title: MBC23

type: genomic

description: Genome profinling data from MBC and non MBC BLC

hyb_protocol: DNA was restriction digested, PCR amplified, fragmented, labeled and hybridized to each array according to the manufacturer's instructions.

scan_protocol: GeneChips were scanned using the Affymetrix 7G Scanner GCS3000

data_processing: CEL files were generated with Affymetrix Genechip Command Console 3.0.1 for SNP6 chips. Rawcopy (available at http://rawcopy.org/) was used to estimate copy number and B-allele frequency

label: biotin

source_name: Breast

label_protocol: As per manufacturer (Affymetrix)

extract_protocol: DNA was extracted from frozen tumor samples using a standard phenol/chloroform procedure

tag: disease state

value: medullary breast carcinoma


title: MBC08

status: Public on Jun 20 2018

city: Paris Cedex 05

first: Cecile

last: Laurent

address: 26 rue d'ulm

country: France

institute: Institut Curie

molecule: genomic DNA

organism: Homo sapiens


title: RRBS Glioblastoma patient pat_039 Surg.2 FFPE [pat_039_N806_12]

type: SRA

city: Vienna

first: Christoph

last: Bock

address: Lazarettgasse 14

country: Austria

institute: CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences

library_source: genomic

data_processing:
Adapter sequences were trimmed, and 60 basepair reads were cropped to 50 basepairs using Trimmomatic with the following settings: ILLUMINACLIP:RRBS_adapters.fa:2:40:7 SLIDINGWINDOW:4:15. MAXINFO:20:0.50 CROP:50 MINLEN:18.
Trimmed reads were then aligned to the human genome build hg38 using BSMAP in RRBS mode.
DNA methylation calling was performed with a custom python script (biseqMethCalling.py).
Genome_build: hg38
Supplementary_files_format_and_content: Bed files containing CpG DNA methylation levels

source_name: brain (tumor)

extract_protocol:
Genomic DNA was extracted from FFPE tissues using the QIAamp DNA FFPE Tissue Kit following manufacturer’s instructions
RRBS was performed using 100 ng of genomic DNA for most samples, while occasionally going down to 2 ng (if not more DNA was available) and up to 200 ng. To assess bisulfite conversion efficiency independent of CpG context, methylated and unmethylated spike-in controls were added in a concentration of 0.1%. DNA was digested using the restriction enzymes MspI and Taq1 in combination (as opposed to MspI only in the original protocol) in order to increase genome-wide coverage. Restriction enzyme digestion was followed by fragment end repair, A-tailing, and adapter ligation. The amount of effective library was determined by qPCR, and samples were multiplexed in pools of 10 with similar qPCR Ct values. The pools were then subjected to bisulfite conversion followed by library enrichment by PCR. Enrichment cycles were determined using qPCR and ranged from 12 to 21 (median: 16). Adequate fragment size distributions were confirmed on Bioanalyzer High Sensitivity DNA chips (Agilent).

tag: idh status

value: wildtype

tag: center

value: MedUni Vienna

tag: sample group

value: Glioblastoma patient

tag: surgery number

tag: multisector

value: No

tag: sample type

value: FFPE


title: MBC36


title: MBC42


title: MBC13


title: BLC_74

value: non medullary basal-like breast carcinoma


title: MBC05


title: RRBS Glioblastoma patient pat_039 Surg.1 FFPE [pat_039_N204_11]


title: MBC01


title: BLC_71


title: MBC43


title: MBC03


title: MBC30


title: MBC04


title: BLC_73


title: BLC_70


title: MBC12


title: RRBS Glioblastoma patient pat_034 Surg.1 FFPE [pat_034_N225_06]

value: Salzburg


title: MBC32


title: BLC_69


title: MBC07


title: RRBS Glioblastoma patient pat_033 Surg.2 FFPE [pat_033_N1322_08A]


title: MBC11


title: BLC_65


title: RRBS Glioblastoma patient pat_036 Surg.2 FFPE [pat_036_N861_08A]


title: RRBS Glioblastoma patient pat_032 Surg.2 FFPE [pat_032_N1404_13]


title: RRBS Glioblastoma patient pat_032 Surg.2 frozen [pat_032_N1404_13_f]

value: frozen


title: MBC38


title: RRBS Glioblastoma patient pat_031 Surg.2 FFPE [pat_031_N1267_07_rr]


title: BLC_78


title: BLC_79


title: Chimpanzee_RepliSeq

city: Pittsburgh

first: Yang

last: Yang

state: PA

address: 5000 Forbes Ave

department: Computational Biology

country: USA

institute: Carnegie Mellon University

description: Files named *.24k.norm.bw are imputed, smoothed and scaled processed data. human.R1.6k.bw is intermediate processed file with non-imputed, non-smoothed and non-scaled data. Human has two replicates R1 and R2. Raw files with ID 1108,1208 are for R2. Raw files with ID 0908, 1008 are for R1. For human only R2 is used for study and has imputed, smoothed and scaled processed data.

data_processing:
Library strategy: RepliSeq
Quality control for fastq files were performed with low quality reads trimed using fastqc.
The adapter sequences were removed using FASTX-Toolkit with parameters fastx_clipper -Q 33 -v -n -l 10. Reads were mapped to hg19 (panTro4,ponAbe2,nomLeu3,chlSab2 respectively, for reads from different species) with Bowtie2.
SAM to BAM format conversion, sorting of BAM file and removal of duplicate reads were performed using Samtools.BAM file was converted to BED file using bamToBed.
The reference genome hg19 were divided into 6kb bins and aligned to the genome of each of the other primate species to the human genome using liftOver, to obtain the orthologous region of each bin in human in the other primate species, with command: liftOver oldFile map.chain newFile unMapped -minMatch=0.5
Read count in each given genome window (orthologous region) was calculated and normalized by the total read count in replication timing (RT) early or late fraction on the whole genome, respectively.
Base 2 logarithm ratio of read count per million reads between the early and late fractions of RT within a genome window was calculated as the original RT signal of this window.
Missing data within gaps smaller than 48kb were imputed using nearest neighbor imputation
RT signals of each species were smoothed with wavelet smoothing using HMMSeg with window size of 24kb.
Orthologous regioins across five species where RT signals of five species are all available are extracted. RT signals in these regions are scaled to be [0,5] for early RT and [-5,0] for late RT for each species.
Genome_build: hg19
Genome_build: panTro4
Genome_build: ponAbe2
Genome_build: nomLeu3
Genome_build: chlSab2
Supplementary_files_format_and_content: bigWig files were generated with the value column represents the RT signal (log2 ratio of read count per million reads between the early and late fractions of RT within the orthologous region).  The region in each file is the aligned region in the reference genome (hg19). human.R1.6k.bw is intermediated processsed file for human replicate 1 of which the RT signals were non-imputed, non-smoothed and non-scaled.

organism: Pan troglodytes

source_name: Chimpanzee lymphocyte

growth_protocol: GM12878 growth condition is described at https://data.4dnucleome.org/biosources/4DNSRH17RFKR/,  https://data.4dnucleome.org/biosamples/4DNBS3I5U7BY/. For the lymphocyte cells of chimpanzee, orangutan, gibbon and green monkey, all suspensions (lymphocytes) were cultured using RPMI,10%FBS,1%P/S,1%Lglut.Cultures were maintained in T25 flasks at 37˚C, 5% CO2 and passaged to maintain adequate confluency.

