characteristic: ENA-CHECKLIST

text: UCSDMI

characteristic: INSDC first public

text: public

text: Human saliva

text: TRUE

text: Host-associated

text: Animal

text: Animal secretion

text: urban biome

text: human-associated habitat

text: saliva

text: human-oral

text: Israel:Petah-Tikva

text: Homo sapiens

text: years

text: UBERON:saliva

text: not collected

text: UBERON:saliva

text: UBERON:saliva

text: human

text: Mother

text: human gut metagenome

text: Bar-Ilan University

text: FALSE

text: saliva

text: human gut metagenome

text: female

text: Control


status: PUBLIC

tag: attribute

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: Human saliva

characteristic: description

text: TRUE

characteristic: elevation

text: Host-associated

text: Animal

text: Animal secretion

text: urban biome

text: human-associated habitat

text: saliva

text: human-oral

text: Israel:Petah-Tikva

text: Homo sapiens

characteristic: host scientific name

text: years

text: UBERON:saliva

text: UBERON:saliva

text: UBERON:saliva

text: human

characteristic: latitude

characteristic: longitude

text: Mother

text: human gut metagenome

characteristic: organism

text: Bar-Ilan University

text: FALSE

text: saliva

text: human gut metagenome

text: female

characteristic: sex

text: Control

characteristic: title


characteristic: ENA-CHECKLIST

text: UCSDMI

characteristic: INSDC first public

text: public

text: Human stool

text: TRUE

text: Host-associated

text: Animal

text: Animal distal gut

text: urban biome

text: human-associated habitat

text: feces

text: human-gut

text: Israel:Petah-Tikva

text: Homo sapiens

text: years

text: UBERON:feces

text: UBERON:feces

text: UBERON:feces

text: human

text: Mother

text: human gut metagenome

text: Bar-Ilan University

text: FALSE

text: feces

text: human gut metagenome

text: female

text: GDM


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: UCSDMI

text: public

text: Human saliva

text: TRUE

text: Host-associated

text: Animal

text: Animal secretion

text: urban biome

text: human-associated habitat

text: saliva

text: human-oral

text: Israel:Petah-Tikva

text: Homo sapiens

text: years

text: UBERON:saliva

text: UBERON:saliva

text: UBERON:saliva

text: human

text: Mother

text: human gut metagenome

text: Bar-Ilan University

text: FALSE

text: saliva

text: human gut metagenome

text: female

text: GDM


characteristic: External Id

text: UCSDMI

characteristic: INSDC center name

text: public

text: newborn meconium

text: TRUE

text: Host-associated

text: Animal

text: Animal distal gut

text: urban biome

text: human-associated habitat

text: feces

text: human-gut

text: Israel:Petah-Tikva

text: Homo sapiens

text: not collected

text: not collected

text: UBERON:meconium

text: not applicable

text: UBERON:meconium

text: UBERON:meconium

text: human

text: Newborn

text: human gut metagenome

text: Bar-Ilan University

text: FALSE

text: meconium

text: human gut metagenome

text: not collected

text: GDM


text: UCSDMI

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Human stool

text: TRUE

text: Host-associated

text: Animal

text: Animal distal gut

text: urban biome

text: human-associated habitat

text: feces

text: human-gut

text: Israel:Petah-Tikva

text: Homo sapiens

text: years

text: UBERON:feces

text: not collected

text: UBERON:feces

text: UBERON:feces

text: human

text: Mother

text: human gut metagenome

text: Bar-Ilan University

text: FALSE

text: feces

text: human gut metagenome

text: female

text: GDM


text: UCSDMI

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Human stool

text: TRUE

text: Host-associated

text: Animal

text: Animal distal gut

text: urban biome

text: human-associated habitat

text: feces

text: human-gut

text: Israel:Petah-Tikva

text: Homo sapiens

text: years

text: UBERON:feces

text: UBERON:feces

text: UBERON:feces

text: human

text: Mother

text: human gut metagenome

text: Bar-Ilan University

text: FALSE

text: feces

text: human gut metagenome

text: female

text: Control


text: UCSDMI

text: public

text: newborn meconium

characteristic: description

text: TRUE

characteristic: elevation

text: Host-associated

text: Animal

text: Animal distal gut

text: urban biome

text: human-associated habitat

text: feces

text: human-gut

text: Israel:Petah-Tikva

text: Homo sapiens

text: not collected

text: not collected

text: UBERON:meconium

text: not applicable

text: UBERON:meconium

text: UBERON:meconium

text: human

text: Newborn

text: human gut metagenome

text: Bar-Ilan University

text: FALSE

text: meconium

text: human gut metagenome

text: not collected

text: Control


text: UCSDMI

text: public

text: Human stool

text: TRUE

text: Host-associated

text: Animal

text: Animal distal gut

text: urban biome

text: human-associated habitat

text: feces

text: human-gut

text: Israel:Petah-Tikva

text: Homo sapiens

characteristic: host scientific name

text: years

text: UBERON:feces

text: not collected

text: UBERON:feces

text: UBERON:feces

text: human

characteristic: latitude

text: Mother

text: human gut metagenome

text: Bar-Ilan University

text: FALSE

text: feces

text: human gut metagenome

text: female

text: Control


text: UCSDMI

text: public

text: mouse stool

text: TRUE

text: Host-associated

text: Animal

text: Animal distal gut

text: urban biome

text: animal-associated habitat

text: feces

text: host-associated

text: Israel:Petah-Tikva

text: Mus musculus

text: weeks

text: UBERON:feces

text: not applicable

text: UBERON:feces

text: UBERON:feces

text: mouse

characteristic: longitude

text: Mother

text: mouse gut metagenome

characteristic: organism

text: Bar-Ilan University

text: FALSE

text: feces

text: mouse gut metagenome

text: female

text: GDM


text: UCSDMI

text: public

text: mouse stool

text: TRUE

text: Host-associated

text: Animal

text: Animal distal gut

text: urban biome

text: animal-associated habitat

text: feces

text: host-associated

text: Israel:Petah-Tikva

text: Mus musculus

text: weeks

text: UBERON:feces

text: not applicable

text: UBERON:feces

text: UBERON:feces

text: mouse

text: Mother

text: mouse gut metagenome

text: Bar-Ilan University

text: FALSE

text: feces

text: mouse gut metagenome

text: female

characteristic: sex

text: Control

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: INSDC first public

text: public

tag: Namespace:Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden

text: ArrayExpress

characteristic: broker name

text: fibroblast

text: human

characteristic: common name

text: Protocols: Cells were collected using Trypsin‐EDTA (0.025%, Thermo Fisher Scientific). AF22 Neuroepithelial Stem cells (NES) were cultured as adherent cells on cell culture flasks previously coated with 20 μg/ml polyornithine (Sigma) for 1 hour and 1 μg/ml Laminin2020 for 4 hours (Sigma). Cells were cultured on NES culture medium contained DMEM/F12+GlutaMax (Gibco), supplemented with 10 μl/ml N‐2‐supplement (100×, Thermo Fisher Scientific), 10 μl/ ml Penicillin‐Streptomycin (10,000 U/ml, Thermo Fisher Scientific), 1 μl/ml B27‐supplement (50×, Thermo Fisher Scientific), 10 ng/ml of bFGF (Life Technologies) and 10 ng/ ml of FGF (PeproTech). The culture medium was replaced every second day. The NES cells were passaged enzymatically when reaching 100% confluency using Trypsin‐EDTA (0.025%, Thermo Fisher Scientific). NES cells were seeded at a density of 40,000 cells/cm2. Nes cells were seeded at the density of 18750 cell/cm2 and let inside the cell culture incubator to attach for 6 hours. Cells were stimulated with different Jag1Fc nanopatterns for 3 hours. RNA extraction was performed by using RNeasy Micro Kit (Qiagen). Libraries were prepared with TruSeq stranded mRNA (Illumina 20020595) according to manufactures instructions.

