E-MTAB-2762:Sample 1

text: EBI

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: E-MTAB-2762:Sample 1

text: ArrayExpress

text: house mouse

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: female

text: Sample 1


E-MTAB-2762:Sample 2

status: PUBLIC

tag: attribute

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EBI

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-2762:Sample 2

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

text: Protocols: Silastic tubing containing 35 ul of oil or 35ul of oil with 180ug/ml E2. Implants remained in mice for 7 days. Total RNA was extracted using Ambion RNAqueous according to manufacturers protocol.Samples were treated with Turbo DNA-free reagent to remove genomic DNA. The TruSeq RNA sample prep kit was used according to manufacturers protocol. 1ug total RNA was used to make poly-A selected and barcoded libraries. Libraries were pooled and quantifed using real time PCR and library quantification kit (Kapa Biosystems).

characteristic: description

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: female

characteristic: sex

characteristic: strain

text: Sample 2

characteristic: title

type: has member


E-MTAB-2762:Sample 4

text: EBI

characteristic: INSDC center name

text: public

text: E-MTAB-2762:Sample 4

text: ArrayExpress

text: house mouse

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: female

text: Sample 4


E-MTAB-2762:Sample 5

text: EBI

characteristic: INSDC first public

text: public

text: E-MTAB-2762:Sample 5

text: ArrayExpress

text: house mouse

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: female

text: Sample 5


E-MTAB-2762:Sample 7

text: EBI

text: public

characteristic: SRA accession

text: E-MTAB-2762:Sample 7

text: ArrayExpress

text: house mouse

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: female

text: Sample 7


E-MTAB-2762:Sample 8

text: EBI

text: public

text: E-MTAB-2762:Sample 8

text: ArrayExpress

text: house mouse

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

text: female

text: Sample 8


E-MTAB-2762:Sample 6

characteristic: ENA-CHECKLIST

text: EBI

text: public

text: E-MTAB-2762:Sample 6

text: ArrayExpress

text: house mouse

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: female

text: Sample 6


text: WT

characteristic: ArrayExpress-Genotype

text: Lin- bone marrow cells

characteristic: ArrayExpress-OrganismPart

text: wt

characteristic: ArrayExpress-Phenotype

text: female

characteristic: ArrayExpress-Sex

text: Mus Musculus

characteristic: ArrayExpress-Species

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

text: house mouse

text: Mus musculus

text: Lin- bone marrow cells

characteristic: sample description

text: Mus musculus


text: KO

text: Lin- bone marrow cells

text: wt

text: female

text: Mus Musculus

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: Submitter Id

text: house mouse

characteristic: common name

text: Mus musculus

text: Lin- bone marrow cells

text: Mus musculus


text: female

text: Mus Musculus

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: house mouse

text: Mus musculus

text: RNA from iPSC

text: Mus musculus


text: Chilotilapia rhoadesii

text: SC

text: public

characteristic: SRA accession

text: bream

text: Chilotilapia rhoadesii

characteristic: organism

text: Chilotilapia rhoadesii


text: Trematocranus placodon

characteristic: ENA-CHECKLIST

text: SC

text: public

text: snail-crusher hap

text: Trematocranus placodon

text: Trematocranus placodon


text: Chilotilapia rhoadesii

text: SC

text: public

text: bream

text: Chilotilapia rhoadesii

text: Mangochi

text: Chilotilapia rhoadesii


text: Dimidiochromis compressiceps (Malawi eyebiter)

text: SC

text: public

text: Malawi eyebiter

text: Dimidiochromis compressiceps

text: Mangochi

text: Dimidiochromis compressiceps


text: male

text: Hemitilapia oxyrhynchus

text: SC

text: public

text: giant haplochromis

text: Hemitilapia oxyrhyncha

text: Mangochi

text: Hemitilapia oxyrhyncha


text: Tropheops tropheops (=orange chest)

text: SC

text: public

text: golden tropheops

text: Tropheops tropheops

text: Cape Maclear

text: Tropheops tropheops


text: male

text: Dimidiochromis strigatus

text: SC

text: public

text: haplochromis sunset

text: Dimidiochromis strigatus

text: Salima

text: Dimidiochromis strigatus


text: male

text: Astatotilapia calliptera

text: SC

text: public

text: A__calliptera_Salima_male_offspring_1-sc-2016622

text: eastern happy

text: Astatotilapia calliptera

text: Salima

text: Astatotilapia calliptera


text: female

text: Aulonocara stuartgranti

text: SC

text: public

text: A__stuartgranti_female_offspring_1-sc-2016623

text: flavescent peacock cichlid

text: Aulonocara stuartgranti

text: Usisya region

text: Aulonocara stuartgranti


text: male

text: Astatotilapia calliptera

text: SC

text: public

text: A__calliptera_Salima_male_offspring_2-sc-2016624

text: eastern happy

text: Astatotilapia calliptera

text: Salima

text: Astatotilapia calliptera


text: female

text: Aulonocara stuartgranti

text: SC

text: public

text: A__stuartgranti_female_offspring_2-sc-2016625

text: flavescent peacock cichlid

text: Aulonocara stuartgranti

text: Usisya region

text: Aulonocara stuartgranti


text: female

text: Astatotilapia calliptera

text: SC

text: public

text: A__calliptera_Salima_female_offspring-sc-2016626

text: eastern happy

text: Astatotilapia calliptera

text: Salima

text: Astatotilapia calliptera


text: Astatotilapia calliptera

text: SC

text: public

text: Astatotilapia_calliptera_Chitimba-sc-2016910

text: eastern happy

text: Astatotilapia calliptera

text: Chitimba, site 79

text: Astatotilapia calliptera


text: Astatotilapia calliptera

text: SC

text: public

text: Astatotilapia_calliptera_North_Rukuru-sc-2016911

text: eastern happy

text: Astatotilapia calliptera

text: North Rukuru, site 80

text: Astatotilapia calliptera


text: Astatotilapia calliptera

text: SC

text: public

text: Astatotilapia_calliptera_Songwe_River-sc-2016912

text: eastern happy

text: Astatotilapia calliptera

text: Songwe River, site 81

text: Astatotilapia calliptera


text: Astatotilapia calliptera

text: SC

text: public

text: Astatotilapia_calliptera_South_Rukuru-sc-2016913

text: eastern happy

text: Astatotilapia calliptera

text: South Rukuru, site 30

text: Astatotilapia calliptera


text: Astatotilapia calliptera

text: SC

text: public

text: Astatotilapia_calliptera_Enukweni-sc-2016914

text: eastern happy

text: Astatotilapia calliptera

text: Enukweni

text: Astatotilapia calliptera


text: Astatotilapia calliptera

text: SC

text: public

text: Astatotilapia_calliptera_Lake_Chidya-sc-2016915

text: eastern happy

text: Astatotilapia calliptera

text: Lake Chidya, site 20

text: Astatotilapia calliptera


text: Astatotilapia calliptera

text: SC

text: public

text: Astatotilapia_calliptera_Kitai_Dam-sc-2016916

text: eastern happy

text: Astatotilapia calliptera

text: Kitai Dam, Site 11

text: Astatotilapia calliptera


text: Astatotilapia calliptera

text: SC

text: public

text: Astatotilapia_calliptera_Upper_Rovuma-sc-2016917

text: eastern happy

text: Astatotilapia calliptera

text: Upper Rovuma, Site 12

text: Astatotilapia calliptera


text: Astatotilapia calliptera

text: SC

text: public

text: Astatotilapia_calliptera_Near_Kyela-sc-2016918

text: eastern happy

text: Astatotilapia calliptera

text: Near Kyela, site 2

text: Astatotilapia calliptera


text: Astatotilapia calliptera

text: SC

text: public

text: Astatotilapia_calliptera_Luwawa-sc-2016919

text: eastern happy

text: Astatotilapia calliptera

text: Luwawa

text: Astatotilapia calliptera


text: Astatotilapia calliptera

text: SC

text: public

text: eastern happy

text: Astatotilapia calliptera

text: Bua

text: Astatotilapia calliptera


text: ES cells

characteristic: ArrayExpress-CellType

text: WT

characteristic: ArrayExpress-Genotype

text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: bisulfite treated genomic DNA from mouse ES cells

text: Mus musculus


text: ES cells

text: Sall4 KO

text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Mus musculus


text: ES cells

text: MBD3 KO

text: Mus musculus

text: SC

text: public

text: house mouse

text: Mus musculus

text: Mus musculus


E-MTAB-2769:HCT116 LIG3 -/-

text: EBI

text: public

text: E-MTAB-2769:HCT116 LIG3 -/-

text: ArrayExpress

characteristic: broker name

text: human

text: Protocols: Library was constructed by standard DNA sample preparation kit.

characteristic: description

text: gene knock out

characteristic: genetic modification

text: HCT116 LIG3 -/-

characteristic: individual

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: HCT116 LIG3 -/-

characteristic: title


E-MTAB-2769:HCT116 LIG4 -/-

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EBI

text: public

text: E-MTAB-2769:HCT116 LIG4 -/-

text: ArrayExpress

text: human

text: gene knock out

text: HCT116 LIG4 -/-

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: HCT116 LIG4 -/-


text: EBI

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: Submitter Id

text: ArrayExpress

text: human

text: wild type genotype

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


E-MTAB-2769:HCT116 Wildtype

text: EBI

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: E-MTAB-2769:HCT116 Wildtype

