title: 9m_Female_D12_3


title: 3m_Male_D28_3

status: Public on Jan 29 2025

type: SRA

city: Bristol

first: Alison

middle: Jane

last: Clare

address: University Walk

country: United Kingdom

institute: University of Bristol

library_source: transcriptomic

data_processing:
The Illumina NextSeq 500/550 High Output v2 kit (75 cycles) on an Illumina NextSeq 500 Sequencing System was used to sequence samples, to depths of up to 2.9 million single-end 75 nt length reads per sample. NextSeq Control Software v2.0 (NCS) and Real-Time Analysis Software v2 (RTA), were used for image analysis, base calling, and generation of sequence reads, before conversion to FASTQ files using the bcl2fastq2 v2.20 software (Illumina Inc.), producing four FASTQ files per sample.
Data were processed to read counts using Galaxy (https://academic.oup.com/nar/article/50/W1/W345/6572001): STAR (v2.7.8a) was used to map to reference index mm10. Resulting bam files were concatenated using mergeSAMfiles (v2.18.2.1) and read counts determined using feature counts (v2.0.1) with refGene (https://hgdownload.soe.ucsc.edu/goldenPath/mm10/bigZips/genes/) for annotation.
Exported raw counts were further processed in R studio (v 2022.12.0+353 and R v4.2.2): combatseq (sva package) was used to correct for batch effect from collection days.
Assembly: mm10
Supplementary files format and content: comma seperated value file containing raw counts for each sample
Supplementary files format and content: comma seperated value file containing raw counts for each sample after combatseq batch correction

molecule: polyA RNA

organism: Mus musculus

source_name: Retina

extract_protocol:
Exactly 600 microglia were sorted from mechanically dissociated retinas (kept ice cold) directly into lysis buffer from the SMART-seq v4 kit. All samples were collected within 2 h from cull. Each batch was randomised to include a mix of all conditions to mitigate batch effects of sort and cDNA preparation. Samples were collected over two days, with all samples collected in one day processed to cDNA preparations together (sorted samples were stored in lysis buffer on ice until all samples were collected).
The SMART-Seq v4 Ultra Low Input RNA Kit for Sequencing, was used for cDNA preparation and amplification (16 PCR cycles), according to the user manual, before cDNA isolation using the Agencourt AMPure XP Kit (Beckman Coulter, Brea, CA). Quantification of cDNA was performed using the Agilent High Sensitivity DNA Kit on an Agilent 2100 Bioanalyser (Agilent Technologies, Santa Clara, CA) and 150 pg of cDNA was used for library preparation using the Nextera XT DNA Library Preparation Kit (Illumina Inc., San Diego, CA).

treatment_protocol: Animals received an intravitreal injection of AAV2 (no transgene) at 1E10 gc/eye. Eyes were collected naïve, 12 or 28 days post-injection.

tag: batch

value: two

tag: Sex

value: M

tag: tissue

value: Retina

tag: cell type

value: Microglia

tag: genotype

value: Cx3cr1CreER:R26-tdTomato +/-

tag: treatment

tag: time-point


title: 9m_Male_D28_4


title: 9m_Male_D28_3


title: 3m_Female_D12_4

value: F


title: 18m_Female_D28_4


title: 18m_Female_Naive_3

value: Naive


title: a

type: RNA

city: Xi 'an

first: Bing

last: Qi

state: Select

address: No. 1, Xinwang Road, Weiyang District

country: China

institute: Xi'an Medical University

description: Control SW1990 samples were treated with an empty plasmid vector under the same transfection conditions to ensure that any observed effects were specifically due to GLI1 overexpression.

hyb_protocol: The sample labeling, microarray hybridization and washing were performed based on the manufacturer’s standard protocols. Briefly, total RNA were tailed with Poly A and then labeled with Biotin. Afer, the labeled RNAs were hybridized onto the microarray.

scan_protocol: Having washed and staining the slides, the arrays were scanned by the Affymetrix Scanner 3000 (Affymetrix).

data_processing: Affymetrix GeneChip Command Console software (version4.0, Affymetrix) was used to analyze array images to get raw data

label: biotin

molecule: total RNA

organism: Homo sapiens

source_name: a

label_protocol: RNA integrity was assessed using Agilent 2100 (Agilent Technologies)

growth_protocol: PDAC cells, including SW1990 and Panc-1, were procured from the Type Culture Collection of the Chinese Academy of Sciences (Shanghai, China). These cells were cultured in Dulbecco's Modified Eagle Medium (DMEM, Gibco, USA) supplemented with 10% fetal bovine serum (FBS, Gibco, USA) and penicillin-streptomycin solution (100 U/mL penicillin/100 ng/mL streptomycin, Hyclone, USA) at 37°C with 5% CO2. Recombinant human SHH, TNF-α and IL-1β were acquired from R&D Systems, USA. The cells were seeded in T25 culture dishes (Corning, USA).

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

treatment_protocol: The cells in the logarithmic phase were transfected with  Gli1 cDNA and their corresponding controls.

tag: cell line

tag: transfection

value: control


title: 3m_Female_D28_4


title: 3m_Female_D12_3


title: 3m_Male_Naive_3


title: 3m_Male_Naive_2


title: 18m_Male_Naive_4


title: 9m_Female_Naive_3


title: 9m_Female_Naive_2


title: 9m_Female_D28_4


title: 18m_Male_D12_2


title: 3m_Female_D28_3


title: 18m_Female_Naive_2


title: 18m_Female_D28_3


title: 18m_Male_D28_3


title: 3m_Male_D12_4


title: 9m_Male_D12_4


title: 3m_Female_D12_2


title: 9m_Female_D12_2


title: 9m_Female_D28_2


title: 9m_Female_D28_3


title: 18m_Female_D12_3


title: 3m_Female_Naive_3


title: 3m_Male_D28_2


title: 9m_Female_D12_1

value: one


title: 3m_Male_Naive_1


title: 3m_Male_D12_3


title: 9m_Male_D12_3


title: 9m_Male_Naive_1


title: 18m_Male_Naive_2


title: 18m_Female_D12_2


title: 18m_Male_Naive_3


title: 3m_Female_D28_2


title: 3m_Female_Naive_2


title: 18m_Male_Naive_1

value: Naïve


title: 18m_Male_D28_2


title: 18m_Female_Naive_1


title: 9m_Female_D28_1


title: 3m_Male_D28_1


title: 18m_Male_D12_1


title: 18m_Female_D28_1


title: 9m_Female_Naive_1


title: 3m_Male_D12_2


title: 18m_Female_D12_1


title: 9m_Male_D28_2


title: 9m_Male_D28_1


title: 3m_Female_Naive_1


title: 18m_Male_D28_1


title: 3m_Female_D28_1


title: 3m_Male_D12_1


title: F123 GAM library f123_3NP_GAM190122_H12_1_S96_R1_001

city: Berlin

first: Alexander

last: Kukalev

address: Hannoversche Str., 28

department: Berlin Institute for Medical Systems Biology

country: Germany

institute: Max-Delbrueck Center for Molecular Medicine

description:
F123.GAM.nonphased.segregation.tables.zip
F123.GAM.phased.segregation.tables.zip
F123.nonphased.coseg.matrices.at100Kb.zip
F123.nonphased.npmi.matrices.at10Kb.zip
F123.nonphased.npmi.matrices.at250Kb.zip
F123.nonphased.npmi.matrices.at30Kb.zip
F123.nonphased.npmi.matrices.at50Kb.zip
F123.phased.coseg.matrices.at100Kb.zip
F123.phased.npmi.matrices.at30Kb.zip
F123.phased.npmi.matrices.at50Kb.zip

library_source: genomic

data_processing:
Sequenced reads from each GAM library were mapped to the mouse genome assembly GRCm38 (Dec. 2011, mm10) using bowtie2 with all default settings. All non-uniquely mapped reads, reads with mapping quality < 20 were filtered using the command “sed '/XS:/d' | samtools view -q 20 -F 4 -bS -”. PCR duplicates were removed with the “samtools rmdup” command. Samples were checked for contamination using fastq_screen. Number of nucleotides sequenced in each genomic bin was calculated using bedtools coverage command. Next, the optimal threshold between the sequencing noise and the signal to call positive windows was calculated as the lowest coverage per bin that gives the highest percent of clustered windows (windows that have a neighboring positive window on at-least one side) for each GAM sample in the dataset. Windows were called positive when the number of nucleotides covered by the reads is higher or equal to the optimal threshold. Each dataset was assessed for quality control by determining the percentage of orphan windows, number of uniquely mapped reads to the mouse genome, and cross-well contamination for every sample. 1NP samples that passed QC were merged into in-silico 3NPs at the level of positive windows. For good quality samples, we produced raw co-segregation, as well as normalized (NPMI) pair-wise chromatin contact matrices.
Assembly: mm10
Supplementary files format and content: Processed data files are raw GAM segregation tables, non-normalized pairwise cosegregation matrices and normalized NPMI matrices in tab-delimited format.
Library strategy: WGA

molecule: genomic DNA

growth_protocol: Mouse F123 ESCs (a male, hybrid cell line, derived from S129/Jae and Cast) (Gribnau et al., 2003) were cultured in a layer of mitotically inactivated feeder murine embryonic fibroblasts under standard conditions (DMEM, supplemented with 15 % KSR, 1x Glutamax, 10 mM non-essential amino acids, 50 µM beta-mercaptoethanol , 1000 U / ml LIF). Before harvesting, mESCs were passaged onto feeder free 0.1% gelatin coated plates for at least 2 passages to remove feeder cells. As feeder-removal results in reduced levels of LIF in the culture, the LIF concentration in the media was doubled when the cells were in feeder-free culture conditions. Cells were harvested after ~ 48 h at 70 – 80 % confluency.

extract_protocol:
Fixation of F123 mESC was performed as described previously (Branco and Pombo, 2006). Briefly, cells were grown to 70 % confluency, media was removed, and cells were fixed in 4% and 8% paraformaldehyde in 250 mM HEPES-NaOH (pH 7.6; 10 min and 2 h, respectively), gently scrapped, and softly pelleted and embedded in saturated 2.1 M sucrose in PBS and frozen in liquid nitrogen on copper sample holders. Ultrathin cryosections were cut with a glass knife using an ultracryomicrotome (Leica Biosystems, EM UC7) at ~230 nm thickness, and transferred to PEN membrane steel frame slides 4.0 µm (Leica Microsystems, 11600289) for laser microdissection. Before laser microdissection, cryosections were washed in sterile-filtered 1x PBS (3 times, 5 min each), sterile-filtered H2O (3 times, 5 min each), and stained with sterile-filtered 1 % (w/v) cresyl violet (Sigma-Aldrich, C5042) in H2O for 10 min, followed by 2 washes with H2O (30 s each).  Individual NPs were isolated from the cryosection by laser microdissection using a laser microdissection microscope (Leica Microsystems, LMD7000). Cut NPs were collected in a PCR Cap Strip filled with opaque adhesive material (Carl Zeiss Microscopy, 415190-9161-000). For each collection day, 1 or 2 caps were left empty and taken through the whole genome amplification (WGA) and sequencing process as a negative control for quality control purposes.
Whole Genome Amplification (WGA) was performed as described previously (Winick-Ng et al, 2021) with minor modifications. Briefly, DNA was extracted from NPs at 60oC in the lysis buffer (20mM Tris-HCl pH 8.0, 1.4 mM EDTA, 560 mM guanidinium-HCl, 3.5% Tween-20, 0.35% Triton X-100) containing 0.75 units/ml Qiagen protease (Qiagen, 19155). After 24h of DNA extraction, the protease was heat inactivated at 75oC for 30 min and the extracted DNA was amplified via two rounds of PCR. At-first quasi-linear amplification was performed with random hexamer GAT-7N  primers with an adaptor sequence. The lysis buffer containing the extracted genomic DNA was mixed with 2x DeepVent mix buffer (2x Thermo polymerase buffer (10x), 400 µm dNTPs, 4 mM MgSO4 in ultrapure DNase free water), 0.5 µM GAT-7N primers (5′- GTG AGT GAT GGT TGA GGT AGT GTG GAG NNN NNN N) and 2 units/µl DeepVent® (exo-) DNA polymerase (New England Biolabs, M0259L) and incubated for 11 cycles in the BioRad thermocycler. The second exponential PCR amplification was performed in presence of 1x DeepVent mix, 10 mM dNTPs, 0.4 µM GAM-COM primers (5′-GTG AGT GAT GGT TGA GGT AGT GTG GAG) and 2 units/µl DeepVent (exo-) DNA polymerase in the programmable thermal cycler for 26 cycles.
After whole genome amplification, the DNA WGA product was purified withSPRI beads (1.7x) The DNA concentration of each sample was quantified using the Quant-iT® PicoGreen dsDNA assay kit (Invitrogen #P7589). Genomic sequencing library was prepared from 1ng of purified DNA using the Illumina Nextera XT library preparation kit (Illumina #FC-131-1096), following the manufacturer’s instructions or with reduce to 20% volume of reagents. After the library preparation, DNA was again purified with in-house SPRI beads (1.7x) and equal amounts of DNA from each sample was pooled together (up to 196 samples) for the sequencing. The final pool of libraries was additionally purified two more times with SPRI beads (1.7x) and analyzed using DNA High Sensitivity on-chip electrophoresis on an Agilent 2100 Bioanalyzer. The samples were sequenced on Illumina NextSeq500 machine as single-end 75 bp reads, according to manufacturer’s instructions.

