characteristic: External Id

text: BCM

characteristic: INSDC first public

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281624976556:FCA_P9_female_bodyWall_D7

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: body wall

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


status: KILLED

tag: attribute

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: BCM

characteristic: INSDC center name

text: killed

characteristic: SRA accession

text: E-MTAB-106281624978684:FCA_P32_male_fatbody_G7

characteristic: Submitter Id

unit: day

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: Protocols: Adult fly tissues were dissected, nuclei were extracted using dounce homogenizer, and individual nuclei were collected into 384-well plates using FACS sorter (SONY SH800), each well with one nucleus; all samples are nuclei for single-nucleus sequencing. ERCC RNA Spike-In Mix (Thermo Fisher, 4456740) was used at a concentration of 1:600000 no nucleic acid extraction required; samples were directly processed for reverse transcription using Smart-seq2 protocol smart-seq2 protocol from Picelli et al., 2014, Nature Protocols

text: adult

characteristic: developmental stage

text: Cg-GAL4; UAS-lamGFP

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fat body

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: male

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: External Id

text: BCM

characteristic: INSDC first public

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281624978684:FCA_P55_female_dilp2IPC_O10

text: ArrayExpress

text: adult insulin secreting cell of pars intercerebralis

characteristic: cell type

text: fruit fly

characteristic: description

text: adult

text: dilp2-GAL4; UAS-unc84GFP

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: head

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: BCM

characteristic: INSDC center name

text: killed

characteristic: SRA accession

text: E-MTAB-106281624978684:FCA_P55_female_dilp2IPC_O16

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: dilp2-GAL4; UAS-unc84GFP

text: Drosophila melanogaster

text: Drosophila melanogaster

text: head

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: External Id

text: BCM

characteristic: INSDC first public

text: killed

text: E-MTAB-106281624978684:FCA_P55_female_dilp2IPC_P8

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: dilp2-GAL4; UAS-unc84GFP

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: head

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281624978684:FCA_P55_female_dilp2IPC_P9

text: ArrayExpress

characteristic: cell type

text: fruit fly

characteristic: description

text: adult

text: dilp2-GAL4; UAS-unc84GFP

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: head

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281624978684:FCA_P32_male_fatbody_F6

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: Cg-GAL4; UAS-lamGFP

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fat body

text: pass

text: Drosophila melanogaster

text: male

text: OK


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281624978684:FCA_P32_male_fatbody_H12

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: Cg-GAL4; UAS-lamGFP

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fat body

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: male

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281624978684:FCA_P32_male_fatbody_H6

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: Cg-GAL4; UAS-lamGFP

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: fat body

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: male

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281624982104:FCA_P33_female_fatbody_A1

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: Cg-GAL4; UAS-lamGFP

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fat body

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281624982104:FCA_P33_female_fatbody_B1

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: Cg-GAL4; UAS-lamGFP

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fat body

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281624982104:FCA_P33_female_fatbody_C1

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: Cg-GAL4; UAS-lamGFP

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: fat body

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281624982104:FCA_P33_female_fatbody_D1

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: Cg-GAL4; UAS-lamGFP

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fat body

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281624982104:FCA_P33_female_fatbody_E1

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: Cg-GAL4; UAS-lamGFP

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fat body

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281624982104:FCA_P33_female_fatbody_F1

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: Cg-GAL4; UAS-lamGFP

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: fat body

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281624982104:FCA_P33_female_fatbody_G1

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: Cg-GAL4; UAS-lamGFP

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fat body

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281624982104:FCA_P33_female_fatbody_H1

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: Cg-GAL4; UAS-lamGFP

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fat body

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281624982104:FCA_P33_female_fatbody_I1

text: ArrayExpress

text: fruit fly

text: Protocols: Adult fly tissues were dissected, nuclei were extracted using dounce homogenizer, and individual nuclei were collected into 384-well plates using FACS sorter (SONY SH800), each well with one nucleus; all samples are nuclei for single-nucleus sequencing. ERCC RNA Spike-In Mix (Thermo Fisher, 4456740) was used at a concentration of 1:600000 no nucleic acid extraction required; samples were directly processed for reverse transcription using Smart-seq2 protocol smart-seq2 protocol from Picelli et al., 2014, Nature Protocols

characteristic: description

text: adult

text: Cg-GAL4; UAS-lamGFP

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: fat body

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281624982104:FCA_P33_female_fatbody_J1

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: Cg-GAL4; UAS-lamGFP

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fat body

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281624982104:FCA_P33_female_fatbody_K1

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: Cg-GAL4; UAS-lamGFP

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fat body

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281624982104:FCA_P33_female_fatbody_L1

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: Cg-GAL4; UAS-lamGFP

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: fat body

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281624982104:FCA_P33_female_fatbody_M1

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: Cg-GAL4; UAS-lamGFP

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fat body

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281624982104:FCA_P33_female_fatbody_N1

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: Cg-GAL4; UAS-lamGFP

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fat body

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281624982104:FCA_P33_female_fatbody_O1

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: Cg-GAL4; UAS-lamGFP

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: fat body

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281624982104:FCA_P33_female_fatbody_P1

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: Cg-GAL4; UAS-lamGFP

text: Drosophila melanogaster

text: Drosophila melanogaster

text: fat body

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281624982104:FCA_P1_male_gut_A1