text: ArrayExpress

text: human

characteristic: common name

text: wild type genotype

text: HCT116 Wildtype

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: HCT116 Wildtype


Sample 20144 Ft-S

characteristic: ENA-CHECKLIST

text: IRCCS Istituto di Ricerche Farmacologiche Mario Negri

text: public

text: Sample 20144 Ft-S

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

text: human

text: female

characteristic: gender

text: High

characteristic: grade

text: Serous

characteristic: histotype

text: Homo sapiens

characteristic: organism

text: epithelial ovarian cancer

characteristic: phenotype

text: diseased tissue

characteristic: sample type

text: Homo sapiens

text: III C

characteristic: stage

characteristic: subject id

text: first

text: Sample 20144 Ft-S


Sample 20174 Ft-S

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

text: Sample 20174 Ft-S

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: first

text: Sample 20174 Ft-S

characteristic: title


Sample 20282 Ft-S

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: Sample 20282 Ft-S

characteristic: Submitter Id

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: first

text: Sample 20282 Ft-S


Sample 20357 Ft-S

characteristic: ENA-CHECKLIST

text: public

characteristic: SRA accession

text: Sample 20357 Ft-S

text: human

characteristic: common name

text: female

characteristic: gender

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: first

text: Sample 20357 Ft-S


Sample 20367 Ft-S

text: public

text: Sample 20367 Ft-S

text: human

text: female

text: Low

characteristic: grade

text: Serous

characteristic: histotype

text: Homo sapiens

characteristic: organism

text: epithelial ovarian cancer

characteristic: phenotype

text: diseased tissue

text: Homo sapiens

text: III C

text: first

text: Sample 20367 Ft-S


Sample 20379 Ft-S

characteristic: ENA-FIRST-PUBLIC

text: public

text: Sample 20379 Ft-S

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

characteristic: sample type

text: Homo sapiens

text: IV

characteristic: stage

characteristic: subject id

text: first

text: Sample 20379 Ft-S


Sample 20384 Ft-S

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

text: Sample 20384 Ft-S

text: human

text: female

text: High

text: Clear cell

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: first

text: Sample 20384 Ft-S

characteristic: title


Sample 20417 Ft-S

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: Sample 20417 Ft-S

characteristic: Submitter Id

text: human

text: female

text: High

text: Endometrioid

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: first

text: Sample 20417 Ft-S


Sample 20418 Ft-S

characteristic: ENA-CHECKLIST

text: public

characteristic: SRA accession

text: Sample 20418 Ft-S

text: human

characteristic: common name

text: female

characteristic: gender

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: first

text: Sample 20418 Ft-S


Sample 20560 Ft-S

text: public

text: Sample 20560 Ft-S

text: human

text: female

text: High

characteristic: grade

text: Serous

characteristic: histotype

text: Homo sapiens

characteristic: organism

text: epithelial ovarian cancer

characteristic: phenotype

text: diseased tissue

text: Homo sapiens

text: III B

text: first

text: Sample 20560 Ft-S


Sample 20614 Ft-S

characteristic: ENA-FIRST-PUBLIC

text: public

text: Sample 20614 Ft-S

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

characteristic: sample type

text: Homo sapiens

text: III C

characteristic: stage

characteristic: subject id

text: first

text: Sample 20614 Ft-S


Sample 20654 Ft-S

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

text: Sample 20654 Ft-S

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: first

text: Sample 20654 Ft-S

characteristic: title


Sample 20663 Ft-S

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: Sample 20663 Ft-S

characteristic: Submitter Id

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: first

text: Sample 20663 Ft-S


Sample 20681 Ft-S

characteristic: ENA-CHECKLIST

text: public

characteristic: SRA accession

text: Sample 20681 Ft-S

text: human

characteristic: common name

text: female

characteristic: gender

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: first

text: Sample 20681 Ft-S


Sample 20683 Ft-S

text: public

text: Sample 20683 Ft-S

text: human

text: female

text: High

characteristic: grade

text: Endometrioid

characteristic: histotype

text: Homo sapiens

characteristic: organism

text: epithelial ovarian cancer

characteristic: phenotype

text: diseased tissue

text: Homo sapiens

text: IV

text: first

text: Sample 20683 Ft-S


Sample 20724 Ft-S

characteristic: ENA-FIRST-PUBLIC

text: public

text: Sample 20724 Ft-S

text: human

text: female

text: Low

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

characteristic: sample type

text: Homo sapiens

text: III B

characteristic: stage

characteristic: subject id

text: first

text: Sample 20724 Ft-S


Sample 20738 Ft-S

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

text: Sample 20738 Ft-S

text: human

text: female

text: Low

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: first

text: Sample 20738 Ft-S

characteristic: title


Sample 20783 Ft-S

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: Sample 20783 Ft-S

characteristic: Submitter Id

text: human

text: female

text: Low

text: Endometrioid

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: II A

text: first

text: Sample 20783 Ft-S


Sample 20788 Ft-S

characteristic: ENA-CHECKLIST

text: public

characteristic: SRA accession

text: Sample 20788 Ft-S

text: human

characteristic: common name

text: female

characteristic: gender

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III B

text: first

text: Sample 20788 Ft-S


Sample 20800 Ft-S

text: public

text: Sample 20800 Ft-S

text: human

text: female

text: Low

characteristic: grade

text: Mucinous

characteristic: histotype

text: Homo sapiens

characteristic: organism

text: epithelial ovarian cancer

characteristic: phenotype

text: diseased tissue

text: Homo sapiens

text: III C

text: first

text: Sample 20800 Ft-S


Sample 20821 Ft-S

characteristic: ENA-FIRST-PUBLIC

text: public

text: Sample 20821 Ft-S

text: human

text: female

text: Low

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

characteristic: sample type

text: Homo sapiens

text: III C

characteristic: stage

characteristic: subject id

text: first

text: Sample 20821 Ft-S


Sample 20924 Ft-S

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

text: Sample 20924 Ft-S

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: first

text: Sample 20924 Ft-S

characteristic: title


Sample 20935 Ft-S

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: Sample 20935 Ft-S

characteristic: Submitter Id

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: IV

text: first

text: Sample 20935 Ft-S


Sample 20995 Ft-S

characteristic: ENA-CHECKLIST

text: public

characteristic: SRA accession

text: Sample 20995 Ft-S

text: human

characteristic: common name

text: female

characteristic: gender

text: High

text: Endometrioid

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: first

text: Sample 20995 Ft-S


Sample 21019 Ft-S

text: public

text: Sample 21019 Ft-S

text: human

text: female

text: High

characteristic: grade

text: Serous

characteristic: histotype

text: Homo sapiens

characteristic: organism

text: epithelial ovarian cancer

characteristic: phenotype

text: diseased tissue

text: Homo sapiens

text: III C

text: first

text: Sample 21019 Ft-S


Sample 21110 Ft-S

characteristic: ENA-FIRST-PUBLIC

text: public

text: Sample 21110 Ft-S

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

characteristic: sample type

text: Homo sapiens

text: III C

characteristic: stage

characteristic: subject id

text: first

text: Sample 21110 Ft-S


Sample 21184 Ft-S

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

text: Sample 21184 Ft-S

text: human

text: female

text: Low

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: IV

text: first

text: Sample 21184 Ft-S

characteristic: title


Sample 21194 Ft-S

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: Sample 21194 Ft-S

characteristic: Submitter Id

text: human

text: female

text: Low

text: Mucinous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III A

text: first

text: Sample 21194 Ft-S


Sample 21249 Ft-S

characteristic: ENA-CHECKLIST

text: public

characteristic: SRA accession

text: Sample 21249 Ft-S

text: human

characteristic: common name

text: female

characteristic: gender

text: High

text: Mixed

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III B

text: first

text: Sample 21249 Ft-S


Sample 21296 Ft-S

text: public

text: Sample 21296 Ft-S

text: human

text: female

text: High

characteristic: grade

text: Serous

characteristic: histotype

text: Homo sapiens

characteristic: organism

text: epithelial ovarian cancer

characteristic: phenotype

text: diseased tissue

text: Homo sapiens

text: IV

text: first

text: Sample 21296 Ft-S


Sample 21309 Ft-S

characteristic: ENA-FIRST-PUBLIC

text: public

text: Sample 21309 Ft-S

text: human

text: female

text: High

text: Mixed

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

characteristic: sample type

text: Homo sapiens

text: IV

characteristic: stage

characteristic: subject id

text: first

text: Sample 21309 Ft-S


Sample 21311 Ft-S

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

text: Sample 21311 Ft-S

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: first

text: Sample 21311 Ft-S

characteristic: title


Sample 10152 Sd-S

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: Sample 10152 Sd-S

characteristic: Submitter Id

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: second

text: Sample 10152 Sd-S


Sample 20144 Sd-S

characteristic: ENA-CHECKLIST

text: public

characteristic: SRA accession

text: Sample 20144 Sd-S

text: human

characteristic: common name

text: female

characteristic: gender

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: second

text: Sample 20144 Sd-S


Sample 20174 Sd-S

text: public

text: Sample 20174 Sd-S

text: human

text: female

text: High

characteristic: grade

text: Serous

characteristic: histotype

text: Homo sapiens

characteristic: organism

text: epithelial ovarian cancer

characteristic: phenotype

text: diseased tissue

text: Homo sapiens

text: III C

text: second

text: Sample 20174 Sd-S


Sample 20282 Sd-S

characteristic: ENA-FIRST-PUBLIC

text: public

text: Sample 20282 Sd-S

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

characteristic: sample type

text: Homo sapiens

text: III C

characteristic: stage

characteristic: subject id

text: second

text: Sample 20282 Sd-S


Sample 20357 Sd-S

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

text: Sample 20357 Sd-S

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: second

text: Sample 20357 Sd-S

characteristic: title


Sample 20367 Sd-S

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: Sample 20367 Sd-S

characteristic: Submitter Id

text: human

text: female

text: Low

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: second

text: Sample 20367 Sd-S


Sample 20379 Sd-S

characteristic: ENA-CHECKLIST

text: public

characteristic: SRA accession

text: Sample 20379 Sd-S

text: human

characteristic: common name

text: female

characteristic: gender

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: IV

text: second

text: Sample 20379 Sd-S


Sample 20384 Sd-S

text: public

text: Sample 20384 Sd-S

text: human

text: female

text: High

characteristic: grade

text: Clear cell

characteristic: histotype

text: Homo sapiens

characteristic: organism

text: epithelial ovarian cancer

characteristic: phenotype

text: diseased tissue

text: Homo sapiens

text: III C

text: second

text: Sample 20384 Sd-S


Sample 20417 Sd-S

characteristic: ENA-FIRST-PUBLIC