value: mouse embryonic stem cells

value: Hybrid F1 S129/Jae and Cast

value: male


title: F123 GAM library f123_6NP_GAM180716_A12_1_S89_R1_001


title: F123 GAM library f123_3NP_GAM190122_H11_1_S88_R1_001


title: F123 GAM library f123_3NP_GAM190122_H10_2_S176_R1_001


title: 18m_Female_D28_2


title: F123 GAM library f123_3NP_GAM190122_H10_1_S80_R1_001


title: F123 GAM library f123_3NP_GAM190122_H09_2_S168_R1_001


title: F123 GAM library f123_3NP_GAM190122_H09_1_S72_R1_001


title: F123 GAM library f123_3NP_GAM190122_H08_2_S160_R1_001


title: F123 GAM library f123_3NP_GAM190122_H08_1_S64_R1_001


title: F123 GAM library f123_3NP_GAM190122_H05_1_S40_R1_001


title: F123 GAM library f123_3NP_GAM190122_H07_2_S152_R1_001


title: F123 GAM library f123_3NP_GAM190122_H04_2_S128_R1_001


title: 9m_Male_D12_1


title: F123 GAM library f123_3NP_GAM190122_H04_1_S32_R1_001


title: F123 GAM library f123_3NP_GAM190122_H07_1_S56_R1_001


title: 9m_Male_D12_2


title: F123 GAM library f123_3NP_GAM190122_H06_2_S144_R1_001


title: F123 GAM library f123_3NP_GAM190122_H06_1_S48_R1_001


title: F123 GAM library f123_3NP_GAM190122_H03_2_S120_R1_001


title: F123 GAM library f123_3NP_GAM190122_H02_2_S112_R1_001


title: F123 GAM library f123_3NP_GAM190122_H02_1_S16_R1_001


title: F123 GAM library f123_3NP_GAM190122_H05_2_S136_R1_001


title: F123 GAM library f123_3NP_GAM190122_H01_2_S104_R1_001


title: F123 GAM library f123_3NP_GAM190122_H01_1_S8_R1_001


title: F123 GAM library f123_3NP_GAM190122_H03_1_S24_R1_001


title: F123 GAM library f123_3NP_GAM190122_G12_2_S191_R1_001


title: 3m_Female_D12_1


title: F123 GAM library f123_3NP_GAM190122_H11_2_S184_R1_001


title: F123 GAM library f123_3NP_GAM190122_G12_1_S95_R1_001


title: F123 GAM library f123_3NP_GAM190122_G11_2_S183_R1_001


title: F123 GAM library f123_3NP_GAM190122_G11_1_S87_R1_001


title: F123 GAM library f123_3NP_GAM190122_G10_2_S175_R1_001


title: F123 GAM library f123_3NP_GAM190122_G09_1_S71_R1_001


title: F123 GAM library f123_3NP_GAM190122_G10_1_S79_R1_001


title: F123 GAM library f123_3NP_GAM190122_G09_2_S167_R1_001


title: F123 GAM library f123_3NP_GAM190122_G08_1_S63_R1_001


title: F123 GAM library f123_3NP_GAM190122_G07_2_S151_R1_001


title: F123 GAM library f123_3NP_GAM190122_G06_1_S47_R1_001


title: F123 GAM library f123_3NP_GAM190122_G03_2_S119_R1_001


title: F123 GAM library f123_3NP_GAM190122_G04_1_S31_R1_001


title: F123 GAM library f123_3NP_GAM190122_G03_1_S23_R1_001


title: F123 GAM library f123_3NP_GAM190122_G05_2_S135_R1_001


title: F123 GAM library f123_3NP_GAM190122_G02_1_S15_R1_001


title: F123 GAM library f123_3NP_GAM190122_G02_2_S111_R1_001


title: F123 GAM library f123_3NP_GAM190122_F11_2_S182_R1_001


title: F123 GAM library f123_3NP_GAM190122_G01_1_S7_R1_001


title: F123 GAM library f123_3NP_GAM190122_F10_2_S174_R1_001


title: F123 GAM library f123_3NP_GAM190122_F09_2_S166_R1_001


title: F123 GAM library f123_3NP_GAM190122_G01_2_S103_R1_001


title: F123 GAM library f123_3NP_GAM190122_F12_2_S190_R1_001


title: F123 GAM library f123_3NP_GAM190122_F11_1_S86_R1_001


title: F123 GAM library f123_3NP_GAM190122_F09_1_S70_R1_001


title: F123 GAM library f123_3NP_GAM190122_F12_1_S94_R1_001


title: F123 GAM library f123_3NP_GAM190122_F10_1_S78_R1_001


title: F123 GAM library f123_3NP_GAM190122_G08_2_S159_R1_001


title: F123 GAM library f123_3NP_GAM190122_F07_2_S150_R1_001


title: F123 GAM library f123_3NP_GAM190122_F07_1_S54_R1_001


title: F123 GAM library f123_3NP_GAM190122_F08_2_S158_R1_001


title: F123 GAM library f123_3NP_GAM190122_F06_2_S142_R1_001


title: F123 GAM library f123_3NP_GAM190122_G07_1_S55_R1_001


title: F123 GAM library f123_3NP_GAM190122_F05_2_S134_R1_001


title: F123 GAM library f123_3NP_GAM190122_G05_1_S39_R1_001


title: F123 GAM library f123_3NP_GAM190122_G04_2_S127_R1_001


title: F123 GAM library f123_3NP_GAM190122_G06_2_S143_R1_001


title: F123 GAM library f123_3NP_GAM190122_F05_1_S38_R1_001


title: F123 GAM library f123_3NP_GAM190122_F04_2_S126_R1_001


title: F123 GAM library f123_3NP_GAM190122_F04_1_S30_R1_001


title: F123 GAM library f123_3NP_GAM190122_F03_2_S118_R1_001


title: F123 GAM library f123_3NP_GAM190122_F03_1_S22_R1_001


title: F123 GAM library f123_3NP_GAM190122_F02_1_S14_R1_001


title: F123 GAM library f123_3NP_GAM190122_F01_2_S102_R1_001


title: F123 GAM library f123_3NP_GAM190122_E12_2_S189_R1_001


title: F123 GAM library f123_3NP_GAM190122_E12_1_S93_R1_001


title: F123 GAM library f123_3NP_GAM190122_E10_2_S173_R1_001


title: F123 GAM library f123_3NP_GAM190122_E11_1_S85_R1_001


title: F123 GAM library f123_3NP_GAM190122_E10_1_S77_R1_001


title: F123 GAM library f123_3NP_GAM190122_F08_1_S62_R1_001


title: F123 GAM library f123_3NP_GAM190122_E09_2_S165_R1_001


title: F123 GAM library f123_3NP_GAM190122_E09_1_S69_R1_001


title: F123 GAM library f123_3NP_GAM190122_E08_2_S157_R1_001


title: F123 GAM library f123_3NP_GAM190122_E08_1_S61_R1_001


title: F123 GAM library f123_3NP_GAM190122_E07_2_S149_R1_001


title: F123 GAM library f123_3NP_GAM190122_E07_1_S53_R1_001


title: F123 GAM library f123_3NP_GAM190122_F06_1_S46_R1_001


title: F123 GAM library f123_3NP_GAM190122_E06_2_S141_R1_001


title: F123 GAM library f123_3NP_GAM190122_E06_1_S45_R1_001


title: F123 GAM library f123_3NP_GAM190122_E05_2_S133_R1_001


title: F123 GAM library f123_3NP_GAM190122_E05_1_S37_R1_001


title: F123 GAM library f123_3NP_GAM190122_E04_2_S125_R1_001


title: F123 GAM library f123_3NP_GAM190122_E04_1_S29_R1_001


title: F123 GAM library f123_3NP_GAM190122_F02_2_S110_R1_001


title: F123 GAM library f123_3NP_GAM190122_E03_2_S117_R1_001


title: F123 GAM library f123_3NP_GAM190122_E02_1_S13_R1_001


title: F123 GAM library f123_3NP_GAM190122_E11_2_S181_R1_001


title: F123 GAM library f123_3NP_GAM190122_E02_2_S109_R1_001


title: F123 GAM library f123_3NP_GAM190122_E03_1_S21_R1_001


title: F123 GAM library f123_3NP_GAM190122_F01_1_S6_R1_001


title: F123 GAM library f123_3NP_GAM190122_E01_2_S101_R1_001


title: F123 GAM library f123_3NP_GAM190122_E01_1_S5_R1_001


title: F123 GAM library f123_3NP_GAM190122_D10_2_S172_R1_001


title: F123 GAM library f123_3NP_GAM190122_D12_2_S188_R1_001


title: F123 GAM library f123_3NP_GAM190122_D11_1_S84_R1_001


title: F123 GAM library f123_3NP_GAM190122_D10_1_S76_R1_001


title: F123 GAM library f123_3NP_GAM190122_D09_1_S68_R1_001


title: F123 GAM library f123_3NP_GAM190122_D09_2_S164_R1_001


title: F123 GAM library f123_3NP_GAM190122_D08_2_S156_R1_001


title: F123 GAM library f123_3NP_GAM190122_D12_1_S92_R1_001


title: F123 GAM library f123_3NP_GAM190122_D11_2_S180_R1_001


title: F123 GAM library f123_3NP_GAM190122_D07_2_S148_R1_001


title: F123 GAM library f123_3NP_GAM190122_D06_2_S140_R1_001


title: F123 GAM library f123_3NP_GAM190122_D07_1_S52_R1_001


title: F123 GAM library f123_3NP_GAM190122_D06_1_S44_R1_001


title: F123 GAM library f123_3NP_GAM190122_D08_1_S60_R1_001


title: F123 GAM library f123_3NP_GAM190122_D05_2_S132_R1_001


title: F123 GAM library f123_3NP_GAM190122_D05_1_S36_R1_001


title: F123 GAM library f123_3NP_GAM190122_D04_1_S28_R1_001


title: F123 GAM library f123_3NP_GAM190122_D04_2_S124_R1_001


title: F123 GAM library f123_3NP_GAM190122_D03_1_S20_R1_001


title: F123 GAM library f123_3NP_GAM190122_D03_2_S116_R1_001


title: F123 GAM library f123_3NP_GAM190122_D02_2_S108_R1_001


title: F123 GAM library f123_3NP_GAM190122_D02_1_S12_R1_001


title: F123 GAM library f123_3NP_GAM190122_D01_1_S4_R1_001


title: F123 GAM library f123_3NP_GAM190122_D01_2_S100_R1_001


title: F123 GAM library f123_3NP_GAM190122_C11_2_S179_R1_001


title: F123 GAM library f123_3NP_GAM190122_C12_2_S187_R1_001


title: F123 GAM library f123_3NP_GAM190122_C12_1_S91_R1_001


title: F123 GAM library f123_3NP_GAM190122_C11_1_S83_R1_001


title: F123 GAM library f123_3NP_GAM190122_C09_2_S163_R1_001


title: F123 GAM library f123_3NP_GAM190122_C09_1_S67_R1_001


title: F123 GAM library f123_3NP_GAM190122_C08_1_S59_R1_001


title: F123 GAM library f123_3NP_GAM190122_C10_2_S171_R1_001


title: F123 GAM library f123_3NP_GAM190122_C06_2_S139_R1_001


title: F123 GAM library f123_3NP_GAM190122_C07_1_S51_R1_001


title: F123 GAM library f123_3NP_GAM190122_C08_2_S155_R1_001


title: F123 GAM library f123_3NP_GAM190122_C07_2_S147_R1_001


title: F123 GAM library f123_3NP_GAM190122_C06_1_S43_R1_001


title: F123 GAM library f123_3NP_GAM190122_C05_1_S35_R1_001


title: F123 GAM library f123_3NP_GAM190122_C04_1_S27_R1_001


title: F123 GAM library f123_3NP_GAM190122_C05_2_S131_R1_001


title: F123 GAM library f123_3NP_GAM190122_C03_2_S115_R1_001


title: F123 GAM library f123_3NP_GAM190122_C04_2_S123_R1_001


title: F123 GAM library f123_3NP_GAM190122_C03_1_S19_R1_001


title: F123 GAM library f123_3NP_GAM190122_C02_2_S107_R1_001


title: F123 GAM library f123_3NP_GAM190122_C02_1_S11_R1_001


title: F123 GAM library f123_3NP_GAM190122_C01_2_S99_R1_001


title: F123 GAM library f123_3NP_GAM190122_C01_1_S3_R1_001


title: F123 GAM library f123_3NP_GAM190122_B12_2_S186_R1_001


title: F123 GAM library f123_3NP_GAM190122_B12_1_S90_R1_001


title: F123 GAM library f123_3NP_GAM190122_B11_1_S82_R1_001


title: F123 GAM library f123_3NP_GAM190122_C10_1_S75_R1_001


title: F123 GAM library f123_3NP_GAM190122_B09_2_S162_R1_001


title: F123 GAM library f123_3NP_GAM190122_B08_2_S154_R1_001


title: F123 GAM library f123_3NP_GAM190122_B09_1_S66_R1_001


title: F123 GAM library f123_3NP_GAM190122_B10_1_S74_R1_001


title: F123 GAM library f123_3NP_GAM190122_B08_1_S58_R1_001


title: F123 GAM library f123_3NP_GAM190122_B06_1_S42_R1_001


title: F123 GAM library f123_3NP_GAM190122_B05_2_S130_R1_001


title: F123 GAM library f123_3NP_GAM190122_B07_1_S50_R1_001


title: F123 GAM library f123_3NP_GAM190122_B04_1_S26_R1_001


title: F123 GAM library f123_3NP_GAM190122_B04_2_S122_R1_001


title: F123 GAM library f123_3NP_GAM190122_B03_2_S114_R1_001


title: F123 GAM library f123_3NP_GAM190122_B03_1_S18_R1_001


title: F123 GAM library f123_3NP_GAM190122_B02_2_S106_R1_001


title: F123 GAM library f123_3NP_GAM190122_B06_2_S138_R1_001


title: F123 GAM library f123_3NP_GAM190122_B01_2_S98_R1_001


title: F123 GAM library f123_3NP_GAM190122_A12_2_S185_R1_001


title: F123 GAM library f123_3NP_GAM190122_B01_1_S2_R1_001


title: F123 GAM library f123_3NP_GAM190122_B02_1_S10_R1_001


title: F123 GAM library f123_3NP_GAM190122_A11_2_S177_R1_001


title: F123 GAM library f123_3NP_GAM190122_A11_1_S81_R1_001


title: F123 GAM library f123_3NP_GAM190122_B10_2_S170_R1_001


title: F123 GAM library f123_3NP_GAM190122_A10_2_S169_R1_001


title: F123 GAM library f123_3NP_GAM190122_B11_2_S178_R1_001


title: F123 GAM library f123_3NP_GAM190122_A09_1_S65_R1_001


title: F123 GAM library f123_3NP_GAM190122_A09_2_S161_R1_001


title: F123 GAM library f123_3NP_GAM190122_A10_1_S73_R1_001


title: F123 GAM library f123_3NP_GAM190122_A08_2_S153_R1_001


title: F123 GAM library f123_3NP_GAM190122_A08_1_S57_R1_001


title: F123 GAM library f123_3NP_GAM190122_A07_2_S145_R1_001


title: F123 GAM library f123_3NP_GAM190122_B07_2_S146_R1_001


title: F123 GAM library f123_3NP_GAM190122_A07_1_S49_R1_001


title: F123 GAM library f123_3NP_GAM190122_B05_1_S34_R1_001


title: F123 GAM library f123_3NP_GAM190122_A05_2_S129_R1_001


title: F123 GAM library f123_3NP_GAM190122_A06_2_S137_R1_001


title: F123 GAM library f123_3NP_GAM190122_A04_2_S121_R1_001


title: F123 GAM library f123_3NP_GAM190122_A06_1_S41_R1_001


title: F123 GAM library f123_3NP_GAM190122_A03_2_S113_R1_001


title: F123 GAM library f123_3NP_GAM190122_A04_1_S25_R1_001


title: F123 GAM library f123_3NP_GAM190122_A03_1_S17_R1_001


title: F123 GAM library f123_3NP_GAM190122_A02_2_S105_R1_001


title: F123 GAM library f123_3NP_GAM190122_A05_1_S33_R1_001


title: F123 GAM library f123_3NP_GAM190122_A01_1_S1_R1_001


title: F123 GAM library f123_3NP_GAM190122_A02_1_S9_R1_001


title: F123 GAM library f123_3NP_GAM181029_G11_1_S87_R1_001


title: F123 GAM library f123_3NP_GAM181029_H11_1_S88_R1_001


title: F123 GAM library f123_3NP_GAM181029_G12_1_S95_R1_001


title: F123 GAM library f123_3NP_GAM181029_F12_1_S94_R1_001


title: F123 GAM library f123_3NP_GAM181029_G10_1_S79_R1_001


title: F123 GAM library f123_3NP_GAM181029_F11_1_S86_R1_001


title: F123 GAM library f123_3NP_GAM181029_F10_1_S78_R1_001


title: F123 GAM library f123_3NP_GAM181029_E11_1_S85_R1_001


title: F123 GAM library f123_3NP_GAM181029_E12_1_S93_R1_001


title: F123 GAM library f123_3NP_GAM181029_E10_1_S77_R1_001


title: F123 GAM library f123_3NP_GAM181029_D11_1_S84_R1_001


title: F123 GAM library f123_3NP_GAM181029_D12_1_S92_R1_001


title: F123 GAM library f123_3NP_GAM181029_D10_1_S76_R1_001


title: F123 GAM library f123_3NP_GAM181029_C12_1_S91_R1_001


title: F123 GAM library f123_3NP_GAM181029_B12_1_S90_R1_001


title: F123 GAM library f123_3NP_GAM181029_B10_1_S74_R1_001


title: F123 GAM library f123_3NP_GAM190122_A01_2_S97_R1_001


title: F123 GAM library f123_3NP_GAM181029_A10_1_S73_R1_001


title: F123 GAM library f123_3NP_GAM181029_B11_1_S82_R1_001


title: F123 GAM library f123_3NP_GAM180719_H12_1_S96_R1_001


title: F123 GAM library f123_3NP_GAM181029_H10_1_S80_R1_001


title: F123 GAM library f123_3NP_GAM180719_H10_1_S80_R1_001


title: F123 GAM library f123_3NP_GAM180719_H08_1_S64_R1_001


title: F123 GAM library f123_3NP_GAM180719_H09_1_S72_R1_001


title: F123 GAM library f123_3NP_GAM180719_H07_1_S56_R1_001


title: F123 GAM library f123_3NP_GAM180719_H06_1_S48_R1_001


title: F123 GAM library f123_3NP_GAM180719_H05_1_S40_R1_001


title: F123 GAM library f123_3NP_GAM180719_G11_1_S87_R1_001


title: F123 GAM library f123_3NP_GAM180719_H01_1_S8_R1_001


title: F123 GAM library f123_3NP_GAM180719_G09_1_S71_R1_001


title: F123 GAM library f123_3NP_GAM180719_G08_1_S63_R1_001


title: F123 GAM library f123_3NP_GAM180719_G12_1_S95_R1_001


title: F123 GAM library f123_3NP_GAM180719_G07_1_S55_R1_001


title: F123 GAM library f123_3NP_GAM180719_G06_1_S47_R1_001


title: F123 GAM library f123_3NP_GAM180719_G05_1_S39_R1_001


title: F123 GAM library f123_3NP_GAM180719_G01_1_S7_R1_001


title: F123 GAM library f123_3NP_GAM181029_C11_1_S83_R1_001


title: F123 GAM library f123_3NP_GAM180719_F11_1_S86_R1_001


title: F123 GAM library f123_3NP_GAM180719_F10_1_S78_R1_001


title: F123 GAM library f123_3NP_GAM180719_F09_1_S70_R1_001


title: F123 GAM library f123_3NP_GAM181029_A11_1_S81_R1_001


title: F123 GAM library f123_3NP_GAM180719_F12_1_S94_R1_001


title: F123 GAM library f123_3NP_GAM180719_H11_1_S88_R1_001


title: F123 GAM library f123_3NP_GAM180719_F08_1_S62_R1_001


title: F123 GAM library f123_3NP_GAM180719_F07_1_S54_R1_001


title: F123 GAM library f123_3NP_GAM180719_F05_1_S38_R1_001


title: F123 GAM library f123_3NP_GAM180719_E12_1_S93_R1_001


title: F123 GAM library f123_3NP_GAM180719_E10_1_S77_R1_001


title: F123 GAM library f123_3NP_GAM180719_E09_1_S69_R1_001


title: F123 GAM library f123_3NP_GAM180719_F01_1_S6_R1_001


title: F123 GAM library f123_3NP_GAM180719_E07_1_S53_R1_001


title: F123 GAM library f123_3NP_GAM180719_G10_1_S79_R1_001


title: F123 GAM library f123_3NP_GAM180719_E08_1_S61_R1_001


title: F123 GAM library f123_3NP_GAM180719_E06_1_S45_R1_001


title: F123 GAM library f123_3NP_GAM180719_E01_1_S5_R1_001


title: F123 GAM library f123_3NP_GAM180719_D10_1_S76_R1_001


title: F123 GAM library f123_3NP_GAM180719_D11_1_S84_R1_001


title: F123 GAM library f123_3NP_GAM180719_D09_1_S68_R1_001


title: F123 GAM library f123_3NP_GAM180719_E05_1_S37_R1_001


title: F123 GAM library f123_3NP_GAM180719_D12_1_S92_R1_001


title: F123 GAM library f123_3NP_GAM180719_D07_1_S52_R1_001


title: F123 GAM library f123_3NP_GAM180719_D08_1_S60_R1_001


title: F123 GAM library f123_3NP_GAM180719_D05_1_S36_R1_001


title: F123 GAM library f123_3NP_GAM180719_D01_1_S4_R1_001


title: Batch6_Ctrl.CBF73_S1

city: Chicago

first: Yong

last: Peng

state: IL

address: 929 E 57th Street

department: Department of Chemistry

country: USA

institute: University of Chicago

data_processing:
library strategy: 5hmC-Seal-Seq
Basecalls were performed using bcl2fastq or Illumina nextseq 500 output.
5hmC-Seal-Seq reads were trimmed from 3' end until the final base had a quality score > 30, using Trimmomatic v0.39, discarding reads left with < 25 bp
5hmC-Seal-Seq reads were aligned to the GENCODE V40  hg38 genome using BWA-aln version 0.7.17-r1198-dirty. Only uniquely mapping reads with at most two mismatches were retained.
To create GENCODE coverage plots, the locations of the mapped ChIP-seq reads were extended to 150 bp to represent sequenced fragments.
Peaks were called uing MACS v2.2.7.1 with the significance cut-off q-value <=0.05
Assembly: bigWig files were generated using the deepTools.
Supplementary files format and content: hg38
Supplementary files format and content: bigWig, narrowPeak

source_name: plasma

extract_protocol:
All blood samples were stored at -80°C and then thawed on ice prior to use. Plasma was obtained by centrifuging whole blood at 1,350 × g for 12 minutes. Following centrifugation, plasma was removed from the pellet via pipette and recentrifuged at 1,350 × g for 12 minutes and then at 13,500 × g for 5 minutes to ensure full removal of pellet. cfDNA was isolated from 1 to 2 mL of plasma using the QIAamp Circulating Nucleic Acid Kit (Qiagen) following manufacturer's instructions. Final elution was done using 25 μL of IDTE pH 8.0 buffer and purified DNA was stored at -80°C until use.
In summary, sequencing adapters were ligated using the KAPA Hyper Prep Kit (KAPA Biosciences). cfDNA subsequently underwent T4 β-glucosyltransferase enzymatic modification with UDP-N3-glucose, followed by chemical modification with biotin-PEG4-dibenzocyclooctyne (DBCO). Biotin-labeled cfDNA fragments were then pulled down using streptavidin M270 Dynabeads (Invitrogen). Resulting pulled down DNA was then PCR amplified to construct sequencing libraries. Libraries were purified using AMPure XP beads (Beckman Coulter) following a standard purification protocol.

