text: NVRI

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: POL

characteristic: SRA accession

characteristic: Submitter Id

text: DTU-GE

characteristic: broker name

text: NVRI

characteristic: collected by

text: No

text: Escherichia

text: Poland

text: Poland

text: other (non-clinical isolate)

text: No

characteristic: isolate

text: cattle

text: cattle

text: Escherichia coli

text: Escherichia coli

characteristic: strain


status: PUBLIC

tag: attribute

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: NVRI

characteristic: INSDC center name

text: public

text: POL

text: DTU-GE

text: NVRI

characteristic: collection date

text: No

characteristic: environmental sample

text: Escherichia

characteristic: genus

text: Poland

characteristic: geo loc name

text: Poland

characteristic: geographic location (country and/or sea)

unit: DD

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: other (non-clinical isolate)

characteristic: host

text: No

characteristic: is the sequenced pathogen host associated?

text: turkey

characteristic: isolation source non-host-associated

text: turkey

text: Escherichia coli

characteristic: organism

text: Escherichia coli

type: has member

type: AMR curated data - CABBAGE

value: colistin

value: broth dilution

value: mg/L

value: Escherichia coli


text: NVRI

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: POL

characteristic: SRA accession

characteristic: Submitter Id

text: DTU-GE

characteristic: broker name

text: NVRI

characteristic: collected by

text: No

text: Escherichia

text: Poland

text: Poland

text: other (non-clinical isolate)

text: No

characteristic: isolate

text: pig

text: pig

text: Escherichia coli

text: Escherichia coli

characteristic: strain


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: NVRI

characteristic: INSDC center name

text: public

text: DTU-GE

text: NVRI

characteristic: collection date

text: No

characteristic: environmental sample

text: Poland

characteristic: geo loc name

text: Poland

text: No

text: Gallus gallus

text: Salmonella enterica

text: Salmonella enterica

text: Enteritidis

characteristic: serovar


text: NVRI

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: DTU-GE

text: NVRI

text: No

text: Poland

text: Poland

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: No

characteristic: is the sequenced pathogen host associated?

text: intestines

characteristic: isolation source non-host-associated

text: Salmonella enterica

characteristic: organism

text: Salmonella enterica

text: Typhimurium


characteristic: ENA-CHECKLIST

text: NVRI

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: DTU-GE

characteristic: broker name

text: NVRI

characteristic: collected by

text: No

text: Poland

text: Poland

text: No

characteristic: isolate

text: Natrix natrix

text: Salmonella enterica

text: Salmonella enterica

text: IIIb 48:k:z57

characteristic: strain


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: NVRI

characteristic: INSDC center name

text: public

text: DTU-GE

text: NVRI

characteristic: collection date

text: No

characteristic: environmental sample

text: Poland

characteristic: geo loc name

text: Poland

text: No

text: Natrix natrix

text: Salmonella enterica

text: Salmonella enterica

text: IIIb 21:l,v:-

characteristic: serovar


text: NVRI

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: DTU-GE

text: NVRI

text: No

text: Poland

text: Poland

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: No

characteristic: is the sequenced pathogen host associated?

text: Natrix natrix

characteristic: isolation source non-host-associated

text: Salmonella enterica

characteristic: organism

text: Salmonella enterica

text: IIIb 48:k:z53:z57


characteristic: ENA-CHECKLIST

text: NVRI

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: DTU-GE

characteristic: broker name

text: NVRI

characteristic: collected by

text: No

text: Poland

text: Poland

text: No

characteristic: isolate

text: duck

text: Salmonella enterica

text: Salmonella enterica

text: Senftenberg/Dessau

characteristic: strain


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: NVRI

characteristic: INSDC center name

text: public

text: DTU-GE

text: NVRI

characteristic: collection date

text: No

characteristic: environmental sample

text: Poland

characteristic: geo loc name

text: Poland

text: No

text: Natrix natrix

text: Salmonella enterica

text: Salmonella enterica

text: Sunnycove

characteristic: serovar


text: NVRI

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: DTU-GE

text: NVRI

text: No

text: Poland

text: Poland

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: No

characteristic: is the sequenced pathogen host associated?

text: feed

characteristic: isolation source non-host-associated

text: Salmonella enterica

characteristic: organism

text: Salmonella enterica

text: Senftenberg/Dessau


characteristic: ENA-CHECKLIST

text: NVRI

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: DTU-GE

characteristic: broker name

text: NVRI

characteristic: collected by

text: No

text: Poland

text: Poland

text: No

characteristic: isolate

text: Ovis aries

text: Salmonella enterica

text: Salmonella enterica

text: IIIb 61:k:1,5

characteristic: strain


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: NVRI

characteristic: INSDC center name

text: public

text: DTU-GE

text: NVRI

characteristic: collection date

text: No

characteristic: environmental sample

text: Poland

characteristic: geo loc name

text: Poland

text: No

text: Natrix natrix

text: Salmonella enterica

text: Salmonella enterica

text: IIIb 48:k:-

characteristic: serovar


text: NVRI

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: DTU-GE

text: NVRI

text: No

text: Poland

text: Poland

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: No

characteristic: is the sequenced pathogen host associated?

text: feed

characteristic: isolation source non-host-associated

text: Salmonella enterica

characteristic: organism

text: Salmonella enterica

text: I 1,3,19:-:-:z27


characteristic: ENA-CHECKLIST

text: NVRI

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: DTU-GE

characteristic: broker name

text: NVRI

characteristic: collected by

text: No

text: Poland

text: Poland

text: No

characteristic: isolate

text: turtle

text: Salmonella enterica

text: Salmonella enterica

text: I 4:d:-

characteristic: strain


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: NVRI

characteristic: INSDC center name

text: public

text: DTU-GE

text: NVRI

characteristic: collection date

text: No

characteristic: environmental sample

text: Poland

characteristic: geo loc name

text: Poland

text: No

text: Gallus gallus

text: Salmonella enterica

text: Salmonella enterica

text: Senftenberg/Dessau

characteristic: serovar


text: NVRI

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: DTU-GE

text: NVRI

text: No

text: Poland

text: Poland

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: No

characteristic: is the sequenced pathogen host associated?

text: feed

characteristic: isolation source non-host-associated

text: Salmonella enterica

characteristic: organism

text: Salmonella enterica

text: I 4:d:-


characteristic: ENA-CHECKLIST

text: NVRI

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: DTU-GE

characteristic: broker name

text: NVRI

characteristic: collected by

text: No

text: Poland

text: Poland

text: No

characteristic: isolate

text: pig

text: Salmonella enterica

text: Salmonella enterica

text: I 1,4,5,12:i:-

characteristic: strain


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: NVRI

characteristic: INSDC center name

text: public

text: DTU-GE

text: NVRI

characteristic: collection date

text: No

characteristic: environmental sample

text: Poland

characteristic: geo loc name

text: Poland

text: No

text: Natrix natrix

text: Salmonella enterica

text: Salmonella enterica

text: IIIb 48:k:z53

characteristic: serovar


text: NVRI

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: DTU-GE

text: NVRI

text: No

text: Poland

text: Poland

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: No

characteristic: is the sequenced pathogen host associated?

text: intestines

characteristic: isolation source non-host-associated

text: Escherichia coli

characteristic: organism

text: Escherichia coli


characteristic: ENA-CHECKLIST

text: NVRI

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: DTU-GE

characteristic: broker name

text: NVRI

characteristic: collected by

text: No

text: Poland

text: Poland

text: No

characteristic: isolate

text: Dama dama

text: Escherichia coli

text: Escherichia coli

characteristic: strain


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: NVRI

characteristic: INSDC center name

text: public

text: DTU-GE

text: NVRI

characteristic: collection date

text: No

characteristic: environmental sample

text: Poland

characteristic: geo loc name

text: Poland

text: No

text: Capreolus capreolus

text: Escherichia coli

text: Escherichia coli


text: NVRI

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: DTU-GE

text: NVRI

text: No

text: Poland

text: Poland

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: No

characteristic: is the sequenced pathogen host associated?

text: Cervus elaphus

characteristic: isolation source non-host-associated

text: Escherichia coli

text: Escherichia coli


characteristic: ENA-CHECKLIST

text: NVRI

text: public

characteristic: INSDC status

text: POL

characteristic: SRA accession

characteristic: Submitter Id

text: DTU-GE

characteristic: broker name

text: NVRI

characteristic: collected by

text: No

text: Escherichia

characteristic: genus

text: Poland

text: Poland

text: other (non-clinical isolate)

characteristic: host

text: No

text: chicken

text: chicken

text: Escherichia coli

characteristic: organism

text: Escherichia coli


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: NVRI

characteristic: INSDC center name

text: public

text: POL

text: DTU-GE

text: NVRI

characteristic: collection date

text: No

characteristic: environmental sample

text: Escherichia

text: Poland

characteristic: geo loc name

text: Poland

text: other (non-clinical isolate)

text: No

characteristic: isolate

text: turkey

text: turkey

text: Escherichia coli

text: Escherichia coli

characteristic: strain


characteristic: ENA-CHECKLIST

text: NVRI

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: DTU-GE

text: NVRI

text: No

text: Poland

text: Poland

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: No

characteristic: is the sequenced pathogen host associated?

text: Gallus gallus

characteristic: isolation source non-host-associated

text: Salmonella enterica

text: Salmonella enterica

text: Enteritidis

characteristic: serovar


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: NVRI

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: DTU-GE

characteristic: broker name

text: NVRI

characteristic: collected by

text: No

text: Poland

text: Poland

text: No

text: Gallus gallus

text: Salmonella enterica

characteristic: organism

text: Salmonella enterica

text: monophasic S. Typhimurium


characteristic: ENA-CHECKLIST

text: NVRI

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: DTU-GE

text: NVRI

characteristic: collection date

text: No

characteristic: environmental sample

text: Poland

characteristic: geo loc name

text: Poland

text: No

characteristic: isolate

text: chicken

text: Escherichia coli

text: Escherichia coli

characteristic: strain


text: NVRI

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: DTU-GE

text: NVRI

text: No

text: Poland

text: Poland

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: No

characteristic: is the sequenced pathogen host associated?

text: intestines

characteristic: isolation source non-host-associated

text: Salmonella enterica

text: Salmonella enterica

text: I Salmonella spp. (rough)

characteristic: serovar


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: NVRI

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: DTU-GE

characteristic: broker name

text: NVRI

characteristic: collected by

text: No

text: Poland

text: Poland

text: No

text: turkey

text: Salmonella enterica

characteristic: organism

text: Salmonella enterica

text: Newport


characteristic: ENA-CHECKLIST

text: NVRI

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: DTU-GE

text: NVRI

characteristic: collection date

text: No

characteristic: environmental sample

text: Poland

characteristic: geo loc name

text: Poland

text: No

characteristic: isolate

text: reptile

text: Salmonella enterica

text: Salmonella enterica

text: II 18:z4,z23:-

characteristic: strain


text: NVRI

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: DTU-GE

text: NVRI

text: No

text: Poland

text: Poland

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: No

characteristic: is the sequenced pathogen host associated?