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: dermis

characteristic: organism part

characteristic: replicate

text: Homo sapiens

text: female


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: fibroblast

text: human

characteristic: description

text: adult

text: normal

text: wild type genotype

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: dermis

text: Homo sapiens

text: female


characteristic: ENA-CHECKLIST

characteristic: INSDC first public

text: public

tag: Namespace:Institute of Physiological Chemistry, University of Ulm

unit: month

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

text: Protocols: Cryopreserved tissue was sectioned and placed in poly-L-lysine-coated membrane slides and air-dried for 5 minutes. Then, slides were incubated serially in 70% ethanol for 3 minutes, distilled water for 30 seconds, hemalum (Merck #109249, diluted 1:3 in distilled water) for one minute, distilled water for 30 seconds, 70% ethanol for 30 seconds, 90% ethanol for 30 seconds, 100% ethanol for 30 seconds and air-dried. Lesions were then excised and captured using the PALM Microbeam Rel. 4.9 with RoboMover microscope (Zeiss) and the PALMRobo v 4.9 software. Ethanol dilutions for the LCM preparation were stored at -20oC. RNAse-free water for the LCM preparation was stored at 4oC. RNA from isolated lesions was extracted with RNeasy Micro Kit (QIAGEN #74004) according to its standard protocol. RNAse-free water was used in all steps (including dilution of ethanol) to avoid RNA degradation. The first step in the workflow involves purifying the poly-A containing mRNA molecules using poly-T oligoattached magnetic beads. Following purification, the mRNA is fragmented into small pieces using divalent cations under elevated temperature. The cleaved RNA fragments are copied into first strand cDNA using reverse transcriptase and random primers. This is followed by second strand cDNA synthesis using DNA Polymerase I and RNase H. These cDNA fragments then have the addition of a single 'A' base and subsequent ligation of the adapter. The products are then purified and enriched with PCR amplification. We then quantified the PCR yield by Qubit and pooled samples together to make a single strand DNA circle (ssDNA circle), which gave the final library.

text: adult

text: intraepithelial neoplasia

characteristic: individual

text: not applicable

text: Mus musculus

characteristic: organism

text: Mus musculus

text: pancreas

text: precancerous lesion

characteristic: sampling site

text: Mus musculus

text: male

characteristic: sex

characteristic: strain

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Institute of Physiological Chemistry, University of Ulm

text: public

text: ArrayExpress

text: house mouse

characteristic: common name

text: adult

characteristic: developmental stage

text: intraepithelial neoplasia

characteristic: disease

characteristic: genotype

text: not applicable

characteristic: isolate

text: Mus musculus

text: Mus musculus

text: pancreas

characteristic: organism part

text: precancerous lesion

text: Mus musculus

text: female


characteristic: ENA-CHECKLIST

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

text: house mouse

characteristic: description

text: adult

text: intraepithelial neoplasia

text: not applicable

text: Mus musculus

text: Mus musculus

text: pancreas

text: precancerous lesion

text: Mus musculus

text: male


E-MTAB-12445:Sample 19

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-12445:Sample 19

tag: Namespace:Affiliated Hospital of Zunyi Medical University

unit: year

text: ArrayExpress

characteristic: broker name

text: human

text: Protocols: Patients and tissue collection. for HC, presence of a normal liver (no steatosis or cirrhosis) on ultrasound evidence; for NAFLD was based on ultrasound evidence of fatty liver in the absence of other (viral, alcohol, metabolic) causes. Liver tissue was collected by a wedge liver biopsy from free edge of the liver lobe during laparoscopic cholecystectomy. The study protocol received institutional review board (IRB) approval before the beginning of the study, in accordance with The Code of Ethics of the Declaration of Helsinki, and informed consent was obtained from all patients. tissue samples were immediately stored in RNA-later for 24 hours at 4℃, and subsequently at -80℃. RNA isolation and quality controls. Approximately 10-20 mg of liver tissues were homogenized in 1 mL Trizol (Thermo Fisher Scientific, shanghai, China) on ice, incubated for 5 min, then added 200 μL chloroform. After low-temperature centrifugation, 500 μL isopropanol was used to precipitate RNA. The precipitate was washed with 75% ethanol (DEPC water configuration), and then dissolved in 30 μL DEPC water (shanghai Generay Biotech Co., Ltd, shanghai, China) after evaporating all ethanol. The RNA concentration, purity and integrity were measured by Agilent 2100 Bioanalyzer (Agilent Technologies Inc., Beijing, China). RNA concentration, purity and RNA integrity number (RIN) were measured using an Agilent 2100 Bioanalyzer before sequencing. 2 μg of RNA meeting the requirements of RIN ≥ 7 and 28S/18S ≥ 1.0 were taken for library construction.

