title: P22, intravenous (P20), IL1-beta, replicate 1

description: Library name: p22ivp20-il1-1


title: TENE_CD56+_Rep 6

status: Public on Jan 14 2026

type: SRA

city: Lund

first: Ilia

last: Kurochkin

state: Skane

address: BMC A12, Sölvegatan 17

country: Sweden

institute: Lund University

description:
Library name: TENE_CD56+_Rep 6
Column name in NKrepro.cnts.txt.gz: CD56_rep6

library_source: transcriptomic

data_processing:
For analysis, paired-end reads were mapped to the human genome (Ensembl, release 93) using STAR v2.5.3a
Assembly: hg38
Supplementary files format and content: count table (.txt)

molecule: total RNA

organism: Homo sapiens

source_name: HEF

growth_protocol: After transduction with lentivirus, HEFs were cultured in gelatin-coated plates in DMEM+10%FBS.

extract_protocol:
Total RNA from 3,000–7,000 FACS-sorted HEF or reprogrammed cells was extracted using TRIzol (ThermoFischer Scientific) following the manufacturer’s protocol. Total RNA from 10,000 natural cells (CD56+ CD16- and CD56dim CD16+ PBMC-NK cells) was used for comparison. cDNA was transcribed with SMARTSeq v4 Ultra-low input RNA kit (TakaraBio), amplified with 8 PCR cycles, and purified with AMPure XP beads (Beckman). cDNA was quantified using High sensitivity DNA kit on Bioanalyzer 2100 (Agilent).
Library preparation was performed using the Nextera XT DNA library preparation kit (Illumina) or SMART-Seq® v4 PLUS Kit (Takara) according to manufacturer’s protocol. Libraries were normalized with beads, pooled, and sequenced on Illumina NextSeq 500 platform.

treatment_protocol: Cells were sorted by FACS.

tag: cell line

value: HEF

tag: cell type

value: human embryonic fibroblasts

tag: genotype

value: wildtype

tag: transduction

value: Cells were transduced with TENE

tag: time

value: Day 12

tag: sorted cells

value: live(DAPI-) and CD56+


title: HSC,Het,rep3

city: Tianjin

first: Jianwei

last: Wang

address: 10 Yuexin Street, Binhai New Area

country: China

institute: HAIHE LABORATORY OF CELL ECOSYSTEM

description:
HSC,Het,rep3
GeneCounts_matrix_normalized.txt

data_processing:
First,Trim_galore (version0.6.6http://www.bioinformatics.babraham.ac.uk/projects/trim_galore/) was used for quality control and adaptor trimming.
Then, Processed reads were mapped to GRCm38 using STAR (2.7.9a)
Gene expressions were counted by  RSEM (v1.3.1 ).
Finally,  DEseq2 were performed to normalize the reads count.
Assembly: GRCm38
Supplementary files format and content: a tab-delimited text file includes normalized read counts for all samples
Supplementary files format and content: tab-delimited text files include read count, tpm and fpkm for each sample

molecule: polyA RNA

organism: Mus musculus

source_name: Bone marrow

growth_protocol: hematopoietic stem cells were sorted from bone marrow

extract_protocol:
Freshly isolated HSC(Lineage- Sca1+cKit+ CD34-Flt3-) were subjected for RNA-seq
RNA libraries for RNA-seq were  prepared using the method of Smart-seq2

tag: tissue

value: Bone marrow

value: Hematopoietic stem cell

value: Alyref+/-


title: HSC,WT,rep3

description:
HSC,WT,rep3
GeneCounts_matrix_normalized.txt

value: WT


title: NK_CD56dimCD16+_Rep 3

description:
Library name: NK_CD56dimCD16+_Rep 3
Column name in NKrepro.cnts.txt.gz: CD56dimCD16_rep3

source_name: NK cell

value: NK cell

value: CD56dimCD16+ Natural killer cells

value: live(DAPI-) and CD56dimCD16+


title: P22, intranasal (P20), PBS, replicate 3

city: Paris

first: Andrée

last: Delahaye-Duriez

address: 48, boulevard serurier

country: France

institute: INSERM

description: Library name: p22inasp20-pbs-3

data_processing:
Analyses were performed using the Eoulsan pipeline, including read filtering, mapping, alignment filtering, read quantile normalisation, and differential analysis. In the Eoulsan pipeline, reads were aligned against the rnor6 genome from Ensembl version 96 using STAR (version 2.7.2d).
Then, alignments from reads matching more than once on the reference genome were removed using samtools (Java version). We used the rnor6 GTF genome annotation version 96 from the Ensembl database to compute gene expression. All overlapping regions between alignments and referenced exons were counted and aggregated by genes using HTSeq-count 0.5.3. Finally, normalisation of sample counts, statistical treatments and differential analyses were performed using DESeq2 1.8.1
We used the rnor6 GTF genome annotation version 96 from the Ensembl database to compute gene expression. All overlapping regions between alignments and referenced exons were counted and aggregated by genes using HTSeq-count 0.5.3. Finally, normalisation of sample counts, statistical treatments and differential analyses were performed using DESeq2 1.8.1
Normalisation of sample counts, statistical treatments and differential analyses were performed using DESeq2 1.8.1
Assembly: rnor6 genome from Ensembl version 96
Supplementary files format and content: processed_raw_counts.csv contains raw count for all samples with gene annotations

organism: Rattus norvegicus

source_name: brain

growth_protocol: Wistar Han strain rats were intraperitoneally (i.p) injected twice daily from the post-natal day (P)1 to P4 and once in the morning of P5 with 10 uL recombinant mouse IL-1β (Miltenyi Biotec, Bergisch Gladbach, Germany) diluted in 1X PBS (0.12 M) to a final dose of 20 μg/kg, or the same volume of 1X PBS. Separation from the dam was no more than five minute per injection. Sex determination was performed at birth and confirmed at tissue collection. Male pups were used, as only males develop a consistent hypomyelination phenotype in this paradigm reflecting the clinical scenario of a male bias to injury. All litters were culled to 12 pups from P1 by random selection after sex determination.

extract_protocol:
RNA was extracted using the NucleoSpin RNA XS Plus kit (Macherey-Nagel, Dueren, Germany) according to the manufacturer’s recommendations and eluted in 16 μL of RNase-free water. Each protocol had N=3 replicates. RNA quality was assessed using an Agilent fragment analyser (5300 Fragment Analyzer System), and all samples were >7 cutoff.
Messenger (polyA+) RNAs were purified from 100 ng of total RNA using oligo(dT). Libraries were prepared using the strand-specific RNA-Seq library preparation TruSeq Stranded mRNA kit (Illumina). Libraries were multiplexed by 15 on six flow cell lanes. A 75 bp single read sequencing was performed on a NextSeq 500 device (Illumina). An average of 27 ± 7 M reads passing the Illumina quality filter was obtained for each sample.

treatment_protocol: Rats were anesthetised 48 hours after HuMSCs administration with an i.p injection of pentobarbital sodium and phenytoin sodium (150 mg/kg, Euthasol, Virbac AH, Inc., Fort Worth, U.S.A) and intracardially perfused with 0.9% sodium chloride. The olfactory bulbs and cerebellum were removed, and remaining tissues dissociated using the Miltenyi Biotec Neural Tissue Dissociation kit (for P7 brains) or Adult Brain Dissociation kit (P12 and P22 brains), on the gentleMACS Octo Dissociator with heaters as per the manufacturers' instructions. From the resulting brain homogenate, microglia were enriched using anti-CD11b/c antibody-coupled microbeads (Miltenyi Biotec). After collection of the CD11b/c positive cell fraction, the isolated cells were centrifuged, and cell pellets were conserved at -80°C until messenger RNA (mRNA) extraction.

value: brain

tag: Sex

value: male

value: isolated CD11b/c positive microglia

tag: developmental stage

tag: treatment

value: PBS

tag: batch

value: run 415


title: HSC,WT,rep2

description:
HSC,WT,rep2
GeneCounts_matrix_normalized.txt


title: P22, intravenous (P20), IL1-beta, replicate 3

description: Library name: p22ivp20-il1-3

value: run 416


title: KO-HI4_24 h

city: Loma Linda

first: Qingyi

last: Ma

state: California

address: 11175 Campus St

department: Department of Basic Sciences

country: USA

institute: Loma Linda University

description: Library name: H4

data_processing:
Low-quality reads of FASTQ files were filtered using SOAPnuke software (v1.5.6, https://github.com/BGI-flexlab/SOAPnuke) to obtain clean reads.
After filtering, the high-quality reads were aligned against the mouse reference genome (mm39) using an RNA-Seq-spliced read mapper HISAT2 (v2.1.0, https://daehwankimlab.github.io/hisat2/).
Clean data was aligned to the reference gene set using Bowtie2 (v2.4.4, http://bowtie-bio.sourceforge.net/bowtie2/index.shtml).
FPKM values for gene expression levels were calculated for annotated RefSeq genes using RSEM (v1.3.1, https://deweylab.github.io/RSEM/).
Assembly: To estimate the heterogeneity of our samples, we performed Pearson correlation coefficient analysis and PCA, both using R software, to map clusters within the gene expression profile from all samples. Normalization and differential expression analyses were estimated from count data using DESeq2 (v1.4.5, https://bioconductor.org/packages/3.16/bioc/html/DESeq2.html).
Supplementary files format and content: txt files include read count values of all groups

source_name: PDGFRbeta+ cell

extract_protocol:
Total RNAs from cells were extracted using RNeasy Micro Kit (Cat # 74004, QIAGEN) according to the manufacture’s instruction.
RNA libarly was produced on a commercially available service (BGI).

value: PDGFRbeta+ cell

value: KO

value: Hypoxia-ischemia


title: WT-HI5_24 h

description: Library name: WH5


title: mm_rna_spreb.7

city: Chicago

first: Mark

last: Maienschein-Cline

state: IL

address: 900 S Ashland Ave, Rm 1058, M/C 937

department: Research Resources Center

institute: University of Illinois at Chicago

description: Library name: mm_rna_spreb.7

data_processing:
Raw reads were trimmed to remove Truseq adapters and bases from the 3’ end with quality scores less than 20 using cutadapt; trimmed reads shorter than 40bp were discarded. Trimmed reads were aligned to the reference genome using the STAR. UCSC gene annotations were quantified using FeatureCounts.
Assembly: mm9
Supplementary files format and content: tab-delimited text

source_name: Small pre-B cells

extract_protocol:
Total RNA was prepared with Rneasy mini kit (Qiagen).
Libraries were prepared by the University of Chicago Genomics Facility before sequencing.

treatment_protocol: Small pre-B cells were flow sorted as B220+CD19+CD43-IgM-FSClo.

value: Small pre-B cells

value: Cells were isolateed from bone marrow


title: NK_CD56dimCD16+_Rep 2

description:
Library name: NK_CD56dimCD16+_Rep 2
Column name in NKrepro.cnts.txt.gz: CD56dimCD16_rep2

value: wildtype


title: HSC,Het,rep1

description:
HSC,Het,rep1
GeneCounts_matrix_normalized.txt

value: Bone marrow

value: Hematopoietic stem cell

value: Alyref+/-


title: HSC,Het,rep2

description:
HSC,Het,rep2
GeneCounts_matrix_normalized.txt


title: NK_CD56dimCD16+_Rep 1

description:
Library name: NK_CD56dimCD16+_Rep 1
Column name in NKrepro.cnts.txt.gz: CD56dimCD16_rep1

value: NK cell

value: CD56dimCD16+ Natural killer cells


title: P22, intranasal (P20), IL1-beta, HuMSCs (125M cells/kg), replicate 2

description: Library name: p22inasp20-il1-dose3-2

value: brain

value: IL1-beta, HuMSCs (125M cells/kg)


title: P22, intranasal (P20), PBS, replicate 2

description: Library name: p22inasp20-pbs-2

value: male

value: isolated CD11b/c positive microglia


title: TENE_CD56+_Rep 5

description:
Library name: TENE_CD56+_Rep 5
Column name in NKrepro.cnts.txt.gz: CD56_rep5

value: HEF

value: human embryonic fibroblasts

value: Cells were transduced with TENE

value: Day 12

value: live(DAPI-) and CD56+


title: P22, intranasal (P20), PBS, replicate 1

description: Library name: p22inasp20-pbs-1

value: PBS

value: run 415


title: KO-HI1_24 h

description: Library name: H1

value: PDGFRbeta+ cell

value: KO

value: Hypoxia-ischemia


title: KO-HI3_24 h

description: Library name: H3


title: WT-HI1_24 h

description: Library name: WH1

value: WT


title: KO-Sham6

description: Library name: S6

value: Sham


title: KO-HI2_24 h

description: Library name: H2


title: TENE_CD56+_Rep 1

description:
Library name: TENE_CD56+_Rep 1
Column name in NKrepro.cnts.txt.gz: CD56_rep1

value: wildtype


title: P22, intranasal (P20), IL1-beta, HuMSCs (125M cells/kg), replicate 1

description: Library name: p22inasp20-il1-dose3-1

value: brain


title: HSC,WT,rep1

description:
HSC,WT,rep1
GeneCounts_matrix_normalized.txt

value: Bone marrow

value: Hematopoietic stem cell


title: WT-HI4_24 h

description: Library name: WH4


title: TENE_CD56+_Rep 4

description:
Library name: TENE_CD56+_Rep 4
Column name in NKrepro.cnts.txt.gz: CD56_rep4


title: P22, intranasal (P20), IL1-beta, HuMSCs (125M cells/kg), replicate 3

description: Library name: p22inasp20-il1-dose3-3

value: male

value: isolated CD11b/c positive microglia

value: IL1-beta, HuMSCs (125M cells/kg)


title: TENE_CD56+_Rep 3

description:
Library name: TENE_CD56+_Rep 3
Column name in NKrepro.cnts.txt.gz: CD56_rep3

value: HEF

value: human embryonic fibroblasts

value: Cells were transduced with TENE


title: P22, intravenous (P20), IL1-beta, replicate 2

description: Library name: p22ivp20-il1-2

value: run 416


title: KO-Sham3

description: Library name: S3


title: KO-Sham1

description: Library name: S1


title: Aged,HSC,Input,rep1

description:
Aged,HSC,Input,rep1
Aged.rev.Normalized_peaks.narrowPeak
Aged.fwd.Normalized_peaks.narrowPeak

library_source: other

data_processing:
First,Trim_galore (version0.6.6http://www.bioinformatics.babraham.ac.uk/projects/trim_galore/) was used for quality control and adaptor trimming.
Then, Processed reads were mapped to GRCm38 using bowtie (version 2.4.4). Duplicated reads were removed by using MarkDuplicates.jar.(Version:2.26.3)
Reads were separated into forward (representing R-loop signals on the Watson strand) and reverse (representing R-loop signals on the Crick strand) strand R-loop signals.
Strand-specific peaks were called by using macs3 (3.0.0b1).
Deeptools ( version 3.5.1) were used to calculate RPGC-normlized Rloop signal on the genome, gene region and peak region.
Assembly: GRCm38
Supplementary files format and content: bw files contained RPGC-normlized Rloop signal on the whole genome for each samples.
Supplementary files format and content: NarrowPeak files contained strand-specific peak were called by macs3 for aged and young samples separately.

