title: CEMBA190131_6D_1_CEMBA190131_6D_2_B2_ad006


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B2_ad010

status: Public on Sep 30 2020

type: SRA

city: La Jolla

first: Joseph

middle: R

last: Ecker

state: CA

address: 10010 North Torrey Pines Road

department: Genomic Analysis Laboratory

country: USA

institute: HHMI-Salk-Institute

library_source: genomic

data_processing:
Library strategy: snmC-seq2
Reads trimed with Cutadapt for adapters and low quality bases (Phred score >= 20)
The resulting files are mapped to in-silico bisulfite converted mm10 reference genome using Bismark.
The raw BAM file will be filtered using samtools to filter reads by MAPQ > 10 and use Picard to remove PCR duplicates
Tab-delimited files (ALLC files) describing the quantity of unmethylated and methylated cytosine base calls will be generated with in-house developing package using the filtered BAM files
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited files (ALLC files) describing the quantity of unmethylated and methylated cytosine base calls. Columns are: 1. Chromosome, 2. Position, 3. Strand, 4. Cytosin Context, 5. methylated base call, 6. total mapped base call, 7. not used, place holder column

molecule: genomic DNA

organism: Mus musculus

source_name: C57BL/6J Male P56 Mouse Brain

growth_protocol: All mice are C57BL/6J Male, brain dissected in P56

extract_protocol:
the brain of P56 male C57BL/6J mouse will be removed and cut into 600 microns thick coronal sections using a tissue matrix. Then each region will be microdissected from the coronal tissue sections based on identified landmarks and brain atlas coordinates, as defined in Allen brain atlas CCF3 (Avaliable at: http://atlas.brain-map.org). For each dissection region, the tissue from several littermate mice will be combined together into to separate replicate groups. The number of animals in a replicate depends on the size of the tissue. Nuclei preparation will be stained with the fluorescently labeled anti-NeuN body and nucleic acid stain Hoechst 33342.
Library prepared following protocol discribed in Luo, Chongyuan, Angeline Rivkin, Jingtian Zhou, Justin P. Sandoval, Laurie Kurihara, Jacinta Lucero, Rosa Castanon, et al. 2018. “Robust Single-Cell DNA Methylome Profiling with snmC-seq2.” Nature Communications 9 (1): 3824.

tag: brain region

value: PIR

tag: Sex

value: male

tag: age

tag: strain


title: T022

type: RNA

city: Taipei

first: Tzu-Pin

last: Lu

address: No. 1, Sec. 4, Roosevelt Road

department: Department of Public Health, Institute of Epidemiology and Preventive Medicine

country: Taiwan

institute: National Taiwan University, Taiwan

description: Gene expression data from T022

hyb_protocol: The labeled RNA samples were hybridized onto a Affymetrix GeneChip® miRNA 3.0 Array (Affymetrix, Santa Clara, CA) at 48°C and 60 rpm for 16 hours.

scan_protocol: Chips were scanned using the GeneChip Scanner 3000

data_processing: Background-adjusted signals were normalized by three steps: Robust Multichip Analysis (RMA), median polish method, and quantile normalization algorithm.

label: biotin

molecule: total RNA

organism: Homo sapiens

source_name: peripheral blood

label_protocol: Biotin

extract_protocol: Total RNA of PBMCs was purified using TRIzol® reagent (Invitrogen). Quantification of RNA was performed using a ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE).

tag: individual

value: Male

tag: treatment

value: Pitavastatin

tag: sampling time

value: after treatment

tag: tissue

value: peripheral blood


title: CEMBA190131_6D_1_CEMBA190131_6D_2_C1_ad004


title: T023

description: Gene expression data from T023

value: Atorvastatin


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B2_ad004


title: T025

description: Gene expression data from T025


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B2_ad002


title: T020

description: Gene expression data from T020


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B2_ad008


title: T018

description: Gene expression data from T018


title: T020B

description: Gene expression data from T020B

value: before treatment


title: T015

description: Gene expression data from T015

value: Female


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B12_ad012


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B12_ad008


title: T013

description: Gene expression data from T013


title: T019

description: Gene expression data from T019


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B12_ad006


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B12_ad007


title: T012

description: Gene expression data from T012


title: T010

description: Gene expression data from T010


title: T011

description: Gene expression data from T011


title: T008

description: Gene expression data from T008


title: T007

description: Gene expression data from T007


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B12_ad001


title: T009

description: Gene expression data from T009


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B12_ad002


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B12_ad004


title: T017

description: Gene expression data from T017


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B11_ad012


title: T003

description: Gene expression data from T003


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B11_ad008


title: T006

description: Gene expression data from T006


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B11_ad010


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B11_ad007


title: T004

description: Gene expression data from T004


title: T001

description: Gene expression data from T001


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B11_ad006


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B11_ad004


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B11_ad002


title: T43-1_R_1

city: London

first: Dervis

middle: A

last: Salih

address: Gower St

department: Dementia Research Institute

country: United Kingdom

institute: University College London

library_source: transcriptomic

data_processing:
Adaptors and low quality base pairs were removed from FASTQ files using Trim Galore (Babraham Bioinformatics).
Transcripts were quantified with Salmon (Patro et al., 2017), using gene annotation from ENSEMBL GRCm38.
To obtain gene level quantification from the transcripts, and correct for average transcript length and library size, expressed as transcripts per million (TPM), the tximport R package was used (Soneson et al., 2015).
Genome_build: GRCm38
Supplementary_files_format_and_content: xls file includes TPM values for each sample.

source_name: WT_primary microglial culture_Control

growth_protocol: Mixed glial cells were seeded at a density of 120,000 cells/cm2 in poly-D-lysine coated flasks/wells with a glial culture medium (high glucose DMEM with 10% heat-inactivated fetal bovine serum, 100 U/ml penicillin and 100 μg/ml streptomycin). Cells were cultured at 37°C in humidified 5% CO2 and the medium was changed every 3 days. After 19-23 days, once the mixed glial cells achieved confluence, a mild trypsinization method (incubation with DMEM with 0.05% trypsin and 0.2 mM EDTA for 30-45 min) was applied to purify the primary microglia by removing the astrocytic cell layer. Conditioned medium from the mixed glia was collected before trypsinization. Isolated primary microglial cells were collected and seeded in poly-D-lysine coated plates at a density of 40,000-100,000 cells/cm2 using the collected conditioned medium. Pure primary microglia were cultured under the same conditions as the mixed glial culture, and experiments were started at 24 hr after isolation.

extract_protocol:
Total RNA was isolated from primary microglia using the miRNeasy 96 kit (Qiagen).
Libraries were created using commercially available kits according to the manufacturer’s instructions, where first strand cDNA synthesis was poly(A)-primed, and then fragmented (SMART-Seq v4 Ultra Low Input RNA Kit for Sequencing, Takara). After fragmentation the library was prepared with the SMARTer ThruPLEX DNA-Seq Kit (Takara). During PCR amplification 10-12 cycles were used. After PCR amplification, the resulting fragments were purified, pooled, quantified and used for cluster generation. For sequencing, pooled libraries were loaded on the cBot (Illumina) and cluster generation was performed according the manufacturer’s instructions. Paired-end sequencing using 100 bp read length (multiplex 12 samples per lane - 28M reads) was performed on a Illumina HiSeq 2500 (HiSeq Control Software 2.2.58) using HiSeq Flow Cell v4 and TruSeq SBS Kit v4.

treatment_protocol: Primary microglia were treated with 20 ng/ml Interleukin-4 (IL-4; 214-14, PeproTech) for 48 hr before harvest, or untreated.

