characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EBI

characteristic: INSDC center name

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: dog

characteristic: common name

text: Canis lupus familiaris

characteristic: organism

text: Canis lupus familiaris

text: fsdfsdf

characteristic: title


status: PUBLIC

tag: attribute

text: GATECH

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: collection date

text: MAGs for Year-Round Shotgun Metagenomes Reveal Stable Microbial Communities in Agricultural Soils and Novel Ammonia Oxidizers Responding to Fertilization

characteristic: description

characteristic: environment (biome)

characteristic: environment (feature)

characteristic: environment (material)

text: USA

characteristic: geographic location (country and/or sea)

unit: m

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

unit: DD

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: metagenome

text: Year-Round agricultural shotgun metagenomes

characteristic: project name

text: metagenome

text: Illumina HiSeq

characteristic: sequencing method

text: soil

characteristic: soil environmental package

text: Havana and Urbana MAGs


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Genoscope CEA

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

tag: Namespace:Genoscope CEA

characteristic: Submitter Id

text: fall armyworm

characteristic: common name

text: Spodoptera frugiperda

characteristic: organism

text: Spodoptera frugiperda

text: corn strain

characteristic: strain

text: Nuclear genome of Spodoptera frugiperda (corn strain)

characteristic: title


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: DTU2016-1460-PRJTWINNING21-Salmonella-Derby-15-41877_S1

tag: Namespace:ISTITUTO ZOOPROFILATTICO SPERIMENTALE DELLE VENEZIE

characteristic: collection date

text: Italy

characteristic: geographic location (country and/or sea)

text: not provided

characteristic: host health state

text: Sus

characteristic: host scientific name

text: Salmonella enterica subsp. enterica serovar Derby

characteristic: isolate

text: Food, pork sausage

characteristic: isolation source

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: serovar


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: ISTITUTO ZOOPROFILATTICO SPERIMENTALE DELLE VENEZIE

characteristic: INSDC center name

text: public

text: DTU2016-1461-PRJTWINNING21-Salmonella-Derby-15-35290_S2

text: Italy

text: not provided

text: Sus

text: Food, pork minced meat

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: INSDC first public

text: public

characteristic: SRA accession

text: DTU2016-1462-PRJTWINNING21-Salmonella-Derby-15-63705_S3

characteristic: Submitter Id

text: Italy

text: not provided

text: Sus

text: Food, pork carcass swab

text: Salmonella enterica subsp. enterica

characteristic: organism

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: DTU2016-1463-PRJTWINNING21-Salmonella-Derby-15-78470_S4

text: Italy

text: not provided

text: Sus

text: Food, pork carcass swab

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: title


text: public

text: DTU2016-1464-PRJTWINNING21-Salmonella-Derby-15-94823_S5

characteristic: collection date

text: Italy

characteristic: geographic location (country and/or sea)

text: not provided

characteristic: host health state

text: Sus

text: Food, pork carcass swab

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


text: public

text: DTU2016-1465-PRJTWINNING21-Salmonella-Derby-15-58570_S6

text: Italy

text: not provided

text: Sus

characteristic: host scientific name

characteristic: isolate

text: Food, pork salami

characteristic: isolation source

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: DTU2016-1466-PRJTWINNING21-Salmonella-Derby-15-76347_S7

text: Italy

text: not provided

text: Sus

text: Food, pork sausage

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: serovar


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: DTU2016-1467-PRJTWINNING21-Salmonella-Derby-15-163014_S8

text: Italy

text: not provided

text: Sus

text: Food, pork sausage

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Italy

text: not provided

text: Sus

text: Food, fresh cured meats

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Italy

text: not provided

text: Sus

text: Animal, carcass sponge

text: Salmonella enterica subsp. enterica

characteristic: organism

text: Salmonella enterica subsp. enterica

text: Derby


text: public

characteristic: collection date

text: Italy

characteristic: geographic location (country and/or sea)

text: not provided

text: Sus

text: Food, aged cured meats

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: title


text: public

text: Italy

text: not provided

characteristic: host health state

text: Sus

characteristic: host scientific name

characteristic: isolate

text: Laboratory, bacterial strain

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Italy

text: not provided

text: Sus

text: Food, meat based products

characteristic: isolation source

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Italy

text: not provided

text: Sus

text: Animal, carcass swab

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: serovar


characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: Italy

text: not provided

text: Sus

text: Food, pork meat

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: Submitter Id

text: Italy

text: not provided

text: Sus

text: Food, pork minced meat

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


text: public

characteristic: collection date

text: Italy

characteristic: geographic location (country and/or sea)

text: not provided

text: Sus

text: Animal, swine organ

text: Salmonella enterica subsp. enterica

characteristic: organism

text: Salmonella enterica subsp. enterica

text: Derby


text: public

text: Italy

text: not provided

characteristic: host health state

text: Sus

characteristic: host scientific name

text: Animal, swine carcass swab

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Italy

text: not provided

text: Sus

characteristic: isolate

text: Animal, swine carcass sponge

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Italy

text: not provided

text: Sus

text: Animal, swine faeces

characteristic: isolation source

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Italy

text: not provided

text: Sus

text: Food, Caracass Swab

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: serovar


characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Germany

text: not provided

text: Meleagris

text: Food, turkey meat

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


text: public

characteristic: Submitter Id

characteristic: collection date

text: Germany

characteristic: geographic location (country and/or sea)

text: not provided

text: Meleagris

text: Animal, turkey

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


text: public

text: Germany

text: not provided

characteristic: host health state

text: Meleagris

characteristic: host scientific name

text: Animal, turkey skin

text: Salmonella enterica subsp. enterica

characteristic: organism

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Germany

text: not provided

text: Sus

text: Animal, pig feces

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Germany

text: not provided

text: Sus

characteristic: isolate

text: Animal, pork

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Germany

text: not provided

text: Sus

text: Food, minced meat

characteristic: isolation source

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Germany

text: not provided

text: Sus

text: Animal, pig

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: serovar


text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Germany

text: not provided

text: Sus

text: Other, piglet feces

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


text: public

text: Germany

characteristic: geographic location (country and/or sea)

text: not provided

characteristic: host health state

text: Sus

characteristic: host scientific name

text: Animal, pig organs

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Germany

text: not provided

text: Sus

text: Food, pork

text: Salmonella enterica subsp. enterica

characteristic: organism

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Germany

text: not provided

text: Sus

text: Other, pig feces

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Germany

text: not provided

text: Sus

characteristic: isolate

text: Other, pig

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Germany

text: not provided

text: Sus

text: Food, pig liver

characteristic: isolation source

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Germany

text: not provided

text: Sus

text: Animal, minced meat

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: serovar


text: public

characteristic: collection date

text: Germany

characteristic: geographic location (country and/or sea)

text: not provided

characteristic: host health state

text: Sus

text: Food, pig

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Germany

text: not provided

text: Sus

characteristic: host scientific name

text: Food, Mett (minced meat for raw consumption)

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Germany

text: not provided

text: Bos

text: Animal, cow

text: Salmonella enterica subsp. enterica

characteristic: organism

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Germany

text: not provided

text: Bos

text: Animal, cow organs

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: title


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Germany

text: not provided

text: Gallus

characteristic: isolate

text: Animal, layer flock feces

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Germany

text: not provided

text: Bos

text: Food, beef

characteristic: isolation source

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


text: public

characteristic: collection date

text: Germany

characteristic: geographic location (country and/or sea)

text: not provided

text: Bos

text: Food, minced meat (beef)

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: serovar


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Germany

text: not provided

characteristic: host health state

text: Bos

text: Animal, beef

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Germany

text: not provided

text: Bos

characteristic: host scientific name

text: Other, beef (salt meat)