molecule: other

extract_protocol:
Freshly isolated HSC(Lineage- Sca1+cKit+ CD34-) were subjected for gDNA extraction.Then the gDNA of young and aged HSC were performed for ssDRIP-seq
DNA libraries for young and aged HSC CHIP-seq were  prepared using the method of ssDRIP-seq

value: Aged ssDRIP-Input

tag: antibody


title: Aged,HSC,IP,rep2

description:
Aged,HSC,IP,rep2
Aged.rev.Normalized_peaks.narrowPeak
Aged.fwd.Normalized_peaks.narrowPeak

value: Aged ssDRIP-IP

value: Anti-DNA-RNA Hybrid, clone S9.6


title: P22, intranasal (P20), IL1-beta, HuMSCs (50M cells/kg), replicate 3

description: Library name: p22inasp20-il1-dose2-3

value: IL1-beta, HuMSCs (50M cells/kg)

value: run 415


title: WT-HI2_24 h

description: Library name: WH2

value: PDGFRbeta+ cell

value: WT

value: Hypoxia-ischemia


title: HEF_Rep 3

description:
Library name: HEF_Rep 3
Column name in NKrepro.cnts.txt.gz: HEF_rep3

value: wildtype

value: Cells were transduced with empty vector

value: Day 12

value: live(DAPI-)


title: P22, intranasal (P20), IL1-beta, HuMSCs (20M cells/kg), replicate 3

description: Library name: p22inasp20-il1-dose1-3

value: brain

value: male

value: isolated CD11b/c positive microglia

value: IL1-beta, HuMSCs (20M cells/kg)


title: TENE_CD56+_Rep 2

description:
Library name: TENE_CD56+_Rep 2
Column name in NKrepro.cnts.txt.gz: CD56_rep2

value: HEF

value: human embryonic fibroblasts

value: Cells were transduced with TENE

value: live(DAPI-) and CD56+


title: P22, intranasal (P20), IL1-beta, HuMSCs (20M cells/kg), replicate 1

description: Library name: p22inasp20-il1-dose1-1


title: WT-Sham2

description: Library name: WS2

value: Sham


title: P22, intranasal (P20), IL1-beta, HuMSCs (50M cells/kg), replicate 2

description: Library name: p22inasp20-il1-dose2-2

value: IL1-beta, HuMSCs (50M cells/kg)

value: run 415


title: PANC-1 cells, SLFN5 KO, IFN 2

first: Priyam

last: Patel

address: 750 North Lake Shore Drive, Rubloff 11-146

department: Quantitative Data Science Core

institute: Northwestern University

description: Library name: MF14

data_processing:
Adapters were trimmed from reads using cutadapt version 1.13
Trimmed reads were aligned to hg38 using STAR
Gene counting was performed using htseq-count version 0.6 1p1
Differential expression was performed using DESeq2
Assembly: hg38
Supplementary files format and content: tab-delimited file with read counts per gene

extract_protocol:
Total RNA was isolated using the RNeasy Mini Kit (QIAGEN), following the manufacturer’s instructions.
Sequencing libraries were prepared from 1 μg of high-quality RNA samples using Illumina TruSeq Stranded mRNA Library Preparation Kit (Illumina).

value: pancreatic cancer line

value: SLFN5 KO

value: interferon alpha


title: HEF_Rep 2

description:
Library name: HEF_Rep 2
Column name in NKrepro.cnts.txt.gz: HEF_rep2

value: wildtype

value: Cells were transduced with empty vector


title: Young,HSC,Input,rep1

description:
Young,HSC,Input,rep1
Young.rev.Normalized_peaks.narrowPeak
Young.fwd.Normalized_peaks.narrowPeak

value: Bone marrow

value: Hematopoietic stem cell

value: Young ssDRIP-Input


title: Aged,HSC,Nuclear,rep2

description:
Aged,HSC,Nuclear,rep2
tpm_matrix_normalized.txt

data_processing:
First,Trim_galore (version0.6.6http://www.bioinformatics.babraham.ac.uk/projects/trim_galore/) was used for quality control and adaptor trimming.
Then, Processed reads were mapped to GRCm38 using STAR (2.7.9a)
Gene expressions were counted by  RSEM (v1.3.1 ).
Assembly: GRCm38
Supplementary files format and content: a tab-delimited text file includes tpm for all samples
Supplementary files format and content: tab-delimited text files include read count, tpm and fpkm for each sample

molecule: nuclear RNA

extract_protocol:
Freshly isolated HSC(Lineage- Sca1+cKit+ CD34-) were subjected for cytoplasmic and nuclear RNA fractionation.Then the cytoplasmic and nuclear RNA fractionation were performed for RNA-seq
RNA libraries for cytoplasmic and nuclear RNA -seq were  prepared using the method of Smart-seq2

value: Aged Nuclear


title: Aged,HSC,IP,rep1

description:
Aged,HSC,IP,rep1
Aged.rev.Normalized_peaks.narrowPeak
Aged.fwd.Normalized_peaks.narrowPeak

value: Aged ssDRIP-IP

value: Anti-DNA-RNA Hybrid, clone S9.6


title: HEF_Rep 1

description:
Library name: HEF_Rep 1
Column name in NKrepro.cnts.txt.gz: HEF_rep1

value: HEF

value: human embryonic fibroblasts

value: Day 12

value: live(DAPI-)


title: P22, intranasal (P20), IL1-beta, HuMSCs (50M cells/kg), replicate 1

description: Library name: p22inasp20-il1-dose2-1

value: brain

value: male

value: isolated CD11b/c positive microglia

value: IL1-beta, HuMSCs (50M cells/kg)


title: PANC-1 cells, SLFN5 KO, IFN 4

description: Library name: MF16

value: pancreatic cancer line

value: SLFN5 KO

value: interferon alpha


title: Young,HSC,Input,rep2

description:
Young,HSC,Input,rep2
Young.rev.Normalized_peaks.narrowPeak
Young.fwd.Normalized_peaks.narrowPeak

value: Bone marrow


title: PANC-1 cells, SLFN5 KO, IFN 3

description: Library name: MF15


title: Young,HSC,IP,rep1

description:
Young,HSC,IP,rep1
Young.rev.Normalized_peaks.narrowPeak
Young.fwd.Normalized_peaks.narrowPeak

value: Hematopoietic stem cell

value: YoungssDRIP- IP


title: Aged,HSC,Nuclear,rep1

description:
Aged,HSC,Nuclear,rep1
tpm_matrix_normalized.txt

value: Aged Nuclear


title: KO-Sham4

description: Library name: S4

value: PDGFRbeta+ cell

value: KO

value: Sham


title: PANC-1 cells, SLFN5 KO, UT 2

description: Library name: MF11

value: untreated


title: Aged,HSC,Cytoplasm,rep2

description:
Aged,HSC,Cytoplasm,rep2
tpm_matrix_normalized.txt

molecule: cytoplasmic RNA

value: Aged Cytoplasm


title: Young,HSC,IP,rep2

description:
Young,HSC,IP,rep2
Young.rev.Normalized_peaks.narrowPeak
Young.fwd.Normalized_peaks.narrowPeak

value: Anti-DNA-RNA Hybrid, clone S9.6


title: WT-Sham3

description: Library name: WS3

value: WT


title: P22, intranasal (P20), IL1-beta, HuMSCs (20M cells/kg), replicate 2

description: Library name: p22inasp20-il1-dose1-2

value: brain

value: male

value: IL1-beta, HuMSCs (20M cells/kg)

value: run 415


title: WT-Sham1

description: Library name: WS1


title: P22, intranasal (P20), IL1-beta, replicate 2

description: Library name: p22inasp20-il1-2

value: isolated CD11b/c positive microglia


title: PBMC, rejection group, 14d, rep1

city: Xi’an

first: Xudan

address: Department of Hepatobiliary Surgery, Xijing Hospital, Fourth Military Medical University, 127 West Changle Street, Xi’an, 710032, China.

institute: Xijing Hospital

description:
Library name: LB14D_PBMC
10x Genomics

library_source: transcriptomic single cell

data_processing:
Raw sequencing data were processed using CellRanger software (v3.1, 10x Genomics, USA) to generate unique molecular identifier (UMI) count matrices for each cell. Data were further analyzed using the Seurat R package (v4.0.0) for normalization, clustering, and visualization. Low-quality cells (gene count < 500 or mitochondrial gene ratio > 25%) were filtered out. Batch effects were corrected using the fastMNN package, and the Louvain algorithm was applied for clustering. Nonlinear dimensionality reduction and visualization were performed using the RunUMAP function.
Assembly: GRCh38
Supplementary files format and content: Processed data files are provided in 10x Genomics-compatible formats:barcodes.tsv.gz: Contains the cell barcode sequences for identifying individual cells.features.tsv.gz: Lists the features (genes) captured in the dataset.matrix.mtx.gz: A sparse matrix of unique molecular identifier (UMI) counts, representing gene expression for each cell.

source_name: PBMC

extract_protocol:
For PBMCs: Fresh peripheral blood was diluted 1:1 with PBS and layered onto Ficoll lymphocyte separation solution (Beyotime, China). After centrifugation at 400g for 30 minutes at 18°C-20°C, the buffy coat layer (lymphocytes) was aspirated, washed three times with PBS, and stored.For liver tissues: Transplanted liver tissues were minced and digested with 1 mg/mL collagenase B (Roche, Switzerland) in Hanks' Balanced Salt Solution (Solarbio, China) at 37°C for 20 minutes. The digestion mixture was filtered through a 70 μm strainer and resuspended in PBS with 0.04% BSA (Biosharp, China).
Single-cell RNA-seq libraries were prepared using the Chromium Single Cell 5′ Library and Gel Bead & Multiplex Kit (10x Genomics, USA). A total of 10,000 cells per sample were loaded onto a Chromium controller. Libraries were sequenced on an Illumina NextSeq platform to achieve sufficient saturation.