tag: strain background

tag: genotype

value: WT

tag: cell type

value: Primary microglial cells

value: Control


title: T43-2_R_1

source_name: WT_primary microglial culture_IL4


title: T33-1_RNA_1


title: T33-2_R_1


title: T32-2_RNA_1


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B11_ad001


title: T32-1_RNA_1


title: T021

description: Gene expression data from T021


title: T22-1_RNA_1


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B10_ad007


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B10_ad010


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B10_ad006


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B10_ad012


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B10_ad008


title: T22-2_RNA_1


title: T15_IL4_1


title: T15_Ctrl_1


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B10_ad004


title: T13_IL4_1


title: T13_Ctrl_1


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B1_ad012


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B10_ad001


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B1_ad001


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B1_ad007


title: T019B

description: Gene expression data from T019B


title: IL-34 OE CT26 control [CR18010_4]

city: Sapporo

first: Ken-ichiro

last: Seino

address: Kita-15 Nishi-7

country: Japan

institute: Hokkaido University

data_processing:
Illumina CASAVA ver 1.8.2 software used for basecalling.
The reads were mapped to mouse reference genome mm10 with Tophat (v2.1.0),
and caluculated FPKM (fragments per kilobase of exon per million reads mapped) value with cufflinks (v2.2.1).
Genome_build: mm10
Supplementary_files_format_and_content: FPKM xlsx file

source_name: tumors derived from IL-34 expressing CT26 cells

extract_protocol:
Total RNA of collected tumors was extracted using PureLinkTM RNA Mini Kit (Life Technologies).
RNA libraries were prepared for sequencing using SureSelect Strand-Specific RNA library kit (Agilent Technologies)

value: BALB/c

tag: cell line

value: IL-34 overexpression CT26

value: untreated


title: IL-34 OE CT26 treated [CR18010_6]

value: treated with αPD-1 mAb


title: IL-34 KO CT26 control [CR18010_1]

source_name: tumors derived from IL-34 deficient CT26 cells

value: IL-34 deficient CT26


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B1_ad006

value: PIR


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B1_ad010

value: male


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B1_ad004


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B1_ad002


title: IL-34 KO CT26 treated [CR18010_3]


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B1_ad008


title: Pre-graft_5_TA_500cells_Exp2_RNAseq

city: Cambridge

first: Felix

last: Krueger

address: Granta Park

department: Bioinformatics

institute: Altos Labs

data_processing:
Adapter sequences and poor-quality calls were removed from the raw sequencing files using Trim galore (version 0.4.2). Reads were then mapped to mouse genome GRCm38 and deduplicated using Bismark (version 0.16.3).
Adapter sequences and poor-quality calls were removed from the raw sequencing files using Trim galore (version 0.4.4). Reads were then mapped to mouse genome GRCm38 using HISAT2 (version 2.1.0). Log2 transformed counts were generated using Seqmonk (v1.47.0).
Genome_build: GRCm38
The Bismark CpG coverage report is tab-delimited, uses 1-based genomic coordinates for every covered cytosine position in the experiment and is in the following format: <chromosome> <start position> <end position> <methylation percentage> <count methylated> <count non-methylated>
The RNA-seq QC report examines the proportion of reads found in different genomic features. It is tab-delimited and in the following format: <DataStore> <Percent in Gene> <Percent in exons> <Percent in rRNA> <Percent Genes Measured> <Percent in MT> <Percent on sense strand>
The summary report contains the metrics of the RNA-seq samples such as the number of reads. It is tab-delimited and in the following format: <DataStore> <Total Read Count> <Forward Read Count> <Reverse Read Count> <Unknown Read Count> <Mean Read Length> <Total Read Length> <Fold Coverage> <Total Quantitation> <Median Quantitation> <Mean Quantitation> <Valid Quantitations>
A tab delimited text report generated by SeqMonk (v1.47.0) with log2 RPM values for each gene.

molecule: polyA RNA

source_name: Tibialis anterior muscles

extract_protocol:
Tibialis anterior and extraocular muscles were dissected and placed into cold DMEM (ThermoFisher, 31966). Muscles were then manually chopped with scissors and put into a 15 ml Falcon tube containing 10 ml of DMEM, 0.08% collagenase D (Sigma, 11 088 882 001), 0.1% trypsin (ThermoFisher, 15090), 10 µg/ml DNase I (Sigma, 11284932) at 37°C under gentle agitation for 25 min. Digests were allowed to stand for 5 min at room temperature and the supernatants were added to 5 ml of foetal bovine serum (FBS; Gibco) on ice. The digestion was repeated 3 times until complete digestion of the muscle. The supernatants were filtered through a 70-µm cell strainer (Miltenyi, 130-098-462). Cells were spun for 15 min at 515g at 4°C and the pellets were resuspended in 1 ml cold freezing medium (10% DMSO (Sigma, D2438) in FBS) for long term storage in liquid nitrogen or processed directly through FACS-isolation for transplantations. Before isolation by FACS, samples were thawed in 50 ml of cold DMEM, spun for 15 min at 515g at 4°C. Pellets were resuspended in 300 µl of DMEM 2% FBS 1 µg/mL propidium iodide (Calbiochem, 537060) and filtered through a 40-µm cell strainer (BD Falcon, 352235). Viable muscle stem cells were isolated based on size, granulosity and GFP intensity using a MoFlo Astrios cell sorter (Beckmann Coulter). Cells were collected in 5 µl cold RLT Plus buffer (Qiagen, 1053393) containing 1U/µl RNAse inhibitor (Ambion, AM2694), flash-frozen on dry ice and stored at -80°C, or in cold DMEM 2% FBS.
RNA was separated from cell lysates and processed into libraries using the G&T method as described in Macaulay et al., 2016. DNA was also processed into libraries using the bulk protocol described in Clark et al., 2017. Bisulfite-seq libraries were sequenced on an Illumina HiSeq-2500 with 125bp paired end reads and RNA-seq libraries were sequenced on an Illumina HiSeq-2500 with 75bp paired end reads.

value: Tibialis anterior muscles

value: Pre grafting TA satellite cells

value: 7 weeks


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A9_ad010


title: Pre-graft_6_EOM_500cells_Exp2_RNAseq

source_name: Extra ocular muscles

value: Extra ocular muscles

value: Pre grafting EOM satellite cells


title: Pre-graft_5_EOM_500cells_Exp2_RNAseq


title: Pre-graft_5_TA_500cells_Exp1_RNAseq

value: 7.6 weeks


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A9_ad001


title: Pre-graft_6_TA_500cells_Exp2_RNAseq


title: Pre-graft_4_TA_500cells_Exp2_RNAseq


title: Pre-graft_4_TA_500cells_Exp1_RNAseq


title: Pre-graft_5_EOM_500cells_Exp1_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A9_ad012


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A9_ad006


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A9_ad002


title: Pre-graft_4_EOM_500cells_Exp2_RNAseq


title: Pre-graft_4_EOM_500cells_Exp1_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A9_ad004


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A9_ad008


title: Pre-graft_3_TA_500cells_Exp2_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A8_ad007


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A8_ad001


title: Pre-graft_3_EOM_500cells_Exp1_RNAseq


title: Pre-graft_3_TA_500cells_Exp1_RNAseq


title: Pre-graft_3_EOM_500cells_Exp2_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A8_ad012


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A8_ad010


title: Pre-graft_2_EOM_500cells_Exp2_RNAseq


title: Pre-graft_2_TA_500cells_Exp2_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A8_ad004


title: Pre-graft_1_TA_500cells_Exp2_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A7_ad001


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A8_ad002


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A8_ad008


title: Pre-graft_1_EOM_500cells_Exp1_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A7_ad006


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A7_ad007


title: Graft_6_EOM_D21_A_33cells_Exp2_RNAseq

value: Grafted EOM satellite cells


title: Pre-graft_1_EOM_500cells_Exp2_RNAseq


title: Pre-graft_1_TA_500cells_Exp1_RNAseq


title: Graft_5_TA_D21_A_67cells_Exp2_RNAseq

value: Grafted TA satellite cells


title: Graft_6_TA_D21_A_16cells_Exp2_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A7_ad010


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A8_ad006


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A7_ad004


title: Graft_5_TA_D21_1_36cells_Exp1_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A7_ad008


title: Graft_5_EOM_D21_A_60cells_Exp2_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A6_ad012


title: Graft_5_EOM_D21_1_105cells_Exp1_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A6_ad001


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A7_ad002


title: Graft_4_EOM_D21_A_9cells_Exp2_RNAseq


title: Graft_4_TA_D21_1_28cells_Exp1_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A6_ad007


title: Graft_4_EOM_D21_1_103cells_Exp1_RNAseq


title: Graft_3_TA_D21_A_16cells_Exp2_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A6_ad006


title: Graft_3_TA_D21_1_24cells_Exp1_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A6_ad004


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A5_ad010


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A6_ad002


title: Graft_3_EOM_D21_A_16cells_Exp2_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A5_ad001


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A5_ad012


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A5_ad006


title: Graft_3_EOM_D21_1_100cells_Exp1_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A5_ad004


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A5_ad002


title: Graft_4_TA_D21_A_66cells_Exp2_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A5_ad008


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A4_ad012


title: Graft_1_EOM_D21_2_100cells_Exp1_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A4_ad007


