characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Ludwig-Maximilians University

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: myotube

text: house mouse

text: adult

text: normal

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: skeletal muscle tissue

text: Mus musculus


E-MTAB-9094:Ribo-seq Dneg 1

status: PUBLIC

tag: attribute

text: The University of Manchester

text: public

characteristic: SRA accession

text: E-MTAB-9094:Ribo-seq Dneg 1

tag: Namespace:The University of Manchester

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: baker's yeast

characteristic: common name

text: Protocols: Ribosome profiling (McGlincy & Ingolia, 2017) was performed using the TruSeq Ribo Profile (Yeast) kit (Illumina, San Diego, USA). A BY4741 His3+ strain (Costello et al., 2015) was grown to an OD600 0.6-0.8 and either untreated or glucose starved for 10 minutes. The manufacturer’s protocol was followed with the exception of the purification of the 80S monosome where sucrose density centrifugation was used rather than a MicoSpin column. RNA was isolated using Trizol LS (Invitrogen) following the manufacturers protocol. Illumina TruSeq single read

characteristic: description

text: wild type genotype

characteristic: genotype

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae

text: whole organism

characteristic: organism part

text: Saccharomyces cerevisiae

text: glucose depletion

characteristic: stimulus

characteristic: strain

text: Ribo-seq Dneg 1

characteristic: title


E-MTAB-9094:Ribo-seq Dneg 2

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: The University of Manchester

text: public

text: E-MTAB-9094:Ribo-seq Dneg 2

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: glucose depletion

text: Ribo-seq Dneg 2


E-MTAB-9094:Ribo-seq Dneg 3

characteristic: External Id

text: The University of Manchester

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-9094:Ribo-seq Dneg 3

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: glucose depletion

text: Ribo-seq Dneg 3


E-MTAB-9094:Ribo-seq untreated 1

text: The University of Manchester

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-9094:Ribo-seq untreated 1

text: ArrayExpress

text: baker's yeast

text: wild type genotype

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Ribo-seq untreated 1


E-MTAB-9094:Ribo-seq untreated 2

text: The University of Manchester

text: public

text: E-MTAB-9094:Ribo-seq untreated 2

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: baker's yeast

characteristic: common name

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Ribo-seq untreated 2


E-MTAB-9094:Ribo-seq untreated 3

text: The University of Manchester

text: public

text: E-MTAB-9094:Ribo-seq untreated 3

text: ArrayExpress

text: baker's yeast

characteristic: description

characteristic: genotype

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Ribo-seq untreated 3


E-MTAB-9094:Total Dneg 1

text: The University of Manchester

text: public

text: E-MTAB-9094:Total Dneg 1

text: ArrayExpress

text: baker's yeast

text: wild type genotype

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

characteristic: organism part

text: Saccharomyces cerevisiae

text: glucose depletion

characteristic: stimulus

characteristic: strain

text: Total Dneg 1


E-MTAB-9094:Total Dneg 2

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: The University of Manchester

text: public

text: E-MTAB-9094:Total Dneg 2

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: glucose depletion

text: Total Dneg 2

characteristic: title


E-MTAB-9094:Total Dneg 3

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: The University of Manchester

characteristic: INSDC center name

text: public

text: E-MTAB-9094:Total Dneg 3

text: ArrayExpress

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: glucose depletion

text: Total Dneg 3


E-MTAB-9094:Total untreated 1

text: The University of Manchester

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-9094:Total untreated 1

text: ArrayExpress

text: baker's yeast

text: wild type genotype

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Total untreated 1


E-MTAB-9094:Total untreated 2

text: The University of Manchester

text: public

characteristic: SRA accession

text: E-MTAB-9094:Total untreated 2

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: baker's yeast

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Total untreated 2


E-MTAB-9094:Total untreated 3

text: The University of Manchester

text: public

text: E-MTAB-9094:Total untreated 3

text: ArrayExpress

text: baker's yeast

characteristic: common name

characteristic: description

characteristic: genotype

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: whole organism

text: Saccharomyces cerevisiae

text: Total untreated 3


E-MTAB-9096:Dcp1 RIP Dneg 10 mins 1

text: The University of Manchester

text: public

text: E-MTAB-9096:Dcp1 RIP Dneg 10 mins 1

text: ArrayExpress

text: baker's yeast

text: Protocols: A Dcp1-myc strain was grown to an OD600 of 0.6-0.8, before being split and transferred to centrifuge tubes. Cells were collected by centrifugation and resuspended in pre-warmed media (with or without glucose) in pre-warmed conical flasks and incubated for 10 or 60 minutes at 30°C. Cultures were then transferred to chilled centrifuge tubes and crosslinked using 0.8% formaldehyde whilst simultaneously being rapidly chilled by adding frozen media (with or without glucose) to the culture and submerging the centrifuge tube in water ice. Cells were crosslinked for 1 h and then quenched with 0.1 M glycine pH7. Yeast cells were pelleted by centrifugation, washed in 10 ml of Blob100 buffer (20 mM Tris-HCl (pH 8), 100 mM NaCl, 1 mM MgCl2, 0.5% (v/v) NP40, 0.5 mM TCEP, EDTA free Protease Inhibitor cocktail tablet (Roche Diagnostics, Indianaplois, IN, USA)). Cells were resuspended in 4 ml of Blob100 buffer plus 80 units/ml RNasin Plus (Promega, Flitchburg, WI, USA) and lysed under liquid nitrogen in a 6870 Freezer Mill (Spex, Metuchan, NJ, USA).Cell debris was cleared by centrifugation for 10 mins at 1,000g, protein concentration was determined by Bradford assay and 4 mg of total protein was used for RNA isolation. The cleared lysate was centrifuged at 20,000g for 10 mins, washed in 500 l of Blob100 buffer, and then the spin was repeated. The resulting washed pellet was resuspended in 500 l of Blob100 buffer.Immunoprecipitations were performed as follows: 150 ul of anti-c-Myc magnetic beads (Pierce) were washed twice in 500 ul of Blob100 buffer and 150 ug of cleared lysate was applied to the washed myc beads. Prior to RNA isolation, bound RNA was eluted from the beads using Proteinase K (New England Biolabs) at 550C for 15 mins in modified Blob100 buffer (in the presence of 0.5% (w/v) SDS and 1 mM EDTA, but without RNAsin and MgCl2). Crosslinks were reversed at 70oC for 40 mins. S. cerevisiae was cultured in SCD complete media (ForMedium, UK) either in the presence or absence of 2% w/v glucose. All growth was performed at 30°C with shaking. Myc-tagged strains were constructed in yeast strain W303 (MATa ura3-52 leu2-3 leu2-112 trp1-1 ade2-1 his3-11 can1-100) using a PCR-based strategy (Knop, Siegers et al., 1999). RNA was isolated using Trizol LS (Invitrogen) following the manufacturers protocol. Total RNA was submitted to the University of Manchester Genomic Technologies Core Facility (GTCF). Quality and integrity of the RNA samples were assessed using a 2200 TapeStation (Agilent Technologies) and then libraries generated using the TruSeq® Stranded mRNA assay (Illumina, Inc.) according to the manufacturer’s protocol. Briefly, rRNA depleted total RNA (0.1-4ug) was used as input material which was fragmented using divalent cations under elevated temperature and then reverse transcribed into first strand cDNA using random primers. Second strand cDNA was then synthesised using DNA Polymerase I and RNase H. Following a single 'A' base addition, adapters were ligated to the cDNA fragments, and the products then purified and enriched by PCR to create the final cDNA library.

text: Dcp1-myc expression

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 10 minute glucose depletion

characteristic: stimulus

text: Dcp1 RIP Dneg 10 mins 1


E-MTAB-9096:Dcp1 RIP Dneg 10 mins 2

characteristic: ENA-CHECKLIST

text: The University of Manchester

text: public

text: E-MTAB-9096:Dcp1 RIP Dneg 10 mins 2

text: ArrayExpress

text: baker's yeast

text: Dcp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 10 minute glucose depletion

characteristic: strain

text: Dcp1 RIP Dneg 10 mins 2


E-MTAB-9096:Dcp1 RIP Dneg 10 mins 3

characteristic: ENA-FIRST-PUBLIC

text: The University of Manchester

text: public

text: E-MTAB-9096:Dcp1 RIP Dneg 10 mins 3

text: ArrayExpress

text: baker's yeast

text: Dcp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 10 minute glucose depletion

text: Dcp1 RIP Dneg 10 mins 3

characteristic: title


E-MTAB-9096:Dcp1 RIP Dpos 1

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: The University of Manchester

text: public

text: E-MTAB-9096:Dcp1 RIP Dpos 1

text: ArrayExpress

text: baker's yeast

text: Dcp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Dcp1 RIP Dpos 1


E-MTAB-9096:Dcp1 RIP Dpos 2

text: The University of Manchester

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-9096:Dcp1 RIP Dpos 2

text: ArrayExpress

text: baker's yeast

text: Dcp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Dcp1 RIP Dpos 2


E-MTAB-9096:Dcp1 RIP Dpos 3

text: The University of Manchester

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-9096:Dcp1 RIP Dpos 3

text: ArrayExpress

text: baker's yeast

text: Dcp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Dcp1 RIP Dpos 3


E-MTAB-9096:Dcp1 Total Dneg 10 mins 1

text: The University of Manchester

text: public

characteristic: SRA accession

text: E-MTAB-9096:Dcp1 Total Dneg 10 mins 1

characteristic: Submitter Id

text: ArrayExpress

text: baker's yeast

text: Dcp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 10 minute glucose depletion

text: Dcp1 Total Dneg 10 mins 1


E-MTAB-9096:Dcp1 Total Dneg 10 mins 2

text: The University of Manchester

text: public

text: E-MTAB-9096:Dcp1 Total Dneg 10 mins 2

text: ArrayExpress

characteristic: broker name

text: baker's yeast

characteristic: common name

text: Dcp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 10 minute glucose depletion

