title: IP6K2-KO-duodenum

type: RNA

city: Isehara

first: Masatoshi

last: Ito

state: Kanagawa

address: 143 Shimokasuya

country: Japan

institute: Tokai University

description: Gene expression in duodenum of IP6K2-KO mouse

hyb_protocol: 600 ng of Cy3-labelled cRNA were hybridized using Gene Expression Hybridization Kit according to the manufacturer's instructions.

scan_protocol: Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2600D SG13164306) using one color scan setting for 4x44k array slides using scan protocol AgilentHD_HiSen_GX_1Color.

data_processing: The scanned images were analyzed with Feature Extraction Software 11.5.1.1 (Agilent) using default parameters (protocol GE1_1105_Oct12 and Grid: 026655_D_F_20110614) to obtain background subtracted and spatially detrended Processed Signal intensities.  Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded.

source_name: KO-duodenum

label_protocol: Cy3 labeled cRNA was prepared from 0.1 ug RNA using the One-Color Low Input Quick Amp Labeling kit (Agilent) according to the manufacturer's instructions. cRNA was quantified with the NanoDrop ND-1000 Spectrophotometer.

growth_protocol: Male IP6K2-KO and its WT littermate control mice were maintained with normal diet (CE-2, Clea Japan).

extract_protocol: Total RNA was extracted from mouse organs using Trizol reagent (Invitrogen). Gastrointestinal organs were carefully collected using RNA later solution (Thermo Fischer Scientific) and subjected to RNA extraction. The RNA content and quality were determined by NanoDrop 8000 spectrophotometer (Thermo Fischer Scientific) and the 4150 TapeStation system (Agilent Technologies), respectively. Total RNA samples with an RNA integrity number greater than 7.0 were subjected to microarray analysis.

treatment_protocol: These mice maintained with normal diet were switched to purified diet (iVid-neo, Oriental Kobo) for 1 week and subsequently fasted for 48 h before sacrifice.

tag: organ

value: duodenum

tag: gender


title: Control_23 [N32]

status: Public on Nov 19 2024

type: SRA

city: Shanghai

first: Zhang

last: Weijia

address: Dongan Road 131

country: China

institute: Fudan University

library_source: transcriptomic

data_processing:
Sequence reads were trimmed for adaptor sequence/low-quality
Trimmed sequence reads were mapped to GRCh38
Read count extraction and normalization
Assembly: GRCh38
Supplementary files format and content: tab-delimited text files include FPKM values for each Sample

molecule: total RNA

organism: Homo sapiens

source_name: Aorta

extract_protocol:
RNA of aortic tissues was harvested using TRIzol. RNA concentration was measured using Agilent 2100  Bioanalyzer. A total of 1.5 μg RNA per sample was used for the construction of sequencing libraries.
RNA libraries for RNA-seq were prepared using mRNA-Seq Library Prep Kit.

tag: tissue

value: Aorta

tag: tissue type

value: Control

tag: subject status

tag: age


title: maize_seedlings_pool34_scATAC

city: Athens

first: Robert

middle: J

last: Schmitz

state: GA

address: B416 Davison Life Sciences

department: Genetics

country: USA

institute: University of Georgia

library_source: genomic

data_processing:
FASTQ files from demultiplexed BCLs were processed with chromap and a custom barcode whitelist (depending on the Novaseq chemistry).
Chromap output BAM files were used as input for soup_or_cell to genotype cell barcodes.
Barcodes corresponding to the same genotype were aggregated in total (Merged_Genotype) or by cell type.
Chromatin accessibility scores for accessible chromatin regions were scored as counts per million and then inverse normal transformed.
Cis chromatin accessibility QTL were identified using tensorQTL
Assembly: Zea mays AGPv5
Supplementary files format and content: All_contexts.pass_FDR.cis_caQTL.rds: R data.frame object containing the results of caQTL mapping. The original matrix has been filtered to retain only caQTL meeting significance thresholds.
Supplementary files format and content: normalized_chromatin_accessibility_and_covariate_matrices.tar.gz: A directory containing the bed formatted matrices of inverse normal transformed chromatin accessibility scores across all ACRs and genotypes. One matrix per cell type. This directory includes the same number of matrices, but for covariates.
Supplementary files format and content: All_pools.socObj.raw.rds: an R object containing a sparse matrix with 500bp genome tiles as rows and cell barcodes as columns. 1 corresponds to at least 1 Tn5 insertion within the genomic window.

molecule: genomic DNA

organism: Zea mays

source_name: seedling

extract_protocol:
See doi.org/10.1016/j.xpro.2021.100737
10x Genomics scATAC-seq per manufactures instructions

value: seedling


title: IP6K2-KO-spinal cord

description: Gene expression in spinal cord of IP6K2-KO mouse

organism: Mus musculus

source_name: KO-spinal cord

value: spinal cord

value: male

tag: genotype


title: Control, biol rep 3, Hour 48

city: Ottawa

first: Arezu

last: Jahani-Asl

state: Ontario

address: 451 Smyth Road

department: Department of Cellular and Molecular Medicine

country: Canada

institute: University of Ottawa

data_processing:
RNA-seq reads were mapped to the human genome assembly (hg38) using HISAT2.
The number of aligned reads per gene was obtained with HTSeq and gene annotations were retrieved from GENCODE (Basic gene annotation, release #38).
Genes with an average read counts smaller than 10 were filtered out. Differential expression analysis was performed with DESeq2, p-values were corrected by independent hypothesis weighting. Genes with an adjusted p-value smaller than 0.1 were considered statistically differentially expressed.
Assembly: hg38
Supplementary files format and content: tab gene count files (HTSeq output).
Supplementary files format and content: CSV of gene names, adj. P-values, and LFC (DESeq output).

extract_protocol:
Total RNAs were isolated from cells using TRIzol reagent (Invitrogen) according to the manufacturer’s instructions.
Libraries for poly (A)+ RNA were prepared according to the Illumina protocol

treatment_protocol: BTSC73 were treated with vehicle control or Edaravone for 48 hours.

tag: cell line

tag: cell type

value: Brain tumour stem cells

tag: treatment

value: vehicle control (DMSO 0.1%)


title: maize_seedlings_pool38_scATAC


title: maize_seedlings_pool40_scATAC


title: Elastase-expt1-rep1

city: Columbus

first: Yan

last: Hu

state: OH

address: 575 Children’s Crossroad, RB3 6th Floor WB6271

department: Pediatrics

institute: Nationwide Children's Hospital

description:
barcodes.tsv.gz
features.tsv.gz
matrix.mtx.gz
cell_metadata.csv.gz

library_source: transcriptomic single cell

data_processing:
FASTQ files were processed and aligned to the mm10 reference genome using the cell ranger count pipeline (10X Genomics). The mm10 genome was supplemented with eGFP-SV40 and tdtomato-SV40 transgene sequences. Gene expression data were analyzed using the Seurat R package. Cells from the first experiment were filtered to only include those with >500 UMI counts, <60,000 UMI counts, >1500 genes detected, and <12.5% mitochondrial counts. Cells from the second experiment were filtered to include those with >500 UMI counts, <20,000 UMI counts, >200 genes detected, < 5000 genes detected and < 3 Mean Absolute Deviations and < 20% mitochondrial counts. UMI counts were normalized by the total counts for the cell, multiplied by a scale factor (10,000), and log-transformed (NormalizeData). Normalized counts were scaled and centered (ScaleData) using the top 3,000 variable features (FindVariableFeatures). The scaled data were used for PCA (RunPCA), and the first 20 principal components were used for clustering (FindNeighbors, FindClusters) and to calculate uniform manifold approximation and projection (RunUMAP). The two experiments were integrated using Harmony, with the theta parameter set to 1. Cell types were annotated using clustifyr with a murine lung regeration single cell dataset as the reference. Differentially expressed genes were identified for each cluster using the R package presto (github.com/immunogenomics/presto). Gene set enrichment analysis was performed using the R package clusterProfiler.
Assembly: mm10
Supplementary files format and content: cell_metadata.csv.gz: Cell level metadata containing cell type assignments in .csv format
Supplementary files format and content: barcodes.tsv.gz,features.tsv.gz,matrix.mtx.gz: UMI count matrix in marketMatrix format.

molecule: polyA RNA

source_name: lung

extract_protocol:
At day 21 after PPE or saline treatment, lung lobes were inflated and submerged with dispase  at room temperature for 45min. The digested lung lobes were further homogenized in DMEM/F12 with PenStrep and DNAseI. The single cell suspension was sequentially filtered through 70µm and 40µm cell strainers on top of 50ml tubes, followed by centrifuge at 300g for 10min at 15°C. Epithelial cells were enriched with anti-mouse CD326  and MACS LS column. Cells were stained with APC anti-mouse Epcam and DAPI to FACS sort for Epcam+/DAPI-/tdTomato+ cells for single cell capture with 10x Chromium system.
Single cell libraries were generated using the 10x genomics chromium 3' end library prepartion kit.

treatment_protocol: Both male and female Scgb1a1-CreERTM;Rosa-tdTomato mice at age of 8 to 10 weeks old were subject to intraperitoneal injections of tamoxifen (200mg/kg bodyweight; Sigma, T5648) in corn oil (Sigma, C8267) every 2 days for 3 doses. One week after the last does of tamoxifen, mice were treated with a single dose of porcine pancreatic elastase (PPE, n=3) (40U/kg body weight in 80ul volume; Sigma, 45124) or saline (n=2) via oropharyngeal injections.

value: lung

value: PPE


title: IP6K2-WT-spinal cord

description: Gene expression in spinal cord of WT littermate mouse

source_name: WT-spinal cord


title: Control, biol rep 1, Hour 48


title: IP6K2-WT-duodenum

description: Gene expression in duodenum of WT littermate mouse

source_name: WT-duodenum


title: CID003367-2-reup

city: Oxford

first: Tom

last: Thomas

address: Old Road Campus, Roosevelt Dr, Headington

country: United Kingdom

institute: University of Oxford

data_processing:
Cell Ranger v3.1.0 was used to align reads to reference (GRCh38-3.0.0) and generate feature- barcode matrices from the Chromium single-cell RNA-seq output.
Assembly: GRCh38-3.0.0
Supplementary files format and content: We have provided filtered matrices containing the outputs of the Cell Ranger pipeline in .h5 format for each sample as outlined above.

source_name: gut

extract_protocol:
Gut and synovial tissue samples and PBMCs were thawed into warm IMDM media with 10% FBS and washed. Gut samples were EDTA-treated pre-digestion with rotation for 15 min to remove dead/damaged epithelial cells, and then dissociated enzymatically with Liberase TM and DNase into a single-cell suspension with rotation. Thawed synovial samples were digested in Liberase TL and DNase in warm media for 30 min, with agitation. All cell samples were strained and washed twice with PBS with 0.4% bovine serum albumin (BSA). Live cells were counted using acridine orange/propidium iodide and ≤ 10,000 cells were loaded per 10X Chromium channel.
The GEX 3’ V3 protocol was followed.

value: gut

tag: librarytype

value: 3 prime V3

tag: cellsloaded

tag: disease

value: UC

tag: disease duration

tag: patient

tag: site

tag: inflammation

value: Inflamed

value: Post

tag: Sex

value: M

tag: ethnicity

value: Caucasian

tag: match

value: Yes

tag: batch

tag: inflammation score


title: maize_seedlings_pool32_scATAC

tag: tissue


title: maize_seedlings_pool36_scATAC


title: maize_seedlings_pool31_scATAC


title: Control_20 [N29]

value: Aorta

tag: tissue type

tag: subject status

tag: age


title: CID003368-1-reup

tag: treatment


title: Control_22 [N31]

value: Control


title: Control_25 [N34]


title: maize_seedlings_pool33_scATAC

value: seedling


title: maize_seedlings_pool29_scATAC


title: CID003366-1-reup

tag: librarytype

value: Rectum


title: CID003365-1-reup

tag: cellsloaded

value: Pre

value: F


title: maize_seedlings_pool35_scATAC


title: maize_seedlings_pool27_scATAC


title: maize_seedlings_pool30_scATAC


title: CID003364-1-reup

tag: disease

value: Sigmoid


title: Control_18 [N27]


title: maize_seedlings_pool28_scATAC


title: Control_16 [N24]


title: Control_14 [N21]


title: maize_seedlings_pool23_scATAC


title: maize_seedlings_pool25_scATAC


title: maize_seedlings_pool24_scATAC


title: CID003363-1-reup

tag: disease duration


title: Control_10 [N14]


title: maize_seedlings_pool22_scATAC


title: CID003362-1-reup

tag: patient


title: Control_12 [N19]


title: CID003361-1-reup

tag: site


title: maize_seedlings_pool21_scATAC


title: Control_5 [N8]


title: maize_seedlings_pool18_scATAC


title: CID003360-1-reup

tag: inflammation


title: maize_seedlings_pool19_scATAC


title: maize_seedlings_pool17_scATAC


title: CID003359-1-reup

tag: Sex


title: maize_seedlings_pool16_scATAC


title: maize_seedlings_pool15_scATAC


title: maize_seedlings_pool26_scATAC


title: TAA_111 [T68]