value: plasma

tag: molecule type

value: cell free DNA

tag: group

value: CONTROLLED


title: F123 GAM library f123_3NP_GAM180719_F06_1_S46_R1_001


title: F123 GAM library f123_3NP_GAM180719_C10_1_S75_R1_001


title: F123 GAM library f123_3NP_GAM180719_C12_1_S91_R1_001


title: F123 GAM library f123_3NP_GAM180719_C08_1_S59_R1_001


title: F123 GAM library f123_3NP_GAM180719_C11_1_S83_R1_001


title: F123 GAM library f123_3NP_GAM180719_C07_1_S51_R1_001


title: F123 GAM library f123_3NP_GAM180719_C05_1_S35_R1_001


title: F123 GAM library f123_3NP_GAM180719_D06_1_S44_R1_001


title: F123 GAM library f123_3NP_GAM180719_E11_1_S85_R1_001


title: F123 GAM library f123_3NP_GAM180719_C09_1_S67_R1_001


title: F123 GAM library f123_3NP_GAM180719_C06_1_S43_R1_001


title: F123 GAM library f123_3NP_GAM180719_B12_1_S90_R1_001


title: F123 GAM library f123_3NP_GAM180719_C01_1_S3_R1_001


title: F123 GAM library f123_3NP_GAM180719_B10_1_S74_R1_001


title: F123 GAM library f123_3NP_GAM180719_B11_1_S82_R1_001


title: F123 GAM library f123_3NP_GAM180719_B08_1_S58_R1_001


title: F123 GAM library f123_3NP_GAM180719_B07_1_S50_R1_001


title: F123 GAM library f123_3NP_GAM180719_B05_1_S34_R1_001


title: F123 GAM library f123_3NP_GAM180719_B06_1_S42_R1_001


title: F123 GAM library f123_3NP_GAM180719_B01_1_S2_R1_001


title: F123 GAM library f123_3NP_GAM180719_A12_1_S89_R1_001


title: F123 GAM library f123_3NP_GAM180719_A10_1_S73_R1_001


title: F123 GAM library f123_3NP_GAM180719_A11_1_S81_R1_001


title: F123 GAM library f123_3NP_GAM180719_A09_1_S65_R1_001


title: F123 GAM library f123_3NP_GAM180719_A08_1_S57_R1_001


title: F123 GAM library f123_3NP_GAM180719_A07_1_S49_R1_001


title: F123 GAM library f123_3NP_GAM180719_A06_1_S41_R1_001


title: F123 GAM library f123_3NP_GAM180719_A05_1_S33_R1_001


title: F123 GAM library f123_3NP_GAM180719_A01_1_S1_R1_001


title: F123 GAM library f123_3NP_GAM180716_H11_1_S88_R1_001


title: F123 GAM library f123_3NP_GAM180716_H02_2_S112_R1_001


title: F123 GAM library f123_3NP_GAM180716_H07_2_S152_R1_001


title: F123 GAM library f123_3NP_GAM180716_H09_2_S168_R1_001


title: F123 GAM library f123_3NP_GAM180716_H08_2_S160_R1_001


title: F123 GAM library f123_3NP_GAM180719_B09_1_S66_R1_001


title: F123 GAM library f123_3NP_GAM180716_H10_2_S176_R1_001


title: F123 GAM library f123_3NP_GAM180716_G07_2_S151_R1_001


title: F123 GAM library f123_3NP_GAM180716_G10_2_S175_R1_001


title: F123 GAM library f123_3NP_GAM180716_G09_2_S167_R1_001


title: F123 GAM library f123_3NP_GAM180716_G03_2_S119_R1_001


title: F123 GAM library f123_3NP_GAM180716_G11_1_S87_R1_001


title: F123 GAM library f123_3NP_GAM180716_G12_1_S95_R1_001


title: F123 GAM library f123_3NP_GAM180716_G10_1_S79_R1_001


title: F123 GAM library f123_3NP_GAM180716_G08_2_S159_R1_001


title: F123 GAM library f123_3NP_GAM180716_F10_2_S174_R1_001


title: F123 GAM library f123_3NP_GAM180716_G01_2_S103_R1_001


title: F123 GAM library f123_3NP_GAM180716_F10_1_S78_R1_001


title: F123 GAM library f123_3NP_GAM180716_H10_1_S80_R1_001


title: F123 GAM library f123_3NP_GAM180716_F09_2_S166_R1_001


title: F123 GAM library f123_3NP_GAM180716_F03_2_S118_R1_001


title: F123 GAM library f123_3NP_GAM180716_H01_2_S104_R1_001


title: F123 GAM library f123_3NP_GAM180716_F07_2_S150_R1_001


title: F123 GAM library f123_3NP_GAM180716_F08_2_S158_R1_001


title: F123 GAM library f123_3NP_GAM180716_F02_2_S110_R1_001


title: F123 GAM library f123_3NP_GAM180716_E12_1_S93_R1_001


title: F123 GAM library f123_3NP_GAM180716_E11_1_S85_R1_001


title: F123 GAM library f123_3NP_GAM180716_E10_1_S77_R1_001


title: F123 GAM library f123_3NP_GAM180716_G02_2_S111_R1_001


title: F123 GAM library f123_3NP_GAM180716_E08_2_S157_R1_001


title: F123 GAM library f123_3NP_GAM180716_E09_2_S165_R1_001


title: F123 GAM library f123_3NP_GAM180716_E07_2_S149_R1_001


title: F123 GAM library f123_3NP_GAM180716_D12_1_S92_R1_001


title: F123 GAM library f123_3NP_GAM180716_E03_2_S117_R1_001


title: F123 GAM library f123_3NP_GAM180716_E02_2_S109_R1_001


title: F123 GAM library f123_3NP_GAM180716_E01_2_S101_R1_001


title: F123 GAM library f123_3NP_GAM180716_D10_2_S172_R1_001


title: F123 GAM library f123_3NP_GAM180716_D10_1_S76_R1_001


title: F123 GAM library f123_3NP_GAM180716_D11_1_S84_R1_001


title: F123 GAM library f123_3NP_GAM180716_D08_2_S156_R1_001


title: F123 GAM library f123_3NP_GAM180716_D01_2_S100_R1_001


title: F123 GAM library f123_3NP_GAM180716_D03_2_S116_R1_001


title: F123 GAM library f123_3NP_GAM180716_D07_2_S148_R1_001


title: F123 GAM library f123_3NP_GAM180716_C12_1_S91_R1_001


title: F123 GAM library f123_3NP_GAM180716_D02_2_S108_R1_001


title: F123 GAM library f123_3NP_GAM180716_C11_1_S83_R1_001


title: F123 GAM library f123_3NP_GAM180716_C10_1_S75_R1_001


title: F123 GAM library f123_3NP_GAM180716_F01_2_S102_R1_001


title: F123 GAM library f123_3NP_GAM180716_C09_2_S163_R1_001


title: F123 GAM library f123_3NP_GAM180716_E10_2_S173_R1_001


title: F123 GAM library f123_3NP_GAM180716_C07_2_S147_R1_001


title: F123 GAM library f123_3NP_GAM180716_C08_2_S155_R1_001


title: F123 GAM library f123_3NP_GAM180716_C03_2_S115_R1_001


title: F123 GAM library f123_3NP_GAM180716_C01_2_S99_R1_001


title: F123 GAM library f123_3NP_GAM180716_C02_2_S107_R1_001


title: F123 GAM library f123_3NP_GAM180716_B12_1_S90_R1_001


title: F123 GAM library f123_3NP_GAM180716_B10_2_S170_R1_001


title: F123 GAM library f123_3NP_GAM180716_B11_1_S82_R1_001


title: F123 GAM library f123_3NP_GAM180716_B10_1_S74_R1_001


title: F123 GAM library f123_3NP_GAM180716_D09_2_S164_R1_001


title: F123 GAM library f123_3NP_GAM180716_B08_2_S154_R1_001


title: F123 GAM library f123_3NP_GAM180716_B02_2_S106_R1_001


title: F123 GAM library f123_3NP_GAM180716_B01_2_S98_R1_001


title: F123 GAM library f123_3NP_GAM180716_B07_2_S146_R1_001


title: F123 GAM library f123_3NP_GAM180716_B09_2_S162_R1_001


title: F123 GAM library f123_3NP_GAM180716_B03_2_S114_R1_001


title: F123 GAM library f123_3NP_GAM180716_A11_1_S81_R1_001


title: F123 GAM library f123_3NP_GAM180716_A09_2_S161_R1_001


title: F123 GAM library f123_3NP_GAM180716_A10_2_S169_R1_001


title: F123 GAM library f123_3NP_GAM180716_C10_2_S171_R1_001


title: F123 GAM library f123_3NP_GAM180716_A08_2_S153_R1_001


title: F123 GAM library f123_3NP_GAM180716_A03_2_S113_R1_001


title: F123 GAM library f123_3NP_GAM180716_A07_2_S145_R1_001


title: F123 GAM library f123_3NP_GAM180716_A01_2_S97_R1_001


title: F123 GAM library f123_3NP_GAM180511_H08_1_S64_R1_001


title: F123 GAM library f123_3NP_GAM180511_H07_1_S56_R1_001


title: F123 GAM library f123_3NP_GAM180511_H06_1_S48_R1_001


title: F123 GAM library f123_3NP_GAM180511_H04_1_S32_R1_001


title: F123 GAM library f123_3NP_GAM180511_H05_1_S40_R1_001


title: F123 GAM library f123_3NP_GAM180511_H03_1_S24_R1_001


title: F123 GAM library f123_3NP_GAM180511_H02_1_S16_R1_001


title: F123 GAM library f123_3NP_GAM180511_G09_1_S71_R1_001


title: F123 GAM library f123_3NP_GAM180511_H01_1_S8_R1_001


title: F123 GAM library f123_3NP_GAM180511_G07_1_S55_R1_001


title: F123 GAM library f123_3NP_GAM180511_G08_1_S63_R1_001


title: F123 GAM library f123_3NP_GAM180511_G04_1_S31_R1_001


title: F123 GAM library f123_3NP_GAM180511_G03_1_S23_R1_001


title: F123 GAM library f123_3NP_GAM180511_G02_1_S15_R1_001


title: F123 GAM library f123_3NP_GAM180511_G01_1_S7_R1_001


title: F123 GAM library f123_3NP_GAM180511_G05_1_S39_R1_001


title: F123 GAM library f123_3NP_GAM180716_A10_1_S73_R1_001


title: F123 GAM library f123_3NP_GAM180511_F07_1_S54_R1_001


title: F123 GAM library f123_3NP_GAM180716_A02_2_S105_R1_001


title: F123 GAM library f123_3NP_GAM180511_F08_1_S62_R1_001


title: F123 GAM library f123_3NP_GAM180511_F06_1_S46_R1_001


title: F123 GAM library f123_3NP_GAM180511_F03_1_S22_R1_001


title: F123 GAM library f123_3NP_GAM180511_H09_1_S72_R1_001


title: F123 GAM library f123_3NP_GAM180511_F02_1_S14_R1_001


title: F123 GAM library f123_3NP_GAM180511_E09_1_S69_R1_001


title: F123 GAM library f123_3NP_GAM180511_F01_1_S6_R1_001


title: F123 GAM library f123_3NP_GAM180511_E08_1_S61_R1_001


title: F123 GAM library f123_3NP_GAM180511_E07_1_S53_R1_001


title: F123 GAM library f123_3NP_GAM180511_D09_1_S68_R1_001


title: F123 GAM library f123_3NP_GAM180511_E03_1_S21_R1_001


title: F123 GAM library f123_3NP_GAM180511_G06_1_S47_R1_001


title: F123 GAM library f123_3NP_GAM180511_E02_1_S13_R1_001


title: F123 GAM library f123_3NP_GAM180511_E01_1_S5_R1_001


title: F123 GAM library f123_3NP_GAM180511_D08_1_S60_R1_001


title: F123 GAM library f123_3NP_GAM180511_E05_1_S37_R1_001


title: F123 GAM library f123_3NP_GAM180511_F09_1_S70_R1_001


title: F123 GAM library f123_3NP_GAM180511_D05_1_S36_R1_001


title: F123 GAM library f123_3NP_GAM180511_D02_1_S12_R1_001


title: F123 GAM library f123_3NP_GAM180511_D07_1_S52_R1_001


title: F123 GAM library f123_3NP_GAM180511_F05_1_S38_R1_001


title: F123 GAM library f123_3NP_GAM180511_D06_1_S44_R1_001


title: F123 GAM library f123_3NP_GAM180511_D04_1_S28_R1_001


title: F123 GAM library f123_3NP_GAM180511_F04_1_S30_R1_001


title: F123 GAM library f123_3NP_GAM180511_D01_1_S4_R1_001


title: F123 GAM library f123_3NP_GAM180511_C07_1_S51_R1_001


title: F123 GAM library f123_3NP_GAM180511_C09_1_S67_R1_001


title: F123 GAM library f123_3NP_GAM180511_E04_1_S29_R1_001


title: F123 GAM library f123_3NP_GAM180511_C06_1_S43_R1_001


title: F123 GAM library f123_3NP_GAM180511_C08_1_S59_R1_001


title: F123 GAM library f123_3NP_GAM180511_C04_1_S27_R1_001


title: F123 GAM library f123_3NP_GAM180511_C03_1_S19_R1_001


title: F123 GAM library f123_3NP_GAM180511_C05_1_S35_R1_001


title: F123 GAM library f123_3NP_GAM180511_B08_1_S58_R1_001


title: F123 GAM library f123_3NP_GAM180511_C02_1_S11_R1_001


title: F123 GAM library f123_3NP_GAM180511_B06_1_S42_R1_001


