title: CBL0137 treatment, biological replicate 2


title: CBL0137 treatment, biological replicate 1

status: Public on Feb 12 2021

type: RNA

city: Sydney

first: Chi Nam Ignatius

last: Pang

state: NSW

address: School of Biotechnology and Biomolecular Sciences, UNSW Australia

department: The NSW Systems Biology Initiative

country: Australia

institute: The University of New South Wales

hyb_protocol: As per Affymetrix protocol

scan_protocol: As per Affymetrix protocol

data_processing: The probes from the Clariom D microarray were assigned to Ensembl Genes using custom chip definition file (CDF) clariomdhumanhsensgcdf (version 22.0.0) from (http://mbni.org/customcdf/22.0.0/ensg.download/clariomdhumanhsensgcdf_22.0.0.tar.gz) (PMID 16284200). The array data were analysed using Bioconductor/R andhe Robust MultiArray (RMA) pipeline (PMID 21070630), and batch effects were removed using the remove unwanted variation (ruv) R library and the RUVIII function (PMID 31114909) with one unwanted factor (k=1).

label: biotin

molecule: total RNA

organism: Homo sapiens

source_name: DIPG neurospheres, treated with CBL0137

label_protocol: As per Affymetrix protocol

growth_protocol: HSJD-DIPG007 cells were cultured in DMEM/F12 and Neurobasal media (1:1) supplemented with HEPES, non-essential amino acids, antibiotic/antimycotic, pyruvate, glutamax, heparin, B27, human EGF, human FGF, PDGF-AA and PDGF-BB for 72 hours to form neurospheres.

extract_protocol: RNA was extracted using the RNeasy extraction kit (Qiagen; Cat No./ID: 74106) according to the manufacturer’s instruction.

treatment_protocol: 72 hours after incubation, cells were treated for 24 hours with DMSO, 0.6μM CBL0137, 20nM panobinostat and the combination of the two agents.

tag: cell line

tag: cell type

value: Diffuse intrinsic pontine glioma (DIPG) neurospheres

tag: treatment


title: DpnII Hi-C on coccoids cells clone D7 replicate 1

type: SRA

city: Worcester

first: Job

last: Dekker

state: Massachusetts

address: 368 Plantation Street

country: USA

institute: University of Massachusetts Medical School

description:
symbiodinium microadriaticum whole organism from Gulf of Aqaba near Asia.
processed data file:
Dino-HiC-cD7plus-R1.smic1.0.mapq_30.1000.mcool
Dino-HiC-cD7plus-R1.smic1.1N.mapq_30.1000.mcool
HiC-cDplus.smic1.0.mapq_30.1000.mcool
HiC-cDplus.smic1.1N.mapq_30.1000.mcool
HiC-Dplus.smic1.0.mapq_30.1000.mcool
HiC-Dplus.smic1.1N.mapq_30.1000.mcool

library_source: genomic

data_processing:
In situ Hi-C  FASTQ sequencing files were mapped to Smic1.0 and Smic1.1
publicly available distiller-nf mapping pipeline (https://github.com/mirnylab/distiller-nf) and downstream
analysis tools pairtools (https://github.com/mirnylab/pairtools) and cooltools
(https://github.com/mirnylab/cooltools).
Genome_build: Smic1.0 and Smic1.1
Supplementary_files_format_and_content: multitires cooler files '.mcool' of all interactions

molecule: genomic DNA

organism: Symbiodinium microadriaticum

source_name: whole organism

growth_protocol: Cells were grown in F/2 medium with antibiotics cocktail as described in detail in supplemental methods.

extract_protocol:
For each In situ Hi-C library ~20 million cells were crosslinked.
In situ Hi-C was performed as described in detail in supplemental methods.

treatment_protocol: No special treatment

tag: protocol

value: In situ Hi-C

tag: enzyme

value: DpnII

tag: strain

value: Bigelow Laboratory for Ocean Sciences  (CCMP2467-SC)


title: JE2_pH5-5_18-04-2019_S39_R1_001

city: Zurich

first: Markus

last: Huemer

state: Zurich

address: Sternwartstrasse 14, Lab F39

department: Division of Infectious Diseases and Hospital Epidemiology

country: Switzerland

institute: University Hospital Zurich

library_source: transcriptomic

data_processing:
Illumina NextSeq 500 system was used for RNA sequencing with read length of 75bp.
Quality control of the sequencing reads was done with FastQC v0.11.8 using the default parameters.
Reference genome S. aureus USA300 FPR3757 was indexed using STAR 2.6.0c, with parameters --runMode genomeGenerate, --genomeSAindexNbases 8, --sjdbGTFfeatureExon CDS, --sjdbOverhang 80, --genomeFastaFiles USA300_FPR3757.fasta, --sjdbGTFfile USA300_FPR3757.gtf.
Reads were aligned to the indexed reference genome and counted into annotated genes using the software STAR 2.6.0c . The following parameters were used: --runMode alignReads, --twopassMode Basic, --outSAMtype BAM SortedByCoordinate, --quantMode GeneCounts, --sjdbGTFfile USA300_FPR3757.gtf, --sjdbGTFfeatureExon CDS.
Raw read counts were imported to DESeq2 1.24.0, which facilitated an internal normalization and tested the transcripts for differential expression between conditions.
Genome_build: GenBank CP000255.1
Supplementary_files_format_and_content: Tab-delimited text file showing read counts per gene in each condition

molecule: polyA RNA

organism: Staphylococcus aureus

source_name: Laboratory bacterial strain

growth_protocol: S. aureus was inoculated into defined pH media (pH 5.5 and 7.4) at a starting OD600 of 0.2 and incubated at 37°C and 5% CO2 for three days. DMEM was supplemented with 10% FBS and 4 mM of L-glutamine.

extract_protocol:
Bacteria were collected by centrifugation, washed twice with PBS, and total RNA was isolated using the RNeasy Mini kit (Qiagen) following the manufactures protocol
Vertis Biotechnologie AG, Germany, carried out the rRNA depletion, RNA fragmentation, strand-specific cDNA library preparation, and Illumina NextSeq500 single-read sequencing

treatment_protocol: DMEM was buffered with either 50mM HEPES for pH 7.4 or with 0.077 mM Na2HPO4 and 0.0614 mM citric acid for pH 5.5.

tag: ph condition

tag: replicate

value: Replicate 3


title: Exp-13D-500nM-JQ1-4h-B

city: Boston

first: Ricardo

last: de Matos Simoes

state: MA

address: 450 Brookline AVE

department: Medical Oncology

institute: Dana-Farber Cancer Institute

data_processing:
RNA sequencing using Illumina NextSeq 500 Next Gen at the Molecular Biology Core Facility (Dana-Farber Cancer Institute)
Differential gene expression analysis for the RNA-seq data using the bioconductor DEseq2 package
Raw counts for all samples were generated using STAR (Dobin et al., 29, 1, 15-21, Bioinformatics 2012)
Genome_build: hg38
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every sample

source_name: Multiple Myeloma

growth_protocol: MM.1S cells were seeded in 6-well plates (2x106/well) and cultured overnight prior to treatment.

extract_protocol:
RNA was extracted from the tumor cells using RNA extraction kit (Qiagen) and RNA sequencing was performed using Illumina NextSeq 500 Next Gen
RNA libraries were prepared for sequencing using standard Illumina protocols

treatment_protocol: After 12h, dBET6 (100nM or 500nM) or JQ1 (500nM) was added to the cultures, then cells were harvested after 4h or 18h and immediately frozen (-80ºC). In order to assess transcriptional modulation by dBET6, RNA was extracted as previously described (Matthews et al., 2015) and analyzed using next-generation sequencing by the Molecular Biology Core Facilities (MBCF, DFCI). All samples and corresponding untreated controls were measured in triplicates and sequenced with technical replication for each sample.

value: 500nM JQ1

tag: time point


title: DpnII Hi-C on coccoids cells clone D4 replicate 3

description:
symbiodinium microadriaticum whole organism from Gulf of Aqaba near Asia.
processed data file:
Dino-DSG-HiC-cD4plus-R1.smic1.0.mapq_30.1000.mcool


title: JE2_pH5-5_09-04-2019_S38_R1_001

value: Replicate 2


title: 11V_snATAC

city: Copenhagen

first: Tune

middle: Hannes

last: Pers

address: Blegdamsvej 3B

department: Novo Nordisk Foundation Center for Basic Metabolic Research

country: Denmark

institute: University of Copenhagen

description:
snATAC_unnormdata.csv.gz
snATAC_normdata.csv.gz
snATAC_metadata.csv.gz

data_processing:
Read alignment of the snRNA-seq data: Raw sequencing reads were processed using the 10x Genomics Cell Ranger version 3.0 pipeline and aligned with default parameters. For each sample, a UMI count matrix was generated using both exonic and intronic reads.
Read alignment of the snATAC-seq data: Raw sequencing reads were processed using the Cell Ranger ATAC version 1.1.0 pipeline and aligned with default parameters.
Quality control of the snRNA-seq data: Cells with a mitochondrial RNA content >5% were discarded and doublets were removed using DoubletFinder version 2.0.0. Furthermore, cells that could not confidently be assigned to a cluster were removed using a multi-step procedure. See article for details.
Quality control of the snATAC-seq data: Fragments that were uniquely mapped (mapping quality score>30) and with proper length (50 bp<length<1000 bp) were kept. Based on visual inspection, high-quality cells were detected based on the number of unique fragments and fragments in promoter ratio (selecting cells with 1,000<unique fragments<100,000; 0.15<fragments in promoter ratio<0.6). Furthermore, cells that could not confidently be assigned to a cluster were removed using a multi-step procedure. See article for details.
Peak calling: Cells belonging to the same cluster were aggregated, and accessible peaks were called clusterwise using MACS2 version 2.2.6.
Normalization of the snRNA-seq data: Counts for each cell were normalized by the total gene expression of that cell, multiplied by 10,000 and log-transformed.
Normalization of the snATAC-seq data: Counts were normalized using term-frequency inverse-document-frequency normalization.
Genome_build: mm10
Supplementary_files_format_and_content: snRNA_unnormdata.csv.gz: comma-separated, gzip archived. Content: gene*cell matrix containing the filtered gene expression counts.
Supplementary_files_format_and_content: snRNA_normdata.csv.gz: comma-separated, gzip archived. Content: gene*cell matrix containing the filtered and normalized gene expression counts.
Supplementary_files_format_and_content: snRNA_metadata.csv.gz: comma-separated, gzip archived. Content: snRNA-seq metadata. Columns: nCount_RNA, nFeature_RNA, sample, percent.mito, percent.ribo, cell.type, neuronal.subtype.
Supplementary_files_format_and_content: snATAC_unnormdata.csv.gz: comma-separated, gzip archived. Content: peak*cell matrix containing the filtered peak counts.
Supplementary_files_format_and_content: snATAC_normdata.csv.gz: comma-separated, gzip archived. Content: peak*cell matrix containing the filtered and normalized peak counts.
Supplementary_files_format_and_content: snATAC_metadata.csv.gz: comma-separated, gzip archived. Content: snATAC-seq metadata. Columns: nCount_peaks, nFeature_peaks, nCount_activity, nFeature_activity, sample, cell.type, neuronal.subtype.

organism: Mus musculus

source_name: Single-nucleus ATAC-sequencing of the DVC

growth_protocol: Animals were single-housed with ad libitum access to 60% HFD (#12492 Research Diets) and tap water in controlled environment (temperature 22 ± 2°C; relative humidity 50 ± 10%; 12-hour light/dark cycle).

extract_protocol:
Libraries were prepared using the 10x Genomics Chromium single-cell ATAC reagent kits. Libraries were sequenced on an Illumina NovaSeq 6000.
Nuclei were purified with reagents from the Nuclei Pure Prep Nuclei Isolation Kit (Sigma-Aldrich, NUC-201). See article for details.

treatment_protocol: Amimals were dosed with saline once daily, subcutaneous, for seven days. Animals were terminated by decapitation under CO2/O2 anaesthesia the day after the last dose.

tag: Sex

value: male

tag: age

value: 26 weeks

tag: number of mice

tag: tissue

value: DVC

tag: rna population


title: JE2_pH5-5_26-03-2019_S37_R1_001

value: Replicate 1


title: 10V_snATAC


title: DpnII Hi-C on coccoids cells clone D4 replicate 2

description:
symbiodinium microadriaticum whole organism from Gulf of Aqaba near Asia.
processed data file:
Dino-HiC-cD4plus-R2.smic1.0.mapq_30.1000.mcool
Dino-HiC-cD4plus-R2.smic1.1N.mapq_30.1000.mcool
HiC-cDplus.smic1.0.mapq_30.1000.mcool
HiC-cDplus.smic1.1N.mapq_30.1000.mcool
HiC-Dplus.smic1.0.mapq_30.1000.mcool
HiC-Dplus.smic1.1N.mapq_30.1000.mcool


title: 37W_snRNA

description:
snRNA_unnormdata.csv.gz
snRNA_normdata.csv.gz
snRNA_metadata.csv.gz

source_name: Single-nucleus RNA-sequencing of the DVC

extract_protocol:
Libraries were prepared using the 10x Genomics Chromium single-cell 3' reagent kits (version 2). Libraries were sequenced on an Illumina NovaSeq 6000 platform.
Nuclei were purified with reagents from the Nuclei Pure Prep Nuclei Isolation Kit (Sigma-Aldrich, NUC-201). See article for details.

treatment_protocol: Amimals were weight-matched to the semaglutide-administered group. Animals were terminated by decapitation under CO2/O2 anaesthesia.