text: Gallus gallus

characteristic: isolation source non-host-associated

text: Salmonella enterica

text: Salmonella enterica

text: Schleissheim

characteristic: serovar


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: IED

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: mycelium 24h

characteristic: dev stage

text: Podospora anserina

characteristic: organism

text: Podospora anserina

text: RNAseq of Podospora anserina strain S mycelium 24h

characteristic: title


characteristic: ENA-CHECKLIST

text: IED

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: mycelium 96h

text: Podospora anserina

text: Podospora anserina

text: RNAseq of Podospora anserina strain S mycelium 96h


text: IED

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: perithecium 48h

text: Podospora anserina

text: Podospora anserina

text: RNAseq of Podospora anserina strain S perithecia 48h


text: IED

text: public

text: perithecium 96h

text: Podospora anserina

text: Podospora anserina

text: RNAseq of Podospora anserina strain S perithecia 96h


text: IED

text: public

text: mycelium 8h after ascospore germination

text: Podospora anserina

text: Podospora anserina

text: RNAseq of Podospora anserina strain S mycelium 8h after ascospore germination


ascospores

text: IED

text: public

text: ascospores

text: ungerminated ascospores

text: Podospora anserina

text: Podospora anserina

text: RNAseq of Podospora anserina strain S ungerminated ascospores


text: IED

text: public

text: mycelium 24h and 96h and perithecium 48h and 96h

text: Podospora anserina

text: Podospora anserina

text: RNAseq of Podospora anserina strain S mycelium 24h and 96h and perithecia 48h and 96h


text: IED

text: public

text: mycelium from 8h two 96h

text: Podospora anserina

text: Podospora anserina

text: RNAseq of Podospora anserina strain S Germinating Ascospores (8 hours) + 1-day-old mycelium + 4-day-old mycelium


text: melanoma

characteristic: ArrayExpress-Phenotype

text: Homo Sapien

characteristic: ArrayExpress-Species

text: SC

text: public

text: human

characteristic: common name

text: Homo sapiens

text: Homo sapiens


text: Skin Cells

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Tumour

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Salivary Gland Cell-line

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Head and Neck Carcinoma

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Cell Line DNA

characteristic: sample description

text: Homo sapiens


text: Pharynx Squamous Cell

text: Homo sapiens

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Squamous Cell

text: Homo sapiens

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Colorectal

text: male

characteristic: ArrayExpress-Sex

text: Homo sapiens

characteristic: External Id

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Non-small cell Lung

text: Homo sapiens

text: SC

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: human

text: Homo sapiens

text: Homo sapiens


text: Lung

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

characteristic: organism

text: Homo sapiens


text: Colorectal

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens

characteristic: title


text: Melanoma

text: Homo sapiens

characteristic: ENA-CHECKLIST

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: cell line

text: Human

text: SC

characteristic: INSDC center name

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Lung

text: Homo sapiens

text: SC

characteristic: INSDC first public

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Cell pellet

text: Homo sapiens

text: SC

characteristic: INSDC last update

text: public

text: human

text: Homo sapiens

text: Tag: 17

text: Homo sapiens


text: Cell pellet

text: Homo sapiens

text: SC

text: public

characteristic: INSDC status

text: human

text: Homo sapiens

text: Tag: 18

text: Homo sapiens


text: Cell pellet

characteristic: ArrayExpress-Phenotype

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Tag: 19

text: Homo sapiens


text: Cell pellet

text: Homo sapiens

characteristic: ArrayExpress-Species

text: SC

text: public

text: human

text: Homo sapiens

text: Tag: 20

text: Homo sapiens


text: Cell Line

text: Homo sapiens

text: SC

text: public

text: human

characteristic: common name

text: Homo sapiens

text: Sanger Tag 16

text: Homo sapiens


text: Cell Line

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Sanger Tag 17

characteristic: sample description

text: Homo sapiens


text: Cell Line

text: Homo sapiens

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: human

text: Homo sapiens

text: Sanger Tag 18

text: Homo sapiens


text: Cell Line

text: Homo sapiens

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: human

text: Homo sapiens

text: Sanger Tag 19

text: Homo sapiens


text: Cell-line

text: Homo Sapien

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Mus Musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Mouse Blood cells

text: Mus musculus

text: Mus Musculus


text: Mus Musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Myeloid cells

text: Mus musculus


text: mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Mus musculus

text: MOUSE


text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: AML

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: HUMAN

text: SC

text: public

text: human

text: Homo sapiens

text: CRISPR

text: Homo sapiens

text: HOMO SAPIENS


text: Mus Musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: CRISPR

text: Mus musculus

text: MOUSE


text: MUS MUSCULUS

text: SC

text: public

text: house mouse

text: Mus musculus

text: Mus musculus

text: MUS MUSCULUS


text: HOMO SAPIENS

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: HUMAN


text: MUS MUSCULUS

text: SC

text: public

text: house mouse

text: Mus musculus

text: Mus musculus

text: MOUSE


text: Homo Sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: HOMO SAPIENS


text: HOMO SAPIENS

text: SC

text: public

text: human

text: Homo sapiens

text: ChIP DNA

text: Homo sapiens

text: HOMO SAPIENS


text: Homo Sapien

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Cell Line

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Cell line

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Colon

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Homo Sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Colon

text: male

characteristic: ArrayExpress-Sex

text: Homo Sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Epithelial Cell-line

text: Homo sapiens

characteristic: External Id

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Lung Cell-line

text: Homo sapiens

text: SC

text: public

characteristic: SRA accession

text: human

text: Homo sapiens

text: Homo sapiens


text: Homo sapiens

text: SC

text: public

characteristic: Submitter Id

text: human

text: Homo sapiens

text: Homo sapiens


text: Not provided

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

characteristic: organism

text: Homo sapiens


text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens

characteristic: title


text: Lung

text: Homo sapiens

characteristic: ENA-CHECKLIST

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Normal

text: Homo sapiens

text: SC

characteristic: INSDC center name

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Breast Cell-line

text: Homo sapiens

text: SC

characteristic: INSDC first public

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Breast

text: Homo sapiens

text: SC

characteristic: INSDC last update

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Prostate

text: Homo sapiens

text: SC

text: public

characteristic: INSDC status

text: human

text: Homo sapiens

text: Homo sapiens


text: Cell Pellet

characteristic: ArrayExpress-Phenotype

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Tag: 20

text: Homo sapiens


text: Cell Pellet

text: Homo sapiens

characteristic: ArrayExpress-Species

text: SC

text: public

text: human

text: Homo sapiens

text: Tag: 19

text: Homo sapiens


text: Cell Pellet

text: Homo sapiens

text: SC

text: public

text: human

characteristic: common name

text: Homo sapiens

text: Tag: 18

text: Homo sapiens


text: Cell Line

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Cell pellet

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Tag: 14

characteristic: sample description

text: Homo sapiens


text: Cell pellet

text: Homo sapiens

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: human

text: Homo sapiens

text: Tag: 15

text: Homo sapiens


text: Cell pellet

text: Homo sapiens

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: human

text: Homo sapiens

text: Tag: 16

text: Homo sapiens


text: Eye Pigment Epithelial

text: female

characteristic: ArrayExpress-Sex

text: Homo Sapien

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Retinal Pigment Epithelia

text: female

text: Homo sapiens

characteristic: External Id

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Bone

text: female

text: Homo Sapiens

text: SC

text: public

characteristic: SRA accession

text: human

text: Homo sapiens

text: Homo sapiens


text: Bone

text: female

text: Homo sapiens

text: SC

text: public

characteristic: Submitter Id

text: human

text: Homo sapiens

text: Homo sapiens


text: Cell line

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

characteristic: organism

text: Homo sapiens


text: Osteosarcoma

text: Homo sapiens

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens

characteristic: title


text: Blood-normal

text: male

text: Homo sapiens

characteristic: ENA-CHECKLIST

text: SC

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Cell-line

text: Homo Sapien

text: SC

characteristic: INSDC center name

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: Colorectal

text: Homo sapiens

text: SC

characteristic: INSDC first public

text: public

text: human

text: Homo sapiens

text: Homo sapiens


characteristic: INSDC last update

text: public

tag: Namespace:Institute for molecular biology and tumor research, Philipps University Marburg

unit: year

characteristic: age

text: ArrayExpress

characteristic: broker name

text: macrophage

characteristic: cell type

text: human

text: Protocols: Ascites were collected from patients with high-grade serous ovarian carcinoma undergoing primary surgery at the University Hospital in Marburg. Informed consent was obtained from all patients according to the protocols approved by the local ethical committee. Fixation was done using 1% formaldehyde for 10 min at room temperature followed by quenching with 125 mM glycin for 5 min. Washed with PBS twice. Protein A sepharose beads (GE Healthcare) were washed twice in ChIP RIPA (10 mM Tris-HCl pH 7,5; 150 mM NaCl; 1 % (v/v) NP40; 1 % (w/v) sodium deoxycholate; 0,1 % (w/v) SDS; 1 mM EDTA) und blocked overnight Lysis in hypotonic lysis buffer (5 mM PIPES pH 8,0; 85 mM KCl; 0,5 % (v/v) NP40) for 20 min on ice. Nuclei were resuspended in ChIP RIPA at 2.5*10^7 cells/ml, incubated for 10 min on ice and sheared in 1 ml aliquots with a Branson S250D using a microtip (52 pulses of 1 s, 2 s pause, 20% amplitude) with coolling (ice-ethanol). 300 µl of a 15 min 20,000xg supernatant was used for overnight IP after preclearing with 50 µl of protein A sepharose coupled to 10 µg of rabbit preimmune IgG for 45 min at 4 ˚C. On the next day, immunoprecipitation was performed with 50 µl of blocked protein A sepharose slurry. Beads were washed at 4 ˚C once each with 1 ml of wash buffers I (20 mM Tris pH 8,1; 150 mM NaCl; 1% (v/v) Triton X-100; 0,1% (w/v) SDS; 2 mM EDTA) and II (20 mM Tris pH 8,1; 500 mM NaCl; 1% (v/v) Triton X-100; 0,1% (w/v) SDS; 2 mM EDTA) followed by two washes with wash buffer III (10 mM Tris pH 8,1; 250 mM LiCl; 1 % (v/v) NP40; 1 % (w/v) sodium deoxycholate; 1 mM EDTA). Beads were washed twice with Qiagen buffer EB at room temperature. DNA complexes were eluted twice each with 200 µl of 1% (w/v) SDS and 100 mM NaHCO3 for 15 min with agitation. Reversion was done overnight at 65 ˚C after adding 10 µg of RNase A and 20 µg of proteinase K in the presence of 180 mM NaCl, 35 mM Tris-HCl pH 6.8 and 9 mM EDTA. Samples were purified using the Qiagen PCR purification kit according to the manufacturer's instructions. After-assay DNA was quantified with Picogreen (Life Technologies) on a Nanodrop 3300 Fluorimeter according to the manufacturer's instructions. ChIP-seq libraries were prepared with the Diagenode Microplex kit.