value: PBMC

value: rejection group

tag: rep


title: Aged,HSC,Cytoplasm,rep1

description:
Aged,HSC,Cytoplasm,rep1
tpm_matrix_normalized.txt

value: Bone marrow

value: Hematopoietic stem cell


title: PANC-1 cells, SLFN5 KO, UT 1

description: Library name: MF10

value: pancreatic cancer line

value: SLFN5 KO


title: liver, rejection group, 14d, rep1

description:
Library name: LB14D_LIVER
10x Genomics

source_name: liver

value: liver


title: P22, intranasal (P20), IL1-beta, replicate 3

description: Library name: p22inasp20-il1-3


title: PANC-1 cells, SLFN5 KO, IFN 1

description: Library name: MF13

value: interferon alpha


title: P22, intranasal (P20), IL1-beta, replicate 1

description: Library name: p22inasp20-il1-1


title: PANC-1 cells, WT, IFN 3

description: Library name: MF7


title: Young,HSC,Nuclear,rep1

description:
Young,HSC,Nuclear,rep1
tpm_matrix_normalized.txt

value: Young Nuclear


title: P12, intravenous (P10), PBS, replicate 3

description: Library name: p12ivp10-pbs-3

value: PBS

value: run 413


title: PANC-1 cells, SLFN5 KO, UT 3

description: Library name: MF12

value: untreated


title: liver,  healthy control, 0d, rep1

description:
Library name: Lewis_LIVER
10x Genomics

value: healthy control group


title: PANC-1 cells, WT, IFN 2

description: Library name: MF6

value: WT


title: P12, intravenous (P10), PBS, replicate 2

description: Library name: p12ivp10-pbs-2

value: brain

value: male


title: Young,HSC,Nuclear,rep2

description:
Young,HSC,Nuclear,rep2
tpm_matrix_normalized.txt


title: PANC-1 cells, WT, IFN 1

description: Library name: MF5


title: liver, rejection group, 7d, rep3

description:
Library name: LB7D3_LIVER
10x Genomics


title: P12, intravenous (P10), PBS, replicate 1

description: Library name: p12ivp10-pbs-1

value: isolated CD11b/c positive microglia


title: P12, intravenous (P10), IL1-beta, HuMSCs (125M cells/kg), replicate 3

description: Library name: p12ivp10-il1-dose3-3

value: IL1-beta, HuMSCs (125M cells/kg)


title: cardiomyocyte,adult

city: ATLANTA

first: Jinhu

state: Georgia

address: 101 WOODRUFF CIRCLE WMB 2304

institute: Emory University

description:
Library name: Sample 1
10x genomics

data_processing:
All processing was performed in 10X Genomics CellRanger v3.1.0 using default parameters
Assembly: Danio_rerio_GRCz11
Supplementary files format and content: Cell Ranger outputs a .mtx file with the feature-barcode matrix. This matrix contains the counts of molecules per cell (UMI/cell) as determined after filtering and counting by Cell Ranger. The matrix is in market exchange format while the row (gene or feature) and columns (cell barcodes) are provided as TSV files. File formats are documented in the Cell Ranger software manual

organism: Danio rerio

source_name: heart

extract_protocol:
Hearts were dissected from adult zebrafish, and ventricles were digested with Liberase TM (0.26 U/ml ). Dissociated cells were spun down and live EGFP+ cells were sorted by flow cytometry.
Library was performed according to the manufacter’s instructions (single cell 3’ v3.1 protocol, 10x Genomics )

value: heart

value: cardiomyocyte

value: wide-type (cmlc2:EGFP)


title: Young,HSC,Cytoplasm,rep1

description:
Young,HSC,Cytoplasm,rep1
tpm_matrix_normalized.txt

value: Bone marrow

value: Hematopoietic stem cell

value: Young Cytoplasm


title: P12, intravenous (P10), IL1-beta, HuMSCs (125M cells/kg), replicate 2

description: Library name: p12ivp10-il1-dose3-2


title: PBMC, rejection group, 7d, rep2

description:
Library name: LB7D2_PBMC
10x Genomics

value: PBMC

value: rejection group


title: PANC-1 cells, WT, UT 4

description: Library name: MF4

value: pancreatic cancer line


title: liver, rejection group, 7d, rep2

description:
Library name: LB7D2_LIVER
10x Genomics

value: liver


title: Young,HSC,Cytoplasm,rep2

description:
Young,HSC,Cytoplasm,rep2
tpm_matrix_normalized.txt


title: PBMC, rejection group, 7d, rep3

description:
Library name: LB7D3_PBMC
10x Genomics


title: Morphine-3

city: Xi'an

first: Yuxiang

last: Zhang

state: Shaanxi

address: 76 Yanta West Road

department: College of Forensic Medicine

institute: Xi’an Jiaotong University

data_processing:
Raw reads of fastq format were subject to quality control and cleared using Cutadapt software (V1.9.3). Paired-end clean reads were aligned to the reference genome using HISAT2 v2.1.0
HTSeq v0.11.2 was used to count the reads numbers mapped to each gene. FPKM of each gene was calculated based on the length of the gene and reads count mapped to this gene.
Gene differential expression analysis was performed using the DESeq2 R package (1.26.0).
StringTie (v1.3.3) was used to assembl ethe transcriptome from the mapped reads and to calculate the FPKM values of transcripts in each sample. Differential expression analysis was performed using the DESeq R package (1.8.3)
CIRCexplorer (v2.2.3) was used to identify both the circularizing junction and the spliced sequence of circRNAs. circRNA differential expression analysis was performed using the limma R package (3.40.6) estimated by TPM (transcript per million).
Assembly: mm10
Supplementary files format and content: all.sample.gene.count.fpkm.txt

source_name: Medial prefrontal cortex

extract_protocol:
Total RNA was isolated from medial prefrontal cortex using RNeasy mini plus kit (Qiagen, Hilden, Germany).
3 μg of total RNA per sample was used for the construction of sequencing libraries. Ribosomal RNA was removed by the Ribo-Zero rRNA Removal Kit (Illumina, CA, USA) and sequencing libraries were generated using the NEBNext® Ultra™ Directional RNA Library Prep Kit for Illumina® (NEB, USA).

value: Medial prefrontal cortex

tag: age

value: 8-10 weeks

value: morphine (10 mg/kg, i.p.)


title: Aged,HSC,Input,rep2

description:
Aged,HSC,Input,rep2
Aged.rev.Normalized_peaks.narrowPeak
Aged.fwd.Normalized_peaks.narrowPeak

value: Aged ssDRIP-Input


title: PANC-1 cells, WT, UT 3

description: Library name: MF3

value: WT

value: untreated


title: Morphine-1

value: male


title: P12, intravenous (P10), IL1-beta, HuMSCs (50M cells/kg), replicate 3

description: Library name: p12ivp10-il1-dose2-3

value: brain

value: isolated CD11b/c positive microglia

value: IL1-beta, HuMSCs (50M cells/kg)

value: run 413


title: PANC-1 cells, WT, UT 2

description: Library name: MF2


title: P12, intravenous (P10), IL1-beta, HuMSCs (50M cells/kg), replicate 2

description: Library name: p12ivp10-il1-dose2-2


title: Saline-2

value: saline (10 ml/kg, i.p.)


title: P12, intravenous (P10), IL1-beta, HuMSCs (50M cells/kg), replicate 1

description: Library name: p12ivp10-il1-dose2-1


title: PANC-1 cells, WT, UT 1

description: Library name: MF1


title: liver, rejection group, 7d, rep1

description:
Library name: LB7D1_LIVER
10x Genomics


title: PBMC, rejection group, 1d, rep2

description:
Library name: LB1D3_PBMC
10x Genomics


title: Saline-3


title: P12, intravenous (P10), IL1-beta, HuMSCs (125M cells/kg), replicate 1

description: Library name: p12ivp10-il1-dose3-1

value: IL1-beta, HuMSCs (125M cells/kg)


title: Saline-1


title: PBMC, rejection group, 7d, rep1

description:
Library name: LB7D1_PBMC
10x Genomics

value: PBMC


title: EAOC, 2

type: RNA

city: Kaohsiung

first: ChiaYi

last: Hsu

state: State...

address: No. 100, Shih-Chung 1

country: Taiwan

institute: Kaohsiung Medical University Hospital, Kaohsiung Medical University

description:
Enoca
SAMPLE 20

data_processing: miRNA signals normalized to housekeeping genes; 2^-deltaCt, where deltaCt = (Ct_Target − Ct_control)

source_name: EAOC

label_protocol: The qPCR analysis was performed using the Eztime Fast Real Time 5PCR Premix (2´, SYBR-Green, ROX; Yeastern Biotech) and a Model 7500 Real-Time PCR System (Applied Biosystems; Thermo Fisher Scientific).

extract_protocol: Total RNA was extracted using the TOOLSmart RNA Extractor (Biotools, New Taipei City, Taiwan)

tag: group

value: EAOC


title: PBMC, rejection group, 1d, rep1

description:
Library name: LB1D2_PBMC
10x Genomics

value: rejection group


title: SS CD8+CCR7+CD45RO- Naive cells

city: Melbourne

first: Jianan

address: 305 Grattan Street

country: Australia

institute: Peter MacCallum Cancer Centre

data_processing:
Two to five million single-end reads were generated as an output. Adaptor trimming was performed, and reads were aligned to the mm10 reference genome using HISAT2
The RNAseq counts were normalized using RUVIII to remove batch effects and other unwanted variations
The P-TRM gene signature was derived from the differential expression analysis by filtering the genes by FDR<0.01 and logFC>1.
Assembly: hg19

source_name: Matched blood

growth_protocol: 2-5 ng used for RNA library preparation according to the manufacturer’s instructions with Ribo-Depletion NEB

extract_protocol:
Total RNA was extracted from indicated T cell populations. RNA Tape Station (Agilent, USA) analysis was performed as per the manufacturer's instructions to assess the quantity and quality of RNA present in the sample
The library was then amplified with 3’ PCR primers containing sample indices and the Illumina clustering guides. Indexed libraries were pooled and sequenced on a NextSeq500 (Illumina)

treatment_protocol: The 10X Lysis Buffer is a cell lysis buffer that can be used together with the SMARTer Ultra Low Input RNA Kit for Sequencing - v3 and the SMART-Seq v4 Ultra Low Input RNA Kit for Sequencing.

value: Matched blood

tag: cd8+ type

value: Circulating blood Naive_T

tag: patient

value: SS


title: P12, intravenous (P10), IL1-beta, HuMSCs (20M cells/kg), replicate 1

description: Library name: p12ivp10-il1-dose1-1

value: IL1-beta, HuMSCs (20M cells/kg)


title: EAOC, 1

description:
CCC
SAMPLE 19


title: SS CD8+CD69+CD103+ TRM cells

source_name: Human breast

value: Human breast

value: Normal breast TRM


title: Morphine-2

value: Medial prefrontal cortex

value: 8-10 weeks

value: morphine (10 mg/kg, i.p.)


title: MP CD8+CCR7+CD45RO- Naive cells

value: MP


title: P12, intravenous (P10), IL1-beta, HuMSCs (20M cells/kg), replicate 3

description: Library name: p12ivp10-il1-dose1-3

value: brain

value: male

value: isolated CD11b/c positive microglia


title: SS CD8+CCR7+CD45RO+ memory cells

value: Circulating blood Memory_T


title: liver, rejection group, 1d, rep2

description:
Library name: LB1D3_LIVER
10x Genomics

value: liver


title: liver, rejection group, 1d, rep1

description:
Library name: LB1D2_LIVER
10x Genomics


title: MP CD8+CCR7+CD45RO+ memory cells


title: endometriosis, 7

description: SAMPLE 17

source_name: endometriosis

value: endometriosis


title: PBMC, healthy control, 0d, rep1

description:
Library name: BN_PBMC
10x Genomics

value: PBMC

value: healthy control group


title: P12, intravenous (P10), IL1-beta, replicate 2

description: Library name: p12ivp10-il1-2

value: run 413


title: MP CD8+CD69+CD103+ TRM cells


title: PBMC, syngeneic group, 7d, rep3

description:
Library name: BB7D3_PBMC
10x Genomics

value: syngeneic group


title: P12, intravenous (P10), IL1-beta, HuMSCs (20M cells/kg), replicate 2

description: Library name: p12ivp10-il1-dose1-2

value: IL1-beta, HuMSCs (20M cells/kg)


title: P12, intravenous (P10), IL1-beta, replicate 3

description: Library name: p12ivp10-il1-3


title: P12, intravenous (P10), IL1-beta, replicate 1

description: Library name: p12ivp10-il1-1


title: PBMC, syngeneic group, 7d, rep2

description:
Library name: BB7D2_PBMC
10x Genomics


title: endometriosis, 6

description: SAMPLE 16


title: BB CD8+CCR7+CD45RO- Naive cells

value: Matched blood

value: Circulating blood Naive_T

value: BB


title: endometriosis, 5

description: SAMPLE 15


title: liver, syngeneic group, 7d, rep2

description:
Library name: BB7D2_LIVER
10x Genomics


title: BB CD8+CCR7+CD45RO+ memory cells


title: P12, intranasal (P10), PBS, replicate 3

description: Library name: p12inasp10-pbs-3

value: PBS

value: run 412


title: endometriosis, 3

description: SAMPLE 13


title: endometriosis, 4

description: SAMPLE 14


title: BB CD8+CD69+CD103+ TRM cells

value: Human breast

value: Normal breast TRM


title: DBZ_9D_REF_BCAT17802_9D3

city: Boston

first: Birgit

last: Knoechel

state: MA

address: 450 Brookline Ave

department: pediatric oncology

institute: Dana Farber Cancer Institute

library_source: genomic

data_processing:
HiChIP data was processed using HiC-Pro. Generation of matrices and bam alignment files with all valid reads was performed using Hicexplorer.
Hichip-peaks (https://github.com/ChenfuShi/HiChIP_peaks) and Hichipper (https://github.com/aryeelab/hichipper) were used to call peaks and loops, respectively.
Anchors were annotated as promoters or enhancers via bedtools intersect with RefSeq hg19 annotation of transcription start sites padded by 1kb. diffloop and edgeR  were used to combine loop read counts across samples and determine statistical significance. diffloop was further used for loops and loop anchors annotation.
Assembly: hg19
Library strategy: HiChIP-seq

molecule: genomic DNA

source_name: spleen

extract_protocol:
After crosslinking with fresh 1% formaldehyde, 10 million cells were resuspendend in 500 μL of ice-cold Hi-C lysis buffer.
The library was performed as previously described in Mumbach et al. using antibody to H3K27ac (Active Motif, Catalog 39133). Libraries were quantified using barcoded PCR primers and Bioanalyzer. After size selection, libraries were amplified with indexed Nextera PCR primers and paired-end sequenced.