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Germany

text: not provided

text: Bos

text: Food, beef (salt meat)

text: Salmonella enterica subsp. enterica

characteristic: organism

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Germany

text: not provided

text: Sus

text: Other, meat wild pig

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: title


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Germany

text: not provided

text: Gallus

characteristic: isolate

text: Animal, chicken meat

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


text: public

characteristic: collection date

text: Germany

characteristic: geographic location (country and/or sea)

text: not provided

text: Bos

text: Food, cow

characteristic: isolation source

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Germany

text: not provided

text: Anser

text: Food, goose feces

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: serovar


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Germany

text: not provided

characteristic: host health state

text: Gallus

text: Food, chicken feces

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Germany

text: not provided

text: Bos

characteristic: host scientific name

text: Animal, minced meat (beef)

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Italy

text: not provided

text: Sus

text: Animal, organs/carcasses

text: Salmonella enterica subsp. enterica

characteristic: organism

text: Salmonella enterica subsp. enterica

text: Derby


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Italy

text: not provided

text: Sus

text: Food, Processed meat

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: title


text: public

characteristic: collection date

text: Italy

characteristic: geographic location (country and/or sea)

text: not provided

text: Sus

characteristic: isolate

text: Animal

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Italy

text: not provided

text: Sus

text: Food, meat preparation

characteristic: isolation source

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Italy

text: not provided

text: Sus

text: Animal, carcass

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: serovar


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Italy

text: not provided

characteristic: host health state

text: Meleagris

text: Food, processed meat

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Italy

text: not provided

text: Meleagris

characteristic: host scientific name

text: Animal, swab

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Italy

text: not provided

text: Meleagris

text: Animal, feces

text: Salmonella enterica subsp. enterica

characteristic: organism

text: Salmonella enterica subsp. enterica

text: Derby


text: public

characteristic: collection date

text: Italy

characteristic: geographic location (country and/or sea)

text: not provided

text: Meleagris

text: Animal, Animal

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Italy

text: not provided

text: Gallus

characteristic: isolate

text: Animal, feces

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Italy

text: not provided

text: Ruditapes philippinarum

text: Animal

characteristic: isolation source

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Italy

text: not provided

text: Animal

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: serovar


characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Italy

text: not provided

characteristic: host health state

text: Homo sapiens

text: Human

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Italy

text: not provided

text: Homo sapiens

characteristic: host scientific name

text: Human, feces

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


text: public

characteristic: collection date

text: Italy

characteristic: geographic location (country and/or sea)

text: not provided

text: Other

text: Salmonella enterica subsp. enterica

characteristic: organism

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Italy

text: not provided

text: Environment

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Italy

text: not provided

characteristic: isolate

text: Food, food

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Italy

text: not provided

text: Homo sapiens

text: Human, urine

characteristic: isolation source

text: Salmonella enterica subsp. enterica

text: Salmonella enterica subsp. enterica

text: Derby


E-MTAB-6211:Sample 1

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-6211:Sample 1

tag: Namespace:Gurdon Institute, University of Cambridge

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: epithelial cell

characteristic: cell type

text: human

characteristic: common name

text: Protocols: MCF7 cells were grown in standard conditions in 15 cm diameter dishes to confluence and cross-linked with 1% (v/v) formaldehyde for 15 minutes at room temperature and cross-linking was stopped by the addition of 0.125M glycine. Cells were then lysed in 1% [v/v] SDS, 10mM EDTA, 50mM Tris-HCL pH8.0, 1mM and protease inhibitors. Cells were sonicated in QSONICA sonicator (1h cycle 5 secs ON/5 secs OFF) to achieve a mean DNA fragment size of 500bp. Antibodies used are: DDX54 Rabbit polyclonal Abcam- ab76947; DDX3 Mouse monoclonal Abcam-ab196032; Mouse Control IgG2a Isotype Control Abcam-ab18413; Rabbit IgG, polyclonal Isotype Control Abcam-ab27478; ERa (Estrogen Receptor alpha) Rabbit monoclonal Abcam ab32063; H3 (tri methyl K4) Rabbit polyclonal Abcam- ab8580; Rabbit IgG polyclonal Isotype Control Abcam-ab27478 Chromatin was pre-cleared by incubation with protein A/G dynabeads magnetic beads (Thermo Scientific) in modified RIPA buffer (1% [v/v] Triton-X- 100, 0.1% deoxycholate, 0.1% SDS, 90mM NaCl, 10mM Tris-HCL pH8.0, 1mM sodium orthovanadate and EDTA-free protease inhibitors) in rotation at 4°C for 2 hours. Immunoprecipitation (IP) was performed for a minimum of 12 hours at 4°C in modified RIPA buffer with anti-DDX3, anti-DDX54, anti-ER, anti- H3K4me3 and anti-IgG Rb isotype control antibodies. All IPs were performed in triplicate. Protein A (for rabbit antibodies) and G (for mouse antibodies) previously equilibrated in modified RIPA buffer, were used to bind the antibody and associated chromatin for a minimum of 2 hours in rotation at 4°C. The beads were then washed twice with wash buffer (0.1% [v/v] SDS, 1% [v/v] Triton-X-100, 2mM EDTA, 20mM Tris pH8.0, 150mM NaCl) and once with final wash buffer (0.1% [v/v] SDS, 1% [v/v] Triton-X-100, 2mM EDTA, 20mM Tris pH8.0, 500mM NaCl). DNA was then eluted with 200μl of elution buffer (1% [v/v] SDS, 100mM NaHCO3) for 15 minutes at room temperature. The input and immunoprecipitated samples were then mixed with 2μl of RNase (DNase free-Roche) for a minimum of 5 hours at 65°C to reverse the crosslinks. DNA purification was performed using the ChIP DNA ZYMO purification kit. Purified DNA was used for preparation of ChIP-seq libraries with NEXTflex ChIP-Seq Library Prep Kit for Illumina Sequencing from Bioo Scientific, following manufacturer instructions. Purified DNA was used for preparation of ChIP seq libraries with NEXTflex ChIP-Seq Library Prep Kit for Illumina Sequencing from Bioo Scientific, following manufacturer instructions.

characteristic: description

text: invasive ductal carcinoma

characteristic: disease

text: pleural effusion

characteristic: metastatic site

text: Homo sapiens

text: Homo sapiens

text: mammary gland

characteristic: organism part

text: Homo sapiens

text: Sample 1


E-MTAB-6211:Sample 2

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Gurdon Institute, University of Cambridge