text: adult

text: normal

characteristic: individual

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: liver

text: Homo sapiens

text: female

characteristic: sex

text: Sample 19

characteristic: title


E-MTAB-12445:Sample 28

characteristic: External Id

text: Affiliated Hospital of Zunyi Medical University

text: public

text: E-MTAB-12445:Sample 28

text: ArrayExpress

text: human

characteristic: common name

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: liver

characteristic: organism part

text: Homo sapiens

text: female

text: Sample 28


E-MTAB-12445:Sample 29

characteristic: ENA-CHECKLIST

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12445:Sample 29

text: ArrayExpress

text: human

text: adult

text: normal

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: female

text: Sample 29


E-MTAB-12445:Sample 30

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-12445:Sample 30

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: human

characteristic: description

text: adult

text: normal

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: male

text: Sample 30


E-MTAB-12445:Sample 31

characteristic: External Id

text: public

text: E-MTAB-12445:Sample 31

text: ArrayExpress

text: human

characteristic: common name

text: adult

text: normal

characteristic: individual

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: liver

text: Homo sapiens

text: female

characteristic: sex

text: Sample 31

characteristic: title


E-MTAB-12445:Sample 32

characteristic: ENA-CHECKLIST

characteristic: INSDC center name

text: public

text: E-MTAB-12445:Sample 32

text: ArrayExpress

text: human

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: liver

characteristic: organism part

text: Homo sapiens

text: female

text: Sample 32


E-MTAB-12445:Sample 33

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12445:Sample 33

text: ArrayExpress

text: human

text: adult

text: normal

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: male

text: Sample 33


E-MTAB-12445:Sample 34

characteristic: External Id

text: public

text: E-MTAB-12445:Sample 34

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: human

characteristic: common name

characteristic: description

text: adult

text: normal

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: female

text: Sample 34


E-MTAB-12445:Sample 35

characteristic: ENA-CHECKLIST

characteristic: INSDC center name

text: public

text: E-MTAB-12445:Sample 35

text: ArrayExpress

text: human

text: adult

text: normal

characteristic: individual

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: liver

text: Homo sapiens

text: female

characteristic: sex

text: Sample 35

characteristic: title


E-MTAB-12445:Sample 20

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-12445:Sample 20

text: ArrayExpress

text: human

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: liver

characteristic: organism part

text: Homo sapiens

text: female

text: Sample 20


E-MTAB-12445:Sample 21

characteristic: External Id

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12445:Sample 21

characteristic: Submitter Id

text: ArrayExpress

text: human

text: adult

text: normal

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: male

text: Sample 21


E-MTAB-12445:Sample 22

characteristic: ENA-CHECKLIST

characteristic: INSDC center name

text: public

text: E-MTAB-12445:Sample 22

characteristic: age

text: ArrayExpress

characteristic: broker name

text: human

characteristic: common name

characteristic: description

text: adult

text: normal

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: female

text: Sample 22


E-MTAB-12445:Sample 23

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-12445:Sample 23

text: ArrayExpress

text: human

text: adult

text: normal

characteristic: individual

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: liver

text: Homo sapiens

text: male

characteristic: sex

text: Sample 23

characteristic: title


E-MTAB-12445:Sample 24

characteristic: External Id

characteristic: INSDC first public

text: public

text: E-MTAB-12445:Sample 24

text: ArrayExpress

text: human

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: liver

characteristic: organism part

text: Homo sapiens

text: male

text: Sample 24


E-MTAB-12445:Sample 25

characteristic: ENA-CHECKLIST

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12445:Sample 25

characteristic: Submitter Id

text: ArrayExpress

text: human

text: adult

text: normal

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: female

text: Sample 25


E-MTAB-12445:Sample 26

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-12445:Sample 26

characteristic: age

text: ArrayExpress

characteristic: broker name

text: human

characteristic: common name

characteristic: description

text: adult

text: normal

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: female

text: Sample 26


E-MTAB-12445:Sample 27

characteristic: External Id

characteristic: INSDC first public

text: public

text: E-MTAB-12445:Sample 27

text: ArrayExpress

text: human

text: adult

text: normal

characteristic: individual

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: liver

text: Homo sapiens

text: male

characteristic: sex

text: Sample 27

characteristic: title


E-MTAB-12445:Sample 1

characteristic: ENA-CHECKLIST

characteristic: INSDC center name

text: public

text: E-MTAB-12445:Sample 1

text: ArrayExpress

text: human

text: adult

characteristic: developmental stage

text: nonalcoholic fatty liver disease

characteristic: disease

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: liver

characteristic: organism part

text: Homo sapiens

text: male

text: Sample 1


E-MTAB-12445:Sample 10

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12445:Sample 10

characteristic: Submitter Id

text: ArrayExpress

text: human

text: adult

text: nonalcoholic fatty liver disease

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: male

text: Sample 10


E-MTAB-12445:Sample 11

characteristic: External Id

characteristic: INSDC first public

text: public

text: E-MTAB-12445:Sample 11

characteristic: age

text: ArrayExpress

characteristic: broker name

text: human

characteristic: common name

characteristic: description

text: adult

text: nonalcoholic fatty liver disease

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: male

text: Sample 11


E-MTAB-12445:Sample 12

characteristic: ENA-CHECKLIST

characteristic: INSDC center name

text: public

text: E-MTAB-12445:Sample 12

text: ArrayExpress

text: human

text: adult

text: nonalcoholic fatty liver disease

characteristic: individual

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: liver

text: Homo sapiens

text: female

characteristic: sex

text: Sample 12

characteristic: title


E-MTAB-12445:Sample 13

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-12445:Sample 13

text: ArrayExpress

text: human

text: adult

characteristic: developmental stage

text: nonalcoholic fatty liver disease

characteristic: disease

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: liver

characteristic: organism part

text: Homo sapiens

text: female

text: Sample 13


E-MTAB-12445:Sample 14

characteristic: External Id

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12445:Sample 14

characteristic: Submitter Id

text: ArrayExpress

text: human

text: adult

text: nonalcoholic fatty liver disease

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: female

text: Sample 14


E-MTAB-12445:Sample 15

characteristic: ENA-CHECKLIST

characteristic: INSDC center name

text: public

text: E-MTAB-12445:Sample 15

characteristic: age

text: ArrayExpress

characteristic: broker name

text: human

characteristic: common name

characteristic: description

text: adult

text: nonalcoholic fatty liver disease

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: female

text: Sample 15


E-MTAB-12445:Sample 16

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-12445:Sample 16

text: ArrayExpress

text: human

text: adult

text: nonalcoholic fatty liver disease

characteristic: individual

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: liver

text: Homo sapiens

text: male

characteristic: sex

text: Sample 16

characteristic: title


E-MTAB-12445:Sample 17

characteristic: External Id

characteristic: INSDC first public

text: public

text: E-MTAB-12445:Sample 17

text: ArrayExpress

text: human

text: adult

characteristic: developmental stage

text: nonalcoholic fatty liver disease

characteristic: disease

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: liver

characteristic: organism part

text: Homo sapiens

text: male

text: Sample 17


E-MTAB-12445:Sample 18

characteristic: ENA-CHECKLIST

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12445:Sample 18

characteristic: Submitter Id

text: ArrayExpress

text: human

text: adult

text: nonalcoholic fatty liver disease

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: male

text: Sample 18


E-MTAB-12445:Sample 2

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-12445:Sample 2

characteristic: age

text: ArrayExpress

characteristic: broker name

text: human

characteristic: common name

characteristic: description

text: adult

text: nonalcoholic fatty liver disease

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: female

text: Sample 2


E-MTAB-12445:Sample 3

characteristic: External Id

characteristic: INSDC first public

text: public

text: E-MTAB-12445:Sample 3

text: ArrayExpress

text: human

text: adult

text: nonalcoholic fatty liver disease

characteristic: individual

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: liver

text: Homo sapiens

text: male

characteristic: sex

text: Sample 3

characteristic: title


E-MTAB-12445:Sample 4

characteristic: ENA-CHECKLIST

characteristic: INSDC center name

text: public

text: E-MTAB-12445:Sample 4

text: ArrayExpress

text: human

text: adult

characteristic: developmental stage

text: nonalcoholic fatty liver disease

characteristic: disease

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: liver

characteristic: organism part

text: Homo sapiens

text: female

text: Sample 4


E-MTAB-12445:Sample 5

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12445:Sample 5

characteristic: Submitter Id

text: ArrayExpress

text: human

text: adult

text: nonalcoholic fatty liver disease

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: female

text: Sample 5


E-MTAB-12445:Sample 6

characteristic: External Id

characteristic: INSDC first public

text: public

text: E-MTAB-12445:Sample 6

characteristic: age

text: ArrayExpress

characteristic: broker name

text: human

characteristic: common name

characteristic: description

text: adult

text: nonalcoholic fatty liver disease

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: female

text: Sample 6


E-MTAB-12445:Sample 7

characteristic: ENA-CHECKLIST

characteristic: INSDC center name

text: public

text: E-MTAB-12445:Sample 7

text: ArrayExpress

text: human

text: adult

text: nonalcoholic fatty liver disease

characteristic: individual

text: not applicable

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: liver

text: Homo sapiens

text: female

characteristic: sex

text: Sample 7

characteristic: title


E-MTAB-12445:Sample 8

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-12445:Sample 8

text: ArrayExpress

text: human

text: adult

characteristic: developmental stage

text: nonalcoholic fatty liver disease

characteristic: disease

text: not applicable

characteristic: isolate

text: Homo sapiens

text: Homo sapiens

text: liver

characteristic: organism part

text: Homo sapiens

text: female

text: Sample 8


E-MTAB-12445:Sample 9

characteristic: External Id

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12445:Sample 9

characteristic: Submitter Id

text: ArrayExpress

text: human

text: adult

text: nonalcoholic fatty liver disease

text: not applicable

text: Homo sapiens

text: Homo sapiens

text: liver

text: Homo sapiens

text: female

text: Sample 9


E-MTAB-12440:Sample 7

characteristic: ENA-CHECKLIST

text: UCL Institute of Healthy Ageing

characteristic: INSDC center name

text: public

text: E-MTAB-12440:Sample 7

tag: Namespace:UCL Institute of Healthy Ageing

unit: day

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: Protocols: Fly dissection on ice for less than 1.5 hr. Collect the brains in PBS. Centrifuge the brains at 2000 rpm at 4 degree C for 5 minutes. Substitute the supernatant PBS with 50 uL dispase (3mg/ml) and 75 ul collagenase (100mg/ml). Incubate the brains with the enzymes at 25 degree C in a 500 rpm shaker for 5 minutes. Pipetting the enzymes solution containing the brains for another 10 minutes to fully dissociate brains. Centrifuge the dissociated cells at 4 degree C 2000 rpm for 5 minutes and wash the cells with 200 ul 0.04% BSA in PBS. Pre-wet the 10 um cell strainer. Pass the cell suspension through the strainer and collect the filtered cell suspension, and the sample is ready for viability check. 10X chromium 3' 10X chromium 3'

characteristic: description

text: adult

text: UAS36R; elavGS

characteristic: genotype

text: not applicable

text: Drosophila melanogaster

text: Drosophila melanogaster

text: brain

text: Drosophila melanogaster

text: female

characteristic: strain

text: Sample 7


E-MTAB-12440:Sample 1

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: UCL Institute of Healthy Ageing

text: public

text: E-MTAB-12440:Sample 1

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: UAS36R; elavGS

characteristic: individual

text: not applicable

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: brain

text: Drosophila melanogaster

text: female

characteristic: sex

text: Sample 1

characteristic: title


E-MTAB-12440:Sample 2

characteristic: External Id

text: UCL Institute of Healthy Ageing

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12440:Sample 2

text: ArrayExpress

text: fruit fly

text: adult

text: UAS36R; elavGS

text: not applicable

characteristic: isolate

text: Drosophila melanogaster

text: Drosophila melanogaster

text: brain

characteristic: organism part

text: Drosophila melanogaster

text: female

text: Sample 2


E-MTAB-12440:Sample 3

characteristic: ENA-CHECKLIST

text: UCL Institute of Healthy Ageing

characteristic: INSDC center name

text: public

text: E-MTAB-12440:Sample 3

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

characteristic: description

text: adult

text: UAS36R; elavGS

text: not applicable

text: Drosophila melanogaster

text: Drosophila melanogaster

text: brain

text: Drosophila melanogaster

text: female

text: Sample 3


E-MTAB-12440:Sample 4

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: UCL Institute of Healthy Ageing

text: public

text: E-MTAB-12440:Sample 4

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: UAS36R; elavGS

characteristic: genotype

characteristic: individual

text: not applicable

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: brain

text: Drosophila melanogaster

text: female

characteristic: strain

text: Sample 4


E-MTAB-12440:Sample 5

characteristic: External Id

text: UCL Institute of Healthy Ageing

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12440:Sample 5

text: ArrayExpress

text: fruit fly

text: adult

text: UAS36R; elavGS

text: not applicable

text: Drosophila melanogaster

text: Drosophila melanogaster

text: brain

text: Drosophila melanogaster

text: female

characteristic: sex

text: Sample 5

characteristic: title


E-MTAB-12440:Sample 6

characteristic: ENA-CHECKLIST

text: UCL Institute of Healthy Ageing

characteristic: INSDC center name

text: public

text: E-MTAB-12440:Sample 6

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

text: adult

text: UAS36R; elavGS

text: not applicable

characteristic: isolate

text: Drosophila melanogaster

text: Drosophila melanogaster

text: brain

characteristic: organism part

text: Drosophila melanogaster

text: female

text: Sample 6


E-MTAB-12440:Sample 8

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: UCL Institute of Healthy Ageing

