title: A_1_control.txt

description:
GeCKO v2 library A, biological replicate 1, control, amplicon sequencing of sgRNA region in GeCKO v2.0 library plasmid
LibA-normalized-compare.txt
Vero-Stx_GeCKOv2_LibA_mageck-result.sgrna_summary.txt
Vero-Stx_GeCKOv2_LibA_mageck.gene_summary.txt


title: 318: NOMO-1 Nut-3a #2

status: Public on May 06 2021

type: RNA

city: Meldola

first: Giorgia

last: Simonetti

state: FC

address: Via Piero Maroncelli, 40

country: Italy

institute: IRCCS Istituto Romagnolo per lo Studio dei Tumori (IRST) "Dino Amadori"

description: Gene expression data of NOMO-1 cells after 16h of treatment with Nutlin-3a (5 mM)

hyb_protocol: Sample hybridization was performed for 16 hours at 45°C according to standard protocol. Washing and staining was performed on an Fluidics Station 450 (Thermo Fisher Scientific).

scan_protocol: GeneChips were scanned using a GeneChip scanner 3000 (Thermo Fisher Scientific).

data_processing: The data were analyzed with Transcriptome Analysis Console 4.0 (Thermo Fisher Scientific). Normalization was performed using the Signal Space Transformation-Robust multiple-array average normalization method (sst-RMA).

label: biotin

molecule: total RNA

organism: Homo sapiens

label_protocol: ss-cDNA was prepared from 100 ng total RNA according to the standard protocol (GeneChip® WT PLUS Reagent Kit User Guide, 2018, Thermo Fisher Scientific).

growth_protocol: Cells were cultured in RPM1 1640 medium supplemented with 10% fetal bovine serum, 2 mM L-glutamine, 100 U/ml of penicillin and 100 μg/ml of streptomycin

extract_protocol: Trizol extraction of total RNA was performed according to the manufacturer's instructions.

treatment_protocol: Cells were treated with Nutlin-3a or GSK2830371 or the drug combination for 16h before harvesting.

tag: cell type

value: acute myeloid leukemia


title: 317: NOMO-1 CTRL #2

description: Gene expression data of vehicle-treated NOMO-1 cells after 16h of culture

source_name: Vehicle-treated NOMO-1 cells after 16h of culture


title: RNA-Seq E10.5

type: SRA

city: Cambridge

first: Paola

last: Arlotta

state: MA

address: 7 Divinity Ave

department: Stem Cell and Regenerative Biology

country: USA

institute: Harvard University

library_source: transcriptomic

data_processing:
Raw sequencing data was processed via the Cell Ranger pipeline (10xGenomics, version 2.0.1) to generate a count matrix from the bcl files.
Genome_build: mm10 (GRCm38.84)
Supplementary_files_format_and_content: filtered feature-barcode matrices HDF5

molecule: polyA RNA

organism: Mus musculus

source_name: mouse brain cortex

extract_protocol:
For single cell RNA seq, tissue pieces were processed to obtain single cell suspension using papain digestion (15-30 minutes according to embryo age) (Papain dissociation kit, Worthington). We followed the protocol as per the provider’s instructions.  After dissociation and concentration, cells were resuspended in BSA 0.04% in PBS, at a concentration of 800-1200 cells/uliter. Cells were counted in a hemocytometer chamber and immediately processed for single cell GEM formation (10x Genomics, single cell RNA sequencing 3’, Chromium V2 or V3 for Fezf2 experiments).
For single cell RNA seq we loaded the 10x chips aiming to recover 7,000–10,000 cells.cDNA amplification and library construction were done following 10xGenomics instructions. For the complete wild type developmental atlas we generated Chromium V2 libraries, while Chromium V3 was used for all Fezf2 experiments. Libraries were quantified in BioAnalyzer and sequenced in HiSeq or NovaSeq illumina platforms.
single cell RNA sequencing 3’, Chromium V2 or V3

treatment_protocol: For embryos E14.5 or younger we dissected the head, for older animals we isolated the brains. Dissection was performed in Hybernate E (Brainbits). The tissue was then embedded in 3% low melting agarose at 35-37C. Once the agarose solidified, the tissue was sectioned in 250um thick sections in a vibratome in iced Hybernate E. Sections were transferred to another plate and the prospective somatosensory cortex was dissected and meninges removed. For the earliest time points (E10.5, E11.5 and E12.5) the prospective somatosensory cortex (medio-lateral region) was dissected without prior sectioning. Tissue was kept in cold buffers and on ice all time. RNAse free technique was used for handling. Cortical tissue from 4 animals was pulled together for each timepoint. For the Fezf2 experiments, samples were directly dissected from the cortex and processed individually, till genotype confirmation, when we combined samples from embryos with the same genotype. We genotyped embryos through PCR and qPCR on DNA extracted quickly from tail clips (QuickExtract DNA Extraction Solution, Lucigen), and through B-galactosidase detection assays.

tag: tissue

value: somatosensory cortex

tag: developmental stage

tag: strain

tag: genotype

value: wild type

tag: chromium single cell 3' solution chemistry


title: ISG12

city: Homburg (Saar)

first: Marc

last: Remke

state: Saarland

address: Kirrberger Straße 100, Gebäude 9

department: Pediatric Translational Oncology Lab

country: Germany

institute: Universitätsklinikum des Saarlandes

data_processing:
Fastq files were imported into Partek Flow (Partek Incorporated, Missouri, USA).
Quality analysis and quality control were performed on all reads to assess read quality and to determine the amount of trimming required (both ends: 13 bases 5´and 1 base 3´).
Trimmed reads were aligned against the hg38 genome using the STAR v2.4.1d aligner. Unaligned reads were further processed using Bowtie 2 v2.2.5 aligner.
Aligned reads were combined before quantifying the expression against the ENSEMBL (release 95) database by the Partek Expectation-Maximization algorithm using the counts per million normalization.
Genes with missing values and with a mean expression less than one were filtered out
Genome_build: mmu10
Supplementary_files_format_and_content: txt

source_name: Sca1-ETV6-RUNX1+Pax5-het B-ALL

extract_protocol:
RNA was isolated using Qiagen kit
500 ng total RNA was processed using the TruSeq RNA Sample Preparation v2 Kit (low-throughput protocol; Illumina, San Diego, USA) to prepare the barcoded libraries.
Libraries were validated and quantified using DNA 1000 and high-sensitivity chips on a Bioanalyzer (Agilent, Böblingen, Germany); 7.5 pM denatured libraries were used as input into cBot (Illumina), followed by deep sequencing using HiSeq 2500 (Illumina) for 101 cycles, with an additional seven cycles for index reading.

tag: alteration background

value: B-ALL

tag: disease state

value: Tumor


title: 6B: NOMO-1 Nut-3a #1

source_name: NOMO-1 cells after 16h of treatment with Nutlin-3a (5 mM)


title: 321: NOMO-1 CTRL #3


title: 316: MV-4-11 Nut-3a+WIP1i #3

description: Gene expression data of MV-4-11 cells after 16h of treatment with Nutlin-3a (0.5 mM) and GSK2830371 (5 mM)


title: 6A: NOMO-1 CTRL #1


title: 312: MV-4-11 Nut-3a+WIP1i #2

source_name: MV-4-11 cells after 16h of treatment with Nutlin-3a (0.5 mM) and GSK2830371 (5 mM)


title: ISG10

source_name: ETV6-ETV6-RUNX1+Sca1-Cre B-ALL


title: RNA-Seq E17.5


title: ISG11


title: ISG08

source_name: ETV6-ETV6-RUNX1+Sca1-Cre T-ALL

value: T-ALL


title: 315: MV-4-11 WIP1i #3

description: Gene expression data of MV-4-11 cells after 16h of treatment with GSK2830371 (5 mM)


title: ISG06


title: ISG05


title: 308: MV-4-11 Nut-3a+WIP1i #1


title: B_3_24h

city: Boston

first: Hai-Tao

last: Wang

state: Massachusetts

address: Center for Life Science Building,  Rm 3117.16, 3 Blackfan Circle

department: Department of Biological Chemistry and Molecular Pharmacology

institute: Boston Children’s Hospital

data_processing:
The raw sequence files were pre-processed using Trimmomatic v. 0.36 to trim Illumina adaptor sequences and low-quality bases. Trimmed reads were mapped to the human genome (UCSC hg38) using STAR aligner v. 2.5.4a.
HTseq-count (v. 0.9.1) was used to count gene reads.
DESeq2 was used for count normalization and differential analysis
Genome_build: human genome (UCSC hg38)
Supplementary_files_format_and_content: tab-delimited text files include counts without normalization for each sample

source_name: U2OS cells

growth_protocol: All cells were maintained at 5.0% CO2 in Dulbecco’s modified Eagle medium (Cellgro) containing 10% fetal bovine serum and 1% L-glutamine. Cell lines were routinely tested for mycoplasma contamination.

extract_protocol:
At indicated timepoints total RNAs were extracted from indicated cells using TRIzol reagent (Thermo Fisher) and RNA Clean & Concentrator (Zymo Research).
Quality control and mRNA-seq library construction were performed by Novogene Co. After the QC procedures, mRNA from eukaryotic organisms is enriched using oligo(dT) beads. The mRNA is fragmented randomly by adding fragmentation buffer, then the cDNA is synthesized by using mRNA template and random hexamers primer, after which a custom second-strand synthesis buffer (Illumina) , dNTPs, RNase H and DNA polymerase I are added to initiate the second-strand synthesis. Second, after a series of terminal repair, A ligation and sequencing adaptor ligation, the double-stranded cDNA library is completed through size selection and PCR enrichment.
Libraries were sequenced on the Illumina NovaSeq 6000 instrument with a paired-end read length of 2 x 150 bp, which resulted in ∼20 M reads per sample.

treatment_protocol: Cells were seeded in 6-wells plate and stimulated with 1 µg 162 bp dsRNA with 5’ ppp.Lipofectamine 2000 (Invitrogen) was used for transfection with 2 µl lipofectamine reagent per µg of dsRNA diluted in 50 ul Opti-MEM (Thermo Fisher) per 500 ng of dsRNA. For mock transfection, cells were transfected with only lipofectamine reagent diluted in Opti-MEM.

tag: cell line

value: G3BP1KO G3BP2KO

tag: treatment

value: 1ug 162bp 5'ppp dsRNA, 24h

tag: replicate


title: B_1_24h


title: ISG07


title: B_2_24h


title: ISG03


title: ISG04


title: A_5_6h

value: G3BP1KO G3BP2KO MAVSKO

value: 1ug 162bp 5'ppp dsRNA, 6h


title: 311: MV-4-11 WIP1i #2

source_name: MV-4-11 cells after 16h of treatment with GSK2830371 (5 mM)


title: A_4_6h


title: ISG02


title: Pol2 old rep2

city: Münster

first: Sara

middle: A

last: Wickström

address: Röntgenstraße 20

department: Cell & Tissue Dynamics

institute: Max Planck Institute for Molecular Biomedicine

library_source: genomic

data_processing:
ChIP seq data
BWA MEM (version 0.7.15) was used to map raw reads
macs2 (version 2.2.7.1) was used to call peaks
DiffBind (version 2.14.0) was used for the differential analysis of consensus peaks
Genome_build: GRCm38.81
Supplementary_files_format_and_content: H3K27me3.all_peaks.tsv, H3K4me3.all_peaks.tsv and Pol2.all_peaks.tsv containing location, foldchanges and p-values for consensus peaks

molecule: genomic DNA

source_name: hair follicle stem cells

growth_protocol: freshly isolated hair follicle stem cells from mouse

extract_protocol:
Skin pieces were incubated in 0.8% trypsin in PBS for 60 minutes at 37°C. After incubation, the epidermis was manually detached from the dermis, single cell epidermal suspensions where generated by pippeting and collected by centrifugation. Cells were labeled with antibodies against Cd34 and alpha6 integrin, after which Cd34 alpha6 integrin-double positive cells were isolated by flow cytometry. H3K4me3, H3K27me3 and Pol2 ChIP-Seq experiments were performed using Diagenode’s ChIPmentation Kit for Histones (C01011010). Briefly, freshly purified HFSCs were crosslinked with 0.25% methanol free formaldehyde (ThermoFisher 28906) for 10 min at room temperature. Fixation was terminated by adding 0.125 M Glycine in PBS for 5 min at room temperature. Cells were subsequently washed with PBS after which cells were pelleted by centrifugation at 5000 RPM for 10 minutes at 4C. Cell pellets were lysed through 10 strokes of Dounce homogenization to aid nuclear release. Lysates were sonicated using a Covaris M20 sonicator (4-9 C temperature range; 15% duty factor 75% peak power) for 10 min. After sonication, samples were subjected to centrifugation at 21000xg for 5 min at 4 C and the supernatant were collected as the chromatin fraction. DNA concentration was measured using Qubit DS High-sensitivity kit (Invitrogen) and sample concentrations were adjusted to be equal. 10% of chromatin was collected as input and 2 µl was analyzed using Agilent 2200 TapeStation to ensure optimal shearing (300-600 bp fragments) and the rest was subjected to immunoprecipitation. For this, sheared chromatin, DiaMag Protein A-coated beads and 3 µg of antibody (H3K27me3, Active motif #39155; H3K4me3, Cell Signaling #9727; or Pol2, Cell Signaling #14958) were combined to a ChIP reaction mix and incubated overnight at 4 C. Beads were collected using a magnet, washed, resuspended in tagmentation buffer containing 1 ul of tagementation enzyme and incubated for 10 min at 37C. After several washes, bound complexes were stripped of the beads, end repaired and cross-linking was reversed.
For ChIPmentation libraries, the optimal cycle number for library amplification was determined by qPCR (12-14 cycles) and library prepared for sequencing by PCR using barcoded primer sets.

value: skin

value: HFSCs

tag: chip ab

value: Cell signaling ,#14958


title: ISG09


title: A_3_6h


title: 310: MV-4-11 Nut-3a #2

description: Gene expression data of MV-4-11 cells after 16h of treatment with Nutlin-3a (0.5 mM)


title: Pol2 old rep1


title: 314: MV-4-11 Nut-3a #3

source_name: MV-4-11 cells after 16h of treatment with Nutlin-3a (0.5 mM)


title: ISG01


title: 306: MV-4-11 Nut-3a #1


title: A_6_6h


title: 307: MV-4-11 WIP1i #1


title: 313: MV-4-11 CTRL #3

description: Gene expression data of vehicle-treated MV-4-11 cells after 16h of culture

source_name: Vehicle-treated MV-4-11 cells after 16h of culture


title: PBP1a 16-Hour Depletion rep 4

city: Columbia

first: Jacob

middle: Matthew

last: Bouchier

state: Missouri

address: 105 Tucker Hall

department: Division of Biological Sciences

institute: University of Missouri

description: Sample 20

data_processing:
cutadapt version 0.16 was used to remove detected adapter sequences.
bowtie2 (2.3.4.3) was used to purge all samples of reads that mapped to transcripts are rRNA genes.
The remaining reads were mapped to the Agrobacterium fabrum str. C58 genome using STAR (version 2.5.4b)
Bioconductor package DESeq2 was used for pairwise comparisons showing differential expression of genes
Genome_build: Agrobacterium fabrum str. C58 v1
Supplementary_files_format_and_content: Excel Workbook file of pairwise comparisons showing differential expression in each condition

organism: Agrobacterium fabrum str. C58

source_name: Bacterial cells

growth_protocol: Cells were grown overnight in 2 ml of ATGN minimal media at 28°C with shaking; the + PBP1a strains and WT + IPTG strains were supplemented with 1mM IPTG.