title: F123 GAM library f123_3NP_GAM180511_B09_1_S66_R1_001


title: F123 GAM library f123_3NP_GAM180511_B05_1_S34_R1_001


title: F123 GAM library f123_3NP_GAM180511_C01_1_S3_R1_001


title: F123 GAM library f123_3NP_GAM180511_B04_1_S26_R1_001


title: F123 GAM library f123_3NP_GAM180511_B07_1_S50_R1_001


title: F123 GAM library f123_3NP_GAM180511_A09_1_S65_R1_001


title: F123 GAM library f123_3NP_GAM180511_B01_1_S2_R1_001


title: F123 GAM library f123_3NP_GAM180511_B02_1_S10_R1_001


title: F123 GAM library f123_3NP_GAM180511_B03_1_S18_R1_001


title: F123 GAM library f123_3NP_GAM180511_A07_1_S49_R1_001


title: F123 GAM library f123_3NP_GAM180511_A08_1_S57_R1_001


title: F123 GAM library f123_3NP_GAM180511_A04_1_S25_R1_001


title: F123 GAM library f123_3NP_GAM180511_A06_1_S41_R1_001


title: F123 GAM library f123_3NP_GAM180511_A05_1_S33_R1_001


title: F123 GAM library f123_3NP_GAM180511_A03_1_S17_R1_001


title: F123 GAM library f123_3NP_GAM180511_A02_1_S9_R1_001


title: F123 GAM library f123_3NP_GAM180115_H11_1_S88_R1_001


title: F123 GAM library f123_3NP_GAM180511_A01_1_S1_R1_001


title: F123 GAM library f123_3NP_GAM180115_H08_1_S64_R1_001


title: F123 GAM library f123_3NP_GAM180115_H10_1_S80_R1_001


title: F123 GAM library f123_3NP_GAM180115_H09_1_S72_R1_001


title: F123 GAM library f123_3NP_GAM180115_H06_1_S48_R1_001


title: F123 GAM library f123_3NP_GAM180115_H07_1_S56_R1_001


title: F123 GAM library f123_3NP_GAM180115_H05_1_S40_R1_001


title: F123 GAM library f123_3NP_GAM180115_H03_1_S24_R1_001


title: F123 GAM library f123_3NP_GAM180115_H04_1_S32_R1_001


title: F123 GAM library f123_3NP_GAM180115_G12_1_S95_R1_001


title: F123 GAM library f123_3NP_GAM180115_G11_1_S87_R1_001


title: F123 GAM library f123_3NP_GAM180115_H01_1_S8_R1_001


title: F123 GAM library f123_3NP_GAM180115_H02_1_S16_R1_001


title: F123 GAM library f123_3NP_GAM180115_G10_1_S79_R1_001


title: F123 GAM library f123_3NP_GAM180115_G09_1_S71_R1_001


title: F123 GAM library f123_3NP_GAM180115_G08_1_S63_R1_001


title: F123 GAM library f123_3NP_GAM180115_G07_1_S55_R1_001


title: F123 GAM library f123_3NP_GAM180115_G04_1_S31_R1_001


title: F123 GAM library f123_3NP_GAM180115_G06_1_S47_R1_001


title: F123 GAM library f123_3NP_GAM180115_G05_1_S39_R1_001


title: F123 GAM library f123_3NP_GAM180115_F11_1_S86_R1_001


title: F123 GAM library f123_3NP_GAM180115_F12_1_S94_R1_001


title: F123 GAM library f123_3NP_GAM180115_G03_1_S23_R1_001


title: F123 GAM library f123_3NP_GAM180115_F10_1_S78_R1_001


title: F123 GAM library f123_3NP_GAM180115_F09_1_S70_R1_001


title: F123 GAM library f123_3NP_GAM180115_F08_1_S62_R1_001


title: F123 GAM library f123_3NP_GAM180115_F06_1_S46_R1_001


title: F123 GAM library f123_3NP_GAM180115_G01_1_S7_R1_001


title: F123 GAM library f123_3NP_GAM180115_F03_1_S22_R1_001


title: F123 GAM library f123_3NP_GAM180511_D03_1_S20_R1_001


title: F123 GAM library f123_3NP_GAM180115_F04_1_S30_R1_001


title: F123 GAM library f123_3NP_GAM180115_F02_1_S14_R1_001


title: F123 GAM library f123_3NP_GAM180115_E12_1_S93_R1_001


title: F123 GAM library f123_3NP_GAM180115_F01_1_S6_R1_001


title: F123 GAM library f123_3NP_GAM180115_E11_1_S85_R1_001


title: F123 GAM library f123_3NP_GAM180115_E10_1_S77_R1_001


title: F123 GAM library f123_3NP_GAM180115_E09_1_S69_R1_001


title: F123 GAM library f123_3NP_GAM180115_G02_1_S15_R1_001


title: F123 GAM library f123_3NP_GAM180115_E08_1_S61_R1_001


title: F123 GAM library f123_3NP_GAM180115_E07_1_S53_R1_001


title: F123 GAM library f123_3NP_GAM180115_E05_1_S37_R1_001


title: F123 GAM library f123_3NP_GAM180716_F11_1_S86_R1_001


title: F123 GAM library f123_3NP_GAM180115_E04_1_S29_R1_001


title: F123 GAM library f123_3NP_GAM180115_E02_1_S13_R1_001


title: F123 GAM library f123_3NP_GAM180115_E03_1_S21_R1_001


title: F123 GAM library f123_3NP_GAM180115_D11_1_S84_R1_001


title: F123 GAM library f123_3NP_GAM180115_D12_1_S92_R1_001


title: F123 GAM library f123_3NP_GAM180716_F12_1_S94_R1_001


title: F123 GAM library f123_3NP_GAM180115_F07_1_S54_R1_001


title: F123 GAM library f123_3NP_GAM180115_D10_1_S76_R1_001


title: F123 GAM library f123_3NP_GAM180115_E01_1_S5_R1_001


title: F123 GAM library f123_3NP_GAM180115_D08_1_S60_R1_001


title: F123 GAM library f123_3NP_GAM180115_D07_1_S52_R1_001


title: F123 GAM library f123_3NP_GAM180115_D05_1_S36_R1_001


title: F123 GAM library f123_3NP_GAM180115_D02_1_S12_R1_001


title: F123 GAM library f123_3NP_GAM180115_F05_1_S38_R1_001


title: F123 GAM library f123_3NP_GAM180115_D06_1_S44_R1_001


title: F123 GAM library f123_3NP_GAM180115_D03_1_S20_R1_001


title: F123 GAM library f123_3NP_GAM180115_D04_1_S28_R1_001


title: F123 GAM library f123_3NP_GAM180115_D01_1_S4_R1_001


title: F123 GAM library f123_3NP_GAM180115_C12_1_S91_R1_001


title: F123 GAM library f123_3NP_GAM180115_E06_1_S45_R1_001


title: F123 GAM library f123_3NP_GAM180115_C11_1_S83_R1_001


title: F123 GAM library f123_3NP_GAM180115_C10_1_S75_R1_001


title: F123 GAM library f123_3NP_GAM180115_C07_1_S51_R1_001


title: F123 GAM library f123_3NP_GAM180115_C09_1_S67_R1_001


title: F123 GAM library f123_3NP_GAM180115_C08_1_S59_R1_001


title: F123 GAM library f123_3NP_GAM180115_C06_1_S43_R1_001


title: F123 GAM library f123_3NP_GAM180115_C05_1_S35_R1_001


title: F123 GAM library f123_3NP_GAM180115_C02_1_S11_R1_001


title: F123 GAM library f123_3NP_GAM180115_C03_1_S19_R1_001


title: F123 GAM library f123_3NP_GAM180115_B12_1_S90_R1_001


title: F123 GAM library f123_3NP_GAM180115_C04_1_S27_R1_001


title: F123 GAM library f123_3NP_GAM180115_D09_1_S68_R1_001


title: F123 GAM library f123_3NP_GAM180115_B10_1_S74_R1_001


title: F123 GAM library f123_3NP_GAM180115_C01_1_S3_R1_001


title: F123 GAM library f123_3NP_GAM180115_B09_1_S66_R1_001


title: F123 GAM library f123_3NP_GAM180115_B05_1_S34_R1_001


title: F123 GAM library f123_3NP_GAM180115_B07_1_S50_R1_001


title: F123 GAM library f123_3NP_GAM180115_B08_1_S58_R1_001


title: F123 GAM library f123_3NP_GAM180115_B03_1_S18_R1_001


title: F123 GAM library f123_3NP_GAM180115_B04_1_S26_R1_001


title: F123 GAM library f123_3NP_GAM180115_B02_1_S10_R1_001


title: F123 GAM library f123_3NP_GAM180115_B01_1_S2_R1_001


title: F123 GAM library f123_3NP_GAM180115_A12_1_S89_R1_001


title: F123 GAM library f123_3NP_GAM180115_A10_1_S73_R1_001


title: F123 GAM library f123_3NP_GAM180115_A11_1_S81_R1_001


title: F123 GAM library f123_3NP_GAM180115_A09_1_S65_R1_001


title: F123 GAM library f123_3NP_GAM180115_A07_1_S49_R1_001


title: F123 GAM library f123_3NP_GAM180115_A08_1_S57_R1_001


title: F123 GAM library f123_3NP_GAM180115_A02_1_S9_R1_001


title: F123 GAM library f123_3NP_GAM180115_A04_1_S25_R1_001


title: F123 GAM library f123_3NP_GAM180115_B11_1_S82_R1_001


title: F123 GAM library f123_3NP_GAM180115_A06_1_S41_R1_001


title: F123 GAM library f123_3NP_GAM180115_A01_1_S1_R1_001


title: F123 GAM library f123_3NP_GAM180115_B06_1_S42_R1_001


title: F123 GAM library f123_3NP_GAM171221_H08_1_S64_R1_001


title: F123 GAM library f123_3NP_GAM171221_H10_1_S80_R1_001


title: F123 GAM library f123_3NP_GAM171221_G10_1_S79_R1_001


title: F123 GAM library f123_3NP_GAM171221_H02_1_S16_R1_001


title: F123 GAM library f123_3NP_GAM171221_G08_1_S63_R1_001


title: F123 GAM library f123_3NP_GAM171221_G06_1_S47_R1_001


title: F123 GAM library f123_3NP_GAM171221_G05_1_S39_R1_001


title: F123 GAM library f123_3NP_GAM171221_G04_1_S31_R1_001


title: F123 GAM library f123_3NP_GAM171221_G02_1_S15_R1_001


title: F123 GAM library f123_3NP_GAM171221_G03_1_S23_R1_001


title: F123 GAM library f123_3NP_GAM171221_F05_1_S38_R1_001


title: F123 GAM library f123_3NP_GAM180115_A05_1_S33_R1_001


title: F123 GAM library f123_3NP_GAM171221_F08_1_S62_R1_001


title: F123 GAM library f123_3NP_GAM171221_F06_1_S46_R1_001


title: F123 GAM library f123_3NP_GAM171221_F07_1_S54_R1_001


title: F123 GAM library f123_3NP_GAM171221_F04_1_S30_R1_001


title: F123 GAM library f123_3NP_GAM180115_A03_1_S17_R1_001


title: F123 GAM library f123_3NP_GAM171221_E07_1_S53_R1_001


title: F123 GAM library f123_3NP_GAM171221_E06_1_S45_R1_001


title: F123 GAM library f123_3NP_GAM171221_F02_1_S14_R1_001


title: F123 GAM library f123_3NP_GAM171221_E05_1_S37_R1_001


title: F123 GAM library f123_3NP_GAM171221_E10_1_S77_R1_001


title: F123 GAM library f123_3NP_GAM171221_E08_1_S61_R1_001


title: F123 GAM library f123_3NP_GAM171221_F03_1_S22_R1_001


title: F123 GAM library f123_3NP_GAM171221_H07_1_S56_R1_001


title: F123 GAM library f123_3NP_GAM171221_H04_1_S32_R1_001


title: F123 GAM library f123_3NP_GAM171221_E04_1_S29_R1_001


title: F123 GAM library f123_3NP_GAM171221_E03_1_S21_R1_001


title: F123 GAM library f123_3NP_GAM171221_H05_1_S40_R1_001


title: F123 GAM library f123_3NP_GAM171221_G07_1_S55_R1_001


title: F123 GAM library f123_3NP_GAM171221_D10_1_S76_R1_001


title: F123 GAM library f123_3NP_GAM171221_D08_1_S60_R1_001


title: F123 GAM library f123_3NP_GAM171221_E02_1_S13_R1_001


title: F123 GAM library f123_3NP_GAM171221_F10_1_S78_R1_001


title: F123 GAM library f123_3NP_GAM171221_D05_1_S36_R1_001


title: F123 GAM library f123_3NP_GAM171221_D06_1_S44_R1_001


title: F123 GAM library f123_3NP_GAM171221_D03_1_S20_R1_001


title: F123 GAM library f123_3NP_GAM171221_D04_1_S28_R1_001


title: F123 GAM library f123_3NP_GAM171221_D02_1_S12_R1_001


title: F123 GAM library f123_3NP_GAM171221_C08_1_S59_R1_001


title: F123 GAM library f123_3NP_GAM171221_C07_1_S51_R1_001


title: F123 GAM library f123_3NP_GAM171221_C06_1_S43_R1_001


title: F123 GAM library f123_3NP_GAM171221_C03_1_S19_R1_001


title: F123 GAM library f123_3NP_GAM171221_C10_1_S75_R1_001


title: F123 GAM library f123_3NP_GAM171221_C04_1_S27_R1_001


title: F123 GAM library f123_3NP_GAM171221_C05_1_S35_R1_001


title: F123 GAM library f123_3NP_GAM171221_C02_1_S11_R1_001