treatment_protocol: Leukemic blasts were recovered from spleens of mice treated for 5days (short-term) or long-term (when moribund) with the Notch1 inhibitor DBZ (Dipenzazepine; 10Mol/kg via intraperitoneal (IP) injection 3x/week) or vehicle.

value: spleen

value: DBZ


title: PBMC, syngeneic group, 7d, rep1

description:
Library name: BB7D1_PBMC
10x Genomics


title: P12, intranasal (P10), PBS, replicate 2

description: Library name: p12inasp10-pbs-2

value: brain

value: male

value: isolated CD11b/c positive microglia


title: DBZ_5D_REF_BCAT17802_8D1


title: P12, intranasal (P10), PBS, replicate 1

description: Library name: p12inasp10-pbs-1


title: liver, syngeneic group, 7d, rep1

description:
Library name: BB7D1_LIVER
10x Genomics

value: liver


title: endometriosis, 8

description: SAMPLE 18

value: endometriosis


title: P12, intranasal (P10), IL1-beta, HuMSCs (125M cells/kg), replicate 3

description: Library name: p12inasp10-il1-dose3-3

value: IL1-beta, HuMSCs (125M cells/kg)


title: P12, intranasal (P10), IL1-beta, HuMSCs (125M cells/kg), replicate 2

description: Library name: p12inasp10-il1-dose3-2


title: liver, syngeneic group, 7d, rep3

description:
Library name: BB7D3_LIVER
10x Genomics

value: syngeneic group


title: liver, syngeneic group, 1d, rep2

description:
Library name: BB1D2_LIVER
10x Genomics


title: VEH_10D_REF_BCAT17802_8D0


title: endometriosis, 1

description: SAMPLE 11


title: VEH_5D_REF_BCAT17802_7D0


title: PBMC, syngeneic group, 1d, rep2

description:
Library name: BB1D2_PBMC
10x Genomics

value: PBMC


title: P12, intranasal (P10), IL1-beta, HuMSCs (125M cells/kg), replicate 1

description: Library name: p12inasp10-il1-dose3-1


title: Control, 10

description:
benign gynecological disease
SAMPLE 10

source_name: Controls

value: Controls


title: PBMC, syngeneic group, 1d, rep1

description:
Library name: BB1D1_PBMC
10x Genomics


title: P12, intranasal (P10), IL1-beta, HuMSCs (50M cells/kg), replicate 3

description: Library name: p12inasp10-il1-dose2-3

value: IL1-beta, HuMSCs (50M cells/kg)


title: Control, 9

description:
benign gynecological disease
SAMPLE 9


title: EDerm cells, BHV1 infection, 9hpi, tech rep 1 & 2

city: Freiburg

first: Florian

last: Full

address: Hermann-Herder-Str. 11

country: Germany

institute: Institute of Virology, University Medical Center Freiburg

description:
Library name: EDerm_9hpi1
Column Name counts_Ederm.tsv: EDermEHV19h1_01_good and  EDermEHV19h2_01_good ; Techn. replicates at library-prep level

data_processing:
mRNASeq pipeline from snakePipes 3.1.0 was used; TrimGalore was used for adapter and base quality trimming, STAR was used for the alignment.
Assembly: Hybrid genomes of host and virus: HFF: hg38 (GRCh38.p14, Release 47) & GCA_027937515.1; Ederm: TB-T2T genome (GCF_041296265.1) & GCA_000844025.1; MDBK: ARS-UCD2.0 (GCF_002263795.3) & GCA_008777455.1
Supplementary files format and content: counts files generated by featurecounts

organism: Equus caballus

source_name: cell line

extract_protocol:
Prior to RNA isolation and purification samples were thawed (frozen at -80°C) and incubated at room temperature for at least 5 min. RNA was isolated and purified following manufacturers’ instructions  (RNA clean and concentrator kit Zymo Research).
Sequencing libraries were prepared using the NEBNext Ultra II Directional RNA Library Prep Kit for Illumina (NEB) with 9 cycles PCR amplification

value: cell line

tag: cell line

value: Ederm (NBL-6)

value: Equine dermal fibroblast

value: WT


title: DBZ_19D_SEN_BCAT15776_10D0

tag: cell type


title: liver, syngeneic group, 1d, rep1

description:
Library name: BB1D1_LIVER
10x Genomics


title: P12, intranasal (P10), IL1-beta, HuMSCs (50M cells/kg), replicate 2

description: Library name: p12inasp10-il1-dose2-2

value: run 412


title: DBZ_27D_SEN_BCAT15776_10C0

value: spleen


title: Control, 8

description:
benign gynecological disease
SAMPLE 8


title: Control, 7

description:
benign gynecological disease
SAMPLE 7


title: DBZ_5D_SEN_BCAT15776_10C10

value: DBZ


title: endometriosis, 2

description: SAMPLE 12


title: EDerm cells, BHV1 infection, 6hpi,  tech rep 1 & 2

description:
Library name: EDerm_6hpi1
Column Name counts_Ederm.tsv: EDermEHV16h1_01_good and EDermEHV16h2_01_good ; Techn. replicates at library-prep level

tag: genotype


title: P12, intranasal (P10), IL1-beta, HuMSCs (50M cells/kg), replicate 1

description: Library name: p12inasp10-il1-dose2-1

value: brain


title: EDerm cells, BHV1 infection, 2hpi,  tech rep 1 & 2

description:
Library name: EDerm_2hpi1
Column Name counts_Ederm.tsv: EDerm2h1_01_good and EDerm2h2_01_good ; Techn. replicates at library-prep level


title: VEH_5D_SEN_BCAT15776_10D3


title: Control, 6

description:
benign gynecological disease
SAMPLE 6


title: P12, intranasal (P10), IL1-beta, HuMSCs (20M cells/kg), replicate 3

description: Library name: p12inasp10-il1-dose1-3

value: male

value: IL1-beta, HuMSCs (20M cells/kg)


title: P12, intranasal (P10), IL1-beta, HuMSCs (20M cells/kg), replicate 2

description: Library name: p12inasp10-il1-dose1-2

value: isolated CD11b/c positive microglia


title: P12, intranasal (P10), IL1-beta, HuMSCs (20M cells/kg), replicate 1

description: Library name: p12inasp10-il1-dose1-1


title: EDerm cells, Mock,  tech rep 1 & 2

description:
Library name: EDerm_Mock1
Column Name counts_Ederm.tsv: EDermMock1_01_good and  EDermMock2_01_good ; Techn. replicates at library-prep level

value: Mock


title: Control, 4

description:
benign gynecological disease
SAMPLE 4


title: Control, 5

description:
benign gynecological disease
SAMPLE 5


title: Control, 3

description:
benign gynecological disease
SAMPLE 3


title: VEH_5D_SEN_BCAT15776_10B0


title: P12, intranasal (P10), IL1-beta, replicate 3

description: Library name: p12inasp10-il1-3


title: VEH_10D_BCAT17802_8D0_TotalH3.mLb.clN

data_processing:
Mint-ChIP was proocessed using nf-corepipeline using the default settings.
Assembly: hg19
Library strategy: Mint-ChIP

extract_protocol:
Leukemic blasts were lysed and digested with Mnase. Nucleosomes were barcoded with T7-adapters and the indexed samples were incubated with H3K27ac (Active Motif, Catalog 39133) and H3 antibodies (Active Motif, Catalog No: 39763). DNA fragments were isolated, amplified and reverse transcribed.
Library was performed according to Mint-ChIP protocol published by Van Galen et al., where cDNA was fragmented and barcoded with Illumina primers followed by single paired-end sequencing run.

treatment_protocol: Leukemic blasts were harvested from spleens of sensitive and refractory to Notch1 inhibitor DBZ mice treated with vehicle.

value: VEH


title: P12, intranasal (P10), IL1-beta, replicate 2

description: Library name: p12inasp10-il1-2


title: HepG2 control

city: Nanjing

first: Yan

last: Zeng

state: Jiangsu

address: XuanWu District, No.1 WeiGang

institute: Nanjing Agricultural University

description: Library name: 5

data_processing:
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to human.GRCh38 whole genome using hisat2-2.0.1.
Fragments Per Kilo bases per Million reads (FPKM) were calculated using a protocol from Mortazavi et al., 2008.
Assembly: human.GRCh38
Supplementary files format and content: .txt files contain FPKM values

source_name: HepG2 cells

growth_protocol: Cells wre grown in the appropriate cell culture media supplemented with 10% FBS and 2 mM L-glutamine at 37oC and 5% CO2 in an incubator.

extract_protocol:
Total RNA was harvested using Trizol reagent.
1 μg total RNA was used for library preparation. Poly(A) mRNA was isolated using oligo(dT) beads.  mRNA was fragmented with divalent cations and high temperature. Random Primers were used to prime cDNA synthesis, and first strand cDNA and the second-strand cDNA synthesized. Double-stranded cDNA was treated to repair both ends and add a dA-tail, followed by a T-A ligation to add adaptors to both ends. Size selection of adaptor-ligated DNA was then performed using DNA Clean Beads. .Each sample was amplified by PCR using adapter sequence primers at both ends.  Libraries were multiplexed and loaded on an Illumina HiSeq/ Illumina Novaseq/ MGI2000 instrument for sequencing using a 2x150 paired-end (PE) configuration according to manufacturer’s instructions

treatment_protocol: Cells were transiently transfected with a control or CS siRNA for 2, 4, or 6 days.

value: HepG2 cells

value: Control siRNA


title: HepG2 CS RNAi

description: Library name: 6

value: CS siRNA


title: DBZ_5D_SEN_BCAT15776_10D1


title: Control, 2

description:
benign gynecological disease
SAMPLE 2

value: Controls


title: P12, intranasal (P10), IL1-beta, replicate 1

description: Library name: p12inasp10-il1-1


title: VEH_5D_SEN_BCAT15776_10B0_TotalH3.mLb.clN


title: VEH_10D_BCAT17802_8D0_H3K27ac.mLb.clN


title: HT1080 CS RNAi

description: Library name: 4

source_name: HT1080 cells

value: HT1080 cells


title: Control, 1

description:
benign gynecological disease
SAMPLE 1


title: HCT116 CS RNAi

description: Library name: 2

source_name: HCT116 cells

value: HCT116 cells


title: B. mori_FWD, scRNA-seq

city: Shanghai

first: Qiancheng

last: Xiao

address: Building 25, No. 1188, LIANHANG Road, Pujiang Town, Minhang District, Shanghai

institute: Shanghai OE Biotech Co., Ltd

description: Collected larvae were dissected to prepare intact wing disc samples

data_processing:
The Cell Ranger software pipeline provided by 10×Genomics was used to demultiplex cellular barcodes, map reads to the genome and transcriptome using the STAR aligner, and down-sample reads as required to generate normalized aggregate data across samples, producing a matrix of gene counts versus cells
Assembly: Bmori_2016v1.0
Supplementary files format and content: Matrix table with raw gene counts for every gene and every cell

organism: Bombyx mori

source_name: wing disc

extract_protocol:
Single cells were suspended in calcium- and magnesium-free PBS containing 0.04% weight/volume BSA. Then Cells were added to each channel. After generation of GEMs, reverse transcription reactions were engaged barcoded full-length cDNA followed by the disruption of emulsions using the recovery agent and cDNA clean up with DynaBeads Myone Silane Beads (Thermo Fisher Scientific). Subsequently, the amplified cDNA was fragmented, end-repaired, A-tailed,  and index adaptor ligated and library amplification.
RNA libraries  were prepared with Chromium Single cell 3’ Reagent v3 Kits according to the manufacturer’s protocol.

value: wing disc

value: wing disc cells

value: Day 6 fifth-instar


title: VEH_5D_SEN_BCAT15776_10B0_H3K27ac.mLb.clN

value: spleen


title: MC38, Tumor Cells, Colon adenocarincoma

city: Cambridge

first: Charles

middle: Ara

last: Demurjian

address: 31 Ames Street

institute: BioMicro Center at MIT

description: Library name: MC38

data_processing:
Raw data were processed with Cell Ranger v3.0.1 (mm10 reference) and further analyzed with Seurat v3.2.2
Assembly: mm10
Supplementary files format and content: Processed gene expression data are provided as a 10x Genomics HDF5 file (filtered_feature_bc_matrix.h5) containing a filtered gene-by-barcode count matrix of nuclear RNA UMI counts. The file stores gene identifiers, cell barcodes, and the corresponding sparse expression matrix used for downstream single-nucleus RNA-seq analysis.

source_name: tumor

extract_protocol:
MC38-SIY colon carcinoma and B16-SIY melanoma cell lines (Gajewski Laboratory, University of Chicago) were cultured in DMEM supplemented with 10% FBS, 1% penicillin/streptomycin, and 1× HEPES at 37 °C, 5% CO2. Cell lines were routinely tested for mycoplasma. Tumor cells were detached with 0.25% trypsin-EDTA, washed, and 2 × 106 cells in 100 µL PBS were injected subcutaneously into the flank. Tumors were harvested 14 days post-implantation. Tumors were minced and digested for 20 min at 37 °C in RPMI containing 250 µg/mL Liberase (Sigma-Aldrich) and 50 µg/mL DNase I (Sigma-Aldrich), then mashed through a 70 µm strainer. Tumors of the same type were pooled, washed three times in chilled FACS buffer (PBS + 1% FBS + 2 mM EDTA), blocked with anti-CD16/32 (clone 93, BioLegend; 1:100), and stained with Fixable Viability Dye eFluor 780 (eBioscience; 1:2000) and fluorophore-conjugated antibodies. Live CD45+ cells were sorted on a BD FACSAria III into RPMI + 10% FBS. Sorted cells were resuspended in PBS + 0.04% BSA at ~1,000 cells/µL.
Single-cell 3′ gene expression libraries (no CITE-seq or TCR sequencing) were generated using Chromium Single Cell 3′ Reagent Kits v2 (10x Genomics) and sequenced on an Illumina HiSeq 2000.

