text: The Francis Crick Institute

text: public

text: E-MTAB-106891645546026:polysome_RCC4_noVHL_EIF4E2_NA_3_Torin1_ribo0A

tag: Namespace:The Francis Crick Institute

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: human

text: Protocols: The VHL-defective kidney cancer cell lines, RCC4 and 786-O, were used. These cell lines were modified either by lentiviral transduction (to re-introduce VHL or an empty vector as control) and/or by CRISPR/Cas9-mediated genome editing of the EIF4E2 locus. Cells were grown on 15 cm dishes in DMEM with 1 mM sodium pyruvate, 10% FBS and 5 µg/mL blasticidin at 37 ˚C in 5% CO2. mTOR activity was inhibited by treating the cells with 250 nM of Torin 1 for 2 hours. mRNA translation was arrested by treating the cells with 100 µg/mL cycloheximide for 3 min prior to harvesting the cells. Cells were washed with ice-cold PBS with 100 µg/mL cycloheximide, and lysed using cytoplasmic lysis buffer. The cytoplasmic lysate was fractionated according to the number of associated ribosomes using sucrose density gradients and ultracentrifugation. RNA from the polysome fractionated samples was extracted using an RNA clean and concentrator-5 kit (Zymo Research, R1016) according to the manufacturer’s instructions, with the following modifications: 322.5 µL of preconditioned RNA binding buffer (157.5 µL of RNA binding buffer (supplied with RNA clean and concentrator-5 kit), 157.5 µL of absolute EtOH and 7.5 µL of 20% SDS) was added to 150 µL of the fractionated samples before loading to the column. 5′ end-Seq was performed on the extracted total RNA. In short, a full-length cDNA library was generated using a combined reverse transcription and template switching reaction, followed by PCR amplification. The amplified libraries were multiplexed, and then purified using ProNex beads (Promega). The 3′ end of the cDNA library (i.e. 5′ end of mRNAs) was amplified specifically using Tn5 transposase-mediated tagmentation and PCR amplification with primers annealing to the appropriate adapters added by the template switching reaction and tagmentation. The PCR primers contained i5 and i7 Illumina index sequences and the amplified libraries were multiplexed.

text: adult

characteristic: developmental stage

text: clear cell renal carcinoma

characteristic: disease

text: ribopolysome fraction 0A

characteristic: fraction

text: empty vector

characteristic: genotype

text: clone 3

characteristic: individual

text: Homo sapiens

text: Homo sapiens

text: kidney

characteristic: organism part

text: Homo sapiens


status: PUBLIC

tag: attribute

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: The Francis Crick Institute

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-106891645546026:polysome_RCC4_noVHL_EIF4E2_NA_3_Torin1_ribo0B

characteristic: Submitter Id

text: ArrayExpress

text: human

characteristic: common name

characteristic: description

text: adult

text: clear cell renal carcinoma

text: ribopolysome fraction 0B

text: empty vector

text: clone 3

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: kidney

text: Homo sapiens

characteristic: title


text: The Francis Crick Institute

text: public

text: E-MTAB-106891645546026:polysome_RCC4_VHL_EIF4E2_NA_3_Torin1_ribo0A

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: human

text: adult

characteristic: developmental stage

text: clear cell renal carcinoma

characteristic: disease

text: ribopolysome fraction 0A

characteristic: fraction

text: VHL lentivirus

characteristic: genotype

text: clone 3

text: Homo sapiens

text: Homo sapiens

text: kidney

text: Homo sapiens


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: The Francis Crick Institute

text: public

text: E-MTAB-106891645546026:polysome_RCC4_VHL_EIF4E2_NA_3_Torin1_ribo0B

text: ArrayExpress

text: human

text: adult

text: clear cell renal carcinoma

text: ribopolysome fraction 0B

text: VHL lentivirus

text: clone 3

characteristic: individual

text: Homo sapiens

text: Homo sapiens

text: kidney

characteristic: organism part

text: Homo sapiens


text: The Francis Crick Institute

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-106891645546026:polysome_RCC4_noVHL_EIF4E2_NA_4_Torin1_ribo0A

characteristic: Submitter Id

text: ArrayExpress

text: human

text: adult

text: clear cell renal carcinoma

text: ribopolysome fraction 0A

text: empty vector

text: clone 4

text: Homo sapiens

text: Homo sapiens

text: kidney

text: Homo sapiens


text: The Francis Crick Institute

text: public

text: E-MTAB-106891645546026:polysome_RCC4_noVHL_EIF4E2_NA_4_Torin1_ribo0B

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: human

characteristic: common name

characteristic: description

text: adult

text: clear cell renal carcinoma

text: ribopolysome fraction 0B

text: empty vector

text: clone 4

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: kidney

text: Homo sapiens

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: The Francis Crick Institute

text: public

text: E-MTAB-106891645546026:polysome_RCC4_VHL_EIF4E2_NA_4_Torin1_ribo0A

text: ArrayExpress

text: human

text: adult

characteristic: developmental stage

text: clear cell renal carcinoma

characteristic: disease

text: ribopolysome fraction 0A

characteristic: fraction

text: VHL lentivirus

characteristic: genotype

text: clone 4

text: Homo sapiens

text: Homo sapiens

text: kidney

text: Homo sapiens


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: The Francis Crick Institute

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-106891645546026:polysome_RCC4_VHL_EIF4E2_NA_4_Torin1_ribo0B

text: ArrayExpress

text: human

text: adult

text: clear cell renal carcinoma

text: ribopolysome fraction 0B

text: VHL lentivirus

text: clone 4

characteristic: individual

text: Homo sapiens

text: Homo sapiens

text: kidney

characteristic: organism part

text: Homo sapiens


text: The Francis Crick Institute

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-106891645546026:polysome_RCC4_noVHL_EIF4E2_NA_1_NA_ribo0A