text: public

text: Sample 20417 Sd-S

text: human

text: female

text: High

text: Endometrioid

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

characteristic: sample type

text: Homo sapiens

text: III C

characteristic: stage

characteristic: subject id

text: second

text: Sample 20417 Sd-S


Sample 20418 Sd-S

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

text: Sample 20418 Sd-S

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: second

text: Sample 20418 Sd-S

characteristic: title


Sample 20560 Sd-S

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: Sample 20560 Sd-S

characteristic: Submitter Id

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III B

text: second

text: Sample 20560 Sd-S


Sample 20614 Sd-S

characteristic: ENA-CHECKLIST

text: public

characteristic: SRA accession

text: Sample 20614 Sd-S

text: human

characteristic: common name

text: female

characteristic: gender

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: second

text: Sample 20614 Sd-S


Sample 20654 Sd-S

text: public

text: Sample 20654 Sd-S

text: human

text: female

text: High

characteristic: grade

text: Serous

characteristic: histotype

text: Homo sapiens

characteristic: organism

text: epithelial ovarian cancer

characteristic: phenotype

text: diseased tissue

text: Homo sapiens

text: III C

text: second

text: Sample 20654 Sd-S


Sample 20663 Sd-S

characteristic: ENA-FIRST-PUBLIC

text: public

text: Sample 20663 Sd-S

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

characteristic: sample type

text: Homo sapiens

text: III C

characteristic: stage

characteristic: subject id

text: second

text: Sample 20663 Sd-S


Sample 20681 Sd-S

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

text: Sample 20681 Sd-S

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: second

text: Sample 20681 Sd-S

characteristic: title


Sample 20683 Sd-S

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: Sample 20683 Sd-S

characteristic: Submitter Id

text: human

text: female

text: High

text: Endometrioid

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: IV

text: second

text: Sample 20683 Sd-S


Sample 20724 Sd-S

characteristic: ENA-CHECKLIST

text: public

characteristic: SRA accession

text: Sample 20724 Sd-S

text: human

characteristic: common name

text: female

characteristic: gender

text: Low

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III B

text: second

text: Sample 20724 Sd-S


Sample 20738 Sd-S

text: public

text: Sample 20738 Sd-S

text: human

text: female

text: Low

characteristic: grade

text: Serous

characteristic: histotype

text: Homo sapiens

characteristic: organism

text: epithelial ovarian cancer

characteristic: phenotype

text: diseased tissue

text: Homo sapiens

text: III C

text: second

text: Sample 20738 Sd-S


Sample 20783 Sd-S

characteristic: ENA-FIRST-PUBLIC

text: public

text: Sample 20783 Sd-S

text: human

text: female

text: Low

text: Endometrioid

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

characteristic: sample type

text: Homo sapiens

text: II A

characteristic: stage

characteristic: subject id

text: second

text: Sample 20783 Sd-S


Sample 20788 Sd-S

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

text: Sample 20788 Sd-S

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III B

text: second

text: Sample 20788 Sd-S

characteristic: title


Sample 20800 Sd-S

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: Sample 20800 Sd-S

characteristic: Submitter Id

text: human

text: female

text: Low

text: Mucinous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: second

text: Sample 20800 Sd-S


Sample 20821 Sd-S

characteristic: ENA-CHECKLIST

text: public

characteristic: SRA accession

text: Sample 20821 Sd-S

text: human

characteristic: common name

text: female

characteristic: gender

text: Low

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: second

text: Sample 20821 Sd-S


Sample 20924 Sd-S

text: public

text: Sample 20924 Sd-S

text: human

text: female

text: High

characteristic: grade

text: Serous

characteristic: histotype

text: Homo sapiens

characteristic: organism

text: epithelial ovarian cancer

characteristic: phenotype

text: diseased tissue

text: Homo sapiens

text: III C

text: second

text: Sample 20924 Sd-S


Sample 20935 Sd-S

characteristic: ENA-FIRST-PUBLIC

text: public

text: Sample 20935 Sd-S

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

characteristic: sample type

text: Homo sapiens

text: IV

characteristic: stage

characteristic: subject id

text: second

text: Sample 20935 Sd-S


Sample 20995 Sd-S

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

text: Sample 20995 Sd-S

text: human

text: female

text: High

text: Endometrioid

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: second

text: Sample 20995 Sd-S

characteristic: title


Sample 21019 Sd-S

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: Sample 21019 Sd-S

characteristic: Submitter Id

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: second

text: Sample 21019 Sd-S


Sample 21110 Sd-S

characteristic: ENA-CHECKLIST

text: public

characteristic: SRA accession

text: Sample 21110 Sd-S

text: human

characteristic: common name

text: female

characteristic: gender

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III C

text: second

text: Sample 21110 Sd-S


Sample 21184 Sd-S

text: public

text: Sample 21184 Sd-S

text: human

text: female

text: Low

characteristic: grade

text: Serous

characteristic: histotype

text: Homo sapiens

characteristic: organism

text: epithelial ovarian cancer

characteristic: phenotype

text: diseased tissue

text: Homo sapiens

text: IV

text: second

text: Sample 21184 Sd-S


Sample 21194 Sd-S

characteristic: ENA-FIRST-PUBLIC

text: public

text: Sample 21194 Sd-S

text: human

text: female

text: Low

text: Mucinous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

characteristic: sample type

text: Homo sapiens

text: III A

characteristic: stage

characteristic: subject id

text: second

text: Sample 21194 Sd-S


Sample 21249 Sd-S

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

text: Sample 21249 Sd-S

text: human

text: female

text: High

text: Mixed

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: III B

text: second

text: Sample 21249 Sd-S

characteristic: title


Sample 21296 Sd-S

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: INSDC status

text: Sample 21296 Sd-S

characteristic: Submitter Id

text: human

text: female

text: High

text: Serous

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: IV

text: second

text: Sample 21296 Sd-S


Sample 21309 Sd-S

characteristic: ENA-CHECKLIST

text: public

characteristic: SRA accession

text: Sample 21309 Sd-S

text: human

characteristic: common name

text: female

characteristic: gender

text: High

text: Mixed

text: Homo sapiens

text: epithelial ovarian cancer

text: diseased tissue

text: Homo sapiens

text: IV

text: second

text: Sample 21309 Sd-S


Sample 21311 Sd-S

text: public

text: Sample 21311 Sd-S

text: human

text: female

text: High

characteristic: grade

text: Serous

characteristic: histotype

text: Homo sapiens

characteristic: organism

text: epithelial ovarian cancer

characteristic: phenotype

text: diseased tissue

text: Homo sapiens

text: III C

text: second

text: Sample 21311 Sd-S


E-MTAB-2737:Sample 6

characteristic: ENA-FIRST-PUBLIC

text: EBI

text: public

text: E-MTAB-2737:Sample 6

text: ArrayExpress

characteristic: broker name

text: chicken

text: Protocols: Extraction of RNA from tibial bone using Ultraspec II guanadinium phenol based 1 ug of total RNA starting material following the Illumina Truseq RNA Sequencing protocol

characteristic: description

text: wild type genotype

characteristic: genotype

characteristic: individual

text: Gallus gallus

text: Gallus gallus

text: Gallus gallus

text: female

characteristic: sex

text: white leghorn

characteristic: strain

text: Sample 6


E-MTAB-2737:Sample 8

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: EBI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-2737:Sample 8

text: ArrayExpress

text: chicken

text: wild type genotype

text: Gallus gallus

text: Gallus gallus

text: Gallus gallus

text: female

text: white leghorn

text: Sample 8

characteristic: title


E-MTAB-2737:Sample 4

characteristic: ENA-CHECKLIST

text: EBI

text: public

characteristic: SRA accession

text: E-MTAB-2737:Sample 4

characteristic: Submitter Id

text: ArrayExpress

text: chicken

characteristic: common name

text: wild type genotype

text: Gallus gallus

text: Gallus gallus

text: Gallus gallus

text: female

text: white leghorn

text: Sample 4


E-MTAB-2737:Sample 3

characteristic: ENA-FIRST-PUBLIC

text: EBI

text: public

text: E-MTAB-2737:Sample 3

text: ArrayExpress

characteristic: broker name

text: chicken

text: wild type genotype

text: Gallus gallus

characteristic: organism

text: Gallus gallus

text: Gallus gallus

text: female

text: white leghorn

text: Sample 3


E-MTAB-2737:Sample 5

text: EBI

text: public

text: E-MTAB-2737:Sample 5

text: ArrayExpress

text: chicken

characteristic: description

text: wild type genotype

characteristic: genotype

characteristic: individual

text: Gallus gallus

text: Gallus gallus

text: Gallus gallus

text: female

text: white leghorn

text: Sample 5


E-MTAB-2737:Sample 7

characteristic: ENA-LAST-UPDATE

text: EBI

text: public

text: E-MTAB-2737:Sample 7

text: ArrayExpress

text: chicken

text: wild type genotype

text: Gallus gallus

text: Gallus gallus

text: Gallus gallus

text: female

characteristic: sex

text: white leghorn

characteristic: strain

text: Sample 7


E-MTAB-2737:Sample 1

characteristic: External Id

text: EBI

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-2737:Sample 1

text: ArrayExpress

text: chicken

text: wild type genotype

text: Gallus gallus

text: Gallus gallus

text: Gallus gallus

text: female

text: white leghorn

text: Sample 1


E-MTAB-2737:Sample 2

text: EBI

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-2737:Sample 2

text: ArrayExpress

text: chicken

text: wild type genotype

text: Gallus gallus

text: Gallus gallus

text: Gallus gallus

text: female

text: white leghorn

text: Sample 2

characteristic: title


text: E14 ESC

characteristic: ArrayExpress-CellType

text: Embryonic Stem cells

characteristic: ArrayExpress-DevelopmentalStage

text: Wildtype

characteristic: ArrayExpress-Genotype

characteristic: ArrayExpress-Immunoprecipitate

text: female

characteristic: ArrayExpress-Sex

text: Mus Musculus

characteristic: ArrayExpress-Species

characteristic: ENA-CHECKLIST

text: SC

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: house mouse

text: Mus musculus

text: DNA from ES cells

characteristic: sample description

text: Mus musculus


text: E14 ESC

text: Embryonic Stem cells

text: Wildtype

text: IgG

text: female

text: Mus Musculus

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: house mouse

characteristic: common name

text: Mus musculus

characteristic: organism

text: DNA from ES cells

text: Mus musculus


characteristic: External Id

text: EBI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-2787:Control_B_ACTTGA_L001_R1_001

text: ArrayExpress

characteristic: broker name

text: SH-SY5Y/6TR(EU)/pTrex-Dest-30/MYCN (SY5Y-MYCN)

characteristic: cell line

text: neuroblast

characteristic: cell type

text: human

text: Protocols: Un-induced SY5Y-MYCN cells and cells treated with 1ug/ml Doxycycline (Sigma) to induce MYCN overexpression, for 1h, 4h 24h were used. For the time-course treatment start times were staggered so all samples were lysed simultaneously. Total mRNA was extracted using TRI Reagent (Sigma-Aldrich) according to manufacturer’s protocol, and DNA was digested with DNA-free Kit (Applied Biosystems). miRNA libraries (SY5Y-MYCN; un-induced, 1h, 4h and 24h MYCN induction) were prepared using TruSeq small RNA sample preparation kit (Illumina).