text: Dcp1 Total Dneg 10 mins 2


E-MTAB-9096:Dcp1 Total Dneg 10 mins 3

text: The University of Manchester

text: public

text: E-MTAB-9096:Dcp1 Total Dneg 10 mins 3

text: ArrayExpress

text: baker's yeast

characteristic: description

text: Dcp1-myc expression

characteristic: genotype

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 10 minute glucose depletion

text: Dcp1 Total Dneg 10 mins 3


E-MTAB-9096:Dcp1 Total Dpos 1

text: The University of Manchester

text: public

text: E-MTAB-9096:Dcp1 Total Dpos 1

text: ArrayExpress

text: baker's yeast

text: Dcp1-myc expression

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Dcp1 Total Dpos 1


E-MTAB-9096:Dcp1 Total Dpos 2

characteristic: ENA-CHECKLIST

text: The University of Manchester

text: public

text: E-MTAB-9096:Dcp1 Total Dpos 2

text: ArrayExpress

text: baker's yeast

text: Dcp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Dcp1 Total Dpos 2


E-MTAB-9096:Dcp1 Total Dpos 3

text: The University of Manchester

text: public

text: E-MTAB-9096:Dcp1 Total Dpos 3

text: ArrayExpress

text: baker's yeast

text: Dcp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

characteristic: strain

text: Dcp1 Total Dpos 3


E-MTAB-9096:Pbp1 RIP Dneg 60 mins 1

characteristic: ENA-FIRST-PUBLIC

text: The University of Manchester

text: public

text: E-MTAB-9096:Pbp1 RIP Dneg 60 mins 1

text: ArrayExpress

text: baker's yeast

text: Pbp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 60 minute glucose depletion

characteristic: stimulus

text: Pbp1 RIP Dneg 60 mins 1


E-MTAB-9096:Pbp1 RIP Dneg 60 mins 2

characteristic: ENA-LAST-UPDATE

text: The University of Manchester

text: public

text: E-MTAB-9096:Pbp1 RIP Dneg 60 mins 2

text: ArrayExpress

text: baker's yeast

text: Pbp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 60 minute glucose depletion

text: Pbp1 RIP Dneg 60 mins 2

characteristic: title


E-MTAB-9096:Pbp1 RIP Dneg 60 mins 3

characteristic: External Id

text: The University of Manchester

characteristic: INSDC center name

text: public

text: E-MTAB-9096:Pbp1 RIP Dneg 60 mins 3

text: ArrayExpress

text: baker's yeast

text: Pbp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 60 minute glucose depletion

text: Pbp1 RIP Dneg 60 mins 3


E-MTAB-9096:Pbp1 RIP Dpos 1

text: The University of Manchester

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-9096:Pbp1 RIP Dpos 1

text: ArrayExpress

text: baker's yeast

text: Pbp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Pbp1 RIP Dpos 1


E-MTAB-9096:Pbp1 RIP Dpos 2

text: The University of Manchester

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-9096:Pbp1 RIP Dpos 2

text: ArrayExpress

text: baker's yeast

text: Pbp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Pbp1 RIP Dpos 2


E-MTAB-9096:Pbp1 RIP Dpos 3

text: The University of Manchester

text: public

text: E-MTAB-9096:Pbp1 RIP Dpos 3

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: baker's yeast

text: Pbp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Pbp1 RIP Dpos 3


E-MTAB-9096:Pbp1 Total Dneg 60 mins 1

text: The University of Manchester

text: public

text: E-MTAB-9096:Pbp1 Total Dneg 60 mins 1

text: ArrayExpress

text: baker's yeast

characteristic: common name

characteristic: description

text: Pbp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 60 minute glucose depletion

text: Pbp1 Total Dneg 60 mins 1


E-MTAB-9096:Pbp1 Total Dneg 60 mins 2

text: The University of Manchester

text: public

text: E-MTAB-9096:Pbp1 Total Dneg 60 mins 2

text: ArrayExpress

text: baker's yeast

text: Pbp1-myc expression

characteristic: genotype

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 60 minute glucose depletion

text: Pbp1 Total Dneg 60 mins 2


E-MTAB-9096:Pbp1 Total Dneg 60 mins 3

characteristic: ENA-CHECKLIST

text: The University of Manchester

text: public

text: E-MTAB-9096:Pbp1 Total Dneg 60 mins 3

text: ArrayExpress

text: baker's yeast

text: Pbp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 60 minute glucose depletion

characteristic: strain

text: Pbp1 Total Dneg 60 mins 3


E-MTAB-9096:Pbp1 Total Dpos 1

characteristic: ENA-FIRST-PUBLIC

text: The University of Manchester

text: public

text: E-MTAB-9096:Pbp1 Total Dpos 1

text: ArrayExpress

text: baker's yeast

text: Pbp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Pbp1 Total Dpos 1


E-MTAB-9096:Pbp1 Total Dpos 2

characteristic: ENA-LAST-UPDATE

text: The University of Manchester

text: public

text: E-MTAB-9096:Pbp1 Total Dpos 2

text: ArrayExpress

text: baker's yeast

text: Pbp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Pbp1 Total Dpos 2


E-MTAB-9096:Pbp1 Total Dpos 3

text: The University of Manchester

text: public

text: E-MTAB-9096:Pbp1 Total Dpos 3

text: ArrayExpress

text: baker's yeast

text: Pbp1-myc expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Pbp1 Total Dpos 3

characteristic: title


E-MTAB-9095:Ded1 RIP Dneg 1

characteristic: External Id

text: The University of Manchester

text: public

text: E-MTAB-9095:Ded1 RIP Dneg 1

text: ArrayExpress

text: baker's yeast

text: Protocols: A Ded1-TAP or Tif1-TAP strain (Thermo Scientific Open Biosystems (Waltham, MA, USA)) was grown to an OD600 of 0.6-0.8 in SCD-His, before being split and transferred to centrifuge tubes. Cells were collected by centrifugation and resuspended in pre-warmed media (with or without glucose) in pre-warmed conical flasks and incubated for 10 minutes at 30°C. Yeast cells were pelleted by centrifugation and snap frozen in liquid nitrogen. Cells were resuspended in Buffer A (20 mM Tris-HCl (pH 8), 140 mM NaCl, 1 mM MgCl2, 0.5% (v/v) NP40, 0.5 mM DTT, EDTA free Protease Inhibitor cocktail tablet (Roche Diagnostics, Indianaplois, IN, USA), plus 80 units/ml RNasin Plus (Promega, Flitchburg, WI, USA)) and lysed under liquid nitrogen in a 6870 Freezer Mill (Spex, Metuchan, NJ, USA). Cell debris was cleared twice by centrifugation for 10 mins at 15,000g. Beads were prepared as previously described (Rowe et al 2014) Beads were pre-washed three-times with Buffer A and then added cleared lysate. Immunoprecipitations were performed for 20 minutes at 4°C and washed five times with Buffer A containing 10 units/ml RNAsin and the beads were resuspended in 250 µl Buffer A prior to RNA extraction. S. cerevisiae was cultured in SCD-His (ForMedium, UK) either in the presence or absence of 2% w/v glucose. All growth was performed at 30°C with shaking. RNA was isolated using Trizol LS (Invitrogen) following the manufacturers protocol. Total RNA was submitted to the University of Manchester Genomic Technologies Core Facility (GTCF). Quality and integrity of the RNA samples were assessed using a 2200 TapeStation (Agilent Technologies) and then libraries generated using the TruSeq® Stranded mRNA assay (Illumina, Inc.) according to the manufacturer’s protocol. Briefly, rRNA depleted total RNA (0.1-4ug) was used as input material which was fragmented using divalent cations under elevated temperature and then reverse transcribed into first strand cDNA using random primers. Second strand cDNA was then synthesised using DNA Polymerase I and RNase H. Following a single 'A' base addition, adapters were ligated to the cDNA fragments, and the products then purified and enriched by PCR to create the final cDNA library.

text: Ded1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 10 minute glucose depletion

characteristic: stimulus

text: Ded1 RIP Dneg 1


E-MTAB-9095:Ded1 RIP Dneg 2

text: The University of Manchester

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-9095:Ded1 RIP Dneg 2

text: ArrayExpress

text: baker's yeast

text: Ded1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 10 minute glucose depletion

text: Ded1 RIP Dneg 2


E-MTAB-9095:Ded1 RIP Dneg 3

text: The University of Manchester

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-9095:Ded1 RIP Dneg 3

text: ArrayExpress

text: baker's yeast

text: Ded1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 10 minute glucose depletion

text: Ded1 RIP Dneg 3


E-MTAB-9095:Tif1 RIP Dneg 1

text: The University of Manchester

text: public

characteristic: SRA accession

text: E-MTAB-9095:Tif1 RIP Dneg 1

characteristic: Submitter Id

text: ArrayExpress

text: baker's yeast

text: Tif1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 10 minute glucose depletion

text: Tif1 RIP Dneg 1


E-MTAB-9095:Tif1 RIP Dneg 2

text: The University of Manchester

text: public

text: E-MTAB-9095:Tif1 RIP Dneg 2

text: ArrayExpress

characteristic: broker name

text: baker's yeast

characteristic: common name

text: Tif1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 10 minute glucose depletion

text: Tif1 RIP Dneg 2


E-MTAB-9095:Tif1 RIP Dneg 3

text: The University of Manchester

text: public

text: E-MTAB-9095:Tif1 RIP Dneg 3

text: ArrayExpress

text: baker's yeast

characteristic: description

text: Tif1-TAP expression

characteristic: genotype

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 10 minute glucose depletion