value: nuclear RNA


title: Exp-13D-500nM-dBET6-18h-B

value: 500nM dBET6


title: Exp-13D-500nM-dBET6-4h-A


title: JE2_pH7-4_09-04-2019_S35_R1_001


title: DpnII Hi-C on coccoids cells clone D4 replicate 1

description:
symbiodinium microadriaticum whole organism from Gulf of Aqaba near Asia.
processed data file:
Dino-HiC-cD4plus-R1.smic1.0.mapq_30.1000.mcool
Dino-HiC-cD4plus-R1.smic1.1N.mapq_30.1000.mcool
HiC-cDplus.smic1.0.mapq_30.1000.mcool
HiC-cDplus.smic1.1N.mapq_30.1000.mcool
HiC-Dplus.smic1.0.mapq_30.1000.mcool
HiC-Dplus.smic1.1N.mapq_30.1000.mcool


title: Exp-13D-500nM-dBET6-18h-A


title: DpnII Hi-C on coccoids cells clone D3 replicate 2

description:
symbiodinium microadriaticum whole organism from Gulf of Aqaba near Asia.
processed data file:
Dino-HiC-cD3plus-R2.smic1.0.mapq_30.1000.mcool
Dino-HiC-cD3plus-R2.smic1.1N.mapq_30.1000.mcool
HiC-cDplus.smic1.0.mapq_30.1000.mcool
HiC-cDplus.smic1.1N.mapq_30.1000.mcool
HiC-Dplus.smic1.0.mapq_30.1000.mcool
HiC-Dplus.smic1.1N.mapq_30.1000.mcool


title: 27W_snRNA


title: Exp-13D-100nM-dBET6-4h-B

value: 100nM dBET6


title: DpnII Hi-C on coccoids cells clone D3 replicate 1

description:
symbiodinium microadriaticum whole organism from Gulf of Aqaba near Asia.
processed data file:
Dino-HiC-cD3plus-R1.smic1.0.mapq_30.1000.mcool
Dino-HiC-cD3plus-R1.smic1.1N.mapq_30.1000.mcool
HiC-cDplus.smic1.0.mapq_30.1000.mcool
HiC-cDplus.smic1.1N.mapq_30.1000.mcool
HiC-Dplus.smic1.0.mapq_30.1000.mcool
HiC-Dplus.smic1.1N.mapq_30.1000.mcool


title: JE2_pH7-4_26-03-2019_S34_R1_001


title: 20W_snRNA


title: 34W_snRNA


title: DpnII Hi-C on coccoids cells clone D1 replicate 2

description:
symbiodinium microadriaticum whole organism from Gulf of Aqaba near Asia.
processed data file:
Dino-HiC-cD1plus-R2.smic1.0.mapq_30.1000.mcool
Dino-HiC-cD1plus-R2.smic1.1N.mapq_30.1000.mcool
HiC-cDplus.smic1.0.mapq_30.1000.mcool
HiC-cDplus.smic1.1N.mapq_30.1000.mcool
HiC-Dplus.smic1.0.mapq_30.1000.mcool
HiC-Dplus.smic1.1N.mapq_30.1000.mcool


title: Exp-13D-100nM-dBET6-18h-B


title: 16W_snRNA

extract_protocol:
Libraries were prepared using the 10x Genomics Chromium single-cell 3' reagent kits (version 2). Libraries were sequenced on an Illumina NextSeq 500 platform.
Nuclei were purified with reagents from the Nuclei Pure Prep Nuclei Isolation Kit (Sigma-Aldrich, NUC-201). See article for details.


title: JE2_pH7-4_18-04-2019_S36_R1_001


title: 7W_snRNA


title: Exp-13D-100nM-dBET6-18h-A


title: CI1149_pH5-5_09-04-2019_S32_R1_001

source_name: Bacteria from patient pus

value: Clinical isolate CI-1149


title: CI1149_pH5-5_26-03-2019_S31_R1_001


title: Dino-PacBio-cD7plus-R1

description: symbiodinium microadriaticum whole organism from Gulf of Aqaba near Asia.

data_processing:
Library strategy: Genomic DNA extraction for PacBio Sequencing
PacBio data is used for gapclosing for Smic1.0
publicly available LR_Gapcloser (https://github.com/CAFS-bioinformatics/LR_Gapcloser)
Genome_build: Smic1.0 and Smic1.1
Supplementary_files_format_and_content: fasta file Smic1.1

source_name: Genomic DNA extraction of coccoids cells clone D7 replicate 1 for PacBio sequencing

extract_protocol:
QIAGEN DNeasy Plant Mini Kits
PacBio Express 2.0 Kit according to the manufacturer’s instructions as described in detail in supplemental methods.

value: Genomic DNA extraction

value: Symbiodinium microadriaticum Bigelow Laboratory for Ocean Sciences  (CCMP2467-SC)


title: Exp-13D-100nM-dBET6-4h-A


title: CI1149_pH5-5_18-04-2019_S33_R1_001


title: 40S_snRNA

treatment_protocol: Amimals were dosed with semaglutide once daily, subcutaneous, for seven days. Dosing of the animals was gradually up-titrated (0.02, 0.04, 0.1 mg/kg). Animals were terminated by decapitation under CO2/O2 anaesthesia the day after the last dose.


title: Hsap_HEK293T_42C_1h

city: Planegg

first: Danny

last: Nedialkova

state: Bayern

address: Am Klopferspitz 18

country: Germany

institute: Max Planck Institute for Biochemistry

description:
Hsap_anticodon_counts.csv
Hsap_isodecoder_counts.csv

data_processing:
Read demultiplexing and adapter trimming performed with cutadapt v2.5, where bases were quality trimmed from 5' and 3' ends using a phred score cutoff of 30. Only trimmed reads were retained, and reads sorter than 10 bases were discarded. An additional round of trimming was performed to remove 5’-RN nucleotides introduced by circularization from the RT primer.
Reads were processed with the mim-tRNAseq computational pipeline using the common parameters --snp-tolerance --cluster --min-cov 2000 --max-mismatches 0.1 --cca-analysis --remap --remap-mismatches 0.075 and unique options for --control-condition and --cluster-id (0.90 for budding yeast, 0.95 for fission yeast and Drosophila, and 0.97 for human samples). HEK293T samples were addiitonally aligned to a collapsed non-redundant reference with Bowtie (parameters -m 1 -v3 --best --strata) or Bowtie 2 in local mode (--local -k 100 --very-sensitive --ignore-quals --np 5 --reorder).
Genome_build: S288c, 972h, dm6, hg19

source_name: HEK293T cells

growth_protocol: S. cerevisiae cells (BY4741 wild-type, trm7∆, trm1∆, and trm10∆ Euroscarf) were grown in yeast extract-peptone-dextrose (YPD) medium. D. melanogaster BG3-c2 cells were cultured at 26℃ in Schneider’s Drosophila Medium (Gibco) supplemented with 10% fetal calf serum, 1% penicillin/streptomycin, and 10 µg/ml human insulin. HEK293T cells were grown at 37℃ in DMEM supplemented with 10% fetal bovine serum (Sigma Aldrich). The kucg2 human induced pluripotent stem cell line (obtained from HipSci24) was cultured at 37oC in mTeSR1 (STEMCELL Technologies).

extract_protocol:
RNA from Drosophila BG3-c2, HEK293T, and human iPS cells was isolated with Trizol (Sigma Aldrich) according to the manufacturer’s instructions. For total RNA isolation from yeast, frozen cells were resuspended in 100 mM sodium acetate pH=4.5, 10 mM EDTA pH=8.0, 1% SDS (1 ml per 50 OD600 units). An equal volume of hot acid phenol (pH=4.3) was added, and the cell suspension was vortexed vigorously followed by incubation at 65℃ for 5 min with intermittent mixing. After addition of 1/10 volume 1-Bromo-3-chloropropane (BCP, Sigma Aldrich), samples were centrifuged at 10,000 x g for 5 min and the aqueous phase was transferred to a new tube. Following an additional round of hot acid phenol/BCP and a round of BCP only extraction, RNA was precipitated from the aqueous phase by the addition of 3 volumes of ethanol. For RNA isolation from yeast under conditions that preserve tRNA charging, frozen cells were resuspended in ice-cold 100 mM sodium acetate pH=4.5, 10 mM EDTA pH=8.0. One volume of cold acid phenol (pH=4.3) was added and cells were lysed with glass beads. One-tenth volume of BCP was then added and the samples were centrifuged at 10,000 x g/4℃ for 5 min, followed by a second round of cold phenol-BCP and one round of BCP-only extraction. RNA was ethanol-precipitated from the aqueous phase and pellets were washed in 80% ethanol containing 50 mM sodium acetate, pH=4.5, briefly air-dried, and resuspended in 50 mM sodium acetate pH=4.5, 1 mM EDTA pH=8.0. Two synthetic standards corresponding to E.coli tRNALys(UUU) with intact 3’-CCA (5’-GGGTCGTTAGCTCAGTTGGTAGAGCAGTTGACTTTTAATCAATTGGTCGCAGGTTCGAATCCTGCACGACCCACCA-3’) or a 3’-CC (5’- GGGTCGTTAGCTCAGTTGGTAG AGCAGTTGACTTTTAATCAATTGGTCGCAGGTTCGAATCCTGCACGACCCACC-3’) were added to 5 - 10 µg of total RNA in a 3:1 molar ratio at 0.06 pmol/µg, followed by incubation at 37oC in 50 mM Tris-HCl pH=9.0 to deacylate tRNAs. Deacylation was omitted for samples subjected to oxidation and β-elimination. Total RNA was subsequently dephosphorylated and purified by ethanol precipitation in 0.3M sodium acetate pH=4.5 with 25 µg glycogen (Ambion) as a carrier. RNA was resolved on a denaturing 10% polyacrylamide/7M urea/1xTBE gel and species migrating at the size range of mature tRNAs (60 – 90 nt) were excised and gel slices were crushed with disposable pestles. Following addition of 400 µl gel elution buffer (0.3M sodium acetate pH=4.5, 0.25% SDS, 1mM EDTA pH=8.0), the gel slurry was incubated at 65℃ for 10 min, snap-frozen on dry ice, and thawed at 65℃ for 5 min. RNA was eluted overnight at room temperature with continuous mixing. Gel pieces were removed with Costar Spin-X centrifuge tube filters and RNA was recovered from the flow-through by ethanol precipitation in the presence of 25 µg of glycogen.
50 to 200 ng of gel-purified tRNA was ligated to one of four adapters with distinct barcodes.Ligation was performed for 3 hours at 25°C in a 20-µl reaction volume containing pre-adenylated adapter and RNA substrate in a 4:1 molar ratio, 1x T4 RNA Ligase Reaction Buffer, 200 U of T4 RNA ligase 2 (truncated KQ; NEB), 25% PEG 8000, and 10 U SUPERase In (Ambion). Ligation products were separated from excess adapter on denaturing 10% polyacrylamide/7M urea/1xTBE gels. Bands migrating at 95-125 nt were excised and ligation products were recovered from crushed gel slices. Reverse transcription reactions contained 125 nM adapter-ligated tRNA pool, 125 nM primer(5’pRNAGATCGGAAGAGCGTCGTGTAGGGAAAGAG/iSp18/GTGACTGGAGTTCAGACGTGTGCTC-3’) and 500 nM TGIRT (InGex) in a final volume of 20 µl. Reactions were performed in 50 mM Tris-HCl pH=8.3, 75 mM KCl, 3 mM MgCl2, 5 mM DTT (from a freshly made 100 mM stock), and 10 U SUPERase In. After TGIRT addition, reactions were pre-incubated at 42℃ for 10 min, initiated by addition of dNTPs to a final concentration of 1.25 mM, and incubated at 42℃ for 16 hours in a Themrocycler. For Superscript III RT, template and primer were denatured at 75℃ for 5 min and chilled on ice, and reverse transcription was performed in the presence of 1X First-Strand Buffer, 5 mM DTT, 0.5 mM dNTPs, 10 U SUPERase In, and 200 U Superscript III (Invitrogen) at 57℃ for 60 min. Template RNA was hydrolyzed by the addition of 1 µl 5M NaOH and incubation at 95℃ for 3 min. cDNA between 60 and 150 nt was excised and cDNA was eluted from crushed gel slices in 400 µl 10 mM Tris-HCl pH=8.0, 1 mM EDTA at 70℃/2000 rpm for 1 hour in a Thermoblock, followed by ethanol precipitation. Purified cDNA was circularized with CircLigase ssDNA ligase (Lucigen) in 1x reaction buffer supplemented with 1 mM ATP, 50 mM MgCl2, and 1M betaine for 3 hours at 60℃, followed by enzyme inactivation for 10 min at 80℃. One-fifth of circularized cDNA was directly used for library construction PCR. Amplification was performed with KAPA HiFi Polymerase in 1x GC buffer with initial denaturation at 95℃ for 3 min, followed by five to six cycles of 98℃ for 20 sec, 62℃ for 30 sec, 72℃ for 30 sec. PCR products were purified with DNA Clean&Concentrator (Zymo Research) and resolved on 8% polyacrylamide/1xTBE gels alongside pBR322 DNA-MspI Digest (NEB). The 130-220 bp region of each lane was excised and DNA was eluted from crushed gel slices in 400 µl water with continuous mixing at room temperature overnight. After ethanol precipitation in 0.3M sodium acetate pH=5.5 and 25 µg glycogen, libraries were dissolved in 10 µl 10 mM Tris-HCl pH=8.0, quantified with Qubit, and sequenced for 150 cycles on an Illumina NextSeq platform.

treatment_protocol: To measure tRNA charging levels, RNA oxidation and β-elimination were performed as described (Clark et al., 2016) with minor modifications. 25 µg of total RNA were resuspended in 10 mM sodium acetate pH 4.5 and oxidized by the addition of freshly prepared NaIO4 to a final concentration of 50 mM in a 58-µL volume for 30 min at 22°C. The reaction was quenched by addition of 6 µL 1 M glucose for 5 min at 22°C. RNA was purified with Micro Bio Spin P30 columns (BioRad) followed by two rounds of ethanol precipitation. Pellets were resuspended in 20 µL RNAse-free water and β-elimination was performed by addition of 30 µl 100 mM sodium borate pH=9.5 (freshly prepared) for 90 min at 45°C. RNA was recovered with Micro Bio Spin 30 columns followed by ethanol precipitation.