value: TAA

value: patients who underwent aorta replacement surgery


title: CID003357-1-reup

value: gut

tag: ethnicity


title: maize_seedlings_pool13_scATAC


title: TAA_104 [T56]


title: maize_seedlings_pool12_scATAC


title: maize_seedlings_pool11_scATAC


title: TAA_105 [T59]


title: maize_seedlings_pool20_scATAC


title: TAA_103 [T55]


title: CID003355-1-reup

value: 3 prime V3

tag: match


title: CID003354-1-reup

value: UC

tag: batch


title: maize_seedlings_pool7_scATAC


title: maize_seedlings_pool6_scATAC


title: maize_seedlings_pool8_scATAC


title: TAA_88 [T28]


title: maize_seedlings_pool10_scATAC


title: CID003353-1-reup

tag: inflammation score


title: maize_seedlings_pool5_scATAC

tag: tissue


title: TAA_78 [T14]

tag: tissue type


title: CID003352-2-reup

value: Inflamed


title: TAA_112 [T69]

tag: subject status


title: maize_seedlings_pool3_scATAC


title: CID003356-1-reup

tag: age


title: maize_seedlings_pool14_scATAC


title: maize_seedlings_pool4_scATAC


title: TAA_75 [M10]


title: TAA_74 [M9]


title: maize_seedlings_pool1_scATAC


title: HEYA8-p11-10uM-CF

city: Philadelphia

first: Matthew

last: Knarr

state: PA

address: 421 Curie Blvd

department: OBGYN

institute: University of Pennsylvania

data_processing:
CLC Genomics Workbench v24
Sequence reads were trimmed for adaptor sequence/low-quality sequence using CLC genomic benchwork (parameter- quality limit: 0.05)
Trimmed sequence reads were mapped to GRCh38/hg38 using CLC genomic benchwork
Read count extraction and normalization were performed using DeSeq2 r package
Assembly: hg38
Supplementary files format and content: tab-delimited text file includes TPM values for each sample

growth_protocol: HEYA8 ovarian cancer cells were maintained in DMEM supplemented with 10% fetal bovine serum (FBS) and antibioltics in humidified atmosphere with 5% CO2 at 37C

extract_protocol:
RNA was harvested using Norgen Total RNA Extraction Kit 1.3 ug of total RNA was used for the construction of sequencing libraries
RNA libraries for RNA-seq were prepared using TrueSeq Total RNA library (RS-122-2001) with ribosomal depletion following manufacturers protocol

treatment_protocol: HEYA8 cells were treated with DMEM containing the specificed concentration of colforsin daropate for 48 hr

tag: cell line

tag: cell type

value: ovarian cancer cells

tag: treatment

value: 10 uM colforsin daropate


title: TAA_73 [M8]


title: HEYA8-p11-1uM-CF

value: 1 uM colforsin daropate


title: maize_seedlings_pool2_scATAC


title: wild type, females, H3K27me3 ChIP, rep1

city: Shenzhen

first: Qing

last: Ma

address: 1068 Xueyuan Avenue, Shenzhen University Town, Shenzhen, P.R.China

institute: Shenzhen Institutes of Advanced Technology

data_processing:
Raw reads were trimmed with Trimmomatic (v0.39) to remove adapters and low-quality reads.
Trimmed reads were aligned to Drosophila reference genome dm6 with Bowtie 2 (v2.4.5).
Unmapped and low mapping quality reads were filtered with SAMtools (v1.13).
Duplicated reads were removed with Picard tools (https://broadinstitute.github.io/picard/).
Bigwig tracks were generated with deepTools (v3.5.1), using RPKM normalization.
Assembly: flybase dm6
Supplementary files format and content: bigWig

organism: Drosophila melanogaster

source_name: third instar larvae

growth_protocol: Fly stocks were raised at 25 °C on standard molasses/yeast medium.

extract_protocol:
Drosophila larval tissues were ground into fine powders, fixed with 1% formaldehyde and quenched with 0.125M glycine. After cell lysis, the nuclei was isolated and the chromatin was sonicated.
ChIP-seq libraries were prepared using DNA Library Prep Kit for Illumina (Vazyme ND607).

value: third instar larvae

value: female

tag: genotype

value: wild type


title: TAA_71 [M6]

value: Aorta


title: HEYA8-p11-0uM-CF

value: 0 uM colforsin daropate


title: roX1 roX2 double knockout, males, H3K27me3 ChIP, rep2

value: male


title: HEYA8-p11-5uM-CF

value: 5 uM colforsin daropate


title: roX1 roX2 double knockout, males, H3K27me3 ChIP, rep1


title: TAA_70 [M5]


title: roX1 roX2 double knockout, males, input


title: HEYA8-p8-10uM-CF


title: wild type, males, H3K27me3 ChIP, rep2


title: TAA_69 [M4]


title: HEYA8-p8-5uM-CF


title: TAA_68 [M3]


title: HEYA8-p8-1uM-CF


title: TAA_67 [D7]


title: wild type, females, H3K27me3 ChIP, rep2


title: HEYA8-p8-0uM-CF


title: TAA_65 [D18]


title: wild type, females, input


title: HEYA8-p6-5uM-CF


title: TAA_62 [D15]


title: HEYA8-p6-10uM-CF


title: TAA_56 [D9]


title: wild type, males, input


title: TAA_64 [D17]


title: maize_seedlings_pool9_scATAC

value: seedling


title: Fbl5_KO_rep1

city: Kanazawa

first: Shin-ichi

last: Horike

state: Ishikawa

address: 13-1 Takaramachi

department: Research Center for Experimental Modeling of Human Disease

institute: Kanazawa University

description:
Fbln5_005
β-cell-specific Fbln5 deleted mice
replicate 1

hyb_protocol: 0.6 ug of Cy3-labelled cRNA (specific activity >25.0 pmol Cy3/ug cRNA) was fragmented at 60°C for 30 minutes in a reaction volume of 25 ul containing 1x Fragmentation Buffer (Agilent) and 2x Blocking Agent (Agilent) following the manufacturer's instructions. On completion of the fragmentation reaction, 25 ul of 2x GE Hybridization Buffer HI-RPM(Agilent) was added to the fragmentation mixture and hybridized to SurePrint G3 Human GE microarray 8x60K Ver. 3.0 (G4851C, Agilent Technologies) 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), then dried immediately.

scan_protocol: Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2539A) using one color scan setting for 1x60k array slides (Scan Area 61x21.6 mm, Scan resolution 3um, Dye channel is set to Green and Green PMT is set to 100%).

data_processing:
The scanned images were analyzed with Feature Extraction Software 11.0.1.1 (Agilent) using default parameters (protocol AgilentG3_GX_1Color and Grid: 074809_D_F_20150624) to obtain background subtracted and spatially detrended Processed Signal intensities.
Data were normalized and filtered with three filters with GeneSpring software 12.1 (Agilent Technologies). In brief, raw data were normalized with their 75 percentile values. In the first filter, when the value of a probe was lower than 20 percentile value in any samples, the probe was excluded. In the second filter, when the flag of a probe was compromised in any samples, the probe was excluded. In the last filter, when the value (log scale) of CV was over 50 percent in both conditions, the probe was excluded. After filtering, control probes were excluded, and log scale values were transformed into normal scale.

source_name: islets isolated from the βFbln5KO mice

label_protocol: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.2 ug RNA using the Low Input Quick Amp Labeling Kit (Agilent) according to the manufacturer's instructions, followed by RNeasy column purification (QIAGEN). Dye incorporation and cRNA yield were checked with the NanoDrop ND-1000 Spectrophotometer.

growth_protocol: We generated β-cell-specific Fbln5-knockout mice by crossing Fbln5-floxed mice with Ins1-cre mice. The Ins1-cre mouse expresses Cre driven by the mouse insulin 1 promoter.

extract_protocol:
Total RNA from the islets of 11-week-old βFbln5KO and control mice (150 islets per extraction, n=4) was extracted immediately after islet isolation.
Total RNA was extracted with RNeasy Mini Kit (Qiagen, Hilden, Germany) according to the manufacturer's instructions.

tag: genotype/variation

value: pancreatic islets

value: 11 weeks


title: Mouse 10, abscopal tumor from cryoablation, 1

city: Lubbock

first: Flavia

last: Sardela de Miranda

state: TX

address: 3601 4th Street

department: Surgery

institute: TTUHSC

description: M5 AC - 1

data_processing:
trimmed to remove possible adapter sequences and nucleotides with poor quality using Trimmomatic v.0.36
mapped to the GRCm38 Genome Reference Consortium Mouse Build 38 reference genome available on ENSEMBL using the STAR aligner v.2.5.2b
Unique gene hit counts were calculated by using featureCounts from the Subread package v.1.5.2
Assembly: GRCm38/mm10
Supplementary files format and content: tab-delimited text file includes raw counts for each sample

source_name: mouse mammary tissue

growth_protocol: 4T1-12B cells were maintained in DMEM supplemented with 10% fetal bovine serum (FBS) and antibiotics in humidified atmosphere with 5% C02 at 37C; 1 million cells were transplanted bilateraly on the mammary fat-pad of BALB/c mice and allowed to grow 2 weeks before treatment with resection or cryoablation

extract_protocol:
Total RNA was isolated from formalin-fixed, paraffin-embedded resected and abscopal tumor sections using the Rneasy FFPE Kit (Qiagen)
rRNA was depleted for mRNA enrichment and the QIAseq Stranded Total RNA Lib Kit (Qiagen, Cat# 180745) was used to construct the strand-specific RNA-seq library at the UH Seq-N-Edit Core, University of Houston.

treatment_protocol: Primary tumors were either surgically resected or cryoablated; distant (abscopal) tumors were left untreated to measure the abscopal effect a week after. Both the collected resected and abscopal tumors were used to make slide sections.

value: mouse mammary tissue

value: triple-negative breast cancer

value: luciferase reporter

value: Systemic effect of cryoablation


title: Fbl5_KO_rep2

description:
Fbln5_006
β-cell-specific Fbln5 deleted mice
replicate 2


title: Fbl5_KO_rep4

description:
Fbln5_008
β-cell-specific Fbln5 deleted mice
replicate 4


title: Fbl5_flox_rep4

description:
Fbln5_004
floxed mice
replicate 4

source_name: islets isolated from the floxed mice

value: floxed


title: Fbl5_KO_rep3

description:
Fbln5_007
β-cell-specific Fbln5 deleted mice
replicate 3


title: Fbl5_flox_rep2

description:
Fbln5_002
floxed mice
replicate 2


title: Fbl5_flox_rep3

description:
Fbln5_003
floxed mice
replicate 3


title: Mouse 9, abscopal tumor from cryoablation, 3

description: M4 AC - 3


title: Mouse 10, abscopal tumor from cryoablation, 4

description: M5 AC - 4


title: TAA_47 [B94]

value: TAA

value: patients who underwent aorta replacement surgery


title: Mouse 9, abscopal tumor from cryoablation, 2

description: M4 AC - 2


title: HEYA8-p6-1uM-CF

value: ovarian cancer cells

value: 1 uM colforsin daropate


title: Mouse 10, abscopal tumor from cryoablation, 3

description: M5 AC - 3


title: wild type, males, H3K27me3 ChIP, rep1

value: third instar larvae

value: wild type


title: Mouse 10, abscopal tumor from cryoablation, 2

description: M5 AC - 2


title: HEYA8-p6-0uM-CF

value: 0 uM colforsin daropate


title: Mouse 9, abscopal tumor from cryoablation, 1

description: M4 AC - 1


title: TAA_51 [D2]

value: Aorta


title: TAA_45 [B90]


title: Mouse 5, resected tumor, 4

description: M5 R - 4

value: Resection


title: Mouse 9, abscopal tumor from cryoablation, 4

description: M4 AC - 4


title: TAA_42 [B86]


title: TPFR_3

city: Odense M

first: Carla

last: Alves

address: Fioniavej 36, 2. sal

country: Denmark

institute: SDU

data_processing:
The quality of raw sequencing reads was assessed using fastq.gzC and adaptor sequences were removed using the FASTX toolkit. Trimmed Reads were aligned to the human genome (hg38) using the Spliced Transcripts Alignment to a Reference (STAR) software with default parameters. Tags in exons were counted using iRNA-seq and differential expression (FDR-adjusted p < 0.05) between three independent replicates of sensitive cell line and -resistant cell line samples was determined using DESeq2
Assembly: GRCh38/hg38
Supplementary files format and content: tab-delimited text files includes TPM  for each sample

source_name: breast cancer

extract_protocol:
Trizol and econospin columns
NEBNext Ultra II DNA Library Prep Kit for Illumina

value: breast cancer

value: Combined fulvestrant and CDK4/6 inhibitor resistant


title: TPFR_2


title: Mouse 5, resected tumor, 3

description: M5 R - 3


title: TAA_40 [B81]


title: Mouse 5, resected tumor, 1

description: M5 R - 1


title: Mouse 5, abscopal tumor from resection, 4

description: M5 AR - 4

value: Systemic effect of resection


title: Mouse 5, resected tumor, 2

description: M5 R - 2

value: mouse mammary tissue


title: TPFR_1


title: Fbl5_flox_rep1

description:
Fbln5_001
floxed mice
replicate 1

value: pancreatic islets

value: 11 weeks


title: TAA_39 [B78]