characteristic: description

text: MYCN Tet-ON

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: no overexpression of MYCN

characteristic: phenotype

text: Homo sapiens

text: 0 hour

characteristic: time


characteristic: ENA-CHECKLIST

text: EBI

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-2787:24hr_Dox_A_ATCACG_L001_R1_001

characteristic: Submitter Id

text: ArrayExpress

text: neuroblast

text: human

text: MYCN Tet-ON

text: Homo sapiens

text: Homo sapiens

text: doxycycline-mediated overexpression of MYCN

text: Homo sapiens

text: 24 hour

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EBI

text: public

text: E-MTAB-2787:1hr_Dox_A_TTAGGC_L001_R1_001

text: ArrayExpress

text: neuroblast

text: human

characteristic: common name

text: MYCN Tet-ON

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens

text: 1 hour


characteristic: External Id

text: EBI

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-2787:1hr_Dox_B_CAGATC_L001_R1_001

text: ArrayExpress

text: neuroblast

text: human

text: MYCN Tet-ON

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: 1 hour


text: EBI

text: public

text: E-MTAB-2787:4hr_Dox_B_GCCAAT_L001_R1_001

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: neuroblast

characteristic: cell type

text: human

characteristic: description

text: MYCN Tet-ON

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: 4 hour


characteristic: ENA-CHECKLIST

text: EBI

text: public

text: E-MTAB-2787:24hr_Dox_B_ACAGTG_L001_R1_001

text: ArrayExpress

text: neuroblast

text: human

text: MYCN Tet-ON

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

characteristic: phenotype

text: Homo sapiens

text: 24 hour

characteristic: time


text: EBI

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-2787:Control_A_TGACCA_L001_R1_001

characteristic: Submitter Id

text: ArrayExpress

text: neuroblast

text: human

text: MYCN Tet-ON

text: Homo sapiens

text: Homo sapiens

text: no overexpression of MYCN

text: Homo sapiens

text: 0 hour

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EBI

text: public

text: E-MTAB-2787:4hr_Dox_A_CGATGT_L001_R1_001

text: ArrayExpress

text: neuroblast

text: human

characteristic: common name

text: MYCN Tet-ON

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens

text: 4 hour


text: Mouse

characteristic: ArrayExpress-Species

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: house mouse

text: Mus musculus

text: Mus musculus


characteristic: ENA-CHECKLIST

text: ED

text: public

text: Witold Wachowiak and Annika Telford

characteristic: collected by

text: Scots pine

text: seedlings

characteristic: description

text: Scotland

characteristic: geographic location (country and/or sea)

text: fresh needles

characteristic: isolation source

text: Laboratory of Molecular Biology, Centre for Ecology and Hydrology Edinburgh, Bush Estate, Penicuik, Midlothian EH26 0QB, UK

characteristic: lab host

text: N=57� 30' 35�; W=5� 38' 24

characteristic: lat lon

text: Pinus sylvestris

text: Pinus sylvestris


text: ED

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Witold Wachowiak and Annika Telford

text: Scots pine

text: seedlings

text: Scotland

text: fresh needles

text: N =57� 2' 60�; W=2� 51' 36

text: Pinus sylvestris

text: Pinus sylvestris

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: ED

text: public

text: Katri Karkainen

text: Scots pine

characteristic: common name

text: seedlings

text: Finland

text: fresh needles

text: N=61� 45' 33�; E=29� 23' 21

text: Pinus sylvestris

characteristic: organism

text: Pinus sylvestris


characteristic: External Id

text: ED

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Witold Wachowiak

text: Scots pine

text: seedlings

text: Poland

text: fresh needles

text: N=51� 58' 20�; E=17� 28' 40

text: Pinus sylvestris

text: Pinus sylvestris


characteristic: ENA-CHECKLIST

text: ED

characteristic: INSDC last update

text: public

text: Santiago Gonzalez-Martinez

characteristic: collected by

text: Scots pine

text: seedlings

text: Spain

text: fresh needles

text: N=37� 05' 47�; E=3� 32' 51

text: Pinus sylvestris

text: Pinus sylvestris


text: University Medicine Greifswald

text: public

text: 8 week

characteristic: age

text: ArrayExpress

characteristic: broker name

text: dorsal root ganglia cell depleted of TRPV1 expressing neurons

characteristic: cell type

text: Norway rat

text: Protocols: Lumbar dorsal root ganglia were isolated from 8 weeks old Spargue Dawley rats Doral root ganglia were isolated from three rats were split into half and treated with solvent DMSO (0.1%) or RTX (100 nM) for 30 min. Three replicate experiments were performed at the same time on different days resulting in 6 samples (2 samples each from 3-rat pools '120726', '120727' and '120730'). For the RTX treatment, dorsal root ganglia were incubated in 5 ml MEM containing collagenase P (Roche, Penzberg, DE) (0.1 U/ml, 1 h, 37 degrees C, 5% CO2), dissociated by trituration with fire-polished Pasteur pipettes, and then treated with the solvent DMSO (0.1%) or RTX (100 nM). The cells were spun down (100 g, 5 min), resuspended in 1 ml Hank's buffered salt solution (pH 8.0) containing 0.025% EDTA and 245 U/ml trypsin (Worthington, Lakewood, NJ), and incubated for 4 min at 37 degrees C in a water bath. Trypsination was stopped by the addition MgSO4 (400 uM final conc.). The cell suspension was then loaded onto BSA gradients (15% BSA in Hank's buffered salt solution) and centrifuged (120 g, 8 min). The pellet was frozen in liquid nitrogen and stored at -80 degrees C for RNA isolation. RNA isolation was performed with NucleoSpin RNA/Protein kits (Macherey-Nagel, Dueren, Germany) including on column DNase treatment. Ribosomal RNA was removed from 5 ug total RNA per sample using Ribo-Zero rRNA Removal Kit (Epicentre Biotechnologies, Madison, WI, USA).

characteristic: description

text: Rattus norvegicus

text: Rattus norvegicus

text: Rattus norvegicus

text: male

characteristic: sex

text: Sprague Dawley

characteristic: strain


text: University Medicine Greifswald

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: 8 week

text: ArrayExpress

text: dorsal root ganglia

text: Norway rat

text: Rattus norvegicus

text: Rattus norvegicus

text: Rattus norvegicus

text: male

text: Sprague Dawley

characteristic: title


text: Mus musculus

characteristic: ArrayExpress-Species

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: house mouse

characteristic: common name

text: Mus musculus

characteristic: organism

text: Mus musculus


text: D

characteristic: Donor/Acceptor

characteristic: ENA-CHECKLIST

characteristic: External Id

text: TNO

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: Reported Kissing with partner Frequency

characteristic: Time since last intimate kissing with partner

characteristic: collection date

text: human

text: Couple 2

characteristic: couple id

text: Human associated

characteristic: environment (biome)

text: Mouth

characteristic: environment (feature)

text: Tongue scraping

characteristic: environment (material)

text: Netherlands

characteristic: geographic location (country and/or sea)

unit: DD

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Tongue scraping

characteristic: host body product

text: male

characteristic: host sex

text: host-associated

characteristic: host-associated environmental package

text: mimarks-survey

characteristic: investigation type

text: Homo sapiens

text: Shaping the oral microbiota by intimate kissing

characteristic: project name

characteristic: sampling time point

text: Homo sapiens

text: MiSeq Illumina

characteristic: sequencing method

text: Oral-Microbiota: T3Ri45


text: Lin- bone marrow cells

characteristic: ArrayExpress-OrganismPart

text: wt

characteristic: ArrayExpress-Phenotype

text: male

characteristic: ArrayExpress-Sex

text: Mus Musculus

characteristic: ArrayExpress-Species

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: house mouse

characteristic: common name

text: Mus musculus

characteristic: organism

text: Lin- bone marrow cells

characteristic: sample description

text: Mus musculus


text: public

tag: Namespace:Systems Biology Ireland, University College Dublin

text: ArrayExpress

characteristic: broker name

text: SMS-KCN

characteristic: cell line

text: human

text: Protocols: DNA was digested with DNA-free Kit (Applied Biosystems). RNA quality was checked by RT-qPCR (as above) and on a 2100 Bioanalyser (Agilent) using a Eukaryote Total RNA Nano Chip (version 2.6). All samples had a RIN value in the range of 9.8-10. Sequencing libraries were generated from 2ug of total RNA per sample with TruSeq RNA sample preparation Kit v2 (Illumina) according to manufacturers protocol. Size and purity of the libraries were analysed on a Bioanalyser High Sensitivity DNA chip (Agilent). Libraries were clustered using TruSeq Paired-End Cluster Kit v5-CS-GA (Illumina). Cells were cultured in RPMI 1640 (Gibco), supplemented with 10% fetal bovine serum (FBS) (Gibco), 2mM L-glutamine (Gibco) and 1% Penicillin-Streptomycin solution (Gibco) mRNA was extracted using TRI Reagent (Sigma-Aldrich) according to manufacturers protocol