text: public

characteristic: SRA accession

text: E-MTAB-6211:Sample 2

characteristic: Submitter Id

text: ArrayExpress

text: epithelial cell

text: human

text: invasive ductal carcinoma

text: pleural effusion

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: mammary gland

text: Homo sapiens

text: Sample 2

characteristic: title


E-MTAB-6211:Sample 3

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-6211:Sample 3

text: ArrayExpress

text: epithelial cell

text: human

text: invasive ductal carcinoma

text: pleural effusion

text: Homo sapiens

text: Homo sapiens

text: mammary gland

text: Homo sapiens

text: Sample 3


E-MTAB-6211:Sample 4

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-6211:Sample 4

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: epithelial cell

text: human

text: invasive ductal carcinoma

text: pleural effusion

text: Homo sapiens

text: Homo sapiens

text: mammary gland

text: Homo sapiens

text: Sample 4


E-MTAB-6211:Sample 5

text: public

text: E-MTAB-6211:Sample 5

text: ArrayExpress

text: epithelial cell

characteristic: cell type

text: human

characteristic: common name

characteristic: description

text: invasive ductal carcinoma

characteristic: disease

text: pleural effusion

text: Homo sapiens

text: Homo sapiens

text: mammary gland

text: Homo sapiens

text: Sample 5


E-MTAB-6211:Sample 6

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-6211:Sample 6

text: ArrayExpress

text: epithelial cell

text: human

text: invasive ductal carcinoma

text: pleural effusion

characteristic: metastatic site

text: Homo sapiens

text: Homo sapiens

text: mammary gland

characteristic: organism part

text: Homo sapiens

text: Sample 6


E-MTAB-6211:Sample 7

text: public

characteristic: SRA accession

text: E-MTAB-6211:Sample 7

characteristic: Submitter Id

text: ArrayExpress

text: epithelial cell

text: human

text: invasive ductal carcinoma

text: pleural effusion

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: mammary gland

text: Homo sapiens

text: Sample 7

characteristic: title


E-MTAB-6211:Sample 8

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-6211:Sample 8

text: ArrayExpress

text: epithelial cell

text: human

text: invasive ductal carcinoma

text: pleural effusion

text: Homo sapiens

text: Homo sapiens

text: mammary gland

text: Homo sapiens

text: Sample 8


E-MTAB-6211:Sample 9

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-6211:Sample 9

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: epithelial cell

text: human

text: invasive ductal carcinoma

text: pleural effusion

text: Homo sapiens

text: Homo sapiens

text: mammary gland

text: Homo sapiens

text: Sample 9


E-MTAB-6211:Sample 16

text: public

text: E-MTAB-6211:Sample 16

text: ArrayExpress

text: epithelial cell

characteristic: cell type

text: human

characteristic: common name

characteristic: description

text: invasive ductal carcinoma

characteristic: disease

text: pleural effusion

text: Homo sapiens

text: Homo sapiens

text: mammary gland

text: Homo sapiens

text: Sample 16


E-MTAB-6211:Sample 17

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-6211:Sample 17

text: ArrayExpress

text: epithelial cell

text: human

text: invasive ductal carcinoma

text: pleural effusion

characteristic: metastatic site

text: Homo sapiens

text: Homo sapiens

text: mammary gland

characteristic: organism part

text: Homo sapiens

text: Sample 17


E-MTAB-6211:Sample 18

text: public

characteristic: SRA accession

text: E-MTAB-6211:Sample 18

characteristic: Submitter Id

text: ArrayExpress

text: epithelial cell

text: human

text: invasive ductal carcinoma

text: pleural effusion

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: mammary gland

text: Homo sapiens

text: Sample 18

characteristic: title


E-MTAB-6211:Sample 10

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-6211:Sample 10

text: ArrayExpress

text: epithelial cell

text: human

text: invasive ductal carcinoma

text: pleural effusion

text: Homo sapiens

text: Homo sapiens

text: mammary gland

text: Homo sapiens

text: Sample 10


E-MTAB-6211:Sample 11

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-6211:Sample 11

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: epithelial cell

text: human

text: invasive ductal carcinoma

text: pleural effusion

text: Homo sapiens

text: Homo sapiens

text: mammary gland

text: Homo sapiens

text: Sample 11


E-MTAB-6211:Sample 12

text: public

text: E-MTAB-6211:Sample 12

text: ArrayExpress

text: epithelial cell

characteristic: cell type

text: human

characteristic: common name

characteristic: description

text: invasive ductal carcinoma

characteristic: disease

text: pleural effusion

text: Homo sapiens

text: Homo sapiens

text: mammary gland

text: Homo sapiens

text: Sample 12


E-MTAB-6211:Sample 13

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-6211:Sample 13

text: ArrayExpress

text: epithelial cell

text: human

text: invasive ductal carcinoma

text: pleural effusion

characteristic: metastatic site

text: Homo sapiens

text: Homo sapiens

text: mammary gland

characteristic: organism part

text: Homo sapiens

text: Sample 13


E-MTAB-6211:Sample 14

text: public

characteristic: SRA accession

text: E-MTAB-6211:Sample 14

characteristic: Submitter Id

text: ArrayExpress

text: epithelial cell

text: human

text: invasive ductal carcinoma

text: pleural effusion

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: mammary gland

text: Homo sapiens

text: Sample 14

characteristic: title


E-MTAB-6211:Sample 15

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-6211:Sample 15

text: ArrayExpress

text: epithelial cell

text: human

text: invasive ductal carcinoma

text: pleural effusion

text: Homo sapiens

text: Homo sapiens

text: mammary gland

text: Homo sapiens

text: Sample 15


text: UNIVERSITY OF OXFORD

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:UNIVERSITY OF OXFORD

text: Monomicrobial metagenomic

text: Staphylococcus aureus

text: Staphylococcus aureus


text: UNIVERSITY OF OXFORD

text: public

text: Monomicrobial metagenomic

text: Cutibacterium acnes

text: Cutibacterium acnes


text: UNIVERSITY OF OXFORD

text: public

text: Monomicrobial metagenomic

text: Staphylococcus epidermidis

text: Staphylococcus epidermidis


text: UNIVERSITY OF OXFORD

text: public

text: Monomicrobial metagenomic

text: Citrobacter koseri

text: Citrobacter koseri


text: UNIVERSITY OF OXFORD

text: public

text: Monomicrobial metagenomic

text: Morganella morganii

text: Morganella morganii


text: UNIVERSITY OF OXFORD

text: public

text: Monomicrobial metagenomic

text: Bacillus thuringiensis

text: Bacillus thuringiensis


text: UNIVERSITY OF OXFORD

text: public

text: polymicrobial metagenomic

text: Arcanobacterium haemolyticum

text: Arcanobacterium haemolyticum


text: UNIVERSITY OF OXFORD

text: public

text: human

characteristic: common name

text: Culture negative

text: Homo sapiens

text: Homo sapiens


text: public

tag: Namespace:Institute for Integrative Systems Biology

characteristic: collection date

text: German cockroach

text: insect gut

characteristic: environment (biome)

text: hindgut

characteristic: environment (feature)

text: tissue

characteristic: environment (material)

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Blattella germanica

text: gut microbiota of Blattela germanica

characteristic: project name

text: Blattella germanica

text: illumina miseq

characteristic: sequencing method

text: cockroach adult 1


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Institute for Integrative Systems Biology

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: German cockroach

text: insect gut

text: hindgut

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

characteristic: organism

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 2

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: collection date

text: German cockroach

characteristic: common name

text: insect gut

characteristic: environment (biome)

text: hindgut

characteristic: environment (feature)

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 3


text: public

text: German cockroach

text: insect gut

text: hindgut

text: tissue

characteristic: environment (material)

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Blattella germanica

text: gut microbiota of Blattela germanica

characteristic: project name

text: Blattella germanica

text: illumina miseq

characteristic: sequencing method

text: cockroach adult 4


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: German cockroach

text: insect gut

text: hindgut

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

characteristic: organism

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 5

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: collection date

text: German cockroach

characteristic: common name

text: insect gut

characteristic: environment (biome)

text: hindgut

characteristic: environment (feature)

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 6


text: public

text: German cockroach

text: insect gut

text: hindgut

text: tissue

characteristic: environment (material)

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Blattella germanica

text: gut microbiota of Blattela germanica

characteristic: project name

text: Blattella germanica

text: illumina miseq

characteristic: sequencing method

text: cockroach adult 7


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: German cockroach

text: insect gut

text: hindgut

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

characteristic: organism

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 8

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: collection date

text: German cockroach

characteristic: common name

text: insect gut

characteristic: environment (biome)

text: hindgut

characteristic: environment (feature)

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 9


text: public

text: German cockroach

text: insect gut

text: hindgut

text: tissue

characteristic: environment (material)

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Blattella germanica

text: gut microbiota of Blattela germanica

characteristic: project name

text: Blattella germanica

text: illumina miseq

characteristic: sequencing method

text: cockroach adult 10


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: German cockroach

text: insect gut

text: hindgut

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

characteristic: organism

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 11

characteristic: title


characteristic: INSDC center name

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characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: collection date

text: German cockroach

characteristic: common name

text: insect gut

characteristic: environment (biome)

text: hindgut

characteristic: environment (feature)