tag: cell type

value: lymphocyte


title: RRBS Glioblastoma patient pat_032 Surg.1 frozen [pat_032_N1575_78_12_f]


title: RRBS Glioblastoma patient pat_027 Surg.1 frozen [pat_027_N886_12_f]


title: RRBS Glioblastoma patient pat_027 Surg.2 frozen [pat_027_N1154_55_13_f]


title: MBC28


title: RRBS Glioblastoma patient pat_024 Surg.2 frozen [pat_024_N1844_13_f]


title: RRBS Glioblastoma patient pat_024 Surg.1 frozen [pat_024_N1131_12_f]


title: MBC06


title: RRBS Glioblastoma patient pat_022 Surg.1 FFPE [pat_022_N719_07]


title: MBC44


title: BLC_72


title: RRBS Glioblastoma patient pat_025 Surg.1 FFPE [pat_025_N531_07]


title: RRBS Glioblastoma patient pat_022 Surg.2 FFPE [pat_022_N1518_07A]


title: BLC_66


title: Nifedipine-4

city: Kumamoto

first: Terumasa

last: Umemoto

address: 2-2-1, Honjo, Chuo-Ku

country: Japan

institute: Kumamoto University

library_source: transcriptomic

data_processing:
mRNA profile generated by deep sequencing using Illumina Next-Seq 500
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to mm10 whole genome using CLC genomic workbench v.11.0.0
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated by CLC genomic workbench v.11.0.0
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text files include read number and RPKM values for each Sample.

molecule: total RNA

organism: Mus musculus

source_name: hematopoietic stem cells

extract_protocol:
After 100 cells were sorted, first strand cDNA were synthesized followed by generating 2nd strand by minorly modified method that was previousely reported (Hiyashi et al. Nature Communication, 2018: 9) .
Using Nextera XT DNA sample Prep Kit (Illumina Inc., San Diego, CA), libraries were prepared by minorly modified method that was previousely reported (Hiyashi et al. Nature Communication, 2018: 9) .

tag: strain

tag: tissue

value: Bone marrow

tag: age

value: 8-10 weeks

tag: genotype

value: wild type

value: HSC

tag: treatment

value: Nifedipine


title: RRBS Glioblastoma patient pat_021 Surg.1 FFPE [pat_021_N1593_12]


title: Nifedipine-3


title: BLC_68


title: RRBS Glioblastoma patient pat_021 Surg.1 frozen [pat_021_N1592_95_12_f]


title: Nifedipine-2


title: RRBS Glioblastoma patient pat_021 Surg.2 frozen [pat_021_N845_13_f]


title: Nifedipine-1


title: Control-3

value: Control


title: RRBS Glioblastoma patient pat_019 Surg.3 FFPE [pat_019_N2491_14]

value: Klagenfurt


title: RRBS Glioblastoma patient pat_020 Surg.3 FFPE [pat_020_N203_13A]


title: BLC_62


title: Control-2


title: RRBS Glioblastoma patient pat_013 Surg.3 FFPE [pat_013_N1239_15]


title: RRBS Glioblastoma patient pat_012 Surg.3 FFPE [pat_012_N1220_15_I]

value: Linz

value: Yes


title: BLC_57


title: Control-1


title: BLC_54


title: 5-FU day4-4


title: RRBS Glioblastoma patient pat_012 Surg.2 FFPE [pat_012_N1219_15_I]

value: wildtype


title: 5-FU day4-3


title: RRBS Glioblastoma patient pat_012 Surg.1 FFPE [pat_012_N1218_15_III]

value: Glioblastoma patient


title: 5-FU day4-2


title: RRBS Glioblastoma patient pat_012 Surg.1 FFPE [pat_012_N1218_15_II]


title: BLC_41


title: 5-FU day4-1


title: Untreated-4

value: Untreated


title: BLC_56


title: RRBS Glioblastoma patient pat_011 Surg.3 FFPE [pat_011_N1201_15_II]

value: FFPE


title: Untreated-3


title: BLC_60

value: non medullary basal-like breast carcinoma


title: BLC_63


title: 64_Magyar_T

city: Gödöllő

first: Éva

last: Várallyay

address: 4 Szent-Györgyi Albert Street

department: Agricultural Biotechnology Institute

country: Hungary

institute: National Agricultural Research and Innovation Centre

description: poolled RNA from leaves

data_processing:
The quality check of the sequenced small RNA libraries was done by FastQC program
Trimming of raw reads was performed using the Trimmomatic program
Removing redundant reads using the BBmap Dedupe Program
Supplementary_files_format_and_content: trimmed redundant list, each read with its number of repeats

organism: Prunus armeniaca

source_name: leaf samples

extract_protocol:
CTAB method (Gambino, 2008: https://doi.org/10.1002/pca.1078 )
modified Illumina Trueseq small RNA kit protocol: https://doi.org/10.1007/978-1-4939-7683-6_9

tag: cultivar

value: Magyar kajszi

tag: source

value: stock nursery


title: BLC_38


title: BLC_53


title: 63_Pannonia_T

description: poolled RNA from leaves

value: Pannonia


title: RRBS Glioblastoma patient pat_011 Surg.3 FFPE [pat_011_N1201_15_I]

value: Salzburg


title: RRBS Glioblastoma patient pat_011 Surg.3 FFPE [pat_011_N1201_15_III]


title: BLC_61


title: Untreated-2

value: Bone marrow

value: 8-10 weeks


title: 62_Pannonia_I

description: poolled RNA from leaves

value: isolator house


title: BLC_64


title: Untreated-1

value: wild type

value: HSC


title: 61_Ligeti_T

description: poolled RNA from leaves

value: Ligeti orias


title: BLC_55


title: RRBS Glioblastoma patient pat_014 Surg.3 FFPE [pat_014_N2464_14A]

value: Klagenfurt

value: No


title: RRBS Glioblastoma patient pat_011 Surg.2 FFPE [pat_011_N1200_15_III]

value: wildtype

value: Yes


title: RRBS Glioblastoma patient pat_011 Surg.2 FFPE [pat_011_N1200_15_II]

value: Glioblastoma patient


title: BLC_52


title: BLC_40


title: RRBS Glioblastoma patient pat_011 Surg.1 FFPE [pat_011_N1199_15B_II]

value: FFPE


title: 60_Ligeti_I

description: poolled RNA from leaves


title: BLC_43

value: non medullary basal-like breast carcinoma


title: RRBS Glioblastoma patient pat_011 Surg.1 FFPE [pat_011_N1199_15_BIII]


title: 08_Wt-30

city: Seattle

first: Eliza

last: Peterson

state: WA

address: 401 Terry Ave N

institute: Institute for Systems Biology

data_processing:
Illumina RiboZero bacteria kit was used for rRNA depletion. Samples were sequenced on the NextSeq sequencing instrumetn in mid output 150 v2 flow cell. Paired-end 75 bp reads were checked for technical artifacts using FastQC following Illumina default quality filtering steps. Reads were further trimmed for quality scores and cleaned up for adapter contamination with cutadapt. Alignment of reads to reference was performed using STAR with modification of recommended parameters where appropriate. Read counts were collected by using HTSeq followed by normalization and analysis with DESeq2 R package.
Genome_build: Mycobacterium_bovis_bcg_str_pasteur_1173p2 version 20201
Supplementary_files_format_and_content: tab-delimited text file includes normalized counts for each sample