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: human

text: adult

text: clear cell renal carcinoma

text: ribopolysome fraction 0A

text: empty vector

text: clone 1

text: Homo sapiens

text: Homo sapiens

text: kidney

text: Homo sapiens


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: The Francis Crick Institute

text: public

text: E-MTAB-106891645546026:polysome_RCC4_noVHL_EIF4E2_NA_1_NA_ribo0B

text: ArrayExpress

text: human

characteristic: common name

characteristic: description

text: adult

text: clear cell renal carcinoma

text: ribopolysome fraction 0B

text: empty vector

text: clone 1

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: kidney

text: Homo sapiens

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: The Francis Crick Institute

text: public

text: E-MTAB-106891645546026:polysome_RCC4_VHL_EIF4E2_NA_1_NA_ribo0A

text: ArrayExpress

text: human

text: adult

characteristic: developmental stage

text: clear cell renal carcinoma

characteristic: disease

text: ribopolysome fraction 0A

characteristic: fraction

text: VHL lentivirus

characteristic: genotype

text: clone 1

text: Homo sapiens

text: Homo sapiens

text: kidney

text: Homo sapiens


text: The Francis Crick Institute

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-106891645546026:polysome_RCC4_VHL_EIF4E2_NA_1_NA_ribo0B

text: ArrayExpress

text: human

text: adult

text: clear cell renal carcinoma

text: ribopolysome fraction 0B

text: VHL lentivirus

text: clone 1

characteristic: individual

text: Homo sapiens

text: Homo sapiens

text: kidney

characteristic: organism part

text: Homo sapiens


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: The Francis Crick Institute

text: public

characteristic: SRA accession

text: E-MTAB-106891645546026:polysome_RCC4_noVHL_EIF4E2_NA_3_NA_ribo0A

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: human

text: adult

text: clear cell renal carcinoma

text: ribopolysome fraction 0A

text: empty vector

text: clone 3

text: Homo sapiens

text: Homo sapiens

text: kidney

text: Homo sapiens


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: The Francis Crick Institute

text: public

text: E-MTAB-106891645546026:polysome_RCC4_noVHL_EIF4E2_NA_3_NA_ribo0B

text: ArrayExpress

text: human

characteristic: common name

characteristic: description

text: adult

text: clear cell renal carcinoma

text: ribopolysome fraction 0B

text: empty vector

text: clone 3

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: kidney

text: Homo sapiens

characteristic: title


text: The Francis Crick Institute

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-106891645546026:polysome_RCC4_VHL_EIF4E2_NA_3_NA_ribo0A

text: ArrayExpress

text: human

text: adult

characteristic: developmental stage

text: clear cell renal carcinoma

characteristic: disease

text: ribopolysome fraction 0A

characteristic: fraction

text: VHL lentivirus

characteristic: genotype

text: clone 3

text: Homo sapiens

text: Homo sapiens

text: kidney

text: Homo sapiens


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: The Francis Crick Institute

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-106891645546026:polysome_RCC4_VHL_EIF4E2_NA_3_NA_ribo0B

text: ArrayExpress

text: human

text: adult

text: clear cell renal carcinoma

text: ribopolysome fraction 0B

text: VHL lentivirus

text: clone 3

characteristic: individual

text: Homo sapiens

text: Homo sapiens

text: kidney

characteristic: organism part

text: Homo sapiens


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: The Francis Crick Institute

text: public

characteristic: SRA accession

text: E-MTAB-106891645546026:polysome_RCC4_noVHL_EIF4E2_NA_4_NA_ribo0A

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

characteristic: cell line

text: human

text: adult

text: clear cell renal carcinoma

text: ribopolysome fraction 0A

text: empty vector

text: clone 4

text: Homo sapiens

text: Homo sapiens

text: kidney

text: Homo sapiens


text: The Francis Crick Institute

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-106891645546026:polysome_RCC4_noVHL_EIF4E2_NA_4_NA_ribo0B

text: ArrayExpress

text: human

characteristic: common name

text: Protocols: The VHL-defective kidney cancer cell lines, RCC4 and 786-O, were used. These cell lines were modified either by lentiviral transduction (to re-introduce VHL or an empty vector as control) and/or by CRISPR/Cas9-mediated genome editing of the EIF4E2 locus. Cells were grown on 15 cm dishes in DMEM with 1 mM sodium pyruvate, 10% FBS and 5 µg/mL blasticidin at 37 ˚C in 5% CO2. mTOR activity was inhibited by treating the cells with 250 nM of Torin 1 for 2 hours. mRNA translation was arrested by treating the cells with 100 µg/mL cycloheximide for 3 min prior to harvesting the cells. Cells were washed with ice-cold PBS with 100 µg/mL cycloheximide, and lysed using cytoplasmic lysis buffer. The cytoplasmic lysate was fractionated according to the number of associated ribosomes using sucrose density gradients and ultracentrifugation. RNA from the polysome fractionated samples was extracted using an RNA clean and concentrator-5 kit (Zymo Research, R1016) according to the manufacturer’s instructions, with the following modifications: 322.5 µL of preconditioned RNA binding buffer (157.5 µL of RNA binding buffer (supplied with RNA clean and concentrator-5 kit), 157.5 µL of absolute EtOH and 7.5 µL of 20% SDS) was added to 150 µL of the fractionated samples before loading to the column. 5′ end-Seq was performed on the extracted total RNA. In short, a full-length cDNA library was generated using a combined reverse transcription and template switching reaction, followed by PCR amplification. The amplified libraries were multiplexed, and then purified using ProNex beads (Promega). The 3′ end of the cDNA library (i.e. 5′ end of mRNAs) was amplified specifically using Tn5 transposase-mediated tagmentation and PCR amplification with primers annealing to the appropriate adapters added by the template switching reaction and tagmentation. The PCR primers contained i5 and i7 Illumina index sequences and the amplified libraries were multiplexed.