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 12


text: public

text: German cockroach

text: insect gut

text: hindgut

text: tissue

characteristic: environment (material)

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Blattella germanica

text: gut microbiota of Blattela germanica

characteristic: project name

text: Blattella germanica

text: illumina miseq

characteristic: sequencing method

text: cockroach adult 13


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: German cockroach

text: insect gut

text: hindgut

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

characteristic: organism

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 14

characteristic: title


characteristic: INSDC center name

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text: public

characteristic: INSDC status

characteristic: collection date

text: German cockroach

characteristic: common name

text: insect gut

characteristic: environment (biome)

text: hindgut

characteristic: environment (feature)

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 15


text: public

text: German cockroach

text: insect gut

text: hindgut

text: tissue

characteristic: environment (material)

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Blattella germanica

text: gut microbiota of Blattela germanica

characteristic: project name

text: Blattella germanica

text: illumina miseq

characteristic: sequencing method

text: cockroach adult 16


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: German cockroach

text: insect gut

text: hindgut

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

characteristic: organism

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 17

characteristic: title


characteristic: INSDC center name

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text: public

characteristic: INSDC status

characteristic: collection date

text: German cockroach

characteristic: common name

text: insect gut

characteristic: environment (biome)

text: hindgut

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text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 18


text: public

text: German cockroach

text: insect gut

text: hindgut

text: tissue

characteristic: environment (material)

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Blattella germanica

text: gut microbiota of Blattela germanica

characteristic: project name

text: Blattella germanica

text: illumina miseq

characteristic: sequencing method

text: cockroach adult 19


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: German cockroach

text: insect gut

text: hindgut

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

characteristic: organism

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 20

characteristic: title


characteristic: INSDC center name

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text: public

characteristic: INSDC status

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text: German cockroach

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characteristic: environment (biome)

text: hindgut

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text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 21


text: public

text: German cockroach

text: insect gut

text: hindgut

text: tissue

characteristic: environment (material)

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Blattella germanica

text: gut microbiota of Blattela germanica

characteristic: project name

text: Blattella germanica

text: illumina miseq

characteristic: sequencing method

text: cockroach adult 22


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: German cockroach

text: insect gut

text: hindgut

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

characteristic: organism

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 23

characteristic: title


characteristic: INSDC center name

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text: German cockroach

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text: hindgut

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text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 24


text: public

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text: insect gut

text: hindgut

text: tissue

characteristic: environment (material)

text: Spain

characteristic: geographic location (country and/or sea)

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text: host-associated

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text: metagenome

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text: Blattella germanica

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text: cockroach adult 25


characteristic: ENA-CHECKLIST

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text: public

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text: German cockroach

text: insect gut

text: hindgut

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text: Spain

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text: Blattella germanica

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text: gut microbiota of Blattela germanica

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characteristic: title


characteristic: INSDC center name

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text: German cockroach

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text: illumina miseq

text: cockroach adult 27


text: public

text: German cockroach

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text: hindgut

text: tissue

characteristic: environment (material)

text: Spain

characteristic: geographic location (country and/or sea)

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text: host-associated

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text: metagenome

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text: Blattella germanica

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characteristic: project name

text: Blattella germanica

text: illumina miseq

characteristic: sequencing method

text: cockroach adult 28


characteristic: ENA-CHECKLIST

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characteristic: External Id

text: public

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text: German cockroach

text: insect gut

text: hindgut

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

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text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 29

characteristic: title


characteristic: INSDC center name

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text: German cockroach

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characteristic: environment (biome)

text: hindgut

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text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 30


text: public

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text: insect gut

text: hindgut

text: tissue

characteristic: environment (material)

text: Spain

characteristic: geographic location (country and/or sea)

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text: host-associated

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text: metagenome

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text: Blattella germanica

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characteristic: project name

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text: cockroach adult 31


characteristic: ENA-CHECKLIST

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characteristic: External Id

text: public

characteristic: SRA accession

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text: German cockroach

text: insect gut

text: hindgut

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

characteristic: organism

text: gut microbiota of Blattela germanica

text: Blattella germanica

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characteristic: title


characteristic: INSDC center name

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text: German cockroach

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text: hindgut

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text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 33


text: public

text: German cockroach

text: insect gut

text: hindgut

text: tissue

characteristic: environment (material)

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Blattella germanica

text: gut microbiota of Blattela germanica

characteristic: project name

text: Blattella germanica

text: illumina miseq

characteristic: sequencing method

text: cockroach adult 34


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: German cockroach

text: insect gut

text: hindgut

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

characteristic: organism

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 35

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: collection date

text: German cockroach

characteristic: common name

text: insect gut

characteristic: environment (biome)

text: hindgut

characteristic: environment (feature)

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 36


text: public

text: German cockroach

text: insect gut

text: hindgut

text: tissue

characteristic: environment (material)

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Blattella germanica

text: gut microbiota of Blattela germanica

characteristic: project name

text: Blattella germanica

text: illumina miseq

characteristic: sequencing method

text: cockroach adult 37


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: German cockroach

text: insect gut

text: hindgut

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

characteristic: organism

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 38

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: collection date

text: German cockroach

characteristic: common name

text: insect gut

characteristic: environment (biome)

text: hindgut

characteristic: environment (feature)

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 39


text: public

text: German cockroach

text: insect gut

text: hindgut

text: tissue

characteristic: environment (material)

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Blattella germanica

text: gut microbiota of Blattela germanica

characteristic: project name

text: Blattella germanica

text: illumina miseq

characteristic: sequencing method

text: cockroach adult 40


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: German cockroach

text: insect gut

text: hindgut

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

characteristic: organism

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 41

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: collection date

text: German cockroach

characteristic: common name

text: insect gut

characteristic: environment (biome)

text: hindgut

characteristic: environment (feature)

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 42


text: public

text: German cockroach

text: insect gut

text: hindgut

text: tissue

characteristic: environment (material)

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Blattella germanica

text: gut microbiota of Blattela germanica

characteristic: project name

text: Blattella germanica

text: illumina miseq

characteristic: sequencing method

text: cockroach adult 23


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: German cockroach

text: insect gut

text: hindgut

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

characteristic: organism

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 44

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: collection date

text: German cockroach

characteristic: common name

text: insect gut

characteristic: environment (biome)

text: hindgut

characteristic: environment (feature)

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: cockroach adult 45


text: public

text: German cockroach

text: insect gut

text: hindgut

text: tissue

characteristic: environment (material)