characteristic: description

text: high grade ovarian serous adenocarcinoma

characteristic: disease

text: Homo sapiens

text: Homo sapiens

text: ascitic fluid

characteristic: organism part

text: Homo sapiens

text: female

characteristic: sex


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: Institute for molecular biology and tumor research, Philipps University Marburg

text: public

characteristic: INSDC status

text: ArrayExpress

text: macrophage

text: human

characteristic: common name

text: Homo sapiens

text: Homo sapiens

text: ascitic fluid

text: Homo sapiens

text: female


characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: macrophage

text: human

text: Protocols: Ascites were collected from patients with high-grade serous ovarian carcinoma undergoing primary surgery at the University Hospital in Marburg. Informed consent was obtained from all patients according to the protocols approved by the local ethical committee. Cells were purified from ascites in a Ficoll gradient. 1 h adherence selection in Greiner flasks (no. 660175) in autologous ascites. Fixation was done using 1% formaldehyde for 10 min at room temperature followed by quenching with 125 mM glycin for 5 min. Washed with PBS twice. Lysis in hypotonic lysis buffer (5 mM PIPES pH 8,0; 85 mM KCl; 0,5 % (v/v) NP40) for 20 min on ice. Nuclei were resuspended in ChIP RIPA (10 mM Tris-HCl pH 7,5; 150 mM NaCl; 1 % (v/v) NP40; 1 % (w/v) sodium deoxycholate; 0,1 % (w/v) SDS; 1 mM EDTA) at 2.5*10^7 cells/ml, incubated for 10 min on ice and sheared in 1 ml aliquots with a Branson S250D using a microtip (52 pulses of 1 s, 2 s pause, 20% amplitude) with coolling (ice-ethanol). Reversion of crosslinks was done overnight at 65 ˚C after adding 10 µg of RNase A and 20 µg of proteinase K in the presence of 180 mM NaCl, 35 mM Tris-HCl pH 6.8 and 9 mM EDTA. Samples were purified using the Qiagen PCR purification kit according to the manufacturer's instructions. 250 ng of DNA were used for MIRA as per the kit's instructions (Methylcollector Ultra, Active Motif, http://www.activemotif.com/catalog/43/methylcollector-ultra). For details on MIRA, see Rauch et al. 2005 (http://dx.doi.org/doi:10.1038/labinvest.3700311 ), which describes the use of MBD2 and MBD3 domains as probes for the methylated CpG island recovery assay (MIRA) After-assay DNA was quantified with Picogreen (Life Technologies) on a Nanodrop 3300 Fluorimeter according to the manufacturer's instructions. ChIP-seq libraries were prepared with the Diagenode Microplex kit.

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: ascitic fluid

text: Homo sapiens

text: female


characteristic: ENA-CHECKLIST

text: Rost

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: collection date

text: uncultured eukaryote

text: 18S diversity in the English Channel at 5 discrete sampling sites from 2011-2012

text: temperate marine

characteristic: environment (biome)

text: open water

characteristic: environment (feature)

text: water

characteristic: environment (material)

text: Yes

characteristic: environmental sample

characteristic: further details

text: United Kingdom

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: uncultured eukaryote

text: GGAGGGCAAGTCTGGT; CGGCCATGCACCACC

characteristic: pcr primers

text: uncultured eukaryote

characteristic: target gene

characteristic: target subfragment

text: PRJEB23994 18S diversity in the English Channel

characteristic: title


text: Not provided

characteristic: ArrayExpress-Phenotype

text: Homo sapiens

characteristic: ArrayExpress-Species

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: human

characteristic: common name

text: Homo sapiens

characteristic: organism

text: Homo sapiens


text: Homo sapiens

characteristic: ENA-CHECKLIST

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: UPPSALA UNIVERSITET

text: public

tag: Namespace:UPPSALA UNIVERSITET

text: human

text: Homo sapiens

text: Homo sapiens


mur

text: UPPSALA UNIVERSITET

text: public

text: mur

text: human

text: Homo sapiens

text: Homo sapiens

text: mur


text: U OF YORK

text: public

tag: Namespace:U OF YORK

text: human

text: Whole genome sequencing of DNA extracted from archaeological bone point DR-894s. Double stranded Illumina Library; 5' end of sequence begins with individual barcode ACGAACTT.

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: Bone

characteristic: tissue type

text: Archaeological bone point


text: U OF YORK

text: public

text: human

text: Whole genome sequencing of DNA extracted from archaeological bone point DR-1797s; library created from second digestion of bone powder. Double stranded Illumina Library; 5' end of sequence begins with individual barcode CCATCTTA.

text: Homo sapiens

text: Homo sapiens

text: Bone

text: Archaeological bone point

characteristic: title


text: U OF YORK

text: public

text: human

text: Whole genome sequencing of DNA extracted from archaeological bone point DR-1797s; library created from first digestion of bone powder. Double stranded Illumina Library; 5' end of sequence begins with individual barcode CGATCGGA.

text: Homo sapiens

text: Homo sapiens

text: Bone

text: Archaeological bone point


text: U OF YORK

text: public

text: human

text: Whole genome sequencing of DNA extracted from archaeological bone point MC-398s. Double stranded Illumina Library; 5' end of sequence begins with individual barcode TGGCGTTA.

text: Homo sapiens

text: Homo sapiens

text: Bone

text: Archaeological bone point


text: U OF YORK

text: public

text: American black bear

text: Whole genome sequencing of DNA extracted from archaeological bone point DR-21. Double stranded Illumina Library; 5' end of sequence begins with individual barcode AACCAGAA.

text: Ursus americanus

text: Ursus americanus

text: Bone

text: Archaeological bone point


text: U OF YORK

text: public

text: American black bear

text: Whole genome sequencing of DNA extracted from archaeological bone point DR-1662. Double stranded Illumina Library; 5' end of sequence begins with individual barcode AGTTGAAC.

text: Ursus americanus

text: Ursus americanus

text: Bone

text: Archaeological bone point


text: U OF YORK

text: public

text: Whole genome sequencing of extraction blank associated with archaeological bone points. Double stranded Illumina Library; 5' end of sequence begins with individual barcode AACGAAGT.

text: unidentified

text: unidentified

text: Bone

text: Archaeological bone point


text: U OF YORK

text: public

text: Whole genome sequencing of extraction blank associated with archaeological bone points. Double stranded Illumina Library; 5' end of sequence begins with individual barcode AACCGAAC.

text: unidentified

text: unidentified

text: Bone

text: Archaeological bone point


text: U OF YORK

text: public

text: Whole genome sequencing of library blank control associated with archaeological bone points. Double stranded Illumina Library; 5' end of sequence begins with individual barcode TTGGCAGA

text: unidentified

text: unidentified

text: Bone

text: Archaeological bone point


text: Inserm U1170

text: public

text: E-MTAB-6305:Donor1/BC212 Macrophage CFMS

tag: Namespace:Inserm U1170

characteristic: age

text: ArrayExpress

characteristic: broker name

text: macrophage

characteristic: cell type

text: human

text: Protocols: Peripheral blood mononucleated cells (PBMC) were obtained from healthy donor buffy coats (Etablissement Français du sang, Rungis, France) or CMML whole blood, separated on Pancoll (Pan-Biotech, Dutscher, Brumath, France). Peripheral blood CD14+ monocytes were sorted with magnetic beads and the AutoMacs system (Miltenyi Biotech, Paris, France). After sorting, monocytes were cultured overnight at 1 million cells/mL in RPMI 1640 Glutamax medium (ThermoFisher Scientific) supplemented with 10% heat inactivated fetal bovine serum (FBS, Lonza, Amboise, France), 1% penicillin/streptomycin and 2mM L-Glutamine (ThermoFisher Scientific). Monocytes were seeded at 0.5 million cells/mL and differentiated into macrophages in the same medium containing recombinant human CSF-1 (100ng/mL Peprotech, Neuilly-Sur-Seine, France) during 6h to 3 days. Cells were cross-linked with addition of 1% formaldehyde directly to the culture medium for 10 min at RT with agitation. Fixation was stopped by addition of 125mM glycin during 5 min at RT with agitation and samples were then washed 2 times in ice-cold PBS before addition of SDS lysis buffer (Millipore, 10uL per 1.106 cells) supplemented with 1% protease inhibitor cocktail (Active Motif). Samples were vortexed and incubated 15 min on ice before 10 min sonication at 40W (Covaris S220, Woodingdean, UK). The chromatin immunoprecipitation was carried out using ChIP-it express kit according to manufacturer's instruction (Active Motif) with a monoclonal anti-CSF-1R antibody (sc-46662, santa cruz bioechnology). Enriched DNA from ChIP and Input DNA fragments were end-repaired, extended with an 'A' base on the 3′end, ligated with indexed paired-end adaptors (NEXTflex, Bioo Scientific, Proteigene, Saint Marcel, France) using the Bravo Platform (Agilent, Les Ulis, France), size-selected after 4 cycles of PCR with AMPure XP beads (Beckman Coulter, Villepinte, France) and amplified by PCR for 10 cycles more.

text: normal

characteristic: disease

text: wild type

characteristic: genotype

text: 72h RPMI 10 percent FBS

characteristic: growth condition

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: wild type phenotype

characteristic: phenotype

text: Homo sapiens

text: male

characteristic: sex

text: CSF-1; 100 nanogram per milliliter

characteristic: stimulus

text: Donor1/BC212 Macrophage CFMS


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Inserm U1170

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-6305:Donor1/BC212 Macrophage H3K4me1

characteristic: Submitter Id

text: ArrayExpress

text: macrophage

text: human

characteristic: common name

text: Protocols: Peripheral blood mononucleated cells (PBMC) were obtained from healthy donor buffy coats (Etablissement Français du sang, Rungis, France) or CMML whole blood, separated on Pancoll (Pan-Biotech, Dutscher, Brumath, France). Peripheral blood CD14+ monocytes were sorted with magnetic beads and the AutoMacs system (Miltenyi Biotech, Paris, France). After sorting, monocytes were cultured overnight at 1 million cells/mL in RPMI 1640 Glutamax medium (ThermoFisher Scientific) supplemented with 10% heat inactivated fetal bovine serum (FBS, Lonza, Amboise, France), 1% penicillin/streptomycin and 2mM L-Glutamine (ThermoFisher Scientific). Monocytes were seeded at 0.5 million cells/mL and differentiated into macrophages in the same medium containing recombinant human CSF-1 (100ng/mL Peprotech, Neuilly-Sur-Seine, France) during 6h to 3 days. Cells were cross-linked with addition of 1% formaldehyde directly to the culture medium for 10 min at RT with agitation. Fixation was stopped by addition of 125mM glycin during 5 min at RT with agitation and samples were then washed 2 times in ice-cold PBS before addition of SDS lysis buffer (Millipore, 10uL per 1.106 cells) supplemented with 1% protease inhibitor cocktail (Active Motif). Samples were vortexed and incubated 15 min on ice before 10 min sonication at 40W (Covaris S220, Woodingdean, UK). The chromatin immunoprecipitation was carried out using ChIP-it express kit according to manufacturer's instruction (Active Motif) with a polyclonal anti-H3K4me1 antibody (39297, Active Motif). Enriched DNA from ChIP and Input DNA fragments were end-repaired, extended with an 'A' base on the 3′end, ligated with indexed paired-end adaptors (NEXTflex, Bioo Scientific, Proteigene, Saint Marcel, France) using the Bravo Platform (Agilent, Les Ulis, France), size-selected after 4 cycles of PCR with AMPure XP beads (Beckman Coulter, Villepinte, France) and amplified by PCR for 10 cycles more.