characteristic: description

text: adult

text: clear cell renal carcinoma

text: ribopolysome fraction 0B

text: empty vector

text: clone 4

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: kidney

text: Homo sapiens

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: The Francis Crick Institute

text: public

text: E-MTAB-106891645546026:polysome_RCC4_VHL_EIF4E2_NA_4_NA_ribo0A

text: ArrayExpress

text: human

text: adult

characteristic: developmental stage

text: clear cell renal carcinoma

characteristic: disease

text: ribopolysome fraction 0A

characteristic: fraction

text: VHL lentivirus

characteristic: genotype

text: clone 4

text: Homo sapiens

text: Homo sapiens

text: kidney

text: Homo sapiens


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: The Francis Crick Institute

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-106891645546026:polysome_RCC4_VHL_EIF4E2_NA_4_NA_ribo0B

text: ArrayExpress

text: human

text: adult

text: clear cell renal carcinoma

text: ribopolysome fraction 0B

text: VHL lentivirus

text: clone 4

characteristic: individual

text: Homo sapiens

text: Homo sapiens

text: kidney

characteristic: organism part

text: Homo sapiens


E-MTAB-11480:gonad E10.5 female

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: E-MTAB-11480:gonad E10.5 female

tag: Namespace:Wellcome Sanger Institute, Cambridge, UK

characteristic: Submitter Id

unit: day

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

text: Protocols: Developing ovaries and testes were collected from E 10.5, 11.5, 12.5 and 13.5 mouse embryos carrying the Oct4ΔPE-GFP transgene. Developing gonads were dissected from the mesonephros and both organs were separately dissociated with 0.25% trypsin/EDTA into single cell suspensions as described for the humans. Males and female gonads and mesonephros were processed independently. For sectioning, tissues were fixed in 4% (w/v) formaldehyde solution for 2 hours and at 4 °C. Samples were washed with PBS and afterwards sequentially incubated with 10% and 20% (w/v) sucrose at 4°C. After, samples were embedded in an optimal cutting temperature compound (OCT) and subsequently flash frozen using a dry ice-isopentane slurry. All experimental procedures were carried out in agreement with the project licence PE596D1FE issued by the UK Home Office and carried out in a Home Office designated facility. We used the previous protocol optimised for gonadal dissociation and available at protocols.io. https://www.protocols.io/view/human-embryonic-gonad-dissociation-with-trypsin-ed-66fhhbn In short, tissues were cut into <1 mm segments before being transferred to a 15ml tube. Tissues were digested with Trypsin/EDTA 0.25% between 5-15 minutes at 37°C with intermittent shaking. Digested tissue was passed through a 100 µm filter, and cells were collected by centrifugation (500 x g for 5 minutes at 4°C). Cells were washed with flow buffer (PBS containing 5 % (v/v) FBS and 2 mM EDTA) prior to cell counting. Cells were loaded according to the manufacturer’s protocol for the Chromium Single Cell 5′ Kit v.2 (10X Genomics) to attain between 2,000 and 10,000 cells per reaction. Library preparation was carried out according to the manufacturer’s protocol.

text: embryonic day 10.5

text: normal

text: Oct4ΔPE-GFP transgene

text: Mus musculus

text: Mus musculus

text: gonad

text: Mus musculus

text: female

characteristic: sex

text: gonad E10.5 female


E-MTAB-11480:gonad E10.5 male

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Wellcome Sanger Institute, Cambridge, UK

text: public

text: E-MTAB-11480:gonad E10.5 male

text: ArrayExpress

text: house mouse

characteristic: common name

characteristic: description

text: embryonic day 10.5

characteristic: developmental stage

text: normal

text: Oct4ΔPE-GFP transgene

text: Mus musculus

characteristic: organism

text: Mus musculus

text: gonad

text: Mus musculus

text: male

text: gonad E10.5 male

characteristic: title


E-MTAB-11480:gonad E11.5 female

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-11480:gonad E11.5 female

text: ArrayExpress

text: house mouse

text: embryonic day 11.5

text: normal

characteristic: disease

text: Oct4ΔPE-GFP transgene

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: gonad

text: Mus musculus

text: female

text: gonad E11.5 female


E-MTAB-11480:gonad E11.5 male

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: E-MTAB-11480:gonad E11.5 male

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

text: embryonic day 11.5

text: normal

text: Oct4ΔPE-GFP transgene

characteristic: individual

text: Mus musculus

text: Mus musculus

text: gonad

characteristic: organism part

text: Mus musculus

text: male

text: gonad E11.5 male


E-MTAB-11480:gonad E12.5 female

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-11480:gonad E12.5 female

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

text: embryonic day 12.5

text: normal

text: Oct4ΔPE-GFP transgene

text: Mus musculus

text: Mus musculus

text: gonad

text: Mus musculus

text: female

characteristic: sex

text: gonad E12.5 female


E-MTAB-11480:gonad E12.5 male

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: E-MTAB-11480:gonad E12.5 male

text: ArrayExpress

text: house mouse

characteristic: description

text: embryonic day 12.5

characteristic: developmental stage

text: normal

text: Oct4ΔPE-GFP transgene

text: Mus musculus

characteristic: organism

text: Mus musculus

text: gonad

text: Mus musculus

text: male

text: gonad E12.5 male

characteristic: title


E-MTAB-11480:mesonephros E10.5 female

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-11480:mesonephros E10.5 female

text: ArrayExpress

text: house mouse

text: embryonic day 10.5

text: normal

characteristic: disease

text: Oct4ΔPE-GFP transgene

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: mesonephros

text: Mus musculus

text: female

text: mesonephros E10.5 female


E-MTAB-11480:mesonephros E10.5 male

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

characteristic: SRA accession

text: E-MTAB-11480:mesonephros E10.5 male

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

text: embryonic day 10.5

text: normal

text: Oct4ΔPE-GFP transgene

characteristic: individual

text: Mus musculus

text: Mus musculus

text: mesonephros

characteristic: organism part

text: Mus musculus

text: male

text: mesonephros E10.5 male


E-MTAB-11480:mesonephros E11.5 female

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: E-MTAB-11480:mesonephros E11.5 female

