title: CHLA10_CD73_positive_rep1


title: young, shoots, Col-0, ChIA-PET, h3k4me1, rep2

status: Public on Jul 10 2023

type: SRA

city: Wuhan

first: Qiangwei

last: Zhou

state: Hubei

address: Hongshan district, shizishan #1

country: China

institute: Huazhong Agricultural university

description: ATCP-035_036_051_054-peak.cluster.FDRfiltered.intra6inter8.txt

library_source: genomic

data_processing:
Fastp fitered the raw reads
The cleaned reads were analysed with ChIA-PET Tool V3.
Assembly: TAIR10
Supplementary files format and content: tab-delimited bedpe text files include clusters for each sample

molecule: genomic DNA

organism: Arabidopsis thaliana

source_name: Shoots of two-week-old seedlings (Col-0)

growth_protocol: Arabidopsis accession Columbia (Col-0) was grown at 22°C under a 16 h light/8 h dark photoperiod.

extract_protocol:
About 5 g of tissues were used for each ChIA-PET assay. Tissues were ground to fine powder in liquid nitrogen and lysed in 10 ml of Buffer S (50mM HEPES-KOH (pH7.5), 150mM NaCl, 1mM EDTA, 1% Triton X-100, 0.1% sodium deoxycholate, 1% SDS) for 20 min at 4°C. The homogenate was mixed with 20 ml of Buffer F (50mM HEPES-KOH (pH7.5), 150mM NaCl, 1mM EDTA, 1% Triton X-100, 0.1% sodium deoxycholate), and the chromatin was fragmented into 1–3 kb by sonication using a Bioruptor (Diagenode). The lysates were centrifuged at 20,000 × g for 5 min at 4°C and 20 ml of Buffer F was added to the supernatant for ChIP. ChIP was performed using antibodies against the following: H3K4me1 (ABclonal, A2355), H3K4me3 (ABclonal, A2357), H3K9me2 (Abcam, ab1220), H3K27me3 (ABclonal, A2363), and RNAPII (BioLegend, 920102). Antibody (50–80 mg) was added to Dynabeads® protein G beads (Life Technologies, 10003D) and incubated for 6 h on a rotator at 4°C. Beads were washed with PBST twice and incubated with sonicated chromatin overnight at 4°C with rotation. Subsequently, beads were washed two times for 5 min at 4°C in 5 ml of low-salt buffer (50 mM HEPES-KOH, 150 mM NaCl, 1 mM EDTA, 1% Triton X-100, 0.1% sodium deoxycholate, 0.1% SDS), followed by two washes in 5 ml of high-salt buffer (low salt ChIP buffer replaced 150 mM NaCl with 350 mM NaCl), one wash in 5 ml of LiCl wash buffer (10 mM Tris-HCl pH 8.0, 250 mM LiCl, 0.5% NP-40, 1 mM EDTA, 0.1% sodium deoxycholate), and one wash in TE buffer (10 mM Tris-HCl, pH 8.0, and 1 mM EDTA). ChIP DNA on beads was used for end-repair and A-tailing using T4 DNA polymerase (Promega, cat. no. M421F) and Klenow enzyme (NEB, cat. no. M0212L). Proximity ligation of ChIP DNA was performed using biotinylated bridge-linker, Forward strand: 5′-[5Phos]CGCGATATC/iBIOdT/TATCTGACT-3′, Reverse strand: 5′-[5Phos]GTCAGATAAGATATCGCGT-3′).
Proximity ligation DNA was reverse cross-linked and the ChIA-PET libraries were prepared by using Tn5 transposase (VAHTS; cat. no. TD501). DNA fragments contained the bridge-linker at ligation junctions were captured by Dynabeads™ M-280 Streptavidin (Invitrogen, 11205D), and used as templates for PCR amplification.

treatment_protocol: Shoots of two-week-old seedlings were dual cross-linked with 1.5 mM ethylene glycol bis (succinimidylsuccinate) (Thermo Fisher Scientific, 21565) for 30 min and 1% formaldehyde (SIGMA, F8775) for 10 min, and quenched with 0.2 M glycine at room temperature. Harvested samples were stored at -80°C for ChIA-PET assay.

tag: age

value: two-weeks old

tag: tissue

value: Shoots of two-week-old seedlings

tag: ecotype

tag: antibody


title: CHLA10_CD73_negative_rep3

city: Boston

first: April

last: Apfelbaum

state: MA

address: 450 Brookline Ave

department: Pediatric Oncology

country: USA

institute: Dana-farber Cancer Institute

library_source: transcriptomic

data_processing:
Reads were trimmed for quality and adapter sequence using TrimGalore v0.6.7.
Trimmed reads were aligned to the reference genome using STAR 2.7.9a using "--twopassMode Basic".
Gene counts were generated by STAR using the "--quantMode GeneCounts" option.
Assembly: Hg38
Supplementary files format and content: Tab-delimited read count table output by STAR.  After four summary header rows, there are four columns, with the first being gene ID, the second being unstranded read counts, the third being counts for the first strand being aligned to the RNA, and fourth being counts for the second strand being aligned to the RNA.

molecule: total RNA

organism: Homo sapiens

growth_protocol: A673 was maintained in RPMI 1640 media (Gibco) supplemented with 10% FBS (Atlas Biologicals) and 2mmol/L-glutamine (Life Technologies). CHLA10 was maintained in IMDM media (Fisher scientific) supplemented with 20% FBS, 2mmol/L-glutamine, and 1X Insulin-Transferrin-Selenium (Gibco). Cells were cultured at 37°C with 5% CO2 and were split according to ATCC and COG recommendations.

extract_protocol:
RNA was extracted with Qiagen Rneasy kit
Libraries were prepared with NEBNext Ultra II  RNA Library Prep kit

tag: cell line

tag: cell type

value: Ewing sarcoma cell line

tag: treatment

value: Sorted CD73 negative


title: NT-6h_input_rep5

city: Shanghai

first: Qianshu

last: Zhu

state: Shanghai

address: Siping Road

department: School of Life Science and Technology

institute: Tongji University

data_processing:
Low-quality and the adaptor sequences were trimmed from the reads using cutadapt (v1.16)  with parameters: --trim-n -q 25,25 -m 75 -a AGATCGGAAGAGC -A AGATCGGAAGAGC.
Then, All ULI-NChIP-seq and input data reads were aligned to the mm10 reference genome used BWA with mem command.
Signal tracks for each sample were generated using the deepTools bamCoverage function with normalized to RPKM (Reads Per Kilobase Million) and removed PCR duplicates.
The alignment files were first merged using SAMtools, then removed PCR duplicates and down-sample to same number of reads (60 million) using Picard tools
The H3K9me3 peaks were called by MACS2 with “--broad” parameters and over input data.
Genome_build: mm10
Supplementary_files_format_and_content: *.bw are bigWig files generated using deepTools. *.broadPeak are peak files generated by MACS2.

organism: Mus musculus

growth_protocol: BDF1 mice were used as oocyte donors, and the cumulus cells were used as nuclear donors. The reconstructed oocytes were then cultured in CZB medium for 1h before activation treatment. The cloned constructs were activated by 6 h incubation in 1 mM SrCl2 in Ca2+-free CZB and 5 μg/mL cytochalasin B. Reconstructed embryos were thoroughly washed and cultured in G-1 PLUS medium at 37℃ under 5% CO2. MII oocytes were retrieved from the dissected oviducts of super-ovulated B6D2F1 female mice at 13 h post hCG injection for subsequent SCNT procedure. To get fertilized embryos, the super-ovulated C57BL/6 female mice were mated with C57BL/6 male mice. Then, the zygotes were collected from the oviducts of the female mice at 20 h after hCG injection and were cultured in G-1 PLUS medium until PN5.

extract_protocol:
All samples were washed three times in 0.5% bovine serum albumin in phosphate-buffered saline (BSA-PBS). Chromatin was fragmented by MNase and was incubated with antibody bound beads at 4℃ for 2 hours. Captured DNA was wahed and isolated by isopropanol.
Libraried were generated using the KAPA HyperPrep Kit for the Illumina platform (kk8504), following the manufacturer's instrunctions. Paired-end 150 bp sequencing was performed in NovaSeq (Illumina) platform in Berry Genomics and Novogen.

treatment_protocol: 1 μg antibody was incubated with protein A-beads per sample at 4℃ for 2 hours.

tag: development stage

tag: chip antibody

value: NT


title: KLRG1lo P14 shCD4 CD8 T cell, shCD4 control cells, LCMV 8 DPI, rep2

city: Rio de Janeiro

first: Renata

last: Meirelles Pereira

state: RJ

address: Av. Carlos Chagas Filho, 373, Sala D1-035

department: Instituto de Microbiologia Paulo de Goes

country: Brazil

institute: Universidade Federal do Rio de Janeiro

description: KLRG1_P14_shCD4_vs_P14_shCbx4_Log2FC.xlsx

data_processing:
Reads that passed Illumina filters were filtered for reads aligning to tRNA, rRNA, adapter sequences, and spike-in controls.
The reads were then aligned to UCSC mm10 reference genome using TopHat (1.4.1). DUST scores were calculated with PRINSEQ Lite (v  0.20.3) and low-complexity reads (DUST > 4) were removed from the BAM files.
Read counts to each genomic feature were obtained with htseq-count (0.6.0 using the "union" option).
After removing absent features (zero counts in all samples), the raw counts were normalized with DESeq2, followed by differentially expression analysis with DESeq2.
Assembly: mm10
Supplementary files format and content: DESeq2 Log2FoldChange excel sheet

source_name: Spleen

extract_protocol:
Sort-purified P14 CD8 T cells total RNA was extracted using SMARTer Ultra Low Input RNA Kit for Sequencing-v3 according to the manufactorer's instructions
RNA-seq libraries were prepared using  SMARTer Ultra Low Input RNA Kit for Sequencing-v3 according to the manufacturer’s instructions.

value: Spleen

value: Primary

value: P14 CD8 T cells

tag: genotype

value: Wild type

tag: shRNA

value: shRNA knockdown, Control


title: Mouse Cpxm2 WT SHAM_01

type: RNA

city: Muenster

first: Anika

last: Witten

address: Domagkstr. 3

department: Institute of Human Genetics, Department Genetic Epidemiology

country: Germany

institute: University of Muenster

hyb_protocol: RNA was hybridized to Affymetrix GeneChip Mouse Gene 2.0 ST Arrays following manufacturers instructions by Charité-Universitätsmedizin Berlin

scan_protocol: Arrays were scanned following manufacturers instructions by Charité-Universitätsmedizin Berlin

data_processing: The data were analyzed with Affymetrix Transcriptome Analysis Console version 4.0 (TAC 4.0) using Affymetrix default analysis settings and Analysis Type Gene Expression. Summarization: Gene Level -RMA.

label: biotin

source_name: Mouse 20 weeks old, cardiac tissus, free wall left ventricle

label_protocol: Following manufacturers instructions

growth_protocol: All animals were maintained under standard conditions of regular 12h diurnal cycles using an automated light switching device and climate-controlled conditions at a constant room temperature of 22°C. Animals had access to food and water ad libitum. All animal experiments were approved by the responsible local government committee in accordance with the guidelines of the Charité-Universitätsmedizin Berlin and national animal protection guidelines (Landesamt für Gesundheit und Soziales (LAGeSo) Berlin, Germany) for the use of laboratory animals. Cpxm2-Knockout (KO) mice were obtained as heterozygous B6;129S5-Cpxm2tm1Lex/Mmucd/rk and were inbred to receive homozygous KO (Cpxm2-/-) and wild type (WT) mice (Cpxm2+/+). Baseline phenotypic characterization of all mice under control conditions was performed at about 12 weeks of age. Animals were subsequently followed for 8 weeks under either DOCA-salt or SHAM conditions.

extract_protocol: Hearts were dissected and arrested in diastole by rinsing in 1 M KCl solution and subsequently blotted dry. The atria were trimmed away and hearts and kidneys were weighed. LV tissue was separated from septum and right ventricle. RNA was isolated from the free wall LV by the TRIzol reagent according to the manufacturer's instructions and dissolved in DEPC-treated H2O. The quality and concentration of the purified total RNA were confirmed by spectroscopy.

treatment_protocol: At 12 weeks of age unilateral nephrectomy was performed in WT and KO mice and a pellet containing deoxycorticosterone acetate (DOCA) was implanted in each mouse subcutaneously. Subsequently, these mice were exposed to salt by adding 1% NaCl in drinking water (DOCA groups). Unilateral nephrectomy was also performed in an additional group of WT and KO mice but these animals received no DOCA pellet and were exposed to normal drinking water (SHAM groups). Animals were treated for overall 8 weeks.