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A4_ad006


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A4_ad010


title: Graft_1_TA_D21_2_43cells_Exp1_RNAseq


title: Graft_1_TA_D21_A_26cells_Exp2_RNAseq


title: Graft_1_EOM_D21_A_46cells_Exp2_RNAseq


title: Graft_2_EOM_D21_A_35cells_Exp2_RNAseq


title: Graft_2_TA_D21_A_67cells_Exp2_RNAseq


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A4_ad001


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A3_ad012


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A3_ad007


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A2_ad012


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A3_ad004


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A3_ad008


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A4_ad002


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A3_ad001


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A2_ad007


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A4_ad008


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A2_ad001


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A2_ad010


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A3_ad006


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A2_ad006


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A2_ad004


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A4_ad004


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A2_ad008


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A2_ad002


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A12_ad012


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A12_ad002


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A11_ad012


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A12_ad010


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A12_ad007


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A12_ad004


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A12_ad006


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A12_ad001


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A3_ad002


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A11_ad004


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A11_ad007


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A11_ad010


title: TSmTS6

city: Bunkyo ku

first: Shuai

last: Sun

state: Tokyo

institute: The university of Tokyo

data_processing:
Basecalls were performed using sanger/illumina version 1.9
We used a Integrated sequence analysis software for next-generation sequencer data, CLC Genomics Workbench (Version 6.0.1, Filgen).
FASTQ files were imported to 'illumina sequence' platform with the default settings.
Using 'RNA-Seq Analysis' in 'RNA-Seq Analysis' toolbox with the default settings, reads were mapped to the mm9, assembled with guide mapping, and RPKM were calculated.
Exported gene codes and RPKM from CLC Genomics Workbench, gene codes were converted to gene symbols by BioTools (https://biotools.fr/mouse/refseq_symbol_converter).
Genome_build: mouse genome mm9 (https://genome.ucsc.edu/)

source_name: mouse trophoblast stem cell

growth_protocol: TSmTS2, TSmTS3 and TSmTS5 were cultured in FBS-TS medium with FGF4, heparin and condition medium to maintain undifferentiated state for 4days. TSmTS1, TSmTS4 and TSmTS6 were cultured on fibronectin-coated dish in KSR-TS medium supplemented with a various combinations of 25 ng/ml FGF4 , 1 mg/ml heparin , 10 ng/ml Activin A , 1 µM BMS493  and 10 µM Y-27632 to maintain undifferentiated state for 4days.

extract_protocol:
Total RNA was extracted from culture cells  using TRIzol.
RNA libraries were prepared for sequencing using SureSelect - Strand Specific RNA lLibrary  Preparation Protocols

value: mouse trophoblast stem cell

tag: passages

tag: growth

value: KSR culture condition


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A10_ad012


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A10_ad008


title: TSmTS4


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A12_ad008


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A11_ad006


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A11_ad002


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A10_ad006


title: TSmTS5

value: FBS culture condition


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A1_ad012


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A10_ad007


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A10_ad002


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A10_ad004


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A1_ad004


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A1_ad006


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A1_ad007


title: TSmTS3


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A1_ad002


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A1_ad008


title: TSmTS2


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A1_ad010


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A11_ad001


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A11_ad008


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A1_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H9_ad010

value: SSs


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H9_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H9_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H9_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H9_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H9_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H8_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H8_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H8_ad010


title: TSmTS1


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H8_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H7_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H7_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H7_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H7_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H6_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H7_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H6_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H8_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H6_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H6_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H5_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H5_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H5_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H8_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H5_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H7_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H4_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H5_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H5_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H8_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H7_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H4_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H6_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H4_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H4_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H4_ad002


title: CEMBA190131_6D_1_CEMBA190131_6D_2_B12_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H3_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H3_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H2_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H5_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H3_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H2_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H2_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H2_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H4_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H3_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H2_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H12_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H3_ad001


title: NSC_sgFosl1_1

city: Madrid

first: Massimo

last: Squatrito

address: Calle Melchor Fernandez Almagro 3

country: Spain

institute: Spanish National Research Center (CNIO)

data_processing:
Sequencing read alignment and quantification and differential gene expression analysis was performed in the Bluebee Genomics Platform, a cloud-based service provider (www.bluebee.com.) Briefly, reads were first trimmed with bbdukfrom BBTools (BBMap –Bushnell B, https://sourceforge.net/projects/bbmap/) to remove adapter sequences and polyA tails. Trimmed reads were aligned to the GRCm38/mm10 genome assembly with STAR v 2.5 (Dobin et al., 2013). Read counting was performed with HTSeq  (Anders, Pyl and Huber, 2015).
Genome_build: GRCm38/mm10
Supplementary_files_format_and_content: Normalized counts

growth_protocol: NSCs were grown in Neurobasal medium, supplemented with EGF and FGF

extract_protocol:
Trizol
cDNA libraries were prepared using the "QuantSeq 3‘ mRNA-Seq Library Prep Kit (FWD) for Illumina" (Lexogen, Cat No 015)

value: mixed

tag: genotype background

value: GFAP-Tva, LSL_Cas9; Trp53 lox/lox; GFAP-Cre

value: brain

value: Neural stem cells (NSCs)


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H12_ad004

value: male


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H12_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H12_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H12_ad008


title: NSC_sgCtrl_2

value: sgCtrl


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H11_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H12_ad001


title: N3_LP_ILC3

city: Hiroshima

first: masamoto

last: kanno

address: 1-2-3, kasumi, Minami-ku

department: Department of Immunology

institute: Hiroshima University

data_processing:
Illumina Casava1.8.2 software used for basecalling.
The reads were mapped onto the reference mouse genome mm10 using TopHat ver.2.1.1 in combintaion with Bowtie ver.2.2.8.0 and SAMtools ver. 0.1.18.
Gene expression was quantified with Cufflinks ver.2.2.1. and Cuffdiff ver.2.2.1.
Genome_build: mm10
Supplementary_files_format_and_content: Counts and FPKMs

source_name: Intestinal lymphocytes

extract_protocol:
Small intestine intraepithelial and lamina propria layer's lmphocytes were isolated via enzymatic treatment and percol gradient purification. ILC3s from IEL and LP were analyzed and sorted via FACSAria and RNA was harvested using Qiazol reagent. SMART-Seq v4 Ultra Low Input RNA Kit was used for the construction of sequencing libraries.
RNA libraries were prepared using the SMART-Seq v4 Ultra Low Input RNA Kit for amplication and sequencing using standard Illumina protocols

treatment_protocol: Small intestine lymphocytes, ILC3s were isolated from two groups of mice at age of 18 weeks old: offspring mice that were breastfed with maternal milk with high amount of palmitic acid or normal group.

tag: milk-diet

value: Normal-milk

value: Lamina propria ILC3s


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H3_ad010


title: N2_LP_ILC3


title: NSC_sgCtrl_1


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H11_ad007


title: N1_LP_ILC3


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H2_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H11_ad010


title: N3_IEL_ILC3

value: Intraepithelial ILC3s


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H11_ad004


title: N1_IEL_ILC3


title: NSC_sgFosl1_2


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H12_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H2_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H10_ad010


title: N2_IEL_ILC3


title: PA-3_LP_ILC3

value: PA-milk


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H10_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H10_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H10_ad002


title: PA-2_IEL_ILC3


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H10_ad007


title: PA-1_IEL_ILC3


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H1_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H1_ad010


title: PA-2_LP_ILC3


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H11_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H10_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H10_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H11_ad008


title: PA-3_IEL_ILC3


title: PA-1_LP_ILC3


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G9_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G9_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G7_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G8_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G9_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G7_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G7_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G9_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G8_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G9_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G8_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H1_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H1_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G9_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G9_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_H1_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G8_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G7_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G6_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G6_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G7_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G7_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G6_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G6_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G6_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G6_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G5_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G5_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G5_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G5_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G3_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G3_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G4_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G4_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G5_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G2_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G3_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G3_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G4_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G3_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G4_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G2_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G2_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G2_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G12_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G12_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G12_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G12_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G3_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G11_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G4_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G3_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G12_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G11_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G11_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G11_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G2_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G11_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G11_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G11_ad002