text: normal

text: wild type

text: 72h RPMI 10 percent FBS

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: wild type phenotype

text: Homo sapiens

text: male

text: CSF-1; 100 nanogram per milliliter

text: Donor1/BC212 Macrophage H3K4me1


characteristic: ENA-CHECKLIST

text: Inserm U1170

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-6305:Donor1/BC212 Macrophage H3K4me3

characteristic: age

text: ArrayExpress

characteristic: broker name

text: macrophage

characteristic: cell type

text: human

text: Protocols: Peripheral blood mononucleated cells (PBMC) were obtained from healthy donor buffy coats (Etablissement Français du sang, Rungis, France) or CMML whole blood, separated on Pancoll (Pan-Biotech, Dutscher, Brumath, France). Peripheral blood CD14+ monocytes were sorted with magnetic beads and the AutoMacs system (Miltenyi Biotech, Paris, France). After sorting, monocytes were cultured overnight at 1 million cells/mL in RPMI 1640 Glutamax medium (ThermoFisher Scientific) supplemented with 10% heat inactivated fetal bovine serum (FBS, Lonza, Amboise, France), 1% penicillin/streptomycin and 2mM L-Glutamine (ThermoFisher Scientific). Monocytes were seeded at 0.5 million cells/mL and differentiated into macrophages in the same medium containing recombinant human CSF-1 (100ng/mL Peprotech, Neuilly-Sur-Seine, France) during 6h to 3 days. Cells were cross-linked with addition of 1% formaldehyde directly to the culture medium for 10 min at RT with agitation. Fixation was stopped by addition of 125mM glycin during 5 min at RT with agitation and samples were then washed 2 times in ice-cold PBS before addition of SDS lysis buffer (Millipore, 10uL per 1.106 cells) supplemented with 1% protease inhibitor cocktail (Active Motif). Samples were vortexed and incubated 15 min on ice before 10 min sonication at 40W (Covaris S220, Woodingdean, UK). The chromatin immunoprecipitation was carried out using ChIP-it express kit according to manufacturer's instruction (Active Motif) with a polyclonal anti-H3K4me3 antibody (39159, Active Motif). Enriched DNA from ChIP and Input DNA fragments were end-repaired, extended with an 'A' base on the 3′end, ligated with indexed paired-end adaptors (NEXTflex, Bioo Scientific, Proteigene, Saint Marcel, France) using the Bravo Platform (Agilent, Les Ulis, France), size-selected after 4 cycles of PCR with AMPure XP beads (Beckman Coulter, Villepinte, France) and amplified by PCR for 10 cycles more.

characteristic: description

text: normal

text: wild type

text: 72h RPMI 10 percent FBS

text: Homo sapiens

text: Homo sapiens

text: blood

text: wild type phenotype

text: Homo sapiens

text: male

text: CSF-1; 100 nanogram per milliliter

text: Donor1/BC212 Macrophage H3K4me3

characteristic: title


characteristic: ENA-FIRST-PUBLIC

text: Inserm U1170

text: public

text: E-MTAB-6305:Donor1/BC212 Macrophage input

text: ArrayExpress

text: macrophage

text: human

text: Protocols: Peripheral blood mononucleated cells (PBMC) were obtained from healthy donor buffy coats (Etablissement Français du sang, Rungis, France) or CMML whole blood, separated on Pancoll (Pan-Biotech, Dutscher, Brumath, France). Peripheral blood CD14+ monocytes were sorted with magnetic beads and the AutoMacs system (Miltenyi Biotech, Paris, France). After sorting, monocytes were cultured overnight at 1 million cells/mL in RPMI 1640 Glutamax medium (ThermoFisher Scientific) supplemented with 10% heat inactivated fetal bovine serum (FBS, Lonza, Amboise, France), 1% penicillin/streptomycin and 2mM L-Glutamine (ThermoFisher Scientific). Monocytes were seeded at 0.5 million cells/mL and differentiated into macrophages in the same medium containing recombinant human CSF-1 (100ng/mL Peprotech, Neuilly-Sur-Seine, France) during 6h to 3 days. Cells were cross-linked with addition of 1% formaldehyde directly to the culture medium for 10 min at RT with agitation. Fixation was stopped by addition of 125mM glycin during 5 min at RT with agitation and samples were then washed 2 times in ice-cold PBS before addition of SDS lysis buffer (Millipore, 10uL per 1.106 cells) supplemented with 1% protease inhibitor cocktail (Active Motif). Samples were vortexed and incubated 15 min on ice before 10 min sonication at 40W (Covaris S220, Woodingdean, UK). The chromatin immunoprecipitation was carried out using ChIP-it express kit according to manufacturer's instruction (Active Motif). Enriched DNA from ChIP and Input DNA fragments were end-repaired, extended with an 'A' base on the 3′end, ligated with indexed paired-end adaptors (NEXTflex, Bioo Scientific, Proteigene, Saint Marcel, France) using the Bravo Platform (Agilent, Les Ulis, France), size-selected after 4 cycles of PCR with AMPure XP beads (Beckman Coulter, Villepinte, France) and amplified by PCR for 10 cycles more.

text: normal

characteristic: disease

text: wild type

characteristic: genotype

text: 72h RPMI 10 percent FBS

characteristic: growth condition

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: wild type phenotype

characteristic: phenotype

text: Homo sapiens

text: male

characteristic: sex

text: CSF-1; 100 nanogram per milliliter

characteristic: stimulus

text: Donor1/BC212 Macrophage input


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Inserm U1170

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-6305:Donor2/BC214 Macrophage CFMS

characteristic: Submitter Id

text: not available

text: ArrayExpress

text: macrophage

text: human

characteristic: common name

text: normal

text: wild type

text: 72h RPMI 10 percent FBS

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: wild type phenotype

text: Homo sapiens

text: not available

text: CSF-1; 100 nanogram per milliliter

text: Donor2/BC214 Macrophage CFMS


characteristic: ENA-CHECKLIST

text: Inserm U1170

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-6305:Donor2/BC214 Macrophage H3K4me1

text: not available

characteristic: age

text: ArrayExpress

characteristic: broker name

text: macrophage

characteristic: cell type

text: human

characteristic: description

text: normal

text: wild type

text: 72h RPMI 10 percent FBS

text: Homo sapiens

text: Homo sapiens

text: blood

text: wild type phenotype

text: Homo sapiens

text: not available

text: CSF-1; 100 nanogram per milliliter

text: Donor2/BC214 Macrophage H3K4me1

characteristic: title


characteristic: ENA-FIRST-PUBLIC

text: Inserm U1170

text: public

text: E-MTAB-6305:Donor2/BC214 Macrophage H3K4me3

text: not available

text: ArrayExpress

text: macrophage

text: human

text: normal

characteristic: disease

text: wild type

characteristic: genotype

text: 72h RPMI 10 percent FBS

characteristic: growth condition

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: wild type phenotype

characteristic: phenotype

text: Homo sapiens

text: not available

characteristic: sex

text: CSF-1; 100 nanogram per milliliter

characteristic: stimulus

text: Donor2/BC214 Macrophage H3K4me3


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Inserm U1170

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-6305:Donor2/BC214 Macrophage input

characteristic: Submitter Id

text: not available

text: ArrayExpress

text: macrophage

text: human

characteristic: common name

text: normal

text: wild type

text: 72h RPMI 10 percent FBS

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: wild type phenotype

text: Homo sapiens

text: not available

text: CSF-1; 100 nanogram per milliliter

text: Donor2/BC214 Macrophage input


characteristic: ENA-CHECKLIST

text: Inserm U1170

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-6305:Donor3/BC215 Macrophage CFMS

text: not available

characteristic: age

text: ArrayExpress

characteristic: broker name

text: macrophage

characteristic: cell type

text: human

characteristic: description

text: normal

text: wild type

text: 72h RPMI 10 percent FBS

text: Homo sapiens

text: Homo sapiens

text: blood

text: wild type phenotype

text: Homo sapiens

text: not available

text: CSF-1; 100 nanogram per milliliter

text: Donor3/BC215 Macrophage CFMS

characteristic: title


characteristic: ENA-FIRST-PUBLIC

text: Inserm U1170

text: public

text: E-MTAB-6305:Donor3/BC215 Macrophage H3K4me1

text: not available

text: ArrayExpress

text: macrophage

text: human

text: normal

characteristic: disease

text: wild type

characteristic: genotype

text: 72h RPMI 10 percent FBS

characteristic: growth condition

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: wild type phenotype

characteristic: phenotype

text: Homo sapiens

text: not available

characteristic: sex

text: CSF-1; 100 nanogram per milliliter

characteristic: stimulus

text: Donor3/BC215 Macrophage H3K4me1


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Inserm U1170

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-6305:Donor3/BC215 Macrophage H3K4me3

characteristic: Submitter Id

text: not available

text: ArrayExpress

text: macrophage

text: human

characteristic: common name

text: normal

text: wild type

text: 72h RPMI 10 percent FBS

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: wild type phenotype

text: Homo sapiens

text: not available

text: CSF-1; 100 nanogram per milliliter

text: Donor3/BC215 Macrophage H3K4me3


characteristic: ENA-CHECKLIST

text: Inserm U1170

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-6305:Donor3/BC215 Macrophage input