text: public

text: E-MTAB-12440:Sample 8

text: ArrayExpress

text: fruit fly

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: UAS36R; elavGS

characteristic: genotype

characteristic: individual

text: not applicable

text: Drosophila melanogaster

text: Drosophila melanogaster

text: brain

text: Drosophila melanogaster

text: female

text: Sample 8


E-MTAB-12440:Sample 9

characteristic: External Id

text: UCL Institute of Healthy Ageing

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12440:Sample 9

text: ArrayExpress

text: fruit fly

text: adult

text: UAS36R; elavGS

text: not applicable

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: brain

text: Drosophila melanogaster

text: female

characteristic: strain

text: Sample 9


E-MTAB-12440:Sample 10

characteristic: ENA-CHECKLIST

text: UCL Institute of Healthy Ageing

characteristic: INSDC center name

text: public

text: E-MTAB-12440:Sample 10

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

text: adult

text: UAS36R; elavGS

text: not applicable

text: Drosophila melanogaster

text: Drosophila melanogaster

text: brain

text: Drosophila melanogaster

text: female

characteristic: sex

text: Sample 10

characteristic: title


E-MTAB-12440:Sample 11

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: UCL Institute of Healthy Ageing

text: public

text: E-MTAB-12440:Sample 11

text: ArrayExpress

text: fruit fly

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: UAS36R; elavGS

text: not applicable

characteristic: isolate

text: Drosophila melanogaster

text: Drosophila melanogaster

text: brain

characteristic: organism part

text: Drosophila melanogaster

text: female

text: Sample 11


E-MTAB-12440:Sample 12

characteristic: External Id

text: UCL Institute of Healthy Ageing

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12440:Sample 12

text: ArrayExpress

text: fruit fly

text: adult

text: UAS36R; elavGS

characteristic: genotype

characteristic: individual

text: not applicable

text: Drosophila melanogaster

text: Drosophila melanogaster

text: brain

text: Drosophila melanogaster

text: female

text: Sample 12


E-MTAB-12440:Sample 13

characteristic: ENA-CHECKLIST

text: UCL Institute of Healthy Ageing

characteristic: INSDC center name

text: public

text: E-MTAB-12440:Sample 13

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

text: adult

text: UAS36R; elavGS

text: not applicable

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: brain

text: Drosophila melanogaster

text: female

characteristic: strain

text: Sample 13


E-MTAB-12440:Sample 14

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: UCL Institute of Healthy Ageing

text: public

text: E-MTAB-12440:Sample 14

text: ArrayExpress

text: fruit fly

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: UAS36R; elavGS

text: not applicable

text: Drosophila melanogaster

text: Drosophila melanogaster

text: brain

text: Drosophila melanogaster

text: female

characteristic: sex

text: Sample 14

characteristic: title


E-MTAB-12440:Sample 15

characteristic: External Id

text: UCL Institute of Healthy Ageing

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12440:Sample 15

text: ArrayExpress

text: fruit fly

text: adult

text: UAS36R; elavGS

text: not applicable

characteristic: isolate

text: Drosophila melanogaster

text: Drosophila melanogaster

text: brain

characteristic: organism part

text: Drosophila melanogaster

text: female

text: Sample 15


characteristic: ENA-CHECKLIST

text: UCSDMI

characteristic: INSDC center name

text: public

characteristic: Submitter Id

text: Human saliva

text: TRUE

characteristic: elevation

text: Host-associated

text: Animal

text: Animal secretion

text: urban biome

text: human-associated habitat

text: saliva

text: human-oral

text: Israel:Petah-Tikva

text: Homo sapiens

characteristic: host scientific name

text: years

text: UBERON:saliva

text: UBERON:saliva

text: UBERON:saliva

text: human

characteristic: latitude

characteristic: longitude

text: Mother

text: human gut metagenome

text: Bar-Ilan University

text: FALSE

text: saliva

text: human gut metagenome

text: female

text: Control


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: UCSDMI

text: public

text: Human stool

characteristic: description

text: TRUE

text: Host-associated

text: Animal

text: Animal distal gut

text: urban biome

text: human-associated habitat

text: feces

text: human-gut

text: Israel:Petah-Tikva

text: Homo sapiens

text: years

text: UBERON:feces

text: UBERON:feces

text: UBERON:feces

text: human

text: Mother

text: human gut metagenome

characteristic: organism

text: Bar-Ilan University

text: FALSE

text: feces

text: human gut metagenome

text: female

text: Control


characteristic: External Id

text: UCSDMI

characteristic: INSDC first public

text: public

text: newborn meconium

text: TRUE

text: Host-associated

text: Animal

text: Animal distal gut

text: urban biome

text: human-associated habitat

text: feces

text: human-gut

text: Israel:Petah-Tikva

text: Homo sapiens

text: not collected

text: not collected

text: UBERON:meconium

text: not applicable

text: UBERON:meconium

text: UBERON:meconium

text: human

text: Newborn

text: human gut metagenome

text: Bar-Ilan University

text: FALSE

text: meconium

text: human gut metagenome

text: not collected

characteristic: sex

text: Control

characteristic: title


text: UCSDMI

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Human stool

text: TRUE

text: Host-associated

text: Animal

text: Animal distal gut

text: urban biome

text: human-associated habitat

text: feces

text: human-gut

text: Israel:Petah-Tikva

text: Homo sapiens

text: years

text: UBERON:feces

text: UBERON:feces

text: UBERON:feces

text: human

text: Mother

text: human gut metagenome

text: Bar-Ilan University

text: FALSE

text: feces

text: human gut metagenome

text: female

text: GDM


characteristic: ENA-CHECKLIST

text: UCSDMI

characteristic: INSDC center name

text: public

text: Human saliva

text: TRUE

text: Host-associated

text: Animal

text: Animal secretion

text: urban biome

text: human-associated habitat

text: saliva

text: human-oral

text: Israel:Petah-Tikva

text: Homo sapiens

text: years

text: UBERON:saliva

text: UBERON:saliva

text: UBERON:saliva

text: human

text: Mother

text: human gut metagenome

text: Bar-Ilan University

text: FALSE

text: saliva

text: human gut metagenome

text: female

text: GDM


Pcc-bact

text: STATENS SERUM INSTITUT

text: public

text: Pcc-bact

tag: Namespace:STATENS SERUM INSTITUT

characteristic: Submitter Id

text: building

characteristic: broad-scale environmental context

characteristic: collection date

unit: m

characteristic: depth

text: tap water

characteristic: environmental medium

text: Tanzania

characteristic: geographic location (country and/or sea)

unit: DD

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: town

characteristic: local environmental context

text: uncultured bacterium

text: RARE

characteristic: project name

text: uncultured bacterium

text: Illumina MiSeq

characteristic: sequencing method

text: water sample - Pcc-bact


Pcc-phage

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: STATENS SERUM INSTITUT

characteristic: INSDC first public

text: public

text: Pcc-phage

text: building

text: tap water

text: Tanzania

text: town

text: uncultured bacterium

characteristic: organism

text: RARE

text: uncultured bacterium

text: Illumina MiSeq

text: water sample - Pcc-phage

characteristic: title


Tmw-bact

characteristic: ENA-CHECKLIST

text: STATENS SERUM INSTITUT

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Tmw-bact

characteristic: Submitter Id

text: building

text: tap water

text: Tanzania

text: hospital

text: uncultured bacterium

text: RARE

text: uncultured bacterium

text: Illumina MiSeq

text: water sample - Tmw-bact


Tmw-phage

text: STATENS SERUM INSTITUT

text: public

text: Tmw-phage

text: building

characteristic: broad-scale environmental context

characteristic: collection date

characteristic: depth

text: tap water

characteristic: environmental medium

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: hospital

text: uncultured bacterium

text: RARE

text: uncultured bacterium

text: Illumina MiSeq

text: water sample - Tmw-phage


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: STATENS SERUM INSTITUT

text: public

text: building

text: tap water

text: Tanzania

characteristic: geographic location (longitude)

text: town

characteristic: local environmental context

text: uncultured bacterium

text: RARE

characteristic: project name

text: uncultured bacterium

text: Illumina MiSeq

characteristic: sequencing method

text: water sample - Pc_1-bact


characteristic: ENA-CHECKLIST

characteristic: External Id

text: STATENS SERUM INSTITUT

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: building

text: tap water

text: Tanzania

text: town

text: uncultured bacterium

characteristic: organism

text: RARE

text: uncultured bacterium

text: Illumina MiSeq

text: water sample - Pc_1-phage

characteristic: title


text: STATENS SERUM INSTITUT

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: building

characteristic: broad-scale environmental context

characteristic: collection date

text: tap water

text: Tanzania

text: town

text: uncultured bacterium

text: RARE

text: uncultured bacterium

text: Illumina MiSeq

text: water sample - Pc_2-bact


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: STATENS SERUM INSTITUT

text: public

text: building

characteristic: depth

text: tap water

characteristic: environmental medium

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: town

text: uncultured bacterium

text: RARE

text: uncultured bacterium

text: Illumina MiSeq

text: water sample - Pc_2-phage


characteristic: ENA-CHECKLIST

characteristic: External Id

text: STATENS SERUM INSTITUT

text: public

text: building

text: tap water

text: Tanzania

characteristic: geographic location (longitude)