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

characteristic: title


characteristic: ENA-CHECKLIST

text: Systems Biology Ireland, University College Dublin

text: public

text: ArrayExpress

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


characteristic: ENA-FIRST-PUBLIC

text: public

text: ArrayExpress

text: SMS-KCN

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


characteristic: ENA-LAST-UPDATE

text: public

text: ArrayExpress

text: SMS-KCNR

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


characteristic: External Id

text: public

text: ArrayExpress

text: KELLY

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


characteristic: INSDC center name

text: public

text: ArrayExpress

text: human

text: Protocols: Cells were cultured in RPMI 1640 (Gibco), supplemented with 10% fetal bovine serum (FBS) (Gibco), 2mM L-glutamine (Gibco) and 1% Penicillin-Streptomycin solution (Gibco) Total mRNA was extracted using TRI Reagent (Sigma-Aldrich) according to manufacturers protocol and DNA was digested with DNA-free Kit (Applied Biosystems). RNA quality was checked by RT-qPCR (as above) and on a 2100 Bioanalyser (Agilent) using a Eukaryote Total RNA Nano Chip (version 2.6). All samples had a RIN value in the range of 9.8-10. Sequencing libraries were generated from 2ug of total RNA per sample with TruSeq RNA sample preparation Kit v2 (Illumina) according to manufacturers protocol. Size and purity of the libraries were analysed on a Bioanalyser High Sensitivity DNA chip (Agilent). Libraries were clustered using TruSeq Paired-End Cluster Kit v5-CS-GA (Illumina). Besides the SY5Y-MYCN untreated control (also referred to as 0h), SYSY-MYCN cells were transfected with MYCN through a doxycline (Dox) inducible system. RNA for 5 time points untreated (0h), 1h, 4h, and 24h together, so that all cells had the identical time growing in culture, with MYCN overexpression time being the only variable. To achieve the different overexpression time points the treatment start time was staggered. At time-points 0h, 1h, and 4h the RNA was split in 2 parts. One part was used for total mRNA sequencing. The other one was used to separate 4sU labelled mRNA from 4sU unlabelled with beads. Two biological replicates for every time-point were extracted for the total, labelled, and unlabelled RNA. DTA analysis was used to label freshly produced mRNA for 3 of the time points. 30 minutes before time-points 0h, 1h, and 4h, 4-thiouridine (4sU) was added to the cells. From this time-point on, 4sU is used in the synthesis of mRNA and therefore labels the freshly produced mRNA. After 30 min, all remaining unlabelled mRNAs are products from synthesis before 30 min. The labelled and unlabelled parts combined are called total mRNA which is simply traditional mRNA-sequencing. mRNA was extracted using TRI Reagent (Sigma-Aldrich) according to manufacturers protocol

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens


text: Danio rerio

characteristic: ArrayExpress-Species

text: SC

characteristic: INSDC first public

text: public

text: zebrafish

text: Danio rerio

text: Danio rerio


text: Mus musculus

text: C57 Bl/6

characteristic: ArrayExpress-StrainOrLine

text: SC

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: house mouse

text: Mus musculus

text: Mus musculus

text: C57 Bl/6

characteristic: strain


text: Mus musculus

text: SC

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: house mouse

characteristic: common name

text: Mus musculus

characteristic: organism

text: Mus musculus


text: IOA

text: public

text: Nile tilapia

text: female

characteristic: gender

text: Lib 1

characteristic: library

text: Oreochromis niloticus

text: Oreochromis niloticus


characteristic: ENA-CHECKLIST

text: IOA

text: public

text: Mozambique tilapia

text: male

text: Lib 1

text: Oreochromis mossambicus

text: Oreochromis mossambicus

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: IOA

text: public

text: Mozambique tilapia

text: female

text: Lib 1

text: Oreochromis mossambicus

text: Oreochromis mossambicus


characteristic: External Id

text: IOA

characteristic: INSDC center name

text: public

text: redbelly tilapia

text: female

text: Lib 1

text: Coptodon zillii

text: Coptodon zillii


text: IOA

characteristic: INSDC first public

text: public

text: redbelly tilapia

text: male

text: Lib 1

text: Coptodon zillii

text: Coptodon zillii


text: IOA

text: public

text: Rufigi tilapia

text: female

text: Lib 1

text: Oreochromis urolepis

text: Oreochromis urolepis


text: IOA

text: public

text: Nile tilapia

text: male

text: Lib 2

text: Oreochromis niloticus

text: Oreochromis niloticus


text: IOA

text: public

text: Mozambique tilapia

text: female

text: Lib 2

text: Oreochromis mossambicus

text: Oreochromis mossambicus


text: IOA

text: public

text: Mozambique tilapia

text: male

text: Lib 2

text: Oreochromis mossambicus

text: Oreochromis mossambicus


text: IOA

text: public

text: redbelly tilapia

text: female

text: Lib 2

text: Coptodon zillii

text: Coptodon zillii


text: IOA

text: public

text: Rufigi tilapia

text: female

text: Lib 2

text: Oreochromis urolepis

text: Oreochromis urolepis


text: IOA

text: public

text: Nile tilapia

text: female

text: Lib 2

text: Oreochromis niloticus

text: Oreochromis niloticus


text: IOA

text: public

text: Nile tilapia

text: female

text: Lib 3

text: Oreochromis niloticus

text: Oreochromis niloticus


text: IOA

text: public

text: Mozambique tilapia

text: female

text: Lib 3

text: Oreochromis mossambicus

text: Oreochromis mossambicus


text: IOA

text: public

text: Mozambique tilapia

text: male

text: Lib 3

text: Oreochromis mossambicus

text: Oreochromis mossambicus


text: IOA

text: public

text: redbelly tilapia

text: female

text: Lib 3

text: Coptodon zillii

text: Coptodon zillii


text: IOA

text: public

text: redbelly tilapia

text: male

text: Lib 3

text: Coptodon zillii

text: Coptodon zillii


text: IOA

text: public

text: Rufigi tilapia

text: male

text: Lib 3

text: Oreochromis urolepis

text: Oreochromis urolepis


text: IOA

text: public

text: Nile tilapia

text: male

text: Lib 4

text: Oreochromis niloticus

text: Oreochromis niloticus


text: IOA

text: public

text: Mozambique tilapia

text: female

text: Lib 4

text: Oreochromis mossambicus

text: Oreochromis mossambicus


text: IOA

text: public

text: Mozambique tilapia

text: male

text: Lib 4

text: Oreochromis mossambicus

text: Oreochromis mossambicus


text: IOA

text: public

text: redbelly tilapia

text: male

text: Lib 4

text: Coptodon zillii

text: Coptodon zillii


text: IOA

text: public

text: Rufigi tilapia

text: male

text: Lib 4

text: Oreochromis urolepis

text: Oreochromis urolepis


text: IOA

text: public

text: mango tilapia

text: Lib 5

text: Sarotherodon galilaeus

text: Sarotherodon galilaeus


text: IOA

text: public

text: rainbow krib

text: Lib 5

text: Pelvicachromis pulcher

text: Pelvicachromis pulcher


text: Genomnia srl

text: public

tag: Namespace:Genomnia srl

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: MCF7 epithelial cells

characteristic: cell type

text: human

text: Protocols: The MCF7 breast cancer cell line MCF7 was purchased from the American Type Culture Collection (ATCC; Manassas, VA). MCFS cells were derived in our laboratory from the MCF7 cell line (Ponti et al. 2005) and propagated as floating mammospheres. Cell vitality was assessed by Trypan Blue exclusion assay (at least 95%) before starting any experiment. Authentication of cell lines by STR DNA profiling analysis was performed at the A.O. Niguarda Ca Granda Hospital in Milan. Total RNA from 5000 MCF-7 and MCF-S cells was extracted following Agencourt RNAdvance Cell v2 (Beckman Coulter, MA, USA) protocol using Agencourts patented SPRI paramagnetic bead. Manufacturer instructions were followed with the following exception regarding DNAse treatment step: Ambion TURBO DNA-free (Life Technologies technologiesCorporation, Carlsbad, CA, USA) was used instead of the one suggested in the kit. Ninety ng of total RNA was amplified, prior to transcriptome sequencing, using Ribo-SPIA technology developed by NuGEN following Ovation RNA-seq (2009, NuGEN Technologies, Inc.) manufacturers instructions. The amplified cDNA was purified prior to subsequent processing for library construction using RNA Clean purification magnetic beads (Beckman Coulter Genomics, MA, USA) as suggested in the protocol. Double stranded DNA was quantified with Qubit ds DNA BR Assay Kits (Invitrogen, Ltd., UKLife technologies) and its size distribution was checked using the Agilent RNA Nano kit (Agilent Technologies, Inc.) following the manufacturers instructions. DNA library, one for each sample, was constructed following the SOLiD 3 Plus System Library Preparation Guide (Life Technologies Corporation, Carlsbad, CA, USA) manufacturers instructions. Four emulsions PCR, two for each library, were manually performed following Applied Biosystems SOLiD 3 Plus System Templated Bead Preparation Guide, according to the manufacturers instructions (Life Technologies Corporation, Carlsbad, CA, USA). The libraries and emulsions quality were checked in a workflow analysis (WFA) run following SOLiD 3 Plus System Instrument Operation Guide (Life Technologies Corporation, Carlsbad, CA, USA).

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: frozen specimen

characteristic: specimen with known storage state


text: Genomnia srl

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: highly tumorigenic breast cancer mammospheres (MCFS)

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: frozen specimen

text: MCFS


text: HCC

characteristic: ArrayExpress-CellType

text: Adult

characteristic: ArrayExpress-DevelopmentalStage

text: wild type

characteristic: ArrayExpress-Genotype

text: liver

characteristic: ArrayExpress-OrganismPart

text: male

characteristic: ArrayExpress-Sex

text: Mus musculus

characteristic: ArrayExpress-Species

text: SC

text: public

text: house mouse

characteristic: common name

text: Mus musculus

characteristic: organism

text: WGS

characteristic: sample description

text: Mus musculus


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

tag: Namespace:Cambridge Institute - Cancer Research UK and University of Cambridge

text: ArrayExpress

characteristic: broker name

text: pig

text: Protocols: For fresh specimens, hepatocytes were prepared by direct perfusion of the liver with buffered salt solution, followed by cross-linking of the diced tissue in 1% formaldehyde solution for 20 minutes, addition of 250 mM glycine and incubation for a further After homogenization of cross-linked liver tissue in a dounce tissue grinder, hepatocytes were rinsed with PBS and lysed according to published protocols {Schmidt, 2009} to solubilize DNA-protein complexes. Chromatin was fragmented to 300 bp average size 1) Immunoprecipitation. Chromatin from 0.1 g of dounced liver tissue was used for each ChIP experiment using antibodies against H3K4me3 (millipore 05-1339) and H3K27Ac (abcam ab4729) and automated 96-well protocols in an Agilent Bravo liquid handling rob