value: 42C, 75mM KCl, 1 hour primer-dependant RT reaction


title: CI1149_pH7-4_09-04-2019_S29_R1_001


title: CI1149_pH7-4_18-04-2019_S30_R1_001


title: 36S_snRNA


title: CI1149_pH7-4_26-03-2019_S28_R1_001


title: 39S_snRNA


title: Cowan_pH5-5_18-04-2019_S27_R1_001

value: Cowan


title: Hsap_K562_rep2

source_name: K562 cells

value: 42C, 75mM KCl, 16 hour primer-dependant RT reaction


title: Hsap_HEK293T_60C_1h

value: 60C, 450mM NaCl, 1 hour primer-dependant RT reaction


title: Hsap_K562_rep1


title: Cowan_pH5-5_09-04-2019_S26_R1_001


title: Cowan_pH5-5_26-03-2019_S25_R1_001


title: 26S_snRNA


title: Hsap_HEK293T_rep2


title: Cowan_pH7-4_18-04-2019_S24_R1_001

value: Replicate 3


title: DpnII Hi-C on coccoids cells clone D1 replicate 1

description:
symbiodinium microadriaticum whole organism from Gulf of Aqaba near Asia.
processed data file:
Dino-HiC-cD1plus-R1.smic1.0.mapq_30.1000.mcool
Dino-HiC-cD1plus-R1.smic1.1N.mapq_30.1000.mcool
HiC-cDplus.smic1.0.mapq_30.1000.mcool
HiC-cDplus.smic1.1N.mapq_30.1000.mcool
HiC-Dplus.smic1.0.mapq_30.1000.mcool
HiC-Dplus.smic1.1N.mapq_30.1000.mcool

value: In situ Hi-C

value: DpnII

value: Bigelow Laboratory for Ocean Sciences  (CCMP2467-SC)


title: Hsap_HEK293T_rep1


title: 25V_snRNA

value: male

value: 26 weeks


title: Cowan_pH7-4_16-04-2019_S23_R1_001

value: Replicate 2


title: 23V_snRNA

value: DVC

value: nuclear RNA


title: 14V_snRNA


title: Hsap_iPSC_rep2

source_name: iPS cells

value: kucg hiPSC


title: Hsap_iPSC_rep1


title: Cowan_pH7-4_26-03-2019_S22_R1_001

value: Replicate 1


title: 31S_snRNA


title: CD14+ monocytes HCMV infected CHR-4487 treated GFP-neg rep2

status: Public on Feb 11 2021

city: Rehovot

first: Noam

last: Stern-Ginossar

address: 234 herzel

department: Molecular Genetics

country: Israel

institute: Weizmann Institute

data_processing:
The MARS-seq pipeline scripts with a genome of hg19 + TB40/E were used.
In read1, the first 5 positions are ignored, the next 4 positions (6-9) are the batch barcode, and the next 37 positions (10-46) are the insert that was used for the alignment.
In read2, the first 7 positions (1-7) are the sample barcode, and the next 8 positions (8-15) are the UMI (unique molecular identifier).
Genome_build: hg19 + TB40/E (NCBI accession EF999921.1)
Supplementary_files_format_and_content: tab-delimited text files. Include number of umis for all genes, per sample.

source_name: Peripheral blood

growth_protocol: CD14+ monocytes were isolated from peripheral blood, plated, infected with HCMV for 5 days.

extract_protocol:
RNA isolation and poly(A) selection were done using the Dynabeads mRNA DIRECT purification kit (Thermo Fisher)
RNA libraries were generated from samples of ~10,000 cells according to the MARS-seq protocol (Jaitin et al., 2014; Keren-Shaul et al., 2019).

treatment_protocol: Cells were then treated with appropriate compound for 72h before FACS isolation of GFP-pos or -neg cells.

value: CD14+ monocytes

value: CHR-4487 - histone deacetylase inhibitor

tag: agent

value: HCMV-TB40 virus


title: CD14+ monocytes HCMV infected GSK726 treated GFP-pos rep1

value: GSK726 - BET-bromodomain inhibitor


title: CD14+ monocytes HCMV infected GSK726 treated GFP-neg rep1


title: CD14+ monocytes HCMV infected GSK726 treated GFP-pos rep2


title: CD14+ monocytes HCMV infected CHR-4487 treated GFP-pos rep1


title: CD14+ monocytes HCMV infected CHR-4487 treated GFP-neg rep1


title: CD14+ monocytes HCMV infected CHR-4487 treated GFP-pos rep2


title: CD14+ monocytes HCMV infected PMA treated GFP-pos rep2

value: PMA


title: CD14+ monocytes HCMV infected DMSO treated GFP-pos rep1

value: DMSO


title: CD14+ monocytes HCMV infected DMSO treated GFP-pos rep2


title: 9V_snRNA


title: 1-457-Pri-all

city: Houston

first: Yang

last: Chen

state: Texas

address: 1881 East Road

department: Cancer Biology

institute: UT-MD Anderson Cancer Center

data_processing:
Fastq files from the Illumina platform were aligned to the reference genome mm10 using the 10X Genomics Cell Ranger Pipeline
After the alignment, a matrix file containing the cell barcode identity and gene values was exported by the 10X Genomics Cell Ranger Pipeline
Matrix files for the samples were then processed and analyzed by Seurat R software
Genome_build: Raw sequencing data from the Illumina platform were converted into Fastq files and aligned to the reference genome mm10
Supplementary_files_format_and_content: Processed data are in the CSV matrix format. All samples combined matrix CSV file as processed data was provided, while individual mouse/sample can be identified by the barcode.

source_name: KPCST primary tumor live sorted

growth_protocol: KPC;YFP (LSL-KrasG12D;LSL-P53R172H;Pdx1-Cre;LSL-YFP) and KPCST;YFP (LSL-KrasG12D;LSL-P53R172H;Pdx1-Cre;Snail(loxP/loxP);Twist(loxP/loxP);LSL-YFP) mice were housed under standard housing conditions.

extract_protocol:
Single-cell barcoding and library preparation were performed using the 10X Genomics’ Chromium controller and Single Cell 3’ Reagent Kits v2 according to the manufacturer’s instructions.
Following capture and lysis, cDNA was synthesized and amplified to construct Illumina sequencing libraries using the 10X Chromium v2 according to the manufacturer’s instructions.

treatment_protocol: All mice were housed under standard housing conditions at MDACC animal facilities, without any treatment.

value: KPCST primary tumor live sorted

tag: genotype

value: KPCST;YFP

tag: detailed genotype


title: 2-457-Pri-YFP

source_name: KPCST primary tumor YFP sorted

value: KPCST primary tumor YFP sorted


title: 559P-YFP-plus


title: 559-all


title: CD14+ monocytes HCMV infected GSK726 treated GFP-neg rep2


title: 559P-Mets1

source_name: KPCST liver mets live sorted

value: KPCST liver mets live sorted


title: 559P-Mets2


title: 3-103B-Liver-YFP

source_name: KPCST liver mets YFP sorted

value: KPCST liver mets YFP sorted


title: 1-103B-Tumor-All


title: 1-926B-Tumor-All


title: 2-926B-Tumor-YFP


title: 881B-Liver-YFP


title: CD14+ monocytes HCMV infected PMA treated GFP-pos rep1


title: 47B-Tumor-YFP


title: 881B-Tumor-All


title: 47B-Tumor-All


title: 881B-Tumor-YFP


title: P23: Healthy control N0.3

city: yiwu

first: yingping

last: wu

address: shangcheng road N1

country: China

institute: Department of Clinical Laboratory, Fourth Affiliated Hospital of Zhejiang University School of Medicine

description: peripheral blood from  Healthy people

hyb_protocol: 1.5 ug of Cy3-labelled cRNA (specific activity >10.0 pmol Cy3/ug cRNA) was fragmented at 60°C for 30 minutes in a reaction volume of 250 ml containing 1x Agilent fragmentation buffer and 2x Agilent blocking agent following the manufacturers instructions. On completion of the fragmentation reaction, 250 ml of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to Agilent Whole Human Genome Oligo Microarrays (G4112A) for 17 hours at 65Â°C in a rotating Agilent hybridization oven.  After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37Â°C GE Wash buffer 2 (Agilent), then dried immediately by brief centrifugation.

scan_protocol: Slides were 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 10um, Dye channel is set to Green and Green PMT is set to 100%).

data_processing: Microarray data were extracted and visualized using the Feature Extraction software 10.7(Agilent Technologies), and the resulting raw data were subjected to quantile normalization using the limma package in R. Data analysis was performed according to by Agilent Technologies at Sinotech Genomics Corporation. Differentially expressed circRNAs were identified using a fold change cutoff of 2 and a P value of 0.05.

source_name: Healthy people

label_protocol: Total RNA was amplified and labeled by Low Input Quick Amp Labeling Kit, One-Color (Cat.# 5190-2305, Agilent technologies, Santa Clara, CA, US), following the manufacturer’s instructions. Labeled cRNA were purified by RNeasy mini kit (Cat.# 74106, QIAGEN, GmBH, Germany).

extract_protocol: RNA from the three paired samples was extracted with RNeasy Mini Kit (Qiagen, Germany) per the manufacturer’s instructions. RNA from the other 44 samples was extracted using Sparkzol Reagent (SparkJade Science Co., Ltd., China), chloroform, and isopropanol precipitation.

treatment_protocol: the whole blood of three recurrent COVID-19 patients and three healthy people for further microarray analysis.

value: whole blood

tag: gender

value: Female

tag: disease state

value: Healthy


title: P9: COVID-19 patient N0.3

description: peripheral blood from  COVID-19 patient

source_name: COVID-19 patient


title: 739-mets-YFPplus

source_name: KPC liver mets YFP sorted

tag: cell type

value: KPC liver mets YFP sorted

value: KPC;YFP


title: 739-mets-all

source_name: KPC liver mets live sorted

value: KPC liver mets live sorted


title: P22: Healthy control N0.2

description: peripheral blood from  Healthy people


title: P21: Healthy control N0.1

description: peripheral blood from  Healthy people


title: P3: COVID-19 patient N0.2

description: peripheral blood from  COVID-19 patient

value: Male


title: P2: COVID-19 patient N0.1

description: peripheral blood from  COVID-19 patient


title: 177B-Liver-YFP


title: 177B-Mets-all


title: 177B-Mets-YFP


title: 3-841B-Liver-YFP


title: 3-971B-Liver-YFP


title: 3-631B-Liver-YFP


title: 2-631B-Tumor-YFP

source_name: KPC primary tumor YFP sorted

value: KPC primary tumor YFP sorted


title: 739-PriTumor-YFPplus


title: 2-841B-Tumor-YFP


title: 1-841B-Tumor-All

source_name: KPC primary tumor live sorted

value: KPC primary tumor live sorted


title: 739-Liver-YFPplus


title: 2-103B-Tumor-YFP


title: 2-920B-Tumor-YFP


title: 2-971B-Tumor-YFP


title: 1-920B-Tumor-All


title: 1-631B-Tumor-All


title: MA-10-3

city: Los Angeles

first: Melanie

last: Galano

state: California

address: 1985 Zonal Ave

institute: University of Southern California

data_processing:
Raw sequence reads were trimmed by base quality (quality score > 20 from both end, discard trimmed reads shorter than 25 nt)
Trimmed reads were aligned to mm10 with Gencode M22 as a guidance using STAR 2.6.1d
Aligned reads were quantified to Gencode M22 using Partek E/M
Low expressed features were filtered out if it has less than 10 raw read counts in all samples
Filtered raw read counts were then normalized by upper quartile normalization with offset of 1
Normalized reads were analyzed for differential expression using Gene-Specific Analysis (GSA)
Genome_build: mm10
Supplementary_files_format_and_content: MG_rawReadCounts.txt

source_name: MA-10 mouse tumor Leydig cell

growth_protocol: Wild type MA-10 and STAR KO cells were grown normally

extract_protocol:
Total RNA was extracted using the Qiagen Allprep RNA/DNA isolation kit, according to the manufacturer's recommendations
For library prep, the Clontech Takara SMARTer Total RNA Stranded Pico V2 Library prep kit was used, according to the manufacturer's recommendations

treatment_protocol: Wild type MA-10 and STAR KO cells were untreated

value: Leydig cell

tag: cell line

value: testis

tag: treatment

value: untreated

value: wild type


title: STARKO1-3

value: STAR KO MA-10

value: STAR KO


title: MA-10-2


title: STARKO1-1


title: STARKO1-2


title: 177B-Pri-YFP


title: MA-10-1


title: T-6S-6a_ATAC-seq

city: Palo Alto

first: Antoine

last: Zalc

address: 265 Campus Drive

institute: Stanford University

description: Sequencing of the same library to increase coverage

data_processing:
bcl2fastq2 2.18 (Illumina) was used to generate fastq files
Pair-end reads were aligned to mouse genome version mm10 with bwa mem (52) with default settings
Peak calls were performed with macs2 with default settings except “--broad" flag was utilized
Combined set of peaks was created with bedtools merge. Read coverages over peaks were obtained with bedtools coverage. Differential peaks analysis was performed with DESeq2. BigWig files, normalized to total read counts, were generated with bedtools genomecov followed by bedGraphToBigWig (Kent tools).
Genome_build: mm10
Supplementary_files_format_and_content: Reads counts over the combined intervals

source_name: Oct4-GFP expressing cells

extract_protocol:
Oct4-GFP+ cells were sorted directly into lysis buffer by flow cytometry from Oct4-GFP/+ embryos at indicated developmental stage
Sorted cells were resuspended in transposase reaction mixture (25 μL of 2X Tagmentation DNA Buffer [TD buffer; Illumina, Cat#FC-121-1030], 2.5 μL Tn5 enzyme [Illumina, Cat#FC-121-1030], 0.5 μL 1% digitonin [Promega Cat#G9441], and 22 μL water), incubated for 30 min at 37°C
Tagged and transposed DNA fragments were purified using MinElute Reaction Cleanup kit (Qiagen)
Genomic DNA libraries were prepared for sequencing using standard Illumina protocols Nextera DNA Library Prep kit

tag: developmental stage

value: 6 somite stage

tag: strain

value: trunk


title: 1-971B-Tumor-All


title: T-6S-4a_ATAC-seq


title: T-4S-4a_ATAC-seq

value: 4 somite stage


title: H-6S-3a_ATAC-seq

value: cranial


title: H-6S-2a_ATAC-seq


title: T-4S-6a_ATAC-seq


title: H-6S-1a_ATAC-seq


title: H-4S-6a_ATAC-seq


title: H-4S-5a_ATAC-seq


title: H-4S-2a_ATAC-seq


title: H-4S-4a_ATAC-seq


title: T-6S-6_ATAC-seq


title: H-4S-1a_ATAC-seq


title: T-6S-5_ATAC-seq


title: T-6S-4_ATAC-seq


title: T-4S-6_ATAC-seq


title: H-6S-1_ATAC-seq


title: H-6S-2_ATAC-seq


title: T-4S-4_ATAC-seq


title: H-4S-6_ATAC-seq


title: H-6S-3_ATAC-seq


title: H-4S-5_ATAC-seq


title: H-4S-4_ATAC-seq


title: H-4S-1_ATAC-seq


title: H-4S-2_ATAC-seq


title: K24.7350658.scRNA-seq

data_processing:
bcl2fastq2 2.18 (Illumina) was used to generate fastq files
Reads within fastq files were trimmed for base call quality (PHRED score > = 21) and for adaptor sequences at 3’ end using Skewer
Trimmed reads were then aligned to mouse genome version mm10 using STAR 2.6
Raw read counts were generated by STAR
Genome_build: mm10
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every sample