title: CEMBA190131_6D_1_CEMBA190131_6D_2_A6_ad010

value: PIR


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G12_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G10_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G10_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G10_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G1_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G1_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G10_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G1_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G1_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G10_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G1_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G10_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G1_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G1_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G1_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F9_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F9_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F9_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F9_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F9_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F8_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F9_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F8_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F8_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F8_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F8_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F7_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F8_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F7_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F6_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F6_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F7_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F6_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F6_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F6_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F5_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F5_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F6_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F7_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F7_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F5_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F6_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F5_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F5_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F5_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F5_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F4_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F4_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F4_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F4_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F4_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F4_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F4_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F3_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F5_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F3_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F3_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F3_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F3_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F3_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F12_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F2_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F2_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F12_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F12_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F2_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F2_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F12_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F2_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F2_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F11_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F12_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F12_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F11_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F11_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F11_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F11_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F10_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F10_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F10_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F3_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F10_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F10_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F11_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F10_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F1_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F1_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F1_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F1_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F1_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F1_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E9_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E9_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E9_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E9_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E9_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G2_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F1_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F1_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E9_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E9_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E8_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E8_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E8_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E9_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_F10_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E8_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E7_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E8_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E8_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E8_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E6_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E7_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E7_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E7_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E6_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E6_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E6_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E6_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E5_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E6_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E5_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E5_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E5_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E5_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E3_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E3_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E3_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E3_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E3_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E3_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E7_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E2_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E2_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E2_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E2_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E12_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E3_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E12_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E12_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E12_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E12_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E2_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_G12_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E3_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E12_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E11_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E11_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E11_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E11_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E12_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E12_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E11_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E11_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E10_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E10_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E10_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E10_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E2_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E10_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E10_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E10_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E11_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E1_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E1_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E1_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E1_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_E1_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D9_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D9_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D9_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D8_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D9_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D9_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D8_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D7_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D8_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D8_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D8_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D7_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D7_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D7_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D6_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D6_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D6_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D9_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D6_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D5_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D8_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D5_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D8_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D7_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D4_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D4_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D4_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D6_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D5_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D7_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D3_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D4_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D3_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D5_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D3_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D3_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D3_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D5_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D3_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D8_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D4_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D5_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D2_ad012


title: RNA_d5_lowMOI_r2

city: Seattle

first: Diego

last: Calderon

address: 3720 15th Ave NE

institute: University of Washington

data_processing:
These were the processing steps for the unique_barcode_guide_associations.txt.gz processed data file: Reads were aligned with bowtie2 version 2.3.5. First two bowtie indices were built with default parameters, one index based on the amplicon sequence where the barcode positions were replaced with ‘N’s and another index based on the amplicon sequence with one version per guide. The read fragment fastq files including the barcode segment was aligned to the barcode-specific bowtie index with ‘--n-ceil L,18,0.15’ and otherwise default parameters. The read fragment fastq files containing the gRNA sequence were aligned to the gRNA-specific bowtie index with default parameters. From the bam output of these alignments, for each read we extracted the gRNA fragment which the read aligned to and the random barcode sequence. We excluded read fragments with Ns in the barcode and fragments that had barcodes paired with multiple guides.
These were the processing steps for the transMPRA_construct_counts.txt.gz processed data file: Before aligning reads to the construct, overlapping reads were merged with pear version 0.9.10 with the flags ‘-n 240 -m 260’ and otherwise default parameters. For alignment we constructed a bowtie2 (version 2.2.5) index with default parameters using a fasta file generated from the construct sequence with a distinct sequence for each enhancer and ‘N’ values at the random barcode region. The bowtie2 alignment was performed with ‘--threads 4’, ‘--n-ceil L,18,0.15’, and the pear-merged reads as the input. Following read alignment we summarized each read by the enhancer it best aligns to as well as the random barcode sequence. We used the file of unique guide and barcode pairs described above to perfectly match barcodes to guides. Finally, reported counts were already collapsed by UMI.
Genome_build: NA
Supplementary_files_format_and_content: The unique barcode guide file contains the aligned guide in the first column, followed by the unique 18-bp random barcode identifier, and finally the reverse complement of the 18-bp barcode identifier.
Supplementary_files_format_and_content: The transMPRA construct counts file contains the enhancer identifier, the construct guide, the barcode identifier, the number of reads aligning to that particular construct, the assay, the time of cell harvest post transfection, the library transfection condition, the replicate number, the sample identifier, the unique construct identifier, followed by the target gene knockdown.

growth_protocol: Standard K562 growth conditions were applied, specifically: The cells were grown at 37°C and cultured in RPMI 1640 with L-Glutamine (GIBCO) along with 10% FBS and 1% penicillin-streptomycin (GIBCO).

extract_protocol:
Following our experimental design at day 5 and day 10 post transfection, cells were harvested, genomic DNA and total RNA were extracted using the AllPrep DNA/RNA mini kit (Qiagen 80204). We extracted mRNA from total RNA with the Oligotex Direct mRNA mini kit (Qiagen 72022).
We used a One-Step RT-PCR kit (Thermofisher 12595025) with custom primers to produce cDNA from the mRNA and subsequently ran 3 cycles of PCR which included a P5 adapter, sample-specific p5 index (8 bp), UMI (10bp) and P7 adapter. RT-PCR products were cleaned with AMPure XP beads (Beckman Coulter A63880). Next, we amplified the library using P5/P7 primers. Finally, the resulting PCR-amplified cDNA library was pooled at an equimolar ratio then size-selected on a 1.5%-agarose gel. DNA was processed with a similar two-step PCR approach. First, we PCR amplified the DNA for 3 cycles, which incorporated a P5 adapter, sample-specific p5 index (8 bp), UMI (10 bp), and P7 adapter. PCR products were cleaned with AMPure XP beads (Beckman Coulter A63880). Next, we amplified the library using P5/P7 primers. Finally, the resulting PCR-amplified DNA library was pooled at an equimolar ratio and then size-selected on an agarose gel. All RNA and DNA libraries were pooled and sequenced on an Illumina NextSeq instrument. Paired-end reads of 150 base pairs were sequenced from the forward and reverse end of the amplified fragment.
OTHER: RNA-seq and DNA-seq

treatment_protocol: Cells were electroporated with the transMPRA library and piggyBac transposase.

tag: condition

tag: time harvested

value: lowMOI


title: RNA_d5_lowMOI_r3


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D4_ad001

tag: brain region

tag: Sex


title: RNA_d5_lowMOI_r1


title: RNA_d5_highMOI_r3

value: highMOI


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D2_ad007

tag: age

tag: strain


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D4_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D2_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D3_ad010


title: RNA_d5_highMOI_r1


title: RNA_d5_highMOI_r2


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D3_ad004


title: RNA_d10_lowMOI_r3


title: RNA_d10_lowMOI_r2


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D12_ad008


title: RNA_d10_highMOI_r3


title: RNA_d10_highMOI_r2


title: RNA_d10_highMOI_r1


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D12_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D11_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D11_ad010


title: DNA_d5_lowMOI_r3


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D11_ad008


title: DNA_d5_lowMOI_r2


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D11_ad007


title: DNA_d5_lowMOI_r1


title: DNA_d5_highMOI_r3


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D11_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D2_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D2_ad002


title: DNA_d5_highMOI_r2


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D11_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D12_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D11_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D10_ad008


title: DNA_d10_lowMOI_r2


title: RNA_d10_lowMOI_r1


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D12_ad007


title: DNA_d10_lowMOI_r3


title: DNA_d10_lowMOI_r1


title: DNA_d5_highMOI_r1


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D10_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D12_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D10_ad007


title: DNA_d10_highMOI_r2


title: DNA_d10_highMOI_r1


title: DNA_d10_highMOI_r3


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D10_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D10_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D1_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D1_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D1_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D1_ad006


title: 1.2.CAF.BETi

city: Boston

first: Kim

middle: Christin

last: Honselmann

address: 55 Fruit Street

department: Surgery

institute: Massachusetts General Hospital & Harvard Medical School

description:
mRNA
processed data file: Raw_dataPcoculture_all.xlsx
processed data file: Processed_Data_coculture_all.xlsx

data_processing:
Raw Illumina reads were quality filtered as follows. First, ends of the reads were trimmed to remove N's and bases with quality less than 20. After that the quality scores of the remaining bases were sorted and the quality at the 20th percentile was computed. If the quality at the 20th percentile was less than 15, the whole read was discarded. Also, reads shorter than 40 bases after trimming were discarded. If at least one of the reads in the pair failed the quality check and had to be discarded, we discarded the mate as well.
Quality filtered reads were mapped to the human genome (gencode annotation, build 38) using STAR aligner24. Aligned reads were assigned to genes using the featureCounts function of Rsubread25 package using the external Ensembl annotation. This produced the raw read counts for each gene.
Genome_build: human genome hg38 (GRCh38)
Supplementary_files_format_and_content: Raw_data_coculture_all.xlsx: Excel data table including raw counts.
Supplementary_files_format_and_content: Processed_Data_coculture_all.xlsx: Excel data table including RPM values.

source_name: CAF-1 cell line and MGH1319 PDAC cell line coculture

growth_protocol: Cells were seeded at one million cells per T25 flask and cultured for 24 hours. Cocultures were seeded at a 1:2 ratio with a total of one million cells per T25 flask.