title: Mouse 5, abscopal tumor from resection, 2

description: M5 AR - 2

value: triple-negative breast cancer

value: luciferase reporter


title: TFR_2

value: fulvestrant-resistant


title: TFR_1


title: Mouse 5, abscopal tumor from resection, 1

description: M5 AR - 1


title: TS_2

value: sensitive


title: Mouse 4, resected tumor, 2

description: M4 R - 2


title: TAA_30 [B64]

value: TAA

value: patients who underwent aorta replacement surgery


title: TAA_36 [B74]


title: TAA_29 [B62]


title: Mouse 4, resected tumor, 4

description: M4 R - 4


title: TS_1


title: TS_3


title: TAA_21 [B49]


title: Mouse 4, resected tumor, 3

description: M4 R - 3


title: Mouse 4, resected tumor, 1

description: M4 R - 1


title: Mouse 4, abscopal tumor from resection, 2

description: M4 AR - 2


title: TFR_3


title: Mouse 4, abscopal tumor from resection, 3

description: M4 AR - 3


title: MPFR_3


title: TAA_16 [B35]


title: Mouse 5, abscopal tumor from resection, 3

description: M5 AR - 3


title: MPFR_2


title: TAA_4 [B10]


title: Mouse 3, resected tumor, 2

description: M3 R - 2


title: Mouse 3, resected tumor, 3

description: M3 R - 3


title: Mouse 3, resected tumor, 1

description: M3 R - 1


title: MPFR_1


title: wild type, females, rep3

data_processing:
RNA-seq reads were mapped to Drosophila genome dm6 with HISAT2 (v2.2.1).
Unmapped and low mapping quality reads were filtered with SAMtools (v1.13).
Read counts were calculated with HTSeq (v2.0.2).
Differential gene expression was analyzed with R package DESeq2.
Assembly: dm6
Supplementary files format and content: tab-delimited text files include raw counts for each Sample

source_name: first instar larvae

extract_protocol:
Total RNA was isolated from Drosophila 1st instar male larvae with Trizol reagents (Invitrogen), treated with DNase I and purified with a ZYMO RNA Clean & Concentrator-5 kit.
polyA RNA was enriched with Oligo (dT) Magnetic Beads and reverse-transcripted to first strand DNA. First strand DNA was used as template to synthesis second strand DNA, obtaining dsDNA. The dTTP tailed adaptor was ligated to both ends of the dsDNA fragments. The ligation product was amplified by PCR, and circularized to get single-stranded circular (ssCir) library. The ssCir library was then amplified through rolling circle amplification (RCA) to obtain DNA nanoball (DNB). The DNB was then loaded to flow-cell, and sequenced by DNBSEQ Platform to generate 100 bp paired-end Reads.

value: first instar larvae

value: female


title: Mouse 3, abscopal tumor from resection, 3

description: M3 AR - 3


title: MFR_2


title: Mouse 3, abscopal tumor from resection, 4

description: M3 AR - 4


title: Mouse 4, abscopal tumor from resection, 4

description: M4 AR - 4


title: Mouse 3, abscopal tumor from resection, 1

description: M3 AR - 1


title: MFR_3


title: wild type, females, rep2

value: wild type


title: Mouse 8, abscopal tumor from cryoablation, 4

description: M8 AC - 4

value: Systemic effect of cryoablation


title: Mouse 3, abscopal tumor from resection, 2

description: M3 AR - 2


title: MFR_1


title: Mouse 8, abscopal tumor from cryoablation, 3

description: M8 AC - 3


title: wild type, females, rep1


title: MS_3


title: Mouse 8, abscopal tumor from cryoablation, 2

description: M8 AC - 2


title: Mouse 4, abscopal tumor from resection, 1

description: M4 AR - 1


title: roX1 roX2 double knockout, males, rep2

data_processing:
RNA-seq reads were mapped to Drosophila genome dm6 with HISAT2 (v2.2.1).
Unmapped and low mapping quality reads were filtered with SAMtools (v1.13).
Read counts were calculated with HTSeq (v2.0.2).
Differential gene expression was analyzed with R package DESeq2.
Supplementary files format and content: tab-delimited text files include raw counts for each Sample
Supplementary files format and content: tab-delimited text file include FPKM values for each Sample

value: male


title: Mouse 7, abscopal tumor from cryoablation, 4

description: M7 AC - 4


title: Mouse 3, resected tumor, 4

description: M3 R - 4

value: Resection


title: Mouse 8, abscopal tumor from cryoablation, 1

description: M8 AC - 1


title: MS_2

value: breast cancer


title: Mouse 7, abscopal tumor from cryoablation, 3

description: M7 AC - 3


title: roX1 roX2 double knockout, males, rep1


title: MS_1


title: wild type, males, rep3


title: Mouse 7, abscopal tumor from cryoablation, 1

description: M7 AC - 1


title: Mouse 7, abscopal tumor from cryoablation, 2

description: M7 AC - 2


title: Mouse 2, resected tumor, 4

description: M2 R - 4


title: HeLa_MED1

city: Milan

first: Francesco

last: Gualdrini

address: Via Adamello, 16

department: Department of Experimental Oncology

country: Italy

institute: European Institute of Oncology

data_processing:
All samples were analysed following the Nextflow pipeline that can be freely downloaded from https://github.com/fgualdr/mmchipseq. Briefly:
Reads were quality filtered according to the illumina pipeline
Reads were aligned to the mouse hg38 genome using STAR v. 2.7.9a
Peaks were called using MACS2 v. 2.2.7.1
Bigwig files were generated using deeptools v. 3.5.1 and scaled accoding to a pre-defined invariant set of peaks (see Gualdrini et al. 2016)
Assembly: hg38
Supplementary files format and content: bigWig

source_name: Hela Cells in untreated conditions

growth_protocol: HeLa cells (from ATCC) were cultured in DMEM with 10% South American serum, 1% pen/strep and 1% L-Glutamax. Cell lines were authenticated by the Tissue Culture Facility of the European Institute of Oncology using the GenePrint10 system (Promega) and routinely screened for mycoplasma contamination.

extract_protocol:
MED1 ChIP-seq was carried out as previously described (Gualdrini et al., 2022). Briefly, 70 x10^6 HeLa cells were were scraped in PBS, incubated for 45 min with 2 mM DSG in PBS, washed twice, and then incubated with 1% formaldehyde in PBS for 10 min followed by quenching with 125 mM glycine and lysed to prepare nuclear extracts. After chromatin shearing by sonication with a Branson Ultrasonics Sonifier, lysates were incubated overnight at 4°C with protein G Dynabeads (cat. no.10009D, Invitrogen) previously coupled with tetra-acetylated histone H4 (cat. no. 06866, Millipore)  MED1 antibody (cat.no. A300-793A, Bethyl). After immunoprecipitation, beads were recovered using a magnetic stand and washed with RIPA buffer (50 mM HEPES-KOH at pH 7.6, 500 mM LiCl, 1 mM EDTA, 1% NP-40, 0.7% Na-deoxycho- late). Immunoprecipitated chromatin was eluted and cross-link-reverted overnight at 65°C. DNA was purified with QIAquick PCR purification kit (cat. no. 28106, Qiagen) and then quantified with QuantiFluor (cat. no. E2670, Promega).
DNA libraries were prepared as previously described (Austenaa et al., 2021). The purified DNA libraries were quantified with the Quantifluor reagent (cat. no. E2670, Promega) and the quality of the size was controlled with the Tapestation instrument (Agilent) using the high-sensitivity assay HD5000 (cat. no. 5067-5592, Agilent). DNA libraries were diluted to a working concentration of 4 nM and 50-bp single reads sequenced on an Illumina Novaseq6000 platform.

treatment_protocol: No treatment. The MED1 chip-seq was carried out in untreated conditions

value: Uterus; Cervix

value: Hela

value: epithelial cell

value: untreated


title: Mouse 2, resected tumor, 3

description: M2 R - 3

value: mouse mammary tissue

value: triple-negative breast cancer


title: Mouse 2, resected tumor, 1

description: M2 R - 1

value: luciferase reporter


title: Empty_Flag_DSG_FA_R1

source_name: Uterus; Cervix

growth_protocol: HeLa cells (from ATCC) were cultured in DMEM with 10% South American serum, 1% pen/strep and 1% L-Glutamax.  Cell lines were authenticated by the Tissue Culture Facility of the European Institute of Oncology using the GenePrint10 system (Promega) and routinely screened for mycoplasma contamination. To generate the DLST and OGDH lentiviral expression vectors, human DLST and OGDH were cloned into a 3XFlag-NLS-pScalps-Puro lentiviral expression vector. The 3XFLAG-NLS sequence derives from pX458 (# 48138, Addgene) and was assembled into the pScalps-Puro vector using Gibson assembly. A 3xFLAG-NLS empty vector was used as negative control. HeLa underwent two cycles of infection over two days. Filtered lentiviral vectors containing supernatant is added directly to the HeLa cells and at the end of the second day of infection cells are split and the puromycin is added (1 ug/ml). Assays were carried out after 3-4 days of puromycin selection.

extract_protocol:
For FLAG-ChIP, after chromatin shearing by sonication with a Branson Ultrasonics Sonifier, lysates were incubated overnight at 4°C with Dynabeads M-280 Sheep anti-mouse IgG (cat. no.11202D, Thermofisher) coupled with 8ug of FLAG antibody (cat. no F1804, Sigma). After immunoprecipitation, beads were recovered using a magnetic stand and washed with RIPA buffer (50 mM HEPES-KOH at pH 7.6, 500 mM LiCl, 1 mM EDTA, 1% NP-40, 0.7% Na-deoxycho- late). Immunoprecipitated chromatin was eluted and cross-link-reverted overnight at 65°C. DNA was purified with QIAquick PCR purification kit (cat. no. 28106, Qiagen) and then quantified with QuantiFluor (cat. no. E2670, Promega).
DNA libraries were prepared as previously described (Austenaa et al., 2021). The purified DNA libraries were quantified with the Quantifluor reagent (cat. no. E2670, Promega) and the quality of the size was controlled with the Tapestation instrument (Agilent) using the high-sensitivity assay HD5000 (cat. no. 5067-5592, Agilent). DNA libraries were diluted to a working concentration of 4 nM and 50-bp single reads sequenced on an Illumina Novaseq6000 platform.

treatment_protocol: FLAG-ChIP-seq (mitochondrial enzymes) 70-80 x10^6 HeLa transduced cells were fixed with a double cross-linking protocol as previously described (Milan et al., 2019). Briefly, cells were scraped in PBS, incubated for 45 min with 2 mM DSG in PBS, washed twice, and then incubated with 1% formaldehyde in PBS for 10 min followed by quenching with 125 mM glycine.

value: Hela cells transduced with 3XFlag-NLS-pScalps-Puro Empty vector


title: Mouse 2, resected tumor, 2

description: M2 R - 2


title: Mouse 2, abscopal tumor from resection, 4

description: M2 AR - 4

value: Systemic effect of resection


title: wild type, males, rep1


title: roX1 roX2 double knockout, males, rep3


title: wild type, males, rep2


title: input, PIRCh, rep2

library_source: other

data_processing:
PIRCh-seq reads were mapped to Drosophila genome dm6 with HISAT2 (v2.2.1).
Unmapped and low mapping quality reads were filtered with SAMtools (v1.13).
Bigwig tracks were generated with deepTools (v3.5.1), using RPKM normalization.
Assembly: flybase dm6
Supplementary files format and content: bigWig
Library strategy: PIRCh-seq

molecule: other

extract_protocol:
Drosophila larval tissues were ground into fine powders, fixed with 1% formaldehyde. After cell lysis, the nuclei was fixed with 3% formaldehyde and the chromatin was sonicated. Chromatin-associated RNAs were enriched with antibody targeting specific histone modification (H4K16ac or H3K27me3)
RNA libraries were prepared using RNAs captured from immunoprecipitation.