text: adult

characteristic: developmental stage

text: wild type

characteristic: genotype

characteristic: individual

text: Sus scrofa

text: Sus scrofa

text: liver

characteristic: organism part

text: Sus scrofa

text: male

characteristic: sex

text: fresh specimen

characteristic: title


text: Cambridge Institute - Cancer Research UK and University of Cambridge

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: dog

characteristic: description

text: adult

text: wild type

text: Canis lupus familiaris

text: Canis familiaris

text: liver

text: Canis lupus familiaris

text: male

text: fresh specimen

characteristic: specimen with known storage state


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: ArrayExpress

text: domestic guinea pig

characteristic: common name

text: adult

text: wild type

text: Cavia porcellus

characteristic: organism

text: Cavia porcellus

text: liver

text: Cavia porcellus

text: male

text: fresh specimen


characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

characteristic: broker name

text: Rhesus monkey

text: adult

characteristic: developmental stage

text: wild type

text: Lachs

text: Macaca mulatta

text: Macaca mulatta

text: liver

text: Macaca mulatta

text: female

text: fresh specimen

text: Lachs


text: public

text: ArrayExpress

text: domestic cat

text: adult

text: wild type

characteristic: genotype

characteristic: individual

text: Felis catus

text: Felis catus

text: liver

characteristic: organism part

text: Felis catus

text: female

characteristic: sex

text: fresh specimen

characteristic: title


characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: Tasmanian devil

characteristic: description

text: adult

text: wild type

text: Montgomery

text: Sarcophilus harrisii

text: Sarcophilus harrisii

text: liver

text: Sarcophilus harrisii

text: male

text: fresh specimen

text: frozen specimen

text: Montgomery


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: ArrayExpress

text: western European house mouse

characteristic: common name

text: adult

text: wild type

text: Mus musculus domesticus

text: Mus musculus domesticus

text: liver

text: Mus musculus domesticus

text: male

text: fresh specimen

characteristic: specimen with known storage state

characteristic: strain


characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: ArrayExpress

characteristic: broker name

text: human

text: adult

characteristic: developmental stage

text: wild type

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: liver

text: Homo sapiens

text: non-identifiable human individual

text: fresh specimen


characteristic: INSDC last update

text: public

text: ArrayExpress

text: rabbit

text: adult

text: wild type

characteristic: genotype

characteristic: individual

text: Oryctolagus cuniculus

text: Oryctolagus cuniculus

text: liver

characteristic: organism part

text: Oryctolagus cuniculus

text: male

characteristic: sex

text: fresh specimen

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: northern tree shrew

characteristic: description

text: adult

text: wild type

text: Tupaia belangeri

text: Tupaia belangeri

text: liver

text: Tupaia belangeri

text: female

text: fresh specimen


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: ArrayExpress

text: white-beaked dolphin

characteristic: common name

text: adult

text: wild type

text: Lagenorhynchus albirostris

text: Lagenorhynchus albirostris

text: liver

text: Lagenorhynchus albirostris

text: female

text: frozen specimen

characteristic: specimen with known storage state


characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

characteristic: broker name

text: naked mole-rat

text: adult

characteristic: developmental stage

text: wild type

text: Heterocephalus glaber

characteristic: organism

text: Heterocephalus glaber

text: liver

text: Heterocephalus glaber

text: male

text: fresh specimen


text: public

text: ArrayExpress

text: Rhesus monkey

text: adult

text: wild type

characteristic: genotype

text: Blues

characteristic: individual

text: Macaca mulatta

text: Macaca mulatta

text: liver

characteristic: organism part

text: Macaca mulatta

text: male

characteristic: sex

text: fresh specimen

text: Blues

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: northern tree shrew

text: adult

text: wild type

text: Tupaia belangeri

text: Tupaia belangeri

text: liver

text: Tupaia belangeri

text: male

text: fresh specimen


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: ArrayExpress

text: white-tufted-ear marmoset

characteristic: common name

characteristic: description

text: adult

text: wild type

text: Callithrix jacchus

text: Callithrix jacchus

text: liver

text: Callithrix jacchus

text: male

text: fresh specimen


characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

characteristic: broker name

text: gray short-tailed opossum

text: adult

characteristic: developmental stage

text: wild type

text: Monodelphis domestica

text: Monodelphis domestica

text: liver

text: Monodelphis domestica

text: male

text: fresh specimen

characteristic: specimen with known storage state


text: public

text: ArrayExpress

text: cattle

text: adult

text: wild type

characteristic: genotype

characteristic: individual

text: Bos taurus

characteristic: organism

text: Bos taurus

text: liver

characteristic: organism part

text: Bos taurus

text: male

characteristic: sex

text: fresh specimen


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: Rhesus monkey

text: adult

text: wild type

text: Diesel

text: Macaca mulatta

text: Macaca mulatta

text: liver

text: Macaca mulatta

text: male

text: fresh specimen

text: Diesel

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

characteristic: Submitter Id

text: ArrayExpress

text: dog

characteristic: common name

text: adult

text: wild type

text: Canis lupus familiaris

text: Canis familiaris

text: liver

text: Canis lupus familiaris

text: male

text: fresh specimen


characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

characteristic: broker name

text: Rhesus monkey

characteristic: description

text: adult

characteristic: developmental stage

text: wild type

text: Steed

text: Macaca mulatta

text: Macaca mulatta

text: liver

text: Macaca mulatta

text: male

text: fresh specimen

text: Steed


text: public

text: ArrayExpress

text: domestic ferret

text: adult

text: wild type

characteristic: genotype

characteristic: individual

text: Mustela putorius furo

characteristic: organism

text: Mustela putorius furo

text: liver

characteristic: organism part

text: Mustela putorius furo

text: male

text: fresh specimen

characteristic: specimen with known storage state


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: Norway rat

text: adult

text: wild type

text: Rattus norvegicus

text: Rattus norvegicus

text: liver

text: Rattus norvegicus

text: male

characteristic: sex

text: fresh specimen


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

characteristic: Submitter Id

text: ArrayExpress

text: Sowerby's beaked whale

text: adult

text: wild type

text: Mesoplodon bidens

text: Mesoplodon bidens

text: liver

text: Mesoplodon bidens

text: female

text: frozen specimen

characteristic: title


characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

characteristic: broker name

text: domestic cat

characteristic: common name

characteristic: description

text: adult

text: wild type

text: Felis catus

text: Felis catus

text: liver

text: Felis catus

text: female

text: fresh specimen


text: public

text: ArrayExpress

text: domestic guinea pig

text: adult

characteristic: developmental stage

text: wild type

characteristic: genotype

characteristic: individual

text: Cavia porcellus

characteristic: organism

text: Cavia porcellus

text: liver

characteristic: organism part

text: Cavia porcellus

text: male

text: fresh specimen


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: pig

text: adult

text: wild type

text: Sus scrofa

text: Sus scrofa

text: liver

text: Sus scrofa

text: male

text: fresh specimen

characteristic: specimen with known storage state


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

characteristic: Submitter Id

text: ArrayExpress

text: human

text: adult

text: wild type

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: non-identifiable human individual

characteristic: sex

text: fresh specimen


characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

characteristic: broker name

text: rabbit

characteristic: common name

text: adult

text: wild type

text: Oryctolagus cuniculus

text: Oryctolagus cuniculus

text: liver

text: Oryctolagus cuniculus

text: male

text: fresh specimen

characteristic: title


text: public

text: ArrayExpress

text: Tasmanian devil

characteristic: description

text: adult

characteristic: developmental stage

text: wild type

characteristic: genotype

text: Mariah

characteristic: individual

text: Sarcophilus harrisii

characteristic: organism

text: Sarcophilus harrisii

text: liver

text: Sarcophilus harrisii

text: female

text: fresh specimen

text: Mariah


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: sei whale

text: adult

text: wild type

text: Balaenoptera borealis

text: Balaenoptera borealis

text: liver

characteristic: organism part

text: Balaenoptera borealis

text: female

text: frozen specimen


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

characteristic: Submitter Id

text: ArrayExpress

text: saddleback dolphin

text: adult

text: wild type

text: Delphinus delphis

text: Delphinus delphis

text: liver

text: Delphinus delphis

text: male

text: frozen specimen

characteristic: specimen with known storage state


text: Epiblast

characteristic: ArrayExpress-CellType

characteristic: ArrayExpress-DevelopmentalStage

text: Wildtype

characteristic: ArrayExpress-Genotype

text: Epiblast

characteristic: ArrayExpress-OrganismPart

text: Mus Musculus

characteristic: ArrayExpress-Species

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: house mouse

characteristic: common name

text: Mus musculus

text: Bisulphite-treated DNA from E5.5 embryos

characteristic: sample description

text: Mus musculus


text: Visceral Endoderm

text: Wildtype

text: Visceral Endoderm

text: Mus Musculus

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: SC

text: public

characteristic: INSDC status

text: house mouse

text: Mus musculus

characteristic: organism

text: Mus musculus


text: Extra Embryonic Endoderm

text: Wildtype

text: Extra Embryonic Endoderm

text: Mus Musculus

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

text: public

characteristic: SRA accession

text: house mouse

text: Mus musculus

text: Mus musculus


text: Homo sapiens

text: SC

characteristic: INSDC center name

text: public

characteristic: Submitter Id

text: human

text: Homo sapiens

text: aDNA from archeological specimen

text: Homo sapiens


text: Mus musculus

characteristic: ArrayExpress-StrainOrLine

text: SC

text: public

text: house mouse

text: Mus musculus

text: Mus musculus

characteristic: strain


text: 14 weeks

characteristic: ArrayExpress-Age

text: Adult

characteristic: ArrayExpress-DevelopmentalStage

text: F1 hybred

characteristic: ArrayExpress-Genotype

text: Normal

characteristic: ArrayExpress-GrowthCondition

text: Brain

characteristic: ArrayExpress-OrganismPart

text: female

characteristic: ArrayExpress-Sex

text: Mus musculus

text: F1 hybred

text: SC

text: public

text: house mouse

text: Mus musculus

text: RNA from VNO of the brain of S-cross

text: Mus musculus

text: F1 hybred


text: 14 weeks

text: Adult

text: F1 hybred

text: Normal

text: Brain

text: female

text: Mus musculus

characteristic: ArrayExpress-Species

text: F1 hybred

characteristic: ENA-CHECKLIST

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: house mouse

characteristic: common name

text: Mus musculus

text: RNA from VNO of the brain of M-cross

characteristic: sample description

text: Mus musculus

text: F1 hybred


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: IRHS

text: public

characteristic: INSDC status

characteristic: SRA accession

text: thale cress

text: Maceration of 1000 seeds of Arabidopsis thaliana

characteristic: description

text: France

characteristic: geographic location (country and/or sea)

text: Arabidopsis thaliana

characteristic: organism

text: Arabidopsis thaliana

text: Seeds of Arabidopsis thaliana

characteristic: title


text: IRHS

characteristic: INSDC center name

text: public

characteristic: Submitter Id

text: thale cress

text: Maceration of 200 germinating seeds of Arabidopsis thaliana

text: France

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Germinating seeds of Arabidopsis thaliana