text: Tif1 RIP Dneg 3


E-MTAB-9095:Ded1 RIP Dpos 1

characteristic: ENA-CHECKLIST

text: The University of Manchester

text: public

text: E-MTAB-9095:Ded1 RIP Dpos 1

text: ArrayExpress

text: baker's yeast

text: Ded1-TAP expression

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Ded1 RIP Dpos 1


E-MTAB-9095:Ded1 RIP Dpos 2

characteristic: ENA-FIRST-PUBLIC

text: The University of Manchester

text: public

text: E-MTAB-9095:Ded1 RIP Dpos 2

text: ArrayExpress

text: baker's yeast

text: Ded1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

characteristic: strain

text: Ded1 RIP Dpos 2


E-MTAB-9095:Ded1 RIP Dpos 3

characteristic: ENA-LAST-UPDATE

text: The University of Manchester

text: public

text: E-MTAB-9095:Ded1 RIP Dpos 3

text: ArrayExpress

text: baker's yeast

text: Ded1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Ded1 RIP Dpos 3

characteristic: title


E-MTAB-9095:Tif1 RIP Dpos 1

characteristic: External Id

text: The University of Manchester

text: public

text: E-MTAB-9095:Tif1 RIP Dpos 1

text: ArrayExpress

text: baker's yeast

text: Tif1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Tif1 RIP Dpos 1


E-MTAB-9095:Tif1 RIP Dpos 2

text: The University of Manchester

characteristic: INSDC center name

text: public

text: E-MTAB-9095:Tif1 RIP Dpos 2

text: ArrayExpress

text: baker's yeast

text: Tif1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Tif1 RIP Dpos 2


E-MTAB-9095:Tif1 RIP Dpos 3

text: The University of Manchester

characteristic: INSDC first public

text: public

text: E-MTAB-9095:Tif1 RIP Dpos 3

text: ArrayExpress

text: baker's yeast

text: Tif1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Tif1 RIP Dpos 3


E-MTAB-9095:Ded1 Total Dneg 1

text: The University of Manchester

characteristic: INSDC last update

text: public

text: E-MTAB-9095:Ded1 Total Dneg 1

text: ArrayExpress

text: baker's yeast

text: Protocols: A Ded1-TAP or Tif1-TAP strain (Thermo Scientific Open Biosystems (Waltham, MA, USA)) was grown to an OD600 of 0.6-0.8 in SCD-His, before being split and transferred to centrifuge tubes. Cells were collected by centrifugation and resuspended in pre-warmed media (with or without glucose) in pre-warmed conical flasks and incubated for 10 minutes at 30°C. Yeast cells were pelleted by centrifugation and snap frozen in liquid nitrogen. Cells were resuspended in Buffer A (20 mM Tris-HCl (pH 8), 140 mM NaCl, 1 mM MgCl2, 0.5% (v/v) NP40, 0.5 mM DTT, EDTA free Protease Inhibitor cocktail tablet (Roche Diagnostics, Indianaplois, IN, USA), plus 80 units/ml RNasin Plus (Promega, Flitchburg, WI, USA)) and lysed under liquid nitrogen in a 6870 Freezer Mill (Spex, Metuchan, NJ, USA). Cell debris was cleared twice by centrifugation for 10 mins at 15,000g. 25l of cleared lysate was diluted in 225l in Buffer A prior to RNA extraction. S. cerevisiae was cultured in SCD-His (ForMedium, UK) either in the presence or absence of 2% w/v glucose. All growth was performed at 30°C with shaking. RNA was isolated using Trizol LS (Invitrogen) following the manufacturers protocol. Total RNA was submitted to the University of Manchester Genomic Technologies Core Facility (GTCF). Quality and integrity of the RNA samples were assessed using a 2200 TapeStation (Agilent Technologies) and then libraries generated using the TruSeq® Stranded mRNA assay (Illumina, Inc.) according to the manufacturer’s protocol. Briefly, rRNA depleted total RNA (0.1-4ug) was used as input material which was fragmented using divalent cations under elevated temperature and then reverse transcribed into first strand cDNA using random primers. Second strand cDNA was then synthesised using DNA Polymerase I and RNase H. Following a single 'A' base addition, adapters were ligated to the cDNA fragments, and the products then purified and enriched by PCR to create the final cDNA library.

text: Ded1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 10 minute glucose depletion

characteristic: stimulus

text: Ded1 Total Dneg 1


E-MTAB-9095:Ded1 Total Dneg 2

text: The University of Manchester

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-9095:Ded1 Total Dneg 2

text: ArrayExpress

text: baker's yeast

text: Ded1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 10 minute glucose depletion

text: Ded1 Total Dneg 2


E-MTAB-9095:Ded1 Total Dneg 3

text: The University of Manchester

text: public

text: E-MTAB-9095:Ded1 Total Dneg 3

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: baker's yeast

text: Ded1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 10 minute glucose depletion

text: Ded1 Total Dneg 3


E-MTAB-9095:Tif1 Total Dneg 1

text: The University of Manchester

text: public

text: E-MTAB-9095:Tif1 Total Dneg 1

text: ArrayExpress

text: baker's yeast

characteristic: common name

characteristic: description

text: Tif1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 10 minute glucose depletion

text: Tif1 Total Dneg 1


E-MTAB-9095:Tif1 Total Dneg 2

characteristic: ENA-CHECKLIST

text: The University of Manchester

text: public

text: E-MTAB-9095:Tif1 Total Dneg 2

text: ArrayExpress

text: baker's yeast

text: Tif1-TAP expression

characteristic: genotype

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 10 minute glucose depletion

text: Tif1 Total Dneg 2


E-MTAB-9095:Tif1 Total Dneg 3

characteristic: ENA-FIRST-PUBLIC

text: The University of Manchester

text: public

text: E-MTAB-9095:Tif1 Total Dneg 3

text: ArrayExpress

text: baker's yeast

text: Tif1-TAP expression

text: Saccharomyces cerevisiae

characteristic: organism

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: 10 minute glucose depletion

text: Tif1 Total Dneg 3


E-MTAB-9095:Ded1 Total Dpos 1

characteristic: ENA-LAST-UPDATE

text: The University of Manchester

text: public

text: E-MTAB-9095:Ded1 Total Dpos 1

text: ArrayExpress

text: baker's yeast

text: Ded1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

characteristic: strain

text: Ded1 Total Dpos 1


E-MTAB-9095:Ded1 Total Dpos 2

characteristic: External Id

text: The University of Manchester

text: public

text: E-MTAB-9095:Ded1 Total Dpos 2

text: ArrayExpress

text: baker's yeast

text: Ded1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Ded1 Total Dpos 2

characteristic: title


E-MTAB-9095:Ded1 Total Dpos 3

text: The University of Manchester

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-9095:Ded1 Total Dpos 3

text: ArrayExpress

text: baker's yeast

text: Ded1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Ded1 Total Dpos 3


E-MTAB-9095:Tif1 Total Dpos 1

text: The University of Manchester

characteristic: INSDC last update

text: public

text: E-MTAB-9095:Tif1 Total Dpos 1

text: ArrayExpress

text: baker's yeast

text: Tif1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Tif1 Total Dpos 1


E-MTAB-9095:Tif1 Total Dpos 2

text: The University of Manchester

text: public

characteristic: INSDC status

text: E-MTAB-9095:Tif1 Total Dpos 2

text: ArrayExpress

text: baker's yeast

text: Tif1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Tif1 Total Dpos 2


E-MTAB-9095:Tif1 Total Dpos 3

text: The University of Manchester

text: public

characteristic: SRA accession

text: E-MTAB-9095:Tif1 Total Dpos 3

text: ArrayExpress

text: baker's yeast

text: Tif1-TAP expression

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Saccharomyces cerevisiae

text: Tif1 Total Dpos 3


text: ETH ZURICH

text: public

tag: Namespace:ETH ZURICH

characteristic: Submitter Id

text: human

text: Homo sapiens

text: Homo sapiens


white _hMADS_1

text: ETH ZURICH

text: public

text: white _hMADS_1

text: human

text: white _hMADS_1

text: Homo sapiens

text: Homo sapiens

text: white _hMADS_1


white _hMADS_2

text: ETH ZURICH

text: public

text: white _hMADS_2

text: human

text: white _hMADS_2

text: Homo sapiens

text: Homo sapiens

text: white _hMADS_2


white _hMADS_3

text: ETH ZURICH

text: public

text: white _hMADS_3

text: human

text: white _hMADS_3

text: Homo sapiens

text: Homo sapiens

text: white _hMADS_3


text: INSTITUT DE CIENCIES DEL MAR

text: public

tag: Namespace:INSTITUT DE CIENCIES DEL MAR

text: saline water

text: uncultured bacterium

text: sample of BBMO

text: marine biome

text: Yes

text: Mediterranean Sea

characteristic: geographic location (country and/or sea)

text: Illumina MiSeq

text: coastal sea water

text: 41.666667, 2.8

text: uncultured bacterium

text: F 5'-CCTACGGGNGGCWGCAG-3' R 5'-GGACTACNVGGGTWTCTAAT-3'

text: uncultured bacterium

text: Blanes temporal series


text: public

tag: Namespace:MAX PLANCK INSTITUTE FOR PLANT BREEDING RESEARCH

characteristic: collection date

text: thale cress

characteristic: common name

text: Cape Verde

unit: DD

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Fogo

characteristic: geographic location (region and locality)

text: Arabidopsis thaliana

text: setting seeds

characteristic: plant developmental stage

text: soil

characteristic: plant growth medium

text: seeds

characteristic: plant structure

text: Arabidopsis thaliana

characteristic: subspecific genetic lineage name


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: MAX PLANCK INSTITUTE FOR PLANT BREEDING RESEARCH

text: public

text: thale cress

characteristic: description

text: Cape Verde

text: Fogo

text: Arabidopsis thaliana

characteristic: organism

text: setting seeds

text: soil

text: seeds

text: Arabidopsis thaliana

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: thale cress

text: Cape Verde

characteristic: geographic location (country and/or sea)

text: SantoAnt�o

text: Arabidopsis thaliana

text: setting seeds

text: soil

text: seeds

text: Arabidopsis thaliana


text: public

characteristic: collection date

text: thale cress

characteristic: common name

text: Cape Verde

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: SantoAnt�o

characteristic: geographic location (region and locality)