text: town

characteristic: local environmental context

text: uncultured bacterium

text: RARE

characteristic: project name

text: uncultured bacterium

text: Illumina MiSeq

characteristic: sequencing method

text: water sample - Pt_1-bact


text: STATENS SERUM INSTITUT

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: building

text: tap water

text: Tanzania

text: town

text: uncultured bacterium

characteristic: organism

text: RARE

text: uncultured bacterium

text: Illumina MiSeq

text: water sample - Pt_1-phage

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: STATENS SERUM INSTITUT

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: building

characteristic: broad-scale environmental context

characteristic: collection date

text: tap water

text: Tanzania

text: town

text: uncultured bacterium

text: RARE

text: uncultured bacterium

text: Illumina MiSeq

text: water sample - Pt_2-bact


characteristic: ENA-CHECKLIST

characteristic: External Id

text: STATENS SERUM INSTITUT

text: public

text: building

characteristic: depth

text: tap water

characteristic: environmental medium

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: town

text: uncultured bacterium

text: RARE

text: uncultured bacterium

text: Illumina MiSeq

text: water sample - Pt_2-phage


Th-bact

text: STATENS SERUM INSTITUT

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Th-bact

text: building

text: tap water

text: Tanzania

characteristic: geographic location (longitude)

text: hospital

characteristic: local environmental context

text: uncultured bacterium

text: RARE

characteristic: project name

text: uncultured bacterium

text: Illumina MiSeq

characteristic: sequencing method

text: water sample - Th-bact


Th-phage

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: STATENS SERUM INSTITUT

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: Th-phage

text: building

text: tap water

text: Tanzania

text: hospital

text: uncultured bacterium

characteristic: organism

text: RARE

text: uncultured bacterium

text: Illumina MiSeq

text: water sample - Th-phage

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: External Id

text: STATENS SERUM INSTITUT

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: building

characteristic: broad-scale environmental context

characteristic: collection date

text: wastewater

text: Tanzania

text: wastewater treatment plant

text: uncultured bacterium

text: RARE

text: uncultured bacterium

text: Illumina MiSeq

text: water sample - Tww_1-bact


text: STATENS SERUM INSTITUT

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: building

characteristic: depth

text: wastewater

characteristic: environmental medium

text: Tanzania

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

text: wastewater treatment plant

text: uncultured bacterium

text: RARE

text: uncultured bacterium

text: Illumina MiSeq

text: water sample - Tww_1-phage


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: STATENS SERUM INSTITUT

text: public

text: building

text: wastewater

text: Tanzania

characteristic: geographic location (longitude)

text: wastewater treatment plant

characteristic: local environmental context

text: uncultured bacterium

text: RARE

characteristic: project name

text: uncultured bacterium

text: Illumina MiSeq

characteristic: sequencing method

text: water sample - Tww_2-bact


characteristic: ENA-CHECKLIST

characteristic: External Id

text: STATENS SERUM INSTITUT

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: building

text: wastewater

text: Tanzania

text: wastewater treatment plant

text: uncultured bacterium

characteristic: organism

text: RARE

text: uncultured bacterium

text: Illumina MiSeq

text: water sample - Tww_2-phage

characteristic: title


characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

tag: Namespace:Department of Pathology, University of Cambridge

characteristic: Submitter Id

text: human

characteristic: common name

text: TCam2 (GCT Cell Line) EV #4

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: H4 TCam2 EV #4


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: Department of Pathology, University of Cambridge

text: public

text: human

text: GCT44 (GCT Cell Line) EV #1

text: Homo sapiens

text: Homo sapiens

text: I1 GCT44 EV #1


text: public

text: human

text: GCT44 (GCT Cell Line) EV #2

text: Homo sapiens

text: Homo sapiens

text: I2 GCT44 EV #2


text: THE UNIVERSITY OF QUEENSLAND

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tag: Namespace:THE UNIVERSITY OF QUEENSLAND

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text: Homo sapiens

text: Homo sapiens

text: Homo Sapiens cortical organoids PE150 sequencing Illumina M8_UNT Sample 1


text: THE UNIVERSITY OF QUEENSLAND

text: public

text: Homo_Sapiens_Cortical_Organoids_M8_UNT_2

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo Sapiens cortical organoids PE150 sequencing Illumina M8_UNT Sample 2


text: THE UNIVERSITY OF QUEENSLAND

text: public

text: Homo_Sapiens_Cortical_Organoids_M8_UNT_3

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo Sapiens cortical organoids PE150 sequencing Illumina M8_UNT Sample 3


text: THE UNIVERSITY OF QUEENSLAND

text: public

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text: Homo Sapiens cortical organoids PE150 sequencing Illumina M9_263 Sample 1


text: THE UNIVERSITY OF QUEENSLAND

text: public

text: Homo_Sapiens_Cortical_Organoids_M9_263_2

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo Sapiens cortical organoids PE150 sequencing Illumina M9_263 Sample 2


text: THE UNIVERSITY OF QUEENSLAND

text: public

text: Homo_Sapiens_Cortical_Organoids_M9_263_3

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo Sapiens cortical organoids PE150 sequencing Illumina M9_263 Sample 3


text: THE UNIVERSITY OF QUEENSLAND

text: public

text: Homo_Sapiens_Cortical_Organoids_M9_737_1

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo Sapiens cortical organoids PE150 sequencing Illumina M9_737 Sample 1


text: THE UNIVERSITY OF QUEENSLAND

text: public

text: Homo_Sapiens_Cortical_Organoids_M9_737_2

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo Sapiens cortical organoids PE150 sequencing Illumina M9_737 Sample 2


text: THE UNIVERSITY OF QUEENSLAND

text: public

text: Homo_Sapiens_Cortical_Organoids_M9_737_3

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo Sapiens cortical organoids PE150 sequencing Illumina M9_737 Sample 3


text: THE UNIVERSITY OF QUEENSLAND

text: public

text: human

text: RNA derived from Homo Sapiens cortical organoids for 150bp paired-end library construction, for Illumina sequencing.

text: Homo sapiens

text: Homo sapiens

text: Homo Sapiens cortical organoids PE150 sequencing Illumina M9_QD Sample 1


text: THE UNIVERSITY OF QUEENSLAND

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo Sapiens cortical organoids PE150 sequencing Illumina M9_QD Sample 2


text: THE UNIVERSITY OF QUEENSLAND

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo Sapiens cortical organoids PE150 sequencing Illumina M9_QD Sample 3


text: THE UNIVERSITY OF QUEENSLAND

text: public

text: Homo_Sapiens_Cortical_Organoids_M9_UNT_1

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo Sapiens cortical organoids PE150 sequencing Illumina M9_UNT Sample 1


text: THE UNIVERSITY OF QUEENSLAND

text: public

text: Homo_Sapiens_Cortical_Organoids_M9_UNT_2

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo Sapiens cortical organoids PE150 sequencing Illumina M9_UNT Sample 2


text: THE UNIVERSITY OF QUEENSLAND

text: public

text: Homo_Sapiens_Cortical_Organoids_M9_UNT_3

text: human

text: Homo sapiens

text: Homo sapiens

text: Homo Sapiens cortical organoids PE150 sequencing Illumina M9_UNT Sample 3


text: Natural History Museum

characteristic: GAL

text: NOT PROVIDED

text: EarlhamInstitute

text: public

text: NATURAL HISTORY MUSEUM

characteristic: barcoding center

text: COPO

characteristic: broker name

text: GRAEME LYONS

text: SUSSEX WILDLIFE TRUST

characteristic: collecting institution

characteristic: collection date

text: United Kingdom

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: England|South Downs

characteristic: geographic location (region and locality)

text: NOT COLLECTED

characteristic: habitat

text: GRAEME LYONS

text: SUSSEX WILDLIFE TRUST

text: adult

characteristic: lifestage

text: Enoplognatha mordax

text: WHOLE ORGANISM

characteristic: organism part

text: DTOL

text: Hand Picked

characteristic: sample collection device or method

text: Enoplognatha mordax

text: NOT PROVIDED

characteristic: sex

text: db03c427-8bf7-4e21-b0e8-a41af73e4abf-DTOL-specimen

characteristic: tolid


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: Natural History Museum

text: EarlhamInstitute

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

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characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: NATURAL HISTORY MUSEUM