extract_protocol:
Cells were harvested using RLT reagent and subjected to FACS, then RNA was isolated using the RNeasy Micro kit.
Sequencing libraries were prepared from 1ng of total RNA and amplified with the ClonTech Low input amplification v4 Kit, sequenced at 75 bp Pair End on the NextSeq sequencer (Illumina).

treatment_protocol: After 24 hours, cells were treated with 1.6uM of CPI203 (BETi) or CTRL for 24 hours.

value: CAF-1 and MGH1319

value: Coculture

tag: treatment

value: BETi


title: 1.2.CAF.CTRL

value: CTRL


title: 1.2.1319.BETi

source_name: MGH1319 PDAC cell line and CAF-1 cell line coculture

value: MGH1319 and CAF-1


title: CAF.BETi

source_name: CAF-1 cell line

value: PDAC derived cancer-associated fibroblast cell line

value: Monoculture


title: CEMBA190124_6C_3_CEMBA190124_6C_4_D1_ad008

value: SSs


title: CAF.CTRL


title: 1319.BETi

source_name: MGH1319 PDAC cell line

value: PDAC derived tumor cell line


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C9_ad010

value: male


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C9_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C9_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C8_ad012


title: 1319.CTRL


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C9_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C9_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C9_ad002


title: 1.2.1319.CTRL


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C8_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C8_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C8_ad006


title: CDTcellplate8_H06

first: Ken

last: Dower

state: MA

address: 1 Portland Street

department: Inflammation & Immunology

institute: Pfizer

description: processed data file: rsem.genes.count.matrix

data_processing:
Illumina bcl2fastq2.17.1.14 was used to generate fastqs from bcl files
STAR was used to align the scRNA-seq data
Regression analysis was done as described in manuscript
Genome_build: hg19; mm10; hg19_mm10
Supplementary_files_format_and_content: human or mouse UMI-collapsed transcripts, gene counts

source_name: Transcriptome of single cells

extract_protocol:
Seq-Well, 10x Chrominum V3, Smart-Seq2
Illumina Nextera XT

tag: genome build

tag: sample type

value: Sorted CD4 T Cells from human Peripheral Blood Mononuclear Cells

value: Healthy Primary PBMCs


title: CDTcellplate8_H12


title: CDTcellplate8_H11


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C8_ad010


title: CDTcellplate8_H10


title: CDTcellplate8_H07


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C8_ad002


title: CDTcellplate8_H09


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C8_ad008


title: CDTcellplate8_H02


title: CDTcellplate8_H04


title: CDTcellplate8_H03


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C7_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C7_ad010


title: CDTcellplate8_H01


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C7_ad006


title: CDTcellplate8_H05


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C7_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C7_ad002


title: CDTcellplate8_H08


title: CDTcellplate8_G12


title: CDTcellplate8_G09


title: CDTcellplate8_G10


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C6_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C6_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C7_ad008


title: CDTcellplate8_G07


title: CDTcellplate8_G08


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C6_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C6_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C6_ad010


title: CDTcellplate8_G05


title: CDTcellplate8_G04


title: CDTcellplate8_G06


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C5_ad007


title: CDTcellplate8_G03


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C5_ad001


title: CDTcellplate8_G01


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C5_ad010


title: CDTcellplate8_F12


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C5_ad006


title: CDTcellplate8_F11


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C5_ad004


title: CDTcellplate8_F10


title: CDTcellplate8_G11


title: CDTcellplate8_F09


title: CDTcellplate8_F08


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C5_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C4_ad001


title: CDTcellplate8_F07


title: CDTcellplate8_F06


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C4_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C4_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C4_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C5_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C4_ad007


title: CDTcellplate8_F05


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C4_ad004


title: CDTcellplate8_F03


title: CDTcellplate8_G02


title: CDTcellplate8_F04


title: CDTcellplate8_F02


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C3_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C4_ad002


title: CDTcellplate8_F01


title: CDTcellplate8_E12


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C3_ad001


title: CDTcellplate8_E11


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C3_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C3_ad010


title: CDTcellplate8_E10


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C3_ad006


title: CDTcellplate8_E09


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C3_ad004


title: CDTcellplate8_E08


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C3_ad002


title: CDTcellplate8_E07


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C3_ad008


title: CDTcellplate8_E06


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C2_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C2_ad007


title: CDTcellplate8_E05


title: CDTcellplate8_E04


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C2_ad006


title: CDTcellplate8_E03


title: CDTcellplate8_E02


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C2_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C2_ad004


title: CDTcellplate8_E01


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C2_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C2_ad008


title: CDTcellplate8_D12


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C12_ad012


title: CDTcellplate8_D10


title: CDTcellplate8_D09


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C12_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C12_ad007


title: CDTcellplate8_D08


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C12_ad004


title: CDTcellplate8_D07


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C12_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C12_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C12_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C12_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C11_ad010


title: CDTcellplate8_D05


title: CDTcellplate8_D06


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C11_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C11_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C11_ad006


title: CDTcellplate8_D04


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C10_ad010


title: CDTcellplate8_D11


title: CDTcellplate8_D03


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C11_ad002


title: CDTcellplate8_D01


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C10_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C10_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C11_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C10_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C10_ad002


title: CDTcellplate8_C12


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B9_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C10_ad001


title: CDTcellplate8_C11


title: CDTcellplate8_C10


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B9_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B9_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B9_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B9_ad006


title: CDTcellplate8_C09


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B8_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B8_ad001


title: CDTcellplate8_C08


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B8_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B8_ad007


title: CDTcellplate8_D02


title: CDTcellplate8_C07


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B8_ad006


title: CDTcellplate8_C06


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B8_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_C10_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B8_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B8_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B7_ad012


title: CDTcellplate8_C05


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B7_ad010


title: CDTcellplate8_C03


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B7_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B7_ad004


title: CDTcellplate8_C04


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B7_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B7_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B7_ad008


title: CDTcellplate8_C02


title: CDTcellplate8_B12


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B6_ad001


title: CDTcellplate8_B11


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B6_ad010


title: CDTcellplate8_B10


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B6_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B5_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B5_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B5_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B5_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B6_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B5_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B5_ad012


title: CDTcellplate8_B07


title: CDTcellplate8_B08


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B5_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B5_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B4_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B6_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B4_ad010


title: CDTcellplate8_B05


title: CDTcellplate8_C01


title: CDTcellplate8_B04


title: CDTcellplate8_B06


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B4_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B4_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B3_ad012


title: CDTcellplate8_B03


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B4_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B4_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B3_ad001


title: CDTcellplate8_B09


title: CDTcellplate8_B02


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B3_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B3_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B4_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B3_ad004


title: CDTcellplate8_A12


title: CDTcellplate8_B01


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B3_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B2_ad012


title: CDTcellplate8_A10


title: CDTcellplate8_A11


title: CDTcellplate8_A09


title: CDTcellplate8_A08


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B3_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B2_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B2_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B2_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B2_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B2_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B3_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B2_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B12_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B12_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B2_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B12_ad007


title: CDTcellplate8_A06


title: CDTcellplate8_A05


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B12_ad002


title: CDTcellplate8_A04


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B12_ad001


title: CDTcellplate8_A03


title: CDTcellplate8_A07


title: CDTcellplate8_A02


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B11_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B12_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B11_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B11_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B10_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B10_ad010


title: CDTcellplate8_A01


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B10_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B12_ad006


title: CDTcellplate7_H12


title: CDTcellplate7_H11


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B10_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B12_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B10_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B10_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B10_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B11_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B10_ad006


title: CDTcellplate7_H09


title: CDTcellplate7_H08


title: CDTcellplate7_H10


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B11_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B11_ad012


title: CDTcellplate7_H07


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B11_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B1_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B1_ad006


title: CDTcellplate7_H06


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B1_ad008


title: CDTcellplate7_H05


title: CDTcellplate7_H03


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A9_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A9_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A9_ad004


title: CDTcellplate7_H04


title: CDTcellplate7_H02


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A8_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A8_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A8_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A9_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A8_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B1_ad001


title: CDTcellplate7_G11


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A8_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A7_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B1_ad007


title: CDTcellplate7_G10


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A7_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A7_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A7_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A9_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_B1_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A6_ad001


title: CDTcellplate7_H01


title: CDTcellplate7_G12


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A6_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A6_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A9_ad010


title: CDTcellplate7_G07


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A6_ad004


title: CDTcellplate7_G06


title: CDTcellplate7_G08


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A4_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A7_ad006


title: CDTcellplate7_G05


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A4_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A6_ad002


title: CDTcellplate7_G04


title: CDTcellplate7_G03


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A4_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A4_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A6_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A4_ad004


title: CDTcellplate7_G02


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A4_ad008


title: CDTcellplate7_G01


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A3_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A3_ad007


title: CDTcellplate7_F12


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A5_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A3_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A5_ad010


title: CDTcellplate7_F11


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A3_ad006


title: CDTcellplate7_F10


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A3_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A3_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A5_ad012