value: cardiac, left ventricle

tag: Sex

value: male

value: Cpxm2 wildtype

value: 20 weeks

value: unilateral nephrectomy


title: young, shoots, Col-0, ChIA-PET, h3k4me1, rep1


title: CHLA10_CD73_negative_rep2


title: NT-6h_input_rep4


title: KLRG1lo P14 shCD4 CD8 T cell, shCD4 control cells, LCMV 8 DPI, rep1


title: KLRG1hi P14 shCbx4 CD8 T cell, shCD4 control cells, LCMV 8 DPI, rep2

value: shRNA knockdown, Cbx4


title: NT-6h_input_rep3


title: CHLA10_CD73_negative_rep1


title: WT_Toxo_Sp_CD4_IFNg_RNAseq_rep1

city: Bethesda

first: Stephen

middle: R

last: Brooks

state: MD

address: 50 SOUTH DR, RM 1140

department: Biodata Mining and Discovery Section

institute: NIAMS/NIH

data_processing:
RNAseq FASTQ alignment with Tophat 2.1.1
Gene expression read count data were generated using htseq-count
Assembly: mm9
Supplementary files format and content: Excel table of RNA-seq gene expression count data

molecule: polyA RNA

source_name: spleen

growth_protocol: 18 hour re-stimulation

extract_protocol:
Total RNA  isolated with TRIzol and  phenol/chloroform, then mRNA enriched with NEBNext Poly(A) mRNA Magnetic Isolation Module
NEBNext Ultra II Library Prep Kit for Illumina (E7645L, New England Biolabs)
Total RNA  isolated with TRIzol and  phenol/chloroform, then mRNA enriched with NEBNext Poly(A) mRNA Magnetic Isolation Module
NEBNext Ultra II Library Prep Kit for Illumina (E7645L, New England Biolabs)

treatment_protocol: WT and STAT1 T-KO mice were infected with Toxplasma gondii for 7 days. Then, splenic single cell suspensions were re-stimulated overnight (18h) with solumble Toxoplasma antigen, processed for IFN-g capture assay and 50-100K CD4+ IFN-g+ T cells purified by cell sorting

value: spleen

tag: strain

value: Th1 Effector CD4+ T cell

tag: sorting strategy

value: Sorted viable, CD4+ IFN-g+ T cells


title: NT-14h_input_rep3


title: young, shoots, Col-0, ChIA-PET, h3k27me3, rep1

description: ATCP-022_024_050-peak.cluster.FDRfiltered.intra5inter7.txt

value: two-weeks old

value: Shoots of two-week-old seedlings


title: KLRG1hi P14 shCbx4 CD8 T cell, shCD4 control cells, LCMV 8 DPI, rep1


title: A673_CD73_positive_rep2

value: Ewing sarcoma cell line

value: Sorted CD73 positive


title: NT-6h_input_rep2

value: NT


title: A673_CD73_positive_rep3


title: KLRG1hi P14 shCD4 CD8 T cell, shCD4 control cells, LCMV 8 DPI, rep2

value: Spleen

value: Primary

value: P14 CD8 T cells


title: NT-6h_input_rep1


title: A673_CD73_positive_rep1


title: P14 shCbx4 CD8 T cell, shCbx4 control cells, LCMV 8 DPI, rep2

value: Wild type


title: A673_CD73_negative_rep3

value: Sorted CD73 negative


title: KLRG1hi P14 shCD4 CD8 T cell, shCD4 control cells, LCMV 8 DPI, rep1

value: shRNA knockdown, Control


title: young, shoots, Col-0, ChIA-PET, h3k27me3, rep2


title: cumulus cell-CC_input_rep2

source_name: cumulus cell-CC

value: CC

value: cumulus cell


title: cumulus cell-CC_input_rep3


title: P14 shCbx4 CD8 T cell, shCbx4 control cells, LCMV 8 DPI, rep1

value: shRNA knockdown, Cbx4


title: cumulus cell-CC_input_rep1


title: P14 shCD4 CD8 T cell, shCD4 control cells, LCMV 8 DPI, rep2


title: A673_CD73_negative_rep1


title: Fertilized-PN5_H3K9me3_rep2

description:
PN5_peaks.broadPeak
PN5_K9me3.bw

value: H3K9me3 (Active Motif, 39161)

value: Fertilized


title: P14 shCD4 CD8 T cell, shCD4 control cells, LCMV 8 DPI, rep1


title: cumulus cell-CC_input_rep4


title: A673_CD73_negative_rep2


title: Fertilized-PN5_H3K9me3_rep1

description:
PN5_peaks.broadPeak
PN5_K9me3.bw


title: SUM149_WT_RelB_ChIP_Rep1

first: Jeremy

last: Simon

department: Department of Data Science

institute: Dana-Farber Cancer Institute

data_processing:
Reads were then filtered for adaptor contamination using cutadapt (Martin, 2011) and filtered such that at least 90% of bases of each read had a quality score > 20.
Duplicated sequences were then capped at a maximum of 5 occurrences, and reads were aligned to the reference genome (hg19) using STAR (Dobin et al., 2013) version 2.5.2b retaining only primary alignments. Reads overlapping blacklisted regions of the genome were then removed
Reads were then extended in silico to a fragment size of 250 bp, and regions of significant enrichment relative to input control were identified using MACS2 (Zhang et al., 2008). Motifs were identified by comparing the 200 bp surrounding the peak midpoint to the 200 bp flanking sequence on either side of each identified peak using HOMER (Heinz et al., 2010).
Assembly: hg19
Supplementary files format and content: bigWig files for input control and ChIP samples have been normalized to the total number of aligned reads
Supplementary files format and content: VST-normalized gene expression data matrix (siEZH2 RNA-seq)
Supplementary files format and content: Raw gene count matrix (siRel RNA-seq)

growth_protocol: SUM149 or MDA-MB-231 cells were seeded and allowed to adhere in 10cm dishes for passaging.

extract_protocol:
ChIP was performed with an adapted disuccinimidyl glutarate (DSG) and formaldehyde chromatin crosslinking protocol (Wang 2022, Tian 2012, Singh 2019). 2-5x106 cells were collected in PBS, fixed with 2mM DSG reagent (Thermo Fisher Scientific) for 45min rotating at room temperature, washed, fixed with 1% formaldehyde (Thermo Fisher Scientific) for 10min rotating at room temperature, and quenched with 125mM glycine rotating for 5min at room temperature. Fixed cells were lysed in Buffer 1 (50mM HEPES-KOH, 140mM NaCl, 1mM EDTA pH 8, 10% glycerol, 0.5% NP-40, 0.25% Triton X-100, freshly supplemented protease and phosphatase inhibitors) by rotation for 10min at 4ºC, pelleted for 5min at 3000rpm at 4ºC, lysed in Buffer 2 (10mM Tris-HCl pH8, 200mM NaCl, 1mM EDTA pH8, 0.5mM EGTA, freshly supplemented protease and phosphatase inhibitors) by rotation for 10min at 4ºC, pelleted for 5min at 3000rpm at 4ºC, and resuspended in Buffer 3 (10mM Tris-HCl pH8, 100mM NaCl, 1mM EDTA pH8, 0.5mM EGTA, 0.1% NaDOC, 0.5% N-laurylsarcosine, freshly supplemented protease and phosphatase inhibitors) for sonication. Cells were sonicated on High for 30min with 30sec on/off in a water bath sonicator maintained at 4ºC (Diagenode). 10% Triton X-100 was added to sonicated lysates and spun at 11,000rpm for 10min at 4ºC to pellet debris; 5% input and the appropriate number of aliquots were taken from sonicated lysate. Following overnight antibody incubation and incubation with BSA-blocked Dynabeads (beads washed in RIPA buffer were incubated with 0.1ug/uL BSA for 30min followed by RIPA wash) for 1h at room temperature, beads were sequentially washed in low salt (20mM Tris-HCl pH8, 150mM NaCl, 2mM EDTA pH8, 1% Triton X-100, 0.1% SDS), high salt (20mM Tris-HCl pH8, 500mM NaCl, 2mM EDTA pH8, 1% Triton X-100, 0.1% SDS), and LiCl (250mM LiCl, 10mM Tris-HCl pH8, 1mM EDTA pH8, 1% NP-40, 1% NaDOC) buffers. DNA was eluted with Elution buffer (1% SDS, 100mM NaHCO3) and agitation for 15min at 42ºC. ChIP and input DNA was reverse crosslinked with RNaseA (0.2mg/mL) and NaCl (20mM) for 2h at 65ºC and Proteinase K (0.4mg/mL) for 1h at 50ºC before processing using Qiagen PCR Clean Up Kit per kit protocol
ChIP-seq libraries (Illumina) were prepared according to manufacturer’s recommendations and sequenced at the UNC High Throughput Genomic Sequencing facility using paired-end 50bp reads

treatment_protocol: Transfection was performed with Dharmafect I (Dharmacon) for siRNA (20nM, see Key Resources Table) or FuGene HD (Promega) for plasmids (0.75g/mL, see Key Resources Table) prepared in OptiMEM (Gibco). Cells were harvested 48 hours after transfection unless otherwise indicated. Lentivirus was prepared using the psPAX2 and pMD2.5G packaging system co-transfected for 48 hours in HEK293T cells. Supernatant containing virus was passed through 0.45uM filters (Pall Corporation), and applied to target cells with 8ug/mL polybrene (EMD Millipore). Stable cell lines were further selected using 1ug/mL puromycin (Thermo Fisher Scientific) or Geneticin (Gibco) for 7 days before validation.

value: WT

tag: replicate

value: RelB


title: SUM149_WT_RelB_ChIP_Rep2


title: TMBIM6sh_RANKL_rep2

city: Cheongju

first: Kyunghwan

last: Kim

address: Rm #202a, Bldg. S1-5, 1 chungdae-ro

country: South Korea

institute: Chungbuk National University

data_processing:
mRNA-Seq reads were mapped to reference mouse genome (mm10 assembly) using HISAT2 with default parameters.
RNA expression was quantified using analyzeRepeats.pl command in HOMER
DEGs was assessed with DESeq2 using getDiffExpression.pl in HOMER.
Assembly: mm10
Supplementary files format and content: tab-delimited text files include RPKM values for each Sample

source_name: Bone marrow-derived macrophage cells

growth_protocol: Bone marrow (BM) cells were collected by flushing femurs and tibias from 6- to 8-week-old C57BL/6 mice. Cells were cultured in α-minimum essential medium (α-MEM) supplemented with 10% FBS and M-CSF (5 ng/ml) for 16 h.  Non-adherent cells were harvested and cultured with M-CSF (30 ng/ml) for 3 days. Floating cells were removed and adherent cells were used as bone marrow-derived macrophage (BMM) cells.

extract_protocol:
Total RNA was isolated using the TRIzol reagent according to the manufacturer's instructinos.
RNA libraries were prepared for sequencing using standard Illumina protocols

treatment_protocol: Osteoclast precursor cells depleted of TMBIM6 were cultured in 48-well plates with 30 ng/mL of macrophage colony-stimulating factor (M-CSF) and 100 ng/mL of receptor activator of nuclear factor kappaB ligand (RANKL) for 24 h.

value: Primary cells

value: 6-8 weeks


title: SUM149_WT_RelB_ChIP_Rep3


title: TMBIM6sh_RANKL_rep1


title: NT-TE_H3K9me3_rep2

description:
NT-TE_peaks.broadPeak
NT-TE_K9me3.bw

source_name: NT-TE

value: TE


title: NT-TE_H3K9me3_rep1

description:
NT-TE_peaks.broadPeak
NT-TE_K9me3.bw

value: NT


title: TMBIM6sh_No RANKL_rep2

value: TMBIM6sh_No RANKL


title: TMBIM6sh_No RANKL_rep1


title: NT-ICM_H3K9me3_rep2

description:
NT-ICM_peaks.broadPeak
NT-ICM_K9me3.bw

source_name: NT-ICM

value: ICM


title: SUM149_WT_RelA_ChIP_Rep3

value: RelA


title: SUM149_WT_RelA_ChIP_Rep2


title: NCsh_RANKL_rep2


title: SUM149_WT_RelA_ChIP_Rep1


title: SUM149_WT_NFKB2_p52_ChIP_Rep3


title: NCsh_RANKL_rep1


title: NT-Morula_H3K9me3_rep6

description:
NT-Morula_peaks.broadPeak
NT-Morula_K9me3.bw

source_name: NT-Morula

value: Morula


title: E10_SI_6TR

city: Baltimore

first: Supriyo

last: De

state: Maryland

address: 251 Bayview Blvd

department: Laboratory of Genetics and Genomics

institute: NIA-IRP, NIH

description: EXP10-SIG6 TR

hyb_protocol: A total of 600 ng Cy3-labeled cRNA was fragmented at 60°C for 30 minutes in a reaction volume of 25 microL containing 0.5x Agilent fragmentation buffer and 2x Agilent gene expression blocking agent following the manufacturer's instructions. On completion of the fragmentation reaction, 25 microL of 2× Hi-RPM Hybridization Buffer was added to the fragmentation mixture and hybridized to Agilent SurePrint GE3 Mouse 8x60k v2 gene expression microarrays for 17 hours at 65°C in a rotating Agilent hybridization oven. After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37°C GE Wash buffer 2 (Agilent), and dried by slowly removing from Wash buffer 2.

scan_protocol: Following posthybridization rinses, arrays were scanned using an Agilent SureScan microarray Scanner at 5 micron.

data_processing:
Hybridization intensity data were extracted from the scanned images using Agilent’s Feature Extraction Software 9.1 (Agilent) using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities.
Raw microarray data were log transformed to yield z-scores. The z-ratio was calculated as the difference between the observed gene z-scores for the experimental and the control comparisons, and dividing by the standard deviation associated with the distribution of these differences. Z-ratio values of ± 1.5 were used as cut-off values and calculated using a 5% false discovery rate (FDR) threshold. The complete set was tested for gene set enrichment using parametric analysis of gene set enrichment. For each pathway z-score, a p-value was computed using JMP 6.0 software to test for the statistical significance.

source_name: Serially infected

label_protocol: Cyanine-3 (Cy3) labeled cRNA was prepared from 200 ng total RNA using the Low-Input Quick Amp Labeling Kit (Agilent, Santa Clara, CA) according to the manufacturer's instructions, followed by RNeasy column purification (QIAGEN, Valencia, CA). Dye incorporation and cRNA yield were evaluated with the NanoDrop ND-1000 Spectrophotometer (Wilmington, DE).

growth_protocol: Female C57BL/6 mice were purchased from Jackson Laboratory. All animal experiments were carefully evaluated and approved by the Institutional Animal Care and Use Committee at Trudeau Institute. Sequentially infected female C57BL/6 mice were infected with 800 pfu of murine -herpesvirus (HV68) at 12 weeks of age, then received 250 EID50 Sendai virus (Enders strain) at 20 weeks of age, 2 x 10^4 pfu murine cytomegalovirus (mCMV) at 28 weeks of age, and 200 Heligmosomoides polygyrus (H. poly) larvae at 36 weeks of age. The HV68 and Sendai viruses were administered via the intranasal route, mCMV via intraperitoneal injection, and H. poly larvae via oral gavage. Control mice were mock infected with PBS. Both sequentially and mock infected mice were aged to 18-25 months under SPF conditions.