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

text: embryonic day 11.5

text: normal

text: Oct4ΔPE-GFP transgene

text: Mus musculus

text: Mus musculus

text: mesonephros

text: Mus musculus

text: female

characteristic: sex

text: mesonephros E11.5 female


E-MTAB-11480:mesonephros E11.5 male

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: E-MTAB-11480:mesonephros E11.5 male

text: ArrayExpress

text: house mouse

characteristic: description

text: embryonic day 11.5

characteristic: developmental stage

text: normal

text: Oct4ΔPE-GFP transgene

text: Mus musculus

characteristic: organism

text: Mus musculus

text: mesonephros

text: Mus musculus

text: male

text: mesonephros E11.5 male

characteristic: title


E-MTAB-11480:mesonephros E12.5 female

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-11480:mesonephros E12.5 female

text: ArrayExpress

text: house mouse

text: embryonic day 12.5

text: normal

characteristic: disease

text: Oct4ΔPE-GFP transgene

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: mesonephros

text: Mus musculus

text: female

text: mesonephros E12.5 female


E-MTAB-11480:mesonephros E12.5 male

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: SRA accession

text: E-MTAB-11480:mesonephros E12.5 male

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

text: embryonic day 12.5

text: normal

text: Oct4ΔPE-GFP transgene

characteristic: individual

text: Mus musculus

text: Mus musculus

text: mesonephros

characteristic: organism part

text: Mus musculus

text: male

text: mesonephros E12.5 male


characteristic: INSDC center name

characteristic: INSDC first public

text: public

tag: Namespace:Biosciences Institute, Newcastle University

text: ArrayExpress

characteristic: broker name

text: human

characteristic: common name

text: Protocols: Samples were collected by the Human Developmental Biology Resource and subsequently dissected by the Haniffa lab team. Single cells suspensions were made by mechanical digestion and live, enriched cells were selected by FACS. RNA was extracted by cell lysis during droplet encapsulation on board the 10x Chromium Controller and purified after Reverse Transcription using DynaBeads. Libraries were constructed after cDNA amplification by fragmentation and ligation of adapter sequences before a final index PCR adding sample specific barcodes and sequencing adapters.

text: late embryonic stage

text: normal

text: Carnegie stage 18

characteristic: embryo stage

text: Homo sapiens

text: Homo sapiens

text: yolk sac

text: Homo sapiens

text: male

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: Biosciences Institute, Newcastle University

text: public

text: ArrayExpress

text: human

characteristic: description

text: late embryonic stage

characteristic: developmental stage

text: normal

text: Carnegie stage 18

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: yolk sac

text: Homo sapiens

text: male

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: human

text: late embryonic stage

text: normal

characteristic: disease

text: Carnegie stage 15

text: Homo sapiens

text: Homo sapiens

text: yolk sac

text: Homo sapiens

text: male


E-MTAB-11464:Control 1a

characteristic: INSDC center name

text: public

characteristic: SRA accession

text: E-MTAB-11464:Control 1a

tag: Namespace:The Azrieli Center for Stem Cells and Genetic Research, Department of Genetics, The Alexander Silberman Institute of Life Sciences,

characteristic: Submitter Id

text: ArrayExpress

characteristic: cell line

text: embryonic stem cell

characteristic: cell type

text: human

text: Protocols: Cells were trypsinized in different time points, before and after fusion. DNA was extracted using Blood & Cell Culture DNA Midi Kit (Qiagen) PCR with Nextera overhangs

text: pooled loss-of-function CRISPR library

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Control 1a


E-MTAB-11464:Control 1b

characteristic: ENA-CHECKLIST

text: The Azrieli Center for Stem Cells and Genetic Research, Department of Genetics, The Alexander Silberman Institute of Life Sciences,