extract_protocol:
RNA was isolated from the -PBP1a_6hr strains after 6 hours of growth, and RNA was isolated from all other strains after 16 hours of growth. To prepare samples, a culture volume equivalent to 6 ml at an optical density at 600 nm (OD600) of 0.2-0.3 was pelleted by centrifugation at 7000 x g for 5 minutes and pellets were resuspended in 1mL of ATGN media and incubated with 2 mL of RNAProtect reagent (QIAgen) for 15 min at room temperature. Cells were lysed with 10 mg lysozyme, and RNA was extracted using the QIAgen RNEasy kit.
DNA libraries for sequencing were constructed following the manufacturer’s protocol with reagents supplied in Illumina’s TruSeq mRNA stranded sample preparation kit.  The sample concentration was determined by Qubit flourometer (Invitrogen) using the Qubit HS RNA assay kit, and the RNAintegrity was checked using the Fragment Analyzer automated electrophoresis system.  Briefly, the poly-A containing mRNA is purified from total RNA, RNA is fragmented, double-stranded cDNA is generated from fragmented RNA, and the index containing adapters are ligated to the ends.  The amplified cDNA constructs were purified by addition of Axyprep Mag PCR Clean-up beads.

treatment_protocol: Cells were pelleted by centrifugation at 7000 x g for 5 minutes. Cell pellets were washed three times with ATGN by centrifugation and resuspension to remove IPTG. PBP1a depletions were grown in the absence of IPTG for 6 hours and 16 hours. WT + IPTG and PBP1a + IPTG were grown with 1mM IPTG added back.

value: Washed of IPTG (3x)

tag: depletion time

value: 16 hours


title: A_2_6h


title: 309: MV-4-11 CTRL #2


title: Pol2 young rep2


title: Pol2 young rep1


title: MP_RNA2

source_name: A549 cells

value: 1ug 162bp 5'ppp dsRNA, 4h


title: PBP1a 16-Hour Depletion rep 2

description: Sample 18


title: H3K4me3 old rep2

value: Cell signaling, #9727


title: PBP1a 16-Hour Depletion rep 3

description: Sample 19


title: A_1_6h


title: PBP1a 16-Hour Depletion rep 1

description: Sample 17


title: D4


title: H3K4me3 young rep2


title: D2

value: mock


title: PBP1a 6-Hour Depletion rep 4

description: Sample 16

value: 6 hours


title: D1


title: PBP1a 6-Hour Depletion rep 2

description: Sample 14


title: C4

value: WT


title: H3K4me3 young rep1


title: H3K27me3 old rep3

value: active motif, 39155


title: H3K27me3 old rep2


title: PBP1a 6-Hour Depletion rep 1

description: Sample 13


title: C3


title: 305: MV-4-11 CTRL #1

value: acute myeloid leukemia


title: H3K4me3 old rep1


title: Anthers at S 2.5

city: Beijing

first: Shiqing

last: Gao

address: Shuguang Garden Middle Street

department: Beijing Engineering Research Center for Hybrid Wheat

country: China

institute: Beijing Academy of Agriculture and Forestry Sciences

hyb_protocol: Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Drosophila Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.

scan_protocol: GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.

data_processing: The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The rimmed The rimmed mean target intensity of each array was arbitrarily set to 100.

organism: Triticum aestivum

source_name: about 2.5 mm in anther length under sterile conditions

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA.

growth_protocol: anthers collections of BS366 according to the different length 1.5mm-3.0mm  grown under fertile and sterile conditions

treatment_protocol: The plants were vernalized naturally in the field and then grown in phytotrons at 20 °C with a 12 h photoperiod for the entire reproductive period, except during low-temperature treatment（ 10 °C with a 12 h photoperiod）for 5 d.

value: thermosensitive genic male sterile (TGMS) line BS366

value: meiosis stage

tag: condition

value: Anthers


title: PBP1a + IPTG rep 4

description: Sample 12

value: IPTG


title: H3K27me3 old rep1


title: Anthers at S 2.0

source_name: about 2.0 mm in anther length under sterile conditions


title: PBP1a + IPTG rep 3

description: Sample 11


title: Anthers at S 3.0

source_name: about 3.0 mm in anther length under sterile conditions


title: C1


title: C2


title: Anthers at F 3.0

source_name: about 3.0 mm in anther length under  fertile conditions


title: Anthers at F 2.5

source_name: about 2.5 mm in anther length under  fertile conditions


title: H3K27me3 young rep3


title: Anthers at S 1.5

source_name: about 1.5 mm in anther length under sterile conditions


title: B4

value: G3BP1KO G3BP2KO


title: PBP1a 6-Hour Depletion rep 3

description: Sample 15


title: PBP1a + IPTG rep 2

description: Sample 10


title: PBP1a + IPTG rep 1

description: Sample 9


title: B3


title: H3K27me3 young rep1

value: skin


title: Wild type + IPTG rep 4

description: Sample 8


title: Anthers at S 2.2

source_name: about 2.2 mm in anther length under sterile conditions


title: RNA-Seq Fezf2het_E13

data_processing:
Raw sequencing data was processed via the Cell Ranger pipeline (10xGenomics, version 2.0.1) to generate a count matrix from the bcl files.
Genome_build: mm10 (GRCm38.84)
Supplementary_files_format_and_content: Unfiltered feature-barcode matrices HDF5

source_name: mouse brain cortex

treatment_protocol: For embryos E14.5 or younger we dissected the head, for older animals we isolated the brains. Dissection was performed in Hybernate E (Brainbits). The tissue was then embedded in 3% low melting agarose at 35-37C. Once the agarose solidified, the tissue was sectioned in 250um thick sections in a vibratome in iced Hybernate E. Sections were transferred to another plate and the prospective somatosensory cortex was dissected and meninges removed. For the earliest time points (E11.5 and E12.5) the prospective somatosensory cortex (medio-lateral region) was dissected without prior sectioning. Tissue was kept in cold buffers and on ice all time. RNAse free technique was used for handling. Cortical tissue from 4 animals was pulled together for each timepoint. For the Fezf2 experiments, samples were directly dissected from the cortex and processed individually, till genotype confirmation, when we combined samples from embryos with the same genotype. We genotyped embryos through PCR and qPCR on DNA extracted quickly from tail clips (QuickExtract DNA Extraction Solution, Lucigen), and through B-galactosidase detection assays.

value: somatosensory cortex

value: Fezf2 Het


title: Anthers at F 2.0

source_name: about 2.0 mm in anther length under  fertile conditions


title: Anthers at F 2.2

source_name: about 2.2 mm in anther length under  fertile conditions


title: Wild type + IPTG rep 3

description: Sample 7


title: RNA-Seq Fezf2KO_P1

value: Fezf2 KO


title: Keloid_7, KL6

city: Seoul

first: Young In

last: Lee

address: 50-1 Yonsei-ro, Seodaemun-gu

country: South Korea

institute: Yonsei College of Medicine

data_processing:
All FASTQ reads were trimmed for quality and adapter content using Trimmomatic v.0.32
The data was aligned to the human reference genome Hg38 using HISAT2 v.2.1.0
The data was then quantified as transcripts per million (TPM) using StringTie v.2.0.6, and the read counts were retrieved using the Python script available from StringTie to feed the raw read counts
Genome_build: Hg38
Supplementary_files_format_and_content: K*_gene_tpm.txt (Comma-delimited text file includes TPM values)
Supplementary_files_format_and_content: gene_count_matrix_9samples.csv (Matrix table with raw gene counts for every gene and every sample)

source_name: Skin

extract_protocol: RNA libraries were prepared for sequencing using standard Illumina protocols

value: Asian keloid


title: Keloid_9, KL9


title: Keloid_6, KL5


title: B1

source_name: U2OS cells


title: Anthers at F1.5

source_name: about 1.5 mm in anther length under  fertile conditions


title: RNA-Seq Fezf2KO_E15


title: Keloid_5, KL3


title: Keloid_8, KL7


title: H3K27me3 young rep2

source_name: hair follicle stem cells

value: HFSCs


title: Wild type + IPTG rep 2

description: Sample 6


title: A3

value: 1ug 162bp 5'ppp dsRNA, 6h


title: Wild type + IPTG rep 1

description: Sample 5


title: RNA-Seq Fezf2KO_E13


title: A4


title: Keloid_4, KC4

value: control


title: B2

value: mock


title: Keloid_3, KC3


title: Wild type rep 4

description: Sample 4


title: RNA-Seq Fezf2Het_P1M


title: A2

value: WT


title: A1


title: Wild type rep 3

description: Sample 3


title: RNA-Seq Fezf2Het_P1F


title: CYP3A4-knockout iPS cell-derived hepatocye-like cells

city: Kyoto

first: Kazuo

last: Takayama

state: Kyoto

address: Shogoin Kawaharacho 53, Sakyo-ku

department: Center for iPS Cell Research and Application

country: Japan

institute: Kyoto University

data_processing:
bcl2fastq2 v2.20 software used for basecalling.
Sequenced reads were mapped to hg19 whole genome using STAR 2.6.0c.
Transcripts per million (TPM) were calculated using Genedata Profiler Genome 13.0.11.
Genome_build: GRCh37/hg19
Supplementary_files_format_and_content: excel files include TPM values for each Sample.

source_name: hepatocyte

growth_protocol: The human iPS cell line (FCL-iPS), which was generated from PHHs, was used. The details are available in our previous report (Takayama et al., 2014). The human iPS cells were maintained on a feeder layer of mitomycin C-treated mouse embryonic fibroblasts (Millipore) with ReproStem medium (ReproCELL) supplemented with 10 ng/mL fibroblast growth factor 2 (Katayama Chemical Industries). Each CYP3A4-knockout iPS cells and wild type iPS cells were differentiated into hepatocyte-like cells. The 4-step hepatic differentiation protocol was conducted following our previous reports (Takayama et al., 2014).

extract_protocol:
By using RNeasy Mini Kit (QIAGEN), total RNA was isolated from human iPS cell-derived hepatocyte-like cells.
RNA libraries were prepared using the TruSeq Stranded mRNA Library Prep Kit(Illumina), according to the manufacturer’s instructions


title: Keloid_2, KC2


title: Wild type rep 2

description: Sample 2

source_name: Bacterial cells


title: Keloid_1, KC1


title: wild type iPS cell-derived hepatocye-like cells

value: wild type

value: human iPS cell-derived hepatocyte-like cells


title: Wild type rep 1

description: Sample 1


title: SoleS_Rep2

status: Public on May 05 2021

city: Tianjin

first: Feiyu

last: Fan

state: Tianjin

address: 32 West 7th Avenue, Tianjin Airport Economic Area

institute: Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences

description: ΔURA3 cells grown overnight were inoculated into 50 ml liquid Synthetic Dextrose (SD) medium with the initial inoculation amount of OD600= 0.1, and cultured for 24 hours to the logarithmic growth phase (OD600= 2-3). The cells were collected by centrifugation at 6000g for 5 minutes. After washing twice with phosphate buffer saline (PBS), they were inoculated into new 50 mL SD medium containing 2% w/v succinic acid as the sole carbon source (SoleS) .The pH of the culture sample is adjusted to 5.0 with NaOH. After flask culturing at 30°C and 250 rpm for an additional three hours, the yeast cells were collected by centrifugation for total RNA isolation and Illumina RNA-seq library construction.

data_processing:
Illumina Casava1.7 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to Pichia kudriavzevii CY902 genome using Bowtie 2 (version 2.2.5)
Fragments Per Kilobase of exon per Megabase of library size (FPKM) were calculated
Detailed parameters for reads mapping: bowtie2 -x CY902 -1 X_1.fq -2 X_2.fq --no-mixed -p 2 -S X.sam
Genome_build: Pichia kudriavzevii CY902
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample .

organism: Pichia kudriavzevii

source_name: Yeast cells

extract_protocol:
Total RNA was isolated by the Trizol-Phenol-Chloroform method. An additional clean-up including the on-column DNase I treatment was performed by using the RNeasy mini kit (Qiagen).
RNA libraries were prepared for sequencing using standard Illumina protocols

treatment_protocol: The cells were collected by centrifugation at 6000g for 5 minutes. After washing twice with phosphate buffer saline (PBS), they were inoculated into new 50 mL SD medium containing different carbon sources.The pH of the culture sample is adjusted to 5.0 with NaOH. After flask culturing at 30°C and 250 rpm for an additional three hours, the yeast cells were collected by centrifugation for total RNA isolation and Illumina RNA-seq library construction.

value: delta-URA3 strain

tag: growth

value: SD medium, 2% w/v succinic acid,pH=5.0


title: GS_Rep2

description: ΔURA3 cells grown overnight were inoculated into 50 ml liquid Synthetic Dextrose (SD) medium with the initial inoculation amount of OD600= 0.1, and cultured for 24 hours to the logarithmic growth phase (OD600= 2-3). The cells were collected by centrifugation at 6000g for 5 minutes. After washing twice with phosphate buffer saline (PBS), they were inoculated into new 50 mL SD medium containing 2% w/v glucose plus 2% w/v succinic acid (GS) .The pH of the culture sample is adjusted to 5.0 with NaOH. After flask culturing at 30°C and 250 rpm for an additional three hours, the yeast cells were collected by centrifugation for total RNA isolation and Illumina RNA-seq library construction.

value: SD medium, 2%w/v glucose + 2% w/v succinic acid,pH=5.0


title: GS_Rep1

growth_protocol: ΔURA3 cells grown overnight were inoculated into 50 ml liquid Synthetic Dextrose (SD) medium with the initial inoculation amount of OD600= 0.1, and cultured for 24 hours to the logarithmic growth phase (OD600= 2-3).


title: SoleS_Rep1


title: SoleG_Rep1

description: ΔURA3 cells grown overnight were inoculated into 50 ml liquid Synthetic Dextrose (SD) medium with the initial inoculation amount of OD600= 0.1, and cultured for 24 hours to the logarithmic growth phase (OD600= 2-3). The cells were collected by centrifugation at 6000g for 5 minutes. After washing twice with phosphate buffer saline (PBS), they were inoculated into new 50 mL SD medium containing 2% w/v glucose (Referred to as SoleG) .The pH of the culture sample is adjusted to 5.0 with NaOH. After flask culturing at 30°C and 250 rpm for an additional three hours, the yeast cells were collected by centrifugation for total RNA isolation and Illumina RNA-seq library construction.