organism: Mycobacterium tuberculosis variant bovis BCG

source_name: bacterial culture

extract_protocol:
Duplicate cultures of BCG wild type and rBCGDBCG1419c in Sauton media, were grown as 50 mL cultures in 75 cm2 tissue culture flasks, at 37ºC, 5%CO2, for 10 days. The experiments were repeated 2 independent times to evaluate reproducibility of results. After harvesting, cells were frozen to complete the set of 3 experiments, and later, for each 1 mg of wet mass, 1ml Trizol was added, and lysis was performed using 0.4 mL of 0.1mm zirconia/silica beads by 3 cycles at full speed in a bead beater, including incubation in ice for 30s between cycles of beating, followed by 1 min of centrifugation at 13000 rpm, 4ºC. Trizol supernatant was transferred to a tube containing Heavy-Phase Lock Gel, and 300µl chloroform /isoamyl alcohol 24:1 were added, and vigorously shaken for 15 s, during 2 min. After tubes stood at room temperature for 10 min, a new centrifugation step was run at 13,000 rpm, room temperature, for 5 min, and the supernatant (volume ~540 µL) was transferred to a new 1.5 mL tube, to which 270 mL of 2-propanol and 270 µL of 3 M sodium acetate pH 5.2 were added, followed by mixing and incubation overnight at 4ºC. Next, we centrifuged at 13,000 rpm, 4ºC, 10 min, and the nucleic acids pellet was washed twice with 70% ethanol. After drying and dissolving in RNAse-free water, quantitation using a UV spectrophotometer was done, followed by in solution genomic DNA digestion using RQ1 DNase (Promega) following the manufacturer´s recommendation, and further clean-up was performed using RNeasy kit (Qiagen) according to their recommended protocol. RNA was eluted and quantitated, and 4 mg were used for library construction.
RNA libraries were prepared for sequencing using standard Illumina protocols

value: BCG Pasteur 1173P2

value: BCG Wt

value: 10 day culture


title: 11_Delta1419c-34

value: BCG delta1419c


title: LincU_Overexpression_ESC_rep1

type: RNA

city: Shanghai

first: Zeyidan

last: Jiapaer

address: No.1239, Siping Road

country: China

institute: Tongji University

description: Gene expression data from LincU overexpression mESCs

hyb_protocol: Array hybridization and wash was performed using GeneChip® Hybridization, Wash and Stain Kit (Cat#900720, Affymetrix, Santa Clara, CA, US)in Hybridization Oven 645 (Cat#00-0331-220V, Affymetrix, Santa Clara, CA, US)and Fluidics Station 450 (Cat#00-0079, Affymetrix, Santa Clara, CA, US) followed the manufacturer’s instructions

scan_protocol: Slides were scanned by GeneChip® Scanner 3000 (Cat#00-00212, Affymetrix, Santa Clara, CA, US) and Command Console Software 4.0 (Affymetrix, Santa Clara, CA, US) with default settings.

data_processing: The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.Raw data were normalized by MAS 5.0 algorithm, Affy packages in R.

source_name: Embryonic stem cells

label_protocol: Total RNA were amplified, labeled and purified by using GeneChip  3' IVT PLUS Reagent Kit (Cat#902416, Affymetrix, Santa Clara, CA, US) followed the manufacturer’s instructions to obtain biotin labeled cRNA

growth_protocol: The mESC line 46C was cultured in 15% serum + LIF (1,000 U/ml, Millipore) on a feeder

extract_protocol: RNA was prepared using the RNAiso (Takara) following the manufacturer's recommendations.

treatment_protocol: mESCs were harvested after removing the feeder,and RNA was harvested using Trizol reagent

tag: cell line

tag: genotype/variation

value: LincU overexpression


title: Ctrl_ESC_rep1

description: Gene expression data from Ctrl mESCs

value: Control


title: RRBS Glioblastoma patient pat_008 Surg.2 FFPE [pat_008_N1252_15A_I]

value: Salzburg


title: RRBS Glioblastoma patient ind_0 Surg.1 frozen [ind_0_N822_13_f]

value: frozen


title: BLC_37

tag: disease state


title: RRBS Glioblastoma patient pat_109 Surg.1 FFPE [pat_109_N1279_07]

tag: idh status

value: MedUni Vienna


title: 06_Delta1419c-27


title: BLC_36


title: RRBS Glioblastoma patient pat_020 Surg.2 FFPE [pat_020_N1317_12]

tag: center


title: RRBS Glioblastoma patient ind_0 Surg.2 frozen [ind_0_N458_14_f]

tag: sample group


title: 05-Delta1419c-25


title: RRBS Glioblastoma patient pat_110 Surg.1 FFPE [pat_110_N1020_10]

tag: surgery number


title: RRBS Glioblastoma patient pat_020 Surg.1 FFPE [pat_020_N1180_10]

tag: multisector


title: MUT-H-D4

city: Tianjin

first: Jiaxi

last: Zhou

state: Tianjin

address: 288# Nanjing Road, He ping district

institute: PUMC

description: MEIS2-/- H1 samples collected from day 4 after hematopoietic differentiation,

data_processing:
Illumina GA Pipeline v1.5 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence,then use BWA (Li, H. and Durbin, R., 2009) to map clean reads to genome reference and use Bowtie (Langmead B, et al., 2009) to gene reference
We provide genome alignment data in BAM format and recommend using IGV(Ietegrative Genomics Viewer) tool to visualize BAM file in different scales.
Genes expression level are quantified by a software package: RSEM(RNASeq by Expectation Maximization). RSEM (Li B and Dewey C N., 2011)
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample

source_name: MEIS2-/- H1 cell line

growth_protocol: H1 and MEIS2 deleted H1 were induced for stepwise hematopoietic differentiation. First, cells were cultured in Custom mTeSR1 medium supplemented with 50 ng/ml activinA (Peprotech) and 40 ng/ml BMP4 (Peprotech) for 2 days. Second, cells were incubated with Custom mTeSR1 medium supplemented with 40 ng/ml VEGF (Peprotech) and 50 ng/ml bFGF (Peprotech) for 2 days.

extract_protocol:
RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 3 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols


title: GreenMonkey_RepliSeq

organism: Chlorocebus aethiops

source_name: Green Monkey lymphocyte

value: lymphocyte


title: WT-H-D4

description: H1 samples collected from day 4 after hematopoietic differentiation,

source_name: H1 cell line


title: BLC_30


title: cBd

city: Wuhan

first: Hang

state: Hubei

address: 44 Xiaohongshan

institute: Wuhan Institute of Virology, Chinese Academy of Sciences

data_processing:
Primary data analysis, including base calling and quality scoring is, performed by real-time analysis or RTA on the instrument.
Raw sequenced reads were quality filtered and trimmed for Illumina-adapter contamination using fastq-mcf. Remaining reads were aligned to the genome of the S. aureus NCTC 8325. Minimal sequence matches of 30 nucleotides with a minimal sequence homology of 93.33% were included. Mapped reads were aligned and counted using Rockhopper.
Raw mapped read counts were normalized to reads per Kilo bases per Million (RPKM).
Genome_build: S. aureus NCTC 8325
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample

organism: Staphylococcus aureus

growth_protocol: S. aureus T23 was cultured in the presence and absence of 25 μg/ml V12CBD for 4 h at 37°C

extract_protocol:
Total RNA was extracted using RNeasy Protect Bacteria Midi Kit (Qiagen) following the manufacturer’s instructions. RNA integrity and quantity were checked using an Agilent 2100 Bioanalyzer (Agilent Technologies) and NanoDrop 2000 spectrophotometer (Thermo Scientific). The cDNA libraries were constructed using Illumina TruSeqTM RNA Sample Prep Kit (Illumina) according to the manufacturer’s instructions.
RNA libraries were prepared for sequencing using standard Illumina protocols