text: COPO

text: GRAEME LYONS

text: SUSSEX WILDLIFE TRUST

text: United Kingdom

text: England|South Downs

text: NOT COLLECTED

text: GRAEME LYONS

text: SUSSEX WILDLIFE TRUST

text: adult

text: Enoplognatha mordax

characteristic: organism

text: WHOLE ORGANISM

text: DTOL

characteristic: project name

text: Hand Picked

characteristic: sample same as

text: Enoplognatha mordax

text: NOT PROVIDED

text: 53413977-4162-4837-a040-809c33b87bd2-dtol

characteristic: title


characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-12454:sc-exp_008_skin-tel-ac7-63-1

tag: Namespace:Division of Regulatory Genomics and Cancer Evolution, German Cancer Research Center (DKFZ), Heidelberg, Germany Junior Research Group Somatic Evolution and Early Detection German Cancer Research Center (DKFZ), Heidelberg, Germany

unit: week

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

text: Protocols: Naked mole rats (Heterocephalus glaber) or mice (Mus musculus, C56BL6/J) were culled by neck decapitation and full-thickness 4 and 1 mm2 dorsal skin biopsies, respectively, were immediately collected. In brief, shaved backs of female mice were treated once with 100 ug DMBA (Sigma-Aldrich) in 100 ul acetone. After one week, 10 ug TPA (Sigma-Aldrich) in 100 ul acetone was applied three times a week. The mice were sacrificed at the first macroscopic occurrence of papillomas (weeks 10-12). Male naked mole-rats were treated once with 500 ug DMBA (Sigma-Aldrich) in 250 ul acetone. After one week, 60 ug TPA (Sigma-Aldrich) in 250 ul acetone was applied three times a week for 12 or up to 24 weeks. Skin biopsies were incubated in dissociation buffer containing 1.25 mg/ml Collagenase I (Sigma), 0.5 mg/ml Collagenase II (Worthington), 0.5 mg/ml Collagenase IV (Worthington) and 0.1 mg/ml Hyaluronic acid (Sigma) for 3 hours at 37°C, 750 rpm. Enzymes were diluted in a final volume of 0.5 ml Hanks Balanced Salt solution (HBSS) per sample (Invitrogen). After 3 hours 0.5 ml 0.5 % Trypsin (Gibco) was added (to a final concentration 0.25%) and incubated at 37C for an additional 30 min at 750 rpm. The Enzymatic digestion was quenched with HBSS supplemented with 10% fetal calf serum (FCS, Gibco) and the cell suspensions were filtered through 40-µm cell strainers (Grenier Bio-One). The strainers were washed with an additional 2-3 ml HBSS containing 10% FCS and cells pelleted by centrifugation at 300 x g for 8 min at 4°C. Cell pellets were then carefully (using wide-bored P1000 pipet tips) resuspended in 100-200 ul sorting buffer (PBS containing 1 mM EDTA (Invitrogen) and 0.04% BSA (Sigma) and 1 μg/ml propidium iodide (Invitrogen)). Cell suspensions were carefully transferred to low-binding polypropylene FACS tubes. Live cells from each sample were sorted into one 96-well flat-bottom low attachment tissue culture plate well containing 30 ul sorting buffer on a cold plate on an BD FACS Aria 2 Len sorter using a 70 µm nozzle (70 psi). PI was excited with a 561 nm laser and fluorescence was recorded with a 610/20 595LP filter. Cells were gated i) FSC-A vs SSC-A to remove debris ii) SSC-W vs SSC-A to exclude doublets iii) RL780/60-A vs PI-A to exclude auto-fluorescent cells and dead cells (PI positive). Single cell cDNA libraries were prepared using the 10X Genomics Chromium Single Cell 3’ kit (User Guide Version 3) according to the manufacture’s instruction. Quantification of the libraries was carried out using the Qubit dsDNA HS Assay Kit (Life Technologies), and cDNA integrity was assessed using D1000 ScreenTapes (Agilent Technologies).

characteristic: description

text: adult

characteristic: developmental stage

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

characteristic: individual

text: not applicable

characteristic: isolate

text: Mus musculus

text: Mus musculus

text: skin of body

characteristic: organism part

text: Mus musculus

text: female

characteristic: strain


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: Division of Regulatory Genomics and Cancer Evolution, German Cancer Research Center (DKFZ), Heidelberg, Germany Junior Research Group Somatic Evolution and Early Detection German Cancer Research Center (DKFZ), Heidelberg, Germany

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12454:sc-exp_008_skin-tel-ac7-64-2

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

text: adult

text: normal

text: wild type genotype

text: not applicable

text: Mus musculus

text: Mus musculus

text: skin of body

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-12454:sc-exp_008_skin-tel-ac7-65-3

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text: skin of body

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characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-12454:sc-exp_008_skin-tel-ac7-63-4

text: ArrayExpress

text: house mouse

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text: not applicable

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text: Mus musculus

text: Mus musculus

text: skin of body

characteristic: organism part

text: Mus musculus

text: female

characteristic: strain


characteristic: External Id

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text: public

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characteristic: SRA accession

text: E-MTAB-12454:sc-exp_008_skin-tel-ac7-64-5

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

text: adult

text: normal

text: wild type genotype

text: not applicable

text: Mus musculus

text: Mus musculus

text: skin of body

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-12454:sc-exp_008_skin-tel-ac7-65-6

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text: house mouse

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text: E-MTAB-12454:sc-exp_008_skin-tel-ac7-65-9

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text: Mus musculus

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text: Mus musculus

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characteristic: External Id

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text: public

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text: E-MTAB-12454:sc-exp_008_skin-tel-ac7-64-11

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

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text: wild type genotype

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text: Mus musculus

text: skin of body

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text: female

characteristic: sex


characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-12454:sc-exp_008_skin-tel-ac7-65-12

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

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text: adult

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text: Mus musculus

text: skin of body

text: Mus musculus

text: female

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-12454:sc-exp_008_skin-ana-ac7-63-13

text: ArrayExpress

text: house mouse

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text: not applicable

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text: Mus musculus

text: Mus musculus

text: skin of body

characteristic: organism part

text: Mus musculus

text: female

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text: public

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text: E-MTAB-12454:sc-exp_008_skin-ana-ac7-64-14

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

text: adult

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text: wild type genotype

text: not applicable

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text: Mus musculus

text: skin of body

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-12454:sc-exp_008_skin-ana-ac7-65-15

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

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text: adult

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text: Mus musculus

characteristic: organism

text: Mus musculus

text: skin of body

text: Mus musculus

text: female

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-12454:sc-exp_008_skin-ana-ac7-63-16

text: ArrayExpress

text: house mouse

text: adult

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text: wild type genotype

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text: Mus musculus

text: Mus musculus

text: skin of body

characteristic: organism part

text: Mus musculus

text: female

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characteristic: External Id

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text: public

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text: E-MTAB-12454:sc-exp_008_skin-ana-ac7-64-17

characteristic: Submitter Id

text: ArrayExpress

text: house mouse

text: Protocols: Naked mole rats (Heterocephalus glaber) or mice (Mus musculus, C56BL6/J) were culled by neck decapitation and full-thickness 4 and 1 mm2 dorsal skin biopsies, respectively, were immediately collected. In brief, shaved backs of female mice were treated once with 100 ug DMBA (Sigma-Aldrich) in 100 ul acetone. After one week, 10 ug TPA (Sigma-Aldrich) in 100 ul acetone was applied three times a week. The mice were sacrificed at the first macroscopic occurrence of papillomas (weeks 10-12). Male naked mole-rats were treated once with 500 ug DMBA (Sigma-Aldrich) in 250 ul acetone. After one week, 60 ug TPA (Sigma-Aldrich) in 250 ul acetone was applied three times a week for 12 or up to 24 weeks. Skin biopsies were incubated in dissociation buffer containing 1.25 mg/ml Collagenase I (Sigma), 0.5 mg/ml Collagenase II (Worthington), 0.5 mg/ml Collagenase IV (Worthington) and 0.1 mg/ml Hyaluronic acid (Sigma) for 3 hours at 37°C, 750 rpm. Enzymes were diluted in a final volume of 0.5 ml Hanks Balanced Salt solution (HBSS) per sample (Invitrogen). After 3 hours 0.5 ml 0.5 % Trypsin (Gibco) was added (to a final concentration 0.25%) and incubated at 37C for an additional 30 min at 750 rpm. The Enzymatic digestion was quenched with HBSS supplemented with 10% fetal calf serum (FCS, Gibco) and the cell suspensions were filtered through 40-µm cell strainers (Grenier Bio-One). The strainers were washed with an additional 2-3 ml HBSS containing 10% FCS and cells pelleted by centrifugation at 300 x g for 8 min at 4°C. Cell pellets were then carefully (using wide-bored P1000 pipet tips) resuspended in 100-200 ul sorting buffer (PBS containing 1 mM EDTA (Invitrogen) and 0.04% BSA (Sigma) and 1 μg/ml propidium iodide (Invitrogen)). Cell suspensions were carefully transferred to low-binding polypropylene FACS tubes. Live cells from each sample were sorted into one 96-well flat-bottom low attachment tissue culture plate well containing 30 ul sorting buffer on a cold plate on an BD FACS Aria 2 Len sorter using a 70 µm nozzle (70 psi). PI was excited with a 561 nm laser and fluorescence was recorded with a 610/20 595LP filter. Cells were gated i) FSC-A vs SSC-A to remove debris ii) SSC-W vs SSC-A to exclude doublets iii) RL780/60-A vs PI-A to exclude auto-fluorescent cells and dead cells (PI positive). Single cell cDNA libraries were prepared using the 10X Genomics Chromium Single Cell 3’ kit (User Guide Version 3) according to the manufacture’s instruction. Quantification of the libraries was carried out using the Qubit dsDNA HS Assay Kit (Life Technologies), and cDNA integrity was assessed using D1000 ScreenTapes (Agilent Technologies).