value: SD medium, 2%w/v glucose,pH=5.0


title: SoleG_Rep2


title: RNA-Seq Fezf2Het_E15


title: CHB14

city: Hangzhou

first: Huizeng

last: Sun

state: Zhejiang

address: 866 Yuhangtang Road

department: College of Animal Sciences

institute: Zhejiang University

data_processing:
Low-quality bases and adapter sequence was trimmed and quality of reads was filtered using fastq-mcf with parameters quality score ³ 20 and length ³ 75
The cleaned reads were then aligned to the reference bovine genome UMD3.1 (http://bovinegenome.org/?q=umd_downloads) and assembled with TopHat2 (v2.0.9) software package
Samtools (v1.1) was then applied to generate BAM alignment files and convert them into SAM format
HTSeq-count (v0.6.1) was used to quantify the number of mapped reads per each bovine gene
the number of mapped reads was normalized into counts per million (CPM) according to the formula: CPM = (number of reads mapped to a gene) ÷ (total number of reads mapped to all annotated genes) × 106.
Genome_build: bovine genome UMD3.1 (http://bovinegenome.org/?q=umd_downloads)
Supplementary_files_format_and_content: tab-delimited text files include counts values for each Sample

organism: Bos taurus

source_name: Backfat tissue

extract_protocol:
Approximately 100 mg of frozen tissue samples were ground to fine powder in a sterilized mortar and then rumen epithelium, liver, and muscle tissue samples were applied to isolate the total RNA using a mirVana total RNA Isolation Kit (Ambion, Carlsbad, CA, USA) while backfat tissue was applied to isolate total RNA using RNeasy Lipid Tissue Mini Kit (Qiagen, Germany) following the manufacturer’s instructions. The RNA was quantified using the Qubit 2.0 Fluorometer (Invitrogen, Carlsbad, CA, USA) and checked for purity and integrity using the Agilent 2200 TapeStation (Agilent Technologies, Santa Clara, CA, USA). RNA with the ration of 28S/18S ranging from 1.7 to 2.4 and the RNA integrity number greater than 7.0 was used for RNA-Seq library construction.
RNA libraries were prepared for sequencing using standard Illumina protocols

value: subcutaneous fat

tag: feed efficiency

value: High

tag: breed

value: Charolais


title: CHB13


title: G. stearothermophilus ATCC 12980_Spores_a

city: Farmington

first: Peter

last: Setlow

state: CT

address: 263 Farmington Ave

department: Molecular Biology and Biophysics

institute: UConn Health

data_processing:
Files were concatenated.
Quality was assessed using FASTQC v011.8
Files trimmed Sickle single end V. 133
RPKM files were generated with EDGE_pro v1.3.1
Genome_build: ASM1506v1; ASM2582v1; ASM224349v1; ASM230013v1; ASM904v1; ASM208006v1
Supplementary_files_format_and_content: Coverage, #reads, RPKM

organism: Geobacillus stearothermophilus ATCC 12980

source_name: G. stearothermophilus ATCC 12980

growth_protocol: G. stearothermophilus spores were prepared on nutrient broth agar, as described previously (4), and incubated for ~48 hours at 65 ˚C in lightly sealed bags with an empty plate containing water to keep the humidity high.  4. Huesca-Espitia LC, Suvira M, Rosenbeck K, Korza G, Setlow B, Li W, Wang S, Li YQ, Setlow P. 2016. Effects of steam autoclave treatment on Geobacillus stearothermophilus spores. J Appl Microbiol 121:1300-13112.

extract_protocol:
1 ml of each strain of dormant spores at an OD600 of 25 was pelleted by centrifugation. Prior to pelleting, to get a more accurate quantitation of the number of spores present, spore samples were diluted 1 to 25 in water, to give an OD600 of ~1.0, and the numbers of spores were counted in a Petroff-Hausser chamber to determine spores per ml. Spores were disrupted by shaking with glass beads in a Mini-Bead-beater (Biospec Products, Bartlesville, OK) for 1 min, followed by 1 min on ice with a total of two disruption periods, and giving >98% spore breakage (9). RNA was extracted using the RiboPure – Bacteria kit (Thermo Fisher Scientific, Waltham, MA) as previously described (9). Total RNA was quantitated using the Qubit RNA HS (High Sensitivity) Assay Kit (Thermo Fisher Scientific) (10) with the Qubit Fluorometer, using appropriate dilutions to get measurements that fell within the standard curve (500 ng/mL maximum concentration). Generally, a dilution range of 1:500 to 1:1000 of the purified initial total RNA gave quantifiable values. From this obtained concentration and the previously counted spore value, values of total RNA per spore were determined.     9. Korza G, Setlow B, Li Q, Rao L, Setlow P. 2016. Changes in Bacillus small molecules, rRNA, germination and outgrowth after extended sublethal exposure to various temperatures: evidence that protein synthesis is not essential for spore germination. J Bacteriol 198:3254-3264.  10. Garcia-Elias A, Alloza L, Puigdecanet E, Nonell L, Tajes M, Curado J, Enjuanes C, Diaz O, Bruguera J, Martí-Almor J, Comin-Colet J, Benito B. 2017. Defining quantification methods and optimizing protocols for microarray hybridization of circulating microRNAs. Sci Rep 7:7725.
Total RNA extracted and purified from spores of various species was submitted to University of Connecticut’s Center for Genome Innovation for ribosomal RNA depletion, RNA-seq library synthesis, and next-generation sequencing. Briefly, total RNA was ribo-depleted to remove most rRNA, the quality of the ribo-depleted RNA examined using the Agilent TapeStation 4200 D1000 high-sensitivity assay, and RNA-seq on RNA from all species was carried out on duplicate samples using an Illumina Next-Seq 500/550, all as described previously (11,12). Sequencing read depth was targeted at > 4 x 106 reads per sample. RNA-seq data were processed and analyzed as described previously (14) and levels of mRNA nt in an individual spore in populations were calculated using values for total RNA nt per individual spore determined as described above, and assuming that spore mRNA comprised 3% of total RNA (11).      11. Korza G, Camilleri E, Green J, Robinson J, Nagler K, Moeller R, Caimano MJ, Setlow P. 2019. Analysis of messenger RNAs in spores of Bacillus subtilis. J Bacteriol 201:e-00007-19.  12. Camilleri E, Korza G, Green J, Hui J, Li YQ, Caimano MJ, Setlow P. 2019. Properties of aged spores of Bacillus subtilis. J Bacteriol 201:e00231-19.

treatment_protocol: Spores of all species were scraped from plates into 4 ˚C water and highly purified over ~7 d as described previously(6,7,8), including a final purification by centrifugation through a very high density (Histodenz) medium to remove spore associated debris as much as possible. Final spore preparations were >98% free from growing or sporulating cells and germinated spores as determined by phase contrast microscopy and spores pelleted by centrifugation had no obvious debris on the pellet surface. Spores were stored in water at 4 ˚C protected from light.    6. Crawshaw AD, Serrano M, Stanley WA, Henriques AO, Salgado PS. 2014. A mother cell-to-forespore channel: current understanding and future challenges. FEMS Microbiol Lett 358:129-136.

value: Spores


title: CHB12


title: B. thuringiensis Al Hakam_Spores_a

organism: Bacillus thuringiensis str. Al Hakam

source_name: B. thuringiensis Al Hakam

growth_protocol: Spores of B. subtilis PS533  B. atrophaeus ATCC 9372 and B. thuringiensis Al Hakam were prepared as previously described on double strength Schaeffer's glucose agar plates(1,2) which were incubated for ~48 hours at 37 ˚C.   1. Nicholson WL, Setlow P. 1990. Sporulation, germination and outgrowth, p 391-450. In Harwood CR, Cutting SM (ed.), Molecular biological methods for Bacillus. John Wiley and Sons, Chichester, UK.  2. Paidhungat M, Setlow B, Driks A, Setlow P. 2000. Characterization of spores of Bacillus subtilis which lack dipicolinic acid. J Bacteriol 182:5505-5512.

value: Al Hakam


title: CHB7

value: Low


title: CHB11


title: CHB10


title: B. megaterium QMB1551_Spores_b

description: Obtained from H.S. Levinson

organism: Priestia megaterium QM B1551

source_name: B. megaterium QMB1551

growth_protocol: B. megaterium spores prepared on supplemented nutrient broth agar plates (3) which were incubated for 48 hours at 30 ˚C.  3. Nicholson WL, Setlow P. 1990. Sporulation, germination and outgrowth, p 391-450. In Harwood CR, Cutting SM (ed.), Molecular biological methods for Bacillus. John Wiley and Sons, Chichester, UK.


title: CHB8


title: G. stearothermophilus ATCC 12980_Spores_b


title: CHB6


title: CHB15


title: CHB4


title: CHB16


title: CHB5


title: CHB3


title: B. megaterium QMB1551_Spores_a

description: Obtained from H.S. Levinson


title: CHB2


title: B. thuringiensis Al Hakam_Spores_b


title: CHB1


title: ANB15

value: Angus


title: ANB14


title: ANB13


title: ANB12


title: ANB10


title: ANB11


title: CHB9


title: ANB9


title: ANB2


title: KCB11

value: Kinsella


title: ANB7


title: ANB5


title: ANB1


title: KCB13


title: ANB3


title: KCB10


title: KCB16


title: ANB6


title: KCB9


title: ANB4


title: KCB7


title: KCB14


title: KCB6


title: KCB5


title: KCB2


title: KCB3


title: CHM14

source_name: Muscle tissue

value: Muscle


title: CHM12


title: KCB15


title: CHM11


title: ANB8


title: KCB12


title: KCB1


title: KCB8


title: CHM10


title: KCB4


title: CHM9


title: CHM7


title: CHM5


title: CHM3


title: CHM4


title: CHM2


title: CHM8


title: CHM6


title: ANM14


title: ANM11


title: ANM10


title: ANM15


title: CHM13


title: ANM12


title: ANM13


title: ANM9


title: ANM8


title: ANM7


title: ANM5


title: ANM3


title: ANM4


title: ANM2


title: KCM15


title: ANM1


title: KCM14


title: CHM1


title: KCM13


title: ANM16


title: KCM11


title: KCM12


title: KCM9


title: KCM10


title: KCM7


title: KCM3


title: KCM5


title: KCM2


title: KCM4


title: KCM6


title: ANM6


title: CHL16

source_name: Liver tissue

value: liver


title: CHL15


title: CHL14


title: CHL13


title: CHL8


title: CHL9


title: CHL11


title: CHL7


title: CHL5


title: CHL6


title: CHL4


title: CHL3


title: CHL1


title: KCM8


title: CHL2


title: ANL16


title: ANL15


title: ANL13


title: KCM1


title: ANL14


title: CHL12


title: ANL12


title: ANL9


title: ANL8


title: ANL4


title: ANL10


title: CHL10


title: ANL7


title: ANL6


title: ANL5


title: ANL1


title: ANL3


title: KCL16


title: KCL15


title: ANL2


title: KCL13


title: KCL12


title: KCL14


title: KCL8


title: KCL11


title: KCL10


title: ANL11


title: KCL9


title: KCL7


title: KCL6


title: KCL5


title: KCL4


title: CHR16

source_name: rumen epithelium

value: rumen epithelium


title: CHR15


title: KCL1


title: CHR14


title: CHR11


title: CHR12


title: CHR8


title: CHR9


title: CHR13


title: CHR6


title: CHR3


title: CHR1


title: CHR7


title: CHR5


title: CHR2


title: CHR4


title: ANR14


title: ANR15


title: ANR13


title: ANR11


title: ANR12


title: ANR10


title: ANR9


title: ANR7


title: ANR6


title: CHR10


title: ANR3


title: ANR2


title: ANR5


title: ANR4


title: KCR16


title: ANR16


title: KCR5


title: KCR4


title: KCR6


title: KCR12


title: KCR15


title: KCR11


title: KCR10


title: KCR8


title: ANR8


title: KCR9


title: KCR13


title: KCR7


title: B_Ct_R2_L2

city: Uppsala

first: Kristian

middle: Erik

last: Persson Hodén

address: Almas allé 5

department: Plant Biology

country: Sweden

institute: Swedish University of Agricultural Sciences

data_processing:
smallRNA processing: The function SamToFastq, included in the Picard tool package, was used to convert the original BAM format to FASTQ format (for the raw data which was not already in FASTQ format), on which a quality control was performed, using FastQC
smallRNA processing: Cutadapt, quality trimming (20), read length filtration 18 - 38 nt
smallRNA processing: Bowtie2 in combination with SAMtools view were used for tRNA and rRNA trimming and potato and P. infestans sRNA filtering to exclude the reads from the other genome for the different datasets, using 0 mismatches allowed per seed against each Fasta filter
smallRNA processing:  SamToFastq converted the files to fastq
smallRNA processing: Seqtk was applied to convert the FASTQ files to FASTA.
Degradome processing: Raw RNA reads from degradome libraries were adaptor- and quality trimmed with Cutadapt
Degradome processing: Seqtk was applied to convert the FASTQ files to FASTA.
The sRNA and degradome fasta files and  were analyzed in PAREsnip2.
PAREsnip output data was imported in R where PAREsnip2 replicates were merged and duplicated targets were discarded.
Resulting datasets were analyzed in our machine learning script (https://github.com/kristianHoden/degradome). False positives were discarded
The datsets were sorted in list according to their Normalized Fragment Abundance (NFA) and targeting transcriptome
Solanom tuberosum genome v4.04, Phytophthora infestans genome (ASM14294v1)
fasta format of small RNA and degradome libraries
Genome_build: Solanom tuberosum genome v4.04, Phytophthora infestans genome (ASM14294v1)
Supplementary_files_format_and_content: pinfDown - contain the datasets with targets in P. infestans with decreased NFA of the targets upon infection
Supplementary_files_format_and_content: pinfUp - - contain the datasets with targets in P. infestans with increased NFA of the targets upon infection
Supplementary_files_format_and_content: potDown - contain the datasets with targets in potato with decreased NFA of the targets upon infection
Supplementary_files_format_and_content: potUp - - contain the datasets with targets in potato with increased NFA of the targets upon infection
Supplementary_files_format_and_content: rDown - contain the datasets with targets in resistance (R) genes in potato with decreased NFA of the targets upon infection
Supplementary_files_format_and_content: rUp - contain the datasets with targets in resistance (R) genes in potato with increased NFA of the targets upon infection

organism: Solanum tuberosum

source_name: Leaves

growth_protocol: Potato plants were grown in-vitro at 22°C with a 16-h photoperiod on Murashige-Skoog (MS) medium (Duchefa Biochemie B.V., Amsterdam, Netherlands), supplemented with 2% (w/v) sucrose and 0.3% (w/v) gelrite (Duchefa). After 3 weeks plants were transferred to pots with soil in a growth chamber with the same light and temperature regime. P. infestans were maintained at 20 °C on rye agar medium supplemented with 2 % sucrose (Caten & Jinks 1968), rifampicin (10 μg ml−1), and pimaricin (10 μg ml−1). Transgenic lines of P. infestans isolate 88069 were maintained as above, but with the addition of the antibiotic geneticin (G418; 10 μg ml−1) to the medium.

extract_protocol:
Inoculated leaves were harvested and flash frozen in liquid nitrogen.
Degradome library preparation was performed as earlier outlined (Sanz-Carbonell et al. 2020). 10 libraries were sequenced at SciLifeLab (Uppsala, Sweden) using HiSeq2500 rapid SR50 technologies.

treatment_protocol: H2O inoculations were added to the leaves 4 weeks post transfer to soil from in-vitro conditions.

tag: potato cultivar

value: Bintje

tag: dpi

value: Leaves


title: B_Ct_R2_L1

tag: tissue


title: B_Ct_R1_L1


title: all H2O 2

extract_protocol:
Inoculated leaves were harvested and flash frozen in liquid nitrogen.
sRNA libraries were generated using Illumina small RNA sample preparation kit. Libraries were prepared by SciLife sequencing platform (Stockholm, Sweden) under their in-house conditions and sequenced using Illumina HiSeq 2500

value: Sarpo Mira


title: B_Ct_R1_L2


title: all H2O 1


title: ANR1


title: LN_2

city: Rehovot

first: Ido

last: Amit

address: 234 Herzl st.