value: 4 h

tag: condition

value: with V12CBD


title: 01_Wt-19


title: Gibbon_RepliSeq

organism: Nomascus leucogenys

source_name: Gibbon lymphocyte

tag: cell type


title: 07_Wt-29

tag: strain


title: 02_Wt-21


title: bg

value: without V12CBD


title: BLC_33


title: BLC_31


title: BLC_25


title: RRBS Glioblastoma patient pat_110 Surg.2 FFPE [pat_110_N1916_12]

value: wildtype

value: No

tag: sample type


title: 12_Delta1419c-35

tag: age


title: H3K4me3_Etoposide

status: Public on Jun 19 2018

city: Albany

first: Morgan

middle: A

last: Sammons

state: NY

address: 1400 Washington Ave, Life Sciences 2075

department: Biological Sciences

institute: University at Albany - SUNY

data_processing:
Raw FastQ files were aligned to the hg19/ncbi37 genome assembly using bowtie2.
Regions of significant enrichment were called using MACSv2 with sonicated DNA input controls
Genome_build: ncbi37/hg19

source_name: IMR90 fetal lung fibroblasts

growth_protocol: IMR90 fibroblasts were grown in DMEM with 10% FBS at 3% oxygen.

extract_protocol:
For ChIP-seq, cells were crosslinked with formaldehyde (1% final) for 10min at room temperature, and harvested for sonication. Nuclei were extracted and chromatin was sheared to an average size of 200bp using a Diagenode Bioruptor. For RNA-seq, cells were harvested and PolyA+ RNA was isolated using the NEBNext Ultra RNA-seq Isolation Module. For ATAC-seq, cells were harvested, nuclei were prepped,and transposase was added for 30 minutes at 30C.
Sequencing libraries for ChIP-seq were constructed using the NEBNext Ultra kit as per manufacturer's recommended instructions.
Sequencing libraries for ATAC-seq were constructed using custom Nextera-compatible primers, from Nextera-adapted DNA fragments

treatment_protocol: Proliferating IMR90 fibroblasts were treated with etoposide

value: etoposide (100uM, 6hrs)

tag: passages

value: Passage # 30-35

tag: antibody


title: p53_Etoposide

tag: treatment


title: RNAP_Etoposide

value: RNAP


title: Histone_H3_Etoposide


title: H3K27ac_Etoposide


title: Input_Etoposide

value: Input


title: PolyA+ RNA-seq

treatment_protocol: Proliferating IMR90 fibroblasts were treated with etoposide.


title: H4K16ac_Etoposide


title: BLC_34

value: non medullary basal-like breast carcinoma


title: BLC_35


title: ATAC_Etoposide


title: CSF-control-NS00025376-batch3-rep1 [miRNA-seq]

city: Boston

first: Xianjun

last: Dong

state: MA

address: 60 Fenwood Rd

department: Neurology

institute: Brigham and Women's Hospital

description:
Small RNAseq for CSF sample
NC00007735
170111_7001411_0468_BH5WTFBCXY-PH0005-4061_GGCTAC_R1

data_processing:
Raw fastq files were first trimmed with the adaptor sequences using fastq-mcf and quality checked with fastqc. The remained reads were mapped to genome and quantified using miRDeep2.0.0.8, where the -W option in the quantifier.pl was used to weight read counts by their number of mapping.
The normalized expression RPM values of mature miRNA and miRNA precusor were extracted from miRNA_expressed.csv file.
According to miRDeep2, expression values are normalized by library size and multiplied by a factor of 1E6 which corresponds technically to counts per million mapped miRNA reads (RPM). The library size is the total number of reads mapping to miRNA precursors.
Differential expressed miRNAs between control and HD were called using SVA, after ajusting the known covariates incl. age and gender.
Genome_build: hg19
Supplementary_files_format_and_content: A matrix table of normalized expression level (RPM) of miRNAs in all 136 samples, in tab-separated format

growth_protocol: Not applicable

extract_protocol:
Using mirVana PARIS Kit (Life technologies Cat#: AM1556) for total RNA extraction following the manufaturer's protocol.
Using TruSeq Small RNA library Prep Kit (Illumina Cat#: RS-200-0012) for library construction following the manufaturer's protocol.

treatment_protocol: Not applicable

tag: diagnosis

value: control

tag: gender

value: male

tag: cap score

value: cont

tag: tissue

value: CSF

tag: molecule subtype

value: small RNA


title: CSF-HD-NS00024773-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007733
170120_7001411_0474_BCARCRANXX-lane3.sorted.TATAAT

value: HD

value: female

value: high


title: CSF-HD-NS00074404-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007725
170111_7001411_0468_BH5WTFBCXY-PH0005-4053_TAGCTT_R1

value: low


title: CSF-HD-NS00061665-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007723
170120_7001411_0474_BCARCRANXX-lane5.sorted.TAGCTT


title: CSF-HD-NS00073721-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007727
170120_7001411_0474_BCARCRANXX-lane8.sorted.TCGGCA


title: CSF-HD-NS00024372-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007737
170120_7001411_0474_BCARCRANXX-lane5.sorted.ATCACG


title: CSF-HD-NS00024777-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007731
170111_7001411_0468_BH5WTFBCXY-PH0005-4057_GATCAG_R1


title: CSF-control-NS00026203-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007721
170120_7001411_0474_BCARCRANXX-lane2.sorted.ACTGAT


title: BLC_32

tag: disease state


title: H3K4me1_Etoposide

tag: cell line


title: CSF-HD-NS00025165-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007715
170120_7001411_0474_BCARCRANXX-lane4.sorted.TAGCTT


title: CSF-HD-NS00057223-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007705
170113_7001411_0470_BH77WCBCXY-PH0005-4037_CAACTA_R1

value: med


title: CSF-control-NS00026315-batch1-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007713
160923_7001411_0433_BHVMLMBCXX-PH0005-4043_CAACTA


title: CSF-HD-NS00026574-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007701
170113_7001411_0470_BH77WCBCXY-PH0005-4033_CACTCA_R1


title: CSF-HD-NS00026334-batch2-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007675
161027_7001411_0442_AH2FFJBCXY-PH0005-4029_CCGTCC


title: CSF-HD-NS00060031-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007707
170113_7001411_0469_AH77TWBCXY-PH0005-4039_GTGGCC_R1


title: CSF-HD-NS00025440-batch2-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007673
161027_7001411_0442_AH2FFJBCXY-PH0005-4027_ATGTCA


title: CSF-HD-NS00025003-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007663
170113_7001411_0470_BH77WCBCXY-PH0005-4019_ACTGAT_R1


title: CSF-HD-NS00026576-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007677
170113_7001411_0470_BH77WCBCXY-PH0005-4031_CACGAT_R1


title: CSF-control-NS00103110-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007741
170113_7001411_0469_AH77TWBCXY-PH0005-4065_GGTAGC_R1


title: CSF-HD-NS00056221-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007667
170120_7001411_0474_BCARCRANXX-lane3.sorted.TCGAAG


title: CSF-HD-NS00061624-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007671
170113_7001411_0470_BH77WCBCXY-PH0005-4025_CACCGG_R1


title: CSF-HD-NS00053636-batch3-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007661
170113_7001411_0470_BH77WCBCXY-PH0005-4017_CCAACA_R1


title: CSF-HD-NS00025273-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007657
170120_7001411_0474_BCARCRANXX-lane7.sorted.CATTTT