text: Spain

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Blattella germanica

text: gut microbiota of Blattela germanica

characteristic: project name

text: Blattella germanica

text: illumina miseq

characteristic: sequencing method

text: dog food sample 1


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: German cockroach

text: insect gut

text: hindgut

text: tissue

text: Spain

text: host-associated

text: metagenome

text: Blattella germanica

characteristic: organism

text: gut microbiota of Blattela germanica

text: Blattella germanica

text: illumina miseq

text: dog food sample 2

characteristic: title


text: PEKING UNIVERSITY

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:PEKING UNIVERSITY

characteristic: collection date

text: 27.73 GB

characteristic: estimated size

text: China

text: Sampled leaves of seedlings

characteristic: isolation and growth condition

characteristic: number of replicons

text: Siraitia grosvenorii

text: seedling

characteristic: plant developmental stage

text: soil

characteristic: plant growth medium

text: leaf

characteristic: plant structure

text: Siraitia grosvenorii

text: Siraitia grosvenorii variety Qingpiguo

type: has member


SgQingpiguoML

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: PEKING UNIVERSITY

text: public

text: SgQingpiguoML

text: 6.99 GB

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: leaf

text: Siraitia grosvenorii

text: adult male plant

text: Soil

text: leaf

text: Siraitia grosvenorii

text: RNA-seq data of Siraitia grosvenorii Qingpiguo


SgQingpiguoFL

characteristic: External Id

text: PEKING UNIVERSITY

characteristic: INSDC center name

text: public

characteristic: SRA accession

text: SgQingpiguoFL

characteristic: Submitter Id

text: 7.34 GB

text: China

text: leaf

text: Siraitia grosvenorii

characteristic: organism

text: adult female plant

text: Soil

text: leaf

text: Siraitia grosvenorii

characteristic: title


SgQingpiguoL

text: PEKING UNIVERSITY

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: SgQingpiguoL

characteristic: collection date

text: 6.84 GB

characteristic: estimated size

text: China

text: leaf

characteristic: isolation and growth condition

text: Siraitia grosvenorii

text: adult plant

text: Soil

text: leaf

text: Siraitia grosvenorii


SgQingpiguoR

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: PEKING UNIVERSITY

text: public

text: SgQingpiguoR

text: 10.19 GB

text: China

text: root

characteristic: number of replicons

text: Siraitia grosvenorii

text: adult plant

characteristic: plant developmental stage

text: Soil

characteristic: plant growth medium

text: root

characteristic: plant structure

text: Siraitia grosvenorii


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: PEKING UNIVERSITY

characteristic: INSDC center name

text: public

text: 6.32 GB

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: early fruit

text: Siraitia grosvenorii

text: 3 days after anthesis

text: Soil

text: fruit

text: Siraitia grosvenorii


text: PEKING UNIVERSITY

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: 6.66 GB

text: China

text: early fruit

text: Siraitia grosvenorii

characteristic: organism

text: 20 days after anthesis

text: Soil

text: fruit

text: Siraitia grosvenorii

characteristic: title


OT Standard

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UPMC

text: public

characteristic: INSDC status

text: OT Standard

text: Courtis Claude

characteristic: collected by

characteristic: collection date

characteristic: depth

text: France

text: Ostreococcus tauri

text: Ostreococcus tauri

characteristic: strain

text: Standard Condition


OT 10/15/60 Salinity

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UPMC

characteristic: INSDC center name

text: public

text: OT 10/15/60 Salinity

text: Courtis Claude

text: France

text: Ostreococcus tauri

text: Ostreococcus tauri

text: OT culture under salinity stress


OT 15/30°C

text: UPMC

text: public

text: OT 15/30°C

text: Courtis Claude

text: France

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Ostreococcus tauri

text: Ostreococcus tauri

text: OT culture under temperature stress


OT 1200µE

text: UPMC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: SRA accession

text: OT 1200µE

text: Courtis Claude

text: France

text: Ostreococcus tauri

text: Ostreococcus tauri

text: OT culture under light stress


RCC809 Standard

text: UPMC

text: public

text: RCC809 Standard

characteristic: Submitter Id

text: Partensky F,

text: Atlantic Ocean

text: Ostreococcus sp. BCC103000

characteristic: organism

text: Ostreococcus sp. BCC103000

text: RCC 809 standard condition

characteristic: title


RCC809 15/60 Salinity

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UPMC

text: public

characteristic: INSDC status

text: RCC809 15/60 Salinity

text: Partensky F,

text: Atlantic Ocean

text: Ostreococcus sp. BCC103000

text: Ostreococcus sp. BCC103000

text: RCC809 culture under salinity stress


RCC809 15/30°C

text: UPMC

text: public

text: RCC809 15/30°C

text: Partensky F,

characteristic: collected by

characteristic: collection date

characteristic: depth

text: Atlantic Ocean

text: Ostreococcus sp. BCC103000

text: Ostreococcus sp. BCC103000

text: RCC809 culture under temperature stresses


RCC809 1200µE

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UPMC

text: public

text: RCC809 1200µE

text: Partensky F,

text: Atlantic Ocean

text: Ostreococcus sp. BCC103000

text: Ostreococcus sp. BCC103000

characteristic: strain

text: RCC809 culture under light stress


RCC802 Standard

text: UPMC

characteristic: INSDC center name

text: public

text: RCC802 Standard

text: Partensky F,

text: Mediterranean Sea

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: Ostreococcus 'lucimarinus'

text: Ostreococcus 'lucimarinus'

text: RCC802 under standard condition


RCC802 45 Salinity

text: UPMC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: RCC802 45 Salinity

text: Partensky F,

text: Mediterranean Sea

characteristic: geographic location (longitude)

text: Ostreococcus 'lucimarinus'

text: Ostreococcus 'lucimarinus'

text: RCC802 culture under salinity stress


RCC802 15/25°C

text: UPMC

text: public

characteristic: SRA accession

text: RCC802 15/25°C

characteristic: Submitter Id

text: Partensky F,

text: Mediterranean Sea

text: Ostreococcus 'lucimarinus'

characteristic: organism

text: Ostreococcus 'lucimarinus'

text: RCC802 under temperature stresses


RCC 802 800µE

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: UPMC

text: public

text: RCC 802 800µE

text: Partensky F,

text: Mediterranean Sea

text: Ostreococcus 'lucimarinus'

text: Ostreococcus 'lucimarinus'

text: RCC802 culture under light stress

characteristic: title


text: DUKE-NUS

text: public

characteristic: INSDC status

text: HCC cell line

characteristic: cell type

text: human

characteristic: common name

text: HepG2 exposed to 0.75 uM cisplatin for 8 weeks, single cell clone 4

characteristic: description

text: Homo sapiens

text: Homo sapiens


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: DUKE-NUS

text: public

text: HCC cell line

text: human

text: HepG2 exposed to 0.75 uM cisplatin for 8 weeks, single cell clone 3

text: Homo sapiens

text: Homo sapiens


text: DUKE-NUS

characteristic: INSDC center name

text: public

text: HCC cell line

text: human

text: HepG2 exposed to 0.75 uM cisplatin for 8 weeks, single cell clone 2

text: Homo sapiens

text: Homo sapiens


text: DUKE-NUS

text: public

text: HCC cell line

text: human

text: HepG2 exposed to 0.75 uM cisplatin for 8 weeks, single cell clone 1

text: Homo sapiens

text: Homo sapiens


text: DUKE-NUS

text: public

text: HepG2 cell line

text: human

text: HepG2 cell line

text: Homo sapiens

text: Homo sapiens


text: public

tag: Namespace:ROSLIN INSTITUTE, UNIVERSITY OF EDINBURGH

text: Affenpinscher

characteristic: breed

text: dog

text: gDNA from whole blood/EDTA

text: Caution: breed identity is owner reported.

characteristic: notes

text: Canis lupus familiaris

text: Canis lupus familiaris

text: M

characteristic: sex

text: Variant discovery of retrognathic and non-retrognathic dog breeds


text: ROSLIN INSTITUTE, UNIVERSITY OF EDINBURGH

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: Boxer

text: dog

text: gDNA from whole blood/EDTA

text: Canis lupus familiaris

text: Canis lupus familiaris

text: F


text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Bullmastiff

text: dog

text: gDNA from muscle preserved in isopropanol

text: Canis lupus familiaris

text: Canis lupus familiaris

text: M


characteristic: ENA-CHECKLIST

text: public

text: Cavalier King Charles Spaniel

text: dog

text: gDNA from whole blood/EDTA

text: Canis lupus familiaris

characteristic: organism

text: Canis lupus familiaris

text: F


characteristic: ENA-FIRST-PUBLIC

text: public

text: French Bulldog

text: dog

text: gDNA from soft tissue

text: Canis lupus familiaris

text: Canis lupus familiaris

text: M

characteristic: title


text: public

characteristic: INSDC status

text: Dogue de Bordeaux

text: dog

text: gDNA from whole blood/EDTA

text: Caution: breed identity is owner reported. Some analyses suggest this dog is a cryptic mixed breed.