text: adult

text: normal

text: wild type genotype

text: not applicable

text: Mus musculus

text: Mus musculus

text: skin of body

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-LAST-UPDATE

text: Division of Regulatory Genomics and Cancer Evolution, German Cancer Research Center (DKFZ), Heidelberg, Germany Junior Research Group Somatic Evolution and Early Detection German Cancer Research Center (DKFZ), Heidelberg, Germany

text: public

text: E-MTAB-12454:sc-exp_008_skin-ana-ac7-65-18

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

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text: adult

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text: wild type genotype

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text: Mus musculus

characteristic: organism

text: Mus musculus

text: skin of body

text: Mus musculus

text: female

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: public

text: ArrayExpress

text: house mouse

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characteristic: External Id

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text: public

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text: E-MTAB-12456:sc-exp_008_skin-tel-ac7-63-1-deepseq01

characteristic: Submitter Id

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text: ArrayExpress

text: house mouse

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characteristic: sex


characteristic: ENA-CHECKLIST

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text: public

text: E-MTAB-12456:sc-exp_008_skin-tel-ac7-64-2-deepseq01

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text: E-MTAB-12456:sc-exp_008_skin-tel-ac7-65-3-deepseq01

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text: house mouse

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text: E-MTAB-12456:sc-exp_008_skin-tel-ac7-65-6-deepseq01

text: ArrayExpress

text: house mouse

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text: E-MTAB-12456:sc-exp_008_skin-tel-ac7-64-8-deepseq01

characteristic: age

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characteristic: title


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characteristic: INSDC center name

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text: E-MTAB-12456:sc-exp_008_skin-tel-ac7-65-9-deepseq01

text: ArrayExpress

text: house mouse

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characteristic: disease

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characteristic: strain


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12456:sc-exp_008_skin-tel-ac7-63-10-deepseq01

characteristic: Submitter Id

characteristic: biopsy name

text: ArrayExpress

text: house mouse

text: adult

text: normal

text: wild type genotype

text: not applicable

text: Mus musculus

text: Mus musculus

text: skin of body

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: public

text: E-MTAB-12456:sc-exp_008_skin-tel-ac7-64-11-deepseq01

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: normal

text: wild type genotype

text: not applicable

text: Mus musculus

characteristic: organism

text: Mus musculus

text: skin of body

text: Mus musculus

text: female

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: INSDC center name

text: public

text: E-MTAB-12456:sc-exp_008_skin-tel-ac7-65-12-deepseq01

text: ArrayExpress

text: house mouse

text: adult

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

characteristic: individual

text: not applicable

characteristic: isolate

text: Mus musculus

text: Mus musculus

text: skin of body

characteristic: organism part

text: Mus musculus

text: female

characteristic: strain


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12456:sc-exp_008_skin-ana-ac7-63-13-deepseq01

characteristic: Submitter Id

characteristic: biopsy name

text: ArrayExpress

text: house mouse

text: adult

text: normal

text: wild type genotype

text: not applicable

text: Mus musculus

text: Mus musculus

text: skin of body

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-12456:sc-exp_008_skin-ana-ac7-64-14-deepseq01

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: normal

text: wild type genotype

text: not applicable

text: Mus musculus

characteristic: organism

text: Mus musculus

text: skin of body

text: Mus musculus

text: female

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-12456:sc-exp_008_skin-ana-ac7-65-15-deepseq01

text: ArrayExpress

text: house mouse

text: Protocols: Naked mole rats (Heterocephalus glaber) or mice (Mus musculus, C56BL6/J) were culled by neck decapitation and full-thickness 4 and 1 mm2 dorsal skin biopsies, respectively, were immediately collected. In brief, shaved backs of female mice were treated once with 100 ug DMBA (Sigma-Aldrich) in 100 ul acetone. After one week, 10 ug TPA (Sigma-Aldrich) in 100 ul acetone was applied three times a week. The mice were sacrificed at the first macroscopic occurrence of papillomas (weeks 10-12). Male naked mole-rats were treated once with 500 ug DMBA (Sigma-Aldrich) in 250 ul acetone. After one week, 60 ug TPA (Sigma-Aldrich) in 250 ul acetone was applied three times a week for 12 or up to 24 weeks. Skin biopsies were incubated in dissociation buffer containing 1.25 mg/ml Collagenase I (Sigma), 0.5 mg/ml Collagenase II (Worthington), 0.5 mg/ml Collagenase IV (Worthington) and 0.1 mg/ml Hyaluronic acid (Sigma) for 3 hours at 37°C, 750 rpm. Enzymes were diluted in a final volume of 0.5 ml Hanks Balanced Salt solution (HBSS) per sample (Invitrogen). After 3 hours 0.5 ml 0.5 % Trypsin (Gibco) was added (to a final concentration 0.25%) and incubated at 37C for an additional 30 min at 750 rpm. The Enzymatic digestion was quenched with HBSS supplemented with 10% fetal calf serum (FCS, Gibco) and the cell suspensions were filtered through 40-µm cell strainers (Grenier Bio-One). The strainers were washed with an additional 2-3 ml HBSS containing 10% FCS and cells pelleted by centrifugation at 300 x g for 8 min at 4°C. Cell pellets were then carefully (using wide-bored P1000 pipet tips) resuspended in 100-200 ul sorting buffer (PBS containing 1 mM EDTA (Invitrogen) and 0.04% BSA (Sigma) and 1 μg/ml propidium iodide (Invitrogen)). Cell suspensions were carefully transferred to low-binding polypropylene FACS tubes. Live cells from each sample were sorted into one 96-well flat-bottom low attachment tissue culture plate well containing 30 ul sorting buffer on a cold plate on an BD FACS Aria 2 Len sorter using a 70 µm nozzle (70 psi). PI was excited with a 561 nm laser and fluorescence was recorded with a 610/20 595LP filter. Cells were gated i) FSC-A vs SSC-A to remove debris ii) SSC-W vs SSC-A to exclude doublets iii) RL780/60-A vs PI-A to exclude auto-fluorescent cells and dead cells (PI positive). Single cell cDNA libraries were prepared using the 10X Genomics Chromium Single Cell 3’ kit (User Guide Version 3) according to the manufacture’s instruction. Quantification of the libraries was carried out using the Qubit dsDNA HS Assay Kit (Life Technologies), and cDNA integrity was assessed using D1000 ScreenTapes (Agilent Technologies).

text: adult

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

characteristic: individual

text: not applicable

characteristic: isolate

text: Mus musculus

text: Mus musculus

text: skin of body

characteristic: organism part

text: Mus musculus

text: female

characteristic: strain


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: Division of Regulatory Genomics and Cancer Evolution, German Cancer Research Center (DKFZ), Heidelberg, Germany Junior Research Group Somatic Evolution and Early Detection German Cancer Research Center (DKFZ), Heidelberg, Germany

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12456:sc-exp_008_skin-ana-ac7-63-16-deepseq01

characteristic: Submitter Id

characteristic: biopsy name

text: ArrayExpress

text: house mouse

text: adult

text: normal

text: wild type genotype

text: not applicable

text: Mus musculus

text: Mus musculus

text: skin of body

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: public

text: E-MTAB-12456:sc-exp_008_skin-ana-ac7-64-17-deepseq01

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: normal

text: wild type genotype

text: not applicable

text: Mus musculus

characteristic: organism

text: Mus musculus

text: skin of body

text: Mus musculus

text: female

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: INSDC center name

text: public

text: E-MTAB-12456:sc-exp_008_skin-ana-ac7-65-18-deepseq01

text: ArrayExpress

text: house mouse

text: adult

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

characteristic: individual

text: not applicable

characteristic: isolate

text: Mus musculus

text: Mus musculus

text: skin of body

characteristic: organism part

text: Mus musculus

text: female

characteristic: strain


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12456:sc-exp_007_skin-tel-c9-1-deepseq01

characteristic: Submitter Id

characteristic: biopsy name

text: ArrayExpress

text: house mouse

text: adult

text: normal

text: wild type genotype

text: not applicable

text: Mus musculus

text: Mus musculus

text: skin of body

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-12456:sc-exp_007_skin-tel-c9-2-deepseq01