department: Immunology

country: Israel

institute: Weizmann Institute of Science

description: injection of PBS or MS 48 hr prior to experiment (capture area contained LN treated with PBS and LN treated with MS)

data_processing:
10x genomics pipeline
mm10
Genome_build: refdata-cellranger-mm10-1.2.0.tar.gz
Supplementary_files_format_and_content: tab-delimited text files include mRNA molecule count values for each Sample

extract_protocol:
Auricular LNs and the MCA205 tumor were prepared according to Visium spatial protocols of tissue preparation guide (10x genomics). Firstly, freshly obtained tissue samples were snap frozen in liquid nitrogen, then embedded in chilled Optimal Cutting Temperature compound (OCT; Tissue-Tek) and frozen on dry ice, then stored at -80°C in a sealed container for later use. For Visium samples preparation, OCT-embedded tissue blocks were cut to 10 µm thick using a LEICA CM1950 machine and mounted on the Visium spatial gene expression slide.
10x genomics visium spatial gene expression
10x genomics visium gene expression dual index : 28bp R1 and 150 bp R2

treatment_protocol: for the lymph node mice were injected with either PBS or Mycobacterium smegmatis (Ms) for 48 hr; for the tumor mice were injected with MCA205 tumor 14 days prior to the experiment

tag: strain

tag: organ

value: lymph node

tag: cell type

value: mixed -whole tissue

tag: selection marker

tag: age

value: 6 weeks

tag: Sex

value: female

value: PBS or MS


title: LN_1

tag: treatment


title: KT2440-3

city: Sevilla

first: Fernando

last: Govantes

state: Sevilla

address: Carretera de Utrera, Km. 1

department: Biología Molecular e Ingeniería Bioquímica

country: Spain

institute: Centro Andaluz de Biología del Desarrollo, Universidad Pablo de Olavide

data_processing:
Quality of the reads was checked with FastQC software.
Reads were mapped to the P. putida KT2440 reference genome (GenBank:NC_002947.4) using Bowtie2 v.2.3.5.1.
Mapped data were converted to BAM format using Samtools v1.11.
Quantification of gene expression was performed using featureCounts (Subread package) with default parameters against manually-curated Pseudomonas Database gene annotation file for P. putida KT2440.
Genome_build: NC_002947.4
Supplementary_files_format_and_content: Count matrix of gene counts per sample in plain text (TXT)

organism: Pseudomonas putida KT2440

source_name: wild-type P. putida KT2440

growth_protocol: Overnight cultures of 3 biological replicates of P. putida KT2440 wild-type were 1:100-diluted in fresh Luria-Bertani (LB) broth, and incubated at 30 ºC and 180 rpm shaking until stationary phase (OD600=2).

extract_protocol:
Aliquots of 1 mL were harvested by centrifugation, frozen with liquid nitrogen and stored at -80 ºC. Cell pellets were resuspended in 1 mL of TRIsureTM (Bioline) and incubated for 10 min at 60 ºC. Samples were centrifuged and supernatant was transferred to pre-compacted Phase Lock GelTM tubes (5PRIME). 200 µL of chloroform were added to each tube, mixed by inversion, kept in ice for 15 min and then centrifuged. 400 µL of phenol:chloroform:isoamyl alcohol (25:24:1) were added to each tube and then centrifuged. Aqueous phase was transferred to a new tube and 1 volume of isopropanol was added, mixed by inversion and kept in ice for 10 minutes. Tubes were centrifuged and pellets were washed with 1 mL of cold ethanol 70% (v/v). Pellets were dried at room temperature and resuspended in RNAse-free water. Remaining DNA was degraded by treatment with TURBO™ DNase kit (ThermoFischer) and purified with RNeasy Mini Kit (QIAGEN) following the manufacturers' instructions. Complete absence of DNA traces was checked by PCR.
5 µg of total RNA of each sample was sent to CABIMER Genomics facility (Seville, Spain). Depletion of rRNA and preparation of cDNA libraries were carried out with the Illumina Stranded TOTAL RNA preparation RIBO-ZERO PLUS kit. Single-end sequencing was performed with the Illumina NextSeq 500 HIGH-Output flow cell and 1x75bp length parameters. Libraries are fr-firststranded.

tag: genotype

value: wild-type


title: KCR14

value: High


title: LN_MS-2

description: injection of MS 48 hr prior to experiment

extract_protocol:
Auricular LNs were digested in IMDM containing 100 µg/mL Liberase TL and 100 µg/mL DNase I (both from Roche, Germany) for 20 minutes at 37°C. Last 5 minutes of incubation, EDTA was added at a final concentration of 10 mM. Cells were collected, filtered through a 70mm cell strainer, washed with PBS + 0.04% BSA for a final concentration of 1000 cells/µL.
10x genomics v3.1 dual index
10x genomics single cell 3' RNA-seq 3’ : 28bp R1 and 90 bp R2

treatment_protocol: mice were injected with either PBS or Mycobacterium smegmatis (Ms) for 48 hr

value: MS


title: KT2440-1


title: Tumor_2

description: injection of MCA205 tumor 14 days prior to experiment

value: Tumor

value: 8 weeks

value: MCA205 tumor injection


title: AB3157 304 UT m_7 CD45

data_processing:
bcl2fastq/2.15.0.4
Sequences with RMT of low quality (defined as RMT with minimum Phred score of less than 27) were filtered out.
Pool-barcode and well-barcode-RMT were extracted from the first and second end of the read (respectively) and concatenated to the fastq header, delimited by a underscore i.e. POOL_BARCODE_WELL_BARCODE_RMT while "NNNNNN" was used as a place holders if plate barcode was not used.
Reads were separated by POOL_BARCODE_WELL_BARCODE header data, allowing 1 sequencing error. This process created a single fastq file for each source well.
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text files include mRNA molecule count values for each Sample

extract_protocol:
Single cells were sorted into 384-well plates and single cell RNA-seq libraries were generated using a modified version of the single cell MARS-seq protocol [Jaitin et al., Science 2014; Keren-Shaul et al., Nature Protocols 2019]. In brief, mRNA from cells sorted into cell capture plates were barcoded, converted into cDNA and pooled using an automated pipeline. The pooled cDNA are then amplified and Illumina libraries are being generated.
single cell RNA-seq for gene expression quantitation

value: MCA205 tumor

value: Immune cells


title: LN_MS-1


title: AB3156 303 UT m_7 CD45


title: AB3154 301 UT m_7 TCR

source_name: 301 UT m_7 TCR

value: T cells enrichment


title: AB3149 296 UT m_6 TCR

source_name: 296 UT m_6 TCR


title: AB3148 295 UT m_6 TCR

source_name: 295 UT m_6 TCR


title: AB3146 293 UT m_6 CD45


title: AB3151 298 UT m_7 CD45


title: AB3150 297 UT m_7 CD45


title: LN_PBS-2

description: injection of PBS 48 hr prior to experiment

value: PBS


title: AB3153 300 UT m_7 CD45


title: KT2440-2


title: AB3152 299 UT m_7 CD45


title: LN_PBS-1


title: AB3147 294 UT m_6 CD45


title: AB3145 292 UT m_6 CD45


title: AB3124 271 UT m_2 CD45


title: AB3122 269 UT m_2 CD45


title: AB3144 291 UT m_6 CD45


title: AB3126 273 UT m_2 TCR

source_name: 273 UT m_2 TCR


title: AB3118 265 UT m_1 CD45


title: AB3123 270 UT m_2 CD45


title: Tumor_1


title: AB3125 272 UT m_2 TCR

source_name: 272 UT m_2 TCR


title: AB3121 268 UT m_2 CD45


title: AB3120 267 UT m_1 TCR

source_name: 267 UT m_1 TCR


title: AB3119 266 UT m_1 TCR

source_name: 266 UT m_1 TCR


title: AB3155 302 UT m_7 TCR

source_name: 302 UT m_7 TCR


title: AB3117 264 UT m_1 CD45


title: AB3115 262 UT m_1 CD45


title: AB3116 263 UT m_1 CD45


title: F_P7_hyperoxia_CD31_1_DC36_G13

city: Kensington

first: Fabio

last: Zanini

state: NSW

address: High and Botany St

country: Australia

institute: University of New South Wales

data_processing:
Mapping against human genome with VEEV-TC83-GFP added as an additional chromosome (using STAR 2.5.2b)
Counting gene expression using htseq-count 0.10
Genome_build: GRCh38
Supplementary_files_format_and_content: Counts table: raw read counts, not notmalized, rows are gene names, columns are cell names. Metadata file: rows are cell names, columns are metadata.

source_name: distal lung

extract_protocol:
no extraction
scRNA-Seq: plate-based illumina-compatible Tn5 transposase single cell RNA-Seq