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A2_ad012


title: CDTcellplate7_F09


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A3_ad008


title: CDTcellplate7_F08


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A2_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A2_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A2_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A2_ad002


title: CDTcellplate7_F07


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A2_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A2_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A2_ad008


title: CDTcellplate7_F06


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A12_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A12_ad012


title: CDTcellplate7_F05


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A12_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A12_ad008


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A12_ad006


title: CDTcellplate7_F04


title: CDTcellplate7_G09


title: CDTcellplate7_F03


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A12_ad004


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A12_ad001


title: CDTcellplate7_F02


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A10_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A10_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A10_ad002


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A10_ad001


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A10_ad006


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A1_ad001


title: CDTcellplate7_E11


title: CDTcellplate7_F01


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A1_ad010


title: CDTcellplate7_E12


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A1_ad012


title: CDTcellplate7_E10


title: CDTcellplate7_E09


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H9_ad012


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H9_ad001


title: CDTcellplate7_E08


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A1_ad004


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H9_ad007


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A1_ad008


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H9_ad010


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A1_ad002


title: CDTcellplate7_E06


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H9_ad002


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H9_ad006


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H9_ad008


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H8_ad012


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H8_ad001


title: CDTcellplate7_E05


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H8_ad010


title: CDTcellplate7_E04


title: CEMBA190124_6C_3_CEMBA190124_6C_4_A1_ad006


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H8_ad004


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H8_ad002


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H8_ad007


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H7_ad001


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H7_ad012


title: CDTcellplate7_E03


title: CDTcellplate7_D12


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H7_ad007


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H7_ad010


title: CDTcellplate7_D11


title: CDTcellplate7_E07


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H7_ad006


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H6_ad012


title: CDTcellplate7_D10


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H6_ad001


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H8_ad008


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H7_ad004


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H6_ad010


title: CDTcellplate7_D09


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H6_ad004


title: CDTcellplate7_D08


title: CDTcellplate7_E02


title: CDTcellplate7_E01


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H6_ad002


title: CDTcellplate7_D07


title: CDTcellplate7_D06


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H5_ad012


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H6_ad006


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H5_ad010


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H5_ad002


title: CDTcellplate7_D05


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H5_ad004


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H5_ad001


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H4_ad012


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H5_ad008


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H4_ad007


title: CDTcellplate7_D04


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H5_ad006


title: CDTcellplate7_D02


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H4_ad002


title: CDTcellplate7_D01


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H3_ad001


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H3_ad004


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H3_ad012


title: CDTcellplate7_C12


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H4_ad004


title: CDTcellplate7_D03


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H3_ad002


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H3_ad006


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H2_ad012


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H3_ad008


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H2_ad001


title: CDTcellplate7_C10


title: CDTcellplate7_C11


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H2_ad007


title: CDTcellplate7_C09


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H2_ad010


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H2_ad006


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H2_ad002


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H2_ad004


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H2_ad008


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H12_ad012


title: CDTcellplate7_C07


title: CDTcellplate7_C06


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H12_ad007


title: CDTcellplate7_C05


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H12_ad008


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H12_ad006


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H12_ad002


title: CDTcellplate7_C04


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H11_ad012


title: HTR-8-WT-2

city: chengdu

first: li

last: tongtong

state: sichuan

address: sichuan

country: China

institute: xinong

data_processing:
Low quality reads were trimmed out using Trim Galore.
The reference genomes and the annotation file were downloaded from hg38.
Bowtie was used for building the genome index, and Clean Data was then aligned to the reference genome using Bowtie.
Reads Count for each gene in each sample was counted by featureCounts (v2.0.0), and FPKM (Fragments Per Kilobase Millon Mapped Reads) was then calculated to estimate the expression level of genes in each sample
Download the miRNA annotation file from UCSC and calculate the miRNA expression.
Genome_build: hg38
Supplementary_files_format_and_content: Matrix table with reads counts and rpkm for every miRNA/piRNA and every sample
Supplementary_files_format_and_content: Matrix table with reads counts and rpkm for every gene and every sample

growth_protocol: Human extravillous trophoblast (HTR-8/SVneo) cell lines were cultured in RPMI-1640 medium at 37 °C in a 5% CO2 humidified environment incubator (Thermo Scientific, USA), human normal hepatocytes (LO2) cell lines were cultured in DMEM medium under the same condition. Both medium contained 10% FBS, 100 U/ml penicillin and 100 mg/ml streptomycin.

extract_protocol:
then small RNA library was constructed and
Sequencing libraries were generated using NEBNext® Multiplex Small RNA Library Prep Set for Illumina® (NEB, USA.)

treatment_protocol: HTR-8 were transfected with siRNA and, RNAs were extracted after 48 hour

value: trophoblast cell line

value: treated with control siRNA


title: HTR-8-KD-3

value: treated with H19X siRNA


title: HTR-8-WT-3


title: HTR-8-KD-2


title: HTR-8-KD-1


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H12_ad001


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H11_ad010


title: HTR-8-WT-1


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H11_ad008


title: CDTcellplate7_C03


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H11_ad007


title: CDTcellplate7_C08


title: CDTcellplate7_C02


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H11_ad006


title: MCF7_Rep2_Unstained

data_processing:
FastQ files were adapter and quality trimmed with Trim Galore (v0.6.2). Trimmed sequences were then aligned to the human genome using HISAT2 (v2.1.0; no-softclipping) guided by gene models from Ensembl release 87. Aligned reads were then imported into SeqMonk (v1.47.1), and genes were quantified using the RNA-seq pipeline.
Genome_build: GRCh38
Supplementary_files_format_and_content: gene_quantification.txt: Tab-delimited text file showing log2RPM values per gene for each sample.

source_name: MCF7 Unstained

extract_protocol:
Cell pellets were lysed in 1 mL TRI reagent (Sigma, T9424) and mixed until a homogeneous lysate was obtained. For phase separation, 0.2 mL chloroform was added, mixed thoroughly and allowed to stand for 10 minutes prior to centrifugation at 12,000 × g for 15 min at 4 °C. The upper aqueous phase containing RNA was transferred to a fresh tube, and 0.5 mL 2-propanol per mL original lysate was then added, samples mixed and allowed to stand for 10 minutes. Samples were centrifuged (12,000 × g for 10 min at 4 °C), and RNA pellets washed with 1 mL 75% (v/v) ethanol (7,500 × g for 5 min at 4 °C). Pellets were air-dried for 5-10 minutes and resuspended in RNase-free water.
RNA prepared from flow sorted cells was quality controlled on a Bioanalyzer 2100 (Agilent) using RNA Pico 6000 chips (Agilent 5067-1513). mRNA-seq libraries were prepared using the NEBNext Ultra II Directional RNA Library Prep Kit for Illumina (NEB E7760S) with the NEBNext Poly(A) mRNA Magnetic Isolation Module (NEB E7490S), following the protocol provided by the manufacturer with the exception that two successive 0.9x AMPure purifications were performed on the final amplified libraries. All libraries were amplified using 12 PCR cycles. Library quality was assessed on a Bioanalyzer 2100 using High Sensitivity DNA chips (Agilent 5067-4626) and quantification performed with a KAPA Library Quantification Kit (Roche, KK4844). Libraries were sequenced by the Babraham Institute Next Generation Sequencing Facility on an Illumina HiSeq2500 in Rapid Run 50bp Single End mode.