value: third instar larvae


title: Mouse 2, abscopal tumor from resection, 3

description: M2 AR - 3


title: input, PIRCh, rep1


title: H3K27me3, PIRCh, rep2


title: OGDH_Flag_DSG_FA_R1

value: Hela cells transduced with 3XFlag-NLS-pScalps-Puro expressing OGDH


title: Feed restriction 1080D

city: Torino

first: Raffaele

middle: A

last: Calogero

state: To

address: Via Nizza 52

department: Molecular Biotechnology Center

institute: University of Torino

description: counts.txt

data_processing:
Trimming adapters with cutadapt (https://github.com/kendomaniac/docker4seq)
Mapping with BWA (https://github.com/kendomaniac/docker4seq)
Assembly: mirBase ver 22 sheep (oar) mirna precursors
Supplementary files format and content: tab delimited

organism: Ovis aries

source_name: milk

growth_protocol: Feed restriction versus no feed restriction

extract_protocol:
The miRNA extraction of milk-derived exosomes was done using Exoquick™ (SCBI) following the manufacturer's protocol from one mL of milk.
Small RNA libraries were constructed with NEBNext®kit (New England Biolabs, Ipswich, MA, USA). Small RNA libraries were constructed with NEBNext® kit (New England Biolabs, Ipswich, MA, USA)

value: milk

value: feed restriction


title: HeLa cells, mutated gdf6Y (del9), rep6

city: Jena

first: Philipp

last: Koch

address: Beutenbergstraße 11

department: Core Facility Life Science Computing

country: Germany

institute: Leibniz Institute on Aging - Fritz Lipmann Institute

data_processing:
Sequence information was converted to FASTQ format using bcl2fastq v2.20.0.422
The names of the RNA-seq reads were extended by their unique molecular identifier (UMI) with UMI-tools’ extract command version 1.1.1 (PMID: 28100584).
These name-modified reads were aligned to the human reference genome (GRCh38 with the Ensembl genome annotation release 107) using STAR 2.7.10a (parameters: --alignIntronMax 100000, --outSJfilterReads Unique, --outSAMmultNmax 1, --outFilterMismatchNoverLmax 0.04) (PMID: 23104886)
PCR duplicates were removed from the alignment results using UMI-tools’s dedup command.
For each gene, all reads that map uniquely to one genomic position were counted with FeatureCounts 2.0.3 (multi-mapping or multi-overlapping reads were discarded, stranded mode was set to “–s 2”) (PMID: 24227677)
Assembly: GRCh38
Supplementary files format and content: csv file containing raw read counts per gene over all samples

source_name: HeLa cells

growth_protocol: HeLa cells were cultivated in Dulbecco’s Modified Eagle Medium (DMEM; Gibco™ #41966 – high glucose, pyruvate) with 10 % FBS at 37°C and 5 % CO2.

extract_protocol:
To isolate RNA from transfected cells, the QIAGEN RNeasy Mini Kit was used. Cells were lysed directly in the wells using RT buffer containing ß-mercaptoethanol. Samples were further homogenized using QIAshredder (QIAGEN). DNase digestion was performed on-column using the RNase-Free DNase Set (QIAGEN) as suggested in the RNeasy Mini Kit protocol. The RNA was eluted in 50 µl DEPC-treated H2O.
Libraries were prepared from 300 ng of input material (total RNA) using NEBNext Ultra II Directional RNA Library Preparation Kit in combination with NEBNext Poly(A) mRNA Magnetic Isolation Module and NEBNext Multiplex Oligos for Illumina (Unique Dual Index UMI Adaptors RNA) following the manufacturer's instructions (New?England Biolabs). Deviating from the instruction, in order to avoid over-amplification of libraries in the final amplification step, qPCR was performed for each library priorily for determine the optimal cycle number (exponential phase) .

treatment_protocol: 0.5 x 106 HeLa cells per well were seeded into a 6-Well plate. 24 h later, the cells were transfected with 2.5 µg of plasmid DNA (gdf6Y: pcDgdf6Y, del9: pcDgdf6Ydel9, or EV: pcDNA3.1-HA) per well using Lipofectamine 3000 (Thermo Fisher Scientific) and incubated for 24 h at 37°C and 5 % CO2 before RNA isolation.

value: HeLa cells


title: Feed restriction 1080I

description: counts.txt


title: DLST_Flag_DSG_FA_R1

value: Hela cells transduced with 3XFlag-NLS-pScalps-Puro expressing DLST


title: Mouse 2, abscopal tumor from resection, 2

description: M2 AR - 2


title: Feed restriction 1076I

description: counts.txt


title: HeLa cells, mutated gdf6Y (del9), rep5


title: H3K27me3, PIRCh, rep1

value: wild type


title: Mouse 2, abscopal tumor from resection, 1

description: M2 AR - 1


title: Feed restriction 1076D

description: counts.txt


title: HeLa cells, mutated gdf6Y (del9), rep4


title: Mouse 1, resected tumor, 4

description: M1 R - 4

value: Resection


title: H4K16ac, PIRCh, rep2


title: No feed restriction 1038I

description: counts.txt

value: no feed restriction


title: Mouse 1, resected tumor, 3

description: M1 R - 3


title: HeLa cells, mutated gdf6Y (del9), rep3


title: H4K16ac, PIRCh, rep1


title: No feed restriction 1038D

description: counts.txt


title: HeLa cells, mutated gdf6Y (del9), rep2


title: No feed restriction 1031I

description: counts.txt


title: HeLa cells, mutated gdf6Y (del9), rep1


title: saline, replicate 2, snRNA-seq

city: Ningbo

first: Qiong

last: Li

state: Zhejiang

address: Kongpu

institute: Ningbo University

data_processing:
The raw reads were mapped to the rat reference genome (refdata-gex-Rnor6-2022) using CellRanger count (v7.0.0) with parameter “includeintrons=true”.
Assembly: hg38
Supplementary files format and content: Tab-separated values files and matrix files

molecule: nuclear RNA

organism: Rattus norvegicus

source_name: Orbitofrontal cortex

extract_protocol:
The tissues were placed in a 5 mL tube containing 2 mL of Hibernate A®/B27®/GlutaMAX™ (HEB) medium on ice to minimize degradation. The HEB medium was transferred to a 15mL conical and kept on ice for subsequent operations. Then, 2mL of chilled lysis buffer (10 mM Tris-HCl, 10 mM NaCl, 3 mM MgCl2, and 0.1% Nonidet™ P40 Substitute in Nuclease-Free Water) were added to the tissue, followed by douncing 10 times with loose pestle to homogenize it. After homogenization, the tissue was lysed on ice for 15 minutes, swirling 2 – 3 times during this period. The reserved chilled HEB medium was then returned to the lysed tissue solution, and the tissue was further triturated with 5–7 passes through a 1mL pipette. The lysed tissue solution was filtered through a 30 µm cell strainer (MACS SmartStrainer; Miltenyi Biotech 130-110-915) that was prewashed with 1 mL of PBS to remove debris and clumps. Filtered nuclei were centrifuged at 500 g for 5 minutes at 4°C. The supernatant was removed, and the nuclei were washed in 1mL of Nuclei Wash and Resuspension Buffer (1× PBS with 1.0% BSA and 0.2U/µl Rnase Inhibitor). The nuclei were manually counted using Trypan blue and AO-PI staining to estimate of nucleus concentration after each centrifugation and resuspended.
We performed single-nucleus 3’ gene expression profiling using the Chromium Next GEM Single Cell 3’ Kit v3.1 (10× Genomics, 1000268) and the Chromium Next GEM Chip G Single Cell Kit (10× Genomics, 1000120). The nuclei suspension was loaded onto the Chromium single-nucleus controller (10× Genomics) to generate single-nucleus gel beads in the emulsion, according to the manufacturer’s protocol. The captured nucleus was lysed, and the released RNA was barcoded through reverse transcription in individual GEMs.
The nucleus-barcoded 3’ gene expression libraries were sequenced on an Illumina NovaSeq6000 system by Shanghai Biochip Co., Ltd., Shanghai, China.

value: Orbitofrontal cortex

value: wild-type

value: Brain cells

tag: strain

value: Sprague-Dawley

value: male

value: saline for 7 days


title: Mouse 1, resected tumor, 2

description: M1 R - 2

value: mouse mammary tissue

value: triple-negative breast cancer

value: luciferase reporter


title: saline, replicate 1, snRNA-seq


title: No feed restriction 1031D

description: counts.txt


title: Mouse 1, resected tumor, 1

description: M1 R - 1


title: HeLa cells, gdf6Y, rep5


title: Mouse 1, abscopal tumor from resection, 4

description: M1 AR - 4

value: Systemic effect of resection


title: HeLa cells, gdf6Y, rep6


title: METH, replicate 1, snRNA-seq

value: 1 mg/kg METH for 7 days


title: Pre-ovulatory F5 follicle, Bird 5835

city: Newark

first: Aditya

last: Dutta

state: DE

address: 303 Worrilow, 529 South College Ave

department: Animal & Food Sciences

institute: University of Delaware

description:
AA11
est_counts_genes_kallisto_V2.txt
tpm_values_genes_kallisto_V2.txt

data_processing:
RNA-seq pipeline description:
We use poly-A pull-down to enrich mRNAs from total RNA samples (250ng-1ug per sample, RIN>7.8 required) and proceed on library preparation by using Illumina TruSeq RNA prep kit. Libraries are then sequenced using Illumina NovaSeq 6000 at Columbia Genome Center. We multiplex samples in each lane, which yields targeted number of paired-end 100bp reads for each sample, as a fraction of 180 million reads for the whole lane.
We use RTA (Illumina) for base calling and bcl2fastq2 (version 2.19) for converting BCL to fastq format, coupled with adaptor trimming. We perform a pseudoalignment to a kallisto index created from transcriptomes (Chicken: GRCg6a/galGal6) using kallisto (0.44.0). We test for differentially expressed genes under various conditions using DESeq2 (1.38.3), R packages designed to test differential expression between two experimental groups from RNA-seq counts data.
Raw RNAseq counts were normalized (variance stabilization) using DESeq package (version 0.99.484) in R-studio Version 4.2.2
Assembly: GRCg6a/galGal6
Supplementary files format and content: Tab-delimited text files include DESeq normalized values and counts for each Sample

organism: Gallus gallus

source_name: Chicken Ovarian Follicle

extract_protocol:
RNA was extracted using the TRIzol Reagent (Invitrogen). Quality control was performed with Advanced Analytical Technologies, Inc. (AATI) Fragment Analyzer
We use poly-A pull-down to enrich mRNAs from total RNA samples (250ng-1ug per sample, RIN>7.8 required) and proceed on library preparation by using Illumina TruSeq chemsitry. Libraries are then sequenced using Illumina NovaSeq 6000 at Columbia Genome Center. We multiplex samples in each lane, which yields targeted number of paired-end 100bp reads for each sample.

treatment_protocol:
NA
NA

value: Chicken Ovarian Follicle

tag: follicular stage

value: Pre-ovulatory F5

value: 12 Months

tag: bird id

value: Bird 5835


title: Mouse 1, abscopal tumor from resection, 2

description: M1 AR - 2


title: Mouse 1, abscopal tumor from resection, 3

description: M1 AR - 3


title: Pre-ovulatory F5 follicle, Bird 5826

description:
AA10
est_counts_genes_kallisto_V2.txt
tpm_values_genes_kallisto_V2.txt

value: Bird 5826


title: METH, replicate 2, snRNA-seq

tag: Sex


title: HeLa cells, gdf6Y, rep3

value: HeLa cells


title: HeLa cells, gdf6Y, rep4


title: ATF6KO6

city: Palo Alto

first: Eun-Jin

last: Lee

address: 3801 Miranda Ave

department: Pathology

institute: Stanford University

data_processing:
Sequencing data filtering- This project uses the filtering software SOAPnuke Version v1.5.2 for filtering.
The sequencing data was filtered with SOAPnuke (v1.5.2) and clean reads were mapped using HISAT2 (v2.0.4) to  the reference genome (GCF_000001635.27_GRCm39). The expression levels of the genes were calculated by RSEM (v1.2.12)
Differential expression analysis and statistical significance calculations between condition and experiment groups were assessed using R based software, DESeq2 (v 1.4.5).
Sequencing saturation-Perl script is used for sequencing saturation analysis.
Assembly: Integrative Genomics Viewer genome (IGV) browser to view the reads align to the genome
Supplementary files format and content: tab-delimited text file includes FPKM values for each sample
Supplementary files format and content: excel file includes FPKM values for each sample

source_name: Cochlea

extract_protocol:
RNA was haarvested using Rneasy miniplus kit (Qiagen). >2ug of total RNA was used for the construction of sequencing libraries.
DNBSEQ Eukaryotic Stranded Transcriptome library preparation- Stranded mRNA Library

value: Cochlea

value: ATF6 Knockout


title: Mouse 1, abscopal tumor from resection, 1

description: M1 AR - 1


title: Pre-ovulatory F5 follicle, Bird 5817

description:
AA09
est_counts_genes_kallisto_V2.txt
tpm_values_genes_kallisto_V2.txt

value: Bird 5817


title: ATF6KO4


title: Mouse 6, abscopal tumor from cryoablation, 4

description: M6 AC - 4

value: Systemic effect of cryoablation


title: ATF6KO3


title: Pre-ovulatory F5 follicle, Bird 5810

description:
AA08
est_counts_genes_kallisto_V2.txt
tpm_values_genes_kallisto_V2.txt

value: Bird 5810


title: HeLa cells, gdf6Y, rep1


title: Mouse 6, abscopal tumor from cryoablation, 3

description: M6 AC - 3


title: ATF6KO2


title: Pre-ovulatory F5 follicle, Bird 5802

description:
AA07
est_counts_genes_kallisto_V2.txt
tpm_values_genes_kallisto_V2.txt

value: Bird 5802


title: Pre-ovulatory F5 follicle, Bird 5840

description:
AA12
est_counts_genes_kallisto_V2.txt
tpm_values_genes_kallisto_V2.txt

value: Bird 5840


title: HeLa cells, empty vector (EV), rep6

value: EV


title: Pre-recruitment follicle, Bird 5840

description:
AA06
est_counts_genes_kallisto_V2.txt
tpm_values_genes_kallisto_V2.txt