value: tumor


title: B16, Tumor Cells, melanoma

description: Library name: B16


title: HT1080 control

description: Library name: 3

value: WT


title: HCT116 control

description: Library name: 1


title: B. mori_HWD, scRNA-seq


title: FLO-1, GFP_2

status: Public on Jan 13 2026

city: Kuala Lumpur

first: M. Aiman

last: Mohtar

state: (select)

address: UKM Medical Molecular Biology Institute (UMBI)

country: Malaysia

institute: Universiti Kebangsaan Malaysia

data_processing:
Paired-end reads were removed of low-quality reads (below Phred score Q20) and sequence adaptor using Cutadapt version: 3.50 (Martin 2011) implemented in trim-galore V0.6.7 (https://www.bioinformatics.babraham.ac.uk/projects/trim_galore/). Quality of clean reads were inspected using FastQC (version 0.11.8) and compiled into a single report using MultiQC V1.14
Clean reads were mapped on the human genome using STAR aligner V2.7. 10a
Assembly: GRCh38.p14
Supplementary files format and content: raw counts for each sample
Supplementary files format and content: DESeq2_SigResults_Treated_Control.xls

growth_protocol: The FLO-1 cells stably expressing EpCAM-GFP or GFP  were maintained in DMEM media supplemented with 10% FBS  and 1% penicillin-streptomycin solution . All cell lines were cultured in 95% humidified incubators with 5% CO2.

extract_protocol:
RNA was extracted using Monarch® Total RNA Miniprep Kit. The samples were prepared according to the MGIEasy RNA Directional library preparation guide with the Dynabeads® mRNA purification kit for mRNA enrichment
The libraries that passed QC were pooled based on library concentration and target data volume for sequencing on the MGI platform, DNBSEQ-G400 set at 100 million total raw reads. The mRNA sample is enrichment was performed with Dynabeads® mRNA Purification Kit before being subjected to RNA fragmentation. The fragmented mRNA is reverse transcribed to cDNA and is followed by a second strand synthesis, end-repair and A-tailing, adapter ligation, and PCR amplification .

value: human esophageal adenocarcinoma

value: GFP overexpression


title: ANG-M7-P40B12_SWT_29C_Biol_Rep2

city: Delaware

first: Andrea

middle: Maria

last: Suria

state: OH

address: 61 S Sandusky Street

department: Biological Sciences

institute: Ohio Wesleyan University

description: Library name: P40B12_B

data_processing:
Raw reads were trimmed using Trimmomatic v.0.36 with the following settings: sliding window size = 4, sliding window minimum quality = 20, head crop length = 0, leading minimum quality = 3, trailing minimum quality = 3, minimum read length = 45.
Trimmed reads were mapped to the Leisingera sp. ANG-M7 WT genome (GCF 000813965.1) using Bowtie2 v. 2.3.4 with default settings
Samtools v.1.10 was used to convert SAM to BAM files sorted by coordinate order.
Read counts were calculated using the featureCounts tool in the Subread v.2.0.1 package. Genes with raw counts less than 5 were removed from the analysis.
Read counts were TMM normalized and differential expression analysis was performed using EdgeR and DESeq2.
Assembly: Leisingera sp. ANG-M7 (GCF 000813965.1)
Supplementary files format and content: Comma separated file of raw read counts for all samples
Supplementary files format and content: Tab-delimited text file of TMM normalized counts for all samples

organism: Leisingera sp. ANG-M7

source_name: Leisingera sp. ANG-M7

growth_protocol: All cells were grown in 5.0 ml seawater tryptone (SWT) broth, 29°C, 200 rpm, for 8 h

extract_protocol:
Cells were harvested for immediate RNA extraction using the Invitrogen mirVana miRNA isolation kit following the manufacturer protocol. Total RNA was treated with Invitrogen TURBO DNase for 1 h.
Libraries were constructed by SeqCenter (Pittsburgh, PA, USA) to produce single-end 175 bp raw reads using the Illumina Stranded mRNA prep kit.

value: Leisingera sp. ANG-M7

value: Tn5 insertion in RA26_RS19640


title: FLO-1, GFP_1

department: UKM Medical Molecular Biology Institute (UMBI)


title: FLO-1, EPCAM GFP_1

value: EPCAM-GFP overexpression


title: ANG-M7-P08F01_SWT_29C_Biol_Rep3

description: Library name: P08F1_C

value: Tn5 insertion in intergenic region before RA26_RS14115


title: ANG-M7-P24E03_SWT_29C_Biol_Rep2

description: Library name: P24E3_B

value: Tn5 insertion in RA26_RS14115


title: ANG-M7-P24E03_SWT_29C_Biol_Rep3

description: Library name: P24E3_C


title: ANG-M7-P08F01_SWT_29C_Biol_Rep2

description: Library name: P08F1_B


title: ANG-M7-P08F01_SWT_29C_Biol_Rep1

description: Library name: P08F1_A


title: ANG-M7-WT_SWT_29C_Biol_Rep2

description: Library name: M7WT_B


title: FLO-1, EPCAM GFP_2


title: ANG-M7-WT_SWT_29C_Biol_Rep3

description: Library name: M7WT_C


title: mutant ENF-5-29, 25°C, day18

first: Haodong

last: Chen

address: Gebaini Road 285#

institute: China State Institute of Pharmaceutical Industry

description: Library name: sample 4

data_processing:
CLC Genomics Workbench v11.0.1
Sequence reads were trimmed for adaptor sequence/low-quality sequence using CLC genomic benchwork (parameter-Qualitylimit:0.05)
Read count extraction and normalization were performed using CLC genomic benchwork
Assembly: reference genome was NCBI GenBank Database JBNOXU000000000
Supplementary files format and content: tab-delimited text file includes raw counts for each sample
Supplementary files format and content: csv files include TPM/FPKM values fo reach sample

organism: Hormonema carpetanum

source_name: mycelium

extract_protocol:
Total RNAs from the fermentation broth of the wild-type strain ATCC 74360 and the mutant ENF-5-29 after fermentation for 18 days were extracted with a Fast Pure Cell/Tissue Total RNA isolation kit (Vazyme, Nanjing, China). 2 µg of total RNA was used for the construction of sequencing libraries.
RNA libraries for RNA-seq were prepared using SMARTER mRNA-Seq Library Prep Kit following manufacturer's protocols.

value: mycelium

value: MUTANT


title: IMAT, miRNAs, rep5

city: Barcelona

first: Enrique

last: Rosell-Moll

address: Av Diagonal, 643 4º floor

country: Spain

institute: University of Barcelona

description:
Library name: I5
Performed by Azenta/GENEWIZ (Leipzig, Germany)

data_processing:
Raw FASTQ files were quality filtered and adapter sequences were removed using Trimmomatic v0.30.
Clean reads were aligned to miRBase and Rfam databases using BLASTn for miRNA annotation.
Novel miRNAs were identified by alignment to the Oncorhynchus mykiss reference genome and prediction using miRDeep2 v2.0.0.7.
Differential expression analysis was performed using edgeR v3.4.6 with TMM normalization.
Lowly expressed miRNAs (average TPM < 1) were filtered prior to downstream analyses.
Assembly: Oncorhynchus mykiss reference genome USDA_OmykA_1.1 (Ensembl, accessed August 2024).
Supplementary files format and content: all.fpkm.xls file includes raw counts and TPM values for each sample.

organism: Oncorhynchus mykiss

source_name: Intramuscular adipose tissue

growth_protocol: Adult rainbow trout (Oncorhynchus mykiss) were maintained in a freshwater recirculating system under controlled conditions (15 ± 1°C; 12 h light/12 h dark photoperiod) and fed a commercial diet until visual satiety. Fish were acclimated for one month prior to sampling. Before tissue collection, fish were fasted for 24 h to reduce gastrointestinal content.

extract_protocol:
Adipose tissue was dissected from fish (visceral, subcutaneous, and intramuscular depots). Mature adipocytes were isolated by mechanical and enzymatic digestion using collagenase type II. Total RNA, including small RNA species, was extracted using TRIzol reagent (Thermo Fisher Scientific, Waltham, MA, USA), followed by chloroform, isopropanol, and ethanol extraction according to the manufacturer’s instructions. RNA quality and integrity were assessed prior to sequencing.
Small RNA libraries were prepared by Azenta/GENEWIZ (Leipzig, Germany) from total RNA following standard Illumina-compatible small RNA library preparation protocols. Libraries were sequenced on an Illumina platform. Sequencing quality control ensured that at least 80% of bases had Q-scores ≥ Q30.

treatment_protocol: No experimental treatments were applied. All fish were maintained under the same standard conditions prior to sampling.

value: Intramuscular adipose tissue

value: Mature adipocyte

value: Control

value: Adult


title: IMAT, miRNAs, rep4

description:
Library name: I4
Performed by Azenta/GENEWIZ (Leipzig, Germany)


title: mutant ENF-5-29,19°C, day18

description: Library name: sample 3


title: wildtype ATCC74360, day14

description: Library name: sample 1


title: IMAT, miRNAs, rep2

description:
Library name: I2
Performed by Azenta/GENEWIZ (Leipzig, Germany)


title: IMAT, miRNAs, rep3

description:
Library name: I3
Performed by Azenta/GENEWIZ (Leipzig, Germany)


title: SAT, miRNAs, rep5

description:
Library name: S5
Performed by Azenta/GENEWIZ (Leipzig, Germany)

source_name: Subcutaneous adipose tissue

value: Subcutaneous adipose tissue


title: ANG-M7-P40B12_SWT_29C_Biol_Rep3

description: Library name: P40B12_C


title: ANG-M7-P24E03_SWT_29C_Biol_Rep1

description: Library name: P24E3_A


title: ANG-M7-P40B12_SWT_29C_Biol_Rep1

description: Library name: P40B12_A


title: SAT, miRNAs, rep2

description:
Library name: S2
Performed by Azenta/GENEWIZ (Leipzig, Germany)


title: IMAT, miRNAs, rep1

description:
Library name: I1
Performed by Azenta/GENEWIZ (Leipzig, Germany)


title: SAT, miRNAs, rep1

description:
Library name: S1
Performed by Azenta/GENEWIZ (Leipzig, Germany)


title: VAT, miRNAs, rep4

description:
Library name: V4
Performed by Azenta/GENEWIZ (Leipzig, Germany)

source_name: Visceral adipose tissue

value: Visceral adipose tissue


title: VAT, miRNAs, rep3

description:
Library name: V3
Performed by Azenta/GENEWIZ (Leipzig, Germany)


title: SAT, miRNAs, rep3

description:
Library name: S3
Performed by Azenta/GENEWIZ (Leipzig, Germany)


title: VAT, miRNAs, rep5

description:
Library name: V5
Performed by Azenta/GENEWIZ (Leipzig, Germany)


title: IMAT, rep1

data_processing:
Raw FASTQ files were quality filtered and adapter sequences were removed using Trimmomatic v0.30.
High-quality reads from mRNA libraries were aligned to the Oncorhynchus mykiss reference genome using STAR aligner v2.5.2b.
Gene-level read counts were obtained using featureCounts from the Subread package v1.5.2.
Normalization and differential expression analysis were performed using DESeq2 v1.6.3 with default parameters.
Only transcripts with an average TPM ≥ 1 across samples were retained for downstream analyses.
Assembly: Oncorhynchus mykiss reference genome USDA_OmykA_1.1 (Ensembl, accessed August 2024).
Supplementary files format and content: raw_counts.csv file includes raw counts for each sample.

extract_protocol:
Adipose tissue was dissected from fish (visceral, subcutaneous, and intramuscular depots). Mature adipocytes were isolated by mechanical and enzymatic digestion using collagenase type II. Total RNA was extracted using TRIzol reagent (Thermo Fisher Scientific, Waltham, MA, USA), followed by chloroform, isopropanol, and ethanol extraction according to the manufacturer’s instructions. RNA quality and integrity were assessed prior to sequencing.
RNA sequencing libraries were prepared by Azenta/GENEWIZ (Leipzig, Germany). Ribosomal RNA was depleted prior to library construction. Separate libraries were generated for mRNA-seq and miRNA-seq following standard Illumina-compatible protocols. Libraries were sequenced on an Illumina NovaSeq platform using a 2 × 150 bp paired-end configuration for mRNA libraries.