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: gut

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: male

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281624982104:FCA_P1_male_gut_K24

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: gut

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: male

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625046546:FCA_P35_male_haltere_C6

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: haltere

text: pass

text: Drosophila melanogaster

text: male

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625046546:FCA_P35_male_haltere_G24

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: haltere

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: male

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625046546:FCA_P35_male_haltere_H24

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: haltere

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: male

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625046546:FCA_P35_male_haltere_P18

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: haltere

text: pass

text: Drosophila melanogaster

text: male

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625046546:FCA_P35_male_haltere_P19

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: haltere

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: male

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625046546:FCA_P35_male_haltere_P20

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: haltere

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: male

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625046546:FCA_P35_male_haltere_P21

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: haltere

text: pass

text: Drosophila melanogaster

text: male

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625046546:FCA_P35_male_haltere_P22

text: ArrayExpress

text: fruit fly

text: Protocols: Adult fly tissues were dissected, nuclei were extracted using dounce homogenizer, and individual nuclei were collected into 384-well plates using FACS sorter (SONY SH800), each well with one nucleus; all samples are nuclei for single-nucleus sequencing. ERCC RNA Spike-In Mix (Thermo Fisher, 4456740) was used at a concentration of 1:600000 no nucleic acid extraction required; samples were directly processed for reverse transcription using Smart-seq2 protocol smart-seq2 protocol from Picelli et al., 2014, Nature Protocols

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: haltere

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: male

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625046546:FCA_P35_male_haltere_P23

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: haltere

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: male

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625046546:FCA_P35_male_haltere_P24

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: haltere

text: pass

text: Drosophila melanogaster

text: male

text: OK


status: PUBLIC

characteristic: ENA-FIRST-PUBLIC

text: public

tag: Namespace:Max Planck Institute of Immunobiology and Epigenetics (MPI-IE)

unit: week

text: ArrayExpress

text: LT-HSCs

characteristic: cell type

text: house mouse

text: Protocols: Six month-old C57BL6 mice were sacrificed and bone marrow (BM) cells were isolated from pooled femura, tibiae, hips, ilia, and vertebrae by gentle crushing in PBS using a mortar and pistil. Erythrocyte lysis was performed using ACK Lysing Buffer (Thermo Fisher Scientific). To enrich for lineage negative (Lin-) cells we used the Dynabeads Untouched Mouse CD4 Cells Kit (Invitrogen). Briefly, the ery-lysed BM was stained for 30-45 min with a 1:4 dilution of the Lineage Cocktail provided in the Dynabeads Untouched Mouse CD4 Cells Kit (Invitrogen). Labelled cells were then incubated for 20 min with 400uL/mouse of washed polyclonal sheep anti-rat IgG coated Dynabeads provided in the Kit. Depletion of Lin+ cells was performed using a magnet. To achieve further purification of hematopoietic stem and progenitor cells we used fluorescence- activated cell sorting (FACS). Therefore, the depleted cell fraction was stained for 30 min to 1h using the following monoclonal antibodies: anti-lineage [anti-CD4 (clone GK1.5), anti-CD8a (53-6.7), anti-CD11b (M1/70), anti- B220 (RA3-6B2), anti-GR1 (RB6-8C5) and anti-TER119 (Ter-119)] all PE-Cy7 or BV650 or FITC; anti-CD117/c-Kit (2B8)-PE or BV711; anti-Ly6a/Sca-1 (D7)-APCCy7; anti-CD34 (RAM34)-FITC or AF700; anti-CD150 (TC15-12F12.2)-BV605 or PECy5; anti-CD48 (HM48-1)-BV421 or PECy7. Monoclonal antibody conjugates were purchased from eBioscience or BioLegend. Prior to sorting stained cells were cross-linked for 10min at room temperature with 1% formaldehyde and subsequently washed in ice-cold PBS. DAPI was added prior to FACS sort and sorting was then performed on a FACS Aria II, III or Symphony (Becton Dickinson) at the MPI FACS facility, Freiburg, Germany. The following sort parameters were used: 100 m nozzle; 10,000 evt/s.; 70 psi. Each 4.000 LT-HSCs (DAPI-negative, Lin-negative, Sca1-positive, c-Kit-positive, CD150-positive, CD48-negative, CD34-negative) and 4.000 MPP3/4 cells (DAPI-negative, Lin-negative, Sca1-positive, c-Kit-positive, CD150-negative, CD48-positive) were sorted, respectively, in 3 biological replicates. Cells were sorted into 200 ul RIPA buffer. Nuclei were broken by mild sonication (Diagenode Bioruptor, 3 cycles, low power, 30 sec ON/OFF) and chromatin was incubated with antibody-coupled protein G dynabeads (Thermofisher) over night at 4°C. Chromatin was then fragmented by incubation with 1ul Tn5 enzyme in 20ul 1x transposition buffer (Illumina) for 40min at 37°C. Stringent washing steps with low salt (once) and high salt RIPA (four times) as well as TE buffer (twice) were performed to remove all fragmented chromatin that is not associated to the antibody-bead-complex (H3K27me3 Cell Signaling C36B11, H3K4me3 Millipore 07-473). Reverse crosslinking was performed with proteinase K at 60°C over night before DNA was isolated using phenol-chloroform extraction and subsequent ethanol precipitation over night at -80°C. Sequencing libraries were amplified using unique dual barcode primers (Illumina) and 14 PCR cycles. Libraries were cleaned up using AMPure XP beads (Beckman Coultier). Double-sided size selection was performed by removing large fragments that precipitate with 0.2x volume and purifying fragments that precipitate with 1.0x volume ratio. Clean-up was done twice in order to efficiently remove primers and adaptor dimers.