text: Arabidopsis thaliana

text: setting seeds

characteristic: plant developmental stage

text: soil

characteristic: plant growth medium

text: seeds

text: Arabidopsis thaliana

text: SCratera


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY MEDICINE GREIFSWALD

text: public

text: Netherlands

text: healthy

characteristic: host health state

text: Sus scrofa domesticus

characteristic: host scientific name

characteristic: isolate

text: isolated from the tonsil of a pig

characteristic: isolation source

text: Streptococcus suis

text: Streptococcus suis

characteristic: serovar

characteristic: strain

text: Streptococcus suis strain 10


text: UNIVERSITY MEDICINE GREIFSWALD

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Germany

characteristic: geographic location (country and/or sea)

text: diseased

text: Sus scrofa domesticus

text: isolated from the brain of a piglet with meningitis

text: Streptococcus suis

characteristic: organism

text: Streptococcus suis

text: Streptococcus suis strain 1300283

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY MEDICINE GREIFSWALD

text: public

text: Germany

text: diseased

text: Sus scrofa domesticus

text: isolated from the spleen of a piglet with septicemia

text: Streptococcus suis

text: Streptococcus suis

text: Streptococcus suis strain 16085


text: THE ROSLIN INSTITUTE

text: public

tag: Namespace:THE ROSLIN INSTITUTE

text: cattle

characteristic: common name

text: Bos taurus

text: Bos taurus


text: THE ROSLIN INSTITUTE

text: public

text: zebu cattle

text: Punjab Province, Jhang District

characteristic: geographic location (region and locality)

text: Bos indicus

text: Bos indicus

text: Sahiwal cattle


E-MTAB-9338:SH-EP_C11 DOX 48h

text: public

text: E-MTAB-9338:SH-EP_C11 DOX 48h

tag: Namespace:Center for Medical Genetics, Ghent University, Ghent 9000, Belgium; Cancer Research Institute Ghent (CRIG), Ghent 9000, Belgium

text: ArrayExpress

characteristic: broker name

text: SHEP

characteristic: cell line

text: neuroblast (sensu Vertebrata)

characteristic: cell type

text: human

text: Protocols: Cell lines were harvested, centrifuged and stored at -80°C. Cells were grown in RPMI1640 medium supplemented with 10% foetal bovine serum, 2 mM L-Glutamine and 100 IU/ml penicillin/streptavidin at 37°C in a 5% CO2 humid atmosphere, supplemented with 10% tetracyclin-free FBS to avoid leakage. For SOX11 inducible overexpression, the OriGene vector SC303275 containing the cDNA of SOX11 was amplified by PCR and the obtained fragment was gel purified and ligated into the opened NdeI site of response vector pLVX-TRE2G-Zsgreen1 (Takara, cat#631353) producing pLVX-TRE3G-Zsgreen1-IRES-hSOX11. The constructed plasmid was verified by restriction digest and sequenced by Sanger DNA sequencing (GATC). Lenti-X 293T Cells (Takara, cat#632180) were transfected with the regulator vector pLVX-pEF1a-Tet3G (cat#631353 and Lenti-X Packaging Single Shots (VSV-G) (cat#631275) according to the manufacturer’s instructions. The supernatant containing the lenti-virus was collected, filtered through a 0.45 µm filter and concentrated using PEG-IT. SH-EP cells were infected with the concentrated virus and 48 hours of incubation thereafter, the transduced cells were selected using 500 µg/ml G418. Individual clones were obtained by limiting dilution. After clonal expansion, the TET protein expression in each clone was checked by immunoblotting using TetR monoclonal antibody (Clone 9G9) (Clontech, cat#631131). In addition, induction of each expressing clone was tested after transduction with the pLVX-TRE3G-Luc control vector. Selected clones (F6, C11, G2) were transduced with lentivirus produced as described above from vector pLVX-TRE3G-Zsgreen1-IRES-hSOX11 and subsequently selected with 1 µg/ml puromycin. Each clone was treated with 1 ug/ml Doxycycline for inductiono f SOX11 expression or left unaffected in case of the control Total RNA was extracted using miRNeasy kit (Qiagen) according to manufacturer's instructions, including on-column DNase treatment, and concentration was determined with the Nanodrop (Thermo Scientific). 250 ng of RNA isolated from cells was used as input for library preparation with the TruSeq Stranded mRNA Sample Prep Kit from Illumina, followed by quality control on the fragment analyser and qPCR quantificaiton of the libraries using the Illumina Kapa Library quantification kit (Ligtcycler 480 qPCR mix Kapa Code KK4854)

characteristic: description

text: neuroblastoma

characteristic: disease

text: doxycycline-inducible SOX11 expression clone C11

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: bone marrow

characteristic: organism part

text: SOX11 overexpression

characteristic: phenotype

text: Homo sapiens

text: doxycycline; 1 microgram per milliliter

characteristic: stimulus

text: SH-EP_C11 DOX 48h


E-MTAB-9338:SH-EP_F6 DOX 48h

text: Center for Medical Genetics, Ghent University, Ghent 9000, Belgium; Cancer Research Institute Ghent (CRIG), Ghent 9000, Belgium

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-9338:SH-EP_F6 DOX 48h

characteristic: Submitter Id

text: ArrayExpress

text: SHEP

text: neuroblast (sensu Vertebrata)

text: human

text: neuroblastoma

text: doxycycline-inducible SOX11 expression clone F6

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: bone marrow

text: SOX11 overexpression

text: Homo sapiens

text: doxycycline; 1 microgram per milliliter

text: SH-EP_F6 DOX 48h


E-MTAB-9338:SH-EP_G2 DOX 48h

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: E-MTAB-9338:SH-EP_G2 DOX 48h

text: ArrayExpress

text: SHEP

text: neuroblast (sensu Vertebrata)

text: human

characteristic: common name

text: neuroblastoma

text: doxycycline-inducible SOX11 expression clone G2

text: Homo sapiens

text: Homo sapiens

text: bone marrow

text: SOX11 overexpression

text: Homo sapiens

text: doxycycline; 1 microgram per milliliter

text: SH-EP_G2 DOX 48h

characteristic: title


E-MTAB-9338:SH-EP_C11 UT 48h

text: public

text: E-MTAB-9338:SH-EP_C11 UT 48h

text: ArrayExpress

characteristic: broker name

text: SHEP

characteristic: cell line

text: neuroblast (sensu Vertebrata)

characteristic: cell type

text: human

characteristic: description

text: neuroblastoma

characteristic: disease

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: bone marrow

text: wild type

text: Homo sapiens

text: SH-EP_C11 UT 48h


E-MTAB-9338:SH-EP_F6 UT 48h

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-9338:SH-EP_F6 UT 48h

text: ArrayExpress

text: SHEP

text: neuroblast (sensu Vertebrata)

text: human

text: neuroblastoma

text: Homo sapiens

text: Homo sapiens

text: bone marrow

characteristic: organism part

text: wild type

characteristic: phenotype

text: Homo sapiens

text: SH-EP_F6 UT 48h


E-MTAB-9338:SH-EP_G2 UT 48h

characteristic: ENA-CHECKLIST

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-9338:SH-EP_G2 UT 48h

characteristic: Submitter Id

text: ArrayExpress

text: SHEP

text: neuroblast (sensu Vertebrata)

text: human

text: neuroblastoma

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: bone marrow

text: wild type

text: Homo sapiens

text: SH-EP_G2 UT 48h


E-MTAB-9340:IMR-32 siNTC rep1

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: E-MTAB-9340:IMR-32 siNTC rep1

text: ArrayExpress

text: neuroblast (sensu Vertebrata)

text: human

characteristic: common name

text: Protocols: Cell lines were harvested, centrifuged and stored at -80°C. Cells were grown in RPMI1640 medium supplemented with 10% foetal bovine serum, 2 mM L-Glutamine and 100 IU/ml penicillin/streptavidin at 37°C in a 5% CO2 humid atmosphere. For SOX11 knockdown, SMARTpool ON-TARGETplus SOX11 siRNA (cat#L-017377-01-0005) and non-targeting siRNA (cat#D-001810-01-05) were ordered from Dharmacon, each pool containing four unique siRNAs. Cells were nucleofected with 100 nM of siRNA NTC and siRNA SOX11 using the Neon Transfection System (Thermo Fisher Scientific) and subsequently seeded in T25 tissue culture plates. Total RNA was extracted using miRNeasy kit (Qiagen) according to manufacturer's instructions, including on-column DNase treatment, and concentration was determined with the Nanodrop (Thermo Scientific). 250 ng of RNA isolated from cells was used as input for library preparation with the TruSeq Stranded mRNA Sample Prep Kit from Illumina, followed by quality control on the fragment analyser and qPCR quantificaiton of the libraries using the Illumina Kapa Library quantification kit (Ligtcycler 480 qPCR mix Kapa Code KK4854)

text: neuroblastoma

text: Homo sapiens

text: Homo sapiens

text: adrenal medulla

text: Homo sapiens

text: IMR-32 siNTC rep1

characteristic: title


E-MTAB-9340:IMR-32 siNTC rep2

text: public

text: E-MTAB-9340:IMR-32 siNTC rep2

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: neuroblast (sensu Vertebrata)

characteristic: cell type

text: human

characteristic: description

text: neuroblastoma

characteristic: disease

text: Homo sapiens

text: Homo sapiens

text: adrenal medulla

text: Homo sapiens

text: IMR-32 siNTC rep2


E-MTAB-9340:IMR-32 siNTC rep3

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-9340:IMR-32 siNTC rep3

text: ArrayExpress

text: neuroblast (sensu Vertebrata)