text: not available

characteristic: age

text: ArrayExpress

characteristic: broker name

text: macrophage

characteristic: cell type

text: human

characteristic: description

text: normal

text: wild type

text: 72h RPMI 10 percent FBS

text: Homo sapiens

text: Homo sapiens

text: blood

text: wild type phenotype

text: Homo sapiens

text: not available

text: CSF-1; 100 nanogram per milliliter

text: Donor3/BC215 Macrophage input

characteristic: title


E-MTAB-6305:CMML#6 1941 Mono CFMS

characteristic: ENA-FIRST-PUBLIC

text: Inserm U1170

text: public

text: E-MTAB-6305:CMML#6 1941 Mono CFMS

text: ArrayExpress

text: monocyte

text: human

text: Protocols: Peripheral blood mononucleated cells (PBMC) were obtained from healthy donor buffy coats (Etablissement Français du sang, Rungis, France) or CMML whole blood, separated on Pancoll (Pan-Biotech, Dutscher, Brumath, France). Peripheral blood CD14+ monocytes were sorted with magnetic beads and the AutoMacs system (Miltenyi Biotech, Paris, France). Cells were cross-linked with addition of 1% formaldehyde directly to the culture medium for 10 min at RT with agitation. Fixation was stopped by addition of 125mM glycin during 5 min at RT with agitation and samples were then washed 2 times in ice-cold PBS before addition of SDS lysis buffer (Millipore, 10uL per 1.106 cells) supplemented with 1% protease inhibitor cocktail (Active Motif). Samples were vortexed and incubated 15 min on ice before 10 min sonication at 40W (Covaris S220, Woodingdean, UK). The chromatin immunoprecipitation was carried out using ChIP-it express kit according to manufacturer's instruction (Active Motif) with a polyclonal anti-CSF-1R antibody (sc-692, santa cruz bioechnology). Enriched DNA from ChIP and Input DNA fragments were end-repaired, extended with an 'A' base on the 3′end, ligated with indexed paired-end adaptors (NEXTflex, Bioo Scientific, Proteigene, Saint Marcel, France) using the Bravo Platform (Agilent, Les Ulis, France), size-selected after 4 cycles of PCR with AMPure XP beads (Beckman Coulter, Villepinte, France) and amplified by PCR for 10 cycles more.

text: chronic myelomonocytic leukemia

characteristic: disease

characteristic: disease staging

text: ASXL1, U2AF35, TET2, NRAS, RUNX1 mutated

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: CD14 positive

characteristic: phenotype

text: Homo sapiens

text: not available

characteristic: sex

text: CMML#6 1941 Mono CFMS


E-MTAB-6305:CMML#6 1941 Mono input

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Inserm U1170

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-6305:CMML#6 1941 Mono input

characteristic: Submitter Id

text: ArrayExpress

text: monocyte

text: human

characteristic: common name

text: Protocols: Peripheral blood mononucleated cells (PBMC) were obtained from healthy donor buffy coats (Etablissement Français du sang, Rungis, France) or CMML whole blood, separated on Pancoll (Pan-Biotech, Dutscher, Brumath, France). Peripheral blood CD14+ monocytes were sorted with magnetic beads and the AutoMacs system (Miltenyi Biotech, Paris, France). Cells were cross-linked with addition of 1% formaldehyde directly to the culture medium for 10 min at RT with agitation. Fixation was stopped by addition of 125mM glycin during 5 min at RT with agitation and samples were then washed 2 times in ice-cold PBS before addition of SDS lysis buffer (Millipore, 10uL per 1.106 cells) supplemented with 1% protease inhibitor cocktail (Active Motif). Samples were vortexed and incubated 15 min on ice before 10 min sonication at 40W (Covaris S220, Woodingdean, UK). The chromatin immunoprecipitation was carried out using ChIP-it express kit according to manufacturer's instruction (Active Motif). Enriched DNA from ChIP and Input DNA fragments were end-repaired, extended with an 'A' base on the 3′end, ligated with indexed paired-end adaptors (NEXTflex, Bioo Scientific, Proteigene, Saint Marcel, France) using the Bravo Platform (Agilent, Les Ulis, France), size-selected after 4 cycles of PCR with AMPure XP beads (Beckman Coulter, Villepinte, France) and amplified by PCR for 10 cycles more.

text: chronic myelomonocytic leukemia

text: Homo sapiens

text: Homo sapiens

text: blood

text: CD14 positive

text: Homo sapiens

text: not available

text: CMML#6 1941 Mono input


E-MTAB-6305:BC270 Mono input

characteristic: ENA-CHECKLIST

text: Inserm U1170

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-6305:BC270 Mono input

characteristic: age

text: ArrayExpress

characteristic: broker name

text: monocyte

characteristic: cell type

text: human

text: normal

text: wild type

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: CD14 positive

text: Homo sapiens

text: male

text: BC270 Mono input


E-MTAB-6305:BC210 Mono EGR1

characteristic: ENA-FIRST-PUBLIC

text: Inserm U1170

text: public

text: E-MTAB-6305:BC210 Mono EGR1

text: not available

text: ArrayExpress

text: monocyte

text: human

text: Protocols: Peripheral blood mononucleated cells (PBMC) were obtained from healthy donor buffy coats (Etablissement Français du sang, Rungis, France) or CMML whole blood, separated on Pancoll (Pan-Biotech, Dutscher, Brumath, France). Peripheral blood CD14+ monocytes were sorted with magnetic beads and the AutoMacs system (Miltenyi Biotech, Paris, France). Cells were cross-linked with addition of 1% formaldehyde directly to the culture medium for 10 min at RT with agitation. Fixation was stopped by addition of 125mM glycin during 5 min at RT with agitation and samples were then washed 2 times in ice-cold PBS before addition of SDS lysis buffer (Millipore, 10uL per 1.106 cells) supplemented with 1% protease inhibitor cocktail (Active Motif). Samples were vortexed and incubated 15 min on ice before 10 min sonication at 40W (Covaris S220, Woodingdean, UK). The chromatin immunoprecipitation was carried out using ChIP-it express kit according to manufacturer's instruction (Active Motif) with a polyclonal anti-EGR1 antibody (sc-110, santa cruz bioechnology). Enriched DNA from ChIP and Input DNA fragments were end-repaired, extended with an 'A' base on the 3′end, ligated with indexed paired-end adaptors (NEXTflex, Bioo Scientific, Proteigene, Saint Marcel, France) using the Bravo Platform (Agilent, Les Ulis, France), size-selected after 4 cycles of PCR with AMPure XP beads (Beckman Coulter, Villepinte, France) and amplified by PCR for 10 cycles more.

characteristic: description

text: normal

characteristic: disease

text: wild type

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: CD14 positive

text: Homo sapiens

text: not available

text: BC210 Mono EGR1

characteristic: title


E-MTAB-6305:BC210 Mono input

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Inserm U1170

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-6305:BC210 Mono input

text: not available

text: ArrayExpress

text: monocyte

text: human

text: normal

text: wild type

text: Homo sapiens

text: Homo sapiens

text: blood

text: CD14 positive

characteristic: phenotype

text: Homo sapiens

text: not available

characteristic: sex

text: BC210 Mono input


E-MTAB-6305:BC270 Mono CFMS

characteristic: ENA-CHECKLIST

text: Inserm U1170

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: E-MTAB-6305:BC270 Mono CFMS

characteristic: Submitter Id

text: ArrayExpress

text: monocyte

text: human

characteristic: common name

text: normal

text: wild type

text: Homo sapiens

text: Homo sapiens

text: blood

text: CD14 positive

text: Homo sapiens

text: male

text: BC270 Mono CFMS


E-MTAB-6305:CMML#1 1982 Mono CFMS

characteristic: ENA-FIRST-PUBLIC

text: Inserm U1170

text: public

text: E-MTAB-6305:CMML#1 1982 Mono CFMS

characteristic: age

text: ArrayExpress

characteristic: broker name

text: monocyte

characteristic: cell type

text: human

characteristic: description

text: chronic myelomonocytic leukemia

characteristic: disease staging

text: TET2, JAK2, ASXL1, SRSF2 mutated

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: CD14 positive

text: Homo sapiens

text: not available

text: CMML#1 1982 Mono CFMS


E-MTAB-6305:CMML#1 1982 Mono input

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Inserm U1170

characteristic: INSDC last update

text: public

text: E-MTAB-6305:CMML#1 1982 Mono input

text: ArrayExpress

text: monocyte

text: human

text: chronic myelomonocytic leukemia

characteristic: disease

text: TET2, JAK2, ASXL1, SRSF2 mutated

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: CD14 positive

text: Homo sapiens

text: not available

text: CMML#1 1982 Mono input

characteristic: title


E-MTAB-6305:BC313 Mono M6h CFMS

characteristic: ENA-CHECKLIST

text: Inserm U1170

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-6305:BC313 Mono M6h CFMS

text: not available

text: ArrayExpress

text: monocyte

text: human

text: Protocols: Peripheral blood mononucleated cells (PBMC) were obtained from healthy donor buffy coats (Etablissement Français du sang, Rungis, France) or CMML whole blood, separated on Pancoll (Pan-Biotech, Dutscher, Brumath, France). Peripheral blood CD14+ monocytes were sorted with magnetic beads and the AutoMacs system (Miltenyi Biotech, Paris, France). After sorting, monocytes were cultured overnight at 1 million cells/mL in RPMI 1640 Glutamax medium (ThermoFisher Scientific) supplemented with 10% heat inactivated fetal bovine serum (FBS, Lonza, Amboise, France), 1% penicillin/streptomycin and 2mM L-Glutamine (ThermoFisher Scientific). Monocytes were seeded at 0.5 million cells/mL and differentiated into macrophages in the same medium containing recombinant human CSF-1 (100ng/mL Peprotech, Neuilly-Sur-Seine, France) during 6h to 3 days. Cells were cross-linked with addition of 1% formaldehyde directly to the culture medium for 10 min at RT with agitation. Fixation was stopped by addition of 125mM glycin during 5 min at RT with agitation and samples were then washed 2 times in ice-cold PBS before addition of SDS lysis buffer (Millipore, 10uL per 1.106 cells) supplemented with 1% protease inhibitor cocktail (Active Motif). Samples were vortexed and incubated 15 min on ice before 10 min sonication at 40W (Covaris S220, Woodingdean, UK). The chromatin immunoprecipitation was carried out using ChIP-it express kit according to manufacturer's instruction (Active Motif) with a monoclonal anti-CSF-1R antibody (sc-46662, santa cruz bioechnology). Enriched DNA from ChIP and Input DNA fragments were end-repaired, extended with an 'A' base on the 3′end, ligated with indexed paired-end adaptors (NEXTflex, Bioo Scientific, Proteigene, Saint Marcel, France) using the Bravo Platform (Agilent, Les Ulis, France), size-selected after 4 cycles of PCR with AMPure XP beads (Beckman Coulter, Villepinte, France) and amplified by PCR for 10 cycles more.