value: Pre-recruitment


title: Mouse 6, abscopal tumor from cryoablation, 1

description: M6 AC - 1

value: mouse mammary tissue

value: triple-negative breast cancer

value: luciferase reporter


title: HeLa cells, empty vector (EV), rep5


title: WT5

value: WT


title: ATF6KO5


title: Pre-recruitment follicle, Bird 5835

description:
AA05
est_counts_genes_kallisto_V2.txt
tpm_values_genes_kallisto_V2.txt

value: Chicken Ovarian Follicle

value: 12 Months


title: HeLa cells, empty vector (EV), rep4


title: Med1_UT_rep2

description: RAW 264.7 cells untreated

data_processing:
Reads were quality filtered according to the illumina pipeline
Single end reads were mapped to the mouse mm10 genome (Illumina's iGenomes reference annotation downloaded from UCSC http://support.illumina.com/sequencing/sequencing_software/igenome.html) by exploiting the mapping steps of ShortStack (Johnson et al. 2016).Briefly, ShortStack exploits bowtie to identify all best-matched alignments for each read. It will compute a probability for each alignment to different loci in the genome. To do so the frequency of uniquely aligned reads mapping within the vicinity of multi-mapping reads is used to redistribute multi-mapping reads accordingly.
Mapped reads were filtered in order to remove randomly placed multi-mappers and unmapped reads using SAMtools standard procedure (version 1.9)(Li et al. 2009).
ChIP-seq peaks were identified using MACS2 (version 2.2.6) with parameters “‐‐keep-dup ‘all’ ‐‐call-summits ‐‐nomodel ‐‐nolambda ‐‐extsize 300”. Reference set of peaks was identified selecting significant peaks per-samples in addition to being consistent between replicated (overlapping area of at least 50% between replicates).
Read counts per samples at the identified loci were retrieved using the R/Bioconductor package GenomicRanges and GenomicAlignment (Lawrence et al. 2013). Sample normalization was achieved by selecting invariant peaks across samples (Gualdrini et al. 2016). Briefly, we modelled the frequency distribution of the differences in reads counts across samples with a log-normal distribution. Peaks laying within 1σ of the best fitted mean difference were considered as invariant and used to normalize the samples.
Assembly: mm10
Supplementary files format and content: bigWig

growth_protocol: RAW 264.7 cells (from ATCC) were cultured in DMEM with 10% North American serum,1% pen/strep (cat. no. P4333, Sigma), and 1% L-Glutamax (cat. no. 35050061, Gibco). HeLa cells (from ATCC) were cultured in DMEM with 10% South American serum, 1% pen/strep and 1% L-Glutamax. Cell lines were authenticated by the Tissue Culture Facility of the European Institute of Oncology using the GenePrint10 system (Promega) and routinely screened for mycoplasma contamination.

extract_protocol:
For MED1 ChIP, 100x106 RAW264.7 cells were fixed with a double cross-linking protocol as previously described (Milan et al., 2019). Briefly, cells were scraped in PBS, incubated for 45 min with 2 mM DSG in PBS, washed twice, and then incubated with 1% formaldehyde in PBS for 10 min followed by quenching with 125 mM glycine. After chromatin shearing by sonication with a Branson Ultrasonics Sonifier, lysates were incubated overnight at 4°C with protein G Dynabeads (cat. no.10009D, Invitrogen) previously coupled with 10ug of MED1 antibody (cat.no. A300-793A, Bethyl). After immunoprecipitation, beads were recovered using a magnetic stand and washed with RIPA buffer (50 mM HEPES-KOH at pH 7.6, 500 mM LiCl, 1 mM EDTA, 1% NP-40, 0.7% Na-deoxycho- late). Immunoprecipitated chromatin was eluted and cross-link-reverted overnight at 65°C. DNA was purified with QIAquick PCR purification kit (cat. no. 28106, Qiagen) and then quantified with QuantiFluor (cat. no. E2670, Promega).
DNA libraries were prepared as previously described (Austenaa et al., 2021). The purified DNA libraries were quantified with the Quantifluor reagent (cat. no. E2670, Promega) and the quality of the size was controlled with the Tapestation instrument (Agilent) using the high-sensitivity assay HD5000 (cat. no. 5067-5592, Agilent). DNA libraries were diluted to a working concentration of 4 nM and 50-bp single reads sequenced on an Illumina Novaseq6000 platform.

treatment_protocol: Cells were treated with lipopolysaccharide (LPS) from E. coli, serotype EH100(Ra) from Alexis (cat. no. ALX-581-010-L002) at 100 ng/mL (RAW 264.7 cells).

value: Mouse monocyte/macrophage-like cells

tag: chip antibody

value: MED1 (A300-793A, Bethyl)

value: untreated


title: WT4

value: Cochlea


title: HeLa cells, empty vector (EV), rep3

value: HeLa cells


title: Med1_UT_rep1

description: RAW 264.7 cells untreated


title: Pre-recruitment follicle, Bird 5826

description:
AA04
est_counts_genes_kallisto_V2.txt
tpm_values_genes_kallisto_V2.txt

value: Bird 5826


title: HeLa cells, gdf6Y, rep2


title: HeLa cells, empty vector (EV), rep2


title: WT3


title: WT2


title: HeLa cells, empty vector (EV), rep1


title: Med1_2hLPS_rep1

description: RAW 264.7 cells stimulated for 2h with LPS (10ng/mL)

value: stimulated for 2h with LPS (10ng/mL)


title: Pre-recruitment follicle, Bird 5802

description:
AA01
est_counts_genes_kallisto_V2.txt
tpm_values_genes_kallisto_V2.txt

value: Bird 5802


title: Mouse 6, abscopal tumor from cryoablation, 2

description: M6 AC - 2

value: Systemic effect of cryoablation


title: ATF6KO1

value: ATF6 Knockout


title: T7-M26-5

status: Public on Nov 18 2024

city: Kensington

first: Orazio

last: Vittorio

address: High St

department: School of Biomedical Sciences, Faculty of Medicine

country: Australia

institute: UNSW Sydney

data_processing:
TMA slides were hybridized with the GeoMx Mouse Whole Transcriptome Atlas (~18,000 targets) to generate FASTQ files.
Assembly: mm10
Supplementary files format and content: *.dcc = digital count conversion files
Supplementary files format and content: Mm_R_NGS_WTA_v1.0.pkc = NanoString Probe Kit Configuration file
Library strategy: Spatial Transcriptomics

source_name: Th-MYCN Tumor

growth_protocol: Th-MYCN transgenic animals were recruited for treatment when a small tumor (3-4mm diameter) was manually palpated.

extract_protocol:
A tissue microarray (TMA) was prepared using 20 Th-MYCN tumor samples (10 control, 10 TEPA-treated) in duplicate, cored at 1mm. Coring sites were chosen at random with areas exhibiting necrosis were excluded prior by an experienced histopathologist using a hematoxylin-eosin stain. The FFPE TMA block was sectioned at 4µm and transferred to a Bond Plus slide (Leica Biosystems). In brief, slides were hybridized with the GeoMx Mouse Whole Transcriptome Atlas followed by immunofluorescent staining with pan-cytokeratin (Thermo Fisher Scientific; #53-9003-82) for identification of tumor cells, smooth muscle actin (Abcam; #ab184675) for extracellular matrix, CD45 (Cell Signaling Technology; #35154) for all hematopoietic cells and DNA GeoMx Nuclear Stain (NanoString; #121303303) for cell nuclei.
The sectioned FFPE TMA block was processed by the NanoString GeoMx DSP Technology Access Program according to manufacturer's instructions.

treatment_protocol: Recruited Th-MYCN animals were treated with saline control or TEPA (400mg/kg) for three or seven days before tumor collection.

value: Th-MYCN Tumor

value: Treatment

tag: infiltration

value: T


title: T3-M21-5


title: T7-M18-5


title: T7-M28-4


title: T3-M13-2


title: T7-M26-4


title: T3-M21-4


title: Pre-recruitment follicle, Bird 5817

description:
AA03
est_counts_genes_kallisto_V2.txt
tpm_values_genes_kallisto_V2.txt

value: Pre-recruitment

value: Bird 5817


title: C-M34-2-10

value: Control

value: F


title: T7-M28-2-6


title: Med1_2hLPS_rep2

value: Mouse monocyte/macrophage-like cells


title: C3-M1-4


title: T3-M14-3-2


title: C-M34-8


title: T7-M11-3


title: C-M34-9


title: T7-M18-2-6


title: C3-M15-4


title: Pre-recruitment follicle, Bird 5810

description:
AA02
est_counts_genes_kallisto_V2.txt
tpm_values_genes_kallisto_V2.txt

value: Chicken Ovarian Follicle

value: 12 Months

value: Bird 5810


title: C-M34-7


title: C3-M15-6


title: T3-M21-2


title: WT1

value: Cochlea

value: WT


title: C3-M15-5


title: T3-M21


title: C-M34-2-4


title: C-M34-2-5


title: C7-M7-2-6


title: C-M34-2-6


title: T3-M14-2-3


title: C7-M7-2-5


title: T3-M14-4


title: T3-M14-2-2


title: T7-M19-3


title: T7-M19


title: T7-M28-2-5


title: T3-M21-3


title: T7-M28-3


title: T3-M4-4


title: T7-M19-2


title: T3-M4-2-2


title: C7-M7-2-4


title: T3-M13-2-2-3


title: T7-M18-3


title: T7-M28


title: T7-M18


title: C3-M27-3


title: T7-M18-4


title: C3-M27


title: C3-M27-2


title: C3-M1-2-2


title: C3-M1-2-3


title: C3-M1-2-4


title: C7-M17-3


title: T3-M4-2-3


title: T3-M13-2-3


title: C7-M17-2


title: C7-M17


title: T3-M13-2-4


title: T7-M26-3


title: T7-M26-2


title: C3-M15


title: C3-M15-2


title: C7-M8


title: T7-M26


title: C3-M22-2


title: C7-M7


title: C3-M15-3


title: C7-M8-3


title: C7-M7-2


title: T3-M21-6


title: C7-M7-3


title: T3-M14-3


title: C-M35-2-3


title: T3-M21-2-2


title: T3-M14


title: T3-M14-2


title: T3-M21-2-3


title: C-M34-2-3


title: C7-M8-2


title: C-M34-2


title: T3-M4-2


title: T3-M13-3


title: T7-M19-2-5


title: T3-M4


title: T3-M4-3


title: T7-M19-2-4


title: T3-M13


title: T7-M28-2-3


title: T7-M28-2


title: C3-M1


title: T7-M28-2-2


title: T7-M18-2-2


title: T7-M11


title: T7-M18-2


title: T7-M11-2


title: C3-M23-2


title: C-M34-2-2


title: Zebrafish, Testicle, Plastic, Replicate 3, Animal 3

city: Cerdanyola del Vallès

first: Gala

last: Pujol

state: Barcelona

address: Carrer de la Vall Moronta, Edificio C, despacho C2/109

country: Spain

institute: UAB (Universidad Autónoma de Barcelona)

data_processing:
Anaconda
The sequencing quality was checked before performing the assembly.
STAR bioconda was used for the assembly
smartools bioconda was used to generate the intermediate files (Sam and Bam)
Counts were obtained from the bam (intermediate) file
Assembly: GRCz11
Supplementary files format and content: tab-delimited text file includes raw counts for each Sample

organism: Danio rerio

source_name: testicles

growth_protocol: Adult zebrafish were maintained at the animal house under standard conditions

extract_protocol:
Snap frozen samples were homogenized in Trizol. Chloroform was added to separate RNA and isopropanol was used to precipitate. After ethanol washing, samples were send to Novogene for library contruction and sequencing.
By manufacturer (Novogene), using poly A enrichment

treatment_protocol: Half of the fish were exposed to polystyrene nanoplastics each 24 hours (added in the water) during 96 hours (accute exposure). The rest were used as controls, so no plastics were added in the water.

value: testicles

value: germline

value: Plastic


title: C-M35-2


title: Zebrafish, Testicle, Plastic, Replicate 2, Animal 2


title: Zebrafish, Testicle, Control, Replicate 2, Animal 2


title: Zebrafish, Testicle, Plastic, Replicate 3, Animal 1


title: T7-M10-2


title: Zebrafish, Testicle, Control, Replicate 1, Animal 2


title: Zebrafish, Testicle, Control, Replicate 3, Animal 1


title: C3-M1-2


title: T3-M13-2-2


title: HN137PCR, H3K27ac, Rep2, Cell188

city: Singapore

first: Lih Feng

last: Cheow

address: 15 Kent Ridge Cres

department: iHealthtech

country: Singapore

institute: National University of Singapore

description:
K27ac_barcodes.txt
K27ac_combined_sorted.bed.gz
K27ac_combined_sorted.bed.gz.tbi

data_processing:
Raw .fastqs of single-cells were mapped to the human hg38 reference genome with bowtie2 v2.3.5.1 and the following settings: --end-to-end --very-sensitive --no-mixed --no-discordant -q --phred33 -I 10 -X 700
The MarkDuplicates tool from GATK v4.1.4.1 was used to mark and remove duplicate reads while samtools v1.10 was used to index the .bam files. Bedtools v2.27.1 was used to convert .bam files to .beds and .bedgraphs
To create Signac fragment files, individual single-cell .bam files were first processed into .bed files with the following columns: chr, start, end, cell barcode, and a fifth column with the number 1, representing that each row combination only occurred once. Individual bed files were concatenated and sorted with bedtools and indexed with tabix.
Assembly: hg38
Supplementary files format and content: Signac fragment input in .bed format, Signac fragment input index file in .tbi format, barcode file used for Signac analysis, H3K4me3 and H3K27ac separately
Library strategy: snCUT&RUN

growth_protocol: Cells were cultured with RPMI medium supplied by 10% Fetal Bovine Serum (FBS) and 1% penicillin/streptomycin. Medium was replaced every 2-3 days. Cells were cultured in 37°C and 5% CO2 and passaged when cultures reached ~90% confluency. Cells were tested for mycoplasma and positive cell lines were quarantined and treated with PlasmocureTM (InvivoGen) according to the manufacturer’s protocols. Cells were confirmed to be mycoplasma negative two weeks after treatment. Treatment was then stopped, and cells were still confirmed to be mycoplasma negative two weeks after treatment cessation. Cells are only used for experiments after being confirmed to be mycoplasma negative two weeks after treatment cessation.