treatment_protocol: Sample collection protocol: Cells grown in monolayers were harvested by trypsinization, centrifuged (300 xg for 5 minutes) and washed once with PBS prior to lysis in TRI reagent. For glyoxal-fixed cells that were stained or stained and flow sorted, cell suspension was pelleted by centrifugation at 2000 x g for 3 minutes at 4°C. For glyoxal fixation and staining, cell pellets were resuspended in 100 µL glyoxal fixation solution (2.8 ml water, 0.79 ml 100% ethanol, 0.31 ml 40% glyoxal and 30 µl acetic acid, pH 4-5) supplemented with 1:25 RNasin Plus RNase inhibitor (Promega, N261B) and incubated for 15 minutes on ice. The cell suspension was diluted in 1 mL PBS supplemented with 1:100 RNasin Plus RNase inhibitor and centrifuged at 2000[PC1]  x g for 3 minutes at 4°C; the supernatant was discarded. All further centrifugation steps were carried out at similar conditions. Cells were permeabilized by adding 100 µL ice-cold methanol (100%, v/v) with 1:25 RNasin Plus RNase inhibitor drop by drop while gently vortexing cells, and incubated on ice for 30 minutes. The cell suspension was then diluted in 1 mL 1% bovine serum albumin (BSA) (Sigma, A7906) in PBS and centrifuged. Samples were incubated in 100 uL primary antibody (in this case CST 12231S - 1:200) diluted in 1% BSA in PBS with 1:25 RNasin Plus RNase inhibitor for 1 hour on ice. Following incubation, cells were washed once in 1mL 1% BSA in PBS. Secondary antibody staining was carried out in 100 μL Alexa Fluor 488 donkey anti-rabbit antibody (ThermoFisher Scientific, A21206) diluted 1:1000 in 1% BSA in PBS with 1:25 RNasin Plus RNase inhibitor and incubated on ice for 30 minutes in dark. Cells were washed once in 1 mL 1% BSA in PBS and the cell pellet resuspended in 200 µL 1% BSA in PBS with 1:100 RNasin Plus RNase inhibitor.

value: breast cancer cell line

tag: growth media

value: DMEM

tag: fixed/unfixed

value: Unfixed

tag: stained/unstained

value: Unstained


title: MCF7_Rep2_Stained

source_name: MCF7 Stained

tag: cell line

tag: cell type

value: Fixed

value: Stained


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H11_ad004

source_name: C57BL/6J Male P56 Mouse Brain


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H11_ad001


title: MCF7_Rep2_CCNB1_pos

source_name: MCF7 CCNB1_pos

tag: sorted


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H10_ad012


title: CDTcellplate7_B12


title: MCF7_Rep2_CCNB1_neg

source_name: MCF7 CCNB1_neg


title: CDTcellplate7_B11


title: MCF7_Rep1_Unstained


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H10_ad007


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H10_ad008


title: CDTcellplate7_B10


title: MCF7_Rep1_Stained


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H10_ad004


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H10_ad001


title: MCF7_Rep1_CCNB1_neg


title: MCF7_Rep1_CCNB1_pos


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H1_ad007


title: CDTcellplate7_B08


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H1_ad006


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H1_ad012


title: CDTcellplate7_B09


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H1_ad004


title: CDTcellplate7_B07


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H1_ad008


title: CDTcellplate7_C01


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G9_ad001


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H11_ad002


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G9_ad007


title: COLO205_Rep2_Unstained

source_name: COLO205 Unstained

value: colorectal cancer cell line


title: CEMBA190124_6C_1_CEMBA190124_6C_2_H1_ad001


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G9_ad004


title: COLO205_Rep2_Stained

source_name: COLO205 Stained


title: CDTcellplate7_B06


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G9_ad006


title: CDTcellplate7_B04


title: COLO205_Rep1_Unstained


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G9_ad008


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G9_ad002


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G8_ad012


title: CDTcellplate7_B02


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G8_ad010


title: CDTcellplate7_A12


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G8_ad001


title: CDTcellplate7_A11


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G8_ad002


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G8_ad008


title: CDTcellplate7_B01


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G7_ad010


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G7_ad004


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G8_ad004


title: CDTcellplate7_A10


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G7_ad007


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G7_ad012


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G7_ad002


title: CDTcellplate7_B05


title: CDTcellplate7_A09


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G7_ad008


title: CDTcellplate7_A08


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G6_ad010


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G6_ad012


title: COLO205_Rep1_Stained


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G6_ad004


title: CDTcellplate7_B03


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G8_ad007


title: CDTcellplate7_A07


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G6_ad006


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G6_ad002


title: CDTcellplate7_A06


title: CDTcellplate7_A05


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G5_ad001


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G5_ad010


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G6_ad008


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G5_ad007


title: CDTcellplate7_A02


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G4_ad012


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G5_ad006


title: CDTcellplate7_A04


title: CDTcellplate7_A01


title: CDTcellplate7_A03


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G4_ad007


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G5_ad002


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G5_ad004


title: CDTcellplate4_H12


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G4_ad001


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G4_ad004


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G3_ad001


title: CDTcellplate4_H11


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G4_ad008


title: CDTcellplate4_H10


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G3_ad006


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G3_ad010


title: CDTcellplate4_H09


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G3_ad004


title: CDTcellplate4_H08


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G4_ad006


title: CDTcellplate4_H04


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G2_ad012


title: CDTcellplate4_H05


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G3_ad012


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G4_ad002


title: CDTcellplate4_H07


title: CDTcellplate4_H01


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G2_ad002


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G2_ad008


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G2_ad001


title: TN1708R0564

city: Seoul

first: Sehoon

last: Park

address: Daehak-ro 101

country: South Korea

institute: Seoul National University Hospital

data_processing:
Low-quality nucleotides and adapter sequences were trimmed off using the cutadapt software
Aligned to the human reference genome (GRCh38.p10) using STAR version 2.3.0
Uniquely mapped reads were counted using the HTseq software (version 0.9.1)
Genes with fewer than 20 reads in more than half of the samples were excluded
Genome_build: GRCh38.p10
Supplementary_files_format_and_content: tab-delimited text files include raw read counts

source_name: Kidney glomerulus

extract_protocol:
Collected kidney tissues were manually microdissected under an EZ4 stereomicroscope (Leica, Wetzlar, Germany). An average number of 8 to 12 glomeruli were collected from each biopsy specimen. Total RNAs were extracted from the microdissected glomeruli using an RNeasy micro kit (Qiagen, Hamburg, Germany).
A SMARTer Ultra Low Input RNA Kit version 3 (Takara Bio, Mountain View, CA, USA) was used to construct complementary DNA libraries.

value: Normal cortex from renal cell carcinoma kidney

value: Microdissected kidney glomerulus

tag: kidney function

value: No abnormality


title: Y0

city: shanghai

first: yidong

last: zhang

address: Dongchuan road 800

institute: shanghai jiao tong university

data_processing:
Illumina Casava software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to melon whole genome using tophat2.
Reads Per Kilobase of gene per Megabase of library size (RPKM) were calculated using a protocol from Chepelev et al., Nucleic Acids Research, 2009. In short, exons from all isoforms of a gene were merged to create one meta-transcript. The number of reads falling in the exons of this meta-transcript were counted and normalized by the size of the meta-transcript and by the size of the library.
Genome_build: melon
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample

organism: Cucumis melo

source_name: melon 'YL' control

growth_protocol: grown in a glass greenhouse with day/night temperature at 28/24 °C, photoperiod 14 h (lighting level is more than 7000 lux), relative humidity 60±10 %.

extract_protocol:
Total RNA was later isolated using TRIZOL Reagent
RNA libraries were prepared for sequencing using standard Illumina protocols

treatment_protocol: the salt-stressed plants were watered with a 75 mM incremental intervals each day to final concentrations of 150, and 300 mM NaCl solved in half-strength Hoagland’s solution