source_name: Cranial neural crest cells

extract_protocol:
Single cell were sorted directly into lysis buffer by flow cytometry from Wnt1::Cre; Rosa26TdTomato embryos dissected at indicated developmental stage
RNA libraries were prepared for sequencing using standard Illumina protocols Nextera XT DNA Library Prep kit
single cell RNA-Seq (Smart-Seq2)

value: Cranial neural crest cells


title: C23.7350658.scRNA-seq


title: O23.7350658.scRNA-seq


title: H22.7350658.scRNA-seq


title: T-6S-5a_ATAC-seq


title: L21.7350658.scRNA-seq


title: E20.7350658.scRNA-seq


title: A21.7350658.scRNA-seq


title: N23.7350658.scRNA-seq


title: I19.7350658.scRNA-seq


title: G22.7350658.scRNA-seq


title: B23.7350658.scRNA-seq


title: J24.7350658.scRNA-seq


title: K21.7350658.scRNA-seq


title: D20.7350658.scRNA-seq


title: H19.7350658.scRNA-seq


title: P20.7350658.scRNA-seq


title: I24.7350658.scRNA-seq


title: A23.7350658.scRNA-seq


title: M23.7350658.scRNA-seq


title: F22.7350658.scRNA-seq


title: O20.7350658.scRNA-seq


title: C20.7350658.scRNA-seq


title: G19.7350658.scRNA-seq


title: H24.7350658.scRNA-seq


title: L23.7350658.scRNA-seq


title: J21.7350658.scRNA-seq


title: P22.7350658.scRNA-seq


title: E22.7350658.scRNA-seq


title: F19.7350658.scRNA-seq


title: N20.7350658.scRNA-seq


title: G24.7350658.scRNA-seq


title: B20.7350658.scRNA-seq


title: O22.7350658.scRNA-seq


title: E19.7350658.scRNA-seq


title: M20.7350658.scRNA-seq


title: I21.7350658.scRNA-seq


title: D22.7350658.scRNA-seq


title: A20.7350658.scRNA-seq


title: K23.7350658.scRNA-seq


title: F24.7350658.scRNA-seq


title: H21.7350658.scRNA-seq


title: L20.7350658.scRNA-seq


title: N22.7350658.scRNA-seq


title: J23.7350658.scRNA-seq


title: D19.7350658.scRNA-seq


title: E24.7350658.scRNA-seq


title: P19.7350658.scRNA-seq


title: I23.7350658.scRNA-seq


title: B22.7350658.scRNA-seq


title: G21.7350658.scRNA-seq


title: K20.7350658.scRNA-seq


title: M22.7350658.scRNA-seq


title: H23.7350658.scRNA-seq


title: O19.7350658.scRNA-seq


title: L22.7350658.scRNA-seq


title: A22.7350658.scRNA-seq


title: F21.7350658.scRNA-seq


title: J20.7350658.scRNA-seq


title: N19.7350658.scRNA-seq


title: B19.7350658.scRNA-seq


title: C22.7350658.scRNA-seq


title: G23.7350658.scRNA-seq


title: C24.7350658.scRNA-seq


title: K22.7350658.scRNA-seq


title: M19.7350658.scRNA-seq


title: I20.7350658.scRNA-seq


title: E21.7350658.scRNA-seq


title: P21.7350658.scRNA-seq


title: F23.7350658.scRNA-seq


title: B24.7350658.scRNA-seq


title: J22.7350658.scRNA-seq


title: H20.7350658.scRNA-seq


title: A19.7350658.scRNA-seq


title: D21.7350658.scRNA-seq


title: P18.7350658.scRNA-seq


title: D24.7350658.scRNA-seq


title: A24.7350658.scRNA-seq


title: C19.7350658.scRNA-seq


title: E23.7350658.scRNA-seq


title: I22.7350658.scRNA-seq


title: N21.7350658.scRNA-seq


title: O18.7350658.scRNA-seq


title: K19.7350658.scRNA-seq


title: P23.7350658.scRNA-seq


title: B21.7350658.scRNA-seq


title: M21.7350658.scRNA-seq


title: O21.7350658.scRNA-seq


title: F20.7350658.scRNA-seq


title: N18.7350658.scRNA-seq


title: J19.7350658.scRNA-seq


title: M15.7350658.scRNA-seq


title: E17.7350658.scRNA-seq


title: L19.7350658.scRNA-seq


title: I16.7350658.scRNA-seq


title: A18.7350658.scRNA-seq


title: I13.7350658.scRNA-seq


title: C21.7350658.scRNA-seq


title: E14.7350658.scRNA-seq


title: P14.7350658.scRNA-seq


title: P17.7350658.scRNA-seq


title: L18.7350658.scRNA-seq


title: H16.7350658.scRNA-seq


title: L15.7350658.scRNA-seq


title: D17.7350658.scRNA-seq


title: D14.7350658.scRNA-seq


title: K18.7350658.scRNA-seq


title: G20.7350658.scRNA-seq


title: C17.7350658.scRNA-seq


title: G16.7350658.scRNA-seq


title: D23.7350658.scRNA-seq


title: O14.7350658.scRNA-seq


title: K15.7350658.scRNA-seq


title: M18.7350658.scRNA-seq


title: A15.7350658.scRNA-seq


title: C14.7350658.scRNA-seq


title: G13.7350658.scRNA-seq


title: J18.7350658.scRNA-seq


title: N17.7350658.scRNA-seq


title: B17.7350658.scRNA-seq


title: F16.7350658.scRNA-seq


title: N14.7350658.scRNA-seq


title: B14.7350658.scRNA-seq


title: J15.7350658.scRNA-seq


title: F13.7350658.scRNA-seq


title: H13.7350658.scRNA-seq


title: O17.7350658.scRNA-seq


title: I15.7350658.scRNA-seq


title: A14.7350658.scRNA-seq


title: M14.7350658.scRNA-seq


title: E13.7350658.scRNA-seq


title: E16.7350658.scRNA-seq


title: A17.7350658.scRNA-seq


title: I18.7350658.scRNA-seq


title: H18.7350658.scRNA-seq


title: D16.7350658.scRNA-seq


title: H15.7350658.scRNA-seq


title: L14.7350658.scRNA-seq


title: P16.7350658.scRNA-seq


title: G18.7350658.scRNA-seq


title: P13.7350658.scRNA-seq


title: K17.7350658.scRNA-seq


title: D13.7350658.scRNA-seq


title: O16.7350658.scRNA-seq


title: M17.7350658.scRNA-seq


title: C13.7350658.scRNA-seq


title: G15.7350658.scRNA-seq


title: N16.7350658.scRNA-seq


title: O13.7350658.scRNA-seq


title: F18.7350658.scRNA-seq


title: F15.7350658.scRNA-seq


title: L17.7350658.scRNA-seq


title: B16.7350658.scRNA-seq


title: J14.7350658.scRNA-seq


title: A16.7350658.scRNA-seq


title: I17.7350658.scRNA-seq


title: B13.7350658.scRNA-seq


title: E18.7350658.scRNA-seq


title: E15.7350658.scRNA-seq


title: I14.7350658.scRNA-seq


title: A13.7350658.scRNA-seq


title: M16.7350658.scRNA-seq


title: D18.7350658.scRNA-seq


title: L16.7350658.scRNA-seq


title: H17.7350658.scRNA-seq


title: K14.7350658.scRNA-seq


title: D15.7350658.scRNA-seq


title: L13.7350658.scRNA-seq


title: H14.7350658.scRNA-seq


title: P15.7350658.scRNA-seq


title: J17.7350658.scRNA-seq


title: P12.7350658.scRNA-seq


title: K16.7350658.scRNA-seq


title: O15.7350658.scRNA-seq


title: G17.7350658.scRNA-seq


title: C15.7350658.scRNA-seq


title: G14.7350658.scRNA-seq


title: C18.7350658.scRNA-seq


title: O12.7350658.scRNA-seq


title: K13.7350658.scRNA-seq


title: M13.7350658.scRNA-seq


title: N13.7350658.scRNA-seq


title: J16.7350658.scRNA-seq


title: F17.7350658.scRNA-seq


title: B18.7350658.scRNA-seq


title: B15.7350658.scRNA-seq


title: J13.7350658.scRNA-seq


title: N15.7350658.scRNA-seq


title: F14.7350658.scRNA-seq


title: L24.6150663.scRNA-seq

value: 8 somite stage


title: M24.6150663.scRNA-seq


title: K24.6150663.scRNA-seq


title: I24.6150663.scRNA-seq


title: H24.6150663.scRNA-seq


title: J24.6150663.scRNA-seq


title: G24.6150663.scRNA-seq


title: F24.6150663.scRNA-seq


title: P24.6150663.scRNA-seq


title: E24.6150663.scRNA-seq


title: D24.6150663.scRNA-seq


title: O24.6150663.scRNA-seq


title: C24.6150663.scRNA-seq


title: N24.6150663.scRNA-seq


title: B24.6150663.scRNA-seq


title: D10.6150663.scRNA-seq


title: H12.6150663.scRNA-seq


title: N12.7350658.scRNA-seq


title: H09.6150663.scRNA-seq


title: L08.6150663.scRNA-seq


title: D07.6150663.scRNA-seq


title: C16.7350658.scRNA-seq


title: P07.6150663.scRNA-seq


title: K11.6150663.scRNA-seq


title: G12.6150663.scRNA-seq


title: O10.6150663.scRNA-seq


title: G09.6150663.scRNA-seq


title: K08.6150663.scRNA-seq


title: O07.6150663.scRNA-seq


title: C07.6150663.scRNA-seq


title: J11.6150663.scRNA-seq


title: F12.6150663.scRNA-seq


title: N10.6150663.scRNA-seq


title: F09.6150663.scRNA-seq


title: B10.6150663.scRNA-seq


title: L11.6150663.scRNA-seq


title: N07.6150663.scRNA-seq


title: J08.6150663.scRNA-seq


title: P10.6150663.scRNA-seq


title: E12.6150663.scRNA-seq


title: B07.6150663.scRNA-seq


title: I08.6150663.scRNA-seq


title: A10.6150663.scRNA-seq


title: E09.6150663.scRNA-seq


title: A07.6150663.scRNA-seq


title: M07.6150663.scRNA-seq


title: M10.6150663.scRNA-seq


title: D12.6150663.scRNA-seq


title: C10.6150663.scRNA-seq


title: H11.6150663.scRNA-seq


title: L10.6150663.scRNA-seq


title: D09.6150663.scRNA-seq


title: P06.6150663.scRNA-seq


title: H08.6150663.scRNA-seq


title: C12.6150663.scRNA-seq


title: L07.6150663.scRNA-seq


title: C09.6150663.scRNA-seq


title: G08.6150663.scRNA-seq


title: K07.6150663.scRNA-seq


title: O06.6150663.scRNA-seq


title: O09.6150663.scRNA-seq


title: N09.6150663.scRNA-seq


title: K10.6150663.scRNA-seq


title: J10.6150663.scRNA-seq


title: B12.6150663.scRNA-seq


title: I11.6150663.scRNA-seq


title: F11.6150663.scRNA-seq


title: B09.6150663.scRNA-seq


title: F08.6150663.scRNA-seq


title: J07.6150663.scRNA-seq


title: E11.6150663.scRNA-seq


title: A12.6150663.scRNA-seq


title: P09.6150663.scRNA-seq


title: I10.6150663.scRNA-seq


title: N06.6150663.scRNA-seq


title: G11.6150663.scRNA-seq


title: I07.6150663.scRNA-seq


title: A09.6150663.scRNA-seq


title: M06.6150663.scRNA-seq


title: D11.6150663.scRNA-seq


title: L09.6150663.scRNA-seq


title: E08.6150663.scRNA-seq


title: O11.6150663.scRNA-seq


title: C11.6150663.scRNA-seq


title: D08.6150663.scRNA-seq


title: P11.6150663.scRNA-seq


title: L06.6150663.scRNA-seq


title: H10.6150663.scRNA-seq


title: K09.6150663.scRNA-seq


title: H07.6150663.scRNA-seq


title: G07.6150663.scRNA-seq


title: G10.6150663.scRNA-seq


title: O08.6150663.scRNA-seq


title: K06.6150663.scRNA-seq


title: N11.6150663.scRNA-seq


title: C08.6150663.scRNA-seq


title: M09.6150663.scRNA-seq


title: B11.6150663.scRNA-seq


title: F10.6150663.scRNA-seq


title: N08.6150663.scRNA-seq


title: F07.6150663.scRNA-seq


title: M11.6150663.scRNA-seq


title: P08.6150663.scRNA-seq


title: J09.6150663.scRNA-seq


title: A11.6150663.scRNA-seq


title: B08.6150663.scRNA-seq


title: E10.6150663.scRNA-seq


title: I09.6150663.scRNA-seq


title: M08.6150663.scRNA-seq


title: E07.6150663.scRNA-seq


title: K01.7350657.scRNA-seq

value: 10 somite stage


title: I06.6150663.scRNA-seq


title: A08.6150663.scRNA-seq


title: L01.7350657.scRNA-seq


title: H01.7350657.scRNA-seq


title: I01.7350657.scRNA-seq


title: J01.7350657.scRNA-seq


title: E01.7350657.scRNA-seq


title: D01.7350657.scRNA-seq


title: G01.7350657.scRNA-seq


title: C01.7350657.scRNA-seq


title: F01.7350657.scRNA-seq


title: J06.6150663.scRNA-seq


title: P17.6150662.scRNA-seq


title: B01.7350657.scRNA-seq


title: P24.6150662.scRNA-seq


title: P18.6150662.scRNA-seq


title: P23.6150662.scRNA-seq


title: P02.6150662.scRNA-seq


title: P16.6150662.scRNA-seq


title: P14.6150662.scRNA-seq


title: P22.6150662.scRNA-seq


title: P21.6150662.scRNA-seq


title: P20.6150662.scRNA-seq


title: P07.6150662.scRNA-seq


title: P11.6150662.scRNA-seq


title: P09.6150662.scRNA-seq


title: P15.6150662.scRNA-seq


title: P13.6150662.scRNA-seq


title: P08.6150662.scRNA-seq


title: O24.6150662.scRNA-seq


title: P06.6150662.scRNA-seq


title: P10.6150662.scRNA-seq


title: P03.6150662.scRNA-seq


title: P05.6150662.scRNA-seq


title: P01.6150662.scRNA-seq


title: P04.6150662.scRNA-seq


title: P19.6150662.scRNA-seq


title: A01.7350657.scRNA-seq


title: P12.6150662.scRNA-seq


title: O22.6150662.scRNA-seq


title: O23.6150662.scRNA-seq