extract_protocol:
Genomic DNA was extracted using the snCUT&RUN protocol
Libraries were construced with the snCUT&RUN protocol
Libraries were pooled and sequenced with Illumina MiSeq

value: Primary patient derived oral cancer cell line

tag: disease state

value: Primary Cisplatin Resistant tumor

tag: antibody

value: H3K27ac (Merck, MABE647)


title: HN137PCR, H3K27ac, Rep2, Cell187


title: HN137PCR, H3K27ac, Rep2, Cell184


title: HN137PCR, H3K27ac, Rep2, Cell181


title: HN137PCR, H3K27ac, Rep2, Cell186


title: HN137PCR, H3K27ac, Rep2, Cell180


title: HN137PCR, H3K27ac, Rep2, Cell178


title: HN137PCR, H3K27ac, Rep2, Cell185


title: HN137PCR, H3K27ac, Rep2, Cell179


title: HN137PCR, H3K27ac, Rep2, Cell177


title: T7-M26-2-6

tag: tissue

value: Th-MYCN Tumor

value: Treatment

value: T


title: HN137PCR, H3K27ac, Rep2, Cell173


title: HN137PCR, H3K27ac, Rep2, Cell176


title: HN137PCR, H3K27ac, Rep2, Cell172


title: HN137PCR, H3K27ac, Rep2, Cell171


title: HN137PCR, H3K27ac, Rep2, Cell174


title: HN137PCR, H3K27ac, Rep2, Cell175


title: HN137PCR, H3K27ac, Rep2, Cell170


title: HN137PCR, H3K27ac, Rep2, Cell164


title: HN137PCR, H3K27ac, Rep2, Cell165


title: HN137PCR, H3K27ac, Rep2, Cell167


title: HN137PCR, H3K27ac, Rep2, Cell169


title: HN137PCR, H3K27ac, Rep2, Cell163


title: HN137PCR, H3K27ac, Rep2, Cell183


title: HN137PCR, H3K27ac, Rep2, Cell182


title: HN137PCR, H3K27ac, Rep2, Cell160


title: HN137PCR, H3K27ac, Rep2, Cell161


title: HN137PCR, H3K27ac, Rep2, Cell159


title: HN137PCR, H3K27ac, Rep2, Cell156


title: HN137PCR, H3K27ac, Rep2, Cell154


title: HN137PCR, H3K27ac, Rep2, Cell157


title: HN137PCR, H3K27ac, Rep2, Cell168


title: HN137PCR, H3K27ac, Rep2, Cell155


title: HN137PCR, H3K27ac, Rep2, Cell149


title: HN137PCR, H3K27ac, Rep2, Cell158


title: HN137PCR, H3K27ac, Rep2, Cell152


title: HN137PCR, H3K27ac, Rep2, Cell148


title: HN137PCR, H3K27ac, Rep2, Cell162


title: HN137PCR, H3K27ac, Rep2, Cell150


title: HN137PCR, H3K27ac, Rep2, Cell151


title: HN137PCR, H3K27ac, Rep2, Cell146


title: HN137PCR, H3K27ac, Rep2, Cell153


title: HN137PCR, H3K27ac, Rep2, Cell144


title: HN137PCR, H3K27ac, Rep2, Cell139


title: HN137PCR, H3K27ac, Rep2, Cell138


title: HN137PCR, H3K27ac, Rep2, Cell166


title: HN137PCR, H3K27ac, Rep2, Cell142


title: HN137PCR, H3K27ac, Rep2, Cell137


title: HN137PCR, H3K27ac, Rep2, Cell136


title: HN137PCR, H3K27ac, Rep2, Cell141


title: HN137PCR, H3K27ac, Rep2, Cell143


title: HN137PCR, H3K27ac, Rep2, Cell135


title: HN137PCR, H3K27ac, Rep2, Cell147


title: HN137PCR, H3K27ac, Rep2, Cell134


title: HN137PCR, H3K27ac, Rep2, Cell133


title: HN137PCR, H3K27ac, Rep2, Cell131


title: HN137PCR, H3K27ac, Rep2, Cell132


title: HN137PCR, H3K27ac, Rep2, Cell129


title: HN137PCR, H3K27ac, Rep2, Cell130


title: HN137PCR, H3K27ac, Rep2, Cell140


title: HN137PCR, H3K27ac, Rep2, Cell126


title: HN137PCR, H3K27ac, Rep2, Cell125


title: HN137PCR, H3K27ac, Rep2, Cell128


title: HN137PCR, H3K27ac, Rep2, Cell124


title: HN137PCR, H3K27ac, Rep2, Cell122


title: HN137PCR, H3K27ac, Rep2, Cell123


title: HN137PCR, H3K27ac, Rep2, Cell120


title: HN137PCR, H3K27ac, Rep2, Cell121


title: HN137PCR, H3K27ac, Rep2, Cell113


title: HN137PCR, H3K27ac, Rep2, Cell119


title: HN137PCR, H3K27ac, Rep2, Cell118


title: HN137PCR, H3K27ac, Rep2, Cell110


title: HN137PCR, H3K27ac, Rep2, Cell116


title: HN137PCR, H3K27ac, Rep2, Cell112


title: HN137PCR, H3K27ac, Rep2, Cell115


title: HN137PCR, H3K27ac, Rep2, Cell114


title: HN137PCR, H3K27ac, Rep2, Cell127


title: HN137PCR, H3K27ac, Rep2, Cell104


title: HN137PCR, H3K27ac, Rep2, Cell117


title: HN137PCR, H3K27ac, Rep2, Cell109


title: HN137PCR, H3K27ac, Rep2, Cell107


title: HN137PCR, H3K27ac, Rep2, Cell108


title: HN137PCR, H3K27ac, Rep2, Cell100


title: HN137PCR, H3K27ac, Rep2, Cell106


title: HN137PCR, H3K27ac, Rep2, Cell91


title: HN137PCR, H3K27ac, Rep2, Cell111


title: HN137PCR, H3K27ac, Rep2, Cell89


title: HN137PCR, H3K27ac, Rep2, Cell97


title: HN137PCR, H3K27ac, Rep2, Cell103


title: HN137PCR, H3K27ac, Rep2, Cell101


title: HN137PCR, H3K27ac, Rep2, Cell99


title: HN137PCR, H3K27ac, Rep2, Cell102


title: HN137PCR, H3K27ac, Rep2, Cell90


title: HN137PCR, H3K27ac, Rep2, Cell92


title: HN137PCR, H3K27ac, Rep2, Cell86


title: HN137PCR, H3K27ac, Rep2, Cell88


title: HN137PCR, H3K27ac, Rep2, Cell85


title: HN137PCR, H3K27ac, Rep2, Cell82


title: HN137PCR, H3K27ac, Rep2, Cell84


title: HN137PCR, H3K27ac, Rep2, Cell81


title: HN137PCR, H3K27ac, Rep2, Cell83


title: HN137PCR, H3K27ac, Rep2, Cell80


title: HN137PCR, H3K27ac, Rep2, Cell105


title: HN137PCR, H3K27ac, Rep2, Cell98


title: HN137PCR, H3K27ac, Rep2, Cell79


title: HN137PCR, H3K27ac, Rep2, Cell78


title: HN137PCR, H3K27ac, Rep2, Cell77


title: HN137PCR, H3K27ac, Rep2, Cell74


title: HN137PCR, H3K27ac, Rep2, Cell75


title: HN137PCR, H3K27ac, Rep2, Cell76


title: HN137PCR, H3K27ac, Rep2, Cell73


title: HN137PCR, H3K27ac, Rep2, Cell71


title: HN137PCR, H3K27ac, Rep2, Cell72


title: HN137PCR, H3K27ac, Rep2, Cell70


title: HN137PCR, H3K27ac, Rep2, Cell69


title: HN137PCR, H3K27ac, Rep2, Cell87


title: HN137PCR, H3K27ac, Rep2, Cell68


title: HN137PCR, H3K27ac, Rep2, Cell66


title: HN137PCR, H3K27ac, Rep2, Cell64


title: HN137PCR, H3K27ac, Rep2, Cell65


title: HN137PCR, H3K27ac, Rep2, Cell63


title: HN137PCR, H3K27ac, Rep2, Cell67


title: HN137PCR, H3K27ac, Rep2, Cell62


title: HN137PCR, H3K27ac, Rep2, Cell61


title: HN137PCR, H3K27ac, Rep2, Cell60


title: HN137PCR, H3K27ac, Rep2, Cell59


title: HN137PCR, H3K27ac, Rep2, Cell56


title: HN137PCR, H3K27ac, Rep2, Cell58


title: HN137PCR, H3K27ac, Rep2, Cell57


title: HN137PCR, H3K27ac, Rep2, Cell54


title: HN137PCR, H3K27ac, Rep2, Cell55


title: HN137PCR, H3K27ac, Rep2, Cell52


title: HN137PCR, H3K27ac, Rep2, Cell53


title: HN137PCR, H3K27ac, Rep2, Cell50


title: HN137PCR, H3K27ac, Rep2, Cell48


title: HN137PCR, H3K27ac, Rep2, Cell47


title: HN137PCR, H3K27ac, Rep2, Cell49


title: HN137PCR, H3K27ac, Rep2, Cell41


title: HN137PCR, H3K27ac, Rep2, Cell44


title: HN137PCR, H3K27ac, Rep2, Cell42


title: HN137PCR, H3K27ac, Rep2, Cell45


title: HN137PCR, H3K27ac, Rep2, Cell43


title: HN137PCR, H3K27ac, Rep2, Cell39


title: HN137PCR, H3K27ac, Rep2, Cell46


title: HN137PCR, H3K27ac, Rep2, Cell38


title: HN137PCR, H3K27ac, Rep2, Cell36


title: HN137PCR, H3K27ac, Rep2, Cell40


title: HN137PCR, H3K27ac, Rep2, Cell34


title: HN137PCR, H3K27ac, Rep2, Cell35


title: HN137PCR, H3K27ac, Rep2, Cell37


title: HN137PCR, H3K27ac, Rep2, Cell32


title: T7-M10


title: HN137PCR, H3K27ac, Rep2, Cell31


title: HN137PCR, H3K27ac, Rep2, Cell33


title: HN137PCR, H3K27ac, Rep2, Cell30


title: HN137PCR, H3K27ac, Rep2, Cell26


title: HN137PCR, H3K27ac, Rep2, Cell27


title: HN137PCR, H3K27ac, Rep2, Cell28


title: HN137PCR, H3K27ac, Rep2, Cell24


title: HN137PCR, H3K27ac, Rep2, Cell145


title: HN137PCR, H3K27ac, Rep2, Cell29


title: HN137PCR, H3K27ac, Rep2, Cell25


title: HN137PCR, H3K27ac, Rep2, Cell22


title: HN137PCR, H3K27ac, Rep2, Cell21


title: HN137PCR, H3K27ac, Rep2, Cell20


title: HN137PCR, H3K27ac, Rep2, Cell23


title: HN137PCR, H3K27ac, Rep2, Cell19


title: HN137PCR, H3K27ac, Rep2, Cell18


title: HN137PCR, H3K27ac, Rep2, Cell16


title: HN137PCR, H3K27ac, Rep2, Cell13


title: HN137PCR, H3K27ac, Rep2, Cell14


title: HN137PCR, H3K27ac, Rep2, Cell15


title: HN137PCR, H3K27ac, Rep2, Cell12


title: HN137PCR, H3K27ac, Rep2, Cell11


title: HN137PCR, H3K27ac, Rep2, Cell10


title: HN137PCR, H3K27ac, Rep2, Cell8


title: HN137PCR, H3K27ac, Rep2, Cell7


title: HN137PCR, H3K27ac, Rep2, Cell6


title: HN137PCR, H3K27ac, Rep2, Cell3


title: HN137PCR, H3K27ac, Rep2, Cell4


title: HN137PCR, H3K27ac, Rep2, Cell2


title: HN137PCR, H3K27ac, Rep2, Cell1


title: HN137PCR, H3K27ac, Rep1, Cell188


title: HN137PCR, H3K27ac, Rep2, Cell5


title: HN137PCR, H3K27ac, Rep1, Cell187


title: HN137PCR, H3K27ac, Rep1, Cell185


title: HN137PCR, H3K27ac, Rep1, Cell186


title: HN137PCR, H3K27ac, Rep2, Cell51


title: HN137PCR, H3K27ac, Rep1, Cell184


title: HN137PCR, H3K27ac, Rep1, Cell180


title: HN137PCR, H3K27ac, Rep2, Cell17


title: HN137PCR, H3K27ac, Rep1, Cell181


title: HN137PCR, H3K27ac, Rep1, Cell182


title: HN137PCR, H3K27ac, Rep1, Cell178


title: HN137PCR, H3K27ac, Rep2, Cell9


title: HN137PCR, H3K27ac, Rep1, Cell177