text: Canis lupus familiaris

text: Canis lupus familiaris

text: M


text: public

text: Mixed Breed

text: dog

characteristic: common name

text: Canis lupus familiaris

text: Canis lupus familiaris

text: M


text: KIS

text: public

text: human

text: Homo sapiens

text: Homo sapiens


text: UNIVERSITY OF GLASGOW

text: public

tag: Namespace:UNIVERSITY OF GLASGOW

text: fruit fly

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Male

text: Male Brain

characteristic: tissue lib

text: Brain

characteristic: tissue type


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SZN

text: public

text: Phaeodactylum tricornutum

text: Phaeodactylum tricornutum

characteristic: strain

text: Phaeodactylum tricornutum


text: INSTITUTE OF EVOLUTIONARY BIOLOGY

characteristic: INSDC center name

text: public

tag: Namespace:INSTITUTE OF EVOLUTIONARY BIOLOGY

characteristic: collection date

text: v4 18S rDNA amplicons of 8-15 um size fraction from Ramallo Stream sampling site (Paraná River)

characteristic: description

text: Paraná River

characteristic: environment (biome)

text: freshwater river

characteristic: environment (feature)

text: fresh water

characteristic: environment (material)

text: Yes

characteristic: environmental sample

text: Argentina

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: uncultured eukaryote

text: Nex_18S_0587_F: CCGCGGTAATTCCAGCTC Nex_18S_0964_R: GATCCCYYAACTTTCGTTCTTGA

characteristic: pcr primers

text: uncultured eukaryote

text: 18S rDNA

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: INSTITUTE OF EVOLUTIONARY BIOLOGY

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: v4 18S rDNA amplicons of 2-8 um size fraction from Ramallo Stream sampling site (Paraná River)

text: Paraná River

text: freshwater river

text: fresh water

text: Yes

text: Argentina

text: uncultured eukaryote

characteristic: organism

text: uncultured eukaryote

text: 18S rDNA

characteristic: title


characteristic: External Id

text: INSTITUTE OF EVOLUTIONARY BIOLOGY

characteristic: INSDC center name

text: public

characteristic: collection date

text: v4 18S rDNA amplicons of 8-15 um size fraction from Paso del Tonelero sampling site (Paraná River)

characteristic: description

text: Paraná River

characteristic: environment (biome)

text: freshwater river

characteristic: environment (feature)

text: fresh water

characteristic: environment (material)

text: Yes

characteristic: environmental sample

text: Argentina

characteristic: geographic location (country and/or sea)

text: 60° 5'41.91W

text: uncultured eukaryote

text: uncultured eukaryote

text: 18S rDNA


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: INSTITUTE OF EVOLUTIONARY BIOLOGY

text: public

text: v4 18S rDNA amplicons of 2-8 um size fraction from Paso del Tonelero sampling site (Paraná River)

text: Paraná River

text: freshwater river

text: fresh water

text: Yes

text: Argentina

characteristic: geographic location (depth)

characteristic: geographic location (latitude)

text: 60° 5'41.91W

characteristic: geographic location (longitude)

text: uncultured eukaryote

characteristic: pcr primers

text: uncultured eukaryote

text: 18S rDNA

characteristic: target gene

characteristic: target subfragment


characteristic: External Id

text: INSTITUTE OF EVOLUTIONARY BIOLOGY

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: v4 18S rDNA amplicons from Paraná River

text: Paraná River

text: freshwater river

text: fresh water

text: Yes

text: Argentina

text: 60° 5'31.00W

text: uncultured eukaryote

characteristic: organism

text: uncultured eukaryote

text: 18S rDNA

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: INSTITUTE OF EVOLUTIONARY BIOLOGY

text: public

characteristic: collection date

text: v4 18S rDNA amplicons from Paraná River

characteristic: description

text: Paraná River

characteristic: environment (biome)

text: freshwater river

characteristic: environment (feature)

text: fresh water

characteristic: environment (material)

text: Yes

characteristic: environmental sample

text: Argentina

characteristic: geographic location (country and/or sea)

text: 60° 6'0.21W

text: uncultured eukaryote

text: uncultured eukaryote

text: 18S rDNA


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: INSTITUTE OF EVOLUTIONARY BIOLOGY

characteristic: INSDC center name

text: public

text: v4 18S rDNA amplicons from Paraná River

text: Paraná River

text: freshwater river

text: fresh water

text: Yes

text: Argentina

characteristic: geographic location (depth)

characteristic: geographic location (latitude)

text: 60° 6'5.17W

characteristic: geographic location (longitude)

text: uncultured eukaryote

characteristic: pcr primers

text: uncultured eukaryote

text: 18S rDNA

characteristic: target gene

characteristic: target subfragment


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: University Hospital Galway

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:University Hospital Galway

characteristic: Submitter Id

text: Ireland

text: Homo sapiens

characteristic: host scientific name

characteristic: isolate

text: Human

characteristic: isolation source

text: Shigella flexneri 2a

characteristic: organism

text: Shigella flexneri 2a

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: University Hospital Galway

characteristic: INSDC center name

text: public

characteristic: collection date

text: Ireland

characteristic: geographic location (country and/or sea)

text: Homo sapiens

text: Human

text: Shigella sonnei

text: Shigella sonnei


characteristic: ENA-CHECKLIST

text: University Hospital Galway

text: public

text: Ireland

text: Homo sapiens

text: Human

text: Shigella flexneri 3b

text: Shigella flexneri 3b


characteristic: ENA-FIRST-PUBLIC

text: University Hospital Galway

text: public

text: Ireland

text: Homo sapiens

text: Human

text: Shigella dysenteriae

text: Shigella dysenteriae


characteristic: INSDC first public

text: public

tag: Namespace:Department of Biosciences and Nutrition, Karolinska Institutet

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: induced pluripotent stem cell