title: O21.6150662.scRNA-seq


title: O20.6150662.scRNA-seq


title: O17.6150662.scRNA-seq


title: O16.6150662.scRNA-seq


title: O18.6150662.scRNA-seq


title: O19.6150662.scRNA-seq


title: O15.6150662.scRNA-seq


title: O11.6150662.scRNA-seq


title: O02.6150662.scRNA-seq


title: O07.6150662.scRNA-seq


title: N23.6150662.scRNA-seq


title: N22.6150662.scRNA-seq


title: N20.6150662.scRNA-seq


title: O04.6150662.scRNA-seq


title: O09.6150662.scRNA-seq


title: O03.6150662.scRNA-seq


title: N19.6150662.scRNA-seq


title: O06.6150662.scRNA-seq


title: N24.6150662.scRNA-seq


title: O05.6150662.scRNA-seq


title: O14.6150662.scRNA-seq


title: O12.6150662.scRNA-seq


title: O10.6150662.scRNA-seq


title: N18.6150662.scRNA-seq


title: O01.6150662.scRNA-seq


title: O13.6150662.scRNA-seq


title: O08.6150662.scRNA-seq


title: N21.6150662.scRNA-seq


title: N16.6150662.scRNA-seq


title: N17.6150662.scRNA-seq


title: N15.6150662.scRNA-seq


title: N14.6150662.scRNA-seq


title: N13.6150662.scRNA-seq


title: N12.6150662.scRNA-seq


title: N10.6150662.scRNA-seq


title: N09.6150662.scRNA-seq


title: N08.6150662.scRNA-seq


title: N06.6150662.scRNA-seq


title: N07.6150662.scRNA-seq


title: N05.6150662.scRNA-seq


title: N04.6150662.scRNA-seq


title: M16.6150662.scRNA-seq


title: M24.6150662.scRNA-seq


title: N01.6150662.scRNA-seq


title: N11.6150662.scRNA-seq


title: M17.6150662.scRNA-seq


title: M18.6150662.scRNA-seq


title: M19.6150662.scRNA-seq


title: M20.6150662.scRNA-seq


title: M13.6150662.scRNA-seq


title: M23.6150662.scRNA-seq


title: N03.6150662.scRNA-seq


title: M14.6150662.scRNA-seq


title: M15.6150662.scRNA-seq


title: M11.6150662.scRNA-seq


title: M10.6150662.scRNA-seq


title: M12.6150662.scRNA-seq


title: M09.6150662.scRNA-seq


title: M07.6150662.scRNA-seq


title: N02.6150662.scRNA-seq


title: M08.6150662.scRNA-seq


title: M22.6150662.scRNA-seq


title: M21.6150662.scRNA-seq


title: M06.6150662.scRNA-seq


title: M05.6150662.scRNA-seq


title: M03.6150662.scRNA-seq


title: M02.6150662.scRNA-seq


title: L24.6150662.scRNA-seq


title: M04.6150662.scRNA-seq


title: L19.6150662.scRNA-seq


title: L23.6150662.scRNA-seq


title: L22.6150662.scRNA-seq


title: L18.6150662.scRNA-seq


title: L16.6150662.scRNA-seq


title: L17.6150662.scRNA-seq


title: L15.6150662.scRNA-seq


title: L12.6150662.scRNA-seq


title: L11.6150662.scRNA-seq


title: L10.6150662.scRNA-seq


title: L09.6150662.scRNA-seq


title: L07.6150662.scRNA-seq


title: L06.6150662.scRNA-seq


title: L05.6150662.scRNA-seq


title: M01.6150662.scRNA-seq


title: L03.6150662.scRNA-seq


title: L01.6150662.scRNA-seq


title: L02.6150662.scRNA-seq


title: L04.6150662.scRNA-seq


title: K24.6150662.scRNA-seq


title: K23.6150662.scRNA-seq


title: L20.6150662.scRNA-seq


title: L14.6150662.scRNA-seq


title: L21.6150662.scRNA-seq


title: K21.6150662.scRNA-seq


title: L13.6150662.scRNA-seq


title: K18.6150662.scRNA-seq


title: K19.6150662.scRNA-seq


title: K15.6150662.scRNA-seq


title: K16.6150662.scRNA-seq


title: K14.6150662.scRNA-seq


title: K13.6150662.scRNA-seq


title: K17.6150662.scRNA-seq


title: K12.6150662.scRNA-seq


title: K09.6150662.scRNA-seq


title: K08.6150662.scRNA-seq


title: K07.6150662.scRNA-seq


title: K10.6150662.scRNA-seq


title: L08.6150662.scRNA-seq


title: K11.6150662.scRNA-seq


title: K06.6150662.scRNA-seq


title: K05.6150662.scRNA-seq


title: K03.6150662.scRNA-seq


title: K04.6150662.scRNA-seq


title: K22.6150662.scRNA-seq


title: K01.6150662.scRNA-seq


title: J21.6150662.scRNA-seq


title: J23.6150662.scRNA-seq


title: K02.6150662.scRNA-seq


title: J22.6150662.scRNA-seq


title: K20.6150662.scRNA-seq


title: J17.6150662.scRNA-seq


title: J24.6150662.scRNA-seq


title: J19.6150662.scRNA-seq


title: J20.6150662.scRNA-seq


title: J12.6150662.scRNA-seq


title: J09.6150662.scRNA-seq


title: J16.6150662.scRNA-seq


title: J13.6150662.scRNA-seq


title: J15.6150662.scRNA-seq


title: J05.6150662.scRNA-seq


title: J08.6150662.scRNA-seq


title: J03.6150662.scRNA-seq


title: J02.6150662.scRNA-seq


title: J04.6150662.scRNA-seq


title: J06.6150662.scRNA-seq


title: J10.6150662.scRNA-seq


title: I23.6150662.scRNA-seq


title: J01.6150662.scRNA-seq


title: I24.6150662.scRNA-seq


title: I22.6150662.scRNA-seq


title: J18.6150662.scRNA-seq


title: I20.6150662.scRNA-seq


title: I19.6150662.scRNA-seq


title: I17.6150662.scRNA-seq


title: I15.6150662.scRNA-seq


title: I18.6150662.scRNA-seq


title: I14.6150662.scRNA-seq


title: J14.6150662.scRNA-seq


title: I16.6150662.scRNA-seq


title: J11.6150662.scRNA-seq


title: I12.6150662.scRNA-seq


title: J07.6150662.scRNA-seq


title: I13.6150662.scRNA-seq


title: I09.6150662.scRNA-seq


title: I08.6150662.scRNA-seq


title: I07.6150662.scRNA-seq


title: I05.6150662.scRNA-seq


title: I06.6150662.scRNA-seq


title: I04.6150662.scRNA-seq


title: I03.6150662.scRNA-seq


title: I01.6150662.scRNA-seq


title: I02.6150662.scRNA-seq


title: H23.6150662.scRNA-seq


title: H21.6150662.scRNA-seq


title: H20.6150662.scRNA-seq


title: H24.6150662.scRNA-seq


title: H22.6150662.scRNA-seq


title: H19.6150662.scRNA-seq


title: H15.6150662.scRNA-seq


title: H14.6150662.scRNA-seq


title: H16.6150662.scRNA-seq


title: H13.6150662.scRNA-seq


title: H17.6150662.scRNA-seq


title: H10.6150662.scRNA-seq


title: H12.6150662.scRNA-seq


title: H18.6150662.scRNA-seq


title: H11.6150662.scRNA-seq


title: H08.6150662.scRNA-seq


title: I10.6150662.scRNA-seq


title: H07.6150662.scRNA-seq


title: I11.6150662.scRNA-seq


title: H04.6150662.scRNA-seq


title: H05.6150662.scRNA-seq


title: H02.6150662.scRNA-seq


title: H06.6150662.scRNA-seq


title: H03.6150662.scRNA-seq


title: G24.6150662.scRNA-seq


title: H09.6150662.scRNA-seq


title: G23.6150662.scRNA-seq


title: G22.6150662.scRNA-seq


title: G21.6150662.scRNA-seq


title: G20.6150662.scRNA-seq


title: G16.6150662.scRNA-seq


title: G19.6150662.scRNA-seq


title: G17.6150662.scRNA-seq


title: G15.6150662.scRNA-seq


title: G13.6150662.scRNA-seq


title: G10.6150662.scRNA-seq


title: G09.6150662.scRNA-seq


title: G12.6150662.scRNA-seq


title: G11.6150662.scRNA-seq


title: G04.6150662.scRNA-seq


title: G08.6150662.scRNA-seq


title: G07.6150662.scRNA-seq


title: G05.6150662.scRNA-seq


title: G14.6150662.scRNA-seq


title: H01.6150662.scRNA-seq


title: G06.6150662.scRNA-seq


title: G03.6150662.scRNA-seq


title: G01.6150662.scRNA-seq


title: F20.6150662.scRNA-seq


title: F24.6150662.scRNA-seq


title: F21.6150662.scRNA-seq


title: F19.6150662.scRNA-seq


title: G18.6150662.scRNA-seq


title: F18.6150662.scRNA-seq


title: F16.6150662.scRNA-seq


title: F17.6150662.scRNA-seq


title: F15.6150662.scRNA-seq


title: F14.6150662.scRNA-seq


title: F11.6150662.scRNA-seq


title: F12.6150662.scRNA-seq


title: F08.6150662.scRNA-seq


title: F09.6150662.scRNA-seq


title: F10.6150662.scRNA-seq


title: G02.6150662.scRNA-seq


title: F07.6150662.scRNA-seq


title: F06.6150662.scRNA-seq


title: F04.6150662.scRNA-seq


title: F02.6150662.scRNA-seq


title: F05.6150662.scRNA-seq


title: E23.6150662.scRNA-seq


title: E24.6150662.scRNA-seq


title: F03.6150662.scRNA-seq


title: F22.6150662.scRNA-seq


title: F23.6150662.scRNA-seq


title: F01.6150662.scRNA-seq


title: E21.6150662.scRNA-seq


title: E22.6150662.scRNA-seq


title: E17.6150662.scRNA-seq


title: E18.6150662.scRNA-seq


title: E16.6150662.scRNA-seq


title: E19.6150662.scRNA-seq


title: F13.6150662.scRNA-seq


title: E13.6150662.scRNA-seq


title: E14.6150662.scRNA-seq


title: E12.6150662.scRNA-seq


title: E11.6150662.scRNA-seq


title: E07.6150662.scRNA-seq


title: E09.6150662.scRNA-seq


title: E08.6150662.scRNA-seq


title: E10.6150662.scRNA-seq


title: E06.6150662.scRNA-seq


title: E03.6150662.scRNA-seq


title: E04.6150662.scRNA-seq


title: E02.6150662.scRNA-seq


title: D23.6150662.scRNA-seq


title: D21.6150662.scRNA-seq


title: D24.6150662.scRNA-seq


title: E01.6150662.scRNA-seq


title: D18.6150662.scRNA-seq


title: D22.6150662.scRNA-seq


title: D19.6150662.scRNA-seq


title: D15.6150662.scRNA-seq


title: E20.6150662.scRNA-seq


title: D17.6150662.scRNA-seq


title: D20.6150662.scRNA-seq


title: E15.6150662.scRNA-seq


title: D16.6150662.scRNA-seq


title: D14.6150662.scRNA-seq


title: D12.6150662.scRNA-seq


title: D10.6150662.scRNA-seq


title: D11.6150662.scRNA-seq


title: D09.6150662.scRNA-seq


title: E05.6150662.scRNA-seq


title: D07.6150662.scRNA-seq


title: D05.6150662.scRNA-seq


title: D04.6150662.scRNA-seq


title: D06.6150662.scRNA-seq


title: D03.6150662.scRNA-seq


title: D01.6150662.scRNA-seq


title: D02.6150662.scRNA-seq


title: C22.6150662.scRNA-seq


title: C23.6150662.scRNA-seq


title: C24.6150662.scRNA-seq


title: C19.6150662.scRNA-seq


title: D13.6150662.scRNA-seq


title: C21.6150662.scRNA-seq


title: C18.6150662.scRNA-seq


title: C17.6150662.scRNA-seq


title: C13.6150662.scRNA-seq


title: C12.6150662.scRNA-seq


title: C16.6150662.scRNA-seq


title: C20.6150662.scRNA-seq


title: C15.6150662.scRNA-seq


title: C11.6150662.scRNA-seq


title: C06.6150662.scRNA-seq


title: C05.6150662.scRNA-seq


title: C10.6150662.scRNA-seq


title: C09.6150662.scRNA-seq


title: C08.6150662.scRNA-seq


title: I21.6150662.scRNA-seq


title: C01.6150662.scRNA-seq


title: C07.6150662.scRNA-seq


title: D08.6150662.scRNA-seq


title: C04.6150662.scRNA-seq


title: B24.6150662.scRNA-seq


title: B23.6150662.scRNA-seq


title: C02.6150662.scRNA-seq


title: B22.6150662.scRNA-seq


title: C03.6150662.scRNA-seq


title: C14.6150662.scRNA-seq


title: B21.6150662.scRNA-seq


title: B18.6150662.scRNA-seq


title: B10.6150662.scRNA-seq


title: B16.6150662.scRNA-seq


title: B20.6150662.scRNA-seq


title: B19.6150662.scRNA-seq


title: B17.6150662.scRNA-seq


title: B15.6150662.scRNA-seq


title: B12.6150662.scRNA-seq


title: B07.6150662.scRNA-seq


title: B14.6150662.scRNA-seq


title: B13.6150662.scRNA-seq


title: B06.6150662.scRNA-seq


title: B08.6150662.scRNA-seq


title: B09.6150662.scRNA-seq


title: B05.6150662.scRNA-seq


title: B04.6150662.scRNA-seq


title: B02.6150662.scRNA-seq


title: B03.6150662.scRNA-seq


title: A23.6150662.scRNA-seq


title: B01.6150662.scRNA-seq


title: A21.6150662.scRNA-seq


title: A24.6150662.scRNA-seq


title: A19.6150662.scRNA-seq


title: A22.6150662.scRNA-seq


title: A17.6150662.scRNA-seq


title: A18.6150662.scRNA-seq


title: A20.6150662.scRNA-seq


title: B11.6150662.scRNA-seq


title: A11.6150662.scRNA-seq


title: A16.6150662.scRNA-seq


title: A15.6150662.scRNA-seq


title: A12.6150662.scRNA-seq


title: A14.6150662.scRNA-seq


title: A04.6150662.scRNA-seq


title: A09.6150662.scRNA-seq


title: A10.6150662.scRNA-seq


title: A08.6150662.scRNA-seq


title: A06.6150662.scRNA-seq


title: A13.6150662.scRNA-seq


title: P24.6150657.scRNA-seq