text: IRHS

text: public

text: thale cress

text: Maceration of 100 seedlings of Arabidopsis thaliana

text: France

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Seedlings of Arabidopsis thaliana


text: IRHS

text: public

text: barrel medic

text: Maceration of 1000 seeds of Medicago truncatula

text: France

text: Medicago truncatula

text: Medicago truncatula

text: Seeds of Medicago truncatula


text: IRHS

text: public

text: barrel medic

text: Maceration of 200 germinating seeds of Medicago truncatula

text: France

text: Medicago truncatula

text: Medicago truncatula

text: Germinating seeds of Medicago truncatula


text: IRHS

text: public

text: barrel medic

text: Maceration of 100 seedlings of Medicago truncatula

text: France

text: Medicago truncatula

text: Medicago truncatula

text: Seedlings of Medicago truncatula


text: public

tag: Namespace:Institute of Biochemistry and Biophysics, Polish Academy of Sciences

text: 14 day

characteristic: age

text: ArrayExpress

characteristic: broker name

text: thale cress

text: Protocols: plants were grown for 14 days on plates in medium containing half Murashige and Skoog (MS) salts (Sigma-Aldrich) and 1% (w/v) agar, pH 5.8 under long day conditions (16 h light/8 h dark) at 22 degrees C, with 70% humidity and illumination of 120 uM m-2 sec-1 12-15 seedlings were pooled into biological replicates and frozen in liquid nitrogen The samples were ground in liquid nitrogen using mortar and pestle. DNA was extracted by SDS lysis followed by Phenol-Chloroform DNA purification The DNA was bisulfite-converted with Zymo Research EZ DNA Methylation Kit according to manufacturer's recommendations. The libraries were prepared with Bioo Scientific NEXTflex DNA Sequencing Kit according to manufacturer's recommendations for paired-end libraries.

text: seedling

characteristic: developmental stage

characteristic: ecotype

text: h1.1h1.2h1.3 mutant

characteristic: genotype

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis thaliana


characteristic: ENA-CHECKLIST

text: Institute of Biochemistry and Biophysics, Polish Academy of Sciences

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: 5 week

text: ArrayExpress

text: thale cress

characteristic: common name

text: Protocols: Plants were sown in Jiffy expandable peat pots (diameter 27-30). In the third-leaf stage (16 days after sowing) six peat pots were buried in a single large plastic pot (4.5 dm3) filled with strong loamy sand:sand composition (7:2 v:v). In each large pot plants of: h1.3 and its sibling wild-type (WT) were placed in equal number. At that stage only one plant of equal size was left in each single peat pot. After two weeks of growth ( 25 degrees C, PFD 250 umol m-2 s-1 provided by HPS lamps 'Agro' (Philips, Brussels, Belgium), photoperiod 14/10, RH = 40%) treatment was conducted. Plants were grown for 17 days under light intensity 40 umol m-2 s-1 with field water contents in soil gradually decreased down to 20% FWC (water was controlled daily, as in control object). Leaves from 6-8 plants from one box were pooled into biological replicates and frozen in liquid nitrogen The samples were ground in liquid nitrogen using mortar and pestle. DNA was extracted by SDS lysis followed by Phenol-Chloroform DNA purification The DNA was bisulfite-converted with Zymo Research EZ DNA Methylation Kit according to manufacturer's recommendations. The libraries were prepared with Bioo Scientific NEXTflex DNA Sequencing Kit according to manufacturer's recommendations for paired-end libraries.

text: flowering plant

text: Ler

text: wild type genotype

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis thaliana


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: INSDC status

text: 5 week

text: ArrayExpress

text: thale cress

text: Protocols: Plants were sown in Jiffy expandable peat pots (diameter 27-30). In the third-leaf stage (16 days after sowing) six peat pots were buried in a single large plastic pot (4.5 dm3) filled with strong loamy sand:sand composition (7:2 v:v). In each large pot plants of: h1.3 and its sibling wild-type (WT) were placed in equal number. At that stage only one plant of equal size was left in each single peat pot. After two weeks of growth ( 25 degrees C, PFD 250 umol m-2 s-1 provided by HPS lamps 'Agro' (Philips, Brussels, Belgium), photoperiod 14/10, RH = 40%) treatment was conducted. Plants were grown for 17 days under light intensity 400 umol m-2 s-1, with daily watering to 60% field water capacity Leaves from 6-8 plants from one box were pooled into biological replicates and frozen in liquid nitrogen The samples were ground in liquid nitrogen using mortar and pestle. DNA was extracted by SDS lysis followed by Phenol-Chloroform DNA purification The DNA was bisulfite-converted with Zymo Research EZ DNA Methylation Kit according to manufacturer's recommendations. The libraries were prepared with Bioo Scientific NEXTflex DNA Sequencing Kit according to manufacturer's recommendations for paired-end libraries.

text: flowering plant

text: Ler

text: h1.3 mutant

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis thaliana


text: public

characteristic: SRA accession

text: 5 week

text: ArrayExpress

text: thale cress

characteristic: description

text: flowering plant

text: Ler

text: h1.3 mutant

text: Arabidopsis thaliana

characteristic: organism

text: Arabidopsis thaliana

text: Arabidopsis thaliana


characteristic: INSDC center name

text: public

characteristic: Submitter Id

text: 14 day

text: ArrayExpress

text: thale cress

text: seedling

text: h1.1h1.2h1.3 mutant

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis thaliana

characteristic: title


text: public

text: 14 day

characteristic: age

text: ArrayExpress

characteristic: broker name

text: thale cress

text: seedling

characteristic: developmental stage

text: wild type genotype

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis thaliana


characteristic: ENA-CHECKLIST

text: public

text: 5 week

text: ArrayExpress

text: thale cress

text: flowering plant

text: Ler

characteristic: ecotype

text: wild type genotype

characteristic: genotype

text: Arabidopsis thaliana

text: Arabidopsis thaliana

text: Arabidopsis thaliana


text: female

characteristic: ArrayExpress-Sex

text: Gorilla beringei beringei

characteristic: ArrayExpress-Species

text: SC

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: eastern mountain gorilla

characteristic: common name

text: Gorilla beringei beringei

text: Gorilla beringei beringei


text: female

text: Gorilla beringei graueri

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: SC

text: public

characteristic: INSDC status

characteristic: SRA accession

text: eastern lowland gorilla

text: Gorilla beringei graueri

text: Gorilla beringei graueri


text: Mus Musculus

text: SC

characteristic: INSDC center name

text: public

characteristic: Submitter Id

text: house mouse

text: Mus musculus

characteristic: organism

text: Control

characteristic: sample description

text: Mus musculus


text: male

text: Mus Musculus

characteristic: ENA-CHECKLIST

text: SC

text: public

text: house mouse

text: Mus musculus

text: ESC

text: Mus musculus


E-MTAB-2825:Sample 7

text: Genetwister Technologies B.V.

text: public

text: E-MTAB-2825:Sample 7

tag: Namespace:Genetwister Technologies B.V.

text: ArrayExpress

characteristic: broker name

text: trumpet lily

text: Vernalized for 7 weeks at 4C Protocols: L. longiflorum bulbs (cultivar White Heaven) were obtained from a nursery at the end of the growing season (August). Bulbs were sanitized and stored in humid standard pot medium at 25C (control, 0W) or at 4C for 2, 5, 7 or 9 weeks (2W, 5W, 7W, 9W, respectively). At each of these time points, shoot apical meristems were excised from the bulbs, immediately frozen in liquid nitrogen and then stored at -80C until RNA extraction. RNA was isolated using the AurumTM Total RNA mini kit (Biorad) following manufacturers instructions. The procedure was followed by an additional DNAse treatment with TURBO DNase (Life technologies) to remove all genomic DNA still present after the isolation. The RNA integrity was confirmed using the 2100 Bioanalyzer (Agilent Technologies). The samples were prepared for transcriptome sequencing using the Illumina kit (TruSeq RNA Sample Preparation Kit v2) following the manufacturers recommendations.

characteristic: description

text: Lilium longiflorum

text: Lilium longiflorum

text: apical shoot meristem

characteristic: organism part

text: Lilium longiflorum

text: Sample 7

characteristic: title


E-MTAB-2825:Sample 3

text: Genetwister Technologies B.V.

characteristic: INSDC first public

text: public

text: E-MTAB-2825:Sample 3

text: ArrayExpress

text: trumpet lily

text: Vernalized for 2 weeks at 4C Protocols: L. longiflorum bulbs (cultivar White Heaven) were obtained from a nursery at the end of the growing season (August). Bulbs were sanitized and stored in humid standard pot medium at 25C (control, 0W) or at 4C for 2, 5, 7 or 9 weeks (2W, 5W, 7W, 9W, respectively). At each of these time points, shoot apical meristems were excised from the bulbs, immediately frozen in liquid nitrogen and then stored at -80C until RNA extraction. RNA was isolated using the AurumTM Total RNA mini kit (Biorad) following manufacturers instructions. The procedure was followed by an additional DNAse treatment with TURBO DNase (Life technologies) to remove all genomic DNA still present after the isolation. The RNA integrity was confirmed using the 2100 Bioanalyzer (Agilent Technologies). The samples were prepared for transcriptome sequencing using the Illumina kit (TruSeq RNA Sample Preparation Kit v2) following the manufacturers recommendations.

text: Lilium longiflorum

text: Lilium longiflorum

text: apical shoot meristem

text: Lilium longiflorum

text: Sample 3


E-MTAB-2825:Sample 2

text: Genetwister Technologies B.V.

characteristic: INSDC last update

text: public

text: E-MTAB-2825:Sample 2

text: ArrayExpress

text: trumpet lily

text: Not vernalized (control) Protocols: L. longiflorum bulbs (cultivar White Heaven) were obtained from a nursery at the end of the growing season (August). Bulbs were sanitized and stored in humid standard pot medium at 25C (control, 0W) or at 4C for 2, 5, 7 or 9 weeks (2W, 5W, 7W, 9W, respectively). At each of these time points, shoot apical meristems were excised from the bulbs, immediately frozen in liquid nitrogen and then stored at -80C until RNA extraction. RNA was isolated using the AurumTM Total RNA mini kit (Biorad) following manufacturers instructions. The procedure was followed by an additional DNAse treatment with TURBO DNase (Life technologies) to remove all genomic DNA still present after the isolation. The RNA integrity was confirmed using the 2100 Bioanalyzer (Agilent Technologies). The samples were prepared for transcriptome sequencing using the Illumina kit (TruSeq RNA Sample Preparation Kit v2) following the manufacturers recommendations.