text: normal

text: wild type

text: overnight RPMI 10 percent FBS

characteristic: growth condition

text: Homo sapiens

text: Homo sapiens

text: blood

text: CD14 positive

characteristic: phenotype

text: Homo sapiens

text: male

characteristic: sex

text: CSF-1; 100 nanogram per milliliter

characteristic: stimulus

text: BC313 Mono M6h CFMS


E-MTAB-6305:BC313 Mono M6h H3K4me3

characteristic: ENA-FIRST-PUBLIC

text: Inserm U1170

text: public

text: E-MTAB-6305:BC313 Mono M6h H3K4me3

characteristic: Submitter Id

text: not available

characteristic: age

text: ArrayExpress

characteristic: broker name

text: monocyte

characteristic: cell type

text: human

characteristic: common name

characteristic: description

text: normal

text: wild type

text: overnight RPMI 10 percent FBS

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: CD14 positive

text: Homo sapiens

text: male

text: CSF-1; 100 nanogram per milliliter

text: BC313 Mono M6h H3K4me3


E-MTAB-6305:BC313 Mono M6h input

characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Inserm U1170

characteristic: INSDC last update

text: public

text: E-MTAB-6305:BC313 Mono M6h input

text: not available

text: ArrayExpress

text: monocyte

text: human

text: normal

characteristic: disease

text: wild type

characteristic: genotype

text: overnight RPMI 10 percent FBS

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: CD14 positive

text: Homo sapiens

text: male

text: CSF-1; 100 nanogram per milliliter

text: BC313 Mono M6h input

characteristic: title


E-MTAB-6305:Donor1/BC212 Mono CFMS

text: Inserm U1170

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-6305:Donor1/BC212 Mono CFMS

text: ArrayExpress

text: monocyte

text: human

text: Protocols: Peripheral blood mononucleated cells (PBMC) were obtained from healthy donor buffy coats (Etablissement Français du sang, Rungis, France) or CMML whole blood, separated on Pancoll (Pan-Biotech, Dutscher, Brumath, France). Peripheral blood CD14+ monocytes were sorted with magnetic beads and the AutoMacs system (Miltenyi Biotech, Paris, France). After sorting, monocytes were cultured overnight at 1 million cells/mL in RPMI 1640 Glutamax medium (ThermoFisher Scientific) supplemented with 10% heat inactivated fetal bovine serum (FBS, Lonza, Amboise, France), 1% penicillin/streptomycin and 2mM L-Glutamine (ThermoFisher Scientific). Cells were cross-linked with addition of 1% formaldehyde directly to the culture medium for 10 min at RT with agitation. Fixation was stopped by addition of 125mM glycin during 5 min at RT with agitation and samples were then washed 2 times in ice-cold PBS before addition of SDS lysis buffer (Millipore, 10uL per 1.106 cells) supplemented with 1% protease inhibitor cocktail (Active Motif). Samples were vortexed and incubated 15 min on ice before 10 min sonication at 40W (Covaris S220, Woodingdean, UK). The chromatin immunoprecipitation was carried out using ChIP-it express kit according to manufacturer's instruction (Active Motif) with a monoclonal anti-CSF-1R antibody (sc-46662, santa cruz bioechnology). Enriched DNA from ChIP and Input DNA fragments were end-repaired, extended with an 'A' base on the 3′end, ligated with indexed paired-end adaptors (NEXTflex, Bioo Scientific, Proteigene, Saint Marcel, France) using the Bravo Platform (Agilent, Les Ulis, France), size-selected after 4 cycles of PCR with AMPure XP beads (Beckman Coulter, Villepinte, France) and amplified by PCR for 10 cycles more.

text: normal

text: wild type

text: overnight RPMI 10 percent FBS

characteristic: growth condition

text: Homo sapiens

text: Homo sapiens

text: blood

text: CD14 positive

characteristic: phenotype

text: Homo sapiens

text: male

characteristic: sex

text: Donor1/BC212 Mono CFMS


E-MTAB-6305:Donor1/BC212 Mono H3K4me1

characteristic: ENA-FIRST-PUBLIC

text: Inserm U1170

text: public

text: E-MTAB-6305:Donor1/BC212 Mono H3K4me1

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: monocyte

characteristic: cell type

text: human

characteristic: common name

text: Protocols: Peripheral blood mononucleated cells (PBMC) were obtained from healthy donor buffy coats (Etablissement Français du sang, Rungis, France) or CMML whole blood, separated on Pancoll (Pan-Biotech, Dutscher, Brumath, France). Peripheral blood CD14+ monocytes were sorted with magnetic beads and the AutoMacs system (Miltenyi Biotech, Paris, France). After sorting, monocytes were cultured overnight at 1 million cells/mL in RPMI 1640 Glutamax medium (ThermoFisher Scientific) supplemented with 10% heat inactivated fetal bovine serum (FBS, Lonza, Amboise, France), 1% penicillin/streptomycin and 2mM L-Glutamine (ThermoFisher Scientific). Cells were cross-linked with addition of 1% formaldehyde directly to the culture medium for 10 min at RT with agitation. Fixation was stopped by addition of 125mM glycin during 5 min at RT with agitation and samples were then washed 2 times in ice-cold PBS before addition of SDS lysis buffer (Millipore, 10uL per 1.106 cells) supplemented with 1% protease inhibitor cocktail (Active Motif). Samples were vortexed and incubated 15 min on ice before 10 min sonication at 40W (Covaris S220, Woodingdean, UK). The chromatin immunoprecipitation was carried out using ChIP-it express kit according to manufacturer's instruction (Active Motif) with a polyclonal anti-H3K4me1 antibody (39297, Active Motif). Enriched DNA from ChIP and Input DNA fragments were end-repaired, extended with an 'A' base on the 3′end, ligated with indexed paired-end adaptors (NEXTflex, Bioo Scientific, Proteigene, Saint Marcel, France) using the Bravo Platform (Agilent, Les Ulis, France), size-selected after 4 cycles of PCR with AMPure XP beads (Beckman Coulter, Villepinte, France) and amplified by PCR for 10 cycles more.

characteristic: description

text: normal

text: wild type

text: overnight RPMI 10 percent FBS

text: Homo sapiens

text: Homo sapiens

text: blood

text: CD14 positive

text: Homo sapiens

text: male

text: Donor1/BC212 Mono H3K4me1


E-MTAB-6305:Donor1/BC212 Mono H3K4me3

characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Inserm U1170

characteristic: INSDC last update

text: public

text: E-MTAB-6305:Donor1/BC212 Mono H3K4me3

text: ArrayExpress

text: monocyte

text: human

text: Protocols: Peripheral blood mononucleated cells (PBMC) were obtained from healthy donor buffy coats (Etablissement Français du sang, Rungis, France) or CMML whole blood, separated on Pancoll (Pan-Biotech, Dutscher, Brumath, France). Peripheral blood CD14+ monocytes were sorted with magnetic beads and the AutoMacs system (Miltenyi Biotech, Paris, France). After sorting, monocytes were cultured overnight at 1 million cells/mL in RPMI 1640 Glutamax medium (ThermoFisher Scientific) supplemented with 10% heat inactivated fetal bovine serum (FBS, Lonza, Amboise, France), 1% penicillin/streptomycin and 2mM L-Glutamine (ThermoFisher Scientific). Cells were cross-linked with addition of 1% formaldehyde directly to the culture medium for 10 min at RT with agitation. Fixation was stopped by addition of 125mM glycin during 5 min at RT with agitation and samples were then washed 2 times in ice-cold PBS before addition of SDS lysis buffer (Millipore, 10uL per 1.106 cells) supplemented with 1% protease inhibitor cocktail (Active Motif). Samples were vortexed and incubated 15 min on ice before 10 min sonication at 40W (Covaris S220, Woodingdean, UK). The chromatin immunoprecipitation was carried out using ChIP-it express kit according to manufacturer's instruction (Active Motif) with a polyclonal anti-H3K4me3 antibody (39159, Active Motif). Enriched DNA from ChIP and Input DNA fragments were end-repaired, extended with an 'A' base on the 3′end, ligated with indexed paired-end adaptors (NEXTflex, Bioo Scientific, Proteigene, Saint Marcel, France) using the Bravo Platform (Agilent, Les Ulis, France), size-selected after 4 cycles of PCR with AMPure XP beads (Beckman Coulter, Villepinte, France) and amplified by PCR for 10 cycles more.

text: normal

characteristic: disease

text: wild type

characteristic: genotype

text: overnight RPMI 10 percent FBS

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: CD14 positive

text: Homo sapiens

text: male

text: Donor1/BC212 Mono H3K4me3


E-MTAB-6305:Donor1/BC212 Mono input

text: Inserm U1170

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-6305:Donor1/BC212 Mono input

text: ArrayExpress

text: monocyte

text: human

text: Protocols: Peripheral blood mononucleated cells (PBMC) were obtained from healthy donor buffy coats (Etablissement Français du sang, Rungis, France) or CMML whole blood, separated on Pancoll (Pan-Biotech, Dutscher, Brumath, France). Peripheral blood CD14+ monocytes were sorted with magnetic beads and the AutoMacs system (Miltenyi Biotech, Paris, France). After sorting, monocytes were cultured overnight at 1 million cells/mL in RPMI 1640 Glutamax medium (ThermoFisher Scientific) supplemented with 10% heat inactivated fetal bovine serum (FBS, Lonza, Amboise, France), 1% penicillin/streptomycin and 2mM L-Glutamine (ThermoFisher Scientific). Cells were cross-linked with addition of 1% formaldehyde directly to the culture medium for 10 min at RT with agitation. Fixation was stopped by addition of 125mM glycin during 5 min at RT with agitation and samples were then washed 2 times in ice-cold PBS before addition of SDS lysis buffer (Millipore, 10uL per 1.106 cells) supplemented with 1% protease inhibitor cocktail (Active Motif). Samples were vortexed and incubated 15 min on ice before 10 min sonication at 40W (Covaris S220, Woodingdean, UK). The chromatin immunoprecipitation was carried out using ChIP-it express kit according to manufacturer's instruction (Active Motif). Enriched DNA from ChIP and Input DNA fragments were end-repaired, extended with an 'A' base on the 3′end, ligated with indexed paired-end adaptors (NEXTflex, Bioo Scientific, Proteigene, Saint Marcel, France) using the Bravo Platform (Agilent, Les Ulis, France), size-selected after 4 cycles of PCR with AMPure XP beads (Beckman Coulter, Villepinte, France) and amplified by PCR for 10 cycles more.