characteristic: INSDC first public

text: public

text: E-MTAB-11464:Control 1b

text: ArrayExpress

characteristic: broker name

text: embryonic stem cell

text: human

characteristic: common name

text: pooled loss-of-function CRISPR library

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Control 1b


E-MTAB-11464:Control 2a

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-11464:Control 2a

text: ArrayExpress

text: embryonic stem cell

text: human

characteristic: description

text: pooled loss-of-function CRISPR library

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens

text: Control 2a


E-MTAB-11464:Control 2b

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: E-MTAB-11464:Control 2b

text: ArrayExpress

text: embryonic stem cell

text: human

text: pooled loss-of-function CRISPR library

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Control 2b

characteristic: title


E-MTAB-11464:Passage 1a

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: E-MTAB-11464:Passage 1a

text: ArrayExpress

text: PES10+PES12 fused

text: embryonic stem cell

text: human

text: pooled loss-of-function heterozygous CRISPR library

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Passage 1a


E-MTAB-11464:Passage 1b

characteristic: INSDC center name

text: public

characteristic: SRA accession

text: E-MTAB-11464:Passage 1b

text: ArrayExpress

text: PES10+PES12 fused

text: embryonic stem cell

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Passage 1b


E-MTAB-11464:Passage 2a

text: public

text: E-MTAB-11464:Passage 2a

characteristic: Submitter Id

text: ArrayExpress

text: PES10+PES12 fused

characteristic: cell line

text: embryonic stem cell

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Passage 2a


E-MTAB-11464:Passage 2b

text: public

text: E-MTAB-11464:Passage 2b

text: ArrayExpress

text: PES10+PES12 fused

text: embryonic stem cell

characteristic: cell type

text: human

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Passage 2b


E-MTAB-11464:Passage 3a

characteristic: ENA-CHECKLIST

characteristic: INSDC first public

text: public

text: E-MTAB-11464:Passage 3a

text: ArrayExpress

text: PES10+PES12 fused

text: embryonic stem cell

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Passage 3a


E-MTAB-11464:Passage 3b

text: public

text: E-MTAB-11464:Passage 3b

text: ArrayExpress

characteristic: broker name

text: PES10+PES12 fused

text: embryonic stem cell

text: human

characteristic: common name

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Passage 3b


E-MTAB-11464:Passage 4a

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-11464:Passage 4a

text: ArrayExpress

text: PES10+PES12 fused

text: embryonic stem cell

text: human

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Passage 4a


E-MTAB-11464:Passage 4b

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-11464:Passage 4b

text: ArrayExpress

text: PES10+PES12 fused

text: embryonic stem cell

text: human

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens

text: Passage 4b


characteristic: External Id

text: public

tag: Namespace:Section of Genetics and Genomics, Department of Metabolism, Digestion and Reproduction, Imperial College London

unit: week

characteristic: age

text: ArrayExpress

text: house mouse

text: Protocols: RNA was extracted from fresh whole liver samples. RNA was prepared using RNeasy mini kit (Qiagen) including DNAse I (Qiagen) treatment. RNA-seq libraries were prepared using the Truseq Stranded mRNA Sample Prep Kit (Illumina) following manufacturer's instructions.

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: Haster +/+;Alb-Cre

text: Mus musculus

text: Mus musculus

text: liver

characteristic: organism part

text: Mus musculus

text: male

characteristic: sex

characteristic: strain

characteristic: title


text: Section of Genetics and Genomics, Department of Metabolism, Digestion and Reproduction, Imperial College London

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

text: adult

text: normal

text: Haster loxP/loxP

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: liver

text: Mus musculus

text: male


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: INSDC first public

text: public

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

text: normal

text: Haster loxP/+

text: Mus musculus

text: Mus musculus

text: liver

text: Mus musculus

text: male


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

characteristic: age

text: ArrayExpress

text: house mouse

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: Haster loxP/loxP; Alb-Cre

text: Mus musculus

characteristic: organism

text: Mus musculus

text: liver

text: Mus musculus

text: male


E-MTAB-11465:FBN1 heterozygous 1

characteristic: INSDC center name

characteristic: INSDC last update

text: public

text: E-MTAB-11465:FBN1 heterozygous 1

tag: Namespace:The Azrieli Center for Stem Cells and Genetic Research, Department of Genetics, The Alexander Silberman Institute of Life Sciences

text: ArrayExpress

text: h-PES10 and h-pES12 fused

characteristic: cell line

text: embryonic stem cell

characteristic: cell type

text: human

text: Protocols: Cells were trypsinized and kept in -80 until RNA extraction. Colonies formed out of single cells were collected and plated on mouse feeder cells in 6-well plates. RNA was extracted using NucleoSpin RNA Plus kit mRNA fraction of total RNA was enriched by pulldown of poly(A)-RNA. RNA sequencing libraries were generated using TruSeq RNA Library Prep Kit (Illumina) according to the manufacturer's protocol.

text: embryo

text: Heterozygous mutation FBN1

text: Homo sapiens

text: Homo sapiens

text: blastocyst

characteristic: organism part

text: Homo sapiens

text: female

characteristic: sex

text: FBN1 heterozygous 1

characteristic: title


E-MTAB-11465:FBN1 heterozygous 2

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: The Azrieli Center for Stem Cells and Genetic Research, Department of Genetics, The Alexander Silberman Institute of Life Sciences

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-11465:FBN1 heterozygous 2

characteristic: Submitter Id

text: ArrayExpress

text: h-PES10 and h-pES12 fused

text: embryonic stem cell

text: human

text: embryo

text: Heterozygous mutation FBN1

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: blastocyst

text: Homo sapiens

text: female

text: FBN1 heterozygous 2


E-MTAB-11465:FBN1 homozygous 1

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: E-MTAB-11465:FBN1 homozygous 1

text: ArrayExpress

characteristic: broker name

text: h-PES10 and h-pES12 fused

text: embryonic stem cell

text: human

characteristic: common name

characteristic: description

text: embryo

characteristic: developmental stage

text: Homozygous mutation FBN1

text: Homo sapiens

text: Homo sapiens

text: blastocyst

text: Homo sapiens

text: female

text: FBN1 homozygous 1


E-MTAB-11465:FBN1 homozygous 2

characteristic: INSDC center name

characteristic: INSDC last update

text: public

text: E-MTAB-11465:FBN1 homozygous 2

text: ArrayExpress

text: h-PES10 and h-pES12 fused

characteristic: cell line

text: embryonic stem cell

characteristic: cell type

text: human

text: embryo

text: Homozygous mutation FBN1

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blastocyst

text: Homo sapiens

text: female

text: FBN1 homozygous 2


E-MTAB-11465:FZD4 heterozygous 1

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-11465:FZD4 heterozygous 1

text: ArrayExpress

text: h-PES10 and h-pES12 fused

text: embryonic stem cell

text: human

text: embryo

text: Heterozygous mutation FZD4

text: Homo sapiens

text: Homo sapiens

text: blastocyst

characteristic: organism part

text: Homo sapiens

text: female

characteristic: sex

text: FZD4 heterozygous 1

characteristic: title


E-MTAB-11465:FZD4 heterozygous 2

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-11465:FZD4 heterozygous 2

characteristic: Submitter Id

text: ArrayExpress

text: h-PES10 and h-pES12 fused

text: embryonic stem cell

text: human

text: embryo

text: Heterozygous mutation FZD4

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: blastocyst

text: Homo sapiens

text: female

text: FZD4 heterozygous 2


E-MTAB-11465:FZD4 heterozygous 3

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: E-MTAB-11465:FZD4 heterozygous 3