characteristic: cell type

text: human

characteristic: common name

text: Protocols: Passage 10 fibroblasts (ATCC, CRL-2429) were reprogrammed with CRISPR-mediated gene activation. Cells were electroporated with pCXLE-dCas9VP192-GFP-shP53 activator and combinations of guide plasmids, GG-EBNA-OSKML-PP, GG-EBNA-KM-PP and GG-EBNA-EEA-5guides-PP, using Neon transfection system with 1650V, 10ms and 3x pulse settings. 250k (day 4 samples) to 125k cells (day 8 and 12 samples) were plated on Matrigel coated 6-well culture plates per well. Cells were grown for four days in DMEM and 10% FBS after which culture medium was changed to hES-medium (KnockOut DMEM (Gibco) supplemented with 20% KO serum replacement (Gibco), 1% GlutaMAX (Gibco), 0.1 mM beta-mercaptoethanol, 1% nonessential amino acids (Gibco), and 6 ng/ml basic fibroblast growth factor (FGF-2; Sigma)) supplemented with 250µM sodium butyrate. Cells were collected to Trizol Reagent on days 4, 8 and 12 after electroporation. Human foreskin fibroblast controls were collected from untreated cells cultured in DMEM and 10% FBS. In addition to the activator, samples marked 36bp contain guides targeting the 36bp EEA-motif, Samples marked OMKSL contain one plasmid with OCT4, SOX2, KLF4, MYC and LIN28A targeting guides and one plasmid with KLF4 and MYC targeting guides. Samples marked OMKSL+36bp contain OCT4, SOX2, KLF4, MYC and LIN28A targeting guide plasmid, KLF4 and MYC targeting guide plasmid and a 36bp EEA-motif targeting guide plasmid. These plasmids will be available on Addgene (https://www.addgene.org/Timo_Otonkoski/). Passage 10 fibroblasts (ATCC, CRL-2429) were reprogrammed with CRISPR-mediated gene activation. Cells were electroporated with pCXLE-dCas9VP192-GFP-shP53 activator and combinations of guide plasmids, GG-EBNA-OSKML-PP, GG-EBNA-KM-PP and GG-EBNA-EEA-5guides-PP, using Neon transfection system with 1650V, 10ms and 3x pulse settings. 250k (day 4 samples) to 125k cells (day 8 and 12 samples) were plated on Matrigel coated 6-well culture plates per well. Cells were grown for four days in DMEM and 10% FBS after which culture medium was changed to hES-medium (KnockOut DMEM (Gibco) supplemented with 20% KO serum replacement (Gibco), 1% GlutaMAX (Gibco), 0.1 mM beta-mercaptoethanol, 1% nonessential amino acids (Gibco), and 6 ng/ml basic fibroblast growth factor (FGF-2; Sigma)) supplemented with 250µM sodium butyrate. Cells were collected to Trizol Reagent on days 4, 8 and 12 after electroporation. Human foreskin fibroblast controls were collected from untreated cells cultured in DMEM and 10% FBS. In addition to the activator, samples marked 36bp contain guides targeting the 36bp EEA-motif, Samples marked OMKSL contain one plasmid with OCT4, SOX2, KLF4, MYC and LIN28A targeting guides and one plasmid with KLF4 and MYC targeting guides. Samples marked OMKSL+36bp contain OCT4, SOX2, KLF4, MYC and LIN28A targeting guide plasmid, KLF4 and MYC targeting guide plasmid and a 36bp EEA-motif targeting guide plasmid. These plasmids will be available on Addgene (https://www.addgene.org/Timo_Otonkoski/). 100 µl of chloroform per 500 ml of sample was added and mixed with Trizol Reagent. After centrifugation (12 000 g for 15 min) the transparent upper phase was collected and RNA was further purified using NucleoSpin RNA kit (Macherey-Nagel). RIN values were measured by Bioanalyzer (Agilent) and total-RNA concentrations scaled to equal (10 ng/μl) using Qubit assay (Thermo Fisther Scientific). Bulk-RNA transcriptome analysis was performed by the STRT RNA-seq method (PMID: 22481528) with minor modifications (PMID: 26874359). Briefly, ten nanogram of high-quality input RNA was converted to cDNA and amplified to form an Illumina-compatible 46-plex library. ERCC RNA Spike-In Mix 1 (cat. 4456740; ThermoScientific) was used in 1000X dilution. In total, 25 PCR cycles were used, but as six base-pair unique molecular identifiers (UMIs) were applied, only the absolute number of unique reads was calculated per analyzed sample.

characteristic: description

text: normal

characteristic: disease

text: pCXLE-dCas9VP192-GFP-shP53 + GG-EBNA-EEA-5guides-PP

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: dermis

characteristic: organism part

text: transfected with 36bp guide RNA

characteristic: phenotype

text: fibroblast of dermis

characteristic: progenitor cell type

text: Homo sapiens

unit: day

characteristic: time


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Department of Biosciences and Nutrition, Karolinska Institutet

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: induced pluripotent stem cell

text: human

text: normal

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: dermis

text: transfected with 36bp guide RNA

text: fibroblast of dermis

text: Homo sapiens

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC first public

text: public

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: fibroblast of dermis

characteristic: cell type

text: human

characteristic: common name

text: normal

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: dermis

text: wild type phenotype

text: Homo sapiens


text: public

text: ArrayExpress

text: induced pluripotent stem cell

text: human

characteristic: description

text: normal

characteristic: disease

text: pCXLE-dCas9VP192-GFP-shP53 + GG-EBNA-OSKML-PP + GG-EBNA-KM-PP + GG-EBNA-EEA-5guides-PP

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: dermis

characteristic: organism part

text: transfected with 36bp guide RNA and reprogramming factors

characteristic: phenotype

text: fibroblast of dermis

characteristic: progenitor cell type

text: Homo sapiens

characteristic: time


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: induced pluripotent stem cell

text: human

text: normal

text: pCXLE-dCas9VP192-GFP-shP53 + GG-EBNA-OSKML-PP + GG-EBNA-KM-PP

text: Homo sapiens

text: Homo sapiens

text: dermis

text: transfected with reprogramming factors

text: fibroblast of dermis

text: Homo sapiens


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: John Innes Centre

characteristic: INSDC first public

text: public

tag: Namespace:John Innes Centre

text: bread wheat

text: Canthatch

characteristic: cultivar

text: Bread wheat, accession Canthatch

text: Triticum aestivum

characteristic: organism

text: Triticum aestivum

text: Canthatch

characteristic: title


text: public

text: Pug

characteristic: breed

text: dog

characteristic: common name

text: gDNA from whole blood/EDTA

characteristic: description

characteristic: notes

text: Canis lupus familiaris

text: Canis lupus familiaris

text: F

characteristic: sex


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: American Bulldog

text: dog

text: gDNA from soft tissue

text: Canis lupus familiaris

text: Canis lupus familiaris

text: M


characteristic: INSDC center name

characteristic: INSDC last update

text: public

text: Airedale Terrier

text: dog

text: gDNA from whole blood/EDTA

text: Canis lupus familiaris

text: Canis lupus familiaris

text: F


text: public

characteristic: INSDC status

characteristic: SRA accession

text: Bichon frisé

text: dog

text: gDNA from whole blood/EDTA

text: Canis lupus familiaris

text: Canis lupus familiaris

text: M


characteristic: ENA-CHECKLIST

text: public

characteristic: Submitter Id

text: Bichon frisé

text: dog

text: gDNA from whole blood/EDTA

text: Canis lupus familiaris

text: Canis lupus familiaris

text: F


characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC first public

text: public

text: Brussels Griffon

text: dog

text: gDNA from soft tissue

text: Caution: breed identity is owner reported. Some analyses suggest this dog could be a cryptic mixed breed.

text: Canis lupus familiaris

text: Canis lupus familiaris

text: M


text: public

text: Bull Terrier

text: dog

text: gDNA from whole blood/EDTA

text: Caution: breed identity is owner reported.

text: Canis lupus familiaris

characteristic: organism

text: Canis lupus familiaris

text: M


text: public

text: Japanese Chin

text: dog

text: gDNA from whole blood/EDTA

text: Canis lupus familiaris

text: Canis lupus familiaris

text: M

text: Variant discovery of retrognathic and non-retrognathic dog breeds

characteristic: title


text: ROSLIN INSTITUTE, UNIVERSITY OF EDINBURGH

text: public

text: Dogue de Bordeaux

characteristic: breed

text: dog

text: gDNA from soft tissue

text: Canis lupus familiaris

text: Canis lupus familiaris

text: M


text: Plasmodium berghei

characteristic: ArrayExpress-SPECIES

text: ANKA

text: SC

text: public

text: Plasmodium berghei

characteristic: common name

text: Plasmodium berghei

text: Plasmodium berghei

characteristic: subject id


90590 N1-liver

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: 90590 N1-liver

tag: Namespace:CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: southeastern Asian house mouse

characteristic: date of birth

characteristic: date of death

text: liver dysplastic nodule 90590 N1 from DEN treated individual 90590. This sample is a unique specimen from this individual.

characteristic: description

text: dysplastic nodule

characteristic: diagnosis

characteristic: individual name

text: Mus musculus castaneus

text: 90590 N1

characteristic: sample name

text: Mus musculus castaneus

text: male

characteristic: sex

text: CAST/EiJ

characteristic: strain

text: liver

characteristic: tissue type

text: DEN

characteristic: treatment agent

characteristic: treatment date

unit: ug/g body weight

characteristic: treatment dose


87922 N3-liver

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: 87922 N3-liver

characteristic: Submitter Id

text: house mouse

text: liver sample 87922 N3 from individual 87922. This sample is a unique specimen from this individual.

text: Mus musculus

characteristic: organism

text: 87922 N3

text: Mus musculus

text: male

text: liver

characteristic: title

text: not treated


87920 N1-liver

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: 87920 N1-liver

text: house mouse

characteristic: common name

characteristic: date of birth

characteristic: date of death

text: liver sample 87920 N1 from individual 87920. This sample is a unique specimen from this individual.