extract_protocol: Blood was collected from 18-20 month-old mock infected (MI) and sequentially infected (SI) mice and total RNA extracted using the RiboPure RNA purification kit following manufacturer’s instructions (Thermo Fisher Scientific). RNA concentration and quality were assayed on an RNA6000 Bioanalyzer chip (Agilent).

value: Female

value: 18-20 months

value: Serially infected

value: Blood

tag: experiment batch


title: NT-ICM_H3K9me3_rep1

description:
NT-ICM_peaks.broadPeak
NT-ICM_K9me3.bw


title: NT-Morula_H3K9me3_rep5


title: SUM149_WT_NFKB2_p52_ChIP_Rep2


title: NCsh_No RANKL_rep1

value: NCsh_No RANKL


title: E9_SI_4TR

description: EXP9-SIG4 TR


title: E10_SI_5


title: E7_MI_5TR

description: EXP7-PBS5 TR

source_name: PBS

value: PBS


title: E3_SI_5TR

description: EXP3-SIG5 TR


title: E10_SI_6


title: NT-Morula_H3K9me3_rep4

value: H3K9me3 (Active Motif, 39161)


title: RNA-seq of ILC3 fed iron deficient diet Sample 3 [ID_Diet_ILC3_SI_3]

city: Gainesville

first: Liang

state: Fl

address: 2015 SW 16th Ave

institute: University of Florida

data_processing:
FastQC (v0.11.5) was used to ensure high per-base sequence quality of reads. Sequenced reads were mapped and raw count values quantified with STAR78 to the Mus musculus genome (GRCm38/mm10 assembly) and filtered for uniquely mapped reads. Quantitated mRNA expression levels, FPKM aligned reads, were calculated based on exon regions using RSEM (v1.2.25). Differentially expressed genes (max FPKM ≥ 1, fold change ≥ 1.5, q-value ≤ 0.05) were identified by DESeq2 (v1.26.0) analysis. Gene Set Enrichment Analysis (GSEA) was performed for Gene Ontology (GO) analysis. Log2 transformed FPKM values were used for principal component analysis in R (v3.6.2) with the prcomp function and then visualized using the factoextra package (v1.0.7). Heatmaps were created using the R package pheatmap (v1.0.12).
Assembly: mm10
Supplementary files format and content: Raw_Counts

source_name: SI

extract_protocol:
RNA was extracted using the RNAeasy Micro Kit (TaKaRa), followed by complementary DNA (cDNA) generation with the SMART-Seq® HT Kit (TaKaRa).
Sequencing libraries were generated with the Nextera® XT DNA Library Preparation Kit (Illumina), and sequenced on the Illumina HiSeq 2500 instrument.

treatment_protocol: ILC3 cells (Lin–CD90hiCD45lo) were FACS-sorted from the gut of indicated mice, and MNK-3 cells were collected after in vitro treatment.

value: SI

value: WT

value: Iron Deficient Diet


title: E10_MI_8


title: RNA-seq of ILC3 fed iron deficient diet Sample 2 [ID_Diet_ILC3_SI_2]


title: NT-Morula_H3K9me3_rep3


title: RNA-seq of ILC3 fed iron deficient diet Sample 1 [ID_Diet_ILC3_SI_1]


title: SUM149_WT_EZH2_ChIP_Rep2


title: SUM149_WT_EZH2_ChIP_Rep3


title: NT-Morula_H3K9me3_rep2


title: SUM149_WT_EZH2_ChIP_Rep1


title: NT-Morula_H3K9me3_rep1


title: SUM149_WT_ChIP_input_Rep3

value: Input control


title: NT-8cell_H3K9me3_rep7

description:
NT-8cell_peaks.broadPeak
NT-8cell_K9me3.bw


title: RNA-seq of ILC3 fed control diet Sample 3 [Ctrl_Diet_ILC3_SI_3]

value: Control Diet


title: E10_SI_3


title: SUM149_WT_ChIP_input_Rep2


title: RNA-seq of ILC3 fed control diet Sample 2 [Ctrl_Diet_ILC3_SI_2]


title: E10_MI_7


title: NT-8cell_H3K9me3_rep6

value: NT


title: SUM149_WT_ChIP_input_Rep1


title: RNA-seq of ILC3 fed control diet Sample 1 [Ctrl_Diet_ILC3_SI_1]


title: E4_SI_6TR

description: EXP4-SIG6 TR


title: E9_SI_6


title: NT-8cell_H3K9me3_rep5


title: E10_SI_7


title: E3_MI_1TR

description: EXP3-PBS1 TR


title: RNA-seq of DFO treated MNK3 cells Sample 3 [MNK3_DFO_3]

value: DFO


title: E9_SI_4


title: RNA-seq of DFO treated MNK3 cells Sample 2 [MNK3_DFO_2]


title: NT-8cell_H3K9me3_rep3


title: E9_SI_7


title: MDA-MB-231_WT_RelB_ChIP_Rep3

value: RelB


title: NT-8cell_H3K9me3_rep2


title: E9_SI_1


title: E9_SI_5


title: MDA-MB-231_WT_RelB_ChIP_Rep1


title: E9_MI_4


title: E9_MI_5


title: E7_SI_3


title: MDA-MB-231_WT_RelA_ChIP_Rep3

value: RelA


title: RNA-seq of DFO treated MNK3 cells Sample 1 [MNK3_DFO_1]


title: E9_SI_2


title: NT-8cell_H3K9me3_rep4


title: RNA-seq of control MNK3 cells Sample 3 [MNK3_Ctrl_3]

value: Solvent


title: MDA-MB-231_WT_RelB_ChIP_Rep2


title: E7_SI_4

value: Female


title: E7_MI_5

value: 18-20 months


title: RNA-seq of control MNK3 cells Sample 2 [MNK3_Ctrl_2]


title: MDA-MB-231_WT_RelA_ChIP_Rep2


title: NT-4cell_H3K9me3_rep3

description:
NT-4cell_peaks.broadPeak
NT-4cell_K9me3.bw


title: MDA-MB-231_WT_RelA_ChIP_Rep1


title: E7 MI_4


title: MDA-MB-231_WT_NFKB2_p52_ChIP_Rep3


title: RNA-seq of cKO dextran treated SI ILC3 Sample 3 [Tfrc_cKO_SI_ILC3_dextran_3]

value: Tfrc F/F Rorc-cre

value: Dextran treated


title: RNA-seq of control MNK3 cells Sample 1 [MNK3_Ctrl_1]


title: NT-4cell_H3K9me3_rep1


title: E7 MI_3

value: Blood


title: NT-2cell_H3K9me3_rep6

description:
NT-2cell_peaks.broadPeak
NT-2cell_K9me3.bw


title: RNA-seq of cKO dextran treated SI ILC3 Sample 2 [Tfrc_cKO_SI_ILC3_dextran_2]


title: MDA-MB-231_WT_NFKB2_p52_ChIP_Rep2


title: MDA-MB-231_WT_NFKB2_p52_ChIP_Rep1


title: NT-2cell_H3K9me3_rep5


title: RNA-seq of Control dextran treated SI ILC3 Sample 3 [Ctrl_SI_ILC3_dextran_3]

value: Tfrc F/F


title: NT-2cell_H3K9me3_rep4

value: H3K9me3 (Active Motif, 39161)


title: NT-4cell_H3K9me3_rep2


title: MDA-MB-231_WT_EZH2_ChIP_Rep3


title: RNA-seq of Control dextran treated SI ILC3 Sample 2 [Ctrl_SI_ILC3_dextran_2]

value: SI


title: MDA-MB-231_WT_EZH2_ChIP_Rep2

value: WT


title: MDA-MB-231_WT_EZH2_ChIP_Rep1


title: RNA-seq of Control dextran treated SI ILC3 Sample 1 [Ctrl_SI_ILC3_dextran_1]


title: NT-2cell_H3K9me3_rep2


title: NT-2cell_H3K9me3_rep3


title: E7 MI_2

value: PBS


title: RNA-seq of cKO untreated SI ILC3 Sample 3 [Tfrc_cKO_SI_ILC3_untreated_3]

value: Untreated


title: RNA-seq of cKO dextran treated SI ILC3 Sample 1 [Tfrc_cKO_SI_ILC3_dextran_1]


title: NT-2cell_H3K9me3_rep1


title: RNA-seq of cKO untreated SI ILC3 Sample 2 [Tfrc_cKO_SI_ILC3_untreated_2]


title: MDA-MB-231_WT_ChIP_input_Rep2

value: Input control


title: NT-14h_H3K9me3_rep4

description:
14h_peaks.broadPeak
14h_K9me3.bw

value: NT


title: E7 MI_1


title: RNA-seq of Control untreated SI ILC3 Sample 3 [Ctrl_SI_ILC3_untreated_3]


title: MDA-MB-231_siRelB_RNA_Rep2

data_processing:
Reads were filtered for adaptor contamination and high quality using Novogene in-house perl scripts
Reads were aligned to the reference genome (hg19) using Hisat2 v2.0.5
Transcript abundance was counted using featureCounts v1.5.0-p3 and differential expression detected using DESeq2 1.20.0
Assembly: hg19
Supplementary files format and content: bigWig files for input control and ChIP samples have been normalized to the total number of aligned reads
Supplementary files format and content: VST-normalized gene expression data matrix (siEZH2 RNA-seq)
Supplementary files format and content: Raw gene count matrix (siRel RNA-seq)

extract_protocol:
RNA was extracted from SUM149 and MDA-MB-231 cells using RNeasy kit with on-column DNase digestion (QIAGEN)
Libraries were prepared for high-throughput sequencing by Novogene as per manufacturer's recommendations

value: siRelB


title: NT-14h_H3K9me3_rep3

description:
14h_peaks.broadPeak
14h_K9me3.bw


title: E5_MI_1


title: RNA-seq of cKO untreated SI ILC3 Sample 1 [Tfrc_cKO_SI_ILC3_untreated_1]

source_name: Si

value: Si


title: E4_SI_6

value: Serially infected


title: MDA-MB-231_WT_ChIP_input_Rep3


title: RNA-seq of Control untreated SI ILC3 Sample 2 [Ctrl_SI_ILC3_untreated_2]


title: MDA-MB-231_siRelB_RNA_Rep1


title: E5_MI_3


title: MDA-MB-231_siRelA_RNA_Rep2

value: siRelA


title: MDA-MB-231_WT_ChIP_input_Rep1


title: RNA-seq of Control untreated SI ILC3 Sample 1 [Ctrl_SI_ILC3_untreated_1]


title: E4_SI_7

value: Female


title: NT-6h_H3K9me3_rep5

description:
6h_peaks.broadPeak
6h_K9me3.bw


title: MDA-MB-231_siRelA_RNA_Rep1


title: RNA-seq of Ahr Deficient SI ILC3 Sample 2 [ILC3_SI_Ahr_KO_2]

value: Ahr F/F Rorc-Cre


title: NT-6h_H3K9me3_rep4

description:
6h_peaks.broadPeak
6h_K9me3.bw


title: NT-14h_H3K9me3_rep2

description:
14h_peaks.broadPeak
14h_K9me3.bw


title: MDA-MB-231_siRel-Control_RNA_Rep2

value: siControl


title: E4_MI_6

value: 18-20 months


title: E4_MI_7

value: Blood


title: E4_MI_4


title: NT-14h_H3K9me3_rep1

description:
14h_peaks.broadPeak
14h_K9me3.bw


title: RNA-seq of Ahr Deficient SI ILC3 Sample 1 [ILC3_SI_Ahr_KO_1]


title: MDA-MB-231_siRel-Control_RNA_Rep1


title: RNA-seq of Ahr Sufficient SI ILC3 Sample 2 [ILC3_SI_Ahr_WT_2]

value: Ahr F/F


title: E4_SI_5


title: E4_MI_8


title: NT-6h_H3K9me3_rep3

description:
6h_peaks.broadPeak
6h_K9me3.bw

value: H3K9me3 (Active Motif, 39161)


title: E3_SI_5


title: E4_MI_2


title: RNA-seq of Ahr Sufficient SI ILC3 Sample 1 [ILC3_SI_Ahr_WT_1]

value: SI


title: E3_SI_4


title: E4_MI_3


title: NT-6h_H3K9me3_rep2

description:
6h_peaks.broadPeak
6h_K9me3.bw


title: Kas-MR2-5

city: new york

first: Xufeng

last: Chen

state: NY

address: 550 First Avenue, Smilow 1307

institute: NYU Langone Medical Center

description:
NEXTFLEX® Rapid Directional RNA-Seq Kit 2.0 (Catalog no: NOVA-5198-01)
RNAseq_processed_FPKM

data_processing:
Read alignment: STAR aligner version 2.5.0c was used to map reads against the reference genome hg19. Only uniquely mapping reads were kept (specific parameters: --trim5p=13, --outFilterMultimapNmax 1, --outFilterMismatchNoverLmax 0.05)
Deduplication: Duplicated reads were excluded using picard-tools version 2.6.0.
Read counting: Reads were counted on a stranded gene-basis within annotated exons downloaded from Ensembl Genes V75 using the ngsutils tool bamutils count (special paramters: -uniq, -multiple complete, -library RF).
Normalization: edgeR version 3.14.0 was used to normalize read counts per sample and genes were filtered for counts-per-million > 1. CDS length from Ensembl Genes V75 was used to calculate FPKM values for filtered genes.
Genome_build: hg19
Supplementary_files_format_and_content: csv file include FPKM values for each Sample
Supplementary_files_format_and_content: csv file include raw counts for each Sample

source_name: Kasumi-1 MR2 cells

growth_protocol: Kasumi-1 human leukemia cells were cultured in RPMI medium supplemented with 10% FBS and 1% penicillin/streptomycin.