tag: sequencing run

tag: gender

value: F

tag: plate

tag: well

tag: timepoint

value: hyperoxia

value: endothelial

tag: cell subtype

value: Early Car4- capillaries

tag: mousename

tag: coverage

tag: number of genes


title: F_P7_hyperoxia_CD31_1_DC36_H13


title: F_P7_hyperoxia_CD31_1_DC36_A15

value: Venous EC


title: F_P7_hyperoxia_CD31_1_DC36_J2


title: F_P7_hyperoxia_CD31_1_DC36_N20

value: Arterial EC I


title: F_P7_hyperoxia_CD31_1_DC36_B23


title: F_P7_hyperoxia_CD31_1_DC36_F22


title: F_P7_hyperoxia_CD31_1_DC36_G6


title: F_P7_hyperoxia_CD31_1_DC36_B18

value: Proliferative EC


title: F_P7_hyperoxia_CD31_1_DC36_I6


title: F_P7_hyperoxia_CD31_1_DC36_J15


title: F_P7_hyperoxia_CD31_1_DC36_L23

value: Arterial EC II


title: F_P7_hyperoxia_CD31_1_DC36_E20


title: F_P7_hyperoxia_CD31_1_DC36_P19

value: Lymphatic EC


title: F_P7_hyperoxia_CD31_1_DC36_B17


title: F_P7_hyperoxia_CD31_1_DC36_M14


title: F_P7_hyperoxia_CD31_1_DC36_A13


title: F_P7_hyperoxia_CD31_1_DC36_H10


title: F_P7_hyperoxia_CD31_1_DC36_M6


title: F_P7_hyperoxia_CD31_1_DC36_N17


title: F_P7_hyperoxia_CD31_1_DC36_C7


title: F_P7_hyperoxia_CD31_1_DC36_D5


title: F_P7_hyperoxia_CD31_1_DC36_H18


title: F_P7_hyperoxia_CD31_1_DC36_D8

value: Car4+ capillaries


title: F_P7_hyperoxia_CD31_1_DC36_K16


title: F_P7_hyperoxia_CD31_1_DC36_D14


title: ANB16

source_name: Backfat tissue

tag: tissue

value: subcutaneous fat

tag: feed efficiency

value: High

tag: breed

value: Angus


title: F_P7_hyperoxia_CD31_1_DC36_E18

tag: cell type


title: F_P7_hyperoxia_CD31_1_DC36_A20


title: F_P7_hyperoxia_CD31_1_DC36_G17


title: F_P7_hyperoxia_CD31_1_DC36_K18


title: F_P7_hyperoxia_CD31_1_DC36_K7


title: F_P7_hyperoxia_CD31_1_DC36_D4


title: F_P7_hyperoxia_CD31_1_DC36_H9


title: F_P7_hyperoxia_CD31_1_DC36_O11


title: F_P7_hyperoxia_CD31_1_DC36_I1


title: F_P7_hyperoxia_CD31_1_DC36_G4

value: Proliferative venous EC


title: F_P7_hyperoxia_CD31_1_DC36_K10


title: F_P7_hyperoxia_CD31_1_DC36_F13


title: F_P7_hyperoxia_CD31_1_DC36_H4


title: F_P7_hyperoxia_CD31_1_DC36_M4


title: F_P7_hyperoxia_CD31_1_DC36_N11


title: F_P7_hyperoxia_CD31_1_DC36_I7


title: F_P7_hyperoxia_CD31_1_DC36_B15


title: F_P7_hyperoxia_CD31_1_DC36_B7


title: F_P7_hyperoxia_CD31_1_DC36_A22


title: F_P7_hyperoxia_CD31_1_DC36_F20


title: F_P7_hyperoxia_CD31_1_DC36_I16


title: F_P7_hyperoxia_CD31_1_DC36_L19


title: F_P7_hyperoxia_CD31_1_DC36_F21


title: F_P7_hyperoxia_CD31_1_DC36_L4


title: F_P7_hyperoxia_CD31_1_DC36_J14


title: F_P7_hyperoxia_CD31_1_DC36_P9


title: F_P7_hyperoxia_CD31_1_DC36_I23


title: F_P7_hyperoxia_CD31_1_DC36_B1


title: F_P7_hyperoxia_CD31_1_DC36_A2


title: F_P7_hyperoxia_CD31_1_DC36_K23


title: F_P7_hyperoxia_CD31_1_DC36_D12


title: F_P7_hyperoxia_CD31_1_DC36_K22


title: F_P7_hyperoxia_CD31_1_DC36_M20


title: F_P7_hyperoxia_CD31_1_DC36_C10


title: F_P7_hyperoxia_CD31_1_DC36_N21


title: F_P7_hyperoxia_CD31_1_DC36_E13


title: F_P7_hyperoxia_CD31_1_DC36_N6


title: F_P7_hyperoxia_CD31_1_DC36_F11


title: F_P7_hyperoxia_CD31_1_DC36_M2


title: F_P7_hyperoxia_CD31_1_DC36_B21


title: F_P7_hyperoxia_CD31_1_DC36_M15


title: F_P7_hyperoxia_CD31_1_DC36_C13


title: F_P7_hyperoxia_CD31_1_DC36_A11


title: F_P7_hyperoxia_CD31_1_DC36_C8


title: F_P7_hyperoxia_CD31_1_DC36_O23


title: F_P7_hyperoxia_CD31_1_DC36_P11


title: F_P7_hyperoxia_CD31_1_DC36_M7


title: F_P7_hyperoxia_CD31_1_DC36_P15


title: F_P7_hyperoxia_CD31_1_DC36_N22


title: F_P7_hyperoxia_CD31_1_DC36_A4


title: F_P7_hyperoxia_CD31_1_DC36_P22


title: F_P7_hyperoxia_CD31_1_DC36_D10


title: F_P7_hyperoxia_CD31_1_DC36_J11


title: F_P7_hyperoxia_CD31_1_DC36_C5


title: F_P7_hyperoxia_CD31_1_DC36_N14


title: F_P7_hyperoxia_CD31_1_DC36_F10


title: F_P7_hyperoxia_CD31_1_DC36_H5


title: F_P7_hyperoxia_CD31_1_DC36_N1


title: F_P7_hyperoxia_CD31_1_DC36_J23


title: F_P7_hyperoxia_CD31_1_DC36_P16


title: F_P7_hyperoxia_CD31_1_DC36_I22


title: F_P7_hyperoxia_CD31_1_DC36_G15


title: F_P7_hyperoxia_CD31_1_DC36_J9


title: F_P7_hyperoxia_CD31_1_DC36_F18


title: F_P7_hyperoxia_CD31_1_DC36_G3


title: F_P7_hyperoxia_CD31_1_DC36_K11


title: F_P7_hyperoxia_CD31_1_DC36_I20


title: F_P7_hyperoxia_CD31_1_DC36_M22


title: F_P7_hyperoxia_CD31_1_DC36_E23

value: Late Car4- capillaries


title: F_P7_hyperoxia_CD31_1_DC36_E8


title: F_P7_hyperoxia_CD31_1_DC36_P2


title: F_P7_hyperoxia_CD31_1_DC36_O2


title: F_P7_hyperoxia_CD31_1_DC36_M9


title: F_P7_hyperoxia_CD31_1_DC36_P23


title: F_P7_hyperoxia_CD31_1_DC36_D21


title: F_P7_hyperoxia_CD31_1_DC36_O6


title: F_P7_hyperoxia_CD31_1_DC36_H23


title: F_P7_hyperoxia_CD31_1_DC36_P18


title: F_P7_hyperoxia_CD31_1_DC36_G11


title: F_P7_hyperoxia_CD31_1_DC36_N2


title: F_P7_hyperoxia_CD31_1_DC36_L9


title: F_P7_hyperoxia_CD31_1_DC36_L5


title: F_P7_hyperoxia_CD31_1_DC36_A1


title: F_P7_hyperoxia_CD31_1_DC36_O18


title: F_P7_hyperoxia_CD31_1_DC36_H19


title: F_P7_hyperoxia_CD31_1_DC36_E6


title: F_P7_hyperoxia_CD31_1_DC36_A3


title: F_P7_hyperoxia_CD31_1_DC36_F4


title: F_P7_hyperoxia_CD31_1_DC36_I19


title: F_P7_hyperoxia_CD31_1_DC36_G22


title: F_P7_hyperoxia_CD31_1_DC36_G12


title: F_P7_hyperoxia_CD31_1_DC36_N18


title: F_P7_hyperoxia_CD31_1_DC36_E1


title: F_P7_hyperoxia_CD31_1_DC36_A8


title: F_P7_hyperoxia_CD31_1_DC36_G7


title: F_P7_hyperoxia_CD31_1_DC36_F17


title: F_P7_hyperoxia_CD31_1_DC36_A9


title: F_P7_hyperoxia_CD31_1_DC36_M8


title: F_P7_hyperoxia_CD31_1_DC36_P4


title: F_P7_hyperoxia_CD31_1_DC36_N15


title: F_P7_hyperoxia_CD31_1_DC36_I3


title: F_P7_hyperoxia_CD31_1_DC36_I9


title: F_P7_hyperoxia_CD31_1_DC36_O13


title: F_P7_hyperoxia_CD31_1_DC36_H2


title: F_P7_hyperoxia_CD31_1_DC36_K5


title: F_P7_hyperoxia_CD31_1_DC36_J10


title: F_P7_hyperoxia_CD31_1_DC36_D22


title: F_P7_hyperoxia_CD31_1_DC36_O10


title: F_P7_hyperoxia_CD31_1_DC36_E19


title: F_P7_hyperoxia_CD31_1_DC36_I10


title: F_P7_hyperoxia_CD31_1_DC36_G2


title: F_P7_hyperoxia_CD31_1_DC36_P6


title: F_P7_hyperoxia_CD31_1_DC36_K14


title: F_P7_hyperoxia_CD31_1_DC36_H8


title: F_P7_hyperoxia_CD31_1_DC36_J17


title: F_P7_hyperoxia_CD31_1_DC36_I21


title: F_P7_hyperoxia_CD31_1_DC36_D1


title: F_P7_hyperoxia_CD31_1_DC36_M21


title: F_P7_hyperoxia_CD31_1_DC36_O7


title: F_P7_hyperoxia_CD31_1_DC36_M1


title: F_P7_hyperoxia_CD31_1_DC36_A17


title: F_P7_hyperoxia_CD31_1_DC36_B12


title: F_P7_hyperoxia_CD31_1_DC36_K20


title: F_P7_hyperoxia_CD31_1_DC36_G23


title: F_P7_hyperoxia_CD31_1_DC36_J18


title: F_P7_hyperoxia_CD31_1_DC36_C14


title: F_P7_hyperoxia_CD31_1_DC36_I15


title: F_P7_hyperoxia_CD31_1_DC36_B3


title: F_P7_hyperoxia_CD31_1_DC36_E17


title: F_P7_hyperoxia_CD31_1_DC36_N5


title: F_P7_hyperoxia_CD31_1_DC36_E21


title: F_P7_hyperoxia_CD31_1_DC36_L15


title: F_P7_hyperoxia_CD31_1_DC36_B5


title: F_P7_hyperoxia_CD31_1_DC36_D6


title: F_P7_hyperoxia_CD31_1_DC36_O12


title: F_P7_hyperoxia_CD31_1_DC36_M19


title: F_P7_hyperoxia_CD31_1_DC36_A7


title: F_P7_hyperoxia_CD31_1_DC36_P21


title: F_P7_hyperoxia_CD31_1_DC36_P10


title: F_P7_hyperoxia_CD31_1_DC36_J16


title: F_P7_hyperoxia_CD31_1_DC36_E2


title: F_P7_hyperoxia_CD31_1_DC36_O3


title: F_P7_hyperoxia_CD31_1_DC36_B2


title: F_P7_hyperoxia_CD31_1_DC36_F5


title: F_P7_hyperoxia_CD31_1_DC36_G21


title: F_P7_hyperoxia_CD31_1_DC36_D16


title: F_P7_hyperoxia_CD31_1_DC36_I14


title: F_P7_hyperoxia_CD31_1_DC36_H14


title: F_P7_hyperoxia_CD31_1_DC36_J19


title: F_P7_hyperoxia_CD31_1_DC36_L20


title: F_P7_hyperoxia_CD31_1_DC36_N16


title: F_P7_hyperoxia_CD31_1_DC36_N4


title: F_P7_hyperoxia_CD31_1_DC36_L21


title: F_P7_hyperoxia_CD31_1_DC36_D20


title: F_P7_hyperoxia_CD31_1_DC36_O15


title: F_P7_hyperoxia_CD31_1_DC36_O19


title: F_P7_hyperoxia_CD31_1_DC36_A12


title: F_P7_hyperoxia_CD31_1_DC36_K1


title: F_P7_hyperoxia_CD31_1_DC36_K3


title: F_P7_hyperoxia_CD31_1_DC36_J1


title: F_P7_hyperoxia_CD31_1_DC36_E22


title: F_P7_hyperoxia_CD31_1_DC36_G18


title: F_P7_hyperoxia_CD31_1_DC36_G20


title: F_P7_hyperoxia_CD31_1_DC36_O21


title: F_P7_hyperoxia_CD31_1_DC36_L22


title: F_P7_hyperoxia_CD31_1_DC36_F14


title: F_P7_hyperoxia_CD31_1_DC36_H3


title: F_P7_hyperoxia_CD31_1_DC36_A21


title: F_P7_hyperoxia_CD31_1_DC36_C18


title: F_P7_hyperoxia_CD31_1_DC36_G8


title: F_P7_hyperoxia_CD31_1_DC36_K12


title: F_P7_hyperoxia_CD31_1_DC36_G16


title: F_P7_hyperoxia_CD31_1_DC36_N19


title: F_P7_hyperoxia_CD31_1_DC36_J22


title: F_P7_hyperoxia_CD31_1_DC36_P1


title: F_P7_hyperoxia_CD31_1_DC36_J12


title: F_P7_hyperoxia_CD31_1_DC36_M10


title: F_P7_hyperoxia_CD31_1_DC36_C22


title: F_P7_hyperoxia_CD31_1_DC36_F6


title: F_P7_hyperoxia_CD31_1_DC36_O17


title: F_P7_hyperoxia_CD31_1_DC36_A14


title: F_P7_hyperoxia_CD31_1_DC36_C23


title: F_P7_hyperoxia_CD31_1_DC36_O1


title: F_P7_hyperoxia_CD31_1_DC36_K19


title: F_P7_hyperoxia_CD31_1_DC36_M18


title: F_P7_hyperoxia_CD31_1_DC36_H21


title: F_P7_hyperoxia_CD31_1_DC36_N23


title: F_P7_hyperoxia_CD31_1_DC36_D15


title: F_P7_hyperoxia_CD31_1_DC36_L2


title: F_P7_hyperoxia_CD31_1_DC36_E16


title: F_P7_hyperoxia_CD31_1_DC36_H17


title: F_P7_hyperoxia_CD31_1_DC36_J3


title: F_P7_hyperoxia_CD31_1_DC36_C21


title: F_P7_hyperoxia_CD31_1_DC36_P14

value: Nonproliferative embryonic EC


title: F_P7_hyperoxia_CD31_1_DC36_D23


title: F_P7_hyperoxia_CD31_1_DC36_C3


title: F_P7_hyperoxia_CD31_1_DC36_B16


title: F_P7_hyperoxia_CD31_1_DC36_O9


title: F_P7_hyperoxia_CD31_1_DC36_K6


title: F_P7_hyperoxia_CD31_1_DC36_E11


title: F_P7_hyperoxia_CD31_1_DC36_P3


title: F_P7_hyperoxia_CD31_1_DC36_K17


title: F_P7_hyperoxia_CD31_1_DC36_M3


title: F_P7_hyperoxia_CD31_1_DC36_L10


title: F_P7_hyperoxia_CD31_1_DC36_I5


title: F_P7_hyperoxia_CD31_1_DC36_I8


title: F_P7_hyperoxia_CD31_1_DC36_H20


title: F_P7_hyperoxia_CD31_1_DC36_M11


title: F_P7_hyperoxia_CD31_1_DC36_I12


title: F_P7_hyperoxia_CD31_1_DC36_F15


title: F_P7_hyperoxia_CD31_1_DC36_L13


title: F_P7_hyperoxia_CD31_1_DC36_G9


title: F_P7_hyperoxia_CD31_1_DC36_B20


title: F_P7_hyperoxia_CD31_1_DC36_N7


title: F_P7_hyperoxia_CD31_1_DC36_B13


title: F_P7_hyperoxia_CD31_1_DC36_E12


title: F_P7_hyperoxia_CD31_1_DC36_E9


title: F_P7_hyperoxia_CD31_1_DC36_C20


title: F_P7_hyperoxia_CD31_1_DC36_E3


title: F_P7_hyperoxia_CD31_1_DC36_E7


title: F_P7_hyperoxia_CD31_1_DC36_J8


title: F_P7_hyperoxia_CD31_1_DC36_C15


title: F_P7_hyperoxia_CD31_1_DC36_F3


title: F_P7_hyperoxia_CD31_1_DC36_J21


title: F_P7_hyperoxia_CD31_1_DC36_C19


title: F_P7_hyperoxia_CD31_1_DC36_A5


title: F_P7_hyperoxia_CD31_1_DC36_O5


title: F_P7_hyperoxia_CD31_1_DC36_K13


title: F_P7_hyperoxia_CD31_1_DC36_J4


title: F_P7_hyperoxia_CD31_1_DC36_A6


title: F_P7_hyperoxia_CD31_1_DC36_K9


title: F_P7_hyperoxia_CD31_1_DC36_N12


title: F_P7_hyperoxia_CD31_1_DC36_E15


title: F_P7_hyperoxia_CD31_1_DC36_G5


title: F_P7_hyperoxia_CD31_1_DC36_K15


title: F_P7_hyperoxia_CD31_1_DC36_C16


title: F_P7_hyperoxia_CD45_2_DC35_B1


title: F_P7_hyperoxia_CD45_2_DC35_J3


title: F_P7_hyperoxia_CD31_1_DC36_F2


title: M_P7_hyperoxia_CD45_2_DC35_B12

value: M


title: F_P7_hyperoxia_mesench_1_DC34_M8

value: F


title: F_P7_hyperoxia_CD31_1_DC36_B9

value: hyperoxia


title: F_P7_hyperoxia_mesench_2_DC34_O19

value: endothelial


title: F_P7_hyperoxia_CD31_1_DC36_I17


title: M_P7_hyperoxia_CD31_1_DC30_H2

value: Early Car4- capillaries


title: M_P7_hyperoxia_CD31_1_DC30_K8


title: M_P7_hyperoxia_CD31_1_DC30_J21

value: Venous EC


title: M_P7_hyperoxia_CD31_1_DC30_I1


title: M_P7_hyperoxia_CD31_1_DC30_D11


title: M_P7_hyperoxia_CD45_2_DC35_H8


title: M_P7_hyperoxia_CD31_1_DC30_H18


title: M_P7_hyperoxia_CD31_1_DC30_I2


title: M_P7_hyperoxia_CD31_1_DC30_P16


title: M_P7_hyperoxia_CD31_1_DC30_D14


title: M_P7_hyperoxia_CD31_1_DC30_D13


title: M_P7_hyperoxia_CD31_1_DC30_P14


title: M_P7_hyperoxia_CD31_1_DC30_G2


title: F_P7_hyperoxia_CD45_2_DC35_G1


title: M_P7_hyperoxia_CD31_1_DC30_M17


title: M_P7_hyperoxia_CD31_1_DC30_J10


title: M_P7_hyperoxia_CD31_1_DC30_M19


title: F_P7_hyperoxia_mesench_1_DC34_I21


title: M_P7_hyperoxia_CD31_1_DC30_M15


title: M_P7_hyperoxia_CD31_1_DC30_A20


title: M_P7_hyperoxia_CD31_1_DC30_A10


title: M_P7_hyperoxia_CD31_1_DC30_N9