text: adult early hematopoiesis

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Mouse 1

characteristic: individual

text: Mus musculus

text: Mus musculus

text: bone marrow

text: Mus musculus

text: female

characteristic: sex

text: fresh specimen

characteristic: specimen with known storage state

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Max Planck Institute of Immunobiology and Epigenetics (MPI-IE)

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: LT-HSCs

text: house mouse

characteristic: description

text: adult early hematopoiesis

text: wild type genotype

text: Mouse 2

text: Mus musculus

characteristic: organism

text: Mus musculus

text: bone marrow

characteristic: organism part

text: Mus musculus

text: female

text: fresh specimen

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

text: adult early hematopoiesis

text: wild type genotype

text: Mouse 2

text: Mus musculus

text: Mus musculus

text: bone marrow

text: Mus musculus

text: female

text: fresh specimen


characteristic: ENA-FIRST-PUBLIC

text: public

text: ArrayExpress

text: LT-HSCs

characteristic: cell type

text: house mouse

text: adult early hematopoiesis

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Mouse 3

characteristic: individual

text: Mus musculus

text: Mus musculus

text: bone marrow

text: Mus musculus

text: female

characteristic: sex

text: fresh specimen

characteristic: specimen with known storage state

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: house mouse

characteristic: description

text: adult early hematopoiesis

text: wild type genotype

text: Mouse 3

text: Mus musculus

characteristic: organism

text: Mus musculus

text: bone marrow

characteristic: organism part

text: Mus musculus

text: female

text: fresh specimen

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: LT-HSCs

text: house mouse

characteristic: common name

text: adult early hematopoiesis

text: wild type genotype

text: Mouse 5

text: Mus musculus

text: Mus musculus

text: bone marrow

text: Mus musculus

text: female

text: fresh specimen


characteristic: ENA-FIRST-PUBLIC

text: public

text: ArrayExpress

text: LT-HSCs

characteristic: cell type

text: house mouse

text: adult early hematopoiesis

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Mouse 4

characteristic: individual

text: Mus musculus

text: Mus musculus

text: bone marrow

text: Mus musculus

text: female

characteristic: sex

text: fresh specimen

characteristic: specimen with known storage state

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: house mouse

characteristic: description

text: adult early hematopoiesis

text: wild type genotype

text: Mouse 5

text: Mus musculus

characteristic: organism

text: Mus musculus

text: bone marrow

characteristic: organism part

text: Mus musculus

text: female

text: fresh specimen

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: common name

text: adult early hematopoiesis

text: wild type genotype

text: Mouse 4

text: Mus musculus

text: Mus musculus

text: bone marrow

text: Mus musculus

text: female

text: fresh specimen


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625051266:FCA_P15_male_leg_F24

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: leg

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: male

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625051266:FCA_P15_male_leg_J24

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: leg

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: male

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625051266:FCA_P15_male_leg_K24

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: leg

text: pass

text: Drosophila melanogaster

text: male

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625051266:FCA_P15_male_leg_L24

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: leg

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: male

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625051266:FCA_P15_male_leg_M24

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: leg

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: male

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625051266:FCA_P15_male_leg_N24

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: leg

text: pass

text: Drosophila melanogaster

text: male

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625051266:FCA_P15_male_leg_P24

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: leg

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: male

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625051266:FCA_P17_female_leg_A24

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: leg

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625051266:FCA_P5_female_MalpighianTubule_P24

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: drip-GAL4; UAS-nlsGFP

text: Drosophila melanogaster

text: Drosophila melanogaster

text: Malpighian tubule

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_A3

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_A6

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P53_female_ovary_A8

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_B19

text: ArrayExpress

text: fruit fly

text: Protocols: Adult fly tissues were dissected, nuclei were extracted using dounce homogenizer, and individual nuclei were collected into 384-well plates using FACS sorter (SONY SH800), each well with one nucleus; all samples are nuclei for single-nucleus sequencing. ERCC RNA Spike-In Mix (Thermo Fisher, 4456740) was used at a concentration of 1:600000 no nucleic acid extraction required; samples were directly processed for reverse transcription using Smart-seq2 protocol smart-seq2 protocol from Picelli et al., 2014, Nature Protocols

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_B22

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P53_female_ovary_B23

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_B4

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_B5

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P53_female_ovary_B6

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_C21

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_D15

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P53_female_ovary_D23

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_D2

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_E14

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P53_female_ovary_E15

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_G17

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_G21

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P53_female_ovary_G23

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_H21

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_H22

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P53_female_ovary_H23

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: Protocols: Adult fly tissues were dissected, nuclei were extracted using dounce homogenizer, and individual nuclei were collected into 384-well plates using FACS sorter (SONY SH800), each well with one nucleus; all samples are nuclei for single-nucleus sequencing. ERCC RNA Spike-In Mix (Thermo Fisher, 4456740) was used at a concentration of 1:600000 no nucleic acid extraction required; samples were directly processed for reverse transcription using Smart-seq2 protocol smart-seq2 protocol from Picelli et al., 2014, Nature Protocols