extract_protocol:
Kasumi-1 cells were harvested and washed with 1x PBS. Total RNA was extracted using RNeasy Plus Mini Kit (Qiagen) and QIAshredder (Qiagen). We isolated poly(A) mRNA using magnetic isolation method (NEXTFLEX, Bioo Scientific) using ~1 ug of total mRNA.
To generate RNA-Sequencing libraries, we used NEXTFLEX Rapid Directional RNA-Seq Library Prep Kit (Bioo Scientific) and NEXTFLEX RNA-Seq barcodes (Bioo Scientific), which were carried out according to manufacture's protocol.

treatment_protocol: Kasumi-1 cells were cultured in DMSO or increasing doses of MCL1i (AMG-176, from 30 nM to 1.6 μM) for over eight weeks.

value: human acute myeloid leukemia (AML) cells

value: increasing dose of AMG-176 for 8 weeks

tag: genotype/variation

value: MCL1 inhibitor (AMG-176) resistant cells


title: Kas-MR2-2


title: NCsh_No RANKL_rep2

value: Primary cells

tag: age

value: 6-8 weeks

value: NCsh_No RANKL


title: RNA-seq of Ahr Deficient LI ILC3 Sample 2 [ILC3_LI_Ahr_KO_2]

source_name: LI

tag: tissue

value: LI

value: Untreated


title: NT-6h_H3K9me3_rep1

description:
6h_peaks.broadPeak
6h_K9me3.bw

value: NT


title: cumulus cell-CC_H3K9me3_rep4

description:
CC_peaks.broadPeak
CC_K9me3.bw

value: CC

value: cumulus cell


title: Kas-MR1-6

source_name: Kasumi-1 MR1 cells


title: RNA-seq of Ahr Deficient LI ILC3 Sample 1 [ILC3_LI_Ahr_KO_1]

value: Ahr F/F Rorc-Cre


title: SUM149_WT_NFKB2_p52_ChIP_Rep1

value: WT


title: cumulus cell-CC_H3K9me3_rep3

description:
CC_peaks.broadPeak
CC_K9me3.bw


title: RNA-seq of Ahr Sufficient LI ILC3 Sample 2 [ILC3_LI_Ahr_WT_2]


title: Kas-MR1-4


title: cumulus cell-CC_H3K9me3_rep2

description:
CC_peaks.broadPeak
CC_K9me3.bw


title: E3_SI_1

value: Female

value: 18-20 months

value: Serially infected

value: Blood


title: E7_SI_2


title: Kas-MR1-3

value: human acute myeloid leukemia (AML) cells


title: Kas-Par-3

source_name: Kasumi-1 Parental cells

value: parental cells


title: ChIP-seq of input chromatin in ILC3

data_processing:
CHIP-Seq reads were mapped to the mouse genome (mm10) with bowtie2 (Langmead and Salzberg, 2012). The mapped reads were filtered using samtools (Li et al., 2009), keeping only the uniquely aligned reads, and bedgraph files (scaled to 10 million reads) were made with bedtools (Quinlan and Hall, 2010).  CHIP-seq peak locations were identified using Homer (Heinz et al., 2010).
Assembly: mm10
Supplementary files format and content: bigwig files for each sample

source_name: Small and Large Intestine

extract_protocol:
Cells were cross-linked with 1% formaldehyde for 15 min. Chromatin was sheared by sonication with Bioruptor Pico (30 s on and 30 s off for 25 cycles) and immunoprecipitated with anti-Ahr (Enzo Life Science, BML-SA210-0100) using iDeal ChIP-Seq Kit for transcription factors (Diagenode). Samples were sequenced as 50 bp single-end reads on the Illumina HiSeq 2500 instrument.
Eluted DNA was made into indexed library according to the manual of NEBNext Ultra II DNA Library Prep Kit for Illumina (NEB). The library was cleaned up with 1.2x SPRIselect beads (Beckman Coulter) before sequencing.

treatment_protocol: ILC3s (Lin–CD90hiCD45lo) were FACS-sorted from the gut LPLs (combined LI and SI) of Rag1−/− mice. For ChIP of Ahr, cells were treated with FICZ (200 nM) for 4 hours before harvest.

value: Small and Large Intestine

value: Input


title: Kas-Par-2


title: ChIP-seq of Ahr in ILC3

value: Ahr


title: OT-1 CD8_cell hashing

city: Rehovot

first: Ester

last: Feldmesser

state: Rehovot

address: POB 25

department: Life Science Core Facilities

country: Israel

institute: Weizmann Institute

data_processing:
Illumina bcl files were processed using the cellranger/6.0.0 mkfastq command.
The fastq files were processed to create the h5 matrices using the cellranger/6.0.1 count command. The trascriptome reference data was obtained from 10x Genomics: refdata-gex-mm10-2020-A.
Genome_build: mm10
Supplementary_files_format_and_content: h5 filtered matrix generated using the cellranger/6.0.1 count command

source_name: LN CD8 T cells

extract_protocol:
OT-I CD45.1 CD8 T cells were sorted (CD45.1-PB, CD8 PerCP/Cy5.5, CD3 APC) from WT or DCDICAM-1 recipients 72h after immunization
The libraries were prepared for sequencing according to 10x Genomics single-cell 3’ v.1 1 (dual Index) with feature barcode technology for cell surface protein.The index of the hashing library was: NT-B8. Libraries were sequenced on one flow cell of a NovaSeq, with paired end reads as follows: read 1, 28 nt; read 2, 90 nt; index 1, 10 nt; index 2, 10 nt.

treatment_protocol: OT-I CD45.1 CD8 T cells were transferred into WT or DCDICAM-1 mice, 18 hrs later mice were immunized with intrafootpad injection of aDEC205:OVA + aCD40 activating antibody or MVA:OVA

value: popliteal lymph nodes

value: multiplexed sample (wild type or CD11c-Cre:ICAM-1 fl/fl)

value: multiplexed sample (immunized with aDEC205:OVA + aCD40 activating antibody or immunized with MVA:OVA)


title: Q1-2_IL10-C2-3

status: Public on Jul 09 2023

city: Taipei

first: JuPei

address: No. 155, Sec. 2, Linong St. Beitou Dist.

country: Taiwan

institute: National Yang Ming Chiao Tung University

data_processing:
For BulkRNA sequencing, libraries were sequenced on Illumina NextSeq 550, with 75bp from read 1,and at a depth of 25-39 million reads per sample.
Reads were trimmed, clean and quality checked using Fastp v0.20.1
High-quality reads were then imported into STAR v2.7.5a for alignment into BAM files.
BAM files were imported into the RSEM v1.3.3 for expected counts, FPKM and TPM estimation.
Expected counts table was imported into the DESeq2 v1.30.0 for DEG analysis.
Genome_build: The mouse genome mm10 (GRCm38.101)
Supplementary_files_format_and_content: FPKM of sequencing reads in .txt file.
Supplementary_files_format_and_content: DESeq2 for differential expression gene analysis .csv files.

source_name: Orthotopic oral tumor tissue

growth_protocol: 5*106 of MTC-Q1 cancer cells were orthotopic injection in C57BL/6 mice.

extract_protocol:
Trizol protocol for tissue RNA extraction. Extracted RNA were quantificated by using Qubit fluorometer with Quant-iT RNA BR assay kit.
Libraries were prepared using Illumina TruSeq Stranded mRNA Sample Prep Kit + limited cycles of PCR by KAPA HiFi Polymerase following the directions of the manufacturer. RNA libraries were prepared for sequencing using standard Illumina protocols.

treatment_protocol: The treatment of IL10/CSF1R fusion protein (twice per week) for totoal 6 doses when tumor size reach 100 mm3. Tumor tissues isolated (~100 mm3) isolated and total RNA were extracted by Trizol, followed by cDNA were sequenced by Illumina NextSeq 550.

value: recombinant IL10-Fc protein

value: Orthotopic oral tumor tissue

value: oral cancer


title: Q1-2_ctrl-IgG-C5-2

value: Control isotype (IgG1-Fc)


title: OT-1 CD8_GEX


title: Q1-2_IL10-C2-1


title: Q1-2_IL10-C6-1


title: Q1-2_ctrl-IgG-C1-1


title: Q1-2_ctrl-IgG-C1-2


title: E3_SI_2


title: Q1-2_CSF1R-C3-1

value: CSF1R antibody


title: Q1-2_CSF1R-C6-4


title: Q1-2_BF10-C7-4

value: IL10/CSF1R (BF10) fusion protein


title: Q1-2_BF10-C6-5


title: RNA-seq of Ahr Sufficient LI ILC3 Sample 1 [ILC3_LI_Ahr_WT_1]

value: LI

value: Ahr F/F

value: Untreated


title: cumulus cell-CC_H3K9me3_rep1

description:
CC_peaks.broadPeak
CC_K9me3.bw

value: CC

value: H3K9me3 (Active Motif, 39161)

value: cumulus cell


title: Q1-2_BF10-C4-2


title: E3_SI_3

value: Female

value: 18-20 months

value: Serially infected

value: Blood


title: E3_MI_4

value: PBS


title: Q1-2_CD45-_CSF1R

data_processing:
For BulkRNA sequencing, libraries were sequenced on Illumina NextSeq 550, with 75bp from read 1,and at a depth of 25-39 million reads per sample.
Reads were trimmed, clean and quality checked using Fastp v0.20.1
High-quality reads were then imported into STAR v2.7.5a for alignment into BAM files.
BAM files were imported into the RSEM v1.3.3 for expected counts, FPKM and TPM estimation.
Expected counts table was imported into the DESeq2 v1.30.0 for DEG analysis.
Genome_build: DESeq2 normalized abundance measurements in .csv file.

extract_protocol:
Trizol protocol for RNA extraction. Extracted RNA were quantificated by using Qubit fluorometer with Quant-iT RNA BR assay kit.
Libraries were prepared using Illumina TruSeq Stranded mRNA Sample Prep Kit + limited cycles of PCR by KAPA HiFi Polymerase following the directions of the manufacturer. RNA libraries were prepared for sequencing using standard Illumina protocols.

treatment_protocol: The treatment of IL10/CSF1R fusion protein (twice per week) for totoal 6 doses when tumor size reach 100 mm3. Tumor tissues were dissociated by tumor dissociation kit (MACS) and remove dead cells by dead cell removal kit (MACS). CD45-negative cells were isolated by CD45 microbeads.

value: Oral tumor tissue

value: CD45-negative cells


title: E3_MI_3


title: E3_MI_1


title: E3_MI_2


title: Q1-2_CD45-_IL10

value: recombinant IL10-Fc protein


title: Q1-2_CD45-_BF10


title: Q1-2_CD45-_Ctrl

value: Control isotype (IgG1-Fc)


title: 4T1_IL10-7

data_processing:
For BulkRNA sequencing, libraries were sequenced on Illumina NextSeq 550, with 75bp from read 1, and at a depth of 33-40 million reads per sample.
Reads were trimmed, clean and quality checked using Fastp v0.20.1
High-quality reads were then imported into STAR v2.7.5a for alignment into BAM files.
BAM files were imported into the RSEM v1.3.3 for expected counts, FPKM and TPM estimation.
Expected counts table was imported into the DESeq2 v1.28.0 for DEG analysis.
Genome_build: The mouse genome mm10 (GRCm38.101)
Supplementary_files_format_and_content: FPKM of sequencing reads in .txt file.
Supplementary_files_format_and_content: DESeq2 for differential expression gene analysis .csv files.

source_name: Orthotopic breast tumor tissue

growth_protocol: 1*105 of 4T1 cancer cells were orthotopic injection in Balb/c mice.

value: Orthotopic breast tumor tissue

value: brest cancer


title: 4T1_ctrl-IgG-5


title: 4T1_IL10-4


title: 4T1_CSF1R-8

value: CSF1R antibody


title: 4T1_IL10-2


title: 4T1_ctrl-IgG-7


title: Q1-2_CSF1R-C3-3

value: Orthotopic oral tumor tissue

value: oral cancer


title: 4T1_CSF1R-6


title: 4T1_ctrl-IgG-4


title: 4T1_CSF1R-4


title: 4T1_BF10-3

value: IL10/CSF1R (BF10) fusion protein


title: 4T1_BF10-7


title: KOI4

city: Guangzhou

first: Mincheng

last: Lu

state: Guangdong

address: No. 1838 Guangzhou Dadao Bei

institute: 南方医院

data_processing:
1.Data quality control.Use fastp v 0.19.3 to filter the original data, mainly to remove reads with adapters; when the N content in any sequencing reads exceeds 10% of the base number of the reads, remove the paired reads; when any sequencing reads When the number of low quality (Q<=20) bases contained in reads exceeds 50% of the bases of the reads, this paired reads will be removed. All subsequent analyses are based on clean reads.  2. Reads mapping to the reference genome.Download the reference genome and its annotation files from the designated website, use HISAT v2.1.0 to construct the index, and compare clean reads to the reference genome.  3. New transcript prediction.Use StringTie v1.3.4d for new gene prediction. StringTie applies network streaming algorithms and optional de novo to splice transcripts. Compared with Cufflinks and other software, StringTie can splice a more complete and accurate transcript, and the splicing speed is faster.  4. Quantification of gene expression levels.Use featureCounts v1.6.2 to calculate the gene alignment, and then calculate the FPKM of each gene based on the gene length.
Assembly: mm9
Supplementary files format and content: tab-delimited text files include FPKM values for each Sample

source_name: APOE knockout mice,S. aureus osteomyelitis

growth_protocol: All the mice were housed in facility with a 12-h light/dark cycle, 24±2°C room temperature, and ad libitum access to water and food.

extract_protocol:
Total RNA of the bone marrow was extracted with TRIzol reagent according to the manufacturer’s instructions (Invitrogen, USA).A total amount of 1 µg RNA per sample was used as input material for the RNA sample preparations
PCR products were purified (AMPure XP system) and library quality was assessed on the Agilent Bioanalyzer 2100 system.