title: A07.6150662.scRNA-seq


title: P23.6150657.scRNA-seq


title: A01.6150662.scRNA-seq


title: A02.6150662.scRNA-seq


title: P22.6150657.scRNA-seq


title: A05.6150662.scRNA-seq


title: A03.6150662.scRNA-seq


title: P17.6150657.scRNA-seq


title: P14.6150657.scRNA-seq


title: P13.6150657.scRNA-seq


title: P12.6150657.scRNA-seq


title: P10.6150657.scRNA-seq


title: P20.6150657.scRNA-seq


title: P18.6150657.scRNA-seq


title: P15.6150657.scRNA-seq


title: P11.6150657.scRNA-seq


title: P08.6150657.scRNA-seq


title: P16.6150657.scRNA-seq


title: P03.6150657.scRNA-seq


title: O22.6150657.scRNA-seq


title: P21.6150657.scRNA-seq


title: P09.6150657.scRNA-seq


title: P04.6150657.scRNA-seq


title: O19.6150657.scRNA-seq


title: P02.6150657.scRNA-seq


title: P01.6150657.scRNA-seq


title: O13.6150657.scRNA-seq


title: O14.6150657.scRNA-seq


title: O12.6150657.scRNA-seq


title: O20.6150657.scRNA-seq


title: O23.6150657.scRNA-seq


title: O16.6150657.scRNA-seq


title: O21.6150657.scRNA-seq


title: O18.6150657.scRNA-seq


title: O11.6150657.scRNA-seq


title: O17.6150657.scRNA-seq


title: O15.6150657.scRNA-seq


title: P19.6150657.scRNA-seq


title: O10.6150657.scRNA-seq


title: O03.6150657.scRNA-seq


title: O02.6150657.scRNA-seq


title: N24.6150657.scRNA-seq


title: O01.6150657.scRNA-seq


title: O04.6150657.scRNA-seq


title: O24.6150657.scRNA-seq


title: O08.6150657.scRNA-seq


title: N19.6150657.scRNA-seq


title: N17.6150657.scRNA-seq


title: N16.6150657.scRNA-seq


title: N18.6150657.scRNA-seq


title: N15.6150657.scRNA-seq


title: N12.6150657.scRNA-seq


title: N14.6150657.scRNA-seq


title: N04.6150657.scRNA-seq


title: N10.6150657.scRNA-seq


title: N09.6150657.scRNA-seq


title: N13.6150657.scRNA-seq


title: N03.6150657.scRNA-seq


title: N01.6150657.scRNA-seq


title: N02.6150657.scRNA-seq


title: M24.6150657.scRNA-seq


title: O09.6150657.scRNA-seq


title: N20.6150657.scRNA-seq


title: N21.6150657.scRNA-seq


title: N22.6150657.scRNA-seq


title: N23.6150657.scRNA-seq


title: M17.6150657.scRNA-seq


title: M19.6150657.scRNA-seq


title: M18.6150657.scRNA-seq


title: M22.6150657.scRNA-seq


title: N08.6150657.scRNA-seq


title: M21.6150657.scRNA-seq


title: M20.6150657.scRNA-seq


title: N11.6150657.scRNA-seq


title: M16.6150657.scRNA-seq


title: M13.6150657.scRNA-seq


title: M11.6150657.scRNA-seq


title: M12.6150657.scRNA-seq


title: M14.6150657.scRNA-seq


title: M15.6150657.scRNA-seq


title: M04.6150657.scRNA-seq


title: M02.6150657.scRNA-seq


title: M03.6150657.scRNA-seq


title: M08.6150657.scRNA-seq


title: M09.6150657.scRNA-seq


title: M23.6150657.scRNA-seq


title: L19.6150657.scRNA-seq


title: L22.6150657.scRNA-seq


title: L24.6150657.scRNA-seq


title: L23.6150657.scRNA-seq


title: L18.6150657.scRNA-seq


title: L20.6150657.scRNA-seq


title: L21.6150657.scRNA-seq


title: M10.6150657.scRNA-seq


title: L17.6150657.scRNA-seq


title: L15.6150657.scRNA-seq


title: L16.6150657.scRNA-seq


title: L04.6150657.scRNA-seq


title: L03.6150657.scRNA-seq


title: L12.6150657.scRNA-seq


title: L13.6150657.scRNA-seq


title: L10.6150657.scRNA-seq


title: L01.6150657.scRNA-seq


title: L09.6150657.scRNA-seq


title: K22.6150657.scRNA-seq


title: K20.6150657.scRNA-seq


title: K23.6150657.scRNA-seq


title: K16.6150657.scRNA-seq


title: K18.6150657.scRNA-seq


title: K15.6150657.scRNA-seq


title: K17.6150657.scRNA-seq


title: K19.6150657.scRNA-seq


title: M01.6150657.scRNA-seq


title: K14.6150657.scRNA-seq


title: K13.6150657.scRNA-seq


title: K21.6150657.scRNA-seq


title: L14.6150657.scRNA-seq


title: K10.6150657.scRNA-seq


title: K12.6150657.scRNA-seq


title: K11.6150657.scRNA-seq


title: L08.6150657.scRNA-seq


title: L11.6150657.scRNA-seq


title: L02.6150657.scRNA-seq


title: K09.6150657.scRNA-seq


title: K03.6150657.scRNA-seq


title: K04.6150657.scRNA-seq


title: K08.6150657.scRNA-seq


title: J24.6150657.scRNA-seq


title: K01.6150657.scRNA-seq


title: J23.6150657.scRNA-seq


title: K02.6150657.scRNA-seq


title: J21.6150657.scRNA-seq


title: J22.6150657.scRNA-seq


title: J20.6150657.scRNA-seq


title: J16.6150657.scRNA-seq


title: J17.6150657.scRNA-seq


title: J15.6150657.scRNA-seq


title: J12.6150657.scRNA-seq


title: J14.6150657.scRNA-seq


title: J13.6150657.scRNA-seq


title: J19.6150657.scRNA-seq


title: J09.6150657.scRNA-seq


title: J10.6150657.scRNA-seq


title: J03.6150657.scRNA-seq


title: J11.6150657.scRNA-seq


title: J04.6150657.scRNA-seq


title: J02.6150657.scRNA-seq


title: J01.6150657.scRNA-seq


title: J08.6150657.scRNA-seq


title: I20.6150657.scRNA-seq


title: I18.6150657.scRNA-seq


title: I22.6150657.scRNA-seq


title: I16.6150657.scRNA-seq


title: I19.6150657.scRNA-seq


title: I15.6150657.scRNA-seq


title: I21.6150657.scRNA-seq


title: I24.6150657.scRNA-seq


title: I14.6150657.scRNA-seq


title: I17.6150657.scRNA-seq


title: J18.6150657.scRNA-seq


title: I13.6150657.scRNA-seq


title: I10.6150657.scRNA-seq


title: I11.6150657.scRNA-seq


title: I23.6150657.scRNA-seq


title: I08.6150657.scRNA-seq


title: I04.6150657.scRNA-seq


title: I03.6150657.scRNA-seq


title: H24.6150657.scRNA-seq


title: I02.6150657.scRNA-seq


title: H21.6150657.scRNA-seq


title: H22.6150657.scRNA-seq


title: H23.6150657.scRNA-seq


title: I12.6150657.scRNA-seq


title: H15.6150657.scRNA-seq


title: H19.6150657.scRNA-seq


title: H17.6150657.scRNA-seq


title: H13.6150657.scRNA-seq


title: H18.6150657.scRNA-seq


title: H20.6150657.scRNA-seq


title: H10.6150657.scRNA-seq


title: H05.6150657.scRNA-seq


title: H09.6150657.scRNA-seq


title: H12.6150657.scRNA-seq


title: I09.6150657.scRNA-seq


title: H08.6150657.scRNA-seq


title: I01.6150657.scRNA-seq


title: H03.6150657.scRNA-seq


title: H04.6150657.scRNA-seq


title: H01.6150657.scRNA-seq


title: G24.6150657.scRNA-seq


title: H14.6150657.scRNA-seq


title: H02.6150657.scRNA-seq


title: G23.6150657.scRNA-seq


title: H11.6150657.scRNA-seq


title: H16.6150657.scRNA-seq


title: G21.6150657.scRNA-seq


title: G18.6150657.scRNA-seq


title: G16.6150657.scRNA-seq


title: G19.6150657.scRNA-seq


title: G15.6150657.scRNA-seq


title: G22.6150657.scRNA-seq


title: G13.6150657.scRNA-seq


title: G14.6150657.scRNA-seq


title: G17.6150657.scRNA-seq


title: G12.6150657.scRNA-seq


title: G10.6150657.scRNA-seq


title: G11.6150657.scRNA-seq


title: G08.6150657.scRNA-seq


title: K24.6150657.scRNA-seq


title: G09.6150657.scRNA-seq


title: G05.6150657.scRNA-seq


title: G01.6150657.scRNA-seq


title: G04.6150657.scRNA-seq


title: F24.6150657.scRNA-seq


title: G03.6150657.scRNA-seq


title: G02.6150657.scRNA-seq


title: G20.6150657.scRNA-seq


title: F22.6150657.scRNA-seq


title: F21.6150657.scRNA-seq


title: F20.6150657.scRNA-seq


title: F18.6150657.scRNA-seq


title: F19.6150657.scRNA-seq


title: F16.6150657.scRNA-seq


title: F17.6150657.scRNA-seq


title: F15.6150657.scRNA-seq


title: F13.6150657.scRNA-seq


title: F12.6150657.scRNA-seq


title: F11.6150657.scRNA-seq


title: F04.6150657.scRNA-seq


title: F03.6150657.scRNA-seq


title: F08.6150657.scRNA-seq


title: F02.6150657.scRNA-seq


title: F09.6150657.scRNA-seq


title: F05.6150657.scRNA-seq


title: F01.6150657.scRNA-seq


title: E23.6150657.scRNA-seq


title: F23.6150657.scRNA-seq


title: E24.6150657.scRNA-seq


title: E22.6150657.scRNA-seq


title: E19.6150657.scRNA-seq


title: E18.6150657.scRNA-seq


title: E21.6150657.scRNA-seq


title: E17.6150657.scRNA-seq


title: E16.6150657.scRNA-seq


title: E15.6150657.scRNA-seq


title: F14.6150657.scRNA-seq


title: E14.6150657.scRNA-seq


title: F10.6150657.scRNA-seq


title: E13.6150657.scRNA-seq


title: E11.6150657.scRNA-seq


title: E10.6150657.scRNA-seq


title: E12.6150657.scRNA-seq


title: E08.6150657.scRNA-seq


title: E09.6150657.scRNA-seq


title: E05.6150657.scRNA-seq


title: E04.6150657.scRNA-seq


title: E01.6150657.scRNA-seq


title: D24.6150657.scRNA-seq


title: D23.6150657.scRNA-seq


title: E20.6150657.scRNA-seq


title: E03.6150657.scRNA-seq


title: D18.6150657.scRNA-seq


title: E02.6150657.scRNA-seq


title: D17.6150657.scRNA-seq


title: D22.6150657.scRNA-seq


title: D19.6150657.scRNA-seq


title: D21.6150657.scRNA-seq


title: D15.6150657.scRNA-seq


title: D20.6150657.scRNA-seq


title: D12.6150657.scRNA-seq


title: D16.6150657.scRNA-seq


title: D11.6150657.scRNA-seq


title: D14.6150657.scRNA-seq


title: D13.6150657.scRNA-seq


title: D05.6150657.scRNA-seq


title: D10.6150657.scRNA-seq


title: D09.6150657.scRNA-seq


title: D04.6150657.scRNA-seq


title: D03.6150657.scRNA-seq


title: C24.6150657.scRNA-seq


title: C23.6150657.scRNA-seq


title: D02.6150657.scRNA-seq


title: C21.6150657.scRNA-seq


title: D01.6150657.scRNA-seq


title: C22.6150657.scRNA-seq


title: C20.6150657.scRNA-seq


title: C18.6150657.scRNA-seq


title: C19.6150657.scRNA-seq


title: C16.6150657.scRNA-seq


title: C15.6150657.scRNA-seq


title: C09.6150657.scRNA-seq


title: C14.6150657.scRNA-seq


title: C11.6150657.scRNA-seq


title: C10.6150657.scRNA-seq


title: C05.6150657.scRNA-seq


title: C04.6150657.scRNA-seq


title: B24.6150657.scRNA-seq


title: C03.6150657.scRNA-seq


title: C02.6150657.scRNA-seq


title: C01.6150657.scRNA-seq


title: B23.6150657.scRNA-seq


title: B21.6150657.scRNA-seq


title: B22.6150657.scRNA-seq


title: B17.6150657.scRNA-seq


title: B18.6150657.scRNA-seq


title: B19.6150657.scRNA-seq


title: B14.6150657.scRNA-seq


title: B16.6150657.scRNA-seq


title: B12.6150657.scRNA-seq


title: C17.6150657.scRNA-seq


title: B20.6150657.scRNA-seq


title: B15.6150657.scRNA-seq


title: B11.6150657.scRNA-seq


title: C13.6150657.scRNA-seq


title: B10.6150657.scRNA-seq


title: B13.6150657.scRNA-seq


title: B05.6150657.scRNA-seq


title: B03.6150657.scRNA-seq


title: B04.6150657.scRNA-seq


title: A22.6150657.scRNA-seq


title: B02.6150657.scRNA-seq


title: B09.6150657.scRNA-seq


title: B01.6150657.scRNA-seq


title: A24.6150657.scRNA-seq


title: A17.6150657.scRNA-seq


title: A21.6150657.scRNA-seq


title: A20.6150657.scRNA-seq


title: A19.6150657.scRNA-seq


title: A15.6150657.scRNA-seq


title: A13.6150657.scRNA-seq


title: A18.6150657.scRNA-seq


title: A12.6150657.scRNA-seq


title: A16.6150657.scRNA-seq


title: A11.6150657.scRNA-seq


title: A10.6150657.scRNA-seq


title: A02.6150657.scRNA-seq


title: A09.6150657.scRNA-seq


title: A03.6150657.scRNA-seq


title: A01.6150657.scRNA-seq


title: A14.6150657.scRNA-seq


title: E24.6150653.scRNA-seq


title: C12.6150657.scRNA-seq


title: A05.6150657.scRNA-seq


title: P24.6150653.scRNA-seq


title: A04.6150657.scRNA-seq


title: A23.6150657.scRNA-seq


title: B24.6150653.scRNA-seq


title: C24.6150653.scRNA-seq


title: N24.6150653.scRNA-seq


title: D24.6150653.scRNA-seq


title: O24.6150653.scRNA-seq


title: P23.6150653.scRNA-seq


title: L24.6150653.scRNA-seq


title: K24.6150653.scRNA-seq