title: M_P7_hyperoxia_CD31_1_DC30_B7


title: M_P7_hyperoxia_CD31_1_DC30_P8


title: M_P7_hyperoxia_CD31_1_DC30_C22


title: M_P7_hyperoxia_CD31_1_DC30_C15


title: M_P7_hyperoxia_CD31_1_DC30_O13


title: M_P7_hyperoxia_CD31_1_DC30_K20


title: M_P7_hyperoxia_CD31_1_DC30_H12


title: M_P7_hyperoxia_CD31_1_DC30_F20


title: M_P7_hyperoxia_CD31_1_DC30_C2


title: M_P7_hyperoxia_CD31_1_DC30_M20

value: Arterial EC I


title: M_P7_hyperoxia_CD31_1_DC30_C17


title: M_P7_hyperoxia_CD31_1_DC30_A5


title: M_P7_hyperoxia_CD31_1_DC30_L22


title: M_P7_hyperoxia_CD31_1_DC30_N18


title: M_P7_hyperoxia_CD31_1_DC30_K13


title: M_P7_hyperoxia_CD31_1_DC30_J13

value: Proliferative EC


title: M_P7_hyperoxia_CD31_1_DC30_I12


title: M_P7_hyperoxia_CD31_1_DC30_B16


title: M_P7_hyperoxia_CD31_1_DC30_I23


title: M_P7_hyperoxia_CD31_1_DC30_B22


title: M_P7_hyperoxia_CD31_1_DC30_E16


title: M_P7_hyperoxia_CD31_1_DC30_G14


title: M_P7_hyperoxia_CD31_1_DC30_N19


title: M_P7_hyperoxia_CD31_1_DC30_C19


title: M_P7_hyperoxia_CD31_1_DC30_O6


title: M_P7_hyperoxia_CD31_1_DC30_E13


title: M_P7_hyperoxia_CD31_1_DC30_B21


title: M_P7_hyperoxia_CD31_1_DC30_A19


title: M_P7_hyperoxia_CD31_1_DC30_L2


title: M_P7_hyperoxia_CD31_1_DC30_H16


title: M_P7_hyperoxia_CD31_1_DC30_F2


title: M_P7_hyperoxia_CD31_1_DC30_N13


title: M_P7_hyperoxia_CD31_1_DC30_G9


title: M_P7_hyperoxia_CD31_1_DC30_H15


title: M_P7_hyperoxia_CD31_1_DC30_C20


title: M_P7_hyperoxia_CD31_1_DC30_I19

value: Arterial EC II


title: M_P7_hyperoxia_CD31_1_DC30_O8


title: M_P7_hyperoxia_CD31_1_DC30_I3


title: M_P7_hyperoxia_CD31_1_DC30_O20


title: M_P7_hyperoxia_CD31_1_DC30_D17

value: Lymphatic EC


title: M_P7_hyperoxia_CD31_1_DC30_N11


title: M_P7_hyperoxia_CD31_1_DC30_B5


title: M_P7_hyperoxia_CD31_1_DC30_G12


title: M_P7_hyperoxia_CD31_1_DC30_E21


title: M_P7_hyperoxia_CD31_1_DC30_G17


title: M_P7_hyperoxia_CD31_1_DC30_I9


title: M_P7_hyperoxia_CD31_1_DC30_E4


title: M_P7_hyperoxia_CD31_1_DC30_K16


title: M_P7_hyperoxia_CD31_1_DC30_L7


title: M_P7_hyperoxia_CD31_1_DC30_I4


title: M_P7_hyperoxia_CD31_1_DC30_O7


title: M_P7_hyperoxia_CD31_1_DC30_G22


title: M_P7_hyperoxia_CD31_1_DC30_I6


title: M_P7_hyperoxia_CD31_1_DC30_F3


title: M_P7_hyperoxia_CD31_1_DC30_J20

value: Car4+ capillaries


title: M_P7_hyperoxia_CD31_1_DC30_H7


title: M_P7_hyperoxia_CD31_1_DC30_E18


title: M_P7_hyperoxia_CD31_1_DC30_I22


title: M_P7_hyperoxia_CD31_1_DC30_N16


title: M_P7_hyperoxia_CD31_1_DC30_D9


title: M_P7_hyperoxia_CD31_1_DC30_C6


title: M_P7_hyperoxia_CD31_1_DC30_E20


title: M_P7_hyperoxia_CD31_1_DC30_N1


title: M_P7_hyperoxia_CD31_1_DC30_G13


title: M_P7_hyperoxia_CD31_1_DC30_F17


title: M_P7_hyperoxia_CD31_1_DC30_B8


title: M_P7_hyperoxia_CD31_1_DC30_P22


title: M_P7_hyperoxia_CD31_1_DC30_L6


title: M_P7_hyperoxia_CD31_1_DC30_N14


title: M_P7_hyperoxia_CD31_1_DC30_J7


title: M_P7_hyperoxia_CD31_1_DC30_N10


title: M_P7_hyperoxia_CD31_1_DC30_G7


title: M_P7_hyperoxia_CD31_1_DC30_F18


title: M_P7_hyperoxia_CD31_1_DC30_A6


title: M_P7_hyperoxia_CD31_1_DC30_G5


title: M_P7_hyperoxia_CD31_1_DC30_F4


title: M_P7_hyperoxia_CD31_1_DC30_O5


title: M_P7_hyperoxia_CD31_1_DC30_L5


title: M_P7_hyperoxia_CD31_1_DC30_M12


title: M_P7_hyperoxia_CD31_1_DC30_C12


title: M_P7_hyperoxia_CD31_1_DC30_F10


title: M_P7_hyperoxia_CD31_1_DC30_G18


title: M_P7_hyperoxia_CD31_1_DC30_D2


title: M_P7_hyperoxia_CD31_1_DC30_L8


title: M_P7_hyperoxia_CD31_1_DC30_H22


title: M_P7_hyperoxia_CD31_1_DC30_J9


title: M_P7_hyperoxia_CD31_1_DC30_B18


title: M_P7_hyperoxia_CD31_1_DC30_H5


title: M_P7_hyperoxia_CD31_1_DC30_D1


title: M_P7_hyperoxia_CD31_1_DC30_C13


title: M_P7_hyperoxia_CD31_1_DC30_K7


title: M_P7_hyperoxia_CD31_1_DC30_J23


title: M_P7_hyperoxia_CD31_1_DC30_J17


title: M_P7_hyperoxia_CD31_1_DC30_A12


title: M_P7_hyperoxia_CD31_1_DC30_M22


title: M_P7_hyperoxia_CD31_1_DC30_I8


title: M_P7_hyperoxia_CD31_1_DC30_P17


title: M_P7_hyperoxia_CD31_1_DC30_L14


title: M_P7_hyperoxia_CD31_1_DC30_D22


title: M_P7_hyperoxia_CD31_1_DC30_P10


title: M_P7_hyperoxia_CD31_1_DC30_I10


title: M_P7_hyperoxia_CD31_1_DC30_P11


title: M_P7_hyperoxia_CD31_1_DC30_E15


title: M_P7_hyperoxia_CD31_1_DC30_H14


title: M_P7_hyperoxia_CD31_1_DC30_F23


title: M_P7_hyperoxia_CD31_1_DC30_O9


title: M_P7_hyperoxia_CD31_1_DC30_N3


title: M_P7_hyperoxia_CD31_1_DC30_P13


title: M_P7_hyperoxia_CD31_1_DC30_C21


title: M_P7_hyperoxia_CD31_1_DC30_P19


title: M_P7_hyperoxia_CD31_1_DC30_B13


title: M_P7_hyperoxia_CD31_1_DC30_M6


title: M_P7_hyperoxia_CD31_1_DC30_F1


title: M_P7_hyperoxia_CD31_1_DC30_O15


title: M_P7_hyperoxia_CD31_1_DC30_D23


title: M_P7_hyperoxia_CD31_1_DC30_L3


title: M_P7_hyperoxia_CD31_1_DC30_E9


title: M_P7_hyperoxia_CD31_1_DC30_C8


title: M_P7_hyperoxia_CD31_1_DC30_C1


title: M_P7_hyperoxia_CD31_1_DC30_M1


title: M_P7_hyperoxia_CD31_1_DC30_K12


title: M_P7_hyperoxia_CD31_1_DC30_H10


title: M_P7_hyperoxia_CD31_1_DC30_N7


title: M_P7_hyperoxia_CD31_1_DC30_L1


title: M_P7_hyperoxia_CD31_1_DC30_L19


title: M_P7_hyperoxia_CD31_1_DC30_E23


title: M_P7_hyperoxia_CD31_1_DC30_N6


title: M_P7_hyperoxia_CD31_1_DC30_I7


title: M_P7_hyperoxia_CD31_1_DC30_M11


title: M_P7_hyperoxia_CD31_1_DC30_D16


title: M_P7_hyperoxia_CD31_1_DC30_B17


title: M_P7_hyperoxia_CD31_1_DC30_L13


title: M_P7_hyperoxia_CD31_1_DC30_H6


title: M_P7_hyperoxia_CD31_1_DC30_O14


title: M_P7_hyperoxia_CD31_1_DC30_K14


title: M_P7_hyperoxia_CD31_1_DC30_G20


title: M_P7_hyperoxia_CD31_1_DC30_G19


title: M_P7_hyperoxia_CD31_1_DC30_M10


title: M_P7_hyperoxia_CD31_1_DC30_D8


title: M_P7_hyperoxia_CD31_1_DC30_B2


title: M_P7_hyperoxia_CD31_1_DC30_K1


title: M_P7_hyperoxia_CD31_1_DC30_B19


title: M_P7_hyperoxia_CD31_1_DC30_K17


title: M_P7_hyperoxia_CD31_1_DC30_M2


title: M_P7_hyperoxia_CD31_1_DC30_J12


title: M_P7_hyperoxia_CD31_1_DC30_N22


title: M_P7_hyperoxia_CD31_1_DC30_F16


title: M_P7_hyperoxia_CD31_1_DC30_P20


title: M_P7_hyperoxia_CD31_1_DC30_O12


title: M_P7_hyperoxia_CD31_1_DC30_K6


title: M_P7_hyperoxia_CD31_1_DC30_B14


title: M_P7_hyperoxia_CD31_1_DC30_N8


title: M_P7_hyperoxia_CD31_1_DC30_O11


title: M_P7_hyperoxia_CD31_1_DC30_P9


title: M_P7_hyperoxia_CD31_1_DC30_O3


title: M_P7_hyperoxia_CD31_1_DC30_O2


title: M_P7_hyperoxia_CD31_1_DC30_H3


title: M_P7_hyperoxia_CD31_1_DC30_E5


title: M_P7_hyperoxia_CD31_1_DC30_L17


title: M_P7_hyperoxia_CD31_1_DC30_E22


title: M_P7_hyperoxia_CD31_1_DC30_B20


title: M_P7_hyperoxia_CD31_1_DC30_M23


title: M_P7_hyperoxia_CD31_1_DC30_E3


title: M_P7_hyperoxia_CD31_1_DC30_I18


title: M_P7_hyperoxia_CD31_1_DC30_F15


title: M_P7_hyperoxia_CD31_1_DC30_A17


title: M_P7_hyperoxia_CD31_1_DC30_E10


title: M_P7_hyperoxia_CD31_1_DC30_K4


title: M_P7_hyperoxia_CD31_1_DC30_H4


title: M_P7_hyperoxia_CD31_1_DC30_M13


title: M_P7_hyperoxia_CD31_1_DC30_L15


title: M_P7_hyperoxia_CD31_1_DC30_F12


title: M_P7_hyperoxia_CD31_1_DC30_L10


title: M_P7_hyperoxia_CD31_1_DC30_O17


title: M_P7_hyperoxia_CD31_1_DC30_A21


title: M_P7_hyperoxia_CD31_1_DC30_K18


title: M_P7_hyperoxia_CD31_1_DC30_J11


title: M_P7_hyperoxia_CD31_1_DC30_D12


title: M_P7_hyperoxia_CD31_1_DC30_A15


title: M_P7_hyperoxia_CD31_1_DC30_O22


title: M_P7_hyperoxia_CD31_1_DC30_B12


title: M_P7_hyperoxia_CD31_1_DC30_C4


title: M_P7_hyperoxia_CD31_1_DC30_D15


title: M_P7_hyperoxia_CD31_1_DC30_D21


title: M_P7_hyperoxia_CD31_1_DC30_D20


title: M_P7_hyperoxia_CD31_1_DC30_A9


title: M_P7_hyperoxia_CD31_1_DC30_H20


title: M_P7_hyperoxia_CD31_1_DC30_G8


title: M_P7_hyperoxia_CD31_1_DC30_A13


title: M_P7_hyperoxia_CD31_1_DC30_M3


title: M_P7_hyperoxia_CD31_1_DC30_J6


title: M_P7_hyperoxia_CD31_1_DC30_I13


title: M_P7_hyperoxia_CD31_1_DC30_M5


title: M_P7_hyperoxia_CD31_1_DC30_M21


title: M_P7_hyperoxia_CD31_1_DC30_N4


title: M_P7_hyperoxia_CD31_1_DC30_C23


title: M_P7_hyperoxia_CD31_1_DC30_N23


title: M_P7_hyperoxia_CD31_1_DC30_I17


title: M_P7_hyperoxia_CD31_1_DC30_E14


title: M_P7_hyperoxia_CD31_1_DC30_N21


title: M_P7_hyperoxia_CD31_1_DC30_F6


title: M_P7_hyperoxia_CD31_1_DC30_J18


title: M_P7_hyperoxia_CD31_1_DC30_N5


title: M_P7_hyperoxia_CD31_1_DC30_E6


title: M_P7_hyperoxia_CD31_1_DC30_B6


title: M_P7_hyperoxia_CD31_1_DC30_O4


title: M_P7_hyperoxia_CD31_1_DC30_P21


title: M_P7_hyperoxia_CD31_1_DC30_E1


title: M_P7_hyperoxia_CD31_1_DC30_O21


title: M_P7_hyperoxia_CD31_1_DC30_K9


title: M_P7_hyperoxia_CD31_1_DC30_A23


title: M_P7_hyperoxia_CD31_1_DC30_O18


title: M_P7_hyperoxia_CD31_1_DC30_J16


title: M_P7_hyperoxia_CD31_1_DC30_J1


title: M_P7_hyperoxia_CD31_1_DC30_H21


title: M_P7_hyperoxia_CD31_1_DC30_O23


title: M_P7_hyperoxia_CD31_1_DC30_A8


title: M_P7_hyperoxia_CD31_1_DC30_A4


title: M_P7_hyperoxia_CD31_1_DC30_H13


title: M_P7_hyperoxia_CD31_1_DC30_M4


title: M_P7_hyperoxia_CD31_1_DC30_D18


title: M_P7_hyperoxia_CD31_1_DC30_A3


title: M_P7_hyperoxia_CD31_1_DC30_L23


title: M_P7_hyperoxia_CD31_1_DC30_K5


title: M_P7_hyperoxia_CD31_1_DC30_N12


title: M_P7_hyperoxia_CD31_1_DC30_K23


title: M_P7_hyperoxia_CD31_1_DC30_F22


title: M_P7_hyperoxia_CD31_1_DC30_G11


title: M_P7_hyperoxia_CD31_1_DC30_L12


title: M_P7_hyperoxia_CD31_1_DC30_N15


title: M_P7_hyperoxia_CD31_1_DC30_E8


title: F_P7_hyperoxia_CD45_1_DC28_M21


title: bone marrow Pdgfra+ MSCs

city: Guangzhou

first: Jiayi

last: Xie

state: Guangdong

address: North Campus, Sun Yat-sen University

institute: Sun Yat-sen University

data_processing:
The scRNA-seq reads were aligned to the mm10 reference genomes, and unique molecular identifier (UMI) counts were obtained by CellRanger 3.0.2.
Genome_build: mm10
Supplementary_files_format_and_content: barcodes.tsv.gz with barcode sequences corresponding to column indices
Supplementary_files_format_and_content: features.tsv.gz with feature sequences corresponding to row indices
Supplementary_files_format_and_content: matrix.mtx.gz with filtered feature-barcode matrices

source_name: bone marrow

extract_protocol:
In brief, intact bone marrows from mice at the age of 6-8 weeks were flushed from mouse femora and tibiae and subjected to two rounds of enzymatic digestion at 37 °C for 20 minutes each. The digestion buffer contained 0.2 mg/ml liberase (Roche) and 200 mg/ml DNAse I (Roche) in 1 × HBSS with calcium and magnesium. The digested marrow cells then underwent red blood cell lysis using 0.16 M ammonium chloride solution.
Sorted CD45–Ter-119–CD31–PDGFa+CD51+ single cells were processed through the Chromium Single Cell Platform using the Chromium Single Cell 3’ Library and Gel Bead Kit v3 (10X Genomics, PN-1000075) and the Chromium Single Cell B Chip Kit (10X Genomics, PN-1000074) as the manufacturer’s protocol.

tag: strain

value: bone marrow

tag: age

value: 6-8 weeks

value: wild type


title: M_P21_normal_CD45_1_DC36_O8

value: distal lung

tag: treatment

value: normal


title: P5 Lung 1

city: Nashville

first: Jennifer

last: Sucre

state: TN

address: 2215 B Garland Ave, 1125 Light Hall

department: Division of Neonatology, Department of Pediatrics

institute: Vanderbilt University Medical Center

data_processing:
Reads with read quality less than 30 were filtered out and CellRanger Count v3.1 (10X Genomics) was used to align reads onto mm10 reference genome.
Ambient background RNA were cleaned from the scRNA-seq data with “SoupX” (version 1.2.2). We utilized the following genes to estimate the non-expressing cells, calculate the contamination fraction, and adjust the gene expression counts: Dcn, Bgn, Aspn, Ecm2, Fos, Hbb-bs, Hbb-bt, Hba-a1, Hba-a2, Lyz1, Lyz2, Mgp, Postn, Scgb1a1.
Data integration and clustering was performed using a standard Seurat (v3.2.2) / SCTransform (v0.3.1.9002) workflow. Individual SoupX “cleaned” libraries were concatenated and analyzed jointly. After quality filtering (removal of cells with <500 or >5000 genes, or >10% mitochondrial gene expression), data were normalized,  highly-variable genes were identified, and percent mitochondrial gene expression and sequencing batch were regressed.
Genome_build: mm10
Supplementary_files_format_and_content: Compressed comma separated values (csv.gz files) of normalized counts per cell after SoupX normalization.

