsen

text: Bacterial isolate

characteristic: description

text: Norway

characteristic: geographic location (country and/or sea)

text: Salmo salar

characteristic: host scientific name

text: no provided

characteristic: isolate

text: Salmo salar gut

text: Photobacterium arenosum

characteristic: organism

text: Photobacterium arenosum


characteristic: ENA first public

text: public

tag: Namespace:University of Oxford, Sir William Dunn School of Pathology

text: human

text: Fastq.gz file containing R2 reads from paired-end sequencing of RNA from pre-treatment sample 01 from patient B2

text: not applicable

characteristic: engrafted tumor sample passage

text: Homo sapiens

characteristic: patient age at collection of tumor

text: Male

characteristic: patient sex

characteristic: patient tumor diagnosis at time of collection

characteristic: patient tumor primary site

characteristic: patient tumor site of collection

text: Metastatic Neoplasm

characteristic: patient tumor type

text: tissue fragment

characteristic: sample material

text: Patient tumor

characteristic: sample origin

text: Homo sapiens

characteristic: sample taxon name

characteristic: sample unique ID

text: Homo sapiens

text: Patient B2 pre-treatment R2 reads for sample 01


characteristic: ENA-CHECKLIST

characteristic: External Id

text: University of Oxford, Sir William Dunn School of Pathology

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: human

characteristic: common name

text: Fastq.gz file containing R2 reads from paired-end sequencing of RNA from pre-treatment sample 02 from patient B2

characteristic: description

text: not applicable

text: Homo sapiens

text: Male

text: Metastatic Neoplasm

text: tissue fragment

text: Patient tumor

text: Homo sapiens

text: MM503_02_replacement_S125_R2_001.fastq.gz

text: Homo sapiens

text: Patient B2 pre-treatment R2 reads for sample 02

characteristic: title


characteristic: ENA first public

text: public

text: human

text: Fastq.gz file containing R2 reads from paired-end sequencing of RNA from pre-treatment sample 03 from patient B2

text: not applicable

characteristic: engrafted tumor sample passage

text: Homo sapiens

characteristic: organism

characteristic: patient age at collection of tumor

text: Male

characteristic: patient sex

characteristic: patient tumor diagnosis at time of collection

characteristic: patient tumor primary site

text: Metastatic Neoplasm

text: tissue fragment

text: Patient tumor

text: Homo sapiens

text: MM503_03_replacement_S126_R2_001.fastq.gz

text: Homo sapiens

text: Patient B2 pre-treatment R2 reads for sample 03


characteristic: ENA-CHECKLIST

text: public

text: human

text: Fastq.gz file containing R2 reads from paired-end sequencing of RNA from post-treatment sample PT1 from patient B2

text: not applicable

text: Homo sapiens

text: Male

characteristic: patient tumor site of collection

text: Metastatic Neoplasm

characteristic: patient tumor type

text: tissue fragment

characteristic: sample material

text: Patient tumor

characteristic: sample origin

text: Homo sapiens

characteristic: sample taxon name

characteristic: sample unique ID

text: Homo sapiens

text: Patient B2 post-treatment R2 reads for sample PT1


characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: human

characteristic: common name

text: Fastq.gz file containing R2 reads from paired-end sequencing of RNA from post-treatment sample PT2 from patient B2

text: not applicable

text: Homo sapiens

text: Male

text: Metastatic Neoplasm

text: tissue fragment

text: Patient tumor

text: Homo sapiens

text: Homo sapiens

text: Patient B2 post-treatment R2 reads for sample PT2


characteristic: ENA first public

text: public

text: human

text: Fastq.gz file containing R2 reads from paired-end sequencing of RNA from pre-treatment sample from patient C1