text: normal

text: wild type

text: overnight RPMI 10 percent FBS

characteristic: growth condition

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: CD14 positive

text: Homo sapiens

text: male

text: Donor1/BC212 Mono input

characteristic: title


E-MTAB-6305:BC275 Mono EGR1

characteristic: ENA-FIRST-PUBLIC

text: Inserm U1170

text: public

text: E-MTAB-6305:BC275 Mono EGR1

characteristic: Submitter Id

text: not available

characteristic: age

text: ArrayExpress

characteristic: broker name

text: monocyte

characteristic: cell type

text: human

text: Protocols: Peripheral blood mononucleated cells (PBMC) were obtained from healthy donor buffy coats (Etablissement Français du sang, Rungis, France) or CMML whole blood, separated on Pancoll (Pan-Biotech, Dutscher, Brumath, France). Peripheral blood CD14+ monocytes were sorted with magnetic beads and the AutoMacs system (Miltenyi Biotech, Paris, France). After sorting, monocytes were cultured overnight at 1 million cells/mL in RPMI 1640 Glutamax medium (ThermoFisher Scientific) supplemented with 10% heat inactivated fetal bovine serum (FBS, Lonza, Amboise, France), 1% penicillin/streptomycin and 2mM L-Glutamine (ThermoFisher Scientific). Cells were cross-linked with addition of 1% formaldehyde directly to the culture medium for 10 min at RT with agitation. Fixation was stopped by addition of 125mM glycin during 5 min at RT with agitation and samples were then washed 2 times in ice-cold PBS before addition of SDS lysis buffer (Millipore, 10uL per 1.106 cells) supplemented with 1% protease inhibitor cocktail (Active Motif). Samples were vortexed and incubated 15 min on ice before 10 min sonication at 40W (Covaris S220, Woodingdean, UK). The chromatin immunoprecipitation was carried out using ChIP-it express kit according to manufacturer's instruction (Active Motif) with a polyclonal anti-EGR1 antibody (sc-110, santa cruz bioechnology). Enriched DNA from ChIP and Input DNA fragments were end-repaired, extended with an 'A' base on the 3′end, ligated with indexed paired-end adaptors (NEXTflex, Bioo Scientific, Proteigene, Saint Marcel, France) using the Bravo Platform (Agilent, Les Ulis, France), size-selected after 4 cycles of PCR with AMPure XP beads (Beckman Coulter, Villepinte, France) and amplified by PCR for 10 cycles more.

text: normal

text: wild type

text: overnight RPMI 10 percent FBS

text: Homo sapiens

text: Homo sapiens

text: blood

text: CD14 positive

characteristic: phenotype

text: Homo sapiens

text: female

characteristic: sex

text: BC275 Mono EGR1


E-MTAB-6305:BC275 Mono input

characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Inserm U1170

characteristic: INSDC last update

text: public

text: E-MTAB-6305:BC275 Mono input

text: not available

text: ArrayExpress

text: monocyte

text: human

characteristic: common name

characteristic: description

text: normal

characteristic: disease

text: wild type

text: overnight RPMI 10 percent FBS

text: Homo sapiens

text: Homo sapiens

text: blood

text: CD14 positive

text: Homo sapiens

text: female

text: BC275 Mono input


E-MTAB-6305:BC276 Mono EGR1

text: Inserm U1170

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-6305:BC276 Mono EGR1

text: not available

text: ArrayExpress

text: monocyte

text: human

text: normal

text: wild type

characteristic: genotype

text: overnight RPMI 10 percent FBS

characteristic: growth condition

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: CD14 positive

text: Homo sapiens

text: female

text: BC276 Mono EGR1


E-MTAB-6305:BC276 Mono input

characteristic: ENA-FIRST-PUBLIC

text: Inserm U1170

text: public

text: E-MTAB-6305:BC276 Mono input

characteristic: Submitter Id

text: not available

characteristic: age

text: ArrayExpress

characteristic: broker name

text: monocyte

characteristic: cell type

text: human

text: normal

text: wild type

text: overnight RPMI 10 percent FBS

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: CD14 positive

text: Homo sapiens

text: female

text: BC276 Mono input

characteristic: title


E-MTAB-6305:BC313 Mono CFMS

characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Inserm U1170

characteristic: INSDC last update

text: public

text: E-MTAB-6305:BC313 Mono CFMS

text: not available

text: ArrayExpress

text: monocyte

text: human

characteristic: common name

text: normal

text: wild type

text: overnight RPMI 10 percent FBS

text: Homo sapiens

text: Homo sapiens

text: blood

text: CD14 positive

characteristic: phenotype

text: Homo sapiens

text: male

characteristic: sex

text: BC313 Mono CFMS


E-MTAB-6305:BC313 Mono H3K4me3

text: Inserm U1170

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-6305:BC313 Mono H3K4me3

text: not available

text: ArrayExpress

text: monocyte

text: human

characteristic: description

text: normal

characteristic: disease

text: wild type

characteristic: genotype

text: overnight RPMI 10 percent FBS

text: Homo sapiens

text: Homo sapiens

text: blood

text: CD14 positive

text: Homo sapiens

text: male

text: BC313 Mono H3K4me3


E-MTAB-6305:BC313 Mono input

characteristic: ENA-FIRST-PUBLIC

text: Inserm U1170

text: public

text: E-MTAB-6305:BC313 Mono input

characteristic: Submitter Id

text: not available

characteristic: age

text: ArrayExpress

characteristic: broker name

text: monocyte

characteristic: cell type

text: human

text: normal

text: wild type

text: overnight RPMI 10 percent FBS

characteristic: growth condition

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: CD14 positive

text: Homo sapiens

text: male

text: BC313 Mono input


E-MTAB-6305:Donor1/BC215 Mono input

characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Inserm U1170

characteristic: INSDC last update

text: public

text: E-MTAB-6305:Donor1/BC215 Mono input

text: not available

text: ArrayExpress

text: monocyte

text: human

characteristic: common name

text: normal

text: wild type

text: overnight RPMI 10 percent FBS

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: CD14 positive

text: Homo sapiens

text: not available

text: Donor1/BC215 Mono input

characteristic: title


E-MTAB-6305:Donor2/BC214 Mono CFMS

text: Inserm U1170

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-6305:Donor2/BC214 Mono CFMS

text: not available

text: ArrayExpress

text: monocyte

text: human

characteristic: description

text: normal

text: wild type

text: overnight RPMI 10 percent FBS

text: Homo sapiens

text: Homo sapiens

text: blood

text: CD14 positive

characteristic: phenotype

text: Homo sapiens

text: not available

characteristic: sex

text: Donor2/BC214 Mono CFMS


E-MTAB-6305:Donor2/BC214 Mono H3K4me1

characteristic: ENA-FIRST-PUBLIC

text: Inserm U1170

text: public

text: E-MTAB-6305:Donor2/BC214 Mono H3K4me1

characteristic: Submitter Id

text: not available

characteristic: age

text: ArrayExpress

characteristic: broker name

text: monocyte

characteristic: cell type

text: human

text: normal

characteristic: disease

text: wild type

characteristic: genotype

text: overnight RPMI 10 percent FBS

text: Homo sapiens

text: Homo sapiens

text: blood

text: CD14 positive

text: Homo sapiens

text: not available

text: Donor2/BC214 Mono H3K4me1


E-MTAB-6305:Donor2/BC214 Mono H3K4me3

characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Inserm U1170

characteristic: INSDC last update

text: public

text: E-MTAB-6305:Donor2/BC214 Mono H3K4me3

text: not available

text: ArrayExpress

text: monocyte

text: human

characteristic: common name

text: normal

text: wild type

text: overnight RPMI 10 percent FBS

characteristic: growth condition

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: CD14 positive

text: Homo sapiens

text: not available

text: Donor2/BC214 Mono H3K4me3


E-MTAB-6305:Donor2/BC214 Mono input

text: Inserm U1170

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-6305:Donor2/BC214 Mono input

text: not available

text: ArrayExpress

text: monocyte

text: human

characteristic: description

text: normal

text: wild type

text: overnight RPMI 10 percent FBS

text: Homo sapiens

text: Homo sapiens

text: blood

characteristic: organism part

text: CD14 positive

text: Homo sapiens

text: not available

text: Donor2/BC214 Mono input

characteristic: title


E-MTAB-6305:Donor3/BC215 Mono CFMS

characteristic: ENA-FIRST-PUBLIC

text: Inserm U1170

text: public

text: E-MTAB-6305:Donor3/BC215 Mono CFMS

characteristic: Submitter Id

text: not available

characteristic: age

text: ArrayExpress

characteristic: broker name

text: monocyte

characteristic: cell type

text: human

text: normal

text: wild type

text: overnight RPMI 10 percent FBS

text: Homo sapiens

text: Homo sapiens

text: blood

text: CD14 positive

characteristic: phenotype

text: Homo sapiens

text: not available

characteristic: sex

text: Donor3/BC215 Mono CFMS


E-MTAB-6305:Donor3/BC215 Mono H3K4me1

characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Inserm U1170

characteristic: INSDC last update

text: public

text: E-MTAB-6305:Donor3/BC215 Mono H3K4me1

text: not available

text: ArrayExpress

text: monocyte

text: human

characteristic: common name

text: normal

characteristic: disease

text: wild type

characteristic: genotype

text: overnight RPMI 10 percent FBS

text: Homo sapiens

text: Homo sapiens

text: blood

text: CD14 positive

text: Homo sapiens

text: not available

text: Donor3/BC215 Mono H3K4me1


E-MTAB-6305:Donor3/BC215 Mono H3K4me3

text: Inserm U1170

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-6305:Donor3/BC215 Mono H3K4me3

text: not available

text: ArrayExpress

text: monocyte

text: human

characteristic: description

text: normal

text: wild type

text: overnight RPMI 10 percent FBS

characteristic: growth condition

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blood

text: CD14 positive

text: Homo sapiens

text: not available

text: Donor3/BC215 Mono H3K4me3


characteristic: ENA-FIRST-PUBLIC

text: URMITE

text: public

characteristic: Submitter Id

text: Pandoravirus braziliensis was isolated from a soda lake, Pantanal region, Brazil, by coculture on Acanthamoeba castellanii.

text: Acanthamoeba castellanii str. Neff

characteristic: host scientific name

text: Pandoravirus braziliensis

text: Pandoravirus braziliensis

characteristic: strain

text: Pandoravirus braziliensis genome

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: URMITE

text: public

text: Pandoravirus pampulha was isolated from sewage water, Pampulha lagoon, belohorizonte city, Brazil, by co-culture on Acanthamoeba castellanii.

text: Acanthamoeba castellanii str. Neff

text: Pandoravirus pampulha

text: Pandoravirus pampulha

text: Pandoravirus pampulha genome


characteristic: INSDC last update

text: public

tag: Namespace:Universite de Toulouse ; UPS ; CBI ; 118 route de Narbonne, 31062, Toulouse, France;CNRS ; LBCMCP ; F-31062 Toulouse, France