title: CSF-HD-NS00026611-batch2-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007655
161027_7001411_0442_AH2FFJBCXY-PH0005-4013_GGTAGC


title: CSF-control-NS00073502-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007653
170120_7001411_0474_BCARCRANXX-lane7.sorted.CATGGC


title: CSF-HD-NS00025274-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007647
170113_7001411_0469_AH77TWBCXY-PH0005-4007_GTAGAG_R1


title: CSF-HD-NS00025126-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007717
170120_7001411_0474_BCARCRANXX-lane1.sorted.TCGGCA


title: CSF-HD-NS00073011-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007645
170113_7001411_0470_BH77WCBCXY-PH0005-4005_CAAAAG_R1


title: CSF-HD-NS00027005-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007641
170113_7001411_0470_BH77WCBCXY-PH0005-4001_ATTCCT_R1


title: CSF-HD-NS00024724-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007637
170120_7001411_0474_BCARCRANXX-lane8.sorted.TCATTC


title: CSF-HD-NS00025250-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007643
170120_7001411_0474_BCARCRANXX-lane2.sorted.ATGAGC


title: CSF-HD-NS00071773-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007631
170113_7001411_0469_AH77TWBCXY-PH0005-3993_CGTACG_R1


title: CSF-HD-NS00052646-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007665
170120_7001411_0474_BCARCRANXX-lane3.sorted.TCCCGA


title: CSF-control-NS00026174-batch1-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007635
160923_7001411_0433_BHVMLMBCXX-PH0005-3997_CAAAAG


title: CSF-HD-NS00025007-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007633
170113_7001411_0469_AH77TWBCXY-PH0005-3995_GAGTGG_R1


title: CSF-HD-NS00026454-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007627
170120_7001411_0474_BCARCRANXX-lane7.sorted.CAGGCG


title: CSF-HD-NS00071743-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007607
170120_7001411_0474_BCARCRANXX-lane8.sorted.TATAAT


title: CSF-HD-NS00026476-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007611
170120_7001411_0474_BCARCRANXX-lane5.sorted.CAGATC


title: CSF-HD-NS00024503-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007605
170120_7001411_0474_BCARCRANXX-lane3.sorted.CTATAC


title: CSF-HD-NS00026264-batch2-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007617
161027_7001411_0442_AH2FFJBCXY-PH0005-3983_GAGTGG


title: CSF-HD-NS00026553-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007625
170120_7001411_0474_BCARCRANXX-lane7.sorted.CACTCA


title: CSF-HD-NS00026074-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007621
170120_7001411_0474_BCARCRANXX-lane6.sorted.GGTAGC


title: CSF-HD-NS00026555-batch2-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007615
161027_7001411_0442_AH2FFJBCXY-PH0005-3981_AGTTCC


title: CSF-HD-NS00026452-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007623
170120_7001411_0474_BCARCRANXX-lane7.sorted.CCAACA


title: CSF-HD-NS00056240-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007603
170113_7001411_0469_AH77TWBCXY-PH0005-3971_GTTTCG_R1


title: CSF-control-NS00070555-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007575
170113_7001411_0470_BH77WCBCXY-PH0005-3965_CATTTT_R1


title: CSF-control-NS00026565-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007564
170120_7001411_0474_BCARCRANXX-lane5.sorted.CTTGTA


title: CSF-HD-NS00026761-batch3-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007570
170113_7001411_0470_BH77WCBCXY-PH0005-3960_ATGAGC_R1


title: CSF-HD-NS00061044-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007651
170120_7001411_0474_BCARCRANXX-lane5.sorted.GATCAG


title: CSF-HD-NS00024372-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007554
170120_7001411_0474_BCARCRANXX-lane1.sorted.TACAGC


title: CSF-HD-NS00026746-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007561
170120_7001411_0474_BCARCRANXX-lane5.sorted.CGATGT


title: RRBS Glioblastoma patient pat_109 Surg.2 FFPE [pat_109_N392_09]

tag: idh status

value: wildtype

tag: center

value: MedUni Vienna

tag: sample group

value: Glioblastoma patient

tag: surgery number

value: FFPE


title: CSF-control-NS00026470-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007563
170120_7001411_0474_BCARCRANXX-lane1.sorted.CTAGCT


title: RRBS Glioblastoma patient pat_008 Surg.1 FFPE [pat_008_N1250_15_III]

value: Salzburg

tag: multisector

value: Yes


title: CSF-HD-NS00027074-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007553
170120_7001411_0474_BCARCRANXX-lane3.sorted.TAATCG


title: CSF-HD-NS00026766-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007547
170120_7001411_0474_BCARCRANXX-lane4.sorted.ACTTGA


title: CSF-HD-NS00024645-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007543
170120_7001411_0474_BCARCRANXX-lane1.sorted.TATAAT


title: CSF-HD-NS00025351-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007613
170120_7001411_0474_BCARCRANXX-lane7.sorted.CAACTA


title: CSF-control-NS00025776-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007536
170120_7001411_0474_BCARCRANXX-lane1.sorted.GACGAC


title: CSF-HD-NS00026122-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007545
170120_7001411_0474_BCARCRANXX-lane8.sorted.GACGAC


title: CSF-HD-NS00024672-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007551
170113_7001411_0470_BH77WCBCXY-PH0005-3945_CATGGC_R1


title: CSF-HD-NS00026330-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007541
170120_7001411_0474_BCARCRANXX-lane8.sorted.TACAGC


title: CSF-HD-NS00024675-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007532
170120_7001411_0474_BCARCRANXX-lane6.sorted.GTAGAG


title: CSF-control-NS00070672-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007600
170120_7001411_0474_BCARCRANXX-lane1.sorted.CGGAAT


title: CSF-HD-NS00026153-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007526
170120_7001411_0474_BCARCRANXX-lane3.sorted.TCATTC


title: CSF-HD-NS00026555-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007531
170120_7001411_0474_BCARCRANXX-lane3.sorted.CTCAGA


title: CSF-HD-NS00027025-batch3-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007525
170111_7001411_0468_BH5WTFBCXY-PH0005-3925_GCCAAT_R1


title: CSF-HD-NS00027005-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007512
170120_7001411_0474_BCARCRANXX-lane8.sorted.TCCCGA


title: CSF-control-NS00026501-batch1-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007521
160923_7001411_0433_BHVMLMBCXX-PH0005-3921_CACCGG


title: CSF-HD-NS00026746-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007511
170120_7001411_0474_BCARCRANXX-lane6.sorted.GTGAAA


title: CSF-HD-NS00052636-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007507
170120_7001411_0474_BCARCRANXX-lane2.sorted.CAACTA


title: CSF-control-NS00066125-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007505
170120_7001411_0474_BCARCRANXX-lane2.sorted.CACTCA


title: CSF-HD-NS00024530-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007517
170120_7001411_0474_BCARCRANXX-lane2.sorted.CACCGG


title: CSF-HD-NS00026304-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007503
170120_7001411_0474_BCARCRANXX-lane3.sorted.TACAGC


title: CSF-HD-NS00053155-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007475
170120_7001411_0474_BCARCRANXX-lane5.sorted.GGCTAC


title: CSF-HD-NS00026564-batch2-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007501
161027_7001411_0442_AH2FFJBCXY-PH0005-3905_GTGAAA


title: CSF-control-NS00026757-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007472
170120_7001411_0474_BCARCRANXX-lane1.sorted.CTCAGA