treatment_protocol: Two different genotype of mice were randomly divided into 2 groups:Sham and S. aureus osteomyelitis.The sterile self-tapping screws were placed into femurs of Sham groups,and the S. aureus infected self-tapping screws were placed into femurs of S. aureus osteomyelitis groups.The operated femur bone marrow was collected at day 7 after operation.

value: bone marrow

value: APOE knockout

value: S. aureus osteomyelitis


title: 4T1_BF10-6


title: KOI3


title: KOS1

source_name: APOE knockout mice,Sham

value: Sham


title: KOI2


title: KOS4


title: KOI1


title: KOS3


title: WTI5

source_name: WT mice,S. aureus osteomyelitis

value: WT


title: WTI4


title: KOS5


title: WTI3


title: WTS5

source_name: WT mice,Sham


title: WTI1


title: NT-8cell_H3K9me3_rep1

value: H3K9me3 (Active Motif, 39161)

value: NT


title: WTS1


title: MiRC1 Mutant, male,E12.5 , gonad, replicate 2, RNA-seq

city: Berlin

first: Irene

last: Mota-Gomez

address: Hannoversche strasse 28

institute: Max Delbruck Center

description:
MirC1_12.5_Male_mut_rep2
COUNTS_E12.5.txt

data_processing:
The bulk RNA-seq reads were mapped to the mm10 mouse genome and counted with the align and featureCounts function from the R subread package
Only genes with 1 or more cpm (counts per million) in at least two of the samples were considered to be expressed and were used for further analysis.
Analysis of the differential gene expression was performed using EdgeR
Assembly: mm10
Supplementary files format and content: All the processed data files contain the RAW counts for each of the samples (indicated in the corresponding column names) and for each gene (GeneID or mgi_symbol columns), further analysis with EdgeR will normalize the data and generate the differential expression analysis found in extended data tables of the manuscript.

source_name: gonad tissue

extract_protocol:
For RNA-seq, total RNA was isolated from gonad-mesonephos complexes at E11.5 and from isolated gonads at E12.5 using the RNeasy Micro Kit
Libraries were prepared with the NEBNext Ultra II Directional RNA Library Prep Kit for Illumina and  the Truseq stranded mRNA Library prep

value: gonad tissue

value: mutant, XY

tag: time


title: WT, male, E12.5 , gonad, replicate 3, RNA-seq

description:
MirC1_12.5_Male_WT_rep3
COUNTS_E12.5.txt

value: WT, XY


title: WT, female ,E12.5, gonad, replicate 1, RNA-seq

description:
MirC1_12.5_Female_WT_rep1
COUNTS_E12.5.txt

value: WT, XX


title: MiRC1 Mutant, male,E12.5 , gonad, replicate 3, RNA-seq

description:
MirC1_12.5_Male_mut_rep3
COUNTS_E12.5.txt


title: WT, male ,E12.5, gonad, replicate 1, RNA-seq

description:
MirC1_12.5_Male_WT_rep1
COUNTS_E12.5.txt


title: MiRC1 Mutant, male,E12.5 , gonad, replicate 1, RNA-seq

description:
MirC1_12.5_Male_mut_rep1
COUNTS_E12.5.txt


title: WT, female, E12.5 , gonad, replicate 3, RNA-seq

description:
MirC1_12.5_Female_WT_rep3
COUNTS_E12.5.txt


title: WT, male, E12.5 , gonad, replicate 2, RNA-seq

description:
MirC1_12.5_Male_WT_rep2
COUNTS_E12.5.txt


title: MiRC1 Mutant, female,E12.5 , gonad, replicate 3, RNA-seq

description:
MirC1_12.5_Female_mut_rep3
COUNTS_E12.5.txt

value: mutant, XX


title: MiRC1 Mutant, female,E12.5 , gonad, replicate 1, RNA-seq

description:
MirC1_12.5_Female_mut_rep1
COUNTS_E12.5.txt


title: MiRC1 Mutant, female,E12.5 , gonad, replicate 2, RNA-seq

description:
MirC1_12.5_Female_mut_rep2
COUNTS_E12.5.txt


title: WT, male ,E11.5, gonad, replicate 1, RNA-seq

description:
MirC1_11.5_Male_WT_rep1
COUNTS_E11.5.txt


title: WT, male, E11.5 , gonad, replicate 3, RNA-seq

description:
MirC1_11.5_Male_WT_rep3
COUNTS_E11.5.txt


title: WTS3


title: MiRC1 Mutant, male,E11.5 , gonad, replicate 3, RNA-seq

description:
MirC1_11.5_Male_mut_rep3
COUNTS_E11.5.txt


title: WT, female, E11.5 , gonad, replicate 2, RNA-seq

description:
MirC1_11.5_Female_WT_rep2
COUNTS_E11.5.txt


title: MiRC1 Mutant, male,E11.5 , gonad, replicate 2, RNA-seq

description:
MirC1_11.5_Male_mut_rep2
COUNTS_E11.5.txt


title: WTS2


title: WT, female, E11.5 , gonad, replicate 3, RNA-seq

description:
MirC1_11.5_Female_WT_rep3
COUNTS_E11.5.txt


title: MiRC1 Mutant, female,E11.5 , gonad, replicate 3, RNA-seq

description:
MirC1_11.5_Female_mut_rep3
COUNTS_E11.5.txt


title: MiRC1 Mutant, female,E11.5 , gonad, replicate 1, RNA-seq

description:
MirC1_11.5_Female_mut_rep1
COUNTS_E11.5.txt


title: MiRC1 Mutant, male,E11.5 , gonad, replicate 1, RNA-seq

description:
MirC1_11.5_Male_mut_rep1
COUNTS_E11.5.txt


title: WT, female ,E11.5, gonad, replicate 1, RNA-seq

description:
MirC1_11.5_Female_WT_rep1
COUNTS_E11.5.txt


title: Foxl2 UTR mutant,E12.5 gonad, replicate 1, RNA-seq

description:
Foxl2-gonad_rep1_12.5
COUNTS_Foxl2_MC_12.5.txt


title: MiRC1 Mutant, female,E11.5 , gonad, replicate 2, RNA-seq

description:
MirC1_11.5_Female_mut_rep2
COUNTS_E11.5.txt


title: Foxl2 UTR mutant,E12.5 gonad, replicate 2, RNA-seq

description:
Foxl2-gonad_rep2_12.5
COUNTS_Foxl2_MC_12.5.txt


title: Foxl2 UTR mutant,E12.5 gonad, replicate 3, RNA-seq

description:
Foxl2-gonad_rep3_12.5
COUNTS_Foxl2_MC_12.5.txt


title: WT, female, E12.5 , gonad, replicate 2, RNA-seq

description:
MirC1_12.5_Female_WT_rep2
COUNTS_E12.5.txt


title: Foxl2 UTR mutant,E12.5 eye, replicate 3, RNA-seq

description:
Foxl2-eye_rep3_12.5
COUNTS_Foxl2_MC_12.5.txt

source_name: eye tissue

value: eye tissue


title: Foxl2 UTR mutant,E12.5 eye, replicate 1, RNA-seq

description:
Foxl2-eye_rep1_12.5
COUNTS_Foxl2_MC_12.5.txt


title: Foxl2 UTR mutant,E12.5 eye, replicate 2, RNA-seq

description:
Foxl2-eye_rep2_12.5
COUNTS_Foxl2_MC_12.5.txt


title: WT, male, E11.5 , gonad, replicate 2, RNA-seq

description:
MirC1_11.5_Male_WT_rep2
COUNTS_E11.5.txt


title: Thy_DN3_aTCF1_CnR_rep1

city: Pasadena

first: Boyoung

last: Shin

state: CA

address: 1200 E. California Blvd

institute: California Institute of Technology

description: Rabbit anti-TCF1 (CST 2203, CST 2206, ab30961)

data_processing:
Fastq files were aligned to the mouse reference genome GRCm38/mm10 using Bowtie2 (v3.5.1)
Mitochondrial reads using Samtools (v.1.9)
Reproducible peak calling was performed using a HOMER (v.4.11.1) adaptation of the Irreproducibility Discovery Rate (IDR) tool according to ENCODE guideline
Assembly: GRCm38/mm10
Supplementary files format and content: peak file (txt) for C&R and ChIP-seq

source_name: thymus

growth_protocol:
For pro-T cells obtained from OP9-Dll1 culture, Multipotent bone marrow progenitor cells were cultured with OP9-Dll1 cells in  OP9 medium (20% FBS, 2mM glutamine, 100 IU/ml penicillin, 100 mg/ml streptomycin, and 50 µM β-ME in α-MEM).   Cells were supplemented with  IL-7, Flt3-ligand  (10 ng/ml each) under 37 °C, 7% CO2 environment.
For Scid.adhd.2c2 (P2C2) cells, cells were maintained  in  P2C2 medium(10%  FBS, 2 mM glutamine, 100 IU/mL penicillin, 100 ug/mL streptomycin, 0.1 mM sodium pyruvate, non-essential amino acids, and 50 uM b-mercaptoethanol in RPMI1640) under 37 °C, 5% CO2 environment.

extract_protocol:
DNA was isolated using phenol-chloroform-isoamyl alcohol after CUT&RUN.  Zymo ChIP DNA Clean & Concentrator was used to clean eluted DNA after ChIP.
Sequencing libraries were constructed using NEBNext ChIP-Seq Library Preparation Kit
CUT&RUN and ChIP-seq

treatment_protocol: For delivering retroviral vectors, bone-marrow progenitor cells were co-cultured with OP9-Dll1 for 2 days, then viral supernatant were supplemented with 8 ug/ml polybrene and centrifuged for 2 hours at 500g at 32'C

value: thymus

value: Thymic T progenitor cells after T-lineage commitment (cKit-CD44- CD25+ DN3)

value: wild-type


title: Phase1 pro-T cells, mRNA-derived cDNA exp1

description: 3' mRNA library: read1 file contains cell barcode and UMI; read2 file contains transcript

library_source: transcriptomic single cell

data_processing:
Single-cell RNA-seq data were processed using 10X Cellranger 3.0.0 software. Standard cellranger-mm10-3.0.0 reference annotations were loaded to the pipeline for read mapping and gene quantification.
For hashtag data, Read 1 includes cell barcode and UMI; read 2 includes HTO (cell hashing) sequences. Valid cell barcodes identified in CellRanger pipeline from cDNA library data were used as cell IDs, and the HTO sequences were mapped to a 15 bases reference HTO list from in house hashtag_tool v1, count was quantified by UMI.
Assembly: GRCm38/mm10
Supplementary files format and content: Tab separated txt and tsv table files and matrix files

source_name: bone-marrow

growth_protocol: For pro-T cells obtained from OP9-Dll1 culture, Multipotent bone marrow progenitor cells were cultured with OP9-Dll1 cells in  OP9 medium (20% FBS, 2mM glutamine, 100 IU/ml penicillin, 100 mg/ml streptomycin, and 50 µM β-ME in α-MEM).   Cells were supplemented with  IL-7, Flt3-ligand  (10 ng/ml each) under 37 °C, 7% CO2 environment.

extract_protocol:
single cell droplet RNA-seq library preparation was performed with 10x Chromium v3
Multiple samples were stained for surface markers and barcoded cell hashing antibodies separately.

value: bone-marrow

value: BM progenitor-derived T  progenitor cells (DNs) in Phase1 (cKit high)

value: Bcl2 transgenic

value: Cultured on OP9-Dll1 with IL-7 and Flt3l for total 4-5 days. MSCV vector or E42 gRNA expressing vectors were delivered on day 2.


title: Thy_DN3_aIgG_CnR_rep2

description: guinea pig anti-IgG antibody (Antibodies-Online, ABIN101961)


title: Thy_DN3_aRunx1_CnR_rep2

description: Rabbit anti-Runx1 (ab23980)


title: Thy_DN3_aIgG_CnR_rep1


title: Thy_DN3_aRunx3_CnR_rep1

description: Rabbit anti-Runx3 (provided from Dr. Levanon and Dr. Groner, Levanon et al., 2014)


title: IP_WRKY11-Del-OID_GFP_rep2

city: Beijing

first: xinjian

last: He

address: No. 7, zhongguancun life science park road, changping district

institute: National Institute of Biological Sciences

data_processing:
Basecalling performed using bcl2fastq.
The clean reads were aligned to Arabidopsis genome (TAIR10) using Bowtie2.
ChIP-enriched peaks were called uing MACS2.
Assembly: TAIR10
Supplementary files format and content: bigWig files were generated using bamCoverage.

source_name: Arabidopsis seedlings

growth_protocol: The Arabidopsis seedlings were grown on MS (Murashige and Skoog) medium plates with a 16 h light/8 h dark photoperiod at 22°C.

extract_protocol:
Arabidopsis seedlings were corss-linked by 1% formaldehyde. Chromatin were clarified from sonicated nuclei and were isolated with GFP antibodies.
Libraries were built for ChIP-seq (Illumina Novaseq 6000; 150-bp pair-end sequencing)

value: Arabidopsis seedlings


title: Thy_DN3_aRunx1_CnR_rep1

description: Rabbit anti-Runx1 (ab23980)


title: IP_WRKY11-Del-OID_GFP_rep1


title: IP_WRKY11_GFP_rep1


title: IP_WRKY11_GFP_rep2


title: IP_OBE1_GFP_rep1


title: wrky-qm_15_hz_rep3

data_processing:
Basecalling performed using bcl2fastq.
The clean reads were aligned to the Arabidopsis genome (TAIR10) using hisat2.
The expression of genes were obtained with the R package edgeR.
Assembly: TAIR10
Supplementary files format and content: Tab-delimited text file include normalized reads for each sample.

growth_protocol: Arabidopsis seedlings were grown on MS (Murashige and Skoog) medium plates for 11 days, under a 16 h light/8 h dark photoperiod at 22°C.

extract_protocol:
Total RNA was extracted from 11-day-old Arabidopsis plants with TRIzol reagent (Invitrogen).
Sequencing libraries were built for RNA-seq (Illumina Novaseq 6000; 150-bp pair-end sequencing).