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: human

characteristic: common name

text: Protocols: DIvA (AsiSI-ER-U20S) cells were cultured in Dulbecco’s modified Eagle’s medium (DMEM) supplemented with antibiotics, 10% FCS (InVitrogenInvitrogen) with 1 µg/mL puromycin (DIvA cells) at 37°C under a humidified atmosphere with 5% CO2. For AsiSI-dependent DSB induction, cells were treated with 300 nM 4OHT (Sigma; H7904) for 4h ChIP: Formaldehyde was added to the culture medium at a final concentration of 1% and crosslinking was allowed to proceed for 15 min at room temperature. Reaction was stopped by adding glycine (0.125M final concentration) and incubation for 5 minutes at room temperature. Cells were washed twice with PBS and harvested by scraping. Cell lysis was performed by incubation in cell lysis buffer (5 mM Pipes pH 8, 85 mM KCl, 0.5% IGEPAL® CA-630) followed by Dounce homogenization. Nuclei were harvested by centrifugation and incubated in nuclear lysis buffer: (50 mM Tris pH 8.1, 10 mM EDTA, 1% SDS) and sonicated 10 times for 10 s at a power setting of 5 and 50% duty cycle (Branson Sonifier 250). Samples were diluted 10 times in ChIP dilution buffer (16.7 mM Tris pH 8.1, 167 mM NaCl, 1.2 mM EDTA, 1.1% Triton X‐100, 0.01% SDS) and precleared using a mixture of protein A-agarose (Pierce) and protein G-sepharose (Sigma) previously blocked with BSA (Sigma). Precleared samples (200 μg) were incubated overnight at 4°C with indicated antibodies. Immune complexes were recovered by incubation with blocked protein A/protein G beads for 2 h at 4°C on a rotating wheel. Beads were washed once in dialysis buffer (50 mM Tris pH 8, 2 mM EDTA, 0.2% Sarkosyl), five times in wash buffer (100 mM Tris pH 8.8, 500 mM LiCl, 1% IGEPAL® CA-630, 1% NaDoc) and twice with TE (10mM Tris-HCl, pH 8, 1mM EDTA). Beads were resuspended in TE supplemented with 50µg/ml DNase-free RNase A (Abcam) and incubated for 30 minutes at 37°C. SDS (final concentration 0.5%) was added and crosslink was reversed by overnight incubation at 70°C. Following a 2 hours treatment with 200 µg/ml proteinase K (Roche) at 45°C, DNA was purified by phenol/chloroform extraction and recovered by ethanol precipitation in presence of 5 µg glycogen (Invitrogen). DNA pellet was resuspended in water. Prior to next-generation sequencing library preparation, samples from multiples ChIP experiments were pooled and sonicated for 5 cycles (30 seconds on, 30 seconds off, high setting) on a Bioruptor (Diagenode) then concentrated with a vacuum concentrator (Eppendorf). For SETX ChIP, 100 µg of chromatin was immunoprecipitated by using 2 µg of anti-SETX (Novus Biologicals, NB100-57542). For RNA Pol II ChIP, 25 µg of chromatin was immunoprecipitated with 75 µl of anti-RNA polymerase II CTD repeat YSPTSPS (phospho S2) (Chromotek 3E10) or with 2µg of the anti-total RNA PolII (Bethyl Laboratories A304-405A). DRIP-Seq: DIvA cells were treated with 300 nM 4OHT for 4h, trypsinized, pelleted at low speed and washed with DPBS (Life technology). Total nucleic acids were extracted with 0,5% SDS /Proteinase K (Thermo Fisher Scientific, Waltham, MA) treatment at 37°C overnight and recovered by phenol-chloroform extraction and ethanol precipitation. DNA was digested by a restriction enzyme cocktail (20 units each of EcoRI, HindIII, BsrGI, XbaI) (New England Biolabs) in 1× NEBuffer 2, with or without RNase H treatment, overnight at 37°C. Fragmented DNA was cleaned by phenol-chloroform extraction and ethanol precipitation followed by two washes with 70% ethanol. Air-dried pellets were resuspended in 10 mM Tris-HCl pH 7.5, 1 mM EDTA (TE). 4 µg of digests was diluted in 450 µL of TE, and 10 µL was reserved as input for qPCR. 50 µL of 10× IP buffer was added (final buffer concentration of 10 mM sodium phosphate, 140 mM sodium chloride, 0.05% Triton X-100) and 10 µL of S9.6 antibody (1 mg/ml, kind gift from F. Chedin, UC Davis). Samples were incubated with the antibody at 4°C for 2 hours on a wheel. 50 µL of Protein A/G Agarose (Pierce), previously washed twice with 700 µL of 1× IP buffer for 5 minutes at room temperature, were added and samples were incubated for 2h at 4°C on a wheel. Each DRIP was then washed three times with 700 µL 1× IP buffer for 10 minutes at room temperature. After the final wash, beads were resuspended in 250 µL of 1× IP buffer and incubated with 60 units of Proteinase K for 45 minutes at 55°C. Digested DRIP samples were then cleaned with phenol-chloroform extraction and ethanol precipitation. Air-dried DRIP pellets were resuspended in 45 µL of 10 mM Tris-HCl pH 8. For DRIP-seq, samples from 3 DRIP experiments were pooled and sonicated to an average size of 300bp using a Bioruptor (Diagenode) for 20 cycles of 30 s On, 30 s Off, High setting. Immunoprecipitated DNA was subjected to library preparation at EMBL Genomics core facilities (Heidelberg, Germany). RNA-Seq: For RNA-seq, DIvA cells (transfected with the control siRNA) were lysed using TRI reagent (SIGMA) and spiked-in with ERCC RNA Spike-In Mix (Thermo Fisher Scientific). Total RNA were recovered by chloroform extraction followed by isopropanol precipitation. Samples were treated with RQ1 RNase-free DNase (Promega) for 1 hour at 37 C and purified by phenol/chloroform extraction followed by ethanol precipitation. Ribosomal RNA depletion and RNA-Seq library preparation were performed at EMBL Genomics core facilities (Heidelberg, Germany) using TruSeq Stranded Total RNA (Illumina). ChIP-seq and DRIP-seq library prepartion was perfomed EMBL Genomics core facilities (Heidelberg, Germany) using NEBNext ChIP-Seq Library Prep kit (New England Biolabs). RNA-seq library preparation were performed at EMBL Genomics core facilities (Heidelberg, Germany) using TruSeq Stranded Total RNA (Illumina).

text: AsiSI-ER expression

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


text: Universite de Toulouse ; UPS ; CBI ; 118 route de Narbonne, 31062, Toulouse, France;CNRS ; LBCMCP ; F-31062 Toulouse, France

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: ArrayExpress

text: human

text: AsiSI-ER expression

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: double strand breaks

characteristic: stimulus


characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: SRA accession

text: ArrayExpress

text: human

characteristic: description

text: AsiSI-ER expression

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens


text: URMITE

text: public

characteristic: Submitter Id

text: Pandoravirus massiliensis was isolated from sewage water, Belo horizonte city, Brazil, by coculture on Acanthamoeba castellanii.

text: Acanthamoeba castellanii str. Neff

characteristic: host scientific name

text: Pandoravirus massiliensis

text: Pandoravirus massiliensis

characteristic: strain

text: Pandoravirus massiliensis genome

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCSDMI

characteristic: INSDC last update

text: public

text: Missing: Not provided

characteristic: age

text: years

characteristic: age units

text: Missing: Not provided

characteristic: bmi

text: UBERON:feces

characteristic: body habitat

text: UBERON:feces

characteristic: body product

text: UBERON:feces

characteristic: body site

text: stool sample 79998

text: TRUE

characteristic: elevation

text: Host-asssociated

text: Animal

text: Animal distal gut

text: urban biome

characteristic: env biome

text: human-associated habitat

characteristic: env feature

text: human-gut

characteristic: env package

text: feces

text: USA:CA:San Diego

characteristic: geo loc name

text: Missing: Not provided

characteristic: height

text: Missing: Not provided

text: human

characteristic: host common name

text: Homo sapiens

characteristic: host subject id

characteristic: host taxid

characteristic: latitude

text: adult

characteristic: life stage

characteristic: longitude

text: human oral metagenome

text: UCSDMI

text: TRUE

characteristic: preservative

text: stool

characteristic: sample type

text: human oral metagenome

text: female

characteristic: sex

characteristic: temperature

text: Missing: Not provided

characteristic: weight

text: Missing: Not provided


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Missing: Not provided

characteristic: age

text: years

characteristic: age units

text: Missing: Not provided

characteristic: bmi

text: UBERON:feces

characteristic: body habitat

text: UBERON:feces

characteristic: body product

text: UBERON:feces

characteristic: body site

text: stool sample 79996

characteristic: description

text: TRUE

characteristic: elevation

text: Host-asssociated

text: Animal

text: Animal distal gut

text: urban biome

text: human-associated habitat

text: human-gut

text: feces

text: USA:CA:San Diego

text: Missing: Not provided

text: Missing: Not provided

text: human

text: Homo sapiens

characteristic: host scientific name

text: adult

text: human gut metagenome

characteristic: organism

text: UCSDMI

text: TRUE

text: stool

text: human gut metagenome

text: female

text: amb

characteristic: title

text: Missing: Not provided

text: Missing: Not provided


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

text: public

text: Missing: Not provided

text: years

text: Missing: Not provided

text: UBERON:feces

text: UBERON:feces

text: UBERON:feces

text: stool sample 79946

text: TRUE

text: Host-asssociated

text: Animal

text: Animal distal gut

text: urban biome

characteristic: env biome

text: human-associated habitat

characteristic: env feature

text: human-gut

characteristic: env package

text: feces

text: USA:CA:San Diego

characteristic: geo loc name

text: Missing: Not provided

characteristic: height

text: Missing: Not provided

text: human

characteristic: host common name

text: Homo sapiens

characteristic: host subject id

characteristic: host taxid

characteristic: latitude

text: adult

characteristic: life stage

characteristic: longitude

text: human gut metagenome

text: UCSDMI

text: TRUE

characteristic: preservative

text: stool

characteristic: sample type

text: human gut metagenome

text: male

characteristic: sex

characteristic: temperature

text: Missing: Not provided

characteristic: weight

text: Missing: Not provided


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: qiita_sid_11444:11444.H10.fecal.none.1wk

characteristic: Submitter Id

text: Missing: Not provided

characteristic: age

text: years

characteristic: age units

text: Missing: Not provided

characteristic: bmi

text: UBERON:feces

characteristic: body habitat

text: UBERON:feces

characteristic: body product

text: UBERON:feces

characteristic: body site

text: stool sample 79947

characteristic: description

text: TRUE

characteristic: elevation

text: Host-asssociated

text: Animal

text: Animal distal gut

text: urban biome

text: human-associated habitat

text: human-gut

text: feces

text: USA:CA:San Diego

text: Missing: Not provided

text: Missing: Not provided

text: human

text: Homo sapiens

characteristic: host scientific name

text: adult

text: human gut metagenome

characteristic: organism

text: UCSDMI

text: TRUE

text: stool

text: human gut metagenome

text: male

text: amb

characteristic: title

text: Missing: Not provided

text: Missing: Not provided