title: CSF-control-NS00064756-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007473
170120_7001411_0474_BCARCRANXX-lane2.sorted.CATTTT


title: CSF-HD-NS00025221-batch1-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007534
160923_7001411_0433_BHVMLMBCXX-PH0005-3932_CCAACA


title: CSF-HD-NS00024675-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007467
170120_7001411_0474_BCARCRANXX-lane2.sorted.ATTCCT


title: CSF-HD-NS00027025-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007463
170120_7001411_0474_BCARCRANXX-lane8.sorted.TAATCG


title: CSF-HD-NS00025651-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007460
170120_7001411_0474_BCARCRANXX-lane2.sorted.CACGAT


title: CSF-control-NS00025771-batch1-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007462
160923_7001411_0433_BHVMLMBCXX-PH0005-3890_ACTGAT


title: CSF-HD-NS00026153-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007465
170120_7001411_0474_BCARCRANXX-lane4.sorted.GATCAG


title: CSF-HD-NS00025221-batch2-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007456
161027_7001411_0442_AH2FFJBCXY-PH0005-3886_GTAGAG


title: CSF-HD-NS00024535-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007451
170120_7001411_0474_BCARCRANXX-lane2.sorted.CATGGC


title: CSF-HD-NS00026202-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007445
170113_7001411_0469_AH77TWBCXY-PH0005-3877_GTCCGC_R1


title: CSF-HD-NS00061665-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007436
170120_7001411_0474_BCARCRANXX-lane6.sorted.GAGTGG


title: CSF-HD-NS00026740-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007441
170120_7001411_0474_BCARCRANXX-lane6.sorted.CGTACG


title: CSF-HD-NS00025270-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007453
170113_7001411_0470_BH77WCBCXY-PH0005-3883_CAGGCG_R1


title: CSF-HD-NS00027074-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007477
170120_7001411_0474_BCARCRANXX-lane5.sorted.GCCAAT


title: CSF-HD-NS00024645-batch1-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007411
160923_7001411_0433_BHVMLMBCXX-PH0005-3849_CACTCA


title: CSF-HD-NS00061044-batch2-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007425
161027_7001411_0442_AH2FFJBCXY-PH0005-3861_GTTTCG


title: CSF-HD-NS00063117-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007423
170120_7001411_0474_BCARCRANXX-lane5.sorted.ACTTGA


title: CSF-control-NS00026742-batch1-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007413
160923_7001411_0433_BHVMLMBCXX-PH0005-3851_ATTCCT


title: CSF-HD-NS00061657-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007427
170111_7001411_0468_BH5WTFBCXY-PH0005-3863_CTTGTA_R1


title: CSF-HD-NS00026477-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007407
170120_7001411_0474_BCARCRANXX-lane4.sorted.ATCACG


title: CSF-HD-NS00025126-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007421
170120_7001411_0474_BCARCRANXX-lane4.sorted.ACAGTG


title: CSF-HD-NS00026334-batch2-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007403
161027_7001411_0442_AH2FFJBCXY-PH0005-3843_GTCCGC


title: CSF-HD-NS00025003-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007417
170120_7001411_0474_BCARCRANXX-lane5.sorted.TTAGGC


title: CSF-HD-NS00026674-batch1-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007401
160923_7001411_0433_BHVMLMBCXX-PH0005-3841_CATGGC


title: CSF-HD-NS00061624-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007431
170120_7001411_0474_BCARCRANXX-lane8.sorted.TCGAAG


title: CSF-HD-NS00057213-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007377
170120_7001411_0474_BCARCRANXX-lane4.sorted.GGCTAC


title: CSF-HD-NS00026264-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007375
170120_7001411_0474_BCARCRANXX-lane4.sorted.CTTGTA


title: CSF-HD-NS00025710-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007450
170120_7001411_0474_BCARCRANXX-lane2.sorted.CAGGCG


title: CSF-HD-NS00026323-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007365
170120_7001411_0474_BCARCRANXX-lane7.sorted.CACGAT


title: CSF-HD-NS00026461-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007367
170120_7001411_0474_BCARCRANXX-lane3.sorted.GACGAC


title: CSF-HD-NS00026457-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007371
170120_7001411_0474_BCARCRANXX-lane1.sorted.TCATTC


title: CSF-HD-NS00026243-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007362
170120_7001411_0474_BCARCRANXX-lane6.sorted.GTGGCC


title: CSF-HD-NS00025250-batch1-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007357
160923_7001411_0433_BHVMLMBCXX-PH0005-3823_CACGAT


title: CSF-HD-NS00026463-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007373
170120_7001411_0474_BCARCRANXX-lane4.sorted.GCCAAT


title: CSF-HD-NS00026476-batch2-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007363
161027_7001411_0442_AH2FFJBCXY-PH0005-3827_GTGGCC


title: CSF-HD-NS00024456-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007355
170111_7001411_0468_BH5WTFBCXY-PH0005-3821_ACTTGA_R1


title: CSF-HD-NS00024530-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007353
170120_7001411_0474_BCARCRANXX-lane1.sorted.TCGAAG


title: CSF-HD-NS00036160-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007405
170120_7001411_0474_BCARCRANXX-lane4.sorted.TTAGGC


title: CSF-HD-NS00026557-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007341
170120_7001411_0474_BCARCRANXX-lane7.sorted.CACCGG


title: CSF-HD-NS00026120-batch2-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007347
161027_7001411_0442_AH2FFJBCXY-PH0005-3815_AGTCAA


title: CSF-HD-NS00026563-batch1-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007343
160923_7001411_0433_BHVMLMBCXX-PH0005-3811_CAGGCG


title: CSF-HD-NS00025507-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007345
170120_7001411_0474_BCARCRANXX-lane1.sorted.TCCCGA


title: CSF-control-NS00026174-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007337
170120_7001411_0474_BCARCRANXX-lane3.sorted.CGGAAT


title: CSF-HD-NS00026326-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007335
170120_7001411_0474_BCARCRANXX-lane3.sorted.CTAGCT


title: CSF-control-NS00026203-batch1-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007323
160923_7001411_0433_BHVMLMBCXX-PH0005-3795_ATGAGC


title: CSF-HD-NS00053636-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007333
170120_7001411_0474_BCARCRANXX-lane6.sorted.GTTTCG


title: CSF-HD-NS00024503-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007317
170120_7001411_0474_BCARCRANXX-lane4.sorted.CGATGT


title: CSF-HD-NS00026160-batch2-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007331
161027_7001411_0442_AH2FFJBCXY-PH0005-3801_CGTACG


title: CSF-HD-NS00026635-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007327
170120_7001411_0474_BCARCRANXX-lane4.sorted.CAGATC


title: CSF-HD-NS00025274-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007305
170120_7001411_0474_BCARCRANXX-lane5.sorted.ACAGTG


title: CSF-control-NS00025737-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007303
170120_7001411_0474_BCARCRANXX-lane1.sorted.TAATCG


title: CSF-HD-NS00026440-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007313
170120_7001411_0474_BCARCRANXX-lane5.sorted.TGACCA


title: CSF-HD-NS00025351-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007311
170111_7001411_0468_BH5WTFBCXY-PH0005-3785_ACAGTG_R1


title: CSF-HD-NS00025227-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007307
170111_7001411_0468_BH5WTFBCXY-PH0005-3783_CAGATC_R1


title: CSF-HD-NS00025165-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007351
170120_7001411_0474_BCARCRANXX-lane3.sorted.TCGGCA


title: CSF-HD-NS00026632-batch1-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007273
160923_7001411_0433_BHVMLMBCXX-PH0005-3771_CATTTT


title: CSF-HD-NS00052636-batch4-rep2 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007275
170120_7001411_0474_BCARCRANXX-lane4.sorted.TGACCA


title: CSF-HD-NS00024704-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007301
170120_7001411_0474_BCARCRANXX-lane2.sorted.CAAAAG


title: Orangutan_RepliSeq

description: Files named *.24k.norm.bw are imputed, smoothed and scaled processed data. human.R1.6k.bw is intermediate processed file with non-imputed, non-smoothed and non-scaled data. Human has two replicates R1 and R2. Raw files with ID 1108,1208 are for R2. Raw files with ID 0908, 1008 are for R1. For human only R2 is used for study and has imputed, smoothed and scaled processed data.