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_I22

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_J23

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P53_female_ovary_K19

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_K23

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_K24

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P53_female_ovary_K5

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_L16

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_L18

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P53_female_ovary_L1

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_L22

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_L23

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P53_female_ovary_L24

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_L4

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_M19

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P53_female_ovary_M21

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_M22

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_M5

text: ArrayExpress

text: fruit fly

text: Protocols: Adult fly tissues were dissected, nuclei were extracted using dounce homogenizer, and individual nuclei were collected into 384-well plates using FACS sorter (SONY SH800), each well with one nucleus; all samples are nuclei for single-nucleus sequencing. ERCC RNA Spike-In Mix (Thermo Fisher, 4456740) was used at a concentration of 1:600000 no nucleic acid extraction required; samples were directly processed for reverse transcription using Smart-seq2 protocol smart-seq2 protocol from Picelli et al., 2014, Nature Protocols

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P53_female_ovary_N14

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_N19

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_N20

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P53_female_ovary_N23

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_N22

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_N5

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P53_female_ovary_N9

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_O10

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_O11

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P53_female_ovary_O12

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_O15

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_O18

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P53_female_ovary_O21

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_O22

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_O6

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P53_female_ovary_P15

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P53_female_ovary_P16

text: ArrayExpress

text: fruit fly

text: Protocols: Adult fly tissues were dissected, nuclei were extracted using dounce homogenizer, and individual nuclei were collected into 384-well plates using FACS sorter (SONY SH800), each well with one nucleus; all samples are nuclei for single-nucleus sequencing. ERCC RNA Spike-In Mix (Thermo Fisher, 4456740) was used at a concentration of 1:600000 no nucleic acid extraction required; samples were directly processed for reverse transcription using Smart-seq2 protocol smart-seq2 protocol from Picelli et al., 2014, Nature Protocols

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625055518:FCA_P53_female_ovary_P22

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: wild type genotype

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: ovary

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: female

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625055518:FCA_P59_Wnt4_ovary_D21

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: common name

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

text: Drosophila melanogaster

text: female

text: OK


characteristic: ENA-FIRST-PUBLIC

text: BCM

text: killed

text: E-MTAB-106281625055518:FCA_P60_Wnt4_ovary_D7

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: ovary

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625060381:FCA_P47_male_trachea_D21

text: ArrayExpress

text: fruit fly

characteristic: description

text: adult

text: Btl-GAL4; UAS-lamGFP

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: trachea

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: male

text: OK

characteristic: title


characteristic: ENA-CHECKLIST

text: Max Planck Institute of Immunobiology and Epigenetics (MPI-IE)

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

unit: month

characteristic: age

text: ArrayExpress

characteristic: broker name

text: hematopoietic stem cell

characteristic: cell type

text: house mouse

characteristic: common name

text: Protocols: Cyp26b1 knockout using the MxCre driver was performed by intraperitoneal injection of 100ug poly I:C /mouse every other day over 10 days (5 injections total). Control mice had floxed Cyp26b1 allels but no MxCre. After a recovery phase of 4 weeks, mice were aged for 6 months and murine bone marrow (BM) cells were isolated from pooled femura, tibiae, hips, ilia, and vertebrae by gentle crushing in PBS using a mortar and pistil. Erythrocyte lysis was performed using ACK Lysing Buffer (Thermo Fisher Scientific). To enrich for lineage negative (Lin-) cells we used the Dynabeads Untouched Mouse CD4 Cells Kit (Invitrogen). Briefly, the ery-lysed BM was stained for 30-45 min with a 1:4 dilution of the Lineage Cocktail provided in the Dynabeads Untouched Mouse CD4 Cells Kit (Invitrogen). Labelled cells were then incubated for 20 min with 400uL/mouse of washed polyclonal sheep anti-rat IgG coated Dynabeads provided in the Kit. Depletion of Lin+ cells was performed using a magnet. To achieve further purification of hematopoietic stem and progenitor cells we used fluorescence- activated cell sorting (FACS). Therefore, the depleted cell fraction was stained for 30 min to 1h using the following monoclonal antibodies: anti-lineage [anti-CD4 (clone GK1.5), anti-CD8a (53-6.7), anti-CD11b (M1/70), anti- B220 (RA3-6B2), anti-GR1 (RB6-8C5) and anti-TER119 (Ter-119)] all PE-Cy7; anti-CD117/c-Kit (2B8)-PE; anti-Ly6a/Sca-1 (D7)-APCCy7; anti-CD34 (RAM34)-FITC; anti-CD150 (TC15-12F12.2)-BV605; anti-CD48 (HM48-1)-BV421. Monoclonal antibody conjugates were purchased from eBioscience or BioLegend. Sorting was then performed on a FACS Aria III (Becton Dickinson) at the MPI FACS facility, Freiburg, Germany. The following sort parameters were used: 70 m nozzle; 10,000 evt/s.; 70 psi. Each 3000 LT-HSCs (Lin-negative, Sca1-positive, c-Kit-positive, CD150-positive, CD48-negative, CD34-negative) of control and Cyp26b1KO mice were sorted in 2 biological replicates. Sorted cells were collected into ice-cold RNA lysis buffer (ARCTURUS PicoPure RNA Isolation Kit (Life Technologies, Invitrogen)) and stored at -80C until further usage. Total RNA isolation was performed from the indicated populations using ARCTURUS PicoPure RNA Isolation Kit (Life Technologies, Invitrogen) according to the manufacturers instructions. DNAse treatment was performed using RNAse-free DNAse Set (Qiagen). Total RNA was used as starting material for cDNA-libraries preparation using the SMARTseq v4 Ultra Low RNA Kit (Takara) according to the manufacturers indications. Of note, 12 cycles were used for the amplification of cDNA. Sequencing libraries were prepared from 10ng of cDNA libraries as input using NEBNext Ultra II FS DNA library prep kit (#E7805S, NEB) according to manufacturer’s protocol together with unique dual indexing barcodes (NEB, #E6440). Libraries were amplified with 7 PCR-cycles before Ampure bead (Beckman-Coultier) clean-up and subsequent quality control.