title: M24.6150653.scRNA-seq


title: N23.6150653.scRNA-seq


title: J24.6150653.scRNA-seq


title: M23.6150653.scRNA-seq


title: I24.6150653.scRNA-seq


title: H24.6150653.scRNA-seq


title: L23.6150653.scRNA-seq


title: G24.6150653.scRNA-seq


title: P21.7350590.scRNA-seq


title: P20.7350590.scRNA-seq


title: F24.6150653.scRNA-seq


title: J23.6150653.scRNA-seq


title: P18.7350590.scRNA-seq


title: P16.7350590.scRNA-seq


title: P15.7350590.scRNA-seq


title: P14.7350590.scRNA-seq


title: P12.7350590.scRNA-seq


title: A24.6150653.scRNA-seq


title: P13.7350590.scRNA-seq


title: P10.7350590.scRNA-seq


title: P09.7350590.scRNA-seq


title: P06.7350590.scRNA-seq


title: P07.7350590.scRNA-seq


title: K23.6150653.scRNA-seq


title: P03.7350590.scRNA-seq


title: P05.7350590.scRNA-seq


title: O20.7350590.scRNA-seq


title: O19.7350590.scRNA-seq


title: P19.7350590.scRNA-seq


title: O21.7350590.scRNA-seq


title: P01.7350590.scRNA-seq


title: P17.7350590.scRNA-seq


title: O16.7350590.scRNA-seq


title: O12.7350590.scRNA-seq


title: O11.7350590.scRNA-seq


title: P08.7350590.scRNA-seq


title: O18.7350590.scRNA-seq


title: O10.7350590.scRNA-seq


title: O08.7350590.scRNA-seq


title: P11.7350590.scRNA-seq


title: O06.7350590.scRNA-seq


title: O09.7350590.scRNA-seq


title: O14.7350590.scRNA-seq


title: O07.7350590.scRNA-seq


title: O13.7350590.scRNA-seq


title: O05.7350590.scRNA-seq


title: O04.7350590.scRNA-seq


title: P04.7350590.scRNA-seq


title: N20.7350590.scRNA-seq


title: N19.7350590.scRNA-seq


title: O15.7350590.scRNA-seq


title: P02.7350590.scRNA-seq


title: N14.7350590.scRNA-seq


title: O03.7350590.scRNA-seq


title: O02.7350590.scRNA-seq


title: N13.7350590.scRNA-seq


title: N10.7350590.scRNA-seq


title: N09.7350590.scRNA-seq


title: O17.7350590.scRNA-seq


title: N08.7350590.scRNA-seq


title: N18.7350590.scRNA-seq


title: N05.7350590.scRNA-seq


title: N21.7350590.scRNA-seq


title: N16.7350590.scRNA-seq


title: O01.7350590.scRNA-seq


title: N17.7350590.scRNA-seq


title: N15.7350590.scRNA-seq


title: N12.7350590.scRNA-seq


title: N01.7350590.scRNA-seq


title: N11.7350590.scRNA-seq


title: M20.7350590.scRNA-seq


title: M17.7350590.scRNA-seq


title: M18.7350590.scRNA-seq


title: N07.7350590.scRNA-seq


title: N03.7350590.scRNA-seq


title: N04.7350590.scRNA-seq


title: M19.7350590.scRNA-seq


title: M16.7350590.scRNA-seq


title: N06.7350590.scRNA-seq


title: M15.7350590.scRNA-seq


title: M13.7350590.scRNA-seq


title: M14.7350590.scRNA-seq


title: M08.7350590.scRNA-seq


title: M10.7350590.scRNA-seq


title: M11.7350590.scRNA-seq


title: M09.7350590.scRNA-seq


title: M07.7350590.scRNA-seq


title: M12.7350590.scRNA-seq


title: M05.7350590.scRNA-seq


title: M03.7350590.scRNA-seq


title: N02.7350590.scRNA-seq


title: M06.7350590.scRNA-seq


title: M21.7350590.scRNA-seq


title: M04.7350590.scRNA-seq


title: M02.7350590.scRNA-seq


title: M01.7350590.scRNA-seq


title: L21.7350590.scRNA-seq


title: L20.7350590.scRNA-seq


title: L19.7350590.scRNA-seq


title: L15.7350590.scRNA-seq


title: L13.7350590.scRNA-seq


title: L17.7350590.scRNA-seq


title: L12.7350590.scRNA-seq


title: L18.7350590.scRNA-seq


title: L10.7350590.scRNA-seq


title: L08.7350590.scRNA-seq


title: L11.7350590.scRNA-seq


title: L04.7350590.scRNA-seq


title: L02.7350590.scRNA-seq


title: L01.7350590.scRNA-seq


title: L05.7350590.scRNA-seq


title: L07.7350590.scRNA-seq


title: L06.7350590.scRNA-seq


title: K17.7350590.scRNA-seq


title: K18.7350590.scRNA-seq


title: K21.7350590.scRNA-seq


title: K15.7350590.scRNA-seq


title: K14.7350590.scRNA-seq


title: L16.7350590.scRNA-seq


title: K13.7350590.scRNA-seq


title: K19.7350590.scRNA-seq


title: K16.7350590.scRNA-seq


title: K12.7350590.scRNA-seq


title: L09.7350590.scRNA-seq


title: K20.7350590.scRNA-seq


title: K07.7350590.scRNA-seq


title: K08.7350590.scRNA-seq


title: K09.7350590.scRNA-seq


title: K05.7350590.scRNA-seq


title: K06.7350590.scRNA-seq


title: K04.7350590.scRNA-seq


title: K11.7350590.scRNA-seq


title: K10.7350590.scRNA-seq


title: K02.7350590.scRNA-seq


title: K01.7350590.scRNA-seq


title: K03.7350590.scRNA-seq


title: J20.7350590.scRNA-seq


title: J19.7350590.scRNA-seq


title: J14.7350590.scRNA-seq


title: J21.7350590.scRNA-seq


title: J16.7350590.scRNA-seq


title: J15.7350590.scRNA-seq


title: J13.7350590.scRNA-seq


title: J10.7350590.scRNA-seq


title: J09.7350590.scRNA-seq


title: J06.7350590.scRNA-seq


title: J08.7350590.scRNA-seq


title: L03.7350590.scRNA-seq


title: J11.7350590.scRNA-seq


title: J18.7350590.scRNA-seq


title: J03.7350590.scRNA-seq


title: J04.7350590.scRNA-seq


title: J01.7350590.scRNA-seq


title: I18.7350590.scRNA-seq


title: I19.7350590.scRNA-seq


title: I17.7350590.scRNA-seq


title: I20.7350590.scRNA-seq


title: J02.7350590.scRNA-seq


title: J17.7350590.scRNA-seq


title: I15.7350590.scRNA-seq


title: I16.7350590.scRNA-seq


title: J12.7350590.scRNA-seq


title: I12.7350590.scRNA-seq


title: I13.7350590.scRNA-seq


title: I09.7350590.scRNA-seq


title: J07.7350590.scRNA-seq


title: I14.7350590.scRNA-seq


title: I11.7350590.scRNA-seq


title: I06.7350590.scRNA-seq


title: I03.7350590.scRNA-seq


title: I21.7350590.scRNA-seq


title: I07.7350590.scRNA-seq


title: J05.7350590.scRNA-seq


title: H21.7350590.scRNA-seq


title: I05.7350590.scRNA-seq


title: H19.7350590.scRNA-seq


title: H17.7350590.scRNA-seq


title: I01.7350590.scRNA-seq


title: H20.7350590.scRNA-seq


title: I02.7350590.scRNA-seq


title: I04.7350590.scRNA-seq


title: H15.7350590.scRNA-seq


title: H18.7350590.scRNA-seq


title: H14.7350590.scRNA-seq


title: H13.7350590.scRNA-seq


title: H12.7350590.scRNA-seq


title: I08.7350590.scRNA-seq


title: I10.7350590.scRNA-seq


title: H09.7350590.scRNA-seq


title: H10.7350590.scRNA-seq


title: H06.7350590.scRNA-seq


title: H07.7350590.scRNA-seq


title: H08.7350590.scRNA-seq


title: H03.7350590.scRNA-seq


title: H04.7350590.scRNA-seq


title: H02.7350590.scRNA-seq


title: H05.7350590.scRNA-seq


title: G21.7350590.scRNA-seq


title: H01.7350590.scRNA-seq


title: G20.7350590.scRNA-seq


title: H16.7350590.scRNA-seq


title: G18.7350590.scRNA-seq


title: G17.7350590.scRNA-seq


title: G14.7350590.scRNA-seq


title: G15.7350590.scRNA-seq


title: G19.7350590.scRNA-seq


title: G10.7350590.scRNA-seq


title: G13.7350590.scRNA-seq


title: G11.7350590.scRNA-seq


title: G08.7350590.scRNA-seq


title: G07.7350590.scRNA-seq


title: G06.7350590.scRNA-seq


title: G12.7350590.scRNA-seq


title: H11.7350590.scRNA-seq


title: G05.7350590.scRNA-seq


title: G09.7350590.scRNA-seq


title: G04.7350590.scRNA-seq


title: G03.7350590.scRNA-seq


title: F21.7350590.scRNA-seq


title: G01.7350590.scRNA-seq


title: G02.7350590.scRNA-seq


title: F19.7350590.scRNA-seq


title: F20.7350590.scRNA-seq


title: F18.7350590.scRNA-seq


title: F14.7350590.scRNA-seq


title: F15.7350590.scRNA-seq


title: F17.7350590.scRNA-seq


title: G16.7350590.scRNA-seq


title: F10.7350590.scRNA-seq


title: F16.7350590.scRNA-seq


title: F12.7350590.scRNA-seq


title: F09.7350590.scRNA-seq


title: F13.7350590.scRNA-seq


title: F11.7350590.scRNA-seq


title: F08.7350590.scRNA-seq


title: F04.7350590.scRNA-seq


title: F07.7350590.scRNA-seq


title: F05.7350590.scRNA-seq


title: F02.7350590.scRNA-seq


title: F01.7350590.scRNA-seq


title: F06.7350590.scRNA-seq


title: E21.7350590.scRNA-seq


title: E20.7350590.scRNA-seq


title: E19.7350590.scRNA-seq


title: E16.7350590.scRNA-seq


title: E17.7350590.scRNA-seq


title: E15.7350590.scRNA-seq


title: E13.7350590.scRNA-seq


title: E14.7350590.scRNA-seq


title: E12.7350590.scRNA-seq


title: E11.7350590.scRNA-seq


title: F03.7350590.scRNA-seq


title: E04.7350590.scRNA-seq


title: E06.7350590.scRNA-seq


title: E09.7350590.scRNA-seq


title: E07.7350590.scRNA-seq


title: E10.7350590.scRNA-seq


title: E02.7350590.scRNA-seq


title: E01.7350590.scRNA-seq


title: E08.7350590.scRNA-seq


title: D21.7350590.scRNA-seq


title: D20.7350590.scRNA-seq


title: E05.7350590.scRNA-seq


title: D19.7350590.scRNA-seq


title: E03.7350590.scRNA-seq


title: D15.7350590.scRNA-seq


title: D16.7350590.scRNA-seq


title: D18.7350590.scRNA-seq


title: D17.7350590.scRNA-seq


title: D14.7350590.scRNA-seq


title: E18.7350590.scRNA-seq


title: D12.7350590.scRNA-seq


title: D13.7350590.scRNA-seq


title: D10.7350590.scRNA-seq


title: D07.7350590.scRNA-seq


title: D09.7350590.scRNA-seq


title: D06.7350590.scRNA-seq


title: D08.7350590.scRNA-seq


title: D11.7350590.scRNA-seq


title: D05.7350590.scRNA-seq


title: C20.7350590.scRNA-seq


title: D01.7350590.scRNA-seq


title: D02.7350590.scRNA-seq


title: C21.7350590.scRNA-seq


title: D03.7350590.scRNA-seq


title: D04.7350590.scRNA-seq


title: C19.7350590.scRNA-seq


title: C17.7350590.scRNA-seq


title: C18.7350590.scRNA-seq


title: C12.7350590.scRNA-seq


title: C13.7350590.scRNA-seq


title: C15.7350590.scRNA-seq


title: C08.7350590.scRNA-seq


title: C11.7350590.scRNA-seq


title: C10.7350590.scRNA-seq


title: C14.7350590.scRNA-seq


title: C09.7350590.scRNA-seq


title: C07.7350590.scRNA-seq


title: C02.7350590.scRNA-seq


title: C06.7350590.scRNA-seq


title: C05.7350590.scRNA-seq


title: C04.7350590.scRNA-seq


title: C03.7350590.scRNA-seq


title: B18.7350590.scRNA-seq


title: C16.7350590.scRNA-seq


title: C01.7350590.scRNA-seq


title: B20.7350590.scRNA-seq


title: B15.7350590.scRNA-seq


title: B21.7350590.scRNA-seq


title: B16.7350590.scRNA-seq


title: B17.7350590.scRNA-seq


title: B14.7350590.scRNA-seq


title: B11.7350590.scRNA-seq


title: B10.7350590.scRNA-seq


title: B13.7350590.scRNA-seq


title: B12.7350590.scRNA-seq


title: B07.7350590.scRNA-seq


title: B02.7350590.scRNA-seq


title: B06.7350590.scRNA-seq


title: B05.7350590.scRNA-seq


title: B09.7350590.scRNA-seq


title: B04.7350590.scRNA-seq


title: B03.7350590.scRNA-seq


title: B19.7350590.scRNA-seq


title: A22.7350590.scRNA-seq


title: A20.7350590.scRNA-seq


title: A19.7350590.scRNA-seq


title: B01.7350590.scRNA-seq


title: A18.7350590.scRNA-seq


title: A17.7350590.scRNA-seq


title: A15.7350590.scRNA-seq


title: A16.7350590.scRNA-seq


title: A13.7350590.scRNA-seq


title: A21.7350590.scRNA-seq


title: A12.7350590.scRNA-seq


title: A09.7350590.scRNA-seq


title: A10.7350590.scRNA-seq


title: A06.7350590.scRNA-seq


title: A07.7350590.scRNA-seq


title: A08.7350590.scRNA-seq


title: A04.7350590.scRNA-seq


title: A03.7350590.scRNA-seq


title: B08.7350590.scRNA-seq


title: P23.7350589.scRNA-seq


title: P24.7350589.scRNA-seq


title: P21.7350589.scRNA-seq


title: P19.7350589.scRNA-seq


title: P18.7350589.scRNA-seq


title: P16.7350589.scRNA-seq


title: P17.7350589.scRNA-seq


title: A11.7350590.scRNA-seq


title: P13.7350589.scRNA-seq


title: P12.7350589.scRNA-seq