title: IMAT, rep3


title: IMAT, rep4


title: mutant ENF-5-29, day14

description: Library name: sample 2


title: SAT, rep5


title: SAT, rep4

description:
Library name: S4
Performed by Azenta/GENEWIZ (Leipzig, Germany)


title: IMAT, rep2


title: SAT, rep3


title: IMAT, rep5


title: VAT, rep5


title: SAT, miRNAs, rep4


title: VAT, rep4


title: VAT, miRNAs, rep1

description:
Library name: V1
Performed by Azenta/GENEWIZ (Leipzig, Germany)


title: VAT, rep2

description:
Library name: V2
Performed by Azenta/GENEWIZ (Leipzig, Germany)


title: 22RV1, ENZA, Olaparib, Rep1 ATAC

first: Nicole

last: Traphagen

institute: Dana-Farber Cancer Institute

description: Library name: 14-2-E+O-1

data_processing:
The CHIPS pipeline was used for processing and alignment to the hg19 genome
Reads were aligned to hg19 using BWA mem.
For peak calling MACS2 was used.
Assembly: hg19
Supplementary files format and content: bw files were generated using MACS2 using the CHIPS pipeline

growth_protocol: LNCaP and 22RV1v cells were maintained in RPM1-1640 supplemented with 10% fetal bovine serum (FBS)

extract_protocol:
Nuclei were processed for ATAC-seq using the Active Motif ATAC-seq kit
Libraries were prepared using the Active Motif ATAC-seq kit according to the manufacterer's instructions

treatment_protocol: Cells were treated with olaparib (5 uM)  and/or DHT (1 nM) in androgen- deprived (ADT) media (phenol red-free RPMI-1640 + 10% charcoal dextran treated FBS), or treated with olaparib in vehicle and/or enzalutamide (10 uM)  treated conditions.

value: prostate cancer

value: wild-type

value: Enzalutamide, Olaparib


title: ANG-M7-WT_SWT_29C_Biol_Rep1

description: Library name: M7WT_A

value: WT


title: 22RV1, Vehicle, Rep2 ATAC

description: Library name: 10-2-V-2

value: Vehicle


title: 22RV1, Olaparib, Rep2 ATAC

description: Library name: 14-2-O-2

value: Olaparib


title: VAT, rep3


title: VAT, rep1


title: 22RV1, ENZA, Olaparib, Rep2 ATAC

description: Library name: 16-2-E+O-2


title: 22RV1, Vehicle, Rep1 ATAC

description: Library name: 9-2-V-1


title: 22RV1, ENZA, Rep2 ATAC

description: Library name: 12-2-E-2

value: Enzalutamide


title: SAT, rep1


title: 22RV1, Olaparib, Rep1 ATAC

description: Library name: 13-2-O-1


title: LNCaP, ENZA, Olaparib, Rep1 ATAC

description: Library name: 7-L-E+O-1

source_name: LNCaP

value: LNCaP


title: LNCaP, Olaparib, Rep1 ATAC

description: Library name: 5-LO-1


title: 22RV1, ENZA, Rep1 ATAC

description: Library name: 11-2-E-1


title: SAT, rep2


title: LNCaP, Vehicle, Rep2 ATAC

description: Library name: 2-LV-2


title: LNCaP, Olaparib, Rep2 ATAC

description: Library name: 6-LO-2


title: LNCaP, DHT, Olaparib, Rep2 ATAC

description: Library name: EW-19

value: DHT, Olaparib


title: LNCaP, ENZA, Olaparib, Rep2 ATAC

description: Library name: 8-L-E+O-2


title: LNCaP, Vehicle, Rep1 ATAC

description: Library name: 1-LV-1


title: LNCaP, ENZA, Rep2 ATAC

description: Library name: 4-LE-2


title: SMARseq2 peripheral blood

data_processing:
Adapter trimming was performed using trimmomatic version 0.36
Sequence quality was assessed using fastqc version 0.11.5
Alignment agains human genome was performed using START version 2.5.2 using following parameters -  --twopassMode Basic          --alignIntronMax 100000 --alignMatesGapMax 100000   --alignSJDBoverhangMin 10   --alignSJstitchMismatchNmax 5   -1   5   5 --outSAMstrandField intronMotif --outSAMattributes NH HI NM MD AS XS
Raw counts were obtained from aligned bam files using htseq version 0.9.1
Assembly: hg19
Supplementary files format and content: htseq count file with raw raw counts for all the human genes for individual cells

source_name: peripheral blood

extract_protocol:
PBMCs were stained with anti-CD45 FITC and DAPI. Live single cells were sorted into 96 well plates containing TCL buffer.
Full-length single cell RNA-seq libraries were prepared using the SMART-seq2 protocol. cDNA was fragmented using Nextera XT (Illumina) and amplified with indexed Nextera PCR primers.

treatment_protocol: Upon reaching a leukemic burden of ~10% of human CD45+ positive leukemic blasts in peripheral blood, randomized groups of 8 mice were treated with the Notch1 inhibitor DBZ (Dipenzazepine; 10Mol/kg via intraperitoneal (IP) injection 3x/week) or vehicle. To assess short-term effects of the inhibitor, 3 mice per group were sacrificed after 5 days of treatment. The remaining 5 mice were monitored for disease progression and sacrificed when moribund.

value: peripheral blood

value: DBZ


title: LNCaP, ENZA, Rep1 ATAC

description: Library name: 3-LE-1


title: LNCaP, DHT, Rep1 ATAC

description: Library name: EW-15

value: DHT


title: LNCaP, ADT, Olaparib, Rep1 ATAC

description: Library name: EW-17

value: ADT, Olaparib


title: LNCaP, DHT, Rep2 ATAC

description: Library name: EW-16


title: LNCaP, ADT, Olaparib, Rep2 ATAC

description: Library name: EW-18


title: LNCaP, ADT, Rep2 ATAC

description: Library name: EW-14

value: ADT


title: LNCaP, ADT, Rep1 ATAC

description: Library name: EW-13


title: LNCaP, DHT, Olaparib,Rep1 ATAC

description: Library name: EW-10


title: 22RV1, DHT, Olaparib, Rep1 ATAC

description: Library name: DHT_Olap_EW63


title: 22RV1, ADT, Olaparib, Rep2 ATAC

description: Library name: Olap_EW62


title: 22RV1, ADT, Olaparib, Rep1 ATAC

description: Library name: Olap_EW61


title: 22RV1, DHT, Rep1 ATAC

description: Library name: DHT_EW59


title: 22RV1, ADT, Rep2 ATAC

description: Library name: HD_EW58


title: 22RV1, DHT, Olaparib, Rep2 ATAC

description: Library name: DHT_Olap_EW64


title: 22RV1, ENZA, Talazoparib, Rep2

description: Library name: NAT-22-ET2

data_processing:
RNA-seq data were processed using VIPER pipeline (Cornwell et al., 2018).  Fastq files were aligned to the human reference GRCh37/hg19 genome using the STAR RNA-Seq aligner (version STAR_2.5.1b) (Dobin et al., 2013).
Genes with 0 counts across all samples were filtered out.
Read count normalization using Cufflinks
Assembly: hg19
Supplementary files format and content: csv file of FPKM table

extract_protocol:
RNA was harvested using the Qiagen Rneasy Mini Kit with on-column DNAse I digestion
Libraries were prepared using Roche Kapa mRNA HyperPrep strand specific sample preparation kits from 200ng of purified total RNA according to the manufacturer’s protocol

treatment_protocol: For enzalutamide treatment, cells were treated with vehicle, PARP inhibitor (olaparib or talazoparib, 5 uM), enzalutamide (10 uM), or combination PARP inhibitor and enzalutamide for 48 h. For androgen deprivation exepriments, cells were androgen-deprived in phenol-red free RPMI-1640 supplemented with 10% charcoal dextran treated FBS for 2 d. Cells were then treated with PARP inhibition (olaparib, rucaparib, AZD-5305; 5 uM) for 3 d. Cells were treated with 1 nM DHT for the final 0, 4, or 16 h prior to RNA harvesting.