title: HN137PCR, H3K27ac, Rep1, Cell175


title: HN137PCR, H3K27ac, Rep1, Cell173


title: HN137PCR, H3K27ac, Rep1, Cell171


title: HN137PCR, H3K27ac, Rep1, Cell176


title: HN137PCR, H3K27ac, Rep1, Cell169


title: HN137PCR, H3K27ac, Rep1, Cell170


title: HN137PCR, H3K27ac, Rep1, Cell168


title: HN137PCR, H3K27ac, Rep1, Cell165


title: HN137PCR, H3K27ac, Rep1, Cell166


title: HN137PCR, H3K27ac, Rep1, Cell160


title: HN137PCR, H3K27ac, Rep1, Cell161


title: HN137PCR, H3K27ac, Rep1, Cell162


title: HN137PCR, H3K27ac, Rep1, Cell159


title: HN137PCR, H3K27ac, Rep1, Cell158


title: HN137PCR, H3K27ac, Rep1, Cell164


title: HN137PCR, H3K27ac, Rep1, Cell163


title: HN137PCR, H3K27ac, Rep1, Cell183


title: HN137PCR, H3K27ac, Rep1, Cell157


title: HN137PCR, H3K27ac, Rep1, Cell154


title: HN137PCR, H3K27ac, Rep1, Cell153


title: HN137PCR, H3K27ac, Rep1, Cell174


title: HN137PCR, H3K27ac, Rep1, Cell172


title: HN137PCR, H3K27ac, Rep1, Cell149


title: HN137PCR, H3K27ac, Rep1, Cell150


title: HN137PCR, H3K27ac, Rep1, Cell148


title: HN137PCR, H3K27ac, Rep1, Cell179


title: HN137PCR, H3K27ac, Rep1, Cell155


title: HN137PCR, H3K27ac, Rep1, Cell167


title: HN137PCR, H3K27ac, Rep1, Cell146


title: HN137PCR, H3K27ac, Rep1, Cell145


title: HN137PCR, H3K27ac, Rep1, Cell144


title: HN137PCR, H3K27ac, Rep1, Cell151


title: HN137PCR, H3K27ac, Rep1, Cell140


title: HN137PCR, H3K27ac, Rep1, Cell143


title: HN137PCR, H3K27ac, Rep1, Cell138


title: HN137PCR, H3K27ac, Rep1, Cell141


title: HN137PCR, H3K27ac, Rep1, Cell139


title: HN137PCR, H3K27ac, Rep1, Cell137


title: HN137PCR, H3K27ac, Rep1, Cell142


title: HN137PCR, H3K27ac, Rep1, Cell134


title: HN137PCR, H3K27ac, Rep1, Cell136


title: HN137PCR, H3K27ac, Rep1, Cell135


title: HN137PCR, H3K27ac, Rep1, Cell156


title: HN137PCR, H3K27ac, Rep1, Cell133


title: HN137PCR, H3K27ac, Rep1, Cell131


title: HN137PCR, H3K27ac, Rep1, Cell152


title: HN137PCR, H3K27ac, Rep1, Cell132


title: HN137PCR, H3K27ac, Rep1, Cell128


title: HN137PCR, H3K27ac, Rep1, Cell129


title: HN137PCR, H3K27ac, Rep1, Cell130


title: HN137PCR, H3K27ac, Rep1, Cell147


title: HN137PCR, H3K27ac, Rep1, Cell121


title: HN137PCR, H3K27ac, Rep1, Cell126


title: HN137PCR, H3K27ac, Rep1, Cell125


title: HN137PCR, H3K27ac, Rep1, Cell119


title: HN137PCR, H3K27ac, Rep1, Cell123


title: HN137PCR, H3K27ac, Rep1, Cell114


title: HN137PCR, H3K27ac, Rep1, Cell115


title: HN137PCR, H3K27ac, Rep1, Cell117


title: HN137PCR, H3K27ac, Rep1, Cell113


title: HN137PCR, H3K27ac, Rep1, Cell111


title: HN137PCR, H3K27ac, Rep1, Cell109


title: HN137PCR, H3K27ac, Rep1, Cell116


title: HN137PCR, H3K27ac, Rep1, Cell108


title: HN137PCR, H3K27ac, Rep1, Cell105


title: HN137PCR, H3K27ac, Rep1, Cell127


title: HN137PCR, H3K27ac, Rep1, Cell104


title: HN137PCR, H3K27ac, Rep1, Cell107


title: HN137PCR, H3K27ac, Rep1, Cell102


title: HN137PCR, H3K27ac, Rep1, Cell103


title: HN137PCR, H3K27ac, Rep1, Cell106


title: HN137PCR, H3K27ac, Rep1, Cell100


title: HN137PCR, H3K27ac, Rep1, Cell99


title: HN137PCR, H3K27ac, Rep1, Cell101


title: HN137PCR, H3K27ac, Rep1, Cell124


title: HN137PCR, H3K27ac, Rep1, Cell98


title: HN137PCR, H3K27ac, Rep1, Cell122


title: HN137PCR, H3K27ac, Rep1, Cell97


title: HN137PCR, H3K27ac, Rep1, Cell92


title: HN137PCR, H3K27ac, Rep1, Cell91


title: HN137PCR, H3K27ac, Rep1, Cell90


title: HN137PCR, H3K27ac, Rep1, Cell110


title: HN137PCR, H3K27ac, Rep1, Cell112


title: HN137PCR, H3K27ac, Rep1, Cell89


title: HN137PCR, H3K27ac, Rep1, Cell87


title: HN137PCR, H3K27ac, Rep1, Cell86


title: HN137PCR, H3K27ac, Rep1, Cell84


title: HN137PCR, H3K27ac, Rep1, Cell85


title: HN137PCR, H3K27ac, Rep1, Cell83


title: HN137PCR, H3K27ac, Rep1, Cell82


title: HN137PCR, H3K27ac, Rep1, Cell81


title: HN137PCR, H3K27ac, Rep1, Cell79


title: HN137PCR, H3K27ac, Rep1, Cell80


title: HN137PCR, H3K27ac, Rep1, Cell76


title: HN137PCR, H3K27ac, Rep1, Cell120


title: HN137PCR, H3K27ac, Rep1, Cell77


title: HN137PCR, H3K27ac, Rep1, Cell74


title: HN137PCR, H3K27ac, Rep1, Cell78


title: HN137PCR, H3K27ac, Rep1, Cell75


title: HN137PCR, H3K27ac, Rep1, Cell72


title: HN137PCR, H3K27ac, Rep1, Cell68


title: HN137PCR, H3K27ac, Rep1, Cell70


title: HN137PCR, H3K27ac, Rep1, Cell71


title: HN137PCR, H3K27ac, Rep1, Cell69


title: HN137PCR, H3K27ac, Rep1, Cell67


title: HN137PCR, H3K27ac, Rep1, Cell66


title: HN137PCR, H3K27ac, Rep1, Cell64


title: HN137PCR, H3K27ac, Rep1, Cell88


title: HN137PCR, H3K27ac, Rep1, Cell63


title: HN137PCR, H3K27ac, Rep1, Cell61


title: HN137PCR, H3K27ac, Rep1, Cell62


title: HN137PCR, H3K27ac, Rep1, Cell65


title: HN137PCR, H3K27ac, Rep1, Cell60


title: HN137PCR, H3K27ac, Rep1, Cell59


title: HN137PCR, H3K27ac, Rep1, Cell58


title: HN137PCR, H3K27ac, Rep1, Cell53


title: HN137PCR, H3K27ac, Rep1, Cell52


title: HN137PCR, H3K27ac, Rep1, Cell73


title: HN137PCR, H3K27ac, Rep1, Cell54


title: HN137PCR, H3K27ac, Rep1, Cell57


title: HN137PCR, H3K27ac, Rep1, Cell118


title: HN137PCR, H3K27ac, Rep1, Cell49


title: HN137PCR, H3K27ac, Rep1, Cell48


title: HN137PCR, H3K27ac, Rep1, Cell51


title: HN137PCR, H3K27ac, Rep1, Cell50


title: HN137PCR, H3K27ac, Rep1, Cell45


title: HN137PCR, H3K27ac, Rep1, Cell47


title: HN137PCR, H3K27ac, Rep1, Cell46


title: HN137PCR, H3K27ac, Rep1, Cell42


title: HN137PCR, H3K27ac, Rep1, Cell41


title: HN137PCR, H3K27ac, Rep1, Cell44


title: HN137PCR, H3K27ac, Rep1, Cell43


title: HN137PCR, H3K27ac, Rep1, Cell40


title: HN137PCR, H3K27ac, Rep1, Cell38


title: HN137PCR, H3K27ac, Rep1, Cell55


title: HN137PCR, H3K27ac, Rep1, Cell56


title: HN137PCR, H3K27ac, Rep1, Cell33


title: HN137PCR, H3K27ac, Rep1, Cell37


title: HN137PCR, H3K27ac, Rep1, Cell36


title: HN137PCR, H3K27ac, Rep1, Cell35


title: HN137PCR, H3K27ac, Rep1, Cell31


title: HN137PCR, H3K27ac, Rep1, Cell34


title: HN137PCR, H3K27ac, Rep1, Cell27


title: HN137PCR, H3K27ac, Rep1, Cell28


title: HN137PCR, H3K27ac, Rep1, Cell30


title: HN137PCR, H3K27ac, Rep1, Cell24


title: HN137PCR, H3K27ac, Rep1, Cell29


title: HN137PCR, H3K27ac, Rep1, Cell23


title: HN137PCR, H3K27ac, Rep1, Cell21


title: HN137PCR, H3K27ac, Rep1, Cell26


title: HN137PCR, H3K27ac, Rep1, Cell39


title: HN137PCR, H3K27ac, Rep1, Cell19


title: HN137PCR, H3K27ac, Rep1, Cell22


title: HN137PCR, H3K27ac, Rep1, Cell17


title: HN137PCR, H3K27ac, Rep1, Cell16


title: HN137PCR, H3K27ac, Rep1, Cell15


title: HN137PCR, H3K27ac, Rep1, Cell12


title: HN137PCR, H3K27ac, Rep1, Cell13


title: HN137PCR, H3K27ac, Rep1, Cell14


title: HN137PCR, H3K27ac, Rep1, Cell32


title: HN137PCR, H3K27ac, Rep1, Cell11


title: HN137PCR, H3K27ac, Rep1, Cell25


title: HN137PCR, H3K27ac, Rep1, Cell10


title: HN137PCR, H3K27ac, Rep1, Cell7


title: HN137PCR, H3K27ac, Rep1, Cell5


title: HN137PCR, H3K27ac, Rep1, Cell8


title: HN137PCR, H3K27ac, Rep1, Cell6


title: HN137PCR, H3K27ac, Rep1, Cell4


title: HN137PCR, H3K27ac, Rep1, Cell3


title: HN137PCR, H3K27ac, Rep1, Cell20


title: HN137Met, H3K27ac, Rep1, Cell188

value: Metastatic tumor


title: HN137Met, H3K27ac, Rep1, Cell187


title: HN137Met, H3K27ac, Rep1, Cell186


title: HN137PCR, H3K27ac, Rep1, Cell2


title: HN137PCR, H3K27ac, Rep1, Cell18


title: HN137Met, H3K27ac, Rep1, Cell185


title: HN137PCR, H3K27ac, Rep1, Cell9


title: HN137Met, H3K27ac, Rep1, Cell184


title: HN137Met, H3K27ac, Rep1, Cell182


title: HN137Met, H3K27ac, Rep1, Cell183


title: HN137Met, H3K27ac, Rep1, Cell181


title: HN137Met, H3K27ac, Rep1, Cell179


title: HN137Met, H3K27ac, Rep1, Cell180


title: HN137Met, H3K27ac, Rep1, Cell178


title: HN137Met, H3K27ac, Rep1, Cell177


title: HN137Met, H3K27ac, Rep1, Cell175


title: HN137Met, H3K27ac, Rep1, Cell176


title: HN137Met, H3K27ac, Rep1, Cell174


title: HN137Met, H3K27ac, Rep1, Cell173


title: HN137Met, H3K27ac, Rep1, Cell170


title: HN137Met, H3K27ac, Rep1, Cell168


title: HN137Met, H3K27ac, Rep1, Cell167


title: HN137Met, H3K27ac, Rep1, Cell166


title: HN137Met, H3K27ac, Rep1, Cell171


title: HN137Met, H3K27ac, Rep1, Cell169


title: HN137PCR, H3K27ac, Rep1, Cell1


title: HN137Met, H3K27ac, Rep1, Cell165


title: HN137Met, H3K27ac, Rep1, Cell164


title: HN137Met, H3K27ac, Rep1, Cell161


title: HN137Met, H3K27ac, Rep1, Cell160


title: HN137Met, H3K27ac, Rep1, Cell159


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title: HN137Met, H3K27ac, Rep1, Cell158