tag: cultivar

value: YL

tag: stress


title: B1

source_name: melon 'BXC' treated

value: BXC

value: salt


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G2_ad010

value: SSs

value: male


title: CDTcellplate4_G12

value: Sorted CD4 T Cells from human Peripheral Blood Mononuclear Cells

tag: condition

value: Healthy Primary PBMCs


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G2_ad006

tag: brain region


title: CDTcellplate4_H03


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G2_ad004

tag: Sex


title: CDTcellplate4_H06


title: Y1

source_name: melon 'YL' treated


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G3_ad007

tag: age


title: CDTcellplate4_H02


title: CDTcellplate4_G11


title: TN1708R0566


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G2_ad007

tag: strain


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G12_ad007


title: TN1708R0567


title: TN1708R0565


title: CDTcellplate4_G08


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G12_ad006


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G12_ad010


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G12_ad008


title: CDTcellplate4_G09


title: CDTcellplate4_G10


title: B0

source_name: melon 'BXC' control


title: CDTcellplate4_G07


title: TN1708R0032


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G12_ad002


title: TN1708R0037


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G12_ad001


title: CDTcellplate4_G06


title: TN1708R0034


title: CDTcellplate4_G05


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G11_ad012


title: TN1708R0031


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G11_ad010


title: CDTcellplate4_G02


title: TN1708R0035


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G11_ad008


title: TN1708R0039


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G11_ad007


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G12_ad004


title: TN1706R0454

value: Kidney diagnosed for immunoglobulin A nephropathy

value: eGFR ≥ 60 mL/min/1.73 m2 and urine proteinuria < 1g/day or 1g/g


title: TN1706R0456


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G11_ad004


title: TN1706R0449


title: CDTcellplate4_F11


title: CDTcellplate4_F12


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G11_ad002


title: TN1706R0447


title: CDTcellplate4_F10


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G11_ad006


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G10_ad012


title: CDTcellplate4_G04


title: CDTcellplate4_F08


title: TN1706R0459


title: TN1706R0443


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G10_ad008


title: CDTcellplate4_G03


title: CDTcellplate4_F07


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G10_ad006


title: TN1704R0892


title: CDTcellplate4_F06


title: CDTcellplate4_G01


title: CDTcellplate4_F05


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G10_ad002


title: TN1706R0452


title: CDTcellplate4_F04


title: TN1704R0891


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G1_ad001


title: TN1706R0463


title: CDTcellplate4_F09


title: CDTcellplate4_F02


title: TN1704R0889


title: TN1704R0888


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G1_ad012


title: SM1938: DHA+PCA 24hrs, Rep3

city: Bologna

first: Alessandra

last: Bordoni

address: Viale Fanin 44

department: Department of Biochemistry and Molecular BiologyDepartment of Agricoltural and Food Sciences

country: Italy

institute: Università di Bologna

data_processing:
RNA-seq reads were mapped to hg19 with STAR (Dobin, A., et al., Bioinformatics, 2013. 29(1): p. 15-21) using default parameters.
The expression of mRNAs were quantified using the iRNA-seq pipeline (Madsen et al, Nucl. Acids Res. 43 (6): e40) in exon-mode.
Genome_build: hg19/GRCh37
Supplementary_files_format_and_content: tab-delimited text file include RefSeq gene identifier, genomic coordinates and raw sequencing counts for all files.

growth_protocol: HepG2 human hepatoma cells were maintained at 37°C, 95% air, 5% CO2 in DMEM supplemented with 10% (v/v) fetal bovine serum (FBS), 100 U/mL penicillin and 100 µg/mL streptomycin [11]. Once a week, cells were split 1:20 into a new 75 cm2 flask, and medium was refreshed.

extract_protocol:
After 6 or 24 h incubation, cells were gently washed twice with 1 mL of warm DPBS and scraped-off in 1 mL of ice-cold DPBS. Cell pellets were collected by centrifugation at 250 × g for 5 min at 4°C, and the supernatant was removed. Total RNA was isolated using the Direct-zol™ RNA MiniPrep (Zymo Research Corporation; Irvine, CA, USA) according to manufacturer’s protocol. Three independent cell cultures were performed, with three replicates from each experiment. Replicates from the same experiment were pooled together and diluted to 40 ng/µL. The quantity and quality of RNA were assessed using the NanoDrop ND-2000 spectrophotometer (Thermo Fisher Scientific; Wilmington, DE, USA) and the Fragment Analyzer™ Automated CE system (Agilent; Santa Clara, USA). Samples were frozen at −80°C until further use.
The mRNA enrichment, library construction and amplification were performed according to Illumina TruSeq RNA Library Prep kit v2 using manufacturer’s instructions and sequenced on the Illumina HiSeq1500 platform.

treatment_protocol: Cells were seeded in 12-well plates at 6 x 105 cells/mL concentration, and after 24 hours, they were incubated for 6 or 24 h with the bioactive compounds as previously described [12]. DHA was dissolved in 100% ethanol and complexed to bovine serum albumin (BSA). The DHA-BSA complex was prepared fresh each time at a final BSA concentration of 0.5% in serum-free DMEM. PCA was dissolved in dimethyl sulfoxide (DMSO) acidified with HCl to pH 2, while PRO was dissolved in water. The final concentration of ethanol and DMSO was kept below 0.1% in serum-free DMEM. Not supplemented, control cells (Ctrl) received corresponding amounts of BSA or vehicle.

tag: treatment

value: DHA/PCA, 24hrs


title: CDTcellplate4_F03

tag: genome build


title: SM1833: DHA+PCA 24hrs, Rep2


title: TN1704R0882


title: SM1832: DHA+PCA 24hrs, Rep1


title: CDTcellplate4_F01

tag: sample type


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G10_ad007


title: TN1704R0881


title: SM1937: DHA+PRO 24hrs, Rep3

value: DHA/PRO, 24hrs


title: CDTcellplate4_E12


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G1_ad010


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G1_ad004


title: SM1831: DHA+PRO 24hrs, Rep2


title: SM1830: DHA+PRO 24hrs, Rep1


title: CDTcellplate4_E11


title: CDTcellplate4_E10


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F9_ad012


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G1_ad008


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G1_ad002


title: CEMBA190124_6C_1_CEMBA190124_6C_2_G1_ad007


title: SM1829: PCA 24hrs, Rep2

value: PCA, 24hrs


title: SM1936: PCA 24hrs, Rep3


title: CDTcellplate4_E09


title: CDTcellplate4_E07


title: CDTcellplate4_E08


title: SM1828: PCA 24hrs, Rep1


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F9_ad010


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F9_ad001


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F9_ad006


title: CDTcellplate4_E06


title: SM1935: PRO 24hrs, Rep3

value: PRO, 24hrs


title: SM1826: PRO 24hrs, Rep1


title: CDTcellplate4_E05


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F9_ad004


title: CDTcellplate4_E04


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F9_ad002


title: SM1827: PRO 24hrs, Rep2


title: SM1934: DHA 24hrs, Rep3

value: DHA, 24hrs


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F9_ad008


title: SM1825: DHA 24hrs, Rep2


title: CDTcellplate4_E03


title: SM1824: DHA 24hrs, Rep1


title: CDTcellplate4_E02


title: CDTcellplate4_E01


title: CDTcellplate4_D12


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F8_ad010


title: CDTcellplate4_D11


title: SM1822: Control 24hrs, Rep1

value: DMSO/BSA, 24hrs


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F8_ad002


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F8_ad004


title: SM1933: Control 24hrs, Rep3


title: CDTcellplate4_D09


title: CDTcellplate4_D10


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F7_ad012


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F7_ad001


title: SM1821: DHA+PCA 6hrs, Rep2

value: DHA/PCA, 6hrs


title: SM1932: DHA+PCA 6hrs, Rep3


title: SM1823: Control 24hrs, Rep2


title: CDTcellplate4_D08


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F8_ad001


title: SM1820: DHA+PCA 6hrs, Rep1


title: CDTcellplate4_D07


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F7_ad010


title: CDTcellplate4_D06


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F7_ad006


title: SM1931: DHA+PRO 6hrs, Rep3

value: DHA/PRO, 6hrs


title: SM1939: DHA+PRO 6hrs, Rep2


title: CDTcellplate4_D05


title: SM1818: DHA+PRO 6hrs, Rep1


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F7_ad004


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F7_ad002


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F8_ad008


title: SM1930: PCA 6hrs, Rep3

value: PCA, 6hrs


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F7_ad008


title: SM1817: PCA 6hrs, Rep2


title: SM1816: PCA 6hrs, Rep1


title: CDTcellplate4_D03


title: CDTcellplate4_D02


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F6_ad001


title: CDTcellplate4_D01


title: SM1815: PRO 6hrs, Rep2

value: PRO, 6hrs


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F7_ad007


title: CDTcellplate4_C12


title: CDTcellplate4_C11


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F6_ad007


title: SM1929: PRO 6hrs, Rep3


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F6_ad010


title: SM1928: DHA 6hrs, Rep3

value: DHA, 6hrs


title: SM1814: PRO 6hrs, Rep1


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F6_ad006

value: SSs


title: CDTcellplate4_C09


title: SM1813: DHA 6hrs, Rep2


title: CDTcellplate4_C10


title: CDTcellplate4_D04


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F6_ad004

value: male


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F6_ad002


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F6_ad008


title: CDTcellplate4_C08

value: Sorted CD4 T Cells from human Peripheral Blood Mononuclear Cells


title: SM1812: DHA 6hrs, Rep1


title: CDTcellplate4_C07

value: Healthy Primary PBMCs


title: SM1927: Control 6hrs, Rep3

value: DMSO/BSA, 6hrs


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F5_ad012


title: SM1811: Control 6hrs, Rep2


title: CDTcellplate4_C06


title: CDTcellplate4_C05


title: SM1810: Control 6hrs, Rep1


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F5_ad001


title: CEMBA190124_6C_1_CEMBA190124_6C_2_F5_ad007


title: CDTcellplate4_C04