value: Enzalutamide, Talazoparib


title: 22RV1, DHT, Rep2 ATAC

description: Library name: DHT_EW60


title: 22RV1, ENZA, Talazoparib, Rep1

description: Library name: NAT-22-ET1


title: 22RV1, Talazoparib, Rep2

description: Library name: NAT-22-T2

value: Talazoparib


title: 22RV1, ENZA, Olaparib, Rep1

description: Library name: NAT-22-EO1


title: 22RV1, ENZA, Olaparib, Rep2

description: Library name: NAT-22-EO2


title: 22RV1, ADT, Rep1 ATAC

description: Library name: HD_EW57


title: 22RV1, ENZA, Rep2

description: Library name: NAT-22-E2


title: 22RV1, Olaparib, Rep1

description: Library name: NAT-22-O1


title: 22RV1, Olaparib, Rep2

description: Library name: NAT-22-O2


title: 22RV1, Vehicle, Rep2

description: Library name: NAT-22-V2


title: 22RV1, Talazoparib, Rep1

description: Library name: NAT-22-T1


title: 22RV1, ENZA, Rep1

description: Library name: NAT-22-E1


title: LNCaP, Talazoparib, Rep2

description: Library name: NAT-LN-T2


title: LNCaP, ENZA, Talazoparib, Rep1

description: Library name: NAT-LN-ET1


title: 22RV1, Vehicle, Rep1

description: Library name: NAT-22-V1


title: LNCaP, ENZA, Talazoparib, Rep2

description: Library name: NAT-LN-ET2


title: LNCaP, ENZA, Olaparib, Rep2

description: Library name: NAT-LN-EO2


title: LNCaP, Talazoparib, Rep1

description: Library name: NAT-LN-T1


title: LNCaP, ENZA, Olaparib, Rep1

description: Library name: NAT-LN-EO1


title: LNCaP, DHT 16 h, AZD5305, Rep2

description: Library name: LNCaP_AZD-DHT16_48


title: LNCaP, Olaparib, Rep2

description: Library name: NAT-LN-O2


title: LNCaP, Vehicle, Rep2

description: Library name: NAT-LN-V2


title: LNCaP, ENZA, Rep1

description: Library name: NAT-LN-E1


title: LNCaP, ENZA, Rep2

description: Library name: NAT-LN-E2


title: LNCaP, Vehicle, Rep1

description: Library name: NAT-LN-V1


title: LNCaP, Olaparib, Rep1

description: Library name: NAT-LN-O1


title: LNCaP, DHT 16 h, Rucaparib, Rep2

description: Library name: LNCaP_RUCAP-DHT16_45

value: DHT 16 h, Rucaparib


title: LNCaP, DHT 4 h, Olaparib, Rep2

description: Library name: LNCaP_OLAP-DHT4_41

value: prostate cancer

value: DHT 4 h, Olaparib


title: LNCaP, DHT 16 h, Olaparib, Rep2

description: Library name: LNCaP_OLAP-DHT16_42

value: DHT 16 h, Olaparib


title: LNCaP, ADT, AZD5305, Rep2

description: Library name: LNCaP_AZD_46

value: WT

value: ADT, AZD-5305


title: LNCaP, ADT, Rucaparib, Rep2

description: Library name: LNCaP_RUCAP_43

value: ADT, Rucaparib


title: LNCaP, DHT 16h, Rep2

description: Library name: LNCaP_DHT16_39

value: DHT 16 h


title: LNCaP, ADT, Rep2

description: Library name: LNCaP_VEH_37

value: LNCaP


title: LNCaP, DHT 4 h, AZD5305, Rep1

description: Library name: LNCaP_AZD-DHT4_35

value: DHT 4 h, AZD-5305


title: LNCaP, ADT, AZD5305, Rep1

description: Library name: LNCaP_AZD_34


title: LNCaP, DHT 16 h, AZD5305, Rep1

description: Library name: LNCaP_AZD-DHT16_36


title: LNCaP, DHT 4h, Rep2

description: Library name: LNCaP_DHT4_38

value: DHT 4 h


title: LNCaP, ADT, Olaparib, Rep2

description: Library name: LNCaP_OLAP_40


title: LNCaP, DHT 16h, Rep1

description: Library name: LNCaP_DHT16_27


title: LNCaP, DHT 16 h, Rucaparib, Rep1

description: Library name: LNCaP_RUCAP-DHT16_33


title: LNCaP, DHT 4 h, Olaparib, Rep1

description: Library name: LNCaP_OLAP-DHT4_29


title: LNCaP, ADT, Rep1

description: Library name: LNCaP_VEH_25


title: LNCaP, ADT, Olaparib, Rep1

description: Library name: LNCaP_OLAP_28


title: LNCaP, DHT 4 h, AZD5305, Rep2

description: Library name: LNCaP_AZD-DHT4_47


title: LNCaP, DHT 16 h, Olaparib, Rep1

description: Library name: LNCaP_OLAP-DHT16_30


title: LNCaP, ADT, Rucaparib, Rep1

description: Library name: LNCaP_RUCAP_31


title: 22RV1, ADT, Olaparib, Rep2

description: Library name: 22RV1_OLAP_64


title: 22RV1, ADT, Rucaparib, Rep2

description: Library name: 22RV1_RUCAP_67


title: 22RV1, DHT 16h, Rep2

description: Library name: 22RV1_DHT16_63


title: 22RV1, DHT 16 h, AZD5305, Rep2

description: Library name: 22RV1_AZD-DHT16_72


title: 22RV1, DHT 4 h, Olaparib, Rep2

description: Library name: 22RV1_OLAP-DHT4_65


title: 22RV1, DHT 4 h, Rucaparib, Rep2

description: Library name: 22RV1_RUCAP-DHT4_68

value: DHT 4 h, Rucaparib


title: LNCaP, DHT 4h, Rep1

description: Library name: LNCaP_DHT4_26


title: 22RV1, DHT 16 h, Rucaparib, Rep2

description: Library name: 22RV1_RUCAP-DHT16_69


title: 22RV1, ADT, Rep2

description: Library name: 22RV1_VEH_61


title: 22RV1, DHT 4h, Rep2

description: Library name: 22RV1_DHT4_62


title: 22RV1, DHT 16 h, AZD5305, Rep1

description: Library name: 22RV1_AZD-DHT16_60


title: 22RV1, ADT, AZD5305, Rep2

description: Library name: 22RV1_AZD_70


title: 22RV1, ADT, AZD5305, Rep1

description: Library name: 22RV1_AZD_58


title: 22RV1, DHT 16 h, Olaparib, Rep2

description: Library name: 22RV1_OLAP-DHT16_66


title: 22RV1, DHT 4 h, Rucaparib, Rep1

description: Library name: 22RV1_RUCAP-DHT4_56


title: 22RV1, DHT 4 h, AZD5305, Rep1

description: Library name: 22RV1_AZD-DHT4_59


title: 22RV1, DHT 4 h, Olaparib, Rep1

description: Library name: 22RV1_OLAP-DHT4_53


title: 22RV1, DHT 4 h, AZD5305, Rep2

description: Library name: 22RV1_AZD-DHT4_71


title: 22RV1, ADT, Rucaparib, Rep1

description: Library name: 22RV1_RUCAP_55


title: 22RV1, DHT 16 h, Olaparib, Rep1

description: Library name: 22RV1_OLAP-DHT16_54


title: 22RV1, ADT, Olaparib, Rep1

description: Library name: 22RV1_OLAP_52


title: 22RV1, DHT 16h, Rep1

description: Library name: 22RV1_DHT16_51


title: 22RV1, DHT 4h, Rep1

description: Library name: 22RV1_DHT4_50


title: SJHL044976_207558990021_R03C01

type: genomic

city: Memphis

first: Zhaoming

last: Wang

address: 262 Danny Thomas Place

institute: St. Jude Children's Research Hospital

description:
207558990021_R03C01
blood from survivor of childhood cancer and control

hyb_protocol: Bisulfite-converted DNA was processed by following the Illumina Infinium Methylation Assay protocol for hybridization to MethylationEPIC BeadChips.

scan_protocol: Scanning used the Illumina HiScan system followed the Illumina Infinium Methylation Assay protocol.

data_processing: Genome-wide DNAm data were generated using Illumina Infinium MethylationEPIC BeadChip v1 (Illumina, San Diego, CA, USA), with DNA extracted from peripheral blood mononuclear cells (PBMCs) or saliva. Preprocessing was conducted using the minfi package in R, following established quality control procedures including a detection p-value ≤ 0.01. CpGs were excluded if they were located on sex chromosomes, contained single nucleotide polymorphisms (SNPs), or were previously identified as cross-reactive or non-specific. Quantile normalization was applied at the probe level to ensure comparability across samples.

label: Cy5 and Cy3

source_name: genomic DNA derived from blood samples from survivor of childhood cancer and community control

label_protocol: Standard Illumina Protocol

extract_protocol: Genomic DNA (250 ng per sample) were treated with bisulfite using the Zymo EZ DNA Methylation Kit under the following thermos-cycling conditions: 16 cycles: 95 degrees Celsius for 30 sec, 50 degrees Celsius for 1 hour. Following bisulfite treatment, DNA samples were desulphonated, column purified, then eluted using 12 µl of elution buffer (Zymo Research Corp.). Treating DNA with sodium bisulfite selectively converts cytosine to uracil but preserves 5-methylcytosine, which is immune from deamination.

value: peripheral blood mononuclear cells

value: female

value: cancer survivor

tag: age at cancer diagnosis

tag: diagnostic group

value: Hodgkin lymphoma

tag: average dose to whole heart, cgy

tag: race group

value: White

tag: base line visit start date

tag: base line visit finish

tag: age at death


title: SJHL074556_207558990021_R06C01

description:
207558990021_R06C01
blood from survivor of childhood cancer and control

tag: tissue

tag: Sex

value: Black


title: SJHL019354_207558990021_R07C01

description:
207558990021_R07C01
blood from survivor of childhood cancer and control


title: 22RV1, DHT 16 h, Rucaparib, Rep1

description: Library name: 22RV1_RUCAP-DHT16_57

value: prostate cancer

tag: treatment

value: DHT 16 h, Rucaparib


title: SJHL042889_207558990021_R04C01

description:
207558990021_R04C01
blood from survivor of childhood cancer and control

tag: age


title: SJHL019359_207558990021_R01C01

description:
207558990021_R01C01
blood from survivor of childhood cancer and control

tag: group


title: SJHL056844_207558990021_R02C01

description:
207558990021_R02C01
blood from survivor of childhood cancer and control


title: SJHL042018_207558990011_R07C01

description:
207558990011_R07C01
blood from survivor of childhood cancer and control


title: SJHL019258_207558990011_R06C01

description:
207558990011_R06C01
blood from survivor of childhood cancer and control


title: SJHL042042_207558990011_R04C01

description:
207558990011_R04C01
blood from survivor of childhood cancer and control

value: male


title: SJHL042045_207558990011_R05C01

description:
207558990011_R05C01
blood from survivor of childhood cancer and control


title: SJNORM085648_207558990011_R01C01

description:
207558990011_R01C01
blood from survivor of childhood cancer and control

value: control


title: SJHL056311_207534240179_R06C01

description:
207534240179_R06C01
blood from survivor of childhood cancer and control


title: SJHL019284_207558990011_R02C01

description:
207558990011_R02C01
blood from survivor of childhood cancer and control


title: SJHL056181_207558990011_R03C01

description:
207558990011_R03C01
blood from survivor of childhood cancer and control


title: SJHL042036_207534240179_R08C01

description:
207534240179_R08C01
blood from survivor of childhood cancer and control


title: SJHL019325_207534240179_R03C01

description:
207534240179_R03C01
blood from survivor of childhood cancer and control


title: SJHL018675_207534240179_R02C01

description:
207534240179_R02C01
blood from survivor of childhood cancer and control


title: SJHL017909_207534240179_R04C01

description:
207534240179_R04C01
blood from survivor of childhood cancer and control


title: SJHL018686_207534240179_R01C01

description:
207534240179_R01C01
blood from survivor of childhood cancer and control


title: 22RV1, ADT, Rep1

description: Library name: 22RV1_VEH_49

value: WT

value: ADT


title: SJHL019355_207534240163_R08C01

description:
207534240163_R08C01
blood from survivor of childhood cancer and control


title: SJHL043452_207534240163_R04C01

description:
207534240163_R04C01
blood from survivor of childhood cancer and control


title: SJHL019326_207558990011_R08C01

description:
207558990011_R08C01
blood from survivor of childhood cancer and control


title: SJHL043457_207534240163_R06C01

description:
207534240163_R06C01
blood from survivor of childhood cancer and control


title: SJHL019356_207534240179_R05C01

description:
207534240179_R05C01
blood from survivor of childhood cancer and control


title: SJHL018687_207534240163_R05C01

description:
207534240163_R05C01
blood from survivor of childhood cancer and control


title: SJHL056308_207534240163_R03C01

description:
207534240163_R03C01
blood from survivor of childhood cancer and control


title: SJHL041004_207558990021_R05C01

description:
207558990021_R05C01
blood from survivor of childhood cancer and control


title: SJHL042011_207534240163_R02C01

description:
207534240163_R02C01
blood from survivor of childhood cancer and control


title: SJHL017907_207534240143_R08C01

description:
207534240143_R08C01
blood from survivor of childhood cancer and control


title: SJHL042026_207534240143_R07C01

description:
207534240143_R07C01
blood from survivor of childhood cancer and control


title: SJHL018673_207534240163_R01C01

description:
207534240163_R01C01
blood from survivor of childhood cancer and control


title: SJHL055982_207534240143_R06C01

description:
207534240143_R06C01
blood from survivor of childhood cancer and control


title: SJHL044966_207534240143_R03C01

description:
207534240143_R03C01
blood from survivor of childhood cancer and control


title: SJHL042041_207534240179_R07C01

description:
207534240179_R07C01
blood from survivor of childhood cancer and control


title: SJHL056013_207534240143_R05C01

description:
207534240143_R05C01
blood from survivor of childhood cancer and control


title: SJHL018666_207534240143_R04C01

description:
207534240143_R04C01
blood from survivor of childhood cancer and control


title: SJHL055970_207534240163_R07C01

description:
207534240163_R07C01
blood from survivor of childhood cancer and control


title: SJHL042038_207534240143_R01C01

description:
207534240143_R01C01
blood from survivor of childhood cancer and control


title: SJHL042010_207534240143_R02C01

description:
207534240143_R02C01
blood from survivor of childhood cancer and control


title: SJHL018702_207534240138_R08C01

description:
207534240138_R08C01
blood from survivor of childhood cancer and control


title: SJHL041567_207534240138_R03C01

description:
207534240138_R03C01
blood from survivor of childhood cancer and control


title: SJHL018681_207534240138_R07C01

description:
207534240138_R07C01
blood from survivor of childhood cancer and control


title: SJHL081036_207534240138_R05C01

description:
207534240138_R05C01
blood from survivor of childhood cancer and control


title: SJHL019278_207534240138_R06C01

description:
207534240138_R06C01
blood from survivor of childhood cancer and control


title: SJHL041570_207534240138_R04C01

description:
207534240138_R04C01
blood from survivor of childhood cancer and control


title: SJHL041545_207534240138_R02C01

description:
207534240138_R02C01
blood from survivor of childhood cancer and control


title: SJHL017907_207534240138_R01C01

description:
207534240138_R01C01
blood from survivor of childhood cancer and control


title: SJHL018690_207534240129_R06C01

description:
207534240129_R06C01
blood from survivor of childhood cancer and control


title: SJHL081114_207534240129_R08C01

description:
207534240129_R08C01
blood from survivor of childhood cancer and control

value: Other


title: SJHL081110_207534240129_R07C01

description:
207534240129_R07C01
blood from survivor of childhood cancer and control


title: SJHL019320_207534240129_R04C01

description:
207534240129_R04C01
blood from survivor of childhood cancer and control


title: SJHL019278_207534240129_R05C01

description:
207534240129_R05C01
blood from survivor of childhood cancer and control


title: SJHL019363_207534240129_R03C01

description:
207534240129_R03C01
blood from survivor of childhood cancer and control


title: SJHL018719_207534240129_R02C01

description:
207534240129_R02C01
blood from survivor of childhood cancer and control


title: SJHL018664_207534240128_R08C01

description:
207534240128_R08C01
blood from survivor of childhood cancer and control


title: SJHL019782_207534240128_R05C01

description:
207534240128_R05C01
blood from survivor of childhood cancer and control


title: SJHL018709_207534240128_R02C01

description:
207534240128_R02C01
blood from survivor of childhood cancer and control


title: SJHL017908_207534240128_R03C01

description:
207534240128_R03C01
blood from survivor of childhood cancer and control


title: SJHL042038_207534240128_R01C01

description:
207534240128_R01C01
blood from survivor of childhood cancer and control


title: SJHL019335_207534240127_R03C01

description:
207534240127_R03C01
blood from survivor of childhood cancer and control


title: SJNORM057981_207534240127_R06C01

description:
207534240127_R06C01
blood from survivor of childhood cancer and control


title: SJHL019797_207534240128_R07C01

description:
207534240128_R07C01
blood from survivor of childhood cancer and control


title: SJHL018659_207534240128_R06C01

description:
207534240128_R06C01
blood from survivor of childhood cancer and control


title: SJHL019361_207534240127_R02C01

description:
207534240127_R02C01
blood from survivor of childhood cancer and control


title: SJHL019350_207534240128_R04C01

description:
207534240128_R04C01
blood from survivor of childhood cancer and control


title: SJHL018717_207534240094_R08C01

description:
207534240094_R08C01
blood from survivor of childhood cancer and control


title: SJHL018722_207534240127_R04C01

description:
207534240127_R04C01
blood from survivor of childhood cancer and control


title: SJHL041569_207534240127_R05C01

description:
207534240127_R05C01
blood from survivor of childhood cancer and control


title: SJHL018704_207534240094_R07C01

description:
207534240094_R07C01
blood from survivor of childhood cancer and control


title: SJHL019330_207534240094_R06C01

description:
207534240094_R06C01
blood from survivor of childhood cancer and control


title: SJHL019293_207534240094_R03C01

description:
207534240094_R03C01
blood from survivor of childhood cancer and control


title: SJHL042510_207534240094_R05C01

description:
207534240094_R05C01
blood from survivor of childhood cancer and control


title: SJNORM045301_207534240127_R07C01

description:
207534240127_R07C01
blood from survivor of childhood cancer and control


title: SJHL019258_207534240094_R02C01

description:
207534240094_R02C01
blood from survivor of childhood cancer and control


title: SJHL081114_207261500130_R06C01

description:
207261500130_R06C01
blood from survivor of childhood cancer and control


title: SJSTS042128_207261500130_R04C01

description:
207261500130_R04C01
blood from survivor of childhood cancer and control

value: Soft tissue sarcoma


title: SJHL019258_207261500130_R08C01

description:
207261500130_R08C01
blood from survivor of childhood cancer and control