title: F123 GAM library f123_3NP_GAM171221_B08_1_S58_R1_001


title: F123 GAM library f123_3NP_GAM171221_B10_1_S74_R1_001


title: F123 GAM library f123_3NP_GAM171221_B07_1_S50_R1_001


title: F123 GAM library f123_3NP_GAM171221_B04_1_S26_R1_001


title: F123 GAM library f123_3NP_GAM171221_B06_1_S42_R1_001


title: F123 GAM library f123_3NP_GAM171221_B05_1_S34_R1_001


title: F123 GAM library f123_3NP_GAM171221_B02_1_S10_R1_001


title: F123 GAM library f123_3NP_GAM171221_B03_1_S18_R1_001


title: F123 GAM library f123_3NP_GAM171221_D07_1_S52_R1_001


title: F123 GAM library f123_3NP_GAM171221_A10_1_S73_R1_001


title: F123 GAM library f123_3NP_GAM171221_A08_1_S57_R1_001


title: F123 GAM library f123_3NP_GAM171221_A06_1_S41_R1_001


title: F123 GAM library f123_3NP_GAM171221_A04_1_S25_R1_001


title: F123 GAM library f123_3NP_GAM171221_A07_1_S49_R1_001


title: F123 GAM library f123_3NP_GAM171221_A05_1_S33_R1_001


title: F123 GAM library f123_3NP_GAM171221_A02_1_S9_R1_001


title: F123 GAM library f123_3NP_GAM171214_H01_1_S8_R1_001


title: F123 GAM library f123_3NP_GAM171214_G02_1_S15_R1_001


title: F123 GAM library f123_3NP_GAM171214_F02_1_S14_R1_001


title: F123 GAM library f123_3NP_GAM171214_G01_1_S7_R1_001


title: F123 GAM library f123_3NP_GAM171214_F01_1_S6_R1_001


title: F123 GAM library f123_3NP_GAM171214_E01_1_S5_R1_001


title: F123 GAM library f123_3NP_GAM171214_E02_1_S13_R1_001


title: F123 GAM library f123_3NP_GAM171214_D02_1_S12_R1_001


title: F123 GAM library f123_3NP_GAM171214_D01_1_S4_R1_001


title: F123 GAM library f123_3NP_GAM171214_C02_1_S11_R1_001


title: F123 GAM library f123_3NP_GAM171214_C01_1_S3_R1_001


title: F123 GAM library f123_3NP_GAM171214_B01_1_S2_R1_001


title: F123 GAM library f123_3NP_GAM171214_A01_1_S1_R1_001


title: F123 GAM library f123_3NP_GAM171214_A02_1_S9_R1_001


title: F123 GAM library f123_3NP_GAM171211_H10_1_S80_R1_001


title: F123 GAM library f123_3NP_GAM171211_H11_2_S184_R1_001


title: F123 GAM library f123_3NP_GAM171211_H08_2_S160_R1_001


title: F123 GAM library f123_3NP_GAM171211_H11_1_S88_R1_001


title: F123 GAM library f123_3NP_GAM171211_H09_1_S72_R1_001


title: F123 GAM library f123_3NP_GAM171221_A03_1_S17_R1_001


title: F123 GAM library f123_3NP_GAM171211_H07_1_S56_R1_001


title: F123 GAM library f123_3NP_GAM171211_H09_2_S168_R1_001


title: F123 GAM library f123_3NP_GAM171211_H07_2_S152_R1_001


title: F123 GAM library f123_3NP_GAM171211_H08_1_S64_R1_001


title: F123 GAM library f123_3NP_GAM171211_H05_1_S40_R1_001


title: F123 GAM library f123_3NP_GAM171211_H05_2_S136_R1_001


title: F123 GAM library f123_3NP_GAM171211_H04_1_S32_R1_001


title: F123 GAM library f123_3NP_GAM171211_H04_2_S128_R1_001


title: F123 GAM library f123_3NP_GAM171211_H03_1_S24_R1_001


title: F123 GAM library f123_3NP_GAM171211_H02_2_S112_R1_001


title: F123 GAM library f123_3NP_GAM171211_H02_1_S16_R1_001


title: F123 GAM library f123_3NP_GAM171211_H03_2_S120_R1_001


title: F123 GAM library f123_3NP_GAM171211_G12_2_S191_R1_001


title: F123 GAM library f123_3NP_GAM171211_H01_1_S8_R1_001


title: F123 GAM library f123_3NP_GAM171214_B02_1_S10_R1_001


title: F123 GAM library f123_3NP_GAM171211_H01_2_S104_R1_001


title: F123 GAM library f123_3NP_GAM171211_H10_2_S176_R1_001


title: F123 GAM library f123_3NP_GAM171211_G11_2_S183_R1_001


title: F123 GAM library f123_3NP_GAM171211_G10_2_S175_R1_001


title: F123 GAM library f123_3NP_GAM171211_G10_1_S79_R1_001


title: F123 GAM library f123_3NP_GAM171211_G07_2_S151_R1_001


title: F123 GAM library f123_3NP_GAM171211_G08_2_S159_R1_001


title: F123 GAM library f123_3NP_GAM171211_G05_2_S135_R1_001


title: F123 GAM library f123_3NP_GAM171211_G07_1_S55_R1_001


title: F123 GAM library f123_3NP_GAM171211_G08_1_S63_R1_001


title: F123 GAM library f123_3NP_GAM171211_G06_2_S143_R1_001


title: F123 GAM library f123_3NP_GAM171211_G05_1_S39_R1_001


title: F123 GAM library f123_3NP_GAM171211_G06_1_S47_R1_001


title: F123 GAM library f123_3NP_GAM171211_G03_2_S119_R1_001


title: F123 GAM library f123_3NP_GAM171211_G03_1_S23_R1_001


title: F123 GAM library f123_3NP_GAM171211_G02_2_S111_R1_001


title: F123 GAM library f123_3NP_GAM171211_G04_2_S127_R1_001


title: F123 GAM library f123_3NP_GAM171211_G04_1_S31_R1_001


title: F123 GAM library f123_3NP_GAM171211_G02_1_S15_R1_001


title: F123 GAM library f123_3NP_GAM171211_G01_1_S7_R1_001


title: F123 GAM library f123_3NP_GAM171211_G12_1_S95_R1_001


title: F123 GAM library f123_3NP_GAM171211_G01_2_S103_R1_001


title: F123 GAM library f123_3NP_GAM171211_F10_2_S174_R1_001


title: F123 GAM library f123_3NP_GAM171211_F10_1_S78_R1_001


title: F123 GAM library f123_3NP_GAM171211_F11_1_S86_R1_001


title: F123 GAM library f123_3NP_GAM171211_G09_2_S167_R1_001


title: F123 GAM library f123_3NP_GAM171211_F09_2_S166_R1_001


title: F123 GAM library f123_3NP_GAM171211_G11_1_S87_R1_001


title: F123 GAM library f123_3NP_GAM171211_G09_1_S71_R1_001


title: F123 GAM library f123_3NP_GAM171211_F11_2_S182_R1_001


title: F123 GAM library f123_3NP_GAM171211_F08_1_S62_R1_001


title: F123 GAM library f123_3NP_GAM171211_F07_2_S150_R1_001


title: F123 GAM library f123_3NP_GAM171211_F08_2_S158_R1_001


title: F123 GAM library f123_3NP_GAM171211_F07_1_S54_R1_001


title: F123 GAM library f123_3NP_GAM171211_F09_1_S70_R1_001


title: F123 GAM library f123_3NP_GAM171211_F06_2_S142_R1_001


title: F123 GAM library f123_3NP_GAM171211_F06_1_S46_R1_001


title: F123 GAM library f123_3NP_GAM171211_F05_2_S134_R1_001


title: F123 GAM library f123_3NP_GAM171211_F04_1_S30_R1_001


title: F123 GAM library f123_3NP_GAM171211_F03_2_S118_R1_001


title: F123 GAM library f123_3NP_GAM171211_F05_1_S38_R1_001


title: F123 GAM library f123_3NP_GAM171211_F03_1_S22_R1_001


title: F123 GAM library f123_3NP_GAM171211_F02_2_S110_R1_001


title: F123 GAM library f123_3NP_GAM171211_F02_1_S14_R1_001


title: F123 GAM library f123_3NP_GAM171211_F12_1_S94_R1_001


title: F123 GAM library f123_3NP_GAM171211_F04_2_S126_R1_001


title: F123 GAM library f123_3NP_GAM171211_F01_1_S6_R1_001


title: F123 GAM library f123_3NP_GAM171211_E12_1_S93_R1_001


title: F123 GAM library f123_3NP_GAM171211_E11_2_S181_R1_001


title: F123 GAM library f123_3NP_GAM171211_E12_2_S189_R1_001


title: F123 GAM library f123_3NP_GAM171211_F01_2_S102_R1_001


title: F123 GAM library f123_3NP_GAM171211_E10_2_S173_R1_001


title: F123 GAM library f123_3NP_GAM171211_E09_2_S165_R1_001


title: F123 GAM library f123_3NP_GAM171211_E10_1_S77_R1_001


title: F123 GAM library f123_3NP_GAM171211_E09_1_S69_R1_001


title: F123 GAM library f123_3NP_GAM171211_E08_1_S61_R1_001


title: F123 GAM library f123_3NP_GAM171211_E07_2_S149_R1_001


title: F123 GAM library f123_3NP_GAM171211_E08_2_S157_R1_001


title: F123 GAM library f123_3NP_GAM171211_E05_2_S133_R1_001


title: F123 GAM library f123_3NP_GAM171211_E05_1_S37_R1_001


title: F123 GAM library f123_3NP_GAM171211_E04_1_S29_R1_001


title: F123 GAM library f123_3NP_GAM171211_E03_2_S117_R1_001


title: F123 GAM library f123_3NP_GAM171211_E04_2_S125_R1_001


title: F123 GAM library f123_3NP_GAM171211_E03_1_S21_R1_001


title: F123 GAM library f123_3NP_GAM171211_E02_2_S109_R1_001


title: F123 GAM library f123_3NP_GAM171211_E02_1_S13_R1_001


title: F123 GAM library f123_3NP_GAM171211_E01_2_S101_R1_001


title: F123 GAM library f123_3NP_GAM171211_D12_1_S92_R1_001


title: F123 GAM library f123_3NP_GAM171211_D12_2_S188_R1_001


title: F123 GAM library f123_3NP_GAM171211_D11_1_S84_R1_001


title: F123 GAM library f123_3NP_GAM171211_D11_2_S180_R1_001


title: F123 GAM library f123_3NP_GAM171211_E11_1_S85_R1_001


title: F123 GAM library f123_3NP_GAM171211_D10_2_S172_R1_001


title: F123 GAM library f123_3NP_GAM171211_D09_2_S164_R1_001


title: F123 GAM library f123_3NP_GAM171211_D10_1_S76_R1_001


title: F123 GAM library f123_3NP_GAM171211_D09_1_S68_R1_001


title: F123 GAM library f123_3NP_GAM171211_D07_2_S148_R1_001


title: F123 GAM library f123_3NP_GAM171211_E06_2_S141_R1_001


title: F123 GAM library f123_3NP_GAM171211_E06_1_S45_R1_001


title: F123 GAM library f123_3NP_GAM171211_D06_2_S140_R1_001


title: F123 GAM library f123_3NP_GAM171211_D07_1_S52_R1_001


title: F123 GAM library f123_3NP_GAM171211_D06_1_S44_R1_001


title: F123 GAM library f123_3NP_GAM171211_D05_2_S132_R1_001


title: F123 GAM library f123_3NP_GAM171211_D05_1_S36_R1_001


title: F123 GAM library f123_3NP_GAM171211_D04_1_S28_R1_001


title: F123 GAM library f123_3NP_GAM171211_E01_1_S5_R1_001


title: F123 GAM library f123_3NP_GAM171211_D02_2_S108_R1_001


title: F123 GAM library f123_3NP_GAM171211_D03_2_S116_R1_001


title: F123 GAM library f123_3NP_GAM171211_D02_1_S12_R1_001


title: F123 GAM library f123_3NP_GAM171211_D03_1_S20_R1_001


title: F123 GAM library f123_3NP_GAM171211_D08_2_S156_R1_001


title: F123 GAM library f123_3NP_GAM171211_D01_2_S100_R1_001


title: F123 GAM library f123_3NP_GAM171211_C12_1_S91_R1_001


title: F123 GAM library f123_3NP_GAM171211_C11_1_S83_R1_001


title: F123 GAM library f123_3NP_GAM171211_D01_1_S4_R1_001


title: F123 GAM library f123_3NP_GAM171211_C12_2_S187_R1_001


title: F123 GAM library f123_3NP_GAM171211_C10_1_S75_R1_001


title: F123 GAM library f123_3NP_GAM171211_C11_2_S179_R1_001


title: F123 GAM library f123_3NP_GAM171211_D08_1_S60_R1_001


title: F123 GAM library f123_3NP_GAM171211_C09_2_S163_R1_001


title: F123 GAM library f123_3NP_GAM171211_C10_2_S171_R1_001


title: F123 GAM library f123_3NP_GAM171211_C09_1_S67_R1_001


title: F123 GAM library f123_3NP_GAM171211_C08_2_S155_R1_001


title: genomic DNA from placenta: fe18

type: genomic

city: Atlanta

first: Todd

last: Everson

state: GA

address: 1518 Clifton Road

department: Environmental Health

institute: Rollins School of Public Health at Emory University

hyb_protocol: bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium MethylationEPIC BeadChip using standard Illumina protocol