text: human

text: neuroblastoma

text: Homo sapiens

text: Homo sapiens

text: adrenal medulla

characteristic: organism part

text: Homo sapiens

text: IMR-32 siNTC rep3


E-MTAB-9340:IMR-32 siNTC rep4

characteristic: ENA-CHECKLIST

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-9340:IMR-32 siNTC rep4

text: ArrayExpress

text: neuroblast (sensu Vertebrata)

text: human

text: neuroblastoma

text: Homo sapiens

text: Homo sapiens

text: adrenal medulla

text: Homo sapiens

text: IMR-32 siNTC rep4


E-MTAB-9340:IMR-32 siSOX11 rep1

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-9340:IMR-32 siSOX11 rep1

characteristic: Submitter Id

text: ArrayExpress

text: neuroblast (sensu Vertebrata)

text: human

text: neuroblastoma

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: adrenal medulla

text: Homo sapiens

text: IMR-32 siSOX11 rep1


E-MTAB-9340:IMR-32 siSOX11 rep2

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: E-MTAB-9340:IMR-32 siSOX11 rep2

text: ArrayExpress

text: neuroblast (sensu Vertebrata)

text: human

characteristic: common name

text: neuroblastoma

text: Homo sapiens

text: Homo sapiens

text: adrenal medulla

text: Homo sapiens

text: IMR-32 siSOX11 rep2


E-MTAB-9340:IMR-32 siSOX11 rep3

text: public

text: E-MTAB-9340:IMR-32 siSOX11 rep3

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: neuroblast (sensu Vertebrata)

text: human

text: neuroblastoma

text: Homo sapiens

text: Homo sapiens

text: adrenal medulla

text: Homo sapiens

text: IMR-32 siSOX11 rep3

characteristic: title


E-MTAB-9340:IMR-32 siSOX11 rep4

text: public

text: E-MTAB-9340:IMR-32 siSOX11 rep4

text: ArrayExpress

text: neuroblast (sensu Vertebrata)

characteristic: cell type

text: human

characteristic: description

text: neuroblastoma

characteristic: disease

text: Homo sapiens

text: Homo sapiens

text: adrenal medulla

text: Homo sapiens

text: IMR-32 siSOX11 rep4


text: THE ROSLIN INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: cattle

text: Nigeria

characteristic: geographic location (country and/or sea)

text: Bos taurus

text: Bos taurus

text: N'Dama cattle


characteristic: ENA-CHECKLIST

text: CNAG

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: collection date

text: DNA extracted from AI2613

text: Spain

text: diseased

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

characteristic: isolate

text: Hospital Arquitecto Marcide (Ferrol)

characteristic: isolation source

text: Enterobacter cloacae

text: Enterobacter cloacae

text: AI2613 DNA


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CNAG

text: public

characteristic: Submitter Id

text: DNA extracted from AI2830

text: Spain

text: diseased

text: Homo sapiens

text: Hospital Universitario Lucus Augusti (Lugo)

text: Klebsiella pneumoniae

characteristic: organism

text: Klebsiella pneumoniae

text: AI2830 DNA


text: CNAG

characteristic: INSDC center name

text: public

text: DNA extracted from AI2855

characteristic: description

text: Spain

text: diseased

text: Homo sapiens

text: Hospital Universitario Mutua de Terrassa (Terrassa)

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: AI2855 DNA

characteristic: title


text: CNAG

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: DNA extracted from AI2856

text: Spain

characteristic: geographic location (country and/or sea)

text: diseased

text: Homo sapiens

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: AI2856 DNA


characteristic: ENA-CHECKLIST

text: CNAG

text: public

characteristic: INSDC status

characteristic: SRA accession

text: DNA extracted from AI2898

text: Spain

text: diseased

text: Homo sapiens

text: Hospital Universitario Ramon y Cajal (Madrid)

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: AI2898 DNA


text: CNAG

text: public

characteristic: collection date

text: DNA extracted from AI2934

text: Spain

text: diseased

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: Hospital Virgen de la Macarena (Sevilla)

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: AI2934 DNA


characteristic: ENA-FIRST-PUBLIC

text: CNAG

text: public

text: DNA extracted from AI2763

text: Spain

text: diseased

text: Homo sapiens

characteristic: isolate

text: Hospital Univeristario de Bellvitge (Barcelona)

characteristic: isolation source

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: AI2763 DNA


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CNAG

text: public

characteristic: Submitter Id

text: DNA extracted from AI2764

text: Spain

text: diseased

text: Homo sapiens

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: AI2764 DNA


text: CNAG

characteristic: INSDC center name

text: public

text: DNA extracted from AI2765

characteristic: description

text: Spain

text: diseased

text: Homo sapiens

text: Klebsiella pneumoniae

characteristic: organism

text: Klebsiella pneumoniae

text: AI2765 DNA


text: CNAG

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: DNA extracted from AI2766

text: Spain

text: diseased

text: Homo sapiens

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: AI2766 DNA

characteristic: title


characteristic: ENA-CHECKLIST

text: CNAG

text: public

characteristic: INSDC status

text: DNA extracted from AI2767

text: Spain

characteristic: geographic location (country and/or sea)

text: diseased

text: Homo sapiens

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: AI2767 DNA


text: CNAG

text: public

characteristic: SRA accession

characteristic: collection date

text: DNA extracted from AI2993

text: Spain

text: diseased

characteristic: host health state

text: Homo sapiens

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: AI2993 DNA


characteristic: ENA-FIRST-PUBLIC

text: CNAG

text: public

text: DNA extracted from AI2768

text: Spain

text: diseased

text: Homo sapiens

characteristic: host scientific name

characteristic: isolate

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: AI2768 DNA


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CNAG

text: public

text: DNA extracted from AI2769

text: Spain

text: diseased

text: Homo sapiens

characteristic: isolation source

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: AI2769 DNA


text: CNAG

characteristic: INSDC center name

text: public

characteristic: Submitter Id

text: DNA extracted from AI2770

characteristic: description

text: Spain

text: diseased

text: Homo sapiens

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: AI2770 DNA


text: CNAG

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: DNA extracted from AI3065

text: Spain

text: diseased

text: Homo sapiens

text: Klebsiella pneumoniae

characteristic: organism

text: Klebsiella pneumoniae

text: AI3065 DNA


characteristic: ENA-CHECKLIST

text: CNAG

text: public

characteristic: INSDC status

text: DNA extracted from AI2996

text: Spain

text: diseased

text: Homo sapiens

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: AI2996 DNA

characteristic: title


text: CNAG

text: public

characteristic: SRA accession

characteristic: collection date

text: DNA extracted from AI2998

text: Spain

characteristic: geographic location (country and/or sea)

text: diseased

text: Homo sapiens

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: AI2998 DNA


characteristic: ENA-FIRST-PUBLIC

text: CNAG

text: public

text: DNA extracted from AI3000

text: Spain

text: diseased

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: AI3000 DNA


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: CNAG

text: public

text: DNA extracted from AI2775

text: Spain

text: diseased

text: Homo sapiens

characteristic: isolate

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: AI2775 DNA


text: CNAG

characteristic: INSDC center name

text: public

characteristic: Submitter Id

text: DNA extracted from AI3007

text: Spain

text: diseased

text: Homo sapiens

text: Hospital Universitario Valencia Tres cruces (Valencia)

characteristic: isolation source

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: AI3007 DNA


text: CNAG

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: DNA extracted from AI3008

characteristic: description

text: Spain

text: diseased

text: Homo sapiens

text: Klebsiella pneumoniae

text: Klebsiella pneumoniae

text: AI3008 DNA


characteristic: ENA-CHECKLIST

text: CNAG

text: public

characteristic: INSDC status

text: DNA extracted from AN2352

text: Spain

text: diseased

text: Homo sapiens

text: Klebsiella pneumoniae

characteristic: organism

text: Klebsiella pneumoniae

text: AN2352 DNA


text: CNAG

text: public

characteristic: SRA accession

characteristic: collection date

text: DNA extracted from AN2360

text: Spain

text: diseased

text: Homo sapiens

text: Hospital Arquitecto Marcide (Ferrol)

text: Enterobacter cloacae

text: Enterobacter cloacae

text: AN2360 DNA

characteristic: title


characteristic: ENA-FIRST-PUBLIC

text: public

tag: Namespace:Institute of Genetic Medicine Newcastle University

text: human

characteristic: common name

text: Lynch Blood

text: Homo sapiens

text: Homo sapiens


characteristic: ENA-LAST-UPDATE

text: Institute of Genetic Medicine Newcastle University

text: public

text: human

text: Lynch Blood

text: Homo sapiens

text: Homo sapiens


characteristic: External Id

text: public

text: human

text: Control Blood

text: Homo sapiens

text: Homo sapiens


D058400 HighDepthMonoNRs

text: public

text: D058400 HighDepthMonoNRs

text: human

text: Lynch Blood

text: Homo sapiens

text: Homo sapiens


text: FUBB

text: public

text: soil

characteristic: environment (biome)

text: soil

characteristic: environment (feature)

text: soil

characteristic: environment (material)

text: Italy

characteristic: geographic location (country and/or sea)

unit: m

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

characteristic: investigation type

text: environmental samples

characteristic: project name

text: environmental samples

text: illumina

characteristic: sequencing method

text: soil

characteristic: soil environmental package

text: Snapshot of a vineyard: how do long-term agronomic practices influence soil bacterial and fungal diversity?


characteristic: ENA-CHECKLIST

text: FUBB

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: soil

text: soil

text: soil

text: Italy

text: environmental samples

characteristic: organism

text: napshot of a vineyard: how do long-term agronomic practices influence soil bacterial and fungal diversity?

text: environmental samples

text: illumina

text: soil

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: human

characteristic: common name

text: Lynch CRC

characteristic: description

text: Homo sapiens

text: Homo sapiens


text: public

text: human

text: Lynch Extracolonic Cancer

text: Homo sapiens

text: Homo sapiens


text: public

text: human

text: FFPE MSS CRC

text: Homo sapiens

text: Homo sapiens


text: public

text: human

text: FFPE Colorectal Mucosa

text: Homo sapiens

text: Homo sapiens


text: public

text: human

text: FFPE MSI-H CRC

text: Homo sapiens

text: Homo sapiens


text: public

text: human

text: FFPE MSS CRC typo 295766?