characteristic: description

characteristic: individual name

text: Mus musculus

text: 87920 N1

characteristic: sample name

text: Mus musculus

text: male

characteristic: sex

characteristic: strain

text: liver

text: not treated


85037 N2-liver

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: 85037 N2-liver

text: house mouse

text: liver sample 85037 N2 from individual 85037. This sample is a unique specimen from this individual.

text: Mus musculus

text: 85037 N2

text: Mus musculus

text: male

text: liver

characteristic: tissue type

text: not treated

characteristic: treatment agent


89489 N6-liver

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: 89489 N6-liver

characteristic: Submitter Id

text: southeastern Asian house mouse

text: liver dysplastic nodule 89489 N6 from DEN treated individual 89489. This sample is a unique specimen from this individual.

text: dysplastic nodule

characteristic: diagnosis

text: Mus musculus castaneus

text: 89489 N6

text: Mus musculus castaneus

text: male

text: CAST/EiJ

text: liver

text: DEN

characteristic: treatment date

characteristic: treatment dose


92759 N1-liver

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: 92759 N1-liver

text: house mouse

characteristic: common name

characteristic: date of birth

characteristic: date of death

text: liver sample 92759 N1 from individual 92759. This sample is a unique specimen from this individual.

characteristic: description

characteristic: individual name

text: Mus musculus

characteristic: organism

text: 92759 N1

characteristic: sample name

text: Mus musculus

text: male

characteristic: sex

text: liver

characteristic: title

text: not treated


96988 N1-liver

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: 96988 N1-liver

text: house mouse

text: liver sample 96988 N1 from individual 96988. This sample is a unique specimen from this individual.

text: Mus musculus

text: 96988 N1

text: Mus musculus

text: male

characteristic: strain

text: liver

characteristic: tissue type

text: not treated

characteristic: treatment agent


87920 N4-liver

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: 87920 N4-liver

characteristic: Submitter Id

text: house mouse

characteristic: common name

characteristic: date of birth

text: liver sample 87920 N4 from individual 87920. This sample is a unique specimen from this individual.

text: Mus musculus

text: 87920 N4

text: Mus musculus

text: male

text: liver

text: not treated


HCC-Rat 7-liver

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: HCC-Rat 7-liver

text: Norway rat

text: liver sample HCC-Rat 7 from individual HCC-Rat 7. This sample is a unique specimen from this individual.

characteristic: description

text: HCC-Rat 7

characteristic: individual name

text: Rattus norvegicus

characteristic: organism

text: HCC-Rat 7

characteristic: sample name

text: Rattus norvegicus

text: male

characteristic: sex

text: liver

text: not treated


89808 N3-liver

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: 89808 N3-liver

text: southeastern Asian house mouse

characteristic: date of death

text: liver dysplastic nodule 89808 N3 from DEN treated individual 89808. This sample is a unique specimen from this individual.

text: dysplastic nodule

characteristic: diagnosis

text: Mus musculus castaneus

text: 89808 N3

text: Mus musculus castaneus

text: male

text: CAST/EiJ

text: liver

characteristic: title

text: DEN

characteristic: treatment date

characteristic: treatment dose


87918 N3-liver

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: 87918 N3-liver

characteristic: Submitter Id

text: house mouse

text: liver sample 87918 N3 from individual 87918. This sample is a unique specimen from this individual.

text: Mus musculus

text: 87918 N3

text: Mus musculus

text: male

characteristic: strain

text: liver

characteristic: tissue type

text: not treated

characteristic: treatment agent


87922 N2-liver

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: 87922 N2-liver

text: house mouse

characteristic: common name

characteristic: date of birth

text: liver sample 87922 N2 from individual 87922. This sample is a unique specimen from this individual.

characteristic: description

characteristic: individual name

text: Mus musculus

characteristic: organism

text: 87922 N2

characteristic: sample name

text: Mus musculus

text: male

characteristic: sex

text: liver

text: not treated


85037 N5-liver

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: 85037 N5-liver

text: house mouse

characteristic: date of death

text: liver sample 85037 N5 from individual 85037. This sample is a unique specimen from this individual.

text: Mus musculus

text: 85037 N5

text: Mus musculus

text: male

text: liver

characteristic: title

text: not treated


HCC-Rat 6-liver

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: HCC-Rat 6-liver

characteristic: Submitter Id

text: Norway rat

text: liver sample HCC-Rat 6 from individual HCC-Rat 6. This sample is a unique specimen from this individual.

text: HCC-Rat 6

text: Rattus norvegicus

text: HCC-Rat 6

text: Rattus norvegicus

text: male

characteristic: strain

text: liver

characteristic: tissue type

text: not treated


96504 N1-liver

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: 96504 N1-liver

text: house mouse

characteristic: common name

characteristic: date of birth

text: liver sample 96504 N1 from individual 96504. This sample is a unique specimen from this individual.

characteristic: description

text: Mus musculus

text: 96504 N1

text: Mus musculus

text: male

text: liver

text: not treated

characteristic: treatment agent


97732 N1-liver

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: 97732 N1-liver

text: house mouse

text: liver sample 97732 N1 from individual 97732. This sample is a unique specimen from this individual.

characteristic: individual name

text: Mus musculus

characteristic: organism

text: 97732 N1

characteristic: sample name

text: Mus musculus

text: male

characteristic: sex

text: liver

text: not treated


87919 N2-liver

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: 87919 N2-liver

text: house mouse

characteristic: date of death

text: liver sample 87919 N2 from individual 87919. This sample is a unique specimen from this individual.

text: Mus musculus

text: 87919 N2

text: Mus musculus

text: male

text: liver

characteristic: title

text: not treated


87918 N2-liver

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

characteristic: SRA accession

text: 87918 N2-liver

characteristic: Submitter Id

text: house mouse

text: liver sample 87918 N2 from individual 87918. This sample is a unique specimen from this individual.

text: Mus musculus

text: 87918 N2

text: Mus musculus

text: male

characteristic: strain

text: liver

characteristic: tissue type

text: not treated


87918 N1-liver

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

text: 87918 N1-liver

text: house mouse

characteristic: common name

characteristic: date of birth

text: liver sample 87918 N1 from individual 87918. This sample is a unique specimen from this individual.

characteristic: description

text: Mus musculus

text: 87918 N1

text: Mus musculus

text: male

text: liver

text: not treated

characteristic: treatment agent


85037 N6-liver

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: 85037 N6-liver

text: house mouse

text: liver sample 85037 N6 from individual 85037. This sample is a unique specimen from this individual.

characteristic: individual name

text: Mus musculus

characteristic: organism

text: 85037 N6

characteristic: sample name

text: Mus musculus

text: male

characteristic: sex

text: liver

text: not treated


88626 N2-liver

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: 88626 N2-liver

text: southeastern Asian house mouse

characteristic: date of death

text: liver dysplastic nodule 88626 N2 from DEN treated individual 88626. This sample is a unique specimen from this individual.

text: dysplastic nodule

characteristic: diagnosis

text: Mus musculus castaneus

text: 88626 N2

text: Mus musculus castaneus

text: male

text: CAST/EiJ

text: liver

characteristic: title

text: DEN

characteristic: treatment date

characteristic: treatment dose


85037 N4-liver

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CANCER RESEARCH UK CAMBRIDGE INSTITUTE

text: public

characteristic: SRA accession

text: 85037 N4-liver

characteristic: Submitter Id

text: house mouse

characteristic: common name

characteristic: date of birth

text: liver sample 85037 N4 from individual 85037. This sample is a unique specimen from this individual.

characteristic: description

text: Mus musculus

text: 85037 N4

text: Mus musculus

text: male

characteristic: strain

text: liver

characteristic: tissue type

text: not treated