scan_protocol: Arrays were imaged using iScan Control Software using standard recommended Illumina scanner setting

data_processing: minfi Bioconductor package in R environment

label: Cy5 and Cy3

source_name: human placenta

label_protocol: Standard Illumina Protocol

extract_protocol: Genomic DNA was extracted from buccal swab samples, collected near term-equivalent age, using the Isohelix Buccal Swab system (Boca Scientific), quantified using the Quibit Fluorometer (Thermo Fisher, Waltham, MA, USA) and aliquoted into a standardized concentration for subsequent analyses

tag: matbmi

value: Lean

tag: matedu

value: Male

tag: trophoblasts

tag: stromal

tag: hofbauer

tag: endothelial

tag: nrbc

tag: syncytiotrophoblast

tag: pfhxs

tag: pfoa

tag: pfna

tag: pfos

tag: pfda

value: human placenta


title: F123 GAM library f123_3NP_GAM171211_D04_2_S124_R1_001

tag: cell line

tag: cell type

tag: genotype

tag: Sex


title: genomic DNA from placenta: fce3

tag: matbmi

value: Overweight

tag: batch

tag: tissue


title: genomic DNA from placenta: fc98

tag: matedu

value: Female

tag: trophoblasts

tag: stromal


title: genomic DNA from placenta: fd05

tag: hofbauer

tag: endothelial

tag: nrbc


title: F123 GAM library f123_3NP_GAM171211_C07_2_S147_R1_001


title: genomic DNA from placenta: fc65

tag: syncytiotrophoblast

tag: pfhxs

tag: pfoa


title: F123 GAM library f123_3NP_GAM171211_C06_2_S139_R1_001


title: F123 GAM library f123_3NP_GAM171211_C06_1_S43_R1_001


title: F123 GAM library f123_3NP_GAM171211_C08_1_S59_R1_001


title: genomic DNA from placenta: f744

tag: pfna

tag: pfos

tag: pfda


title: F123 GAM library f123_3NP_GAM171211_C05_2_S131_R1_001

tag: cell line

tag: cell type

tag: genotype


title: genomic DNA from placenta: fc08

tag: matbmi

tag: Sex

tag: batch


title: F123 GAM library f123_3NP_GAM171211_C04_2_S123_R1_001


title: genomic DNA from placenta: f409

tag: matedu

tag: trophoblasts

tag: tissue


title: F123 GAM library f123_3NP_GAM171211_C05_1_S35_R1_001


title: genomic DNA from placenta: f69a

tag: stromal

tag: hofbauer

tag: endothelial


title: genomic DNA from placenta: f02a

tag: nrbc

tag: syncytiotrophoblast

tag: pfhxs


title: genomic DNA from placenta: ee33

tag: pfoa

tag: pfna

tag: pfos


title: F123 GAM library f123_3NP_GAM171211_C02_2_S107_R1_001

tag: cell line

tag: cell type


title: genomic DNA from placenta: f5a8

tag: matbmi

tag: pfda


title: F123 GAM library f123_3NP_GAM171211_C02_1_S11_R1_001

tag: genotype

tag: Sex


title: genomic DNA from placenta: ed32

tag: matedu

tag: batch

tag: trophoblasts


title: F123 GAM library f123_3NP_GAM171211_C03_2_S115_R1_001


title: F123 GAM library f123_3NP_GAM171211_C04_1_S27_R1_001


title: F123 GAM library f123_3NP_GAM171211_C07_1_S51_R1_001


title: genomic DNA from placenta: ef0a

tag: stromal

tag: hofbauer

tag: tissue


title: F123 GAM library f123_3NP_GAM171211_B11_2_S178_R1_001


title: F123 GAM library f123_3NP_GAM171211_C03_1_S19_R1_001


title: F123 GAM library f123_3NP_GAM171211_C01_2_S99_R1_001


title: genomic DNA from placenta: eda9

tag: endothelial

tag: nrbc

tag: syncytiotrophoblast


title: genomic DNA from placenta: db7a

tag: pfhxs

tag: pfoa

tag: pfna


title: genomic DNA from placenta: e61d

tag: pfos


title: genomic DNA from placenta: ed84

tag: matbmi


title: F123 GAM library f123_3NP_GAM171211_B11_1_S82_R1_001

tag: cell line

tag: cell type


title: F123 GAM library f123_3NP_GAM171211_B09_2_S162_R1_001

tag: genotype

tag: Sex


title: F123 GAM library f123_3NP_GAM171211_B12_2_S186_R1_001


title: genomic DNA from placenta: d518

tag: matedu

tag: batch

tag: pfda


title: F123 GAM library f123_3NP_GAM171211_B09_1_S66_R1_001


title: genomic DNA from placenta: d26f

tag: trophoblasts

tag: stromal

tag: hofbauer


title: F123 GAM library f123_3NP_GAM171211_B08_2_S154_R1_001


title: genomic DNA from placenta: eb6a

tag: endothelial

tag: nrbc

tag: tissue


title: F123 GAM library f123_3NP_GAM171211_B12_1_S90_R1_001


title: genomic DNA from placenta: d928

tag: syncytiotrophoblast

tag: pfhxs

tag: pfoa


title: genomic DNA from placenta: e524

tag: matbmi

tag: pfna

tag: pfos


title: F123 GAM library f123_3NP_GAM171211_B07_2_S146_R1_001

tag: cell line

tag: cell type

tag: genotype


title: F123 GAM library f123_3NP_GAM171211_B10_2_S170_R1_001

tag: Sex


title: genomic DNA from placenta: e721

tag: matedu

tag: batch

tag: pfda


title: genomic DNA from placenta: cdf7

tag: trophoblasts

tag: stromal

tag: hofbauer


title: genomic DNA from placenta: ce1b

tag: endothelial

tag: nrbc

tag: tissue


title: genomic DNA from placenta: ceb1

tag: syncytiotrophoblast

tag: pfhxs

tag: pfoa


title: F123 GAM library f123_3NP_GAM171211_B08_1_S58_R1_001


title: genomic DNA from placenta: cc6b

tag: matbmi

tag: pfna

tag: pfos


title: genomic DNA from placenta: c4fd


title: F123 GAM library f123_3NP_GAM171211_B05_1_S34_R1_001

tag: cell line

tag: cell type

tag: genotype


title: F123 GAM library f123_3NP_GAM171211_B04_1_S26_R1_001

tag: Sex


title: F123 GAM library f123_3NP_GAM171211_B07_1_S50_R1_001


title: F123 GAM library f123_3NP_GAM171211_B06_1_S42_R1_001


title: F123 GAM library f123_3NP_GAM171211_B03_2_S114_R1_001


title: F123 GAM library f123_3NP_GAM171211_B06_2_S138_R1_001


title: genomic DNA from placenta: c4a5

tag: matedu

tag: batch

tag: pfda


title: F123 GAM library f123_3NP_GAM171211_B05_2_S130_R1_001


title: F123 GAM library f123_3NP_GAM171211_B10_1_S74_R1_001


title: genomic DNA from placenta: c31e

tag: trophoblasts

tag: stromal

tag: hofbauer


title: genomic DNA from placenta: c1fb

tag: endothelial

tag: nrbc

tag: tissue


title: genomic DNA from placenta: c0c4

tag: syncytiotrophoblast

tag: pfhxs

tag: pfoa


title: F123 GAM library f123_3NP_GAM171211_B03_1_S18_R1_001


title: genomic DNA from placenta: bdb5

tag: matbmi

tag: pfna

tag: pfos


title: F123 GAM library f123_3NP_GAM171211_B02_2_S106_R1_001

tag: cell line

tag: cell type

tag: genotype


title: genomic DNA from placenta: bcf5

tag: matedu

tag: Sex

tag: batch


title: F123 GAM library f123_3NP_GAM171211_B01_1_S2_R1_001


title: F123 GAM library f123_3NP_GAM171211_A12_1_S89_R1_001


title: genomic DNA from placenta: b9ca

tag: trophoblasts

tag: stromal

tag: pfda


title: F123 GAM library f123_3NP_GAM171211_B02_1_S10_R1_001


title: genomic DNA from placenta: bcd2

tag: hofbauer

tag: endothelial

tag: nrbc


title: F123 GAM library f123_3NP_GAM171211_B04_2_S122_R1_001


title: F123 GAM library f123_3NP_GAM171211_B01_2_S98_R1_001


title: genomic DNA from placenta: c3eb

tag: syncytiotrophoblast

tag: pfhxs

tag: tissue


title: genomic DNA from placenta: b97d

tag: matbmi

tag: pfoa

tag: pfna


title: genomic DNA from placenta: b7c8

tag: pfos


title: genomic DNA from placenta: c717


title: F123 GAM library f123_3NP_GAM171211_A11_1_S81_R1_001

tag: cell line

tag: cell type

tag: genotype


title: genomic DNA from placenta: b777

tag: matedu

tag: Sex

tag: batch


title: F123 GAM library f123_3NP_GAM171211_A10_1_S73_R1_001


title: genomic DNA from placenta: b606

tag: trophoblasts

tag: stromal

tag: pfda


title: genomic DNA from placenta: b4b3

tag: hofbauer

tag: endothelial

tag: nrbc


title: genomic DNA from placenta: b4f5

tag: syncytiotrophoblast

tag: pfhxs

tag: tissue


title: F123 GAM library f123_3NP_GAM171211_A09_2_S161_R1_001


title: F123 GAM library f123_3NP_GAM171211_A10_2_S169_R1_001


title: F123 GAM library f123_3NP_GAM171211_A08_2_S153_R1_001


title: F123 GAM library f123_3NP_GAM171211_A09_1_S65_R1_001


title: genomic DNA from placenta: c1c0

tag: matbmi

tag: pfoa

tag: pfna


title: F123 GAM library f123_3NP_GAM171211_A08_1_S57_R1_001

tag: cell line

tag: cell type


title: genomic DNA from placenta: b1a5

tag: matedu

tag: pfos


title: F123 GAM library f123_3NP_GAM171211_A07_2_S145_R1_001

tag: genotype

tag: Sex


title: genomic DNA from placenta: ae79

tag: batch

tag: trophoblasts

tag: stromal


title: genomic DNA from placenta: ac98

tag: hofbauer

tag: endothelial

tag: pfda


title: F123 GAM library f123_3NP_GAM171211_A11_2_S177_R1_001


title: F123 GAM library f123_3NP_GAM171211_A06_2_S137_R1_001


title: F123 GAM library f123_3NP_GAM171211_A07_1_S49_R1_001


title: genomic DNA from placenta: aad1

tag: nrbc

tag: syncytiotrophoblast

tag: pfhxs


title: genomic DNA from placenta: aa3d

tag: matbmi

tag: pfoa

tag: tissue


title: F123 GAM library f123_3NP_GAM171211_A06_1_S41_R1_001

tag: cell line

tag: cell type


title: genomic DNA from placenta: a963

tag: matedu

tag: pfna

tag: pfos


title: F123 GAM library f123_3NP_GAM171211_A05_2_S129_R1_001

tag: genotype

tag: Sex


title: F123 GAM library f123_3NP_GAM171211_A05_1_S33_R1_001


title: genomic DNA from placenta: a954

tag: batch

tag: trophoblasts

tag: stromal


title: genomic DNA from placenta: a7c4

tag: hofbauer

tag: endothelial

tag: pfda


title: F123 GAM library f123_3NP_GAM171211_A04_2_S121_R1_001


title: F123 GAM library f123_3NP_GAM171211_A04_1_S25_R1_001


title: genomic DNA from placenta: a6a2

tag: nrbc

tag: syncytiotrophoblast

tag: pfhxs


title: genomic DNA from placenta: a4c7

tag: matbmi

tag: pfoa

tag: tissue


title: F123 GAM library f123_3NP_GAM171211_A03_2_S113_R1_001

tag: cell line

tag: cell type


title: F123 GAM library f123_3NP_GAM171211_A03_1_S17_R1_001


title: genomic DNA from placenta: a58a

tag: matedu

tag: pfna

tag: pfos


title: genomic DNA from placenta: b43c

tag: Sex

tag: batch


title: F123 GAM library f123_3NP_GAM171211_A02_2_S105_R1_001

tag: genotype


title: genomic DNA from placenta: 9fa6

tag: trophoblasts

tag: stromal

tag: hofbauer


title: F123 GAM library f123_3NP_GAM171211_A02_1_S9_R1_001


title: F123 GAM library f123_3NP_GAM171211_A01_2_S97_R1_001


title: genomic DNA from placenta: 9880

tag: endothelial

tag: nrbc

tag: pfda


title: genomic DNA from placenta: 9f37

tag: matbmi

tag: syncytiotrophoblast

tag: pfhxs


title: F123 GAM library f123_3NP_GAM171120_H11_1_S88_R1_001

tag: cell line


title: F123 GAM library f123_3NP_GAM171120_H03_1_S24_R1_001

tag: cell type


title: genomic DNA from placenta: 975a

tag: matedu

tag: pfoa

tag: tissue


title: genomic DNA from placenta: 8a74

tag: Sex

tag: pfna

tag: pfos


title: genomic DNA from placenta: 8d52

tag: batch

tag: trophoblasts


title: genomic DNA from placenta: 8a60

tag: stromal

tag: hofbauer


title: F123 GAM library f123_3NP_GAM171120_H10_1_S80_R1_001

tag: genotype


title: F123 GAM library f123_3NP_GAM171120_G10_1_S79_R1_001


title: genomic DNA from placenta: 8a0a

tag: endothelial

tag: nrbc

tag: pfda


title: F123 GAM library f123_3NP_GAM171120_G11_1_S87_R1_001


title: F123 GAM library f123_3NP_GAM171120_G12_1_S95_R1_001


title: F123 GAM library f123_3NP_GAM171120_G09_1_S71_R1_001


title: genomic DNA from placenta: 83b0

tag: matbmi

tag: syncytiotrophoblast

tag: pfhxs


title: F123 GAM library f123_3NP_GAM171120_G04_1_S31_R1_001

tag: cell line

tag: cell type


title: genomic DNA from placenta: a103

tag: matedu

tag: pfoa

tag: tissue


title: F123 GAM library f123_3NP_GAM171120_G02_1_S15_R1_001

tag: Sex


title: F123 GAM library f123_3NP_GAM171120_G03_1_S23_R1_001


title: genomic DNA from placenta: 7bf2

tag: batch

tag: pfna

tag: pfos


title: F123 GAM library f123_3NP_GAM171211_A01_1_S1_R1_001


title: genomic DNA from placenta: 7bda

tag: trophoblasts

tag: stromal

tag: hofbauer