text: ArrayExpress

characteristic: broker name

text: h-PES10 and h-pES12 fused

text: embryonic stem cell

text: human

characteristic: common name

characteristic: description

text: embryo

text: Heterozygous mutation FZD4

text: Homo sapiens

text: Homo sapiens

text: blastocyst

text: Homo sapiens

text: female

text: FZD4 heterozygous 3


E-MTAB-11465:FZD4 homozygous 1

characteristic: INSDC center name

characteristic: INSDC last update

text: public

text: E-MTAB-11465:FZD4 homozygous 1

text: ArrayExpress

text: h-PES10 and h-pES12 fused

characteristic: cell line

text: embryonic stem cell

characteristic: cell type

text: human

text: embryo

characteristic: developmental stage

text: Homozygous mutation FZD4

text: Homo sapiens

text: Homo sapiens

text: blastocyst

text: Homo sapiens

text: female

text: FZD4 homozygous 1


E-MTAB-11465:FZD4 homozygous 2

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-11465:FZD4 homozygous 2

text: ArrayExpress

text: h-PES10 and h-pES12 fused

text: embryonic stem cell

text: human

text: embryo

text: Homozygous mutation FZD4

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: blastocyst

characteristic: organism part

text: Homo sapiens

text: female

characteristic: sex

text: FZD4 homozygous 2


E-MTAB-11465:WT 1

characteristic: INSDC first public

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-11465:WT 1

characteristic: Submitter Id

text: ArrayExpress

text: h-PES10 and h-pES12 fused

text: embryonic stem cell

text: human

text: embryo

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: blastocyst

text: Homo sapiens

text: female

text: WT 1

characteristic: title


E-MTAB-11465:WT 2

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: E-MTAB-11465:WT 2

text: ArrayExpress

characteristic: broker name

text: h-PES10 and h-pES12 fused

text: embryonic stem cell

text: human

characteristic: common name

text: embryo

text: wild type genotype

characteristic: genotype

text: Homo sapiens

text: Homo sapiens

text: blastocyst

text: Homo sapiens

text: female

text: WT 2


E-MTAB-11465:WT 3

characteristic: INSDC center name

characteristic: INSDC last update

text: public

text: E-MTAB-11465:WT 3

text: ArrayExpress

text: h-PES10 and h-pES12 fused

characteristic: cell line

text: embryonic stem cell

characteristic: cell type

text: human

characteristic: description

text: embryo

text: wild type genotype

text: Homo sapiens

text: Homo sapiens

text: blastocyst

text: Homo sapiens

text: female

text: WT 3


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: FREIE UNIVERSIT*T BERLIN

text: public

tag: Namespace:FREIE UNIVERSIT*T BERLIN

characteristic: collection date

text: Fungi ITS2 sequences from soil across an agriculture recultivation chronosequence

text: temperate

characteristic: environment (biome)

text: agricultural ecosystem

characteristic: environment (feature)

text: soil

characteristic: environment (material)

text: Germany

characteristic: geographic location (country and/or sea)

unit: m

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

unit: DD

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome

characteristic: investigation type

text: root associated fungus metagenome

characteristic: organism

characteristic: project name

text: root associated fungus metagenome

text: Illumina MiSeq Paired-end

characteristic: sequencing method

text: soil

characteristic: soil environmental package

text: Illumina paired-end ITS2 sequences


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

text: Protocols: Liver tissue was collected after perfusion of ice-cold PBS. Tissue was then minced with a razor blade in ice-cold PBS. Minced liver tissue (100 mg) or 100-500 mouse islets were incubated with 1% formaldehyde (Agar Scientific) for 10 min at RT. The reaction was stopped by addition of 1:10th of 1.25 M glycine for 5 min at RT, pelleted at 4°C for 3 min at 800g and washed twice with PBS. Crosslinked samples were lysed using ice-cold Lysis Buffer (2% Triton X-100, 1% SDS, 100 mM NaCl, 10 mM Tris-HCl pH 8, 1 mM EDTA pH 8, 1x protease inhibitor cocktail) for 15-20 minutes on ice. Chromatin was sonicated using a S220 Focused-ultrasonicator (Covaris), with the following settings: 2% Duty Factor, 105W Peak Incident Power, 200 Cycles per Bust for a duration of 16 minutes. Sheared chromatin was centrifuged at full speed 10 min 4°C to remove debris and insoluble chromatin, and the supernatant was transferred to a fresh low-binding tube. For liver, chromatin equivalent to 5 µg of DNA was used for one histone mark ChIP and 10 µg for transcription factor ChIP. Chromatin was diluted 4 times with ChIP Dilution Buffer (0.75% Triton X-100, 0.1% Na-deoxycholate, 140 mM NaCl, 50 mM HEPES pH8, 1 mM EDTA, 1x protease inhibitor cocktail) and 5 % was used as input. 30 µL of Dynabeads Protein G (ThermoFisher) were blocked with BSA overnight at 4ºC. 10 µL of HNF1A antibody (Cell Signaling Technology, D7Z2Q), 2 µg of H3K27ac antibody (Abcam, ab4729) or 2 µg of H3K4me3 antibody (Merk, 15-10C-E4) were added to the samples and incubated overnight rotating at 4°C. 30 µl of magnetic beads were added to the samples and rotated at 4°C for 2h. Antibody-incubated samples were washed twice with RIPA-LS (10 mM Tris-HCl pH 8, 140 mM NaCl, 1 mM EDTA pH 8, 0.1% SDS, 0.1% sodium deoxycholate, 1% Triton X-100), twice with RIPA-HS (10 mM Tris-HCl pH 8, 500 mM NaCl, 1 mM EDTA pH 8, 0.1% SDS, 0.1% sodium deoxycholate, 1% Triton X-100), twice with RIPA-LiCl (10 mM Tris-HCl pH 8, 250 mM LiCl, 1 mM EDTA pH 8, 0.5% IGEPAL, 0.5% sodium deoxycholate) and once 10 mM Tris-HCl pH 8. Beads were resuspended in 20 µL of tagmentation solution (10 mM Tris-HCl pH 8, 5 mM MgCl2, 10% v/v dimethylformamide) containing 1 µL Tn5 (Illumina) and incubated at 37ºC for 10 min. The reaction was stopped by adding 1 mL ice-cold RIPA-LS buffer and incubated 5 min on ice. Beads were then washed twice with RIPA-LS, twice with TE, and resuspended in Elution buffer (10 mM Tris-HCl pH 8, 5 mM EDTA pH 8, 300 mM NaCl, 0.4% SDS). Proteinase K was added to the elution and incubated 1h at 55˚C, 1200 rpm, then overnight at 65˚C, 1200 rpm. DNA was purified using MinElute PCR Purification Kit (Qiagen). To estimate the number of cycles required for the amplification of the libraries, 2 µL of the elution was used for Syber Green qPCR, using Kapa HiFi polymerase (Kapa Biosystems). Libraries were amplified from 20 µL of elution with Kapa HiFi polymerase and Nextera primers, for Ct value roundup + 1 cycles. DNA clean-up was performed with 1.8x volume and size selection with 0.65x volume of AMPureXP beads (Beckman Coulter).