characteristic: description

text: not applicable

characteristic: engrafted tumor sample passage

text: Homo sapiens

characteristic: organism

characteristic: patient age at collection of tumor

text: Male

characteristic: patient sex

text: Osteosarcom

text: Metastatic Neoplasm

text: tissue fragment

text: Patient tumor

text: Homo sapiens

text: Homo sapiens

text: Patient C1 pre-treatment R2 reads

characteristic: title


characteristic: ENA-CHECKLIST

text: public

text: human

text: Fastq.gz file containing R2 reads from paired-end sequencing of RNA from pre-treatment sample 001 from patient C2

text: not applicable

text: Homo sapiens

text: Male

characteristic: patient tumor diagnosis at time of collection

characteristic: patient tumor primary site

characteristic: patient tumor site of collection

text: Metastatic Neoplasm

characteristic: patient tumor type

text: tissue fragment

characteristic: sample material

text: Patient tumor

characteristic: sample origin

text: Homo sapiens

text: Homo sapiens

text: Patient C2 pre-treatment R2 reads for sample 001


characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: human

text: Fastq.gz file containing R2 reads from paired-end sequencing of RNA from pre-treatment sample 002 from patient C2

text: not applicable

text: Homo sapiens

text: Male

text: Metastatic Neoplasm

text: tissue fragment

text: Patient tumor

text: Homo sapiens

characteristic: sample taxon name

characteristic: sample unique ID

text: Homo sapiens

text: Patient C2 pre-treatment R2 reads for sample 002


characteristic: ENA first public

text: public

characteristic: Submitter Id

text: human

characteristic: common name

text: Fastq.gz file containing R2 reads from paired-end sequencing of RNA from pre-treatment sample 003 from patient C2

characteristic: description

text: not applicable

characteristic: engrafted tumor sample passage

text: Homo sapiens

characteristic: organism

characteristic: patient age at collection of tumor

text: Male

text: Metastatic Neoplasm

text: tissue fragment

text: Patient tumor

text: Homo sapiens

text: Homo sapiens

text: Patient C2 pre-treatment R2 reads for sample 003


characteristic: ENA-CHECKLIST

text: University of Oxford, Sir William Dunn School of Pathology

text: public

text: human

text: Fastq.gz file containing R2 reads from paired-end sequencing of RNA from pre-treatment sample Tr01 from patient C3

text: not applicable

text: Homo sapiens

text: Female

characteristic: patient sex

characteristic: patient tumor diagnosis at time of collection

characteristic: patient tumor primary site

text: Soft Tissue|NCIT:C12471|http://purl.obolibrary.org/obo/NCIT_C12471

characteristic: patient tumor site of collection

text: Metastatic Neoplasm

characteristic: patient tumor type

text: tissue fragment

text: Patient tumor

text: Homo sapiens

text: Homo sapiens

text: Patient C3 pre-treatment R2 reads for sample Tr01

characteristic: title


characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: human

text: Fastq.gz file containing R2 reads from paired-end sequencing of RNA from pre-treatment sample Tr02 from patient C3

text: not applicable

text: Homo sapiens

text: Female

text: Metastatic Neoplasm

text: tissue fragment

characteristic: sample material

text: Patient tumor

characteristic: sample origin

text: Homo sapiens

text: Homo sapiens

text: Patient C3 pre-treatment R2 reads for sample Tr02


characteristic: ENA first public

text: public

tag: Namespace:WAGENINGEN UNIVERSITY, LABORATORY OF MICROBIOLOGY

characteristic: Submitter Id

text: SPAdes

characteristic: assembly software

text: default

characteristic: binning parameters

text: MetaWRAP

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: CheckM

characteristic: completeness software

characteristic: contamination score

text: binned metagenome DOM10_77

characteristic: description

text: ocean floor

characteristic: environment (biome)

text: marine sponge

characteristic: environment (feature)

text: marine sponge tissue

characteristic: environment (material)

text: Dominica

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: marine sponge metagenome

text: sponge metagenome

characteristic: metagenomic source

text: Candidatus Tectomicrobia bacterium AG-2022

text: COSMos

characteristic: project name

characteristic: sample derived from

text: Illumina

characteristic: sequencing method

text: multi-marker approach

characteristic: taxonomic identity marker