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title: HN137Met, H3K27ac, Rep1, Cell153


title: HN137Met, H3K27ac, Rep1, Cell151


title: HN137Met, H3K27ac, Rep1, Cell150


title: HN137Met, H3K27ac, Rep1, Cell152


title: HN137Met, H3K27ac, Rep1, Cell148


title: HN137Met, H3K27ac, Rep1, Cell149


title: HN137Met, H3K27ac, Rep1, Cell172


title: HN137Met, H3K27ac, Rep1, Cell146


title: HN137Met, H3K27ac, Rep1, Cell147


title: HN137Met, H3K27ac, Rep1, Cell144


title: HN137Met, H3K27ac, Rep1, Cell145


title: HN137Met, H3K27ac, Rep1, Cell143


title: HN137Met, H3K27ac, Rep1, Cell139


title: HN137Met, H3K27ac, Rep1, Cell142


title: HN137Met, H3K27ac, Rep1, Cell140


title: HN137Met, H3K27ac, Rep1, Cell162


title: HN137Met, H3K27ac, Rep1, Cell138


title: HN137Met, H3K27ac, Rep1, Cell137


title: HN137Met, H3K27ac, Rep1, Cell157


title: HN137Met, H3K27ac, Rep1, Cell135


title: HN137Met, H3K27ac, Rep1, Cell141


title: HN137Met, H3K27ac, Rep1, Cell133


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title: HN137Met, H3K27ac, Rep1, Cell132


title: HN137Met, H3K27ac, Rep1, Cell129


title: HN137Met, H3K27ac, Rep1, Cell128


title: HN137Met, H3K27ac, Rep1, Cell126


title: HN137Met, H3K27ac, Rep1, Cell125


title: HN137Met, H3K27ac, Rep1, Cell123


title: HN137Met, H3K27ac, Rep1, Cell131


title: HN137Met, H3K27ac, Rep1, Cell127


title: HN137Met, H3K27ac, Rep1, Cell120


title: HN137Met, H3K27ac, Rep1, Cell117


title: HN137Met, H3K27ac, Rep1, Cell118


title: HN137Met, H3K27ac, Rep1, Cell122


title: HN137Met, H3K27ac, Rep1, Cell124


title: HN137Met, H3K27ac, Rep1, Cell119


title: HN137Met, H3K27ac, Rep1, Cell116


title: HN137Met, H3K27ac, Rep1, Cell136


title: HN137Met, H3K27ac, Rep1, Cell115


title: HN137Met, H3K27ac, Rep1, Cell114


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title: HN137Met, H3K27ac, Rep1, Cell121


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title: HN137Met, H3K27ac, Rep1, Cell134


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title: HN137Met, H3K27ac, Rep1, Cell108


title: HN137Met, H3K27ac, Rep1, Cell106


title: HN137Met, H3K27ac, Rep1, Cell104


title: HN137Met, H3K27ac, Rep1, Cell109


title: HN137Met, H3K27ac, Rep1, Cell105


title: HN137Met, H3K27ac, Rep1, Cell103


title: HN137Met, H3K27ac, Rep1, Cell102


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title: HN137Met, H3K27ac, Rep1, Cell97


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title: HN137Met, H3K27ac, Rep1, Cell89


title: HN137Met, H3K27ac, Rep1, Cell88


title: HN137Met, H3K27ac, Rep1, Cell85


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title: HN137Met, H3K27ac, Rep1, Cell77


title: HN137Met, H3K27ac, Rep1, Cell76


title: HN137Met, H3K27ac, Rep1, Cell100


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title: HN137Met, H3K27ac, Rep1, Cell57


title: HN137Met, H3K27ac, Rep1, Cell58


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title: HN137Met, H3K27ac, Rep1, Cell47


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title: HN137Met, H3K27ac, Rep1, Cell51


title: HN137Met, H3K27ac, Rep1, Cell45


title: HN137Met, H3K27ac, Rep1, Cell65


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title: HN137Met, H3K27ac, Rep1, Cell44


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title: HN137Met, H3K27ac, Rep1, Cell24


title: HN137Met, H3K27ac, Rep1, Cell21


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title: HN137Met, H3K27ac, Rep1, Cell17


title: HN137Met, H3K27ac, Rep1, Cell20


title: HN137Met, H3K27ac, Rep1, Cell16


title: HN137Met, H3K27ac, Rep1, Cell15


title: HN137Met, H3K27ac, Rep1, Cell10


title: HN137Met, H3K27ac, Rep1, Cell12


title: HN137Met, H3K27ac, Rep1, Cell34


title: HN137Met, H3K27ac, Rep1, Cell9


title: HN137Met, H3K27ac, Rep1, Cell8


title: HN137Met, H3K27ac, Rep1, Cell14


title: HN137Met, H3K27ac, Rep1, Cell11


title: HN137Met, H3K27ac, Rep1, Cell29


title: HN137Met, H3K27ac, Rep1, Cell4


title: HN137Met, H3K27ac, Rep1, Cell1


title: HN137Pri, H3K27ac, Rep2, Cell188

value: Primary tumor


title: HN137Met, H3K27ac, Rep1, Cell5


title: HN137Met, H3K27ac, Rep1, Cell19


title: HN137Met, H3K27ac, Rep1, Cell6


title: HN137Pri, H3K27ac, Rep2, Cell185


title: HN137Pri, H3K27ac, Rep2, Cell187


title: HN137Pri, H3K27ac, Rep2, Cell184


title: HN137Pri, H3K27ac, Rep2, Cell186


title: HN137Met, H3K27ac, Rep1, Cell13


title: HN137Pri, H3K27ac, Rep2, Cell183


title: HN137Pri, H3K27ac, Rep2, Cell182


title: HN137Pri, H3K27ac, Rep2, Cell181


title: HN137Met, H3K27ac, Rep1, Cell18


title: HN137Pri, H3K27ac, Rep2, Cell179


title: HN137Pri, H3K27ac, Rep2, Cell178


title: HN137Pri, H3K27ac, Rep2, Cell180


title: HN137Pri, H3K27ac, Rep2, Cell177


title: HN137Met, H3K27ac, Rep1, Cell7


title: HN137Met, H3K27ac, Rep1, Cell2


title: HN137Met, H3K27ac, Rep1, Cell3


title: HN137Pri, H3K27ac, Rep2, Cell176


title: HN137Pri, H3K27ac, Rep2, Cell175


title: HN137Pri, H3K27ac, Rep2, Cell174


title: HN137Pri, H3K27ac, Rep2, Cell171


title: HN137Pri, H3K27ac, Rep2, Cell173


title: HN137Pri, H3K27ac, Rep2, Cell172


title: HN137Pri, H3K27ac, Rep2, Cell170


title: HN137Pri, H3K27ac, Rep2, Cell169


title: HN137Pri, H3K27ac, Rep2, Cell167


title: HN137Pri, H3K27ac, Rep2, Cell166


title: HN137Pri, H3K27ac, Rep2, Cell168


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title: HN137Pri, H3K27ac, Rep2, Cell153


title: HN137Pri, H3K27ac, Rep2, Cell151


title: HN137Pri, H3K27ac, Rep2, Cell149


title: HN137Pri, H3K27ac, Rep2, Cell150


title: HN137Pri, H3K27ac, Rep2, Cell148


title: HN137Pri, H3K27ac, Rep2, Cell144


title: HN137Pri, H3K27ac, Rep2, Cell147


title: HN137Pri, H3K27ac, Rep2, Cell145


title: HN137Pri, H3K27ac, Rep2, Cell146


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title: HN137Pri, H3K27ac, Rep2, Cell143


title: HN137Pri, H3K27ac, Rep2, Cell139


title: HN137Pri, H3K27ac, Rep2, Cell165


title: HN137Pri, H3K27ac, Rep2, Cell142


title: HN137Pri, H3K27ac, Rep2, Cell163


title: HN137Pri, H3K27ac, Rep2, Cell136


title: HN137Pri, H3K27ac, Rep2, Cell137


title: HN137Pri, H3K27ac, Rep2, Cell138


title: HN137Pri, H3K27ac, Rep2, Cell156


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title: HN137Pri, H3K27ac, Rep2, Cell135


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title: HN137Pri, H3K27ac, Rep2, Cell131


title: HN137Pri, H3K27ac, Rep2, Cell129


title: HN137Pri, H3K27ac, Rep2, Cell133


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title: HN137Pri, H3K27ac, Rep2, Cell127


title: HN137Pri, H3K27ac, Rep2, Cell126


title: HN137Pri, H3K27ac, Rep2, Cell124


title: HN137Pri, H3K27ac, Rep2, Cell121


title: HN137Pri, H3K27ac, Rep2, Cell123


title: HN137Pri, H3K27ac, Rep2, Cell122


title: HN137Pri, H3K27ac, Rep2, Cell140


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title: HN137Pri, H3K27ac, Rep2, Cell116


title: HN137Pri, H3K27ac, Rep2, Cell118


title: HN137Pri, H3K27ac, Rep2, Cell120


title: HN137Pri, H3K27ac, Rep2, Cell115


title: HN137Pri, H3K27ac, Rep2, Cell119


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title: HN137Pri, H3K27ac, Rep2, Cell111


title: HN137Pri, H3K27ac, Rep2, Cell108


title: HN137Pri, H3K27ac, Rep2, Cell110


title: HN137Pri, H3K27ac, Rep2, Cell107


title: HN137Pri, H3K27ac, Rep2, Cell104


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title: HN137Pri, H3K27ac, Rep2, Cell101


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title: HN137Pri, H3K27ac, Rep2, Cell125


title: HN137Pri, H3K27ac, Rep2, Cell98


title: HN137Pri, H3K27ac, Rep2, Cell92


title: HN137Pri, H3K27ac, Rep2, Cell91


title: HN137Pri, H3K27ac, Rep2, Cell89


title: HN137Pri, H3K27ac, Rep2, Cell88


title: HN137Pri, H3K27ac, Rep2, Cell112


title: HN137Pri, H3K27ac, Rep2, Cell85


title: HN137Pri, H3K27ac, Rep2, Cell84


title: HN137Pri, H3K27ac, Rep2, Cell83


title: HN137Pri, H3K27ac, Rep2, Cell109


title: HN137Pri, H3K27ac, Rep2, Cell90


title: HN137Pri, H3K27ac, Rep2, Cell80


title: HN137Pri, H3K27ac, Rep2, Cell75


title: HN137Pri, H3K27ac, Rep2, Cell77


title: HN137Pri, H3K27ac, Rep2, Cell69


title: HN137Pri, H3K27ac, Rep2, Cell72


title: HN137Pri, H3K27ac, Rep2, Cell71


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title: HN137Pri, H3K27ac, Rep2, Cell81


title: HN137Pri, H3K27ac, Rep2, Cell78


title: HN137Pri, H3K27ac, Rep2, Cell76


title: HN137Pri, H3K27ac, Rep2, Cell79


title: HN137Pri, H3K27ac, Rep2, Cell68


title: HN137Pri, H3K27ac, Rep2, Cell73


title: HN137Pri, H3K27ac, Rep2, Cell67


title: HN137Pri, H3K27ac, Rep2, Cell100


title: HN137Pri, H3K27ac, Rep2, Cell66


title: HN137Pri, H3K27ac, Rep2, Cell65


title: HN137Pri, H3K27ac, Rep2, Cell64


title: HN137Pri, H3K27ac, Rep2, Cell63


title: HN137Pri, H3K27ac, Rep2, Cell61


title: HN137Pri, H3K27ac, Rep2, Cell62


title: HN137Pri, H3K27ac, Rep2, Cell59


title: HN137Pri, H3K27ac, Rep2, Cell86


title: HN137Pri, H3K27ac, Rep2, Cell58


title: HN137Pri, H3K27ac, Rep2, Cell87


title: HN137Pri, H3K27ac, Rep2, Cell56


title: HN137Pri, H3K27ac, Rep2, Cell70


title: HN137Pri, H3K27ac, Rep2, Cell55


title: HN137Pri, H3K27ac, Rep2, Cell47


title: HN137Pri, H3K27ac, Rep2, Cell54


title: HN137Pri, H3K27ac, Rep2, Cell52


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title: HN137Pri, H3K27ac, Rep2, Cell51


title: HN137Pri, H3K27ac, Rep2, Cell46


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title: HN137Pri, H3K27ac, Rep2, Cell33


title: HN137Pri, H3K27ac, Rep2, Cell41


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title: HN137Pri, H3K27ac, Rep2, Cell39


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title: HN137Pri, H3K27ac, Rep2, Cell30


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title: HN137Pri, H3K27ac, Rep2, Cell20


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title: HN137Pri, H3K27ac, Rep1, Cell172


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title: HN137Pri, H3K27ac, Rep1, Cell178


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title: HN137Pri, H3K27ac, Rep1, Cell177


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title: HN137Pri, H3K27ac, Rep1, Cell65


title: HN137Pri, H3K27ac, Rep1, Cell61