source_name: Lung

extract_protocol:
At the indicated timepoints, lung lobes were harvested, minced, and incubated for 30 minutes at 37°C in dissociation media (RPMI-1640 with 0.7 mg/ml collagenase XI and 30 mg/ml type IV bovine pancreatic DNase). After incubation, lobes were passed through a wide bore pipet tip and filtered through a 40 μm filter. Single cell lung suspension was then counted, aliquoted, and blocked with CD-32 Fc block (BD cat #553142) for 20 minutes on ice. After 2% FBS staining buffer wash, cells were incubated with the conjugated primary antibodies anti-CD45 (BD cat # 559864) and anti-Ter119 (BD cat# 116211). In the same manner, fluorescence minus one controls were blocked and stained with the appropriate antibody controls. Cells from individual mice were then incubated with identifiable hashtags, resuspended in staining buffer, and treated with PI viability dye. CD45 negative, Ter119 negative, viable cells were collected by fluorescence associated cell sorting using a 70 μm nozzle on a 4-laser FACSAria III Cell Sorter. Both single and fluorescence-minus-one controls were used for compensation. For the P7 timepoint, epithelial enrichment was performed on some samples by incubation with Epcam antibody (BD cat # 563477).
ScRNA-seq libraries were generated using the 10X Chromium platform 5’ library preparation kits (10X Genomics) following the manufacturer's recommendations and targeting 10,000 - 20,000 cells per sample.