title: SJHL018663_207534240094_R01C01

description:
207534240094_R01C01
blood from survivor of childhood cancer and control


title: SJHL081110_207261500130_R07C01

description:
207261500130_R07C01
blood from survivor of childhood cancer and control


title: SJHL019267_207534240127_R08C01

description:
207534240127_R08C01
blood from survivor of childhood cancer and control


title: SJRHB019585_207261500130_R03C01

description:
207261500130_R03C01
blood from survivor of childhood cancer and control

value: Rhabdomyosarcoma


title: SJHL081054_207261500130_R05C01

description:
207261500130_R05C01
blood from survivor of childhood cancer and control


title: SJHL042017_207534240094_R04C01

description:
207534240094_R04C01
blood from survivor of childhood cancer and control


title: SJHL042722_207534240127_R01C01

description:
207534240127_R01C01
blood from survivor of childhood cancer and control


title: SJALL040960_207179240142_R07C01

description:
207179240142_R07C01
blood from survivor of childhood cancer and control

value: Acute lymphoblastic leukemia


title: SJWLM017959_207261500130_R01C01

description:
207261500130_R01C01
blood from survivor of childhood cancer and control

value: Wilms tumor


title: SJWLM041709_207179240142_R06C01

description:
207179240142_R06C01
blood from survivor of childhood cancer and control

value: peripheral blood mononuclear cells


title: SJWLM017959_207179240142_R03C01

description:
207179240142_R03C01
blood from survivor of childhood cancer and control

value: female


title: SJRHB019593_207179240142_R08C01

description:
207179240142_R08C01
blood from survivor of childhood cancer and control

value: cancer survivor


title: SJOS018806_207179240142_R02C01

description:
207179240142_R02C01
blood from survivor of childhood cancer and control

value: Osteosarcoma


title: SJCNS019169_207179240142_R05C01

description:
207179240142_R05C01
blood from survivor of childhood cancer and control

value: Central nervous system (CNS)

value: White


title: SJALL019003_207179240142_R01C01

description:
207179240142_R01C01
blood from survivor of childhood cancer and control


title: SJHL019267_207262930139_R04C01

description:
207262930139_R04C01
blood from survivor of childhood cancer and control

value: Hodgkin lymphoma


title: SJHL042038_207262930139_R05C01

description:
207262930139_R05C01
blood from survivor of childhood cancer and control


title: SJHL042030_207262930139_R07C01

description:
207262930139_R07C01
blood from survivor of childhood cancer and control


title: SJALL019038_207179240142_R04C01

description:
207179240142_R04C01
blood from survivor of childhood cancer and control

value: Black


title: SJHL018691_207262930139_R03C01

description:
207262930139_R03C01
blood from survivor of childhood cancer and control

value: male


title: SJALL018414_207261500130_R02C01

description:
207261500130_R02C01
blood from survivor of childhood cancer and control


title: SJHL018709_207262930139_R06C01

description:
207262930139_R06C01
blood from survivor of childhood cancer and control


title: SJHL018663_207262930139_R01C01

description:
207262930139_R01C01
blood from survivor of childhood cancer and control


title: SJHL018693_207262930137_R08C01

description:
207262930137_R08C01
blood from survivor of childhood cancer and control


title: SJHL019340_207262930137_R06C01

description:
207262930137_R06C01
blood from survivor of childhood cancer and control


title: SJHL019287_207262930137_R07C01

description:
207262930137_R07C01
blood from survivor of childhood cancer and control


title: SJHL042889_207262930137_R05C01

description:
207262930137_R05C01
blood from survivor of childhood cancer and control


title: SJHL043130_207262930137_R04C01

description:
207262930137_R04C01
blood from survivor of childhood cancer and control


title: SJHL056081_207262930137_R01C01

description:
207262930137_R01C01
blood from survivor of childhood cancer and control


title: SJHL041559_207262930136_R08C01

description:
207262930136_R08C01
blood from survivor of childhood cancer and control


title: SJHL044976_207262930137_R03C01

description:
207262930137_R03C01
blood from survivor of childhood cancer and control


title: SJHL056219_207262930136_R07C01

description:
207262930136_R07C01
blood from survivor of childhood cancer and control


title: SJHL043966_207262930136_R06C01

description:
207262930136_R06C01
blood from survivor of childhood cancer and control


title: SJHL019359_207262930136_R05C01

description:
207262930136_R05C01
blood from survivor of childhood cancer and control


title: SJHL019326_207262930136_R03C01

description:
207262930136_R03C01
blood from survivor of childhood cancer and control


title: SJHL056914_207262930136_R02C01

description:
207262930136_R02C01
blood from survivor of childhood cancer and control


title: SJHL056152_207262930125_R08C01

description:
207262930125_R08C01
blood from survivor of childhood cancer and control


title: SJHL056054_207262930125_R05C01

description:
207262930125_R05C01
blood from survivor of childhood cancer and control


title: SJHL043973_207262930136_R01C01

description:
207262930136_R01C01
blood from survivor of childhood cancer and control


title: SJHL019276_207262930125_R07C01

description:
207262930125_R07C01
blood from survivor of childhood cancer and control


title: SJHL018701_207262930139_R02C01

description:
207262930139_R02C01
blood from survivor of childhood cancer and control


title: SJHL042041_207262930125_R01C01

description:
207262930125_R01C01
blood from survivor of childhood cancer and control


title: SJHL019284_207262930125_R06C01

description:
207262930125_R06C01
blood from survivor of childhood cancer and control


title: SJHL056844_207262930137_R02C01

description:
207262930137_R02C01
blood from survivor of childhood cancer and control


title: SJHL042036_207262930125_R04C01

description:
207262930125_R04C01
blood from survivor of childhood cancer and control


title: SJHL056899_207262930125_R03C01

description:
207262930125_R03C01
blood from survivor of childhood cancer and control


title: SJHL018723_207262930043_R03C01

description:
207262930043_R03C01
blood from survivor of childhood cancer and control


title: SJHL018675_207262930043_R04C01

description:
207262930043_R04C01
blood from survivor of childhood cancer and control


title: SJHL017909_207262930043_R06C01

description:
207262930043_R06C01
blood from survivor of childhood cancer and control


title: SJHL019272_207262930136_R04C01

description:
207262930136_R04C01
blood from survivor of childhood cancer and control


title: SJHL019325_207262930043_R05C01

description:
207262930043_R05C01
blood from survivor of childhood cancer and control


title: SJHL018686_207262930043_R02C01

description:
207262930043_R02C01
blood from survivor of childhood cancer and control


title: SJHL058436_207262930125_R02C01

description:
207262930125_R02C01
blood from survivor of childhood cancer and control


title: SJHL043457_207262930016_R05C01

description:
207262930016_R05C01
blood from survivor of childhood cancer and control


title: SJHL056129_207262930043_R01C01

description:
207262930043_R01C01
blood from survivor of childhood cancer and control


title: SJHL032577_207262930016_R06C01

description:
207262930016_R06C01
blood from survivor of childhood cancer and control


title: SJHL018687_207262930016_R04C01

description:
207262930016_R04C01
blood from survivor of childhood cancer and control


title: SJHL043452_207262930016_R02C01

description:
207262930016_R02C01
blood from survivor of childhood cancer and control


title: SJHL042011_207262930009_R07C01

description:
207262930009_R07C01
blood from survivor of childhood cancer and control


title: SJHL056308_207262930009_R08C01

description:
207262930009_R08C01
blood from survivor of childhood cancer and control


title: SJHL042033_207262930016_R01C01

description:
207262930016_R01C01
blood from survivor of childhood cancer and control


title: SJHL019356_207262930043_R07C01

description:
207262930043_R07C01
blood from survivor of childhood cancer and control


title: SJHL018673_207262930009_R06C01

description:
207262930009_R06C01
blood from survivor of childhood cancer and control


title: SJHL042026_207262930009_R03C01

description:
207262930009_R03C01
blood from survivor of childhood cancer and control


title: SJHL055970_207262930016_R07C01

description:
207262930016_R07C01
blood from survivor of childhood cancer and control


title: SJHL041529_207262930009_R04C01

description:
207262930009_R04C01
blood from survivor of childhood cancer and control


title: SJHL017907_207262930009_R05C01

description:
207262930009_R05C01
blood from survivor of childhood cancer and control


title: SJHL056013_207262930007_R06C01

description:
207262930007_R06C01
blood from survivor of childhood cancer and control


title: SJHL056007_207262930009_R02C01

description:
207262930009_R02C01
blood from survivor of childhood cancer and control


title: SJHL052450_207262930007_R05C01

description:
207262930007_R05C01
blood from survivor of childhood cancer and control


title: SJHL055982_207262930009_R01C01

description:
207262930009_R01C01
blood from survivor of childhood cancer and control


title: SJHL019329_207262930007_R08C01

description:
207262930007_R08C01
blood from survivor of childhood cancer and control


title: SJHL019355_207262930016_R08C01

description:
207262930016_R08C01
blood from survivor of childhood cancer and control


title: SJHL041572_207262930007_R07C01

description:
207262930007_R07C01
blood from survivor of childhood cancer and control


title: SJHL043937_207262930007_R04C01

description:
207262930007_R04C01
blood from survivor of childhood cancer and control


title: SJHL044966_207262930007_R02C01

description:
207262930007_R02C01
blood from survivor of childhood cancer and control


title: SJHL018666_207262930007_R03C01

description:
207262930007_R03C01
blood from survivor of childhood cancer and control


title: SJHL042010_207262930007_R01C01

description:
207262930007_R01C01
blood from survivor of childhood cancer and control


title: SJHL042038_207261500057_R07C01

description:
207261500057_R07C01
blood from survivor of childhood cancer and control


title: SJHL056289_207261500057_R08C01

description:
207261500057_R08C01
blood from survivor of childhood cancer and control


title: SJHL080826_207261500057_R06C01

description:
207261500057_R06C01
blood from survivor of childhood cancer and control


title: SJHL018702_207261500057_R05C01

description:
207261500057_R05C01
blood from survivor of childhood cancer and control


title: SJHL018681_207261500057_R02C01

description:
207261500057_R02C01
blood from survivor of childhood cancer and control


title: SJHL019309_207261500057_R03C01

description:
207261500057_R03C01
blood from survivor of childhood cancer and control


title: SJHL018702_207261500057_R04C01

description:
207261500057_R04C01
blood from survivor of childhood cancer and control


title: SJHL019278_207261500057_R01C01

description:
207261500057_R01C01
blood from survivor of childhood cancer and control


title: SJHL058415_207261500050_R08C01

description:
207261500050_R08C01
blood from survivor of childhood cancer and control


title: SJHL056905_207261500050_R04C01

description:
207261500050_R04C01
blood from survivor of childhood cancer and control


title: SJHL081020_207261500050_R07C01

description:
207261500050_R07C01
blood from survivor of childhood cancer and control


title: SJHL080977_207261500050_R01C01

description:
207261500050_R01C01
blood from survivor of childhood cancer and control


title: SJHL042725_207261500050_R02C01

description:
207261500050_R02C01
blood from survivor of childhood cancer and control


title: SJHL080907_207261500049_R07C01

description:
207261500049_R07C01
blood from survivor of childhood cancer and control


title: SJHL080969_207261500050_R03C01

description:
207261500050_R03C01
blood from survivor of childhood cancer and control


title: SJHL080864_207261500050_R06C01

description:
207261500050_R06C01
blood from survivor of childhood cancer and control


title: SJHL080975_207261500049_R06C01

description:
207261500049_R06C01
blood from survivor of childhood cancer and control


title: SJHL058391_207261500049_R01C01

description:
207261500049_R01C01
blood from survivor of childhood cancer and control


title: SJHL043911_207261500049_R04C01

description:
207261500049_R04C01
blood from survivor of childhood cancer and control


title: SJHL058427_207261500049_R03C01

description:
207261500049_R03C01
blood from survivor of childhood cancer and control


title: SJHL043902_207261500049_R08C01

description:
207261500049_R08C01
blood from survivor of childhood cancer and control


title: SJHL042724_207261500042_R06C01

description:
207261500042_R06C01
blood from survivor of childhood cancer and control


title: SJHL043966_207261500042_R05C01

description:
207261500042_R05C01
blood from survivor of childhood cancer and control


title: SJHL080874_207261500042_R07C01

description:
207261500042_R07C01
blood from survivor of childhood cancer and control


title: SJHL080947_207261500021_R06C01

description:
207261500021_R06C01
blood from survivor of childhood cancer and control


title: SJHL049040_207261500042_R04C01

description:
207261500042_R04C01
blood from survivor of childhood cancer and control


title: SJHL081021_207261500042_R03C01

description:
207261500042_R03C01
blood from survivor of childhood cancer and control


title: SJHL058419_207261500042_R01C01

description:
207261500042_R01C01
blood from survivor of childhood cancer and control


title: SJHL019288_207534240129_R01C01

description:
207534240129_R01C01
blood from survivor of childhood cancer and control


title: SJHL042726_207261500049_R02C01

description:
207261500049_R02C01
blood from survivor of childhood cancer and control


title: SJHL056925_207261500042_R08C01

description:
207261500042_R08C01
blood from survivor of childhood cancer and control


title: SJHL058424_207261500021_R05C01

description:
207261500021_R05C01
blood from survivor of childhood cancer and control