organism: Pongo pygmaeus

source_name: Orangutan lymphocyte

tag: cell type

value: lymphocyte


title: CSF-HD-NS00026761-batch3-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007321
170113_7001411_0469_AH77TWBCXY-PH0005-3793_GTGAAA_R1

tag: age


title: CSF-HD-NS00024473-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007315
170120_7001411_0474_BCARCRANXX-lane6.sorted.GTCCGC


title: CSF-HD-NS00052646-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007277
170120_7001411_0474_BCARCRANXX-lane2.sorted.CCAACA


title: CSF-control-NS00026354-batch4-rep1 [miRNA-seq]

description:
Small RNAseq for CSF sample
NC00007271
170120_7001411_0474_BCARCRANXX-lane1.sorted.CTATAC

value: control


title: Methanol_12h_rep.3

city: Tsukuba

first: Shigemi

last: Seo

state: Ibaraki

address: 2-1-2 Kannondai

department: Plant and Microbial Research Unit, Division of Plant and Microbial Sciences

institute: National Institute of Agrobiological Sciences

description: Gene expression after treatment with methanol for 12 h

hyb_protocol: 1.65 ug of Cy3-labeled cRNA was fragmented at 60°C for 30 minutes in a reaction volume of 55 ul containing 1x Agilent fragmentation buffer and 2x Agilent blocking agent following the manufacturers instructions. On completion of the fragmentation reaction, 55 ul of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to Agilent Oligo DNA microarray ver. 4.0 (catalog number G4136A) for 17 hours at 65C in a rotating Agilent hybridization oven.  After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 2 minute with 37C GE Wash Buffer 2 (Agilent), then dried immediately by brief centrifugation.

scan_protocol: Each slide was scanned immediately after washing on the Agilent DNA Microarray Scanner (G2505B) using one color scan setting for 1x44k array slides (Scan Area 61x21.6 mm, Scan resolution 5 um, Dye channel is set to Green and Green PMT is set to 100%).

data_processing: The scanned images were analyzed with Feature Extraction Software 9.1 (Agilent) using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities.  Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded. Fold-change data are included in the file Processed_data_Seo.xlsx.

organism: Solanum lycopersicum

source_name: Leaves, methanol, 12h, replicate 3

label_protocol: 500 ng RNA was labeled with cyanine-3 using the One-Color Low RNA Input Linear Amplification PLUS kit (Agilent) and the labeled cRNA was purified using RNeasy mini spin columns (Qiagen) according to the manufacturer's instructions.  Dye incorporation and cRNA yield were checked with the NanoDrop ND-1000 Spectrophotometer.

growth_protocol: Four-week-old tomato (Solanum lycopersicum cv. Micro-Tom) grown in pots containing disinfected soil under a cycle of 16 h of light and 8 h of dark at 25C were used.

extract_protocol: samples in each treatment were harvested in triplicate and used for total RNA extraction. Total RNA was extracted using TRIzol reagent (Invitrogen) and purified using RNA purification columns (RNeasy, Qiagen) according to the manufacturer's instructions.

treatment_protocol: Leaf discs (1 cm in diameter) from tomato leaves were floated on a solution containing 300 uM loliolide or 0.1% methanol as controls, incubated for adequate intervals at 25C under continuous light, and used for total RNA extraction.

tag: cultivar

value: Micro-Tom

value: Leaf


title: Loliolide_12h_rep.3

description: Gene expression after treatment with loliolide for 12 h

source_name: Leaves, loliolide, 12h, replicate 3


title: GNP cells, biological rep3

city: Memphis

first: David

last: Finkelstein

state: TN

address: 332 N. Lauderdale St.

institute: St Jude Children's Research Hospital

hyb_protocol: Biotinylated cRNA was hybridized to the Affymetrix array per manufacturer's instructions

scan_protocol: Standard HT TITAN scanning protocol

data_processing: The data were analyzed with Partek Genomics suite 6.6 and  in STATA/MP  14.2.

source_name: GNP

label_protocol: Biotinylated cRNA was prepared according to the standard Affymetrix protocol

growth_protocol: GNPs derived neurospheres were infected Lenti-dCas9-VP64-T2A-GFP and Lenti-U6-sgRNAs. Cells were then sorted by flow cytometry, expanded in culture, harvested, and suspended in Matrigel (BD Bioscience) before 2.5X105 cells were transplanted into the cerebral cortices of CD-1 nu/nu recipient mice.

extract_protocol: Fresh tumor chuck cells were used to extract RNA following Trizol (Thermo Fisher Scientific) protocol.

value: GNP cells

tag: strain/genotype

value: CD-1 nu/nu recipient mice


title: Loliolide_12h_rep.1

source_name: Leaves, loliolide, 12h, replicate 1


title: Myc tumor model , biological rep11

source_name: mouse tumor

value: tumor


title: Myc tumor model , biological rep9


title: Myc tumor model , biological rep6


title: Myc tumor model , biological rep10


title: Myc tumor model , biological rep7


title: scATAC-seq_RA_D4_409

city: Stanford

first: Zhana

last: Duren

state: CA

address: 318 Campus Drive

institute: Stanford university

description: Retinoic-acid induction

data_processing:
Reads are mapped to mm9 using the ATAC-seq pipeline described in https://github.com/kundajelab/atac_dnase_pipelines.
We used MACS2 to perfom peak calling on aligned sequencing reads aggregated across all cells.
Genome_build: mm9
Supplementary_files_format_and_content: test file showing read coverage  across peaks and cells

source_name: mouse embryonic stem cell

growth_protocol: mESC cells R1 were grown in mESC medium supplemented with 15% Knockout Serum Replacement and 1,000 U/ml of LIF. mESCs were differentiated using the handing drop method for 48 hours. Then, embryoid bodies (EBs) were collected for further treatment.

extract_protocol:
Single cells were captured and transposed with Tn5 using C1 fluidigm
scATAC-seq library were constructed by additional 13 cycles of PCR with dual index primers, followed by MinElute PCR purification.

treatment_protocol: EBs were placed in the well of a 6-well ultra-low attachment plate with fresh differentiation medium containing 0.5 mM retinoic acid (RA) for 4 days, with the medium being changed daily.