tag: ecotype


title: input_OBE1_GFP


title: wrky-qm_15_hz_rep1


title: input_WRKY11_GFP


title: Col-0_2_rep3

value: wild type


title: wrky-qm_15_hz_rep2


title: IP_OBE1_GFP_rep2


title: obe1-2_rep1


title: obe1-2_rep2


title: Col-0_2_rep1


title: wrky-qm_rep3


title: Col-0_2_rep2


title: wrky-qm_rep2


title: wrky-qm_rep1


title: Phase1 pro-T cells, Hash Tag Oligo (HTO)-derived exp1

description: Cell Hashing library: read1 file contains cell barcode and UMI; read2 file contains Hashtag Antibody Derived Tag reads

tag: cell line


title: Col-0_1_rep3

tag: cell type


title: Thy_DN3_aRunx3_CnR_rep2

tag: treatment


title: Col-0_1_rep1


title: Col-0_1_rep2


title: obe1-2_rep3


title: Sample 737 Normal_2_1_11_8

first: Xinyan

last: Yang

address: No.1023,South Shatai Road, Baiyun District

department: Developmental Biology

institute: Southern Medical University

data_processing:
library strategy: single-cell chromatin overall omic-scale landscape sequencing (scCOOL-seq)
Illumina CASAVA version 1.8 were used to the basecalling.
For RNA part, we used specific cell barcode (8 bp) in read 2 to separate single cell R2 reads and used read ID to extract the corresponding R1 reads. Template switch oligo (TSO) sequence, low quality bases and ployA tails were then removed. The clean R1 reads were mapped to human reference genome hg38 (downloaded from UCSC genome browser) with Hisat2 (v2.1.0) in single-end module with default settings. HTSeq package (v0.6.1) was used to count uniquely mapped reads and cell-specific barcodes were used to group the uniquely mapped reads. Finally, distinct UMIs for each gene were counted as the transcript copy number and normalized to TPM value. Gene expression level was shown as log2 (TPM/10+1).
For DNA part, we used Trim_galore (v 0.3.3) and Cutadapt (v 1.2.1) to remove adaptor sequence, low quality bases and 6 bp random primers in raw data. The clean reads were mapped to human reference genome hg38 using Bismark (v0.7.6) in paired-end and non_directional module. Due to a large number of chimeric reads generated during post-bisulfite adaptor tagging (PBAT) library construction, the unmapped read 1 and read 2 were realigned in single-end and non_directional module separately to rescue more reads. SAMtools (v0.1.18) was used to remove duplicate reads, only uniquely mapped reads were used for downstream analysis. Cytosines in WCG (W = A/T) context were used to reflect DNA methylation level, while those in GCH (H = A/C/T) context were used to reflect chromatin accessibility.
Assembly: hg38
Supplementary files format and content: text file
Supplementary files format and content: WCG.txt and GCH.txt files include the read counts of cytosines in WCG and GCH context respectively. The columns in WCG.txt or GCH.txt files represent "chr" "position" "unmethylated read counts" "methylated read counts".

source_name: testis

extract_protocol:
Here we performed single-cell multi-omics libraries referring to the methods of STRT-seq and scCOOL-seq. A mouth pipette was used to randomly pick human testicular cells and transferred into the 2.5 μl cell lysis buffer containing 4 U RNase inhibitor (Takara, Cat. 2313B), 0.25% IGEPAL CA-630 (Sigma, Cat. I3021), and in vitro methylation mix (1× GC reaction buffer, 160 μM S-adenosylmethionine and 2 U M.CviPI (NEB, Cat. M0227L). After gently vortexed for about 15 seconds, the lysate was incubated at 37°C for 20 mins and then at 65°C for 25 mins. To isolate DNA and RNA of the single cells, a 3 μl nuclear separation mixture containing 0.2 µl of Dynabeads Myone Carboxylic Acid (Invitrogen, Cat. 65011), 0.2% Tween-20 (Sigma, Cat. P1379), 1% Triton X-100 (Sigma, Cat. T8787), 4 U RNase inhibitor, 50 mM DTT and 2 µl of 5× Superscript II first-strand buffer (Invitrogen, Cat. 18064071), was added to above 2.5 μl cell lysis. The tube was placed on the magnet after mixing by vortexing and brief centrifugation. The nuclei (DNA) wrapped with magnetic beads and the cytoplasm in the supernatant were separated for subsequent use.
For RNA part, the preparation of single cell RNA-seq library was performed using the STRT-seq. Briefly, the above separated supernatant was transferred into the 4.5 μl reverse transcription (RT) mix containing 100 U SuperScript II reverse transcriptase (Invitrogen, Cat. 18064071), 4 U RNase inhibitor, 1 mM dNTPs (Takara, Cat. 4019), 60 mM MgCl2, 3 µM 8-bp barcode primer and 10 µM TSO primer, followed by incubation at 25°C for 5 min, 42°C for 60 min, 50°C for 30 min and 70°C for 10 min. The cDNA amplification and purification by 0.8× AMPure XP beads (Beckman, Cat. A63882) was then performed. Biotin PCR was further carried out and enriched. Finally, the single cell RNA-seq library was prepared according to the KAPA Hyper Prep Kits with PCR Library Amplication/Illumina series (KAPA, KK8054). The libraries were checked and sequenced with 150 bp pair-end reads on Illumina Hiseq 4000 (Novogene). For DNA part, the magnetic beads containing cell nuclei (DNA) were treated with 5 µl of protein lysis buffer consist of 2.5 µl M-digestion buffer (Zymo Research, Cat. D5044) and 0.5 µl of protease K (NEB, Cat. P8107S). The single cell DNA libraries were then constructed according to scCOOL-seq protocol with minor modifications. In brief, the bisulfite conversion was conducted by EZ-96 DNA Methylation-Direct MagPrep kit (Zymo Research, Cat. D5044). Four rounds of amplification were performed with Klenow exo- (ENzymics, Cat. NG202) and scBS-seq-P5-N6-oligo1 (CTACACGACGCTCTTCCGATCTNNNNNN). After purified by 0.8× AMPure XP beads, the products were used to synthesize the second strand using scBS-seq-P7-N6-oligo2 (AGACGTGTGCTCTTCCGATCTNNNNN). Finally, 16 cycles of PCR program were performed to complete the DNA library construction incorporated universal primers and index primers (New England Biolabs), followed by purification twice with 0.8× AMPure XP beads. The DNA libraries were pooled together and sequenced with 150 bp pair-end reads on Illumina Hiseq 4000 (Novogene).

value: testis

value: male

tag: condition

value: Normal


title: Sample 747 Normal_2_1_3_6


title: Sample 750 Normal_2_1_5_8


title: Sample 733 Normal_2_1_11_2


title: Sample 735 Normal_2_1_11_5


title: Sample 729 Normal_2_1_10_4


title: Sample 745 Normal_2_1_3_2


title: Sample 739 Normal_2_1_12_2


title: Sample 749 Normal_2_1_5_1


title: Sample 743 Normal_2_1_2_3


title: Sample 731 Normal_2_1_10_7


title: Sample 732 Normal_2_1_10_8


title: Sample 742 Normal_2_1_2_2


title: Sample 736 Normal_2_1_11_6


title: Sample 738 Normal_2_1_12_1


title: Sample 746 Normal_2_1_3_4


title: Sample 748 Normal_2_1_4_5


title: Sample 741 Normal_2_1_12_8


title: Sample 734 Normal_2_1_11_3


title: Sample 740 Normal_2_1_12_7


title: Sample 744 Normal_2_1_2_5


title: Sample 724 Normal_1_7_3_2


title: Sample 727 Normal_2_1_10_1


title: Sample 725 Normal_1_7_3_4


title: Sample 723 Normal_1_7_2_6


title: Sample 722 Normal_1_7_2_1


title: Sample 721 Normal_1_6_9_8


title: Sample 730 Normal_2_1_10_6


title: Sample 728 Normal_2_1_10_2


title: Sample 726 Normal_1_7_3_8


title: Sample 719 Normal_1_6_9_5


title: Sample 720 Normal_1_6_9_7


title: Sample 717 Normal_1_6_8_5


title: Sample 716 Normal_1_6_8_4


title: Sample 715 Normal_1_6_8_3


title: Sample 707 Normal_1_6_6_7


title: Sample 703 Normal_1_6_6_2


title: Sample 708 Normal_1_6_7_2


title: Sample 704 Normal_1_6_6_3


title: Sample 706 Normal_1_6_6_6


title: Sample 712 Normal_1_6_7_7


title: Sample 710 Normal_1_6_7_5


title: Sample 709 Normal_1_6_7_4


title: Sample 713 Normal_1_6_7_8


title: Sample 711 Normal_1_6_7_6


title: Sample 700 Normal_1_6_5_7


title: Sample 699 Normal_1_6_5_6


title: Sample 705 Normal_1_6_6_4


title: Sample 702 Normal_1_6_6_1


title: Sample 695 Normal_1_6_4_7


title: Sample 696 Normal_1_6_4_8


title: Sample 697 Normal_1_6_5_1


title: Sample 694 Normal_1_6_4_6


title: Sample 693 Normal_1_6_4_5


title: Sample 692 Normal_1_6_4_2


title: Sample 691 Normal_1_6_4_1


title: Sample 714 Normal_1_6_8_2


title: Sample 701 Normal_1_6_5_8


title: Sample 689 Normal_1_6_3_7


title: Sample 688 Normal_1_6_3_6


title: Sample 687 Normal_1_6_3_5


title: Sample 686 Normal_1_6_3_3


title: Sample 698 Normal_1_6_5_5


title: Sample 679 Normal_1_6_2_3


title: Sample 680 Normal_1_6_2_4


title: Sample 683 Normal_1_6_2_7


title: Sample 681 Normal_1_6_2_5


title: Sample 676 Normal_1_6_12_8


title: Sample 678 Normal_1_6_2_2


title: Sample 675 Normal_1_6_12_7


title: Sample 672 Normal_1_6_12_4


title: Sample 684 Normal_1_6_3_1


title: Sample 670 Normal_1_6_11_6


title: Sample 674 Normal_1_6_12_6


title: Sample 669 Normal_1_6_11_5


title: Sample 682 Normal_1_6_2_6


title: Sample 673 Normal_1_6_12_5


title: Sample 667 Normal_1_6_11_2


title: Sample 666 Normal_1_6_11_1


title: Sample 665 Normal_1_6_10_8


title: Sample 668 Normal_1_6_11_3


title: Sample 663 Normal_1_6_10_6


title: Sample 664 Normal_1_6_10_7


title: Sample 671 Normal_1_6_11_7


title: Sample 677 Normal_1_6_2_1


title: Sample 690 Normal_1_6_3_8


title: Sample 685 Normal_1_6_3_2


title: Sample 660 Normal_1_6_10_3


title: Sample 657 Normal_1_6_1_8


title: Sample 662 Normal_1_6_10_5


title: Sample 654 Normal_1_6_1_5


title: Sample 652 Normal_1_6_1_3


title: Sample 651 Normal_1_6_1_2


title: Sample 658 Normal_1_6_10_1


title: Sample 655 Normal_1_6_1_6


title: Sample 661 Normal_1_6_10_4


title: Sample 653 Normal_1_6_1_4


title: Sample 649 Normal_1_5_9_8


title: Sample 656 Normal_1_6_1_7


title: Sample 646 Normal_1_5_9_4


title: Sample 645 Normal_1_5_9_2


title: Sample 643 Normal_1_5_8_6


title: Sample 639 Normal_1_5_7_8


title: Sample 659 Normal_1_6_10_2


title: Sample 640 Normal_1_5_8_2


title: Sample 642 Normal_1_5_8_4


title: Sample 718 Normal_1_6_8_6


title: Sample 641 Normal_1_5_8_3


title: Sample 637 Normal_1_5_7_5


title: Sample 635 Normal_1_5_7_2


title: Sample 638 Normal_1_5_7_6


title: Sample 636 Normal_1_5_7_4


title: Sample 650 Normal_1_6_1_1


title: Sample 633 Normal_1_5_6_5


title: Sample 634 Normal_1_5_7_1


title: Sample 647 Normal_1_5_9_6


title: Sample 631 Normal_1_5_6_3


title: Sample 632 Normal_1_5_6_4


title: Sample 630 Normal_1_5_6_2


title: Sample 627 Normal_1_5_5_6


title: Sample 648 Normal_1_5_9_7


title: Sample 628 Normal_1_5_5_7


title: Sample 626 Normal_1_5_5_4


title: Sample 624 Normal_1_5_5_1


title: Sample 625 Normal_1_5_5_3


title: Sample 644 Normal_1_5_9_1


title: Sample 623 Normal_1_5_4_8


title: Sample 622 Normal_1_5_4_7


title: Sample 621 Normal_1_5_4_6


title: Sample 619 Normal_1_5_4_2


title: Sample 620 Normal_1_5_4_5


title: Sample 617 Normal_1_5_3_6


title: Sample 618 Normal_1_5_3_8


title: Sample 614 Normal_1_5_3_3


title: Sample 612 Normal_1_5_2_7


title: Sample 616 Normal_1_5_3_5


title: Sample 611 Normal_1_5_2_6


title: Sample 609 Normal_1_5_2_3


title: Sample 615 Normal_1_5_3_4


title: Sample 610 Normal_1_5_2_4


title: Sample 613 Normal_1_5_3_1


title: Sample 629 Normal_1_5_5_8


title: Sample 608 Normal_1_5_2_2


title: Sample 607 Normal_1_5_12_8


title: Sample 596 Normal_1_5_11_2


title: Sample 592 Normal_1_5_10_6


title: Sample 589 Normal_1_5_10_1


title: Sample 604 Normal_1_5_12_4


title: Sample 602 Normal_1_5_12_1


title: Sample 597 Normal_1_5_11_3


title: Sample 605 Normal_1_5_12_6


title: Sample 601 Normal_1_5_11_7


title: Sample 599 Normal_1_5_11_5


title: Sample 600 Normal_1_5_11_6


title: Sample 591 Normal_1_5_10_3


title: Sample 585 Normal_1_4_9_4


title: Sample 587 Normal_1_4_9_7


title: Sample 586 Normal_1_4_9_6


title: Sample 582 Normal_1_4_7_8


title: Sample 584 Normal_1_4_9_3


title: Sample 588 Normal_1_4_9_8


title: Sample 583 Normal_1_4_9_2


title: Sample 595 Normal_1_5_11_1


title: Sample 581 Normal_1_4_7_7


title: Sample 606 Normal_1_5_12_7


title: Sample 598 Normal_1_5_11_4


title: Sample 580 Normal_1_4_7_6


title: Sample 603 Normal_1_5_12_2


title: Sample 579 Normal_1_4_7_5


title: Sample 578 Normal_1_4_7_4


title: Sample 593 Normal_1_5_10_7


title: Sample 594 Normal_1_5_10_8


title: Sample 590 Normal_1_5_10_2


title: Sample 577 Normal_1_4_7_3


title: Sample 575 Normal_1_4_7_1


title: Sample 576 Normal_1_4_7_2


title: Sample 573 Normal_1_4_6_7


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title: Sample 574 Normal_1_4_6_8


title: Sample 569 Normal_1_4_5_8


title: Sample 570 Normal_1_4_6_2


title: Sample 552 Normal_1_4_3_2


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title: Sample 557 Normal_1_4_3_8