text: adult early hematopoiesis

text: Cyp26b1 fl/fl (WT)

text: Mouse 1

characteristic: individual

text: Mus musculus

text: Mus musculus

text: bone marrow

text: MacLean et al. 2014

characteristic: phenotype

text: Mus musculus

text: female

text: fresh specimen

characteristic: specimen with known storage state


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: hematopoietic stem cell

text: house mouse

text: adult early hematopoiesis

characteristic: developmental stage

text: Cyp26b1 fl/fl (WT)

characteristic: genotype

text: Mouse 2

text: Mus musculus

text: Mus musculus

text: bone marrow

text: MacLean et al. 2014

text: Mus musculus

text: female

characteristic: sex

text: fresh specimen


characteristic: ENA-CHECKLIST

characteristic: INSDC center name

characteristic: INSDC first public

text: public

characteristic: SRA accession

text: ArrayExpress

text: hematopoietic stem cell

text: house mouse

characteristic: description

text: adult early hematopoiesis

text: MxCre Cyp26b1 fl/fl (KO)

text: Mouse 3

text: Mus musculus

characteristic: organism

text: Mus musculus

text: bone marrow

characteristic: organism part

text: Kühn et al 1995, MacLean et al. 2014

text: Mus musculus

text: female

text: fresh specimen

characteristic: title


text: public

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: hematopoietic stem cell

characteristic: cell type

text: house mouse

characteristic: common name

text: adult early hematopoiesis

text: MxCre Cyp26b1 fl/fl (KO)

text: Mouse 4

characteristic: individual

text: Mus musculus

text: Mus musculus

text: bone marrow

text: Kühn et al 1995, MacLean et al. 2014

characteristic: phenotype

text: Mus musculus

text: female

text: fresh specimen

characteristic: specimen with known storage state


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625070374:FCA_P47_male_trachea_D7

text: ArrayExpress

text: fruit fly

text: adult

characteristic: developmental stage

text: Btl-GAL4; UAS-lamGFP

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: trachea

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: male

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

characteristic: SRA accession

text: E-MTAB-106281625070374:FCA_P47_male_trachea_F6

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: fruit fly

characteristic: description

text: adult

text: Btl-GAL4; UAS-lamGFP

text: Drosophila melanogaster

characteristic: organism

text: Drosophila melanogaster

text: trachea

characteristic: organism part

text: pass

text: Drosophila melanogaster

text: male

text: OK

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: BCM

characteristic: INSDC last update

text: killed

characteristic: INSDC status

text: E-MTAB-106281625070374:FCA_P19_male_wing_L23

text: ArrayExpress

text: fruit fly

characteristic: common name

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: wing

text: pass

text: Drosophila melanogaster

text: male

text: OK


characteristic: ENA-CHECKLIST

text: BCM

characteristic: INSDC center name

characteristic: INSDC first public

text: killed

text: E-MTAB-106281625070374:FCA_P21_female_wing_D7

text: ArrayExpress

text: fruit fly

text: adult

text: wild type genotype

text: Drosophila melanogaster

text: Drosophila melanogaster

text: wing

text: pass

characteristic: post analysis single cell quality

text: Drosophila melanogaster

text: female

characteristic: sex

characteristic: single cell identifier

text: OK

characteristic: single cell well quality

characteristic: strain


text: public

characteristic: SRA accession

tag: Namespace:Institute of Food, Nutrition and Health, ETH Zurich, Schwerzenbach, Switzerland

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

text: Protocols: Mice were euthanized by CO2, left or right lobe of iBAT were dissected and snap frozen with liquid nitrogen. Adult mice were kept in room temperature, with chow diet. Acetate or saline were administrated to iBAT with a pump. RNA samples were isolated by Trizol. DNAse treatment were applied. Ribo-zero truseq kit (illumina) was applied for library construction.

characteristic: description

text: adult

text: wild type genotype

text: Mus musculus

characteristic: organism

text: Mus musculus

text: brown adipose tissue

characteristic: organism part

text: left lobe of interscapular fat pad

characteristic: sampling site

text: Mus musculus

text: male

text: acetate

characteristic: stimulus

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Institute of Food, Nutrition and Health, ETH Zurich, Schwerzenbach, Switzerland