characteristic: description

text: adult

characteristic: developmental stage

text: Haster +/+;Alb-Cre

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: liver

characteristic: organism part

text: Mus musculus

text: male

characteristic: sex

characteristic: strain

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: public

text: ArrayExpress

text: house mouse

text: adult

text: Haster loxP/loxP

text: Mus musculus

characteristic: organism

text: Mus musculus

text: liver

text: Mus musculus

text: male


characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: ArrayExpress

text: house mouse

text: adult

text: Haster loxP/loxP; Alb-Cre

text: Mus musculus

text: Mus musculus

text: liver

text: Mus musculus

text: male


text: public

tag: Namespace:The Hong Kong University of Science and Technology

characteristic: Submitter Id

text: Multiple fragments where gaps span repetitive regions. Presence of the 23S, 16S, and 5S rRNA genes and at least 18 tRNAs

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: maxbin

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

characteristic: completeness software

characteristic: contamination score

text: MAG recovered from fecal sample of mouse S collected on the first two days after weaning

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Lactobacillus sp.

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Lactobacillus sp.

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: The Hong Kong University of Science and Technology

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: metabat

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Muribaculaceae bacterium

text: multi-marker

text: MAG recovered from fecal sample of mouse S

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: concoct

text: checkm

characteristic: completeness software

characteristic: contamination score

text: MAG recovered from fecal sample of mouse S collected on the 9th and 10th day after weaning

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Clostridia bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Clostridia bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: maxbin

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: MAG recovered from fecal sample of mouse My collected on the 9th and 10th day after weaning

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Bacteroidales bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Bacteroidales bacterium

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: concoct

text: checkm

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Lachnospiraceae bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Lachnospiraceae bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: maxbin

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: MAG recovered from fecal sample of mouse J collected on the 9th and 10th day after weaning

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Burkholderiales bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Burkholderiales bacterium

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: metabat

text: checkm

characteristic: completeness software

characteristic: contamination score

text: MAG recovered from fecal sample of mouse V collected on the 9th and 10th day after weaning

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Clostridia bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Clostridia bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: concoct

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Rikenellaceae bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Rikenellaceae bacterium

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: concoct

text: checkm

characteristic: completeness software

characteristic: contamination score

text: MAG recovered from fecal sample of mouse E collected on the 9th and 10th day after weaning

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Muribaculaceae bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: metabat

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Clostridia bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Clostridia bacterium

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: metabat

text: checkm

characteristic: completeness software

characteristic: contamination score

text: MAG recovered from fecal sample of mouse N collected on the 9th and 10th day after weaning

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured proteobacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured proteobacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: concoct

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Bacteroidetes bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Bacteroidetes bacterium

text: multi-marker

text: MAG recovered from fecal sample of mouse E

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: concoct

text: checkm

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Muribaculaceae bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: metabat

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Rikenellaceae bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Rikenellaceae bacterium

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: metabat

text: checkm

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Clostridia bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Clostridia bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: concoct

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Bacteroidetes bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Bacteroidetes bacterium

text: multi-marker

text: MAG recovered from fecal sample of mouse J

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: concoct

text: checkm

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Bacteroides sp.

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Bacteroides sp.

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: metabat

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Clostridia bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Clostridia bacterium

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: concoct

text: checkm

characteristic: completeness software

characteristic: contamination score

text: MAG recovered from fecal sample of mouse Ms collected on the 9th and 10th day after weaning

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Alphaproteobacteria bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: metabat

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: MAG recovered from fecal sample of mouse V collected on the first two days after weaning

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Muribaculum sp.

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Muribaculum sp.