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title: Sample 567 Normal_1_4_5_6


title: Sample 553 Normal_1_4_3_3


title: Sample 562 Normal_1_4_4_7


title: Sample 554 Normal_1_4_3_4


title: Sample 563 Normal_1_4_5_1


title: Sample 556 Normal_1_4_3_7


title: Sample 559 Normal_1_4_4_4


title: Sample 568 Normal_1_4_5_7


title: Sample 566 Normal_1_4_5_5


title: Sample 564 Normal_1_4_5_2


title: Sample 561 Normal_1_4_4_6


title: Sample 558 Normal_1_4_4_1


title: Sample 551 Normal_1_4_3_1


title: Sample 550 Normal_1_4_2_8


title: Sample 548 Normal_1_4_2_5


title: Sample 555 Normal_1_4_3_6


title: Sample 547 Normal_1_4_2_3


title: Sample 546 Normal_1_4_2_1


title: Sample 544 Normal_1_4_12_5


title: Sample 541 Normal_1_4_11_8


title: Sample 540 Normal_1_4_11_7


title: Sample 539 Normal_1_4_11_6


title: Sample 538 Normal_1_4_11_5


title: Sample 535 Normal_1_4_10_7


title: Sample 527 Normal_1_4_1_5


title: Sample 522 Normal_1_3_9_7


title: Sample 534 Normal_1_4_10_5


title: Sample 532 Normal_1_4_10_3


title: Sample 549 Normal_1_4_2_6


title: Sample 523 Normal_1_3_9_8


title: Sample 529 Normal_1_4_1_8


title: Sample 526 Normal_1_4_1_4


title: Sample 531 Normal_1_4_10_2


title: Sample 537 Normal_1_4_11_4


title: Sample 533 Normal_1_4_10_4


title: Sample 528 Normal_1_4_1_7


title: Sample 524 Normal_1_4_1_1


title: Sample 536 Normal_1_4_10_8


title: Sample 521 Normal_1_3_9_6


title: Sample 545 Normal_1_4_12_8


title: Sample 543 Normal_1_4_12_3


title: Sample 542 Normal_1_4_12_2


title: Sample 520 Normal_1_3_9_5


title: Sample 519 Normal_1_3_9_3


title: Sample 517 Normal_1_3_8_8


title: Sample 518 Normal_1_3_9_1


title: Sample 530 Normal_1_4_10_1


title: Sample 515 Normal_1_3_8_5


title: Sample 516 Normal_1_3_8_6


title: Sample 513 Normal_1_3_8_1


title: Sample 525 Normal_1_4_1_2


title: Sample 512 Normal_1_3_7_8


title: Sample 510 Normal_1_3_7_5


title: Sample 506 Normal_1_3_6_8


title: Sample 505 Normal_1_3_6_7


title: Sample 507 Normal_1_3_7_1


title: Sample 508 Normal_1_3_7_2


title: Sample 511 Normal_1_3_7_6


title: Sample 502 Normal_1_3_6_4


title: Sample 509 Normal_1_3_7_4


title: Sample 503 Normal_1_3_6_5


title: Sample 498 Normal_1_3_5_5


title: Sample 495 Normal_1_3_5_2


title: Sample 500 Normal_1_3_6_1


title: Sample 501 Normal_1_3_6_3


title: Sample 499 Normal_1_3_5_8


title: Sample 504 Normal_1_3_6_6


title: Sample 493 Normal_1_3_4_7


title: Sample 494 Normal_1_3_5_1


title: Sample 496 Normal_1_3_5_3


title: Sample 492 Normal_1_3_4_5


title: Sample 489 Normal_1_3_4_2


title: Sample 491 Normal_1_3_4_4


title: Sample 488 Normal_1_3_4_1


title: Sample 487 Normal_1_3_3_5


title: Sample 514 Normal_1_3_8_3


title: Sample 485 Normal_1_3_3_1


title: Sample 482 Normal_1_3_2_3


title: Sample 483 Normal_1_3_2_6


title: Sample 481 Normal_1_3_2_2


title: Sample 477 Normal_1_3_12_6


title: Sample 478 Normal_1_3_12_7


title: Sample 475 Normal_1_3_12_4


title: Sample 479 Normal_1_3_12_8


title: Sample 474 Normal_1_3_12_3


title: Sample 469 Normal_1_3_11_3


title: Sample 480 Normal_1_3_2_1


title: Sample 468 Normal_1_3_11_2


title: Sample 466 Normal_1_3_10_7


title: Sample 467 Normal_1_3_11_1


title: Sample 473 Normal_1_3_12_1


title: Sample 476 Normal_1_3_12_5


title: Sample 470 Normal_1_3_11_5


title: Sample 486 Normal_1_3_3_2


title: Sample 465 Normal_1_3_10_4


title: Sample 472 Normal_1_3_11_8


title: Sample 490 Normal_1_3_4_3


title: Sample 463 Normal_1_3_10_2


title: Sample 464 Normal_1_3_10_3


title: Sample 461 Normal_1_3_1_8


title: Sample 458 Normal_1_3_1_5


title: Sample 484 Normal_1_3_2_7


title: Sample 460 Normal_1_3_1_7


title: Sample 457 Normal_1_3_1_4


title: Sample 456 Normal_1_3_1_3


title: Sample 471 Normal_1_3_11_6


title: Sample 455 Normal_1_3_1_2


title: Sample 462 Normal_1_3_10_1


title: Sample 452 Normal_1_2_9_5


title: Sample 453 Normal_1_2_9_6


title: Sample 450 Normal_1_2_9_3


title: Sample 443 Normal_1_2_8_3


title: Sample 446 Normal_1_2_8_6


title: Sample 439 Normal_1_2_7_7


title: Sample 445 Normal_1_2_8_5


title: Sample 437 Normal_1_2_7_5


title: Sample 438 Normal_1_2_7_6


title: Sample 442 Normal_1_2_8_2


title: Sample 448 Normal_1_2_8_8


title: Sample 435 Normal_1_2_7_3


title: Sample 449 Normal_1_2_9_2


title: Sample 447 Normal_1_2_8_7


title: Sample 436 Normal_1_2_7_4


title: Sample 441 Normal_1_2_8_1


title: Sample 440 Normal_1_2_7_8


title: Sample 444 Normal_1_2_8_4


title: Sample 432 Normal_1_2_6_7


title: Sample 434 Normal_1_2_7_2


title: Sample 430 Normal_1_2_6_5


title: Sample 433 Normal_1_2_6_8


title: Sample 454 Normal_1_3_1_1


title: Sample 429 Normal_1_2_6_4


title: Sample 428 Normal_1_2_6_3


title: Sample 427 Normal_1_2_6_2


title: Sample 426 Normal_1_2_6_1


title: Sample 425 Normal_1_2_5_7


title: Sample 419 Normal_1_2_4_3


title: Sample 418 Normal_1_2_4_1


title: Sample 416 Normal_1_2_3_6


title: Sample 415 Normal_1_2_3_5


title: Sample 417 Normal_1_2_3_8


title: Sample 409 Normal_1_2_12_8


title: Sample 410 Normal_1_2_2_1


title: Sample 408 Normal_1_2_12_7


title: Sample 431 Normal_1_2_6_6


title: Sample 422 Normal_1_2_5_4


title: Sample 420 Normal_1_2_5_2


title: Sample 412 Normal_1_2_3_1


title: Sample 421 Normal_1_2_5_3


title: Sample 406 Normal_1_2_12_5


title: Sample 414 Normal_1_2_3_4


title: Sample 411 Normal_1_2_2_4


title: Sample 413 Normal_1_2_3_3


title: Sample 407 Normal_1_2_12_6


title: Sample 403 Normal_1_2_12_1


title: Sample 404 Normal_1_2_12_3


title: Sample 405 Normal_1_2_12_4


title: Sample 400 Normal_1_2_11_6


title: Sample 401 Normal_1_2_11_7


title: Sample 402 Normal_1_2_11_8


title: Sample 399 Normal_1_2_11_5


title: Sample 424 Normal_1_2_5_6


title: Sample 459 Normal_1_3_1_6


title: Sample 423 Normal_1_2_5_5


title: Sample 387 Normal_1_1_9_8


title: Sample 397 Normal_1_2_11_3


title: Sample 396 Normal_1_2_11_2


title: Sample 390 Normal_1_2_10_3


title: Sample 393 Normal_1_2_10_7


title: Sample 388 Normal_1_2_10_1


title: Sample 383 Normal_1_1_9_4


title: Sample 385 Normal_1_1_9_6


title: Sample 395 Normal_1_2_11_1


title: Sample 391 Normal_1_2_10_4


title: Sample 392 Normal_1_2_10_5


title: Sample 398 Normal_1_2_11_4


title: Sample 382 Normal_1_1_9_3


title: Sample 389 Normal_1_2_10_2


title: Sample 380 Normal_1_1_9_1


title: Sample 386 Normal_1_1_9_7


title: Sample 378 Normal_1_1_8_1


title: Sample 384 Normal_1_1_9_5


title: Sample 379 Normal_1_1_8_2


title: Sample 381 Normal_1_1_9_2


title: Sample 377 Normal_1_1_7_8


title: Sample 376 Normal_1_1_7_7


title: Sample 375 Normal_1_1_7_6


title: Sample 374 Normal_1_1_7_5


title: Sample 373 Normal_1_1_7_4


title: Sample 372 Normal_1_1_7_3


title: Sample 371 Normal_1_1_7_1


title: Sample 394 Normal_1_2_10_8


title: Sample 370 Normal_1_1_6_8


title: Sample 367 Normal_1_1_6_4


title: Sample 365 Normal_1_1_5_6


title: Sample 369 Normal_1_1_6_7


title: Sample 368 Normal_1_1_6_6


title: Sample 364 Normal_1_1_5_5


title: Sample 355 Normal_1_1_3_8


title: Sample 360 Normal_1_1_4_8


title: Sample 356 Normal_1_1_4_1


title: Sample 358 Normal_1_1_4_3


title: Sample 354 Normal_1_1_3_5


title: Sample 362 Normal_1_1_5_3


title: Sample 359 Normal_1_1_4_4


title: Sample 363 Normal_1_1_5_4


title: Sample 357 Normal_1_1_4_2


title: Sample 352 Normal_1_1_3_1


title: Sample 351 Normal_1_1_2_7


title: Sample 349 Normal_1_1_2_2


title: Sample 347 Normal_1_1_11_7


title: Sample 348 Normal_1_1_12_2


title: Sample 345 Normal_1_1_11_4


title: Sample 346 Normal_1_1_11_6


title: Sample 343 Normal_1_1_11_2


title: Sample 344 Normal_1_1_11_3


title: Sample 366 Normal_1_1_6_3


title: Sample 361 Normal_1_1_5_2


title: Sample 353 Normal_1_1_3_4


title: Sample 341 Normal_1_1_10_4


title: Sample 342 Normal_1_1_10_5


title: Sample 340 Normal_1_1_10_3


title: Sample 338 NOA2_3_9_8

value: nonobstructive azoospermia (NOA)