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: house mouse

characteristic: common name

text: adult

characteristic: developmental stage

text: wild type genotype

characteristic: genotype

text: Mus musculus

text: Mus musculus

text: brown adipose tissue

text: left lobe of interscapular fat pad

text: Mus musculus

text: male

text: acetate


characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

text: adult

text: wild type genotype

text: Mus musculus

text: Mus musculus

text: brown adipose tissue

text: left lobe of interscapular fat pad

text: Mus musculus

text: male

characteristic: sex

text: saline

characteristic: strain


characteristic: ENA-CHECKLIST

text: public

text: ArrayExpress

text: house mouse

characteristic: description

text: adult

text: wild type genotype

text: Mus musculus

characteristic: organism

text: Mus musculus

text: brown adipose tissue

characteristic: organism part

text: right lobe of interscapular fat pad

characteristic: sampling site

text: Mus musculus

text: male

text: acetate

characteristic: stimulus

characteristic: title


characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:Institute for Integrative Biology of the Cell (I2BC), CNRS

text: ArrayExpress

text: Protocols: pellet 1 mL of overnight culture in LB GENELUTE Bacterial Genomic DNA Kit (Sigma) 5 µg of genomic DNA in 130 µL H2O was sheared with a Covaris S220 focused ultrasonicator (Covaris, Wobum, MA) with target peak at 500 bp. After blunting the DNA ends with T4 DNA polymerase (New England Biolabs, Ipswich, MA) and Klenow Enzyme (Roche, Basel, Switzerland) followed by A-tailing with Klenow Fragment (New England Biolabs), adaptor DNA (Lioy et al., 2018) was ligated. DNA fragments ranging 400~900 bp in size were purified using Pippin Prep (SAGE Science, Beverly, MA) then amplified with Illumina primers PE1.0 and PE2.0. PCR products were purified using QIAGEN MinElute columns (QIAGEN, Hilden, Germany) then size-selected using AMPure XP beads (Beckman Coulter, Brea, CA). [Lioy VS, Cournac A, Marbouty M, Duigou S, Mozziconacci J, Espéli O, et al. Multiscale Structuring of the E. coli Chromosome by Nucleoid-Associated and Condensin Proteins. Cell. 2018;172: 771-783.e18. doi:10.1016/j.cell.2017.12.027]

text: ∆ctxAB::kan ∆motV suppressor mutation(s)

text: Vibrio cholerae

text: Vibrio cholerae

text: whole organism

text: Vibrio cholerae

text: O1 biovar El Tor str. N16961


text: Institute for Integrative Biology of the Cell (I2BC), CNRS

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

characteristic: genotype

text: Vibrio cholerae

text: Vibrio cholerae

text: whole organism

text: Vibrio cholerae

text: O1 biovar El Tor str. N16961


characteristic: ENA-CHECKLIST

text: public

text: ArrayExpress

characteristic: broker name

text: ∆ctxAB::kan ∆motW suppressor mutation(s)

text: Vibrio cholerae

text: Vibrio cholerae

text: whole organism

text: Vibrio cholerae

text: O1 biovar El Tor str. N16961

characteristic: strain


text: public

text: ArrayExpress

characteristic: description

text: ∆ctxAB::kan ∆motV

text: Vibrio cholerae

characteristic: organism

text: Vibrio cholerae

text: whole organism

characteristic: organism part

text: Vibrio cholerae

text: O1 biovar El Tor str. N16961


text: public

text: ArrayExpress

text: ∆ctxAB::kan ∆motW

text: Vibrio cholerae

text: Vibrio cholerae

text: whole organism

text: Vibrio cholerae

text: O1 biovar El Tor str. N16961

characteristic: title


characteristic: ENA-FIRST-PUBLIC

text: USDa

text: public

characteristic: age

text: ArrayExpress

text: maize

characteristic: common name

characteristic: cultivar

text: Protocols: 1st and 2nd leaves and primary root were harvested 6 days after planting. Soil was saturated with tap water and placed under a 50/50 mixture of 4,100 K (Sylvania Supersaver Cool White Delux F34CWX/SS, 34 W) and 3,000 K (GE Ecolux with starcoat, F40CX30ECO, 40 W) light. The photoperiod was 16 h of light and 8 h of dark. The temperature was approximately 25 °C during light hours. The relative humidity was approximately 54%. Harvested tissue was placed in 2 ml of pre-chilled lysis buffer (15 mM Tris-HCl pH 7.5, 20 mM sodium chloride, 80 mM potassium chloride, 0.5 mM spermine, 5 mM 2-mercaptoethanol and 0.2% TritonX-100). The chopped slurry was filtered twice through miracloth and once through a 40-μm cell strainer. The crude nuclei were stained with 4,6-diamidino-2-phenylindole and loaded into a flow cytometer (Beckman Coulter MoFlo XDP). Nuclei were purified by flow sorting and washed in accordance with Lu et al (doi: 10.1093/nar/gkw1179). The sorted nuclei (50,000 nuclei per reaction) were incubated with 2 μl of transposome in 40 μl of tagmentation buffer (10 mM TAPS-sodium hydroxide pH 8.0, 5 mM magnesium chloride) at 37 °C for 30 min without rotation. The integration products were purified using a Qiagen MinElute PCR Purification Kit and then amplified using Phusion DNA polymerase for 11 cycles. PCR cycle number was determined as described previously (10.1038/nmeth.2688). Amplified libraries were purified with AMPure beads to remove primers. To make the ATAC-seq control, nuclei were sorted and genomic DNA was extracted from maize leaves using the Qiagen DNeasy Plant Mini Kit (cat. no. 69106). Then ~1 ng of gDNA was incubated with 2 μl of transposomes in 40 μl of tagmentation buffer at 37 °C for 30 min. All procedures after this were identical to the standard ATAC-seq library protocol described here.