text: Homo sapiens

text: Homo sapiens


text: public

text: human

text: FFPE MSS CRC typo 296020?

text: Homo sapiens

text: Homo sapiens


text: public

text: human

text: FFPE MSS CRC typo 295469?

text: Homo sapiens

text: Homo sapiens


text: public

text: human

text: Control Blood (rpt, outlier run 1)

text: Homo sapiens

text: Homo sapiens


text: public

text: human

text: CMMRD Blood

text: Homo sapiens

text: Homo sapiens


text: public

text: human

text: Fresh MSS CRC

text: Homo sapiens

text: Homo sapiens


text: public

text: human

text: Fresh MSI-H CRC

text: Homo sapiens

text: Homo sapiens


text: public

text: human

text: FFPE Aorta

text: Homo sapiens

text: Homo sapiens


D058400 TetraNRs

text: public

text: D058400 TetraNRs

text: human

text: Lynch Blood

text: Homo sapiens

text: Homo sapiens


text: public

text: human

text: Lynch Blood

text: Homo sapiens

text: Homo sapiens


text: public

text: human

text: Control Blood

text: Homo sapiens

text: Homo sapiens


text: FUBB

text: public

text: OMW substrates

characteristic: environment (biome)

text: OMW substrates

characteristic: environment (feature)

text: OMW substrates

characteristic: environment (material)

text: Italy

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: 9° 11' 40.776

characteristic: geographic location (longitude)

characteristic: investigation type

text: miscellaneous natural or artificial environment

characteristic: miscellaneous environmental package

text: environmental samples

text: Dark fermentation and prediction of the metabolic routes for hydrogen production

characteristic: project name

text: environmental samples

text: illumina

characteristic: sequencing method

text: Prediction of the metabolic routes for hydrogen production


characteristic: ENA-CHECKLIST

text: UNIVERSITY OF BERGEN

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:UNIVERSITY OF BERGEN

characteristic: Submitter Id

text: human

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: RNA-seq parental and PA-adapted MDA-MB-231


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF BERGEN

text: public

text: human

characteristic: common name

text: Homo sapiens

text: Homo sapiens

characteristic: title


text: The Kennel Club Genetics Centre

text: public

tag: Namespace:The Kennel Club Genetics Centre

text: Spaniel (Cocker)

characteristic: breed

text: dog

text: Canis lupus familiaris

text: Canis lupus familiaris

text: Spaniel (Cocker) WGS


text: The Kennel Club Genetics Centre

text: public

text: Basset Hound

text: dog

text: Canis lupus familiaris

text: Canis lupus familiaris

text: Basset Hound WGS


text: The Kennel Club Genetics Centre

text: public

text: Tibetan Terrier

text: dog

text: Canis lupus familiaris

text: Canis lupus familiaris

text: Tibetan Terrier WGS


text: The Kennel Club Genetics Centre

text: public

text: Shar Pei

text: dog

text: Canis lupus familiaris

text: Canis lupus familiaris

text: Shar Pei WGS


text: NORWEGIAN VETERINARY INSTITUTE

text: public

characteristic: collection date

text: Thailand

characteristic: geographic location (country and/or sea)

text: healthy

characteristic: host health state

text: Homo sapiens

characteristic: host scientific name

characteristic: isolate

text: human

characteristic: isolation source

text: Escherichia coli

text: Escherichia coli

characteristic: strain


characteristic: ENA-CHECKLIST

text: NORWEGIAN VETERINARY INSTITUTE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Thailand

text: healthy

text: Sus domesticus

text: Pig

text: Escherichia coli

text: Escherichia coli


E-MTAB-9464:IMR-32 Input

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

characteristic: SRA accession

text: E-MTAB-9464:IMR-32 Input

tag: Namespace:Center for Medical Genetics Gent Cancer Research Institute Gent

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: neuroblast (sensu Vertebrata)

characteristic: cell type

text: human

text: Protocols: A total of 3-5x10^7 cells were crosslinked in complete medium with 1% formaldehyde while shaking for 7 min at room temperature. Crosslinking was quenched with 125 nM glycine, cells were washed twice with PBS and stored at -80°C. Cells were lysed and sonicated with the M220 Covaris for 15 min to obtain 200-300 bp long fragments. Chromatin fragments were immunoprecipitated overnight using 1 ug antibody for every 10^7 cells. 20 ul Protein A UltraLink Resin beads was added per 10^7 cells. Beads were eluted by incubation for 22 min at 5°C while vortexing every 2 min, reverse crosslinking was done at 65°C for 15h. Cells were grown in RPMI1640 medium supplemented with 10% foetal bovine serum, 2mM L-Glutamine and 100 IU/ml penicillin/streptaviding at 37°C in a 5% CO2 humid atmosphere. The chromatin for DNA purposes was resuspended in TE-buffer to dilute SDS in the elution buffer, incubated for 2h at 37°C with 0.2 mg/ml RNase and followed by an incubation of 2h at 55°C with 0.2 mg/ml proteinase K. DNA was isolated using 400 ul phenol:chloroform:isoamylalcohol in phase lockd gel tubes. Upon centrifugation, the aqueous layer was transferred to a new tube with 200 mM NaCl, 30 ug glycogen and 800 ul 100% ethanol, and incubated for 30 min at -20°C. Upon centrifugation, the pellet was washed with 80% Ethanol and resuspended in RNase/DNase free water. Concentration was measured using the Qubit dsDNA HS Assay Kit. Library prep was done using the NEBNExt Ultra DNA library Prep Kit for Illumina (E7370S) with 500 ng starting material and using 8 PCR cycles according to the manufacturer’s instructions.

characteristic: description

text: neuroblastoma

characteristic: disease

text: wild type genotype

characteristic: genotype

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: adrenal medulla

characteristic: organism part

text: Homo sapiens

text: IMR-32 Input


E-MTAB-9464:IMR-32 SOX11

characteristic: ENA-CHECKLIST

characteristic: External Id

text: Center for Medical Genetics Gent Cancer Research Institute Gent

text: public

text: E-MTAB-9464:IMR-32 SOX11

text: ArrayExpress

text: neuroblast (sensu Vertebrata)

text: human

characteristic: common name

text: neuroblastoma

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: adrenal medulla

text: Homo sapiens

text: IMR-32 SOX11

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:Department of Medical Biochemistry and Microbiology, Science for Life Laboratory,Uppsala University

text: ArrayExpress

text: ovarian cancer cell

text: human

text: Protocols: SKOV3 cells were cultured in 6-well plates and starved in serum-free DMEM overnight. Then cells were treated with PBS or 20 ng/ml BMP2 in DMEM containing 1% FBS for 2 h. Total RNAs were extracted using the Total RNA Purification Kit (Norgen Biotek, Thoroid, Canada) according to the manufacturer’s instruction. Sequencing libraries for 6 samples were prepared from 1 μg total RNA using the TruSeq stranded total RNA library preparation kit with RiboZero Gold treatment (Illumina; San Diego, CA, USA) following the manufacturer’s instruction.

text: ovarian carcinoma

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: ovary

characteristic: replicate

text: Homo sapiens

characteristic: stimulus


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: Department of Medical Biochemistry and Microbiology, Science for Life Laboratory,Uppsala University

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: ovarian cancer cell

text: human

text: ovarian carcinoma

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: ovary

text: Homo sapiens


text: public

text: ArrayExpress

text: ovarian cancer cell

characteristic: cell type

text: human

characteristic: description

text: ovarian carcinoma

characteristic: disease

text: wild type genotype

characteristic: genotype

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: ovary

characteristic: organism part

text: Homo sapiens

text: PBS


characteristic: ENA-CHECKLIST

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

text: public

tag: Namespace:Senckenber Biodiversity and Climate Research Centre Frankfurt

text: Daphnia galeata

text: Daphnia galeata

characteristic: strain

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: Senckenber Biodiversity and Climate Research Centre Frankfurt

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Daphnia galeata

text: Daphnia galeata


text: CENTER FOR AGRICULTURAL BIOTECHNOLOGY

text: public

characteristic: SRA accession

tag: Namespace:CENTER FOR AGRICULTURAL BIOTECHNOLOGY

characteristic: Submitter Id

characteristic: collection date

text: Developing leaf from teak tree growing at Wat Bot temple, Potharam

text: temple

characteristic: environment (biome)

characteristic: estimated size

characteristic: extrachromosomal elements

text: Thailand

characteristic: geographic location (country and/or sea)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Potharam district, Rachaburi province

characteristic: geographic location (region and locality)

text: Hugo Volkaert

characteristic: identified by

text: developing leaf

characteristic: isolation and growth condition

characteristic: number of replicons

text: Tectona grandis

text: teak

characteristic: organism common name

text: mature plant

characteristic: plant developmental stage

text: soil

characteristic: plant growth medium

text: hermaphroditic

characteristic: plant sex

text: leaf

characteristic: plant structure

characteristic: ploidy

text: Tectona grandis

text: Teak from MaeKhlong river watershed


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF KIEL

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:UNIVERSITY OF KIEL

characteristic: Submitter Id

text: house mouse

characteristic: common name

characteristic: description

text: Mus musculus

characteristic: organism

text: Mus musculus

characteristic: title


text: public

text: Zebrafish_Whole_Pancreas_ATAC-seq_replicate1

text: zebrafish

text: Adult zebrafish whole pancreas ATAC-seq replicate 1

text: Danio rerio

text: Danio rerio

text: whole pancreas

text: Zebrafish Whole Pancreas ATAC-seq replicate 1


text: public

text: Zebrafish_Whole_Pancreas_ATAC-seq_replicate2

text: zebrafish

text: Adult zebrafish whole pancreas ATAC-seq replicate 2

text: Danio rerio

text: Danio rerio

text: whole pancreas

text: Zebrafish Whole Pancreas ATAC-seq replicate 2


text: public

tag: Namespace:Istituto Nazionale Genetica Molecolare Romeo ed Enrica Invernizzi, 20122 Milan, Italy.  Department of Medical Biotechnology and Translational Medicine, Universita degli Studi di Milano, 20133 Milan, Italy.