title: Sample 339 Normal_1_1_10_1


title: Sample 335 NOA2_3_9_4


title: Sample 337 NOA2_3_9_7


title: Sample 336 NOA2_3_9_6


title: Sample 334 NOA2_3_9_3


title: Sample 350 Normal_1_1_2_6


title: Sample 331 NOA2_3_8_4


title: Sample 332 NOA2_3_8_6


title: Sample 328 NOA2_3_7_8


title: Sample 327 NOA2_3_7_7


title: Sample 330 NOA2_3_8_2


title: Sample 325 NOA2_3_7_5


title: Sample 323 NOA2_3_6_8


title: Sample 321 NOA2_3_6_5


title: Sample 322 NOA2_3_6_6


title: Sample 320 NOA2_3_6_1


title: Sample 319 NOA2_3_5_8


title: Sample 318 NOA2_3_5_7


title: Sample 317 NOA2_3_5_6


title: Sample 497 Normal_1_3_5_4


title: Sample 315 NOA2_3_5_2


title: Sample 316 NOA2_3_5_5


title: Sample 314 NOA2_3_4_8


title: Sample 333 NOA2_3_9_2


title: Sample 313 NOA2_3_4_5


title: Sample 326 NOA2_3_7_6


title: Sample 329 NOA2_3_8_1


title: Sample 309 NOA2_3_3_5


title: Sample 310 NOA2_3_3_6


title: Sample 311 NOA2_3_3_8


title: Sample 308 NOA2_3_3_2


title: Sample 324 NOA2_3_7_4


title: Sample 306 NOA2_3_2_7


title: Sample 307 NOA2_3_2_8


title: Sample 304 NOA2_3_2_1


title: Sample 305 NOA2_3_2_4


title: Sample 300 NOA2_3_11_1


title: Sample 303 NOA2_3_12_6


title: Sample 302 NOA2_3_12_1


title: Sample 299 NOA2_3_10_7


title: Sample 298 NOA2_3_10_5


title: Sample 296 NOA2_3_10_3


title: Sample 295 NOA2_3_10_2


title: Sample 294 NOA2_3_1_8


title: Sample 293 NOA2_3_1_6


title: Sample 451 Normal_1_2_9_4


title: Sample 312 NOA2_3_4_1


title: Sample 292 NOA2_3_1_5


title: Sample 291 NOA2_3_1_3


title: Sample 287 NOA2_2_8_8


title: Sample 286 NOA2_2_8_7


title: Sample 290 NOA2_3_1_2


title: Sample 285 NOA2_2_8_5


title: Sample 288 NOA2_2_9_1


title: Sample 284 NOA2_2_8_1


title: Sample 282 NOA2_2_7_7


title: Sample 281 NOA2_2_7_6


title: Sample 280 NOA2_2_7_5


title: Sample 301 NOA2_3_11_2


title: Sample 297 NOA2_3_10_4


title: Sample 274 NOA2_2_6_1


title: Sample 277 NOA2_2_6_7


title: Sample 273 NOA2_2_5_8


title: Sample 275 NOA2_2_6_3


title: Sample 279 NOA2_2_7_3


title: Sample 276 NOA2_2_6_4


title: Sample 278 NOA2_2_7_2


title: Sample 270 NOA2_2_5_4


title: Sample 269 NOA2_2_5_3


title: Sample 267 NOA2_2_5_1


title: Sample 268 NOA2_2_5_2


title: Sample 271 NOA2_2_5_6


title: Sample 265 NOA2_2_4_7


title: Sample 289 NOA2_3_1_1


title: Sample 264 NOA2_2_4_6


title: Sample 283 NOA2_2_7_8


title: Sample 262 NOA2_2_4_2


title: Sample 263 NOA2_2_4_4


title: Sample 261 NOA2_2_3_6


title: Sample 260 NOA2_2_3_5


title: Sample 258 NOA2_2_3_3


title: Sample 257 NOA2_2_3_1


title: Sample 255 NOA2_2_2_5


title: Sample 259 NOA2_2_3_4


title: Sample 256 NOA2_2_2_7


title: Sample 272 NOA2_2_5_7


title: Sample 254 NOA2_2_2_4


title: Sample 253 NOA2_2_2_1


title: Sample 251 NOA2_2_12_6


title: Sample 266 NOA2_2_4_8


title: Sample 252 NOA2_2_12_8


title: Sample 243 NOA2_2_11_4


title: Sample 245 NOA2_2_11_7


title: Sample 244 NOA2_2_11_5


title: Sample 249 NOA2_2_12_4


title: Sample 250 NOA2_2_12_5


title: Sample 247 NOA2_2_12_2


title: Sample 248 NOA2_2_12_3


title: Sample 246 NOA2_2_12_1


title: Sample 241 NOA2_2_11_1


title: Sample 242 NOA2_2_11_2


title: Sample 239 NOA2_2_10_5


title: Sample 240 NOA2_2_10_8


title: Sample 238 NOA2_2_10_4


title: Sample 236 NOA2_2_10_2


title: Sample 237 NOA2_2_10_3


title: Sample 231 NOA2_2_1_4


title: Sample 233 NOA2_2_1_6


title: Sample 232 NOA2_2_1_5


title: Sample 234 NOA2_2_1_7


title: Sample 230 NOA2_1_9_8


title: Sample 226 NOA2_1_8_5


title: Sample 225 NOA2_1_8_4


title: Sample 228 NOA2_1_9_2


title: Sample 224 NOA2_1_8_3


title: Sample 227 NOA2_1_8_8


title: Sample 222 NOA2_1_7_6


title: Sample 221 NOA2_1_7_3


title: Sample 219 NOA2_1_6_2


title: Sample 220 NOA2_1_7_2


title: Sample 214 NOA2_1_11_4


title: Sample 210 NOA2_1_10_3


title: Sample 216 NOA2_1_2_7


title: Sample 217 NOA2_1_3_2


title: Sample 209 NOA2_1_1_2


title: Sample 218 NOA2_1_5_6


title: Sample 215 NOA2_1_2_2


title: Sample 235 NOA2_2_1_8


title: Sample 212 NOA2_1_10_7


title: Sample 211 NOA2_1_10_5


title: Sample 208 NOA1_3_7_7


title: Sample 207 NOA1_3_7_6


title: Sample 229 NOA2_1_9_6


title: Sample 205 NOA1_3_7_4


title: Sample 202 NOA1_3_6_8


title: Sample 201 NOA1_3_6_7


title: Sample 203 NOA1_3_7_1


title: Sample 204 NOA1_3_7_3


title: Sample 200 NOA1_3_6_5


title: Sample 199 NOA1_3_6_4


title: Sample 196 NOA1_3_5_8


title: Sample 223 NOA2_1_8_2


title: Sample 198 NOA1_3_6_2


title: Sample 197 NOA1_3_6_1


title: Sample 213 NOA2_1_11_1


title: Sample 195 NOA1_3_5_7


title: Sample 192 NOA1_3_5_4


title: Sample 206 NOA1_3_7_5


title: Sample 191 NOA1_3_5_3


title: Sample 193 NOA1_3_5_5


title: Sample 194 NOA1_3_5_6


title: Sample 190 NOA1_3_5_2


title: Sample 189 NOA1_3_5_1


title: Sample 188 NOA1_3_4_8


title: Sample 179 NOA1_3_3_5


title: Sample 183 NOA1_3_4_2


title: Sample 184 NOA1_3_4_3


title: Sample 181 NOA1_3_3_7


title: Sample 186 NOA1_3_4_6


title: Sample 182 NOA1_3_3_8


title: Sample 180 NOA1_3_3_6


title: Sample 187 NOA1_3_4_7


title: Sample 185 NOA1_3_4_5


title: Sample 177 NOA1_3_3_3


title: Sample 178 NOA1_3_3_4


title: Sample 174 NOA1_3_2_6


title: Sample 175 NOA1_3_3_1


title: Sample 170 NOA1_3_2_2


title: Sample 172 NOA1_3_2_4


title: Sample 173 NOA1_3_2_5


title: Sample 168 NOA1_3_1_8


title: Sample 169 NOA1_3_2_1


title: Sample 167 NOA1_3_1_7


title: Sample 166 NOA1_3_1_6


title: Sample 164 NOA1_3_1_4


title: Sample 160 NOA1_2_9_7


title: Sample 161 NOA1_2_9_8


title: Sample 165 NOA1_3_1_5


title: Sample 158 NOA1_2_9_5


title: Sample 156 NOA1_2_9_3


title: Sample 155 NOA1_2_9_2


title: Sample 154 NOA1_2_9_1


title: Sample 171 NOA1_3_2_3


title: Sample 157 NOA1_2_9_4


title: Sample 153 NOA1_2_8_7


title: Sample 152 NOA1_2_8_6


title: Sample 176 NOA1_3_3_2


title: Sample 151 NOA1_2_8_3


title: Sample 146 NOA1_2_7_5


title: Sample 149 NOA1_2_7_8


title: Sample 150 NOA1_2_8_1


title: Sample 145 NOA1_2_7_3


title: Sample 148 NOA1_2_7_7


title: Sample 144 NOA1_2_7_2


title: Sample 147 NOA1_2_7_6


title: Sample 143 NOA1_2_6_8


title: Sample 141 NOA1_2_6_4


title: Sample 142 NOA1_2_6_5


title: Sample 162 NOA1_3_1_1


title: Sample 140 NOA1_2_6_3


title: Sample 138 NOA1_2_6_1


title: Sample 159 NOA1_2_9_6


title: Sample 139 NOA1_2_6_2


title: Sample 135 NOA1_2_5_5


title: Sample 134 NOA1_2_5_4


title: Sample 163 NOA1_3_1_3


title: Sample 136 NOA1_2_5_7


title: Sample 130 NOA1_2_4_7


title: Sample 129 NOA1_2_4_6


title: Sample 128 NOA1_2_4_5


title: Sample 126 NOA1_2_4_3


title: Sample 123 NOA1_2_3_7


title: Sample 125 NOA1_2_4_1


title: Sample 124 NOA1_2_3_8


title: Sample 132 NOA1_2_5_2


title: Sample 137 NOA1_2_5_8


title: Sample 131 NOA1_2_4_8


title: Sample 122 NOA1_2_3_5


title: Sample 121 NOA1_2_3_4


title: Sample 117 NOA1_2_2_7


title: Sample 116 NOA1_2_2_6


title: Sample 118 NOA1_2_3_1


title: Sample 114 NOA1_2_2_4


title: Sample 120 NOA1_2_3_3


title: Sample 127 NOA1_2_4_4


title: Sample 115 NOA1_2_2_5


title: Sample 112 NOA1_2_2_2


title: Sample 133 NOA1_2_5_3


title: Sample 109 NOA1_2_12_5


title: Sample 110 NOA1_2_12_7


title: Sample 113 NOA1_2_2_3


title: Sample 111 NOA1_2_12_8


title: Sample 108 NOA1_2_12_2


title: Sample 106 NOA1_2_11_5


title: Sample 105 NOA1_2_11_3


title: Sample 104 NOA1_2_11_2


title: Sample 119 NOA1_2_3_2


title: Sample 103 NOA1_2_11_1


title: Sample 101 NOA1_2_10_6


title: Sample 102 NOA1_2_10_8


title: Sample 100 NOA1_2_10_5


title: Sample 98 NOA1_2_10_3


title: Sample 97 NOA1_2_10_2


title: Sample 99 NOA1_2_10_4


title: Sample 94 NOA1_2_1_6


title: Sample 95 NOA1_2_1_7


title: Sample 96 NOA1_2_1_8


title: Sample 92 NOA1_2_1_3


title: Sample 91 NOA1_2_1_2


title: Sample 83 NOA1_1_8_4


title: Sample 85 NOA1_1_8_8


title: Sample 89 NOA1_1_9_7


title: Sample 86 NOA1_1_9_1


title: Sample 88 NOA1_1_9_6


title: Sample 107 NOA1_2_11_7


title: Sample 82 NOA1_1_8_3


title: Sample 87 NOA1_1_9_2


title: Sample 81 NOA1_1_7_8


title: Sample 84 NOA1_1_8_7


title: Sample 90 NOA1_1_9_8


title: Sample 80 NOA1_1_7_7


title: Sample 79 NOA1_1_7_5


title: Sample 78 NOA1_1_7_4


title: Sample 77 NOA1_1_7_3


title: Sample 76 NOA1_1_7_1


title: Sample 75 NOA1_1_6_7


title: Sample 74 NOA1_1_6_6


title: Sample 71 NOA1_1_6_1


title: Sample 73 NOA1_1_6_4


title: Sample 69 NOA1_1_4_7


title: Sample 72 NOA1_1_6_2


title: Sample 93 NOA1_2_1_4


title: Sample 70 NOA1_1_5_6


title: Sample 1435 Normal_4_7_9_8


title: Sample 1433 Normal_4_7_9_5


title: Sample 1434 Normal_4_7_9_7


title: Sample 1431 Normal_4_7_8_6


title: Sample 1432 Normal_4_7_9_1


title: Sample 1424 Normal_4_7_5_8


title: Sample 1430 Normal_4_7_8_4


title: Sample 1427 Normal_4_7_6_5


title: Sample 1421 Normal_4_7_5_4


title: Sample 1429 Normal_4_7_7_2


title: Sample 1428 Normal_4_7_6_8


title: Sample 1425 Normal_4_7_6_2


title: Sample 1426 Normal_4_7_6_3


title: Sample 1423 Normal_4_7_5_7


title: Sample 1420 Normal_4_7_4_8


title: Sample 1417 Normal_4_7_3_3


title: Sample 1415 Normal_4_7_2_8


title: Sample 1414 Normal_4_7_2_1


title: Sample 1419 Normal_4_7_4_3


title: Sample 1418 Normal_4_7_4_2


title: Sample 1413 Normal_4_7_11_5


title: Sample 1412 Normal_4_7_10_8


title: Sample 1411 Normal_4_7_10_4


title: Sample 1408 Normal_4_6_8_4


title: Sample 1416 Normal_4_7_3_1


title: Sample 1407 Normal_4_6_7_7


title: Sample 1406 Normal_4_6_7_6


title: Sample 1422 Normal_4_7_5_5


title: Sample 1405 Normal_4_6_6_5


title: Sample 1398 Normal_4_6_2_3


title: Sample 1404 Normal_4_6_6_1


title: Sample 1402 Normal_4_6_4_2


title: Sample 1401 Normal_4_6_2_7


title: Sample 1403 Normal_4_6_5_6


title: Sample 1400 Normal_4_6_2_5


title: Sample 1399 Normal_4_6_2_4


title: Sample 1396 Normal_4_6_12_3


title: Sample 1397 Normal_4_6_12_4


title: Sample 1395 Normal_4_6_11_7


title: Sample 1393 Normal_4_6_11_2


title: Sample 1392 Normal_4_6_11_1


title: Sample 1391 Normal_4_6_10_8


title: Sample 1409 Normal_4_7_1_2


title: Sample 1410 Normal_4_7_10_2


title: Sample 1390 Normal_4_6_10_5


title: Sample 1389 Normal_4_6_10_1


title: Sample 1387 Normal_4_5_9_1


title: Sample 1388 Normal_4_6_1_1


title: Sample 1386 Normal_4_5_8_6


title: Sample 1384 Normal_4_5_6_8


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