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

characteristic: description

text: adult

characteristic: developmental stage

text: normal

text: wild type genotype

text: not applicable

text: Mus musculus

characteristic: organism

text: Mus musculus

text: skin of body

text: Mus musculus

text: female

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-12456:sc-exp_007_skin-ana-c9-3-deepseq01

text: ArrayExpress

text: house mouse

text: adult

text: normal

characteristic: disease

text: wild type genotype

characteristic: genotype

characteristic: individual

text: not applicable

characteristic: isolate

text: Mus musculus

text: Mus musculus

text: skin of body

characteristic: organism part

text: Mus musculus

text: female

characteristic: strain


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12456:sc-exp_007_skin-ana-c9-4-deepseq01

characteristic: Submitter Id

characteristic: biopsy name

text: ArrayExpress

text: house mouse

text: adult

text: normal

text: wild type genotype

text: not applicable

text: Mus musculus

text: Mus musculus

text: skin of body

text: Mus musculus

text: female

characteristic: sex


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: public

text: ArrayExpress

characteristic: broker name

text: naked mole-rat

characteristic: common name

text: Protocols: Naked mole rats (Heterocephalus glaber) or mice (Mus musculus, C56BL6/J) were culled by neck decapitation and full-thickness 4 and 1 mm2 dorsal skin biopsies, respectively, were immediately collected. Naked mole rats (Heterocephalus glaber) or mice (Mus musculus, C56BL6/J) were culled by neck decapitation and full-thickness 4 and 1 mm2 dorsal skin biopsies, respectively, were immediately collected. Single cell cDNA libraries were prepared using the 10X Genomics Chromium Single Cell 3’ kit (User Guide Version 3) according to the manufacture’s instruction. Quantification of the libraries was carried out using the Qubit dsDNA HS Assay Kit (Life Technologies), and cDNA integrity was assessed using D1000 ScreenTapes (Agilent Technologies).

characteristic: description

text: adult

characteristic: developmental stage

text: normal

text: Essen/Dresden Zoo

characteristic: environmental history

text: wild type genotype

text: not applicable

text: Heterocephalus glaber

characteristic: organism

text: Heterocephalus glaber

text: skin of body

characteristic: replicate

text: Heterocephalus glaber

text: female

characteristic: title

characteristic: treatment


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: ArrayExpress

text: naked mole-rat

text: adult

text: normal

characteristic: disease

text: Essen/Budweis

text: wild type genotype

characteristic: genotype

characteristic: individual

text: not applicable

characteristic: isolate

text: Heterocephalus glaber

text: Heterocephalus glaber

text: skin of body

characteristic: organism part

text: Heterocephalus glaber

text: female


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: naked mole-rat

characteristic: common name

characteristic: description

text: adult

text: normal

text: Essen/Dresden Zoo

text: wild type genotype

text: not applicable

text: Heterocephalus glaber

text: Heterocephalus glaber

text: skin of body

text: Heterocephalus glaber

text: male

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: INSDC center name

text: public

text: E-MTAB-12459:sc-exp_003_skin-7311-1-deepseq01

text: ArrayExpress

text: naked mole-rat

text: adult

characteristic: developmental stage

text: normal

text: Essen/Budweis

characteristic: environmental history

text: wild type genotype

text: not applicable

text: Heterocephalus glaber

characteristic: organism

text: Heterocephalus glaber

text: skin of body

characteristic: replicate

text: Heterocephalus glaber

text: female

characteristic: title

characteristic: treatment


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-12459:sc-exp_003_skin-7311-2-deepseq01

text: ArrayExpress

text: naked mole-rat

text: adult

text: normal

characteristic: disease

text: Essen/Budweis

text: wild type genotype

characteristic: genotype

characteristic: individual

text: not applicable

characteristic: isolate

text: Heterocephalus glaber

text: Heterocephalus glaber

text: skin of body

characteristic: organism part

text: Heterocephalus glaber

text: female


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12459:sc-exp_003_skin-7311-3-deepseq01

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: naked mole-rat

characteristic: common name

characteristic: description

text: adult

text: normal

text: Essen/Budweis

text: wild type genotype

text: not applicable

text: Heterocephalus glaber

text: Heterocephalus glaber

text: skin of body

text: Heterocephalus glaber

text: female

characteristic: sex


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-12459:sc-exp_003_skin-7311-4-deepseq01

text: ArrayExpress

text: naked mole-rat

text: adult

characteristic: developmental stage

text: normal

text: Essen/Budweis

characteristic: environmental history

text: wild type genotype

text: not applicable

text: Heterocephalus glaber

characteristic: organism

text: Heterocephalus glaber

text: skin of body

characteristic: replicate

text: Heterocephalus glaber

text: female

characteristic: title

characteristic: treatment


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-12459:sc-exp_003_skin-5400-1-deepseq01

text: ArrayExpress

text: naked mole-rat

text: adult

text: normal

characteristic: disease

text: Essen/Dresden Zoo

text: wild type genotype

characteristic: genotype

characteristic: individual

text: not applicable

characteristic: isolate

text: Heterocephalus glaber

text: Heterocephalus glaber

text: skin of body

characteristic: organism part

text: Heterocephalus glaber

text: male


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12459:sc-exp_003_skin-5400-2-deepseq01

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: naked mole-rat

characteristic: common name

characteristic: description

text: adult

text: normal

text: Essen/Dresden Zoo

text: wild type genotype

text: not applicable

text: Heterocephalus glaber

text: Heterocephalus glaber

text: skin of body

text: Heterocephalus glaber

text: male

characteristic: sex


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: INSDC center name

text: public

text: E-MTAB-12459:sc-exp_003_skin-5400-3-deepseq01

text: ArrayExpress

text: naked mole-rat

text: adult

characteristic: developmental stage

text: normal

text: Essen/Dresden Zoo

characteristic: environmental history

text: wild type genotype

text: not applicable

text: Heterocephalus glaber

characteristic: organism

text: Heterocephalus glaber

text: skin of body

characteristic: replicate

text: Heterocephalus glaber

text: male

characteristic: title

characteristic: treatment


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-12459:sc-exp_003_skin-5400-4-deepseq01

text: ArrayExpress

text: naked mole-rat

text: adult

text: normal

characteristic: disease

text: Essen/Dresden Zoo

text: wild type genotype

characteristic: genotype

characteristic: individual

text: not applicable

characteristic: isolate

text: Heterocephalus glaber

text: Heterocephalus glaber

text: skin of body

characteristic: organism part

text: Heterocephalus glaber

text: male


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

text: Division of Regulatory Genomics and Cancer Evolution, German Cancer Research Center (DKFZ), Heidelberg, Germany Junior Research Group Somatic Evolution and Early Detection German Cancer Research Center (DKFZ), Heidelberg, Germany

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12459:sc-exp_002_skin-5374-1-deepseq01

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: naked mole-rat

characteristic: common name

characteristic: description

text: adult

text: normal

text: Essen/Dresden Zoo

text: wild type genotype

text: not applicable

text: Heterocephalus glaber

text: Heterocephalus glaber

text: skin of body

text: Heterocephalus glaber

text: female

characteristic: sex


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

characteristic: INSDC center name

text: public

text: E-MTAB-12459:sc-exp_002_skin-5374-2-deepseq01

text: ArrayExpress

text: naked mole-rat

text: adult

characteristic: developmental stage

text: normal

text: Essen/Dresden Zoo

characteristic: environmental history

text: wild type genotype

text: not applicable

text: Heterocephalus glaber

characteristic: organism

text: Heterocephalus glaber

text: skin of body

characteristic: replicate

text: Heterocephalus glaber

text: female

characteristic: title

characteristic: treatment


characteristic: ENA-CHECKLIST

characteristic: ENA-LAST-UPDATE

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-12459:sc-exp_002_skin-5374-3-deepseq01

text: ArrayExpress

text: naked mole-rat

text: adult

text: normal

characteristic: disease

text: Essen/Dresden Zoo

text: wild type genotype

characteristic: genotype

characteristic: individual

text: not applicable

characteristic: isolate

text: Heterocephalus glaber

text: Heterocephalus glaber

text: skin of body

characteristic: organism part

text: Heterocephalus glaber

text: female


characteristic: ENA-FIRST-PUBLIC

characteristic: External Id

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-12459:sc-exp_002_skin-5374-4-deepseq01

characteristic: Submitter Id

text: ArrayExpress

characteristic: broker name

text: naked mole-rat

characteristic: common name

characteristic: description

text: adult

text: normal

text: Essen/Dresden Zoo

text: wild type genotype

text: not applicable

text: Heterocephalus glaber

text: Heterocephalus glaber

text: skin of body

text: Heterocephalus glaber

text: female

characteristic: sex