value: post natal day 5

tag: genotype

value: lung

tag: epithelial enriched

value: no


title: P7 Lung

value: post natal day 7

value: yes


title: M_P1_normal_CD31_1_DC35_K23

tag: sequencing run

tag: gender

value: M

value: endothelial

value: Early Car4- capillaries


title: P5 Lung 2


title: M_P1_normal_CD31_1_DC35_G12

tag: plate

tag: well


title: M_P21_normal_mesench_2_DC35_O6

tag: timepoint

tag: cell subtype

value: Late Car4- capillaries


title: P3 Lung

value: post natal day 3


title: M_P21_normal_mesench_2_DC35_L9

tag: mousename

tag: coverage


title: M_P1_normal_CD31_1_DC35_O4

tag: tissue

tag: number of genes


title: M_P1_normal_CD31_1_DC35_I15

value: Proliferative EC


title: M_P1_normal_CD31_1_DC35_H3


title: E15 Lung

value: embryonic day 15


title: M_P21_normal_mesench_2_DC35_E13

value: Car4+ capillaries


title: M_P7_hyperoxia_CD31_1_DC30_F8

value: hyperoxia

value: Proliferative venous EC


title: M_P21_normal_mesench_1_DC35_J3

value: distal lung


title: M_P1_normal_CD31_1_DC35_P15

value: Arterial EC I

value: normal


title: M_P7_hyperoxia_CD31_1_DC30_P4


title: M_P7_hyperoxia_CD31_1_DC30_H17


title: M_P1_normal_CD31_1_DC35_J13


title: M_P1_normal_CD31_1_DC35_G21


title: M_P1_normal_CD31_1_DC35_M13


title: M_P1_normal_CD31_1_DC35_H5


title: M_P7_normal_mesench_1_DC35_H11


title: M_P1_normal_CD31_1_DC35_E1

value: Venous EC


title: E12 Lung

value: embryonic day 12

value: wild type

value: lung

value: no


title: M_P21_normal_mesench_1_DC35_B23

value: M

value: endothelial


title: M_P21_normal_mesench_2_DC35_J4


title: M_P7_normal_mesench_1_DC35_O13


title: M_P21_normal_mesench_1_DC35_F20

value: Late Car4- capillaries


title: M_P1_normal_CD31_1_DC35_D2

value: Early Car4- capillaries


title: M_P1_normal_CD31_1_DC35_I17


title: M_P21_normal_mesench_2_DC35_C20


title: M_P1_normal_CD31_1_DC35_D20


title: M_P1_normal_CD31_1_DC35_K6


title: M_P21_normal_mesench_2_DC35_F3


title: M_P21_normal_mesench_2_DC35_D9


title: M_P1_normal_CD31_1_DC35_M19


title: M_P1_normal_CD31_1_DC35_K9


title: M_P21_normal_mesench_2_DC35_C12


title: M_P1_normal_CD31_1_DC35_I3


title: M_P1_normal_CD31_1_DC35_H19


title: M_P1_normal_CD31_1_DC35_I6


title: M_P21_normal_mesench_1_DC35_N11


title: M_P21_normal_mesench_2_DC35_C18


title: M_P1_normal_CD31_1_DC35_F20


title: M_P1_normal_CD31_1_DC35_E3


title: M_P1_normal_CD31_1_DC35_N22


title: M_P21_normal_mesench_2_DC35_I2


title: M_P1_normal_CD31_1_DC35_O6


title: M_P21_normal_mesench_2_DC35_F13


title: M_P1_normal_CD31_1_DC35_J21


title: M_P1_normal_CD31_1_DC35_O9

value: Lymphatic EC


title: M_P1_normal_CD31_1_DC35_B6

value: Proliferative EC


title: M_P21_normal_mesench_1_DC35_P9


title: M_P1_normal_CD31_1_DC35_K15

value: Car4+ capillaries


title: M_P1_normal_CD31_1_DC35_H2


title: M_P21_normal_mesench_2_DC35_N4


title: M_P21_normal_mesench_1_DC35_E5


title: M_P1_normal_CD31_1_DC35_O11


title: M_P21_normal_mesench_1_DC35_I19


title: M_P21_normal_mesench_2_DC35_A4


title: M_P1_normal_CD31_1_DC35_F22


title: M_P1_normal_CD31_1_DC35_H6


title: M_P21_normal_mesench_1_DC35_H5


title: M_P1_normal_CD31_1_DC35_F19


title: M_P21_normal_mesench_1_DC35_L21


title: M_P1_normal_CD31_1_DC35_O19


title: M_P1_normal_CD31_1_DC35_G10


title: M_P21_normal_mesench_1_DC35_N9


title: M_P21_normal_mesench_1_DC35_P14


title: M_P1_normal_CD31_1_DC35_P16


title: M_P1_normal_CD31_1_DC35_A21


title: M_P7_normal_mesench_2_DC35_K20


title: M_P21_normal_mesench_1_DC35_M19


title: M_P1_normal_CD31_1_DC35_C21


title: M_P1_normal_CD31_1_DC35_I12


title: M_P21_normal_mesench_1_DC35_H18


title: M_P1_normal_CD31_1_DC35_M6


title: M_P1_normal_CD31_1_DC35_I4


title: M_P1_normal_CD31_1_DC35_N14


title: M_P1_normal_CD31_1_DC35_F6


title: M_P21_normal_mesench_1_DC35_B1


title: M_P1_normal_CD31_1_DC35_B21


title: M_P1_normal_CD31_1_DC35_C8

value: Arterial EC II


title: M_P1_normal_CD31_1_DC35_E11


title: M_P21_normal_mesench_1_DC35_K5


title: M_P21_normal_mesench_2_DC35_H9


title: M_P1_normal_CD31_1_DC35_H10


title: M_P1_normal_CD31_1_DC35_E13


title: M_P1_normal_CD31_1_DC35_M9


title: M_P1_normal_CD31_1_DC35_D12


title: M_P1_normal_CD31_1_DC35_F13


title: M_P21_normal_mesench_1_DC35_A16


title: M_P1_normal_CD31_1_DC35_J5


title: M_P21_normal_mesench_2_DC35_K12


title: M_P1_normal_CD31_1_DC35_J12


title: M_P21_normal_mesench_1_DC35_I21


title: M_P1_normal_CD31_1_DC35_L14


title: M_P21_normal_mesench_2_DC35_P10


title: M_P21_normal_mesench_2_DC35_H11


title: M_P1_normal_CD31_1_DC35_J4


title: M_P21_normal_mesench_1_DC35_P8


title: M_P1_normal_CD31_1_DC35_D11


title: M_P1_normal_CD31_1_DC35_M8


title: M_P1_normal_CD31_1_DC35_H8


title: M_P21_normal_mesench_2_DC35_P11


title: M_P7_hyperoxia_CD31_1_DC30_E12

value: hyperoxia

value: Proliferative venous EC


title: M_P1_normal_CD31_1_DC35_M22

value: distal lung


title: M_P21_normal_mesench_1_DC35_A8

value: normal


title: M_P1_normal_CD31_1_DC35_F7

value: Venous EC


title: M_P1_normal_CD31_1_DC35_H20


title: M_P1_normal_CD31_1_DC35_M16


title: M_P1_normal_CD31_1_DC35_J16


title: M_P1_normal_CD31_1_DC35_N20


title: M_P1_normal_CD31_1_DC35_M23


title: M_P21_normal_mesench_2_DC35_B7


title: M_P1_normal_CD31_1_DC35_C3


title: M_P1_normal_CD31_1_DC35_E21


title: M_P1_normal_CD31_1_DC35_L9


title: M_P1_normal_CD31_1_DC35_L20


title: M_P1_normal_CD31_1_DC35_E19


title: M_P1_normal_CD31_1_DC35_J7


title: M_P1_normal_CD31_1_DC35_B16


title: M_P1_normal_CD31_1_DC35_J11


title: M_P21_normal_mesench_2_DC35_N2


title: M_P21_normal_mesench_2_DC35_M3


title: M_P21_normal_mesench_1_DC35_C8


title: M_P1_normal_CD31_1_DC35_N1


title: M_P21_normal_mesench_1_DC35_B4


title: M_P21_normal_mesench_2_DC35_N8


title: M_P1_normal_CD31_1_DC35_L22


title: M_P1_normal_CD31_1_DC35_O23


title: M_P1_normal_CD31_1_DC35_B20


title: M_P1_normal_CD31_1_DC35_G2


title: M_P1_normal_CD31_1_DC35_B4


title: M_P1_normal_CD31_1_DC35_B3


title: M_P1_normal_CD31_1_DC35_A19


title: M_P1_normal_CD31_1_DC35_O2


title: M_P1_normal_CD31_1_DC35_G5


title: M_P1_normal_CD31_1_DC35_C5


title: M_P1_normal_CD31_1_DC35_L6


title: M_P1_normal_CD31_1_DC35_C10


title: M_P21_normal_mesench_2_DC35_H5


title: M_P1_normal_CD31_1_DC35_N13


title: M_P7_normal_mesench_2_DC35_P19


title: M_P1_normal_CD31_1_DC35_I23


title: M_P1_normal_CD31_1_DC35_J9


title: M_P1_normal_CD31_1_DC35_J2


title: M_P1_normal_CD31_1_DC35_N21


title: M_P1_normal_CD31_1_DC35_K16


title: M_P1_normal_CD31_1_DC35_A22


title: M_P21_normal_mesench_1_DC35_H21


title: M_P1_normal_CD31_1_DC35_J23


title: M_P21_normal_mesench_2_DC35_L3


title: M_P21_normal_mesench_1_DC35_P11


title: M_P7_normal_CD45_1_DC35_G3


title: M_P1_normal_CD31_1_DC35_B11


title: M_P1_normal_CD31_1_DC35_E9


title: M_P1_normal_CD31_1_DC35_B14


title: M_P1_normal_CD31_1_DC35_F4

value: Arterial EC I


title: M_P21_normal_mesench_2_DC35_I8


title: M_P21_normal_mesench_2_DC35_L20


title: M_P1_normal_CD31_1_DC35_O7


title: M_P1_normal_CD31_1_DC35_C1


title: M_P1_normal_CD31_1_DC35_L2


title: M_P1_normal_CD31_1_DC35_J14


title: M_P1_normal_CD31_1_DC35_O17


title: M_P21_normal_mesench_2_DC35_D17


title: M_P21_normal_mesench_1_DC35_B9


title: M_P21_normal_mesench_2_DC35_M20


title: M_P1_normal_CD31_1_DC35_B22


title: M_P1_normal_CD31_1_DC35_F21


title: M_P7_normal_mesench_2_DC35_L15


title: M_P21_normal_mesench_1_DC35_B18


title: M_P1_normal_CD31_1_DC35_P11


title: M_P1_normal_CD31_1_DC35_G23


title: M_P21_normal_mesench_2_DC35_I3


title: M_P1_normal_CD31_1_DC35_G9


title: M_P1_normal_CD31_1_DC35_C16


title: M_P1_normal_CD31_1_DC35_M17


title: M_P1_normal_CD31_1_DC35_L15


title: M_P21_normal_mesench_2_DC35_J13


title: M_P1_normal_CD31_1_DC35_G22


title: M_P21_normal_mesench_2_DC35_J18


title: M_P1_normal_CD31_1_DC35_D22


title: M_P1_normal_CD31_1_DC35_N10


title: M_P21_normal_mesench_1_DC35_J11


title: M_P1_normal_CD31_1_DC35_H21


title: M_P1_normal_CD31_1_DC35_M2


title: M_P1_normal_CD31_1_DC35_A5


title: M_P1_normal_CD31_1_DC35_N12


title: M_P1_normal_CD31_1_DC35_C9


title: M_P1_normal_CD31_1_DC35_C12

value: Nonproliferative embryonic EC


title: M_P1_normal_CD31_1_DC35_A14


title: M_P1_normal_CD31_1_DC35_P12


title: M_P21_normal_mesench_2_DC35_A13


title: M_P1_normal_CD31_1_DC35_J15


title: M_P7_normal_mesench_1_DC35_H13


title: M_P1_normal_CD31_1_DC35_N3


title: M_P1_normal_CD31_1_DC35_B7


title: M_P1_normal_CD31_1_DC35_L11


title: M_P1_normal_CD31_1_DC35_E23


title: M_P21_normal_mesench_1_DC35_M12


title: M_P1_normal_CD31_1_DC35_K14


title: M_P1_normal_CD31_1_DC35_I1


title: M_P1_normal_CD31_1_DC35_H12


title: M_P21_normal_mesench_2_DC35_L12


title: M_P1_normal_CD31_1_DC35_A20


title: M_P1_normal_CD31_1_DC35_N17


title: M_P1_normal_CD31_1_DC35_D10


title: M_P1_normal_CD31_1_DC35_O22


title: M_P1_normal_CD31_1_DC35_D19


title: M_P21_normal_mesench_1_DC35_K1


title: M_P21_normal_mesench_1_DC35_D23


title: M_P21_normal_mesench_2_DC35_M17


title: M_P21_normal_mesench_1_DC35_M5


title: M_P1_normal_CD31_1_DC35_F3


title: M_P1_normal_CD31_1_DC35_J1


title: M_P1_normal_CD31_1_DC35_K19


title: M_P1_normal_CD31_1_DC35_I20


title: M_P1_normal_CD31_1_DC35_B19


title: M_P21_normal_mesench_1_DC35_E12


title: M_P1_normal_CD31_1_DC35_E4


title: M_P1_normal_CD31_1_DC35_E10


title: M_P21_normal_mesench_2_DC35_I1


title: M_P1_normal_CD31_1_DC35_G18


title: M_P1_normal_CD31_1_DC35_J17


title: M_P7_normal_mesench_1_DC35_M22


title: M_P1_normal_CD31_1_DC35_B23


title: M_P1_normal_CD31_1_DC35_F23


title: M_P21_normal_mesench_1_DC35_H6


title: M_P21_normal_mesench_1_DC35_A19


title: F_P1_normal_CD45_2_DC35_L19

value: F


title: M_P21_normal_mesench_1_DC35_E3


title: M_P1_normal_CD31_1_DC35_G19


title: M_P1_normal_CD31_1_DC35_N7


title: M_P1_normal_CD31_1_DC35_D3


title: M_P1_normal_CD31_1_DC35_D15


title: M_P1_normal_CD31_1_DC35_G14


title: M_P21_normal_mesench_2_DC35_A22


title: M_P1_normal_CD31_1_DC35_N16


title: M_P1_normal_CD31_1_DC35_M18


title: M_P1_normal_CD31_1_DC35_F14


title: M_P1_normal_CD31_1_DC35_H14


title: M_P1_normal_CD31_1_DC35_J3


title: M_P1_normal_CD31_1_DC35_M1


title: M_P1_normal_CD31_1_DC35_M4


title: M_P1_normal_CD31_1_DC35_O16


title: M_P1_normal_CD31_1_DC35_E16


title: M_P1_normal_CD31_1_DC35_D4


title: M_P21_normal_mesench_1_DC35_G15


title: M_P1_normal_CD31_1_DC35_J20


title: M_P21_normal_mesench_1_DC35_G2


title: M_P21_normal_mesench_2_DC35_E21


title: M_P1_normal_CD31_1_DC35_D6


title: M_P1_normal_CD31_1_DC35_N4


title: M_P21_normal_mesench_2_DC35_M4


title: M_P1_normal_CD31_1_DC35_O15


title: M_P1_normal_CD31_1_DC35_N9


title: M_P21_normal_mesench_1_DC35_E10


title: M_P1_normal_CD31_1_DC35_P6


title: M_P1_normal_CD31_1_DC35_O12


title: M_P1_normal_CD31_1_DC35_L18


title: M_P1_normal_CD31_1_DC35_E14


title: M_P21_normal_mesench_2_DC35_A8


title: M_P1_normal_CD31_1_DC35_H18


title: M_P21_normal_mesench_1_DC35_D1


title: M_P21_normal_mesench_2_DC35_L14


title: M_P1_normal_CD31_1_DC35_F11


title: M_P1_normal_CD31_1_DC35_I21


title: M_P21_normal_mesench_1_DC35_L17


title: M_P21_normal_mesench_2_DC35_I15


title: M_P1_normal_CD31_1_DC35_H16


title: M_P1_normal_CD31_1_DC35_N23


title: M_P1_normal_CD31_1_DC35_L23


title: M_P1_normal_CD31_1_DC35_F15


title: M_P21_normal_mesench_1_DC35_D3


title: M_P21_normal_mesench_1_DC35_F13


title: M_P21_normal_mesench_1_DC35_C5


title: M_P21_normal_mesench_2_DC35_O3


title: M_P21_normal_mesench_2_DC35_C3


title: M_P1_normal_CD31_1_DC35_G8


title: M_P21_normal_mesench_1_DC35_D2


title: M_P1_normal_CD31_1_DC35_N15


title: M_P1_normal_CD31_1_DC35_K8


title: M_P1_normal_CD31_1_DC35_L19


title: M_P21_normal_mesench_1_DC35_J5


title: M_P7_normal_mesench_2_DC35_M10


title: M_P7_normal_mesench_2_DC35_I10


title: M_P1_normal_CD31_1_DC35_C7


title: M_P1_normal_CD31_1_DC35_A7


title: M_P21_normal_mesench_1_DC35_K12


title: M_P21_normal_mesench_1_DC35_F3


title: M_P1_normal_CD31_1_DC35_K5


title: M_P7_normal_mesench_1_DC35_A2


title: M_P1_normal_CD31_1_DC35_P7


title: M_P21_normal_mesench_2_DC35_N3


title: M_P1_normal_CD31_1_DC35_C17


title: M_P21_normal_mesench_1_DC35_O3


title: M_P1_normal_CD31_1_DC35_A6


title: M_P21_normal_mesench_1_DC35_L11


title: M_P1_normal_CD31_1_DC35_I7


title: M_P21_normal_mesench_2_DC35_K1


title: M_P1_normal_CD31_1_DC35_B9


title: M_P21_normal_mesench_1_DC35_D21


title: M_P1_normal_CD31_1_DC35_J6


title: M_P21_normal_mesench_2_DC35_C4


title: M_P21_normal_mesench_2_DC35_K17


title: M_P1_normal_CD31_1_DC35_G3


title: M_P1_normal_CD31_1_DC35_M7


title: M_P21_normal_mesench_1_DC35_G14


title: M_P1_normal_CD31_1_DC35_O3


title: M_P21_normal_mesench_2_DC35_A21


title: M_P1_normal_CD31_1_DC35_A23


title: M_E18.5_normal_CD45_1_DC35_B7


title: M_P21_normal_mesench_1_DC35_B14


title: M_P21_normal_mesench_2_DC35_G1


title: M_P1_normal_CD31_1_DC35_G13


title: M_P21_normal_mesench_1_DC35_M4


title: M_P1_normal_CD31_1_DC35_I19


title: M_P1_normal_CD31_1_DC35_D16


title: M_P21_normal_mesench_2_DC35_B1


title: M_P21_normal_mesench_2_DC35_E17


title: M_P1_normal_CD31_1_DC35_I5


title: M_P1_normal_CD31_1_DC35_O18


title: M_P1_normal_CD31_1_DC35_L8


title: M_P21_normal_mesench_1_DC35_C1


title: M_P1_normal_CD31_1_DC35_G16


title: M_P1_normal_CD31_1_DC35_O10


title: M_P1_normal_CD31_1_DC35_L12


title: M_P1_normal_CD31_1_DC35_K22


title: M_P1_normal_CD31_1_DC35_A11


title: M_P21_normal_mesench_1_DC35_G1


title: M_P21_normal_mesench_1_DC35_A14


title: M_P1_normal_CD31_1_DC35_P5


title: M_P1_normal_CD31_1_DC35_M11


title: M_P1_normal_CD31_1_DC35_F16


title: M_P21_normal_mesench_1_DC35_N1


title: M_P1_normal_CD31_1_DC35_O1


title: M_P1_normal_CD31_1_DC35_G7


title: M_P21_normal_mesench_2_DC35_J3


title: M_P1_normal_CD31_1_DC35_E17


title: M_P1_normal_mesench_2_DC35_J4


title: M_P21_normal_mesench_1_DC35_K6


title: M_P1_normal_CD31_1_DC35_K2


title: M_P21_normal_mesench_1_DC35_L5


title: M_P1_normal_CD31_1_DC35_D13


title: M_P1_normal_CD31_1_DC35_A12


title: M_P1_normal_CD31_1_DC35_E8


title: M_P21_normal_mesench_1_DC35_A4


title: M_P21_normal_mesench_1_DC35_K9


title: M_P1_normal_CD31_1_DC35_H17


title: M_P21_normal_mesench_2_DC35_G11


title: M_P21_normal_mesench_1_DC35_O12


title: M_P21_normal_mesench_2_DC35_L7


title: M_P21_normal_mesench_1_DC35_C14


title: M_P1_normal_CD31_1_DC35_D23


title: M_P21_normal_mesench_2_DC35_O10


title: M_P1_normal_CD31_1_DC35_A1


title: M_P1_normal_CD31_1_DC35_H4


title: M_P1_normal_CD31_1_DC35_D8


title: M_P21_normal_mesench_1_DC35_L20


title: M_P1_normal_CD31_1_DC35_P9


title: M_P1_normal_CD31_1_DC35_L16


title: M_P1_normal_CD31_1_DC35_F2


title: M_P1_normal_CD31_1_DC35_A2


title: M_P1_normal_CD31_1_DC35_C15


title: M_P21_normal_mesench_2_DC35_J20


title: M_P1_normal_CD31_1_DC35_O13


title: M_P1_normal_CD31_1_DC35_M15


title: M_P21_normal_mesench_2_DC35_I18


title: M_P1_normal_CD31_1_DC35_K12


title: M_P1_normal_CD31_1_DC35_L5


title: M_P1_normal_CD31_1_DC35_I14


title: M_P1_normal_CD31_1_DC35_B10


title: M_E18.5_normal_CD31_1_DC30_F10


title: M_P1_normal_CD31_1_DC35_I9


title: M_E18.5_normal_CD31_1_DC30_P2


title: M_E18.5_normal_CD31_1_DC30_L1


title: M_P7_normal_CD31_1_DC30_F14


title: M_E18.5_normal_CD31_1_DC30_M4


title: M_P7_normal_CD31_1_DC30_O14


title: M_P7_normal_CD31_1_DC30_E8


title: M_P21_normal_CD31_1_DC30_H7


title: M_E18.5_normal_CD31_1_DC30_C17


title: M_E18.5_normal_CD31_1_DC30_C2


title: M_E18.5_normal_CD31_1_DC30_B20


title: M_P7_normal_CD45_2_DC35_M7


title: M_P21_normal_CD31_1_DC30_D17


title: M_E18.5_normal_CD31_1_DC30_E9


title: M_P7_normal_CD31_1_DC30_B2


title: M_E18.5_normal_CD31_1_DC30_B5


title: M_E18.5_normal_CD31_1_DC30_F19


title: M_P21_normal_CD31_1_DC30_K7


title: M_E18.5_normal_CD31_1_DC30_C16


title: M_P21_normal_CD31_1_DC30_H20


title: M_P7_normal_CD31_1_DC30_L3


title: M_P21_normal_CD31_1_DC30_D3


title: M_E18.5_normal_CD31_1_DC30_J21


title: M_P7_normal_CD31_1_DC30_J2


title: M_P7_normal_CD31_1_DC30_K5


title: M_P21_normal_CD31_1_DC30_C10


title: M_P21_normal_CD31_1_DC30_L1


title: M_E18.5_normal_CD31_1_DC30_E20


title: M_P7_normal_CD31_1_DC30_F5


title: M_E18.5_normal_CD31_1_DC30_E21


title: M_E18.5_normal_CD31_1_DC30_O3


title: M_P21_normal_CD31_1_DC30_D19


title: M_P21_normal_CD31_1_DC30_H18


title: M_P7_normal_CD31_1_DC30_J18


title: M_P7_normal_CD31_1_DC30_E4


title: M_P7_normal_CD31_1_DC30_C10


title: M_E18.5_normal_CD31_1_DC30_G6


title: M_P21_normal_CD31_1_DC30_I4


title: M_P7_normal_CD31_1_DC30_O1


title: M_E18.5_normal_CD31_1_DC30_L12


title: M_P21_normal_CD31_1_DC30_L8


title: M_P21_normal_CD31_1_DC30_H8


title: M_P7_normal_CD31_1_DC30_N22


title: M_P21_normal_CD31_1_DC30_I2


title: M_P21_normal_CD31_1_DC30_N13


title: M_E18.5_normal_CD31_1_DC30_F7


title: M_E18.5_normal_CD31_1_DC30_A19


title: M_E18.5_normal_CD31_1_DC30_K4


title: M_E18.5_normal_CD31_1_DC30_N21


title: M_E18.5_normal_CD31_1_DC30_P11


title: M_E18.5_normal_CD31_1_DC30_A13


title: M_E18.5_normal_CD31_1_DC30_G5


title: M_P7_normal_CD31_1_DC30_M1


title: M_E18.5_normal_CD31_1_DC30_P10


title: M_P7_normal_CD31_1_DC30_C20


title: M_P7_normal_CD31_1_DC30_D10


title: M_P7_normal_CD31_1_DC30_K16


title: M_E18.5_normal_CD31_1_DC30_B14


title: M_P21_normal_CD31_1_DC30_E3


title: M_E18.5_normal_CD31_1_DC30_H5


title: M_P21_normal_CD31_1_DC30_J10


title: M_P7_normal_CD31_1_DC30_O10


title: M_P7_normal_CD31_1_DC30_I23


title: M_P21_normal_CD31_1_DC30_I21


title: M_P7_normal_CD31_1_DC30_L11


title: M_P21_normal_CD31_1_DC30_F4


title: M_P7_normal_CD31_1_DC30_L20


title: M_E18.5_normal_CD31_1_DC30_K15


title: M_P21_normal_CD31_1_DC30_O22


title: M_P21_normal_CD31_1_DC30_O3


title: M_P21_normal_CD31_1_DC30_G18


title: M_E18.5_normal_CD31_1_DC30_K2


title: M_P7_normal_CD31_1_DC30_O3


title: M_P21_normal_CD31_1_DC30_A6


title: M_E18.5_normal_CD31_1_DC30_P16


title: M_P21_normal_CD31_1_DC30_A12


title: M_E18.5_normal_CD31_1_DC30_I12


title: M_P7_normal_CD31_1_DC30_L13


title: M_P21_normal_CD31_1_DC30_H19


title: M_P7_normal_CD31_1_DC30_F21


title: M_E18.5_normal_CD31_1_DC30_E4


title: M_E18.5_normal_CD31_1_DC30_M16


title: M_E18.5_normal_CD31_1_DC30_B11


title: M_E18.5_normal_CD31_1_DC30_E23


title: M_E18.5_normal_CD31_1_DC30_L11


title: M_E18.5_normal_CD31_1_DC30_O13


title: M_E18.5_normal_CD31_1_DC30_I22


title: M_E18.5_normal_CD31_1_DC30_N18


title: M_E18.5_normal_CD31_1_DC30_G17


title: M_E18.5_normal_CD31_1_DC30_F16


title: M_E18.5_normal_CD31_1_DC30_E14


title: M_E18.5_normal_CD31_1_DC30_H1


title: M_E18.5_normal_CD31_1_DC30_F14


title: M_E18.5_normal_CD31_1_DC30_I7


title: M_E18.5_normal_CD31_1_DC30_A6


title: M_P21_normal_CD31_1_DC30_L11


title: M_E18.5_normal_CD31_1_DC30_C12


title: M_P21_normal_CD31_1_DC30_G12


title: M_P21_normal_CD31_1_DC30_F11


title: M_E18.5_normal_CD31_1_DC30_F4


title: M_E18.5_normal_CD31_1_DC30_P13


title: M_P7_normal_CD31_1_DC30_D3


title: M_P7_normal_CD31_1_DC30_L8


title: M_P21_normal_CD31_1_DC30_L13


title: M_E18.5_normal_CD31_1_DC30_D16


title: M_E18.5_normal_CD31_1_DC30_F11


title: M_E18.5_normal_CD31_1_DC30_O20


title: M_E18.5_normal_CD31_1_DC30_G15


title: M_P7_normal_CD31_1_DC30_N18


title: M_P21_normal_CD31_1_DC30_G4


title: M_E18.5_normal_CD31_1_DC30_A9


title: M_P21_normal_CD31_1_DC30_I9


title: M_E18.5_normal_CD31_1_DC30_P12


title: M_E18.5_normal_CD31_1_DC30_N2


title: M_P21_normal_CD31_1_DC30_F12


title: M_P21_normal_CD31_1_DC30_I10


title: M_P21_normal_CD31_1_DC30_K21


title: M_E18.5_normal_CD31_1_DC30_P1


title: M_P21_normal_CD31_1_DC30_N11


title: M_E18.5_normal_CD31_1_DC30_K14


title: M_P7_normal_CD31_1_DC30_P14


title: M_P21_normal_CD31_1_DC30_F10


title: M_P7_normal_CD31_1_DC30_N3


title: M_P21_normal_CD31_1_DC30_J12


title: M_P7_normal_CD31_1_DC30_A20


title: M_P21_normal_CD31_1_DC30_P2


title: M_E18.5_normal_CD31_1_DC30_B7


title: M_E18.5_normal_CD31_1_DC30_J1


title: M_P7_normal_CD31_1_DC30_M17


title: M_E18.5_normal_CD31_1_DC30_J20


title: M_P21_normal_CD31_1_DC30_K4


title: M_P21_normal_CD31_1_DC30_I5


title: M_P7_normal_CD31_1_DC30_M9


title: M_P21_normal_CD31_1_DC30_H15


title: M_E18.5_normal_CD31_1_DC30_G1


title: M_E18.5_normal_CD31_1_DC30_B4