title: genomic DNA from placenta: 9da6

tag: endothelial

tag: nrbc


title: F123 GAM library f123_3NP_GAM171120_F12_1_S94_R1_001

tag: genotype


title: genomic DNA from placenta: 7a6a

tag: matbmi

tag: syncytiotrophoblast

tag: pfda


title: genomic DNA from placenta: 79c6

tag: pfhxs


title: F123 GAM library f123_3NP_GAM171120_H01_1_S8_R1_001

tag: cell line

tag: cell type


title: F123 GAM library f123_3NP_GAM171120_F10_1_S78_R1_001


title: F123 GAM library f123_3NP_GAM171120_F11_1_S86_R1_001


title: F123 GAM library f123_3NP_GAM171120_F09_1_S70_R1_001


title: genomic DNA from placenta: 7901

tag: matedu

tag: pfoa

tag: tissue


title: genomic DNA from placenta: 7698

tag: Sex

tag: batch

tag: pfna


title: genomic DNA from placenta: 7624

tag: trophoblasts

tag: stromal

tag: pfos


title: genomic DNA from placenta: 87bb

tag: hofbauer

tag: endothelial

tag: nrbc


title: genomic DNA from placenta: 71d9

tag: matbmi

tag: syncytiotrophoblast


title: F123 GAM library f123_3NP_GAM171120_F03_1_S22_R1_001

tag: genotype


title: F123 GAM library f123_3NP_GAM171120_G01_1_S7_R1_001

tag: cell line


title: genomic DNA from placenta: 7ed3

tag: pfhxs

tag: pfda


title: F123 GAM library f123_3NP_GAM171120_F01_1_S6_R1_001

tag: cell type


title: genomic DNA from placenta: 6b48

tag: matedu

tag: pfoa

tag: tissue


title: genomic DNA from placenta: 81bb

tag: Sex

tag: batch

tag: pfna


title: genomic DNA from placenta: 704b

tag: trophoblasts

tag: stromal

tag: pfos


title: F123 GAM library f123_3NP_GAM171120_E11_1_S85_R1_001


title: F123 GAM library f123_3NP_GAM171120_E12_1_S93_R1_001


title: F123 GAM library f123_3NP_GAM171120_E09_1_S69_R1_001


title: F123 GAM library f123_3NP_GAM171120_E10_1_S77_R1_001


title: genomic DNA from placenta: 67ba

tag: hofbauer

tag: endothelial

tag: nrbc


title: genomic DNA from placenta: 6738

tag: matbmi

tag: syncytiotrophoblast


title: genomic DNA from placenta: 66bd

tag: pfhxs


title: genomic DNA from placenta: 631e

tag: pfda


title: F123 GAM library f123_3NP_GAM171120_E03_1_S21_R1_001

tag: cell line

tag: cell type

tag: genotype


title: F123 GAM library f123_3NP_GAM171120_E04_1_S29_R1_001


title: genomic DNA from placenta: 6057

tag: matedu

tag: pfoa

tag: tissue


title: F123 GAM library f123_3NP_GAM171120_E02_1_S13_R1_001

tag: Sex


title: F123 GAM library f123_3NP_GAM171120_F04_1_S30_R1_001


title: genomic DNA from placenta: 5f3b

tag: batch

tag: trophoblasts

tag: pfna


title: F123 GAM library f123_3NP_GAM171120_E01_1_S5_R1_001


title: F123 GAM library f123_3NP_GAM171120_D12_1_S92_R1_001


title: genomic DNA from placenta: 5a99

tag: stromal

tag: hofbauer

tag: pfos


title: F123 GAM library f123_3NP_GAM171120_D11_1_S84_R1_001


title: genomic DNA from placenta: 5a2c

tag: matbmi

tag: endothelial

tag: nrbc


title: F123 GAM library f123_3NP_GAM171120_D10_1_S76_R1_001


title: genomic DNA from placenta: 58e9

tag: syncytiotrophoblast

tag: pfhxs

tag: pfda


title: F123 GAM library f123_3NP_GAM171120_D09_1_S68_R1_001

tag: cell line

tag: cell type

tag: genotype


title: genomic DNA from placenta: 579e

tag: matedu

tag: pfoa

tag: tissue


title: genomic DNA from placenta: 5751

tag: Sex

tag: batch

tag: trophoblasts


title: genomic DNA from placenta: 55d1

tag: stromal

tag: hofbauer

tag: pfna


title: F123 GAM library f123_3NP_GAM171120_D03_1_S20_R1_001


title: F123 GAM library f123_3NP_GAM171120_D02_1_S12_R1_001


title: genomic DNA from placenta: 54cc

tag: matbmi

tag: endothelial

tag: pfos


title: genomic DNA from placenta: 52bd

tag: nrbc

tag: syncytiotrophoblast

tag: pfhxs


title: genomic DNA from placenta: 55d0

tag: pfda


title: F123 GAM library f123_3NP_GAM171120_C11_1_S83_R1_001

tag: cell line

tag: cell type

tag: genotype


title: F123 GAM library f123_3NP_GAM171120_D01_1_S4_R1_001


title: F123 GAM library f123_3NP_GAM171120_D04_1_S28_R1_001


title: genomic DNA from placenta: 5367

tag: matedu

tag: pfoa

tag: tissue


title: F123 GAM library f123_3NP_GAM171120_C12_1_S91_R1_001

tag: Sex


title: genomic DNA from placenta: 5024

tag: batch

tag: trophoblasts

tag: stromal


title: F123 GAM library f123_3NP_GAM171120_C09_1_S67_R1_001


title: genomic DNA from placenta: 51e1

tag: matbmi

tag: hofbauer

tag: pfna


title: F123 GAM library f123_3NP_GAM171120_C10_1_S75_R1_001


title: genomic DNA from placenta: 5e6f

tag: endothelial

tag: nrbc

tag: pfos


title: F123 GAM library f123_3NP_GAM171120_C04_1_S27_R1_001


title: genomic DNA from placenta: 4f0d

tag: syncytiotrophoblast

tag: pfhxs

tag: pfda


title: F123 GAM library f123_3NP_GAM171120_C03_1_S19_R1_001

tag: cell line

tag: cell type

tag: genotype


title: genomic DNA from placenta: 4ff8

tag: matedu

tag: pfoa

tag: tissue


title: F123 GAM library f123_3NP_GAM171120_C01_1_S3_R1_001

tag: Sex


title: F123 GAM library f123_3NP_GAM171120_C02_1_S11_R1_001


title: genomic DNA from placenta: 49c6

tag: batch

tag: trophoblasts

tag: stromal


title: F123 GAM library f123_3NP_GAM171120_B12_1_S90_R1_001


title: genomic DNA from placenta: 47fb

tag: matbmi

tag: hofbauer

tag: pfna


title: F123 GAM library f123_3NP_GAM171120_B10_1_S74_R1_001


title: F123 GAM library f123_3NP_GAM171120_B11_1_S82_R1_001


title: F123 GAM library f123_3NP_GAM171120_B09_1_S66_R1_001


title: genomic DNA from placenta: 44b9

tag: endothelial

tag: nrbc

tag: pfos


title: genomic DNA from placenta: 4573

tag: syncytiotrophoblast

tag: pfhxs

tag: pfda


title: genomic DNA from placenta: 46a1


title: genomic DNA from placenta: 4421


title: genomic DNA from placenta: 41ac


title: genomic DNA from placenta: 40fb


title: F123 GAM library f123_3NP_GAM171120_B04_1_S26_R1_001

tag: cell line

tag: cell type

tag: genotype


title: F123 GAM library f123_3NP_GAM171120_B02_1_S10_R1_001


title: F123 GAM library f123_3NP_GAM171120_B03_1_S18_R1_001


title: F123 GAM library f123_3NP_GAM171120_B01_1_S2_R1_001


title: genomic DNA from placenta: 3ce1

tag: matedu

tag: pfoa

tag: tissue


title: genomic DNA from placenta: 3fb9

tag: Sex

tag: batch

tag: trophoblasts


title: genomic DNA from placenta: 4c0c

tag: matbmi

tag: stromal

tag: hofbauer


title: genomic DNA from placenta: 3ccd

tag: endothelial

tag: nrbc

tag: pfna


title: F123 GAM library f123_3NP_GAM171120_A11_1_S81_R1_001


title: genomic DNA from placenta: 3b9c

tag: syncytiotrophoblast

tag: pfhxs

tag: pfos


title: genomic DNA from placenta: 36b7

tag: pfda


title: genomic DNA from placenta: 35f4


title: genomic DNA from placenta: 398f


title: genomic DNA from placenta: 3476


title: genomic DNA from placenta: 385c


title: F123 GAM library f123_3NP_GAM171120_A10_1_S73_R1_001

tag: cell line

tag: cell type

tag: genotype


title: F123 GAM library f123_3NP_GAM171120_A03_1_S17_R1_001


title: F123 GAM library f123_3NP_GAM171120_A04_1_S25_R1_001


title: F123 GAM library f123_3NP_GAM171120_A09_1_S65_R1_001


title: F123 GAM library f123_3NP_GAM171108_H03_2_S120_R1_001


title: genomic DNA from placenta: 3303

tag: matedu

tag: pfoa

tag: tissue


title: F123 GAM library f123_3NP_GAM171108_H05_2_S136_R1_001

tag: Sex


title: genomic DNA from placenta: 3270

tag: matbmi

tag: batch

tag: trophoblasts


title: F123 GAM library f123_3NP_GAM171120_A12_1_S89_R1_001


title: genomic DNA from placenta: 311f

tag: stromal

tag: hofbauer

tag: endothelial


title: F123 GAM library f123_3NP_GAM171108_G05_2_S135_R1_001


title: genomic DNA from placenta: 31a4

tag: nrbc

tag: syncytiotrophoblast

tag: pfna


title: F123 GAM library f123_3NP_GAM171108_H01_2_S104_R1_001


title: genomic DNA from placenta: 2d92

tag: pfhxs

tag: pfos

tag: pfda


title: F123 GAM library f123_3NP_GAM171108_G04_2_S127_R1_001

tag: cell line

tag: cell type

tag: genotype


title: genomic DNA from placenta: 3117

tag: matedu

tag: pfoa

tag: tissue


title: F123 GAM library f123_3NP_GAM171108_G03_2_S119_R1_001

tag: Sex


title: genomic DNA from placenta: 2a74

tag: matbmi

tag: batch

tag: trophoblasts


title: genomic DNA from placenta: 2aed

tag: stromal

tag: hofbauer

tag: endothelial


title: F123 GAM library f123_3NP_GAM171108_G02_2_S111_R1_001


title: F123 GAM library f123_3NP_GAM171108_G01_2_S103_R1_001


title: genomic DNA from placenta: 2637

tag: nrbc

tag: syncytiotrophoblast

tag: pfna


title: F123 GAM library f123_3NP_GAM171120_A02_1_S9_R1_001


title: F123 GAM library f123_3NP_GAM171120_A01_1_S1_R1_001


title: genomic DNA from placenta: 2546

tag: pfhxs

tag: pfos

tag: pfda


title: F123 GAM library f123_3NP_GAM171108_F05_2_S134_R1_001

tag: cell line

tag: cell type

tag: genotype


title: F123 GAM library f123_3NP_GAM171108_H04_2_S128_R1_001


title: genomic DNA from placenta: 23c9

tag: matedu

tag: pfoa

tag: tissue


title: F123 GAM library f123_3NP_GAM171108_F04_2_S126_R1_001

tag: Sex


title: genomic DNA from placenta: 1f30

tag: matbmi

tag: batch

tag: trophoblasts


title: F123 GAM library f123_3NP_GAM171108_F02_2_S110_R1_001


title: F123 GAM library f123_3NP_GAM171108_F03_2_S118_R1_001


title: genomic DNA from placenta: 1f5e

tag: stromal

tag: hofbauer

tag: endothelial


title: genomic DNA from placenta: 1ea2

tag: nrbc

tag: syncytiotrophoblast

tag: pfna


title: genomic DNA from placenta: 1bbc

tag: pfhxs

tag: pfos

tag: pfda


title: genomic DNA from placenta: 1c63


title: F123 GAM library f123_3NP_GAM171108_E04_2_S125_R1_001

tag: cell line

tag: cell type

tag: genotype


title: F123 GAM library f123_3NP_GAM171108_E05_2_S133_R1_001


title: genomic DNA from placenta: 1a5f

tag: matedu

tag: pfoa

tag: tissue


title: F123 GAM library f123_3NP_GAM171108_E03_2_S117_R1_001

tag: Sex


title: genomic DNA from placenta: 15f9

tag: matbmi

tag: batch

tag: trophoblasts


title: genomic DNA from placenta: 15e1

tag: stromal

tag: hofbauer

tag: endothelial


title: genomic DNA from placenta: 1836

tag: nrbc

tag: syncytiotrophoblast

tag: pfna


title: F123 GAM library f123_3NP_GAM171108_D04_2_S124_R1_001


title: F123 GAM library f123_3NP_GAM171108_E01_2_S101_R1_001


title: F123 GAM library f123_3NP_GAM171108_D03_2_S116_R1_001


title: F123 GAM library f123_3NP_GAM171108_D05_2_S132_R1_001


title: F123 GAM library f123_3NP_GAM171108_D02_2_S108_R1_001


title: genomic DNA from placenta: 0dbf

tag: pfhxs

tag: pfos

tag: pfda


title: genomic DNA from placenta: 133a


title: genomic DNA from placenta: 0d1a


title: F123 GAM library f123_3NP_GAM171108_D01_2_S100_R1_001

tag: cell line

tag: cell type

tag: genotype


title: F123 GAM library f123_3NP_GAM171108_C05_2_S131_R1_001


title: genomic DNA from placenta: 0701

tag: matedu

tag: pfoa

tag: tissue


title: F123 GAM library f123_3NP_GAM171108_F01_2_S102_R1_001

tag: Sex


title: genomic DNA from placenta: 05e5

tag: matbmi

tag: batch

tag: trophoblasts


title: F123 GAM library f123_3NP_GAM171108_C03_2_S115_R1_001


title: genomic DNA from placenta: 026a

tag: stromal

tag: hofbauer

tag: endothelial


title: F123 GAM library f123_3NP_GAM171108_E02_2_S109_R1_001


title: genomic DNA from placenta: 0286

tag: nrbc

tag: syncytiotrophoblast

tag: pfna


title: F123 GAM library f123_3NP_GAM171108_C01_2_S99_R1_001


title: F123 GAM library f123_3NP_GAM171108_B05_2_S130_R1_001


title: Healthy lymph node

city: Umeå

first: Sofie

last: Degerman

state: Sweden

address: NUS, Blg 6M, 2nd floor

department: Medical Biosciensces

country: Sweden

institute: Umeå University

hyb_protocol: Followed the manufacturer's (Illumina, CA, USA) specifications.