text: inbred/wildtype

text: Zea mays subsp. mays

text: Zea mays subsp. mays

text: input

text: input

characteristic: sampling site

text: Zea mays subsp. mays


characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: USDa

characteristic: INSDC center name

characteristic: INSDC last update

text: public

characteristic: INSDC status

text: ArrayExpress

text: maize

text: inbred/wildtype

text: Zea mays subsp. mays

text: Zea mays subsp. mays

text: leaf

text: 1st and 2nd leaves

text: Zea mays subsp. mays


characteristic: ENA-CHECKLIST

text: USDa

characteristic: INSDC first public

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: ArrayExpress

text: maize

text: inbred/wildtype

characteristic: genotype

text: Zea mays subsp. mays

text: Zea mays subsp. mays

text: root

text: Primary root

text: Zea mays subsp. mays


text: USDa

text: public

text: ArrayExpress

characteristic: broker name

text: maize

characteristic: description

text: inbred/wildtype

text: Zea mays subsp. mays

characteristic: organism

text: Zea mays subsp. mays

text: leaf

characteristic: organism part

text: 1st and 2nd leaves, developing inner leaves

text: Zea mays subsp. mays


Apve

characteristic: ENA-FIRST-PUBLIC

text: UNIVERSITY OF WESTERN ONTARIO

text: public

text: Apve

tag: Namespace:UNIVERSITY OF WESTERN ONTARIO

characteristic: collection date

text: baker's yeast

characteristic: common name

text: Ascomycota Positive Control Saccharomyces

text: equatorial rainforest

characteristic: environment (biome)

text: agricultural field

characteristic: environment (feature)

text: dried baking yeast

characteristic: environment (material)

text: Canada

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: Ontario, London

characteristic: geographic location (region and locality)

text: metagenome

characteristic: investigation type

text: Saccharomyces cerevisiae

characteristic: project name

text: collected from grocery store

characteristic: sample collection device or method

text: Saccharomyces cerevisiae

text: Illumina MiSeq 2x300 bp

characteristic: sequencing method

text: soil

characteristic: soil environmental package

text: frozen -20 �C

characteristic: storage conditions (fresh/frozen/other)

text: Apve

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF WESTERN ONTARIO

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Time 1 Grass Ascomycota

characteristic: description

text: equatorial rainforest

text: agricultural field

text: soil

text: Kenya

text: Kakamega/Township/Bukhaywa

text: metagenome

text: metagenome

characteristic: organism

text: 5 cm internal diameter soil auger, with 1 sample at the centre and 4 at 4 equidistant points at the perimeter of the 10 m x 10 m area chosen

text: metagenome

text: Illumina MiSeq 2x300 bp

text: soil

text: Napier grass

characteristic: specific host

text: frozen -20 �C


text: UNIVERSITY OF WESTERN ONTARIO

text: public

text: Time 1 Sugar Cane Ascomycota

text: equatorial rainforest

characteristic: environment (biome)

text: agricultural field

characteristic: environment (feature)

text: soil

characteristic: environment (material)

text: Kenya

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Kakamega/Township/Bukhaywa

characteristic: geographic location (region and locality)

text: metagenome

characteristic: investigation type

text: metagenome

characteristic: project name

characteristic: sample collection device or method

text: metagenome

text: Illumina MiSeq 2x300 bp

characteristic: sequencing method

text: soil

characteristic: soil environmental package

text: Sugar cane

text: frozen -20 �C


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF WESTERN ONTARIO

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Time 1 Forest Ascomycota

characteristic: description

text: equatorial rainforest

text: agricultural field

text: soil

text: Kenya

text: Magakha, Kakamega Forest Reserve

text: metagenome

text: metagenome

text: metagenome

text: Illumina MiSeq 2x300 bp

text: soil

text: Forest

text: frozen -20 �C

characteristic: storage conditions (fresh/frozen/other)

characteristic: title


text: UNIVERSITY OF WESTERN ONTARIO

text: public

text: Time 2 Sugar Cane Ascomycota

text: equatorial rainforest

characteristic: environment (biome)

text: agricultural field

characteristic: environment (feature)

text: soil

characteristic: environment (material)

text: Kenya

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Kakamega/Township/Bukhaywa

characteristic: geographic location (region and locality)