text: Lilium longiflorum

text: Lilium longiflorum

text: apical shoot meristem

text: Lilium longiflorum

text: Sample 2


E-MTAB-2825:Sample 9

text: Genetwister Technologies B.V.

text: public

text: E-MTAB-2825:Sample 9

text: ArrayExpress

text: trumpet lily

characteristic: common name

text: Vernalized for 9 weeks at 4C Protocols: L. longiflorum bulbs (cultivar White Heaven) were obtained from a nursery at the end of the growing season (August). Bulbs were sanitized and stored in humid standard pot medium at 25C (control, 0W) or at 4C for 2, 5, 7 or 9 weeks (2W, 5W, 7W, 9W, respectively). At each of these time points, shoot apical meristems were excised from the bulbs, immediately frozen in liquid nitrogen and then stored at -80C until RNA extraction. RNA was isolated using the AurumTM Total RNA mini kit (Biorad) following manufacturers instructions. The procedure was followed by an additional DNAse treatment with TURBO DNase (Life technologies) to remove all genomic DNA still present after the isolation. The RNA integrity was confirmed using the 2100 Bioanalyzer (Agilent Technologies). The samples were prepared for transcriptome sequencing using the Illumina kit (TruSeq RNA Sample Preparation Kit v2) following the manufacturers recommendations.

text: Lilium longiflorum

text: Lilium longiflorum

text: apical shoot meristem

text: Lilium longiflorum

text: Sample 9


E-MTAB-2825:Sample 10

characteristic: ENA-FIRST-PUBLIC

text: Genetwister Technologies B.V.

text: public

text: E-MTAB-2825:Sample 10

text: ArrayExpress

text: trumpet lily

text: Lilium longiflorum

text: Lilium longiflorum

text: apical shoot meristem

text: Lilium longiflorum

text: Sample 10


E-MTAB-2825:Sample 4

characteristic: ENA-LAST-UPDATE

text: Genetwister Technologies B.V.

text: public

text: E-MTAB-2825:Sample 4

text: ArrayExpress

text: trumpet lily

text: Lilium longiflorum

text: Lilium longiflorum

text: apical shoot meristem

text: Lilium longiflorum

text: Sample 4


E-MTAB-2825:Sample 1

characteristic: External Id

text: Genetwister Technologies B.V.

text: public

text: E-MTAB-2825:Sample 1

text: ArrayExpress

text: trumpet lily

text: Lilium longiflorum

text: Lilium longiflorum

text: apical shoot meristem

text: Lilium longiflorum

text: Sample 1


E-MTAB-2825:Sample 5

text: Genetwister Technologies B.V.

text: public

characteristic: INSDC status

text: E-MTAB-2825:Sample 5

text: ArrayExpress

text: trumpet lily

text: Vernalized for 5 weeks at 4C Protocols: L. longiflorum bulbs (cultivar White Heaven) were obtained from a nursery at the end of the growing season (August). Bulbs were sanitized and stored in humid standard pot medium at 25C (control, 0W) or at 4C for 2, 5, 7 or 9 weeks (2W, 5W, 7W, 9W, respectively). At each of these time points, shoot apical meristems were excised from the bulbs, immediately frozen in liquid nitrogen and then stored at -80C until RNA extraction. RNA was isolated using the AurumTM Total RNA mini kit (Biorad) following manufacturers instructions. The procedure was followed by an additional DNAse treatment with TURBO DNase (Life technologies) to remove all genomic DNA still present after the isolation. The RNA integrity was confirmed using the 2100 Bioanalyzer (Agilent Technologies). The samples were prepared for transcriptome sequencing using the Illumina kit (TruSeq RNA Sample Preparation Kit v2) following the manufacturers recommendations.

text: Lilium longiflorum

text: Lilium longiflorum

text: apical shoot meristem

text: Lilium longiflorum

text: Sample 5


E-MTAB-2825:Sample 8

text: Genetwister Technologies B.V.

text: public

characteristic: SRA accession

text: E-MTAB-2825:Sample 8

text: ArrayExpress

text: trumpet lily

text: Lilium longiflorum

text: Lilium longiflorum

text: apical shoot meristem

text: Lilium longiflorum

text: Sample 8


E-MTAB-2825:Sample 6

text: Genetwister Technologies B.V.

characteristic: INSDC center name

text: public

text: E-MTAB-2825:Sample 6

text: ArrayExpress

text: trumpet lily

text: Lilium longiflorum

text: Lilium longiflorum

text: apical shoot meristem

text: Lilium longiflorum

text: Sample 6


text: Plasmodium falciparum

characteristic: ArrayExpress-Species

text: SC

text: public

characteristic: Submitter Id

text: malaria parasite P. falciparum

text: Plasmodium falciparum

text: Plasmodium falciparum


text: public

tag: Namespace:Max Plank Institute for Molecular Biomedicine

text: ArrayExpress

text: ES-E14 cell

characteristic: cell line

text: embryonic stem cell

characteristic: cell type

text: house mouse

text: Protocols: Total RNA was extracted with GenElute total RNA miniprep kit, treated with turbo DNase and purified with RNeasy MinElute Cleanup kit. The quality was assessed on a bioanalyzer. ES cells were cultured in DMEM with GlutaMax (Life technologies) containing 15% FCS and LIF Libraries were prepared with Truseq Stranded Total RNA with Ribo-Zero Gold Prep kit (Illumina). Lipofectamine RNAi MAX (Life technologies) were used to transfect siRNA.

text: wild type genotype

characteristic: genotype

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Mus musculus

characteristic: strain


characteristic: ENA-CHECKLIST

text: Max Plank Institute for Molecular Biomedicine

text: public

text: ArrayExpress

characteristic: broker name

text: ES-E14 cell

text: embryonic stem cell

text: house mouse

characteristic: description

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: Mus musculus

characteristic: title


E-MTAB-2830:Sample 30

characteristic: ENA-FIRST-PUBLIC

text: European Molecular Biology Laboratory

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-2830:Sample 30

tag: Namespace:European Molecular Biology Laboratory

text: ArrayExpress

text: house mouse

characteristic: common name

text: clonek12-IDE1-d6-2 Protocols: Mouse ESCs were maintained without feeders in 'LIF+serum' medium (DMEM (high glucose, no glutamine, with sodium bicarbonate, Invitrogen) supplemented with 15% ES-qualified EmbryoMax Fetal Calf Serum (Millipore), 10 ng/ml murine LIF (EMBL Protein Expression and Purification Core Facility), 1x Non-Essential Amino Acids, 2 mM L-glutamine, 1 mM sodium pyruvate, 100 U/ml penicillin and 100 ug/ml strep- tomycin, 0.1 mM 2-mercaptoethanol (all Invitrogen) on culture dishes (Nunc) coated with 0.1% gelatin (Sigma) solution and cultured at 37C with 5% CO2. Medium was changed daily and cells were passaged every other day with 0.05% Trypsin-EDTA (Invitrogen) at a passaging ratio of 1/6- 1/12. N2B27 medium was prepared from a 1:1 mixture of DMEM/F12 (without HEPES, with L-glutamine) and neurobasal medium with 0.5x B-27 (without vitamin A) and 0.5x N-2 supplements, 100 U/ml penicillin and 100 ug/ml streptomycin, 0.25 mM L-glutamine, 0.1 mM 2-mercaptoethanol (all Invitrogen), 10 ug/ml BSA fraction V and 10 ug/ml human recombinant insulin (both Sigma). '2i' medium was N2B27 medium supplemented with 3 uM CHIR99021 and 1 uM PD0325901 (both Tocris Bioscience). mESCs were differentiated to endoderm precursors in Advanced RPMI, 100 U/ml penicillin and 100 ug/ml streptomycin (both Invitrogen), 0.2% FCS (EmbryoMax, Millipore), 1 uM IDE-1 (Tocris) following Borowiak et al. (Cell Stem Cell 2009). Barcoded mRNA libraries were prepared using TruSeq RNA Sample Preparation (Illumina) following the manufacturer's instructions.

text: IDE1 endodermal diff

characteristic: growth condition

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 30


E-MTAB-2830:Sample 15

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: European Molecular Biology Laboratory

characteristic: INSDC center name

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-2830:Sample 15

text: ArrayExpress

text: house mouse

text: clone13-4-high-IDE1-d3 Protocols: Mouse ESCs were maintained without feeders in 'LIF+serum' medium (DMEM (high glucose, no glutamine, with sodium bicarbonate, Invitrogen) supplemented with 15% ES-qualified EmbryoMax Fetal Calf Serum (Millipore), 10 ng/ml murine LIF (EMBL Protein Expression and Purification Core Facility), 1x Non-Essential Amino Acids, 2 mM L-glutamine, 1 mM sodium pyruvate, 100 U/ml penicillin and 100 ug/ml strep- tomycin, 0.1 mM 2-mercaptoethanol (all Invitrogen) on culture dishes (Nunc) coated with 0.1% gelatin (Sigma) solution and cultured at 37C with 5% CO2. Medium was changed daily and cells were passaged every other day with 0.05% Trypsin-EDTA (Invitrogen) at a passaging ratio of 1/6- 1/12. N2B27 medium was prepared from a 1:1 mixture of DMEM/F12 (without HEPES, with L-glutamine) and neurobasal medium with 0.5x B-27 (without vitamin A) and 0.5x N-2 supplements, 100 U/ml penicillin and 100 ug/ml streptomycin, 0.25 mM L-glutamine, 0.1 mM 2-mercaptoethanol (all Invitrogen), 10 ug/ml BSA fraction V and 10 ug/ml human recombinant insulin (both Sigma). '2i' medium was N2B27 medium supplemented with 3 uM CHIR99021 and 1 uM PD0325901 (both Tocris Bioscience). mESCs were differentiated to endoderm precursors in Advanced RPMI, 100 U/ml penicillin and 100 ug/ml streptomycin (both Invitrogen), 0.2% FCS (EmbryoMax, Millipore), 1 uM IDE-1 (Tocris) following Borowiak et al. (Cell Stem Cell 2009). Barcoded mRNA libraries were prepared using TruSeq RNA Sample Preparation (Illumina) following the manufacturer's instructions.

text: IDE1 endodermal diff

text: Mus musculus

text: Mus musculus

text: Mus musculus

text: Sample 15