tag: treatment

value: retinoic acid for 4 days


title: scATAC-seq_RA_D4_410

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_408

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_407

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_414

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_413

description: Retinoic-acid induction


title: Methanol_12h_rep.2

source_name: Leaves, methanol, 12h, replicate 2


title: scATAC-seq_RA_D4_412

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_411

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_415

description: Retinoic-acid induction


title: Myc tumor model , biological rep5


title: Methanol_12h_rep.1

source_name: Leaves, methanol, 12h, replicate 1


title: Myc tumor model , biological rep3


title: Loliolide_12h_rep.2

source_name: Leaves, loliolide, 12h, replicate 2


title: scATAC-seq_RA_D4_406

description: Retinoic-acid induction


title: GNP cells, biological rep2


title: Myc tumor model , biological rep2


title: GNP cells, biological rep1


title: Myc tumor model , biological rep8


title: Myc tumor model , biological rep1


title: Myc tumor model , biological rep4


title: scATAC-seq_RA_D4_405

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_401

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_402

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_404

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_398

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_391

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_399

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_396

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_394

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_397

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_390

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_393

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_392

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_400

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_389

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_386

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_382

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_378

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_384

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_381

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_385

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_387

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_388

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_380

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_377

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_395

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_379

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_376

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_403

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_375

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_373

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_374

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_372

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_383

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_371

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_362

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_363

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_366

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_357

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_358

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_359

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_361

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_356

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_368

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_367

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_350

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_348

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_355

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_352

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_349

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_360

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_347

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_351

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_346

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_369

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_344

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_342

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_343

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_353

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_364

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_340

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_339

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_370

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_345

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_337

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_336

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_327

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_330

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_328

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_329

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_333

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_335

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_334

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_331

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_332

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_324

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_326

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_323

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_322

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_321

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_320

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_341

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_338

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_318

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_319

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_317

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_316

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_313

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_312

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_314

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_311

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_325

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_310

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_308

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_309

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_301

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_302

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_300

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_299

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_303

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_307

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_306

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_305

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_298

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_296

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_304

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_365

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_315

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_293

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_294

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_354

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_292

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_291

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_288

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_286

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_289

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_285

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_290

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_284

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_283

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_287

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_297

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_281

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_277

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_275

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_276

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_279

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_274

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_295

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_278

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_280

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_282

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_272

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_273

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_271

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_269

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_268

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_459

description: Retinoic-acid induction

data_processing:
Reads are mapped to mm10 using STAR and RSEM
Genome_build: mm10
Supplementary_files_format_and_content: text file showing read counts across peaks and cells

extract_protocol:
Single cells were captured and cDNA was transcripted using SMART-Seq V4 scripts on C1 fluidigm.
scRNA-seq library were constructed using Nextera XT library protocol.


title: scRNA-seq_RA_D4_463

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_462

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_464

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_457

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_458

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_461

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_267

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_266

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_460

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_456

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_454

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_264

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_452

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_262

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_453

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_451

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_261

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_263

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_260

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_450

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_448

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_259

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_258

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_447

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_455

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_270

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_257

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_256

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_253

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_252

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_444

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_442

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_441

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_445

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_255

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_443

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_254

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_265

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_251

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_439

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_250

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_449

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_438

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_437

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_248

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_247

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_435

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_246

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_446

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_245

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_434

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_433

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_432

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_244

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_243

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_242

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_430

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_431

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_241

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_239

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_429

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_238

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_440

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_436

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_249

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_240

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_428

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_427

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_426

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_424

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_423

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_234

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_237

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_425

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_422

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_421

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_232

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_233

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_231

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_420

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_419

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_229

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_228

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_415

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_417

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_416

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_225

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_236

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_413

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_224

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_222

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_412

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_235

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_227

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_410

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_221

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_220

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_414

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_223

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_219

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_230

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_418

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_226

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_409

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_218

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_407

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_406

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_408

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_217

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_216

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_403

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_215

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_214

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_404

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_411

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_213

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_212

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_402

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_401

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_210

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_209

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_400

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_208

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_399

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_397

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_207

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_396

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_395

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_205

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_393

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_394

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_405

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_204

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_206

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_203

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_391

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_392

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_202

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_199

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_211

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_388

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_389

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_390

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_387

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_201

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_398

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_200

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_196

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_385

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_386

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_198

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_197

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_195

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_194

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_383

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_193

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_382

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_380

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_381

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_379

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_378

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_191

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_188

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_189

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_187

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_376

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_185

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_377

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_384

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_375

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_186

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_373

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_374

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_182

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_183

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_180

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_181

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_372

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_192

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_371

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_179

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_178

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_367

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_176

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_366

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_368

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_370

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_369

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_190

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_365

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_184

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_175

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_364

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_174

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_363

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_361

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_360

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_172

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_170

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_171

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_173

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_358

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_357

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_359

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_169

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_168

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_177

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_356

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_167

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_166

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_355

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_162

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_351

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_161

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_362

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_163

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_165

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_349

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_354

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_164

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_159

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_350

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_160

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_157

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_156

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_158

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_346

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_347

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_344

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_345

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_155

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_153

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_154

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_342

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_341

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_152

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_151

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_353

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_352

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_147

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_340

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_149

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_348

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_339

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_148

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_337

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_336

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_334

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_146

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_145

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_338

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_331

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_343

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_333

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_332

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_142

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_143

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_330

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_329

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_328

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_138

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_139

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_327

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_137

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_335

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_136

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_326

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_325

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_144

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_324

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_135

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_134

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_323

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_322

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_321

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_133

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_141

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_131

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_132

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_140

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_130

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_319

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_318

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_128

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_129

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_317

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_126

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_127

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_316

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_125

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_314

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_124

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_313

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_122

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_311

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_312

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_121

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_123

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_120

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_309

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_308

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_117

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_320

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_310

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_118

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_307

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_305

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_315

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_304

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_116

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_306

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_114

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_303

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_119

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_113

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_302

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_301

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_112

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_111

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_115

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_300

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_110

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_299

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_109

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_108

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_298

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_107

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_296

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_295

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_106

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_104

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_294

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_293

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_292

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_103

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_105

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_291

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_102

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_100

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_101

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_288

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_290

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_99

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_98

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_287

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_97

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_297

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_96

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_285

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_284

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_94

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_95

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_283

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_93

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_91

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_282

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_92

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_281

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_280

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_278

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_88

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_90

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_289

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_89

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_286

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_279

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_87

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_84

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_276

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_275

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_274

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_86

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_85

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_273

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_83

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_271

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_81

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_272

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_270

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_269

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_80

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_277

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_77

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_266

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_267

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_76

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_78

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_79

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_263

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_75

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_262

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_264

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_261

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_72

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_74

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_73

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_82

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_259

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_71

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_69

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_68

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_258

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_257

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_67

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_66

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_268

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_265

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_65

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_255

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_254

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_253

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_63

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_252

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_260

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_61

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_251

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_59

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_250

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_62

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_60

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_256

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_246

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_70

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_56

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_58

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_247

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_55

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_249

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_57

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_245

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_243

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_54

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_244

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_248

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_53

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_64

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_241

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_52

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_51

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_239

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_50

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_49

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_238

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_48

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_236

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_47

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_46

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_45

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_235

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_234

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_44

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_232

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_43

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_233

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_42

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_229

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_40

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_231

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_228

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_41

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_230

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_39

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_242

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_227

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_38

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_240

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_37

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_36

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_226

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_237

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_35

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_224

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_33

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_223

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_222

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_32

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_31

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_221

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_220

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_29

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_27

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_30

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_218

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_28

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_25

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_214

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_219

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_23

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_213

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_26

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_225

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_215

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_24

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_212

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_211

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_22

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_21

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_210

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_20

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_34

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_217

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_209

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_19

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_18

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_17

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_206

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_208

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_207

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_16

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_205

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_204

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_14

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_13

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_202

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_11

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_12

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_203

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_10

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_200

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_199

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_198

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_9

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_8

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_197

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_7

description: Retinoic-acid induction