unit: year

characteristic: age

text: ArrayExpress

characteristic: broker name

text: T cell

characteristic: cell type

text: human

text: Protocols: Fresh CD4 positive T cells extracted from tumor and healthy tissue were harvested, washed with 1 PBS and resuspended in PBS and 0.04% bovine serum albumin. Cell were then counted using an automated counter (Countess II Thermo Fisher) and cell viability was assessed by Trypan blue exclusion. Samples were selected according to cell viability only samples with a viability above 85% were used for single-cell analyisis. After quantification cells were resuspended at 1e106 cells per ml in PBS and 0.04% bovine serum albumin. Cellular suspensions (5000 cells per sample) were loaded on a Chromium 10X Instrument (10x Genomics, Pleasanton, CA, USA) to generate single-cell GEMs. Single-cell RNA-Seq libraries were prepared using Chromium™ Single Cell 3’ Library & Gel Bead Kit v2 (16 rxns PN-120237; 10x Genomics). GEM-RT was performed in a Veriti© 96-Well Thermal Cycler (Thermo Fisher; PN-4375786): 55 C for 2 h, 85 C for 5 min; held at 4 C. After RT, GEMs were broken and the single-strand cDNA was cleaned up with DynaBeads MyOne Silane Beads (Thermo Fisher Scientific; P/N 37002D) and SPRIselect Reagent Kit (0.6 SPRI; Beckman Coulter; P/N B23318). cDNA was amplified using the Veriti© 96-Well Thermal Cycler: 98 C for 3 min; cycled 14 : 98 C for 15 s, 67 C for 20 s, and 72 C for 1 min; 72 C for 1 min; held at 4 C. Amplified cDNA product was cleaned up with the SPRIselect Reagent Kit (0.6 SPRI). Indexed sequencing libraries were constructed using the reagents in the Chromium™ Single Cell 3’ Library Kit, following these steps: (1) fragmentation, end repair and A-tailing; (2) adapter ligation; (3) post-ligation cleanup with SPRIselect; (4) sample index PCR and cleanup. The barcode sequencing libraries were quantified by quantitative PCR (KAPA Biosystems Library Quantification Kit for Illumina platforms P/N KK4824). Cellular suspensions (5000 cells per sample) were loaded on a Chromium 10X Instrument (10x Genomics, Pleasanton, CA, USA) to generate single-cell GEMs. Single-cell RNA-Seq libraries were prepared using Chromium™ Single Cell 3’ Library & Gel Bead Kit v2 (16 rxns PN-120237; 10x Genomics). GEM-RT was performed in a Veriti© 96-Well Thermal Cycler (Thermo Fisher; PN-4375786): 55 C for 2 h, 85 C for 5 min; held at 4 C. After RT, GEMs were broken and the single-strand cDNA was cleaned up with DynaBeads MyOne Silane Beads (Thermo Fisher Scientific; P/N 37002D) and SPRIselect Reagent Kit (0.6 SPRI; Beckman Coulter; P/N B23318). cDNA was amplified using the Veriti© 96-Well Thermal Cycler: 98 C for 3 min; cycled 14 : 98 C for 15 s, 67 C for 20 s, and 72 C for 1 min; 72 C for 1 min; held at 4 C. Amplified cDNA product was cleaned up with the SPRIselect Reagent Kit (0.6 SPRI). Indexed sequencing libraries were constructed using the reagents in the Chromium™ Single Cell 3’ Library Kit, following these steps: (1) fragmentation, end repair and A-tailing; (2) adapter ligation; (3) post-ligation cleanup with SPRIselect; (4) sample index PCR and cleanup. The barcode sequencing libraries were quantified by quantitative PCR (KAPA Biosystems Library Quantification Kit for Illumina platforms P/N KK4824).

text: colorectal cancer

characteristic: disease

characteristic: individual

text: Homo sapiens

text: Homo sapiens

text: colon

characteristic: organism part

text: CD4 positive

characteristic: phenotype

text: normal tissue adjacent to neoplasm

characteristic: sampling site

text: Homo sapiens

text: female

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Istituto Nazionale Genetica Molecolare Romeo ed Enrica Invernizzi, 20122 Milan, Italy. Department of Medical Biotechnology and Translational Medicine, Universita degli Studi di Milano, 20133 Milan, Italy.

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

text: T cell

text: human

text: colorectal cancer

text: Homo sapiens

text: Homo sapiens

text: colon

text: CD4 positive

text: normal tissue adjacent to neoplasm

text: Homo sapiens

text: male


text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: T cell

text: human

characteristic: common name

characteristic: description

text: non-small cell lung carcinoma

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: lung

text: CD4 positive

text: normal tissue adjacent to neoplasm

text: Homo sapiens

text: female

characteristic: title


text: public

characteristic: age

text: ArrayExpress

characteristic: broker name

text: T cell

characteristic: cell type

text: human

text: non-small cell lung carcinoma

characteristic: disease

characteristic: individual

text: Homo sapiens

text: Homo sapiens

text: lung

characteristic: organism part

text: CD4 positive

characteristic: phenotype

text: normal tissue adjacent to neoplasm

text: Homo sapiens

text: male


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

text: public

text: Zebrafish_Whole_Pancreas_4C-seq_viewpointArid1ab_replicate1

text: zebrafish

text: Adult zebrafish whole pancreas 4C-seq library with Arid1ab as viewpoint replicate 1

text: Danio rerio

text: Danio rerio

text: whole pancreas

text: Zebrafish Whole Pancreas 4C-seq Arid1ab replicate 1


characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Zebrafish_Whole_Pancreas_4C-seq_Ptf1a_replicate1

characteristic: Submitter Id

text: zebrafish

text: Adult zebrafish whole pancreas 4C-seq library with Ptf1a as viewpoint replicate1

text: Danio rerio

text: Danio rerio

text: whole pancreas

text: Zebrafish Whole Pancreas 4C-seq Ptf1a replicate1


text: homo sapiens

characteristic: ArrayExpress-SPECIES

text: SC

text: public

text: human

characteristic: common name

text: Homo sapiens

characteristic: organism

text: Homo sapiens

characteristic: subject id

characteristic: title


text: IPK-Gatersleben

text: public

characteristic: cultivar

text: Aegilops sharonensis accession 1644 library:MP3

characteristic: description

text: Aegilops sharonensis

text: Aegilops sharonensis

text: Novogene

text: leaf

characteristic: tissue

text: Aegilops sharonensis accession 1644 WGS sequences


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: IPK-Gatersleben

text: public

text: Aegilops sharonensis accession 1644 library:MP6

text: Aegilops sharonensis

text: Aegilops sharonensis

text: Novogene

text: leaf


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: IPK-Gatersleben

text: public

text: Aegilops sharonensis accession 1644 library:MP9

text: Aegilops sharonensis

text: Aegilops sharonensis

text: Roy J. Carver Biotechnology Center

text: leaf


text: IPK-Gatersleben

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Aegilops sharonensis accession 1644 library:10x

text: Aegilops sharonensis

text: Aegilops sharonensis

text: Genome Quebec

text: leaf


text: IPK-Gatersleben

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Aegilops sharonensis accession 1644 library:PE450

text: Aegilops sharonensis

text: Aegilops sharonensis

text: Novogene

text: leaf


text: IPK-Gatersleben

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Aegilops sharonensis accession 1644 library:PE800

text: Aegilops sharonensis

text: Aegilops sharonensis

text: Novogene

text: leaf


text: IPK-Gatersleben

text: public

text: Aegilops sharonensis accession 1644 library:Hi-C 1

text: Aegilops sharonensis

text: Aegilops sharonensis

text: IPK

text: leaf


text: IPK-Gatersleben

text: public

text: Aegilops sharonensis accession 1644 library:Hi-C 2

text: Aegilops sharonensis

text: Aegilops sharonensis

text: IPK

text: leaf


text: Enterococcus faecium

characteristic: ArrayExpress-SPECIES

text: SC

text: public

text: Enterococcus faecium

characteristic: common name

text: Enterococcus faecium

text: Enterococcus faecium


text: CNRS-SORBONNE UNIVERSITE

text: public

tag: Namespace:CNRS-SORBONNE UNIVERSITE

text: Colletotrichum lupini

characteristic: organism

text: Colletotrichum lupini

text: Liquid culture 24H rep1


tag: attribute

text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Liquid culture 24H rep2

characteristic: title


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Liquid culture 24H rep3


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Liquid culture 24H rep4


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 24H rep1


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 24H rep2


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 24H rep3


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 24H rep4


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 48H rep1


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 48H rep2


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 48H rep3


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 48H rep4


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 60H rep1


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 60H rep2


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 60H rep3


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 60H rep4


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 72H rep1


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 72H rep2


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 72H rep3


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 72H rep4


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 84H rep1


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 84H rep2


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 84H rep3


text: CNRS-SORBONNE UNIVERSITE

text: public

text: Colletotrichum lupini

text: Colletotrichum lupini

text: Lupin infection 84H rep4


text: Enterococcus faecium

text: SC

text: public

text: Enterococcus faecium

text: Enterococcus faecium

text: Enterococcus faecium

characteristic: subject id


text: human metagenome

text: SC

text: public

text: human metagenome

text: human metagenome

text: human metagenome


text: Escherichia coli

text: SC

text: public

text: Escherichia coli

text: Escherichia coli

text: Escherichia coli


text: Campylobacter jejuni

text: Campylobacter

text: SC

text: public

text: Campylobacter jejuni

text: Campylobacter jejuni

text: Campylobacter jejuni


Serratia sp. Tan611 MiSeq reads

text: GMGM

text: public

text: Serratia sp. Tan611 MiSeq reads

text: Serratia sp. Tan611 was isolated from a crude-oil-degrading consortium in activated sludge in Arzew oil refinery, Algeria. The genome was assembled from MiSeq 2x150bp paired-end reads and ONT long reads.