text: metagenome

characteristic: investigation type

text: metagenome

characteristic: organism

characteristic: project name

characteristic: sample collection device or method

text: metagenome

text: Illumina MiSeq 2x300 bp

text: soil

text: Sugar cane

characteristic: specific host

text: frozen -20 �C


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF WESTERN ONTARIO

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Time 2 Forest Ascomycota

characteristic: description

text: equatorial rainforest

text: agricultural field

text: soil

text: Kenya

text: Magakha, Kakamega Forest Reserve

text: metagenome

text: metagenome

text: metagenome

text: Illumina MiSeq 2x300 bp

characteristic: sequencing method

text: soil

characteristic: soil environmental package

text: Forest

text: frozen -20 �C


text: UNIVERSITY OF WESTERN ONTARIO

text: public

text: Time 2 Maize-Beans Ascomycota

text: equatorial rainforest

characteristic: environment (biome)

text: agricultural field

characteristic: environment (feature)

text: soil

characteristic: environment (material)

text: Kenya

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Kakamega/Township/Bukhaywa

characteristic: geographic location (region and locality)

text: metagenome

characteristic: investigation type

text: metagenome

characteristic: organism

characteristic: project name

text: metagenome

text: Illumina MiSeq 2x300 bp

text: soil

text: Maize-Beans

text: frozen -20 �C

characteristic: storage conditions (fresh/frozen/other)

characteristic: title


Fpve

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF WESTERN ONTARIO

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: Fpve

characteristic: Submitter Id

characteristic: collection date

text: Fungi Positive Control Agaricus

characteristic: description

text: equatorial rainforest

text: agricultural field

text: grocery store mushroom

text: Canada

text: Ontario, London

text: metagenome

text: Agaricus bisporus

text: collected from grocery store

characteristic: sample collection device or method

text: Agaricus bisporus

text: Illumina MiSeq 2x300 bp

text: soil

text: frozen -20 �C

text: Fpve


text: UNIVERSITY OF WESTERN ONTARIO

text: public

text: Time 1 Forest Fungi

text: equatorial rainforest

characteristic: environment (biome)

text: agricultural field

characteristic: environment (feature)

text: soil

characteristic: environment (material)

text: Kenya

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Magakha, Kakamega Forest Reserve

characteristic: geographic location (region and locality)

text: metagenome

characteristic: investigation type

text: metagenome

characteristic: organism

text: metagenome

text: Illumina MiSeq 2x300 bp

characteristic: sequencing method

text: soil

characteristic: soil environmental package

text: Forest

characteristic: specific host

text: frozen -20 �C


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF WESTERN ONTARIO

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Time 1 Maize-Beans Fungi

text: equatorial rainforest

text: agricultural field

text: soil

text: Kenya

text: Kakamega/Township/Bukhaywa

text: metagenome

text: metagenome

characteristic: project name

text: metagenome

text: Illumina MiSeq 2x300 bp

text: soil

text: Maize-Beans

text: frozen -20 �C

characteristic: storage conditions (fresh/frozen/other)

characteristic: title


Ppve

text: UNIVERSITY OF WESTERN ONTARIO

text: public

text: Ppve

text: Prokaryote Postive Burkholderia

characteristic: description

text: equatorial rainforest

characteristic: environment (biome)

text: agricultural field

characteristic: environment (feature)

text: pure colony in media

characteristic: environment (material)

text: Canada

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Ontario, London

characteristic: geographic location (region and locality)

text: metagenome

characteristic: investigation type

text: Burkholderia cepacia

characteristic: organism

text: collected from growing media

characteristic: sample collection device or method

text: Burkholderia cepacia

text: Illumina MiSeq 2x300 bp

characteristic: sequencing method

text: soil

text: frozen -20 �C

text: Ppve


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF WESTERN ONTARIO

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Time 1 Forest Prokaryotes

text: equatorial rainforest

text: agricultural field

text: soil

text: Kenya

text: Magakha, Kakamega Forest Reserve

text: metagenome

text: metagenome

characteristic: project name

text: metagenome

text: Illumina MiSeq 2x300 bp

text: soil

characteristic: soil environmental package

text: Forest

characteristic: specific host

text: frozen -20 �C


text: UNIVERSITY OF WESTERN ONTARIO

text: public

text: Time 1 Maize-Beans Prokaryotes

characteristic: description

text: equatorial rainforest

characteristic: environment (biome)

text: agricultural field

characteristic: environment (feature)

text: soil

characteristic: environment (material)

text: Kenya

characteristic: geographic location (country and/or sea)

characteristic: geographic location (depth)

characteristic: geographic location (elevation)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Kakamega/Township/Bukhaywa

characteristic: geographic location (region and locality)

text: metagenome

characteristic: investigation type

text: metagenome

characteristic: organism

text: metagenome

text: Illumina MiSeq 2x300 bp

text: soil

text: Maize-Beans

text: frozen -20 �C

characteristic: storage conditions (fresh/frozen/other)

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: UNIVERSITY OF WESTERN ONTARIO

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: Time 2 Sugar cane Prokaryotes

text: equatorial rainforest

text: agricultural field

text: soil

text: Kenya

text: Kakamega/Township/Bukhaywa

text: metagenome

text: metagenome

characteristic: project name

characteristic: sample collection device or method

text: metagenome

text: Illumina MiSeq 2x300 bp

characteristic: sequencing method

text: soil

text: Sugar cane

text: frozen -20 �C