scan_protocol: Followed the manufacturer's (Illumina, CA, USA) specifications on HiScan.

data_processing:
The ChAMP package in R was used to normalize the arrays with Beta-Mixture Quantile normalization, and to filter out non-CpG probes, probes in the X and Y chromosomes, CpGs within five base pairs from European SNPs, probes aligning to multiple locations, probes with a bead count < 3 in at least 5% of samples, and probes with a detection p-value above 0.05. Beta-values (ranging from 0 to 1) were estimated after normalization and filtering.
Average Beta, unmethylated and methylated signal intensities in Series supplementary files.

label: Cy3 and Cy5

source_name: Lymph node sample

growth_protocol: No growth; biobanked frozen samples.

extract_protocol: DNA was extracted by Qiagen ALLprep DNA/RNA kit (Qiagen, Hilden, Germany); sodium bisulfite converted using the EZ DNA methylation kit (Zymo Research, CA, USA) according the manufacturer's specifications.

value: Lymph node sample

tag: tissue type

value: Control

tag: cimp subgroup

value: CIMP low

tag: disease

value: Healthy


title: genomic DNA from placenta: 002c

tag: pfhxs

tag: pfos

tag: pfda


title: genomic DNA from placenta: 00d9

tag: matedu

tag: pfoa

tag: tissue


title: F123 GAM library f123_3NP_GAM171108_B03_2_S114_R1_001

tag: cell line

tag: cell type

tag: genotype

tag: Sex


title: F123 GAM library f123_3NP_GAM171108_B02_2_S106_R1_001


title: genomic DNA from placenta: 0807

tag: matbmi

tag: batch

tag: trophoblasts

tag: stromal

tag: hofbauer

tag: endothelial


title: T-ALL Sample 332

description: taken at diagnosis

source_name: T-ALL bone marrow/peripheral blood sample

label_protocol: Followed the manufacturer's (Illumina, CA, USA) specifications.

tag: tissue type

value: Tumor

tag: cimp subgroup

value: CIMP high

tag: disease

value: Pediatric T-cell acute lymphoblastic leukemia


title: T-ALL Sample 330

description: taken at diagnosis

value: T-ALL bone marrow/peripheral blood sample


title: T-ALL Sample 329

description: taken at diagnosis


title: T-ALL Sample 331

description: taken at diagnosis


title: F123 GAM library f123_3NP_GAM171108_A05_2_S129_R1_001

value: mouse embryonic stem cells

value: Hybrid F1 S129/Jae and Cast

value: male


title: F123 GAM library f123_3NP_GAM171108_C04_2_S123_R1_001


title: F123 GAM library f123_3NP_GAM171108_A04_2_S121_R1_001


title: F123 GAM library f123_3NP_GAM171108_B01_2_S98_R1_001


title: F123 GAM library f123_3NP_GAM171108_A03_2_S113_R1_001


title: F123 GAM library f123_3NP_GAM171108_A02_2_S105_R1_001


title: T-ALL Sample 328

description: taken at diagnosis


title: F123 GAM library f123_3NP_GAM171108_C02_2_S107_R1_001


title: T-ALL Sample 327

description: taken at diagnosis


title: T-ALL Sample 326

description: taken at diagnosis


title: F123 GAM library f123_3NP_GAM171024_H01_1_S8_R1_001


title: F123 GAM library f123_3NP_GAM171108_A01_2_S97_R1_001


title: F123 GAM library f123_3NP_GAM171108_B04_2_S122_R1_001


title: F123 GAM library f123_3NP_GAM171024_G05_1_S39_R1_001


title: Sorted CD34+ from healthy blood donor

source_name: Peripheral blood sample

value: Peripheral blood sample


title: T-ALL Sample 325

description: taken at diagnosis


title: T-ALL Sample 324

description: taken at diagnosis


title: T-ALL Sample 323

description: taken at diagnosis


title: F123 GAM library f123_3NP_GAM171024_G04_1_S31_R1_001


title: F123 GAM library f123_3NP_GAM171024_G03_1_S23_R1_001


title: F123 GAM library f123_3NP_GAM171024_F05_1_S38_R1_001


title: F123 GAM library f123_3NP_GAM171024_G01_1_S7_R1_001


title: Sorted CD3+ from healthy blood donor


title: T-ALL Sample 321

description: taken at diagnosis


title: T-ALL Sample 322

description: taken at diagnosis


title: T-ALL Sample 319

description: taken at diagnosis


title: F123 GAM library f123_3NP_GAM171024_F03_1_S22_R1_001


title: F123 GAM library f123_3NP_GAM171024_F04_1_S30_R1_001


title: T-ALL Sample 320

description: taken at diagnosis


title: T-ALL Sample 318

description: taken at diagnosis


title: T-ALL Sample 316

description: taken at diagnosis


title: T-ALL Sample 315

description: taken at diagnosis


title: F123 GAM library f123_3NP_GAM171024_D05_1_S36_R1_001


title: T-ALL Sample 317

description: taken at diagnosis


title: F123 GAM library f123_3NP_GAM171024_E03_1_S21_R1_001


title: F123 GAM library f123_3NP_GAM171024_D04_1_S28_R1_001


title: T-ALL Sample 314

description: taken at diagnosis


title: F123 GAM library f123_3NP_GAM171024_E04_1_S29_R1_001


title: T-ALL Sample 308

description: taken at diagnosis


title: T-ALL Sample 309

description: taken at diagnosis


title: F123 GAM library f123_3NP_GAM171024_D02_1_S12_R1_001


title: T-ALL Sample 306

description: taken at diagnosis


title: F123 GAM library f123_3NP_GAM171024_C05_1_S35_R1_001


title: T-ALL Sample 307

description: taken at diagnosis


title: F123 GAM library f123_3NP_GAM171024_C04_1_S27_R1_001


title: F123 GAM library f123_3NP_GAM171024_D03_1_S20_R1_001


title: T-ALL Sample 304

description: taken at diagnosis


title: T-ALL Sample 305

description: taken at diagnosis


title: T-ALL Sample 303

description: taken at diagnosis


title: F123 GAM library f123_3NP_GAM171024_C02_1_S11_R1_001


title: F123 GAM library f123_3NP_GAM171024_C03_1_S19_R1_001


title: T-ALL Sample 302

description: taken at diagnosis


title: F123 GAM library f123_3NP_GAM171024_E05_1_S37_R1_001


title: F123 GAM library f123_3NP_GAM171024_B03_1_S18_R1_001


title: F123 GAM library f123_3NP_GAM171024_B05_1_S34_R1_001


title: T-ALL Sample 300

description: taken at diagnosis


title: F123 GAM library f123_3NP_GAM171024_B02_1_S10_R1_001


title: F123 GAM library f123_3NP_GAM171024_A02_1_S9_R1_001


title: T-ALL Sample 301

description: taken at diagnosis


title: F123 GAM library f123_2NP_GAM180914_D04_1_S28_R1_001


title: T-ALL Sample 298

description: taken at diagnosis


title: T-ALL Sample 299

description: taken at diagnosis


title: T-ALL Sample 295

description: taken at diagnosis


title: T-ALL Sample 296

description: taken at diagnosis


title: F123 GAM library f123_2NP_GAM180812_C09_1_S67_R1_001


title: F123 GAM library f123_2NP_GAM180812_H01_1_S8_R1_001


title: F123 GAM library f123_1NP_GAM180914_H12_1_S96_R1_001


title: F123 GAM library f123_2NP_GAM180207_E05_1_S37_R1_001


title: T-ALL Sample 293

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title: F123 GAM library f123_1NP_GAM180914_H09_1_S72_R1_001


title: F123 GAM library f123_1NP_GAM180914_H11_1_S88_R1_001


title: F123 GAM library f123_1NP_GAM180914_H08_1_S64_R1_001


title: T-ALL Sample 290

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title: F123 GAM library f123_1NP_GAM180914_H07_1_S56_R1_001


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title: F123 GAM library f123_1NP_GAM180914_H05_1_S40_R1_001


title: F123 GAM library f123_1NP_GAM180914_H04_1_S32_R1_001


title: F123 GAM library f123_1NP_GAM180914_H06_1_S48_R1_001


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title: F123 GAM library f123_1NP_GAM180914_H03_1_S24_R1_001


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title: F123 GAM library f123_1NP_GAM180914_H02_1_S16_R1_001


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title: F123 GAM library f123_1NP_GAM180914_H01_1_S8_R1_001


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title: T-ALL Sample 284

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title: F123 GAM library f123_1NP_GAM180914_H10_1_S80_R1_001


title: F123 GAM library f123_1NP_GAM180914_G09_1_S71_R1_001


title: F123 GAM library f123_1NP_GAM180914_G10_1_S79_R1_001


title: F123 GAM library f123_1NP_GAM180914_G11_1_S87_R1_001


title: F123 GAM library f123_1NP_GAM180914_G12_1_S95_R1_001


title: T-ALL Sample 282

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title: F123 GAM library f123_1NP_GAM180914_G07_1_S55_R1_001


title: T-ALL Sample 281

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title: F123 GAM library f123_1NP_GAM180914_G08_1_S63_R1_001


title: F123 GAM library f123_1NP_GAM180914_G06_1_S47_R1_001


title: T-ALL Sample 277

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title: T-ALL Sample 274

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title: F123 GAM library f123_1NP_GAM180914_G04_1_S31_R1_001


title: F123 GAM library f123_1NP_GAM180914_G02_1_S15_R1_001


title: F123 GAM library f123_1NP_GAM180914_G03_1_S23_R1_001


title: T-ALL Sample 272

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title: F123 GAM library f123_1NP_GAM180914_G01_1_S7_R1_001


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title: F123 GAM library f123_1NP_GAM180914_F12_1_S94_R1_001


title: F123 GAM library f123_1NP_GAM180914_F11_1_S86_R1_001


title: T-ALL Sample 270

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title: F123 GAM library f123_1NP_GAM180914_F10_1_S78_R1_001


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title: T-ALL Sample 278

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title: F123 GAM library f123_1NP_GAM180914_F09_1_S70_R1_001


title: F123 GAM library f123_1NP_GAM180914_F08_1_S62_R1_001


title: F123 GAM library f123_1NP_GAM180914_F07_1_S54_R1_001


title: T-ALL Sample 266

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title: F123 GAM library f123_1NP_GAM180914_F06_1_S46_R1_001


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title: F123 GAM library f123_1NP_GAM180914_G05_1_S39_R1_001


title: F123 GAM library f123_1NP_GAM180914_F04_1_S30_R1_001


title: T-ALL Sample 261

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title: F123 GAM library f123_1NP_GAM180914_F01_1_S6_R1_001


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title: T-ALL Sample 258

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title: F123 GAM library f123_1NP_GAM180914_E10_1_S77_R1_001


title: F123 GAM library f123_1NP_GAM180914_F05_1_S38_R1_001


title: F123 GAM library f123_1NP_GAM180914_E11_1_S85_R1_001


title: T-ALL Sample 256

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title: F123 GAM library f123_1NP_GAM180914_E09_1_S69_R1_001


title: F123 GAM library f123_1NP_GAM180914_F03_1_S22_R1_001


title: F123 GAM library f123_1NP_GAM180914_E08_1_S61_R1_001


title: T-ALL Sample 253

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title: F123 GAM library f123_1NP_GAM180914_E07_1_S53_R1_001


title: F123 GAM library f123_1NP_GAM180914_F02_1_S14_R1_001


title: F123 GAM library f123_1NP_GAM180914_E06_1_S45_R1_001


title: T-ALL Sample 252

description: taken at diagnosis


title: F123 GAM library f123_1NP_GAM180914_E04_1_S29_R1_001


title: F123 GAM library f123_1NP_GAM180914_E05_1_S37_R1_001


title: T-ALL Sample 251

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title: F123 GAM library f123_1NP_GAM180914_E03_1_S21_R1_001


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title: F123 GAM library f123_1NP_GAM180914_E12_1_S93_R1_001


title: F123 GAM library f123_1NP_GAM180914_E02_1_S13_R1_001


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title: F123 GAM library f123_1NP_GAM180914_E01_1_S5_R1_001


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title: F123 GAM library f123_1NP_GAM180914_D11_1_S84_R1_001


title: F123 GAM library f123_1NP_GAM180914_D10_1_S76_R1_001


title: T-ALL Sample 255

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title: F123 GAM library f123_1NP_GAM180914_D09_1_S68_R1_001


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title: F123 GAM library f123_1NP_GAM180914_D07_1_S52_R1_001


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title: F123 GAM library f123_1NP_GAM180914_D08_1_S60_R1_001


title: F123 GAM library f123_1NP_GAM180914_D06_1_S44_R1_001


title: T-ALL Sample 242

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title: F123 GAM library f123_1NP_GAM180914_D03_1_S20_R1_001


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title: F123 GAM library f123_1NP_GAM180914_D02_1_S12_R1_001


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title: F123 GAM library f123_1NP_GAM180914_D05_1_S36_R1_001


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title: F123 GAM library f123_1NP_GAM180914_D12_1_S92_R1_001


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title: F123 GAM library f123_1NP_GAM180914_D01_1_S4_R1_001


title: F123 GAM library f123_1NP_GAM180914_C11_1_S83_R1_001


title: F123 GAM library f123_1NP_GAM180914_C12_1_S91_R1_001


title: T-ALL Sample 246

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title: F123 GAM library f123_1NP_GAM180914_C10_1_S75_R1_001


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title: F123 GAM library f123_1NP_GAM180914_C09_1_S67_R1_001


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title: F123 GAM library f123_1NP_GAM180914_C08_1_S59_R1_001


title: F123 GAM library f123_1NP_GAM180914_C06_1_S43_R1_001


title: T-ALL Sample 230

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title: F123 GAM library f123_1NP_GAM180914_C05_1_S35_R1_001


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title: F123 GAM library f123_1NP_GAM180914_C04_1_S27_R1_001


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title: F123 GAM library f123_1NP_GAM180914_C07_1_S51_R1_001


title: F123 GAM library f123_1NP_GAM180914_C03_1_S19_R1_001


title: F123 GAM library f123_1NP_GAM180914_C01_1_S3_R1_001


title: T-ALL Sample 222

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title: F123 GAM library f123_1NP_GAM180914_B10_1_S74_R1_001


title: F123 GAM library f123_1NP_GAM180914_B12_1_S90_R1_001


title: T-ALL Sample 224

description: taken at diagnosis


title: T-ALL Sample 220

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title: F123 GAM library f123_1NP_GAM180914_B11_1_S82_R1_001


title: F123 GAM library f123_1NP_GAM180914_B07_1_S50_R1_001


title: T-ALL Sample 221

description: taken at diagnosis


title: T-ALL Sample 223

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title: F123 GAM library f123_1NP_GAM180914_C02_1_S11_R1_001


title: F123 GAM library f123_1NP_GAM180914_B06_1_S42_R1_001


title: T-ALL Sample 219

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title: F123 GAM library f123_1NP_GAM180914_B08_1_S58_R1_001


title: F123 GAM library f123_1NP_GAM180914_B05_1_S34_R1_001


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title: F123 GAM library f123_1NP_GAM180914_B03_1_S18_R1_001


title: F123 GAM library f123_1NP_GAM180914_B02_1_S10_R1_001