characteristic: description

text: Algeria

characteristic: geographic location (country and/or sea)

text: Arzew

characteristic: geographic location (region and locality)

text: activated sludge

characteristic: isolation source

text: Serratia sp. Tan611

text: Serratia sp. Tan611

text: Serratia sp. Tan611 MiSeq paired-end 2x150bp reads


text: male

characteristic: ArrayExpress-SEX

text: Homo sapiens

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: human

text: Male

characteristic: gender

text: Homo sapiens

text: Homo sapiens


text: female

text: Homo sapiens

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: human

text: Female

text: Homo sapiens

text: Homo sapiens


text: Homo sapiens

characteristic: ArrayExpress-SPECIES

text: SC

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: human

characteristic: common name

text: Homo sapiens

characteristic: organism

text: Homo sapiens


text: public

tag: Namespace:GFZ German Research Centre for Geosciences

characteristic: collection date

text: Cyanobacteria

text: lake sediments from lake Tiefer See NE Germany

characteristic: description

text: lake biome

characteristic: environment (biome)

text: oligo-mesotrophic lake sediment

characteristic: environment (feature)

text: Lake sediment

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Lake Tiefer See, Neu Gaarz, Mecklenburg -Vorpommern NE Germany

characteristic: geographic location (region and locality)

text: metagenome

characteristic: investigation type

text: metagenome

text: TERENO and HGF funded project-Investigating cyanobacteria sediment deposition in lake Tiefer See, NE Germany

characteristic: project name

text: metagenome

text: sediment

characteristic: sediment environmental package

text: Illumina MiSeq v3 2x300

characteristic: sequencing method

text: Cyanobacteria 16S rRNA

characteristic: target gene

text: Lake sediments

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: GFZ German Research Centre for Geosciences

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Cyanobacteria

characteristic: common name

text: lake biome

text: oligo-mesotrophic lake sediment

text: Lake sediment

text: Germany

text: metagenome

text: metagenome

characteristic: organism

text: metagenome

text: sediment

text: Illumina MiSeq v3 2x300

text: Cyanobacteria 16S rRNA

text: Lake sediments


text: public

text: Cyanobacteria

text: DNA extract of a lake water sample from lake Tiefer See NE Germany

characteristic: description

text: lake biome

characteristic: environment (biome)

text: oligo-mesotrophic lake water

characteristic: environment (feature)

text: Lake water

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: metagenome

characteristic: project name

text: metagenome

text: Illumina MiSeq v3 2x300

text: Lake water sample

text: water

characteristic: water environmental package


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Cyanobacteria

text: lake biome

text: oligo-mesotrophic lake water

text: Lake water

text: Germany

text: mimarks-survey

text: metagenome

text: metagenome

text: Illumina MiSeq v3 2x301

characteristic: sequencing method

text: Lake water sample

characteristic: title

text: water


text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Cyanobacteria

characteristic: common name

characteristic: description

text: lake biome

characteristic: environment (biome)

text: oligo-mesotrophic lake water

characteristic: environment (feature)

text: Lake water

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

text: mimarks-survey

text: metagenome

characteristic: organism

text: metagenome

text: Illumina MiSeq v3 2x302

text: Lake water sample

text: water


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Cyanobacteria

text: lake biome

text: oligo-mesotrophic lake water

text: Lake water

text: Germany

characteristic: geographic location (depth)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: metagenome

characteristic: project name

text: metagenome

text: Illumina MiSeq v3 2x303

text: Lake water sample

text: water

characteristic: water environmental package


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Cyanobacteria

characteristic: common name

text: lake biome

text: oligo-mesotrophic lake water

text: Lake water

text: Germany

text: mimarks-survey

text: metagenome

text: metagenome

text: Illumina MiSeq v3 2x304

characteristic: sequencing method

text: Lake water sample

characteristic: title

text: water


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Cyanobacteria

characteristic: description

text: lake biome

characteristic: environment (biome)

text: oligo-mesotrophic lake water

characteristic: environment (feature)

text: Lake water

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

text: mimarks-survey

text: metagenome

characteristic: organism

text: metagenome

text: Illumina MiSeq v3 2x305

text: Lake water sample

text: water


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Cyanobacteria

text: lake biome

text: oligo-mesotrophic lake water

text: Lake water

text: Germany

characteristic: geographic location (depth)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: metagenome

characteristic: project name

text: metagenome

text: Illumina MiSeq v3 2x306

text: Lake water sample

text: water

characteristic: water environmental package


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Cyanobacteria

characteristic: common name

text: lake biome

text: oligo-mesotrophic lake water

text: Lake water

text: Germany

text: mimarks-survey

text: metagenome

text: metagenome

text: Illumina MiSeq v3 2x307

characteristic: sequencing method

text: Lake water sample

characteristic: title

text: water


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Cyanobacteria

characteristic: description

text: lake biome

characteristic: environment (biome)

text: oligo-mesotrophic lake water

characteristic: environment (feature)

text: Lake water

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

text: mimarks-survey

text: metagenome

characteristic: organism

text: metagenome

text: Illumina MiSeq v3 2x308

text: Lake water sample

text: water


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Cyanobacteria

text: lake biome

text: oligo-mesotrophic lake water

text: Lake water

text: Germany

characteristic: geographic location (depth)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: metagenome

characteristic: project name

text: metagenome

text: Illumina MiSeq v3 2x309

text: Lake water sample

text: water

characteristic: water environmental package


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Cyanobacteria

characteristic: common name

text: lake biome

text: oligo-mesotrophic lake water

text: Lake water

text: Germany

text: mimarks-survey

text: metagenome

text: metagenome

text: Illumina MiSeq v3 2x310

characteristic: sequencing method

text: Lake water sample

characteristic: title

text: water


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Cyanobacteria

characteristic: description

text: lake biome

characteristic: environment (biome)

text: oligo-mesotrophic lake water

characteristic: environment (feature)

text: Lake water

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

text: mimarks-survey

text: metagenome

characteristic: organism

text: metagenome

text: Illumina MiSeq v3 2x311

text: Lake water sample

text: water


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Cyanobacteria

text: lake biome

text: oligo-mesotrophic lake water

text: Lake water

text: Germany

characteristic: geographic location (depth)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: metagenome

characteristic: project name

text: metagenome

text: Illumina MiSeq v3 2x312

text: Lake water sample

text: water

characteristic: water environmental package


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Cyanobacteria

characteristic: common name

text: lake biome

text: oligo-mesotrophic lake water

text: Lake water

text: Germany

text: mimarks-survey

text: metagenome

text: metagenome

text: Illumina MiSeq v3 2x313

characteristic: sequencing method

text: Lake water sample

characteristic: title

text: water


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Cyanobacteria

characteristic: description

text: lake biome

characteristic: environment (biome)

text: oligo-mesotrophic lake water

characteristic: environment (feature)

text: Lake water

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

text: mimarks-survey

text: metagenome

characteristic: organism

text: metagenome

text: Illumina MiSeq v3 2x314

text: Lake water sample

text: water


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Cyanobacteria

text: lake biome

text: oligo-mesotrophic lake water

text: Lake water

text: Germany

characteristic: geographic location (depth)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: metagenome

characteristic: project name

text: metagenome

text: Illumina MiSeq v3 2x315

text: Lake water sample

text: water

characteristic: water environmental package


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Cyanobacteria

characteristic: common name

text: lake biome

text: oligo-mesotrophic lake water

text: Lake water

text: Germany

text: mimarks-survey

text: metagenome

text: metagenome

text: Illumina MiSeq v3 2x316

characteristic: sequencing method

text: Lake water sample

characteristic: title

text: water


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Cyanobacteria

characteristic: description

text: lake biome

characteristic: environment (biome)

text: oligo-mesotrophic lake water

characteristic: environment (feature)

text: Lake water

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

text: mimarks-survey

text: metagenome

characteristic: organism

text: metagenome

text: Illumina MiSeq v3 2x317

text: Lake water sample

text: water


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Cyanobacteria

text: lake biome

text: oligo-mesotrophic lake water

text: Lake water

text: Germany

characteristic: geographic location (depth)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: metagenome

characteristic: project name

text: metagenome

text: Illumina MiSeq v3 2x318

text: Lake water sample

text: water

characteristic: water environmental package


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Cyanobacteria

characteristic: common name

text: lake biome

text: oligo-mesotrophic lake water

text: Lake water

text: Germany

text: mimarks-survey

text: metagenome

text: metagenome

text: Illumina MiSeq v3 2x319

characteristic: sequencing method

text: Lake water sample

characteristic: title

text: water


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Cyanobacteria

characteristic: description

text: lake biome

characteristic: environment (biome)

text: oligo-mesotrophic lake water

characteristic: environment (feature)

text: Lake water

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

text: mimarks-survey

text: metagenome

characteristic: organism

text: metagenome

text: Illumina MiSeq v3 2x320

text: Lake water sample

text: water


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: Cyanobacteria

text: lake biome

text: oligo-mesotrophic lake water

text: Lake water

text: Germany

characteristic: geographic location (depth)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: mimarks-survey

characteristic: investigation type

text: metagenome

characteristic: project name

text: metagenome

text: Illumina MiSeq v3 2x321

text: Lake water sample

text: water

characteristic: water environmental package


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Cyanobacteria

characteristic: common name

text: lake biome

text: oligo-mesotrophic lake water

text: Lake water

text: Germany

text: mimarks-survey

text: metagenome

text: metagenome

text: Illumina MiSeq v3 2x322

characteristic: sequencing method

text: Lake water sample

characteristic: title

text: water