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: concoct

text: checkm

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker

text: MAG recovered from fecal sample of mouse Ms


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: maxbin

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: MAG recovered from fecal sample of mouse U collected on the first two days after weaning

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Lachnospiraceae bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Lachnospiraceae bacterium

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Multiple fragments where gaps span repetitive regions. Presence of the 23S, 16S, and 5S rRNA genes and at least 18 tRNAs

text: MEGAHIT

text: default settings

text: concoct

text: checkm

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Bacteroidetes bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Bacteroidetes bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: metabat

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Desulfovibrionaceae bacterium

characteristic: organism

text: Mouse gut metagenomes

text: multi-marker

text: MAG recovered from fecal sample of mouse V

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: The Hong Kong University of Science and Technology

text: public

text: MEGAHIT

text: default settings

text: metabat

text: checkm

characteristic: completeness software

characteristic: contamination score

text: MAG recovered from fecal sample of mouse J collected on the first two days after weaning

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: metabat

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: MAG recovered from fecal sample of mouse Ms collected on the first two days after weaning

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured bacterium

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Many fragments with little to no review of assembly other than reporting of standard assembly statistics

text: MEGAHIT

text: default settings

text: metabat

text: checkm

characteristic: completeness software

characteristic: contamination score

text: MAG recovered from fecal sample of mouse S collected on the 9th and 10th day after weaning

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Clostridia bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Clostridia bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: metabat

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Akkermansia sp.

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Akkermansia sp.

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: concoct

text: checkm

characteristic: completeness software

characteristic: contamination score

text: MAG recovered from fecal sample of mouse V collected on the 9th and 10th day after weaning

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Muribaculaceae bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: metabat

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: MAG recovered from fecal sample of mouse S collected on the first two days after weaning

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Lachnospiraceae bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Lachnospiraceae bacterium

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: concoct

text: checkm

characteristic: completeness software

characteristic: contamination score

text: MAG recovered from fecal sample of mouse E collected on the first two days after weaning

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Muribaculaceae bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: maxbin

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Duncaniella sp.

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Duncaniella sp.

text: multi-marker

text: MAG recovered from fecal sample of mouse S

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: concoct

text: checkm

characteristic: completeness software

characteristic: contamination score

text: MAG recovered from fecal sample of mouse E collected on the 9th and 10th day after weaning

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Muribaculaceae bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: metabat

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Lachnoclostridium sp.

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Lachnoclostridium sp.

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: maxbin

text: checkm

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Clostridia bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Clostridia bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: concoct

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Bacteroidales bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Bacteroidales bacterium

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: concoct

text: checkm

characteristic: completeness software

characteristic: contamination score

text: MAG recovered from fecal sample of mouse N collected on the 9th and 10th day after weaning

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Bacteroidaceae bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Bacteroidaceae bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: metabat

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Lachnospiraceae bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Lachnospiraceae bacterium

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: concoct

text: checkm

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Lachnospiraceae bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Lachnospiraceae bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker

text: MAG recovered from fecal sample of mouse E


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: maxbin

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Bacteroides sp.

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Bacteroides sp.

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: metabat

text: checkm

characteristic: completeness software

characteristic: contamination score

text: MAG recovered from fecal sample of mouse J collected on the 9th and 10th day after weaning

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Blautia sp.

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Blautia sp.

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: concoct

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Clostridia bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Clostridia bacterium

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: metabat

text: checkm

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Clostridioides sp.

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Clostridioides sp.

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker

text: MAG recovered from fecal sample of mouse J


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

characteristic: SRA accession

characteristic: Submitter Id

text: Multiple fragments where gaps span repetitive regions. Presence of the 23S, 16S, and 5S rRNA genes and at least 18 tRNAs

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: concoct

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: MAG recovered from fecal sample of mouse My collected on the 9th and 10th day after weaning

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Muribaculaceae bacterium

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: concoct

text: checkm

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Muribaculum sp.

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Muribaculum sp.

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: concoct

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Muribaculaceae bacterium

text: multi-marker

text: MAG recovered from fecal sample of mouse V

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: The Hong Kong University of Science and Technology

text: public

text: MEGAHIT

text: default settings

text: maxbin

text: checkm

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Lachnospiraceae bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Lachnospiraceae bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: maxbin

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: MAG recovered from fecal sample of mouse U collected on the 9th and 10th day after weaning

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Muribaculaceae bacterium

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: concoct

text: checkm

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Bacteroidetes bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Bacteroidetes bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker

text: MAG recovered from fecal sample of mouse U


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: concoct

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Muribaculaceae bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Muribaculaceae bacterium

text: multi-marker

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: Many fragments with little to no review of assembly other than reporting of standard assembly statistics

text: MEGAHIT

text: default settings

text: metabat

text: checkm

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: uncultured Muribaculaceae bacterium

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: uncultured Muribaculaceae bacterium

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: metabat

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Rikenellaceae bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Rikenellaceae bacterium

text: multi-marker

text: MAG recovered from fecal sample of mouse My

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: MEGAHIT

text: default settings

text: maxbin

text: checkm

characteristic: completeness software

characteristic: contamination score

characteristic: description

text: microbiota

characteristic: environment (biome)

text: mouse gut

characteristic: environment (feature)

text: fecal

characteristic: environment (material)

text: China

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: metagenome-assembled genome

characteristic: investigation type

text: feces

characteristic: isolation source

text: mouse gut metagenome

characteristic: metagenomic source

text: Bacteroides vulgatus CAG:6

text: Mouse gut metagenomes

characteristic: project name

characteristic: sample derived from

text: Bacteroides vulgatus CAG:6

characteristic: sequencing method

text: multi-marker

characteristic: taxonomic identity marker


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

characteristic: SRA accession

characteristic: Submitter Id

characteristic: assembly quality

text: MEGAHIT

characteristic: assembly software

text: default settings

characteristic: binning parameters

text: concoct

characteristic: binning software

characteristic: collection date

characteristic: completeness score

text: checkm

text: microbiota

text: mouse gut

text: fecal

text: China

text: metagenome-assembled genome

text: feces

text: mouse gut metagenome

text: uncultured Helicobacteraceae bacterium

characteristic: organism

text: Mouse gut metagenomes

text: uncultured Helicobacteraceae bacterium

text: multi-marker

characteristic: title