title: P11.7350589.scRNA-seq


title: P10.7350589.scRNA-seq


title: P09.7350589.scRNA-seq


title: P08.7350589.scRNA-seq


title: P04.7350589.scRNA-seq


title: A05.7350590.scRNA-seq


title: P02.7350589.scRNA-seq


title: P01.7350589.scRNA-seq


title: P03.7350589.scRNA-seq


title: O24.7350589.scRNA-seq


title: A02.7350590.scRNA-seq


title: P06.7350589.scRNA-seq


title: P22.7350589.scRNA-seq


title: A01.7350590.scRNA-seq


title: O22.7350589.scRNA-seq


title: O21.7350589.scRNA-seq


title: O20.7350589.scRNA-seq


title: O19.7350589.scRNA-seq


title: P14.7350589.scRNA-seq


title: P15.7350589.scRNA-seq


title: P07.7350589.scRNA-seq


title: O17.7350589.scRNA-seq


title: O18.7350589.scRNA-seq


title: O16.7350589.scRNA-seq


title: O15.7350589.scRNA-seq


title: O11.7350589.scRNA-seq


title: O14.7350589.scRNA-seq


title: P05.7350589.scRNA-seq


title: O12.7350589.scRNA-seq


title: O13.7350589.scRNA-seq


title: O08.7350589.scRNA-seq


title: O23.7350589.scRNA-seq


title: O09.7350589.scRNA-seq


title: O07.7350589.scRNA-seq


title: O06.7350589.scRNA-seq


title: O01.7350589.scRNA-seq


title: N24.7350589.scRNA-seq


title: O03.7350589.scRNA-seq


title: O02.7350589.scRNA-seq


title: O04.7350589.scRNA-seq


title: O05.7350589.scRNA-seq


title: N21.7350589.scRNA-seq


title: N20.7350589.scRNA-seq


title: N22.7350589.scRNA-seq


title: N23.7350589.scRNA-seq


title: N18.7350589.scRNA-seq


title: N16.7350589.scRNA-seq


title: N14.7350589.scRNA-seq


title: N15.7350589.scRNA-seq


title: N17.7350589.scRNA-seq


title: N13.7350589.scRNA-seq


title: N12.7350589.scRNA-seq


title: O10.7350589.scRNA-seq


title: N09.7350589.scRNA-seq


title: N10.7350589.scRNA-seq


title: N11.7350589.scRNA-seq


title: N08.7350589.scRNA-seq


title: N07.7350589.scRNA-seq


title: N04.7350589.scRNA-seq


title: N06.7350589.scRNA-seq


title: N05.7350589.scRNA-seq


title: N03.7350589.scRNA-seq


title: N01.7350589.scRNA-seq


title: M23.7350589.scRNA-seq


title: M22.7350589.scRNA-seq


title: N02.7350589.scRNA-seq


title: N19.7350589.scRNA-seq


title: M19.7350589.scRNA-seq


title: M24.7350589.scRNA-seq


title: M21.7350589.scRNA-seq


title: M16.7350589.scRNA-seq


title: M17.7350589.scRNA-seq


title: M15.7350589.scRNA-seq


title: M14.7350589.scRNA-seq


title: M12.7350589.scRNA-seq


title: M10.7350589.scRNA-seq


title: M11.7350589.scRNA-seq


title: M13.7350589.scRNA-seq


title: M08.7350589.scRNA-seq


title: M04.7350589.scRNA-seq


title: M06.7350589.scRNA-seq


title: M09.7350589.scRNA-seq


title: M03.7350589.scRNA-seq


title: M02.7350589.scRNA-seq


title: M07.7350589.scRNA-seq


title: M01.7350589.scRNA-seq


title: L24.7350589.scRNA-seq


title: M18.7350589.scRNA-seq


title: L23.7350589.scRNA-seq


title: L20.7350589.scRNA-seq


title: L22.7350589.scRNA-seq


title: L19.7350589.scRNA-seq


title: L21.7350589.scRNA-seq


title: M20.7350589.scRNA-seq


title: L16.7350589.scRNA-seq


title: L18.7350589.scRNA-seq


title: L14.7350589.scRNA-seq


title: L12.7350589.scRNA-seq


title: L13.7350589.scRNA-seq


title: L15.7350589.scRNA-seq


title: L11.7350589.scRNA-seq


title: L10.7350589.scRNA-seq


title: M05.7350589.scRNA-seq


title: L08.7350589.scRNA-seq


title: L07.7350589.scRNA-seq


title: L09.7350589.scRNA-seq


title: L04.7350589.scRNA-seq


title: L03.7350589.scRNA-seq


title: L06.7350589.scRNA-seq


title: K24.7350589.scRNA-seq


title: K23.7350589.scRNA-seq


title: K22.7350589.scRNA-seq


title: L05.7350589.scRNA-seq


title: L17.7350589.scRNA-seq


title: K20.7350589.scRNA-seq


title: K21.7350589.scRNA-seq


title: K18.7350589.scRNA-seq


title: K17.7350589.scRNA-seq


title: K16.7350589.scRNA-seq


title: K15.7350589.scRNA-seq


title: K14.7350589.scRNA-seq


title: L02.7350589.scRNA-seq


title: K13.7350589.scRNA-seq


title: K12.7350589.scRNA-seq


title: L01.7350589.scRNA-seq


title: K10.7350589.scRNA-seq


title: K19.7350589.scRNA-seq


title: K08.7350589.scRNA-seq


title: K09.7350589.scRNA-seq


title: K11.7350589.scRNA-seq


title: K06.7350589.scRNA-seq


title: K07.7350589.scRNA-seq


title: K05.7350589.scRNA-seq


title: K04.7350589.scRNA-seq


title: 191RQS28

city: Cambridge

first: Philip

last: Wigge

address: 47 Bateman street

department: Sainsbury Laboratory

country: United Kingdom

institute: Cambridge University

data_processing:
Genome_build: TAIR10
Raw fastq were uploaded to Bluebee Genomics Platform and analysed with Quantseq FWD analysis pipeline (https://www.lexogen.com/quantseq-data-analysis/). Briefly, the raw reads were trimmed with BBDuk and aligned to GTF-annotated genome with STAR.
Supplementary_files_format_and_content: *.csv: reported by STAR, the read counts and the calculated count-per-million (CPM) values

organism: Arabidopsis thaliana

source_name: seedlings

growth_protocol:
Seeds were surface-sterilised using ethanol or vapour-phase sterilisation (Clough & Bent, 1998) and stratified in respective growth media in the dark at 4˚C for 72 hours. Growth cabinets were maintained at 65% relative humidity and 170 µmol/m2/s light, unless specified otherwise, and as specified per experiment seedlings were grown at 20˚C with a 12-hour photoperiod or at 22˚C with either continuous light, a 16-hour long-day photoperiod or an 8-hour short-day photoperiod.
For gene expression analyses, SUnSET assays, seedlings were grown for 7-9 days in half-strength Murashige-Skoog liquid medium (½×MS; 0.22% w/v Murashige-Skoog mix including vitamins; M0222, Duchefa) containing 0.05% w/v MES (2-[N-morpholino]ethanesulfonic acid; 69892, Sigma), adjusted to pH 5.7 and supplemented with 0.1% w/v glucose after autoclaving (‘½MMG medium’ hereafter) (22˚C long days, with the following exceptions: 22˚C short days for Fig. 1C, and 22˚C continuous light for Figs. 2B, 3A, 3B, 4E). The seedlings were cultured in 12- or 6-well plates (657-160 and 665-180, Greiner Bio-One), with 1 mL or 2 mL of liquid medium per well, respectively, and sealed with Micropore tape. For aequorin-based calcium measurements, seedlings were grown in ½MMG for 8 to 12 days at 20˚C with a 12-hour photoperiod.

extract_protocol:
For transcriptomic analyses by RNA-seq, total RNA was extracted and DNase-treated using MagMAX-96 Total RNA Isolation Kit (AM1830, Thermo Fisher Scientific). RNA was quantified using the Qubit fluorometer (Thermo Fisher Scientific) and RNA profiles were analysed using a TapeStation 2200 (Agilent) with RNA ScreenTapes (5067-5576, Agilent).
Libraries for sequencing were prepared from 500 ng RNA using the QuantSeq 3’ mRNA-Seq Library Prep Kit (Lexogen), according to manufacturer instructions. DNA libraries were quantified using a Qubit fluorometer, and library profiles were analysed using a TapeStation 2200 with High Sensitivity D1000 ScreenTapes (5067-5584, Agilent). Libraries were sequenced on a NextSeq-500 (Illumina; paired-end 75bp reads), according to Illumina guidelines.

value: COL

tag: cultivar

value: seedlings

tag: photoperiod

value: LD(16-hour long-day)

tag: temperature

tag: replicate

value: single


title: 191RQS32


title: 191RQS29


title: 191RQS31


title: 191RQS26

value: {{TBC}}h


title: 191RQS30


title: 191RQS25


title: K02.7350589.scRNA-seq


title: K01.7350589.scRNA-seq


title: 191RQS23


title: 191RQS24


title: J24.7350589.scRNA-seq


title: J23.7350589.scRNA-seq


title: 191RQS22


title: J22.7350589.scRNA-seq


title: K03.7350589.scRNA-seq


title: J20.7350589.scRNA-seq


title: J19.7350589.scRNA-seq


title: J21.7350589.scRNA-seq


title: 191RQS18


title: 191RQS19


title: 191RQS21


title: 191RQS20


title: 191RQS17


title: J18.7350589.scRNA-seq


title: J16.7350589.scRNA-seq


title: J15.7350589.scRNA-seq


title: J14.7350589.scRNA-seq


title: J11.7350589.scRNA-seq


title: J13.7350589.scRNA-seq


title: J12.7350589.scRNA-seq


title: J10.7350589.scRNA-seq


title: J17.7350589.scRNA-seq


title: O23.6150653.scRNA-seq


title: 191RQS8


title: 191RQS7


title: 191RQS10


title: 191RQS16


title: 191RQS15


title: 191RQS13


title: J07.7350589.scRNA-seq


title: J08.7350589.scRNA-seq


title: J09.7350589.scRNA-seq


title: 191RQS3


title: 191RQS4


title: 191RQS5


title: 191RQS12


title: J06.7350589.scRNA-seq


title: 191RQS2


title: J05.7350589.scRNA-seq


title: 191RQS1


title: J02.7350589.scRNA-seq


title: 190RQS28


title: J04.7350589.scRNA-seq


title: J01.7350589.scRNA-seq


title: I24.7350589.scRNA-seq


title: J03.7350589.scRNA-seq


title: 190RQS27


title: 190RQS26


title: 190RQS25


title: I23.7350589.scRNA-seq


title: 190RQS24


title: I22.7350589.scRNA-seq


title: 190RQS22


title: 190RQS23


title: I19.7350589.scRNA-seq


title: I21.7350589.scRNA-seq


title: I18.7350589.scRNA-seq


title: 190RQS21


title: 190RQS19


title: I17.7350589.scRNA-seq


title: I16.7350589.scRNA-seq


title: Myoblast_NC_1

type: genomic

city: Malmö

first: Charlotte

last: Ling

address: Jan Waldenströms gata 35, CRC 91:12

department: Clinical Sciences

country: Sweden

institute: Lund University

hyb_protocol: According to the manufacturer’s recommendations. Paired samples (VPS39 knockdown and control from the same experiment, n=6 independent experiments) were analyzed on the same chip.

data_processing: Raw fluorescence intensities were extracted to obtain raw methylation score for each DNA methylation site. All samples passed the quality control based on built-in control probes for staining, hybridization, extension and specificity. Bisulfite conversion efficiency was of high-quality (signal intensity >4,000). DNA methylation data were exported from GenomeStudio, and converted to M-values. Quantile normalization, background correction and BMIQ were performed to analyze the data using Bioconductor 8. Targets for probes with a mean detection p-value >0.01, rs-probes, Y-chromosome probes, probes based on at least 49 cross reactivity and probes with a MAF >0.1 were removed from the initial analysis. Data for 817,702 CpG sites remained.

label: Cy3, Cy5

source_name: Myoblast, NC

growth_protocol: Muscle stem cells were isolated from human vastus lateralis muscle biopsies. Isolated myoblasts were cultured in growth medium (HAM’s/F10 supplemented with 20% fetal bovine serum (FBS), 1% penicillin/streptomycin and 1% Amphotericin B) until 70% confluent. To induce differentiation, cells were incubated in differentiation medium 1 (DMEM with 1.0 g/l L glucose supplemented with 10% FBS and 1% penicillin/streptomycin) for 2 days, followed by differentiation medium 2 (DMEM with 4.5 g/l L glucose supplemented with 2% horse serum and 1% penicillin/streptomycin).

extract_protocol: DNA was extracted by using DNeasy Blood and Tissue kit (Qiagen #69504, Hilden, Germany). Quantity and purity of DNA were determined using a NanoDrop 1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA).

treatment_protocol: At the start of differentiation, primary human myoblasts were transfected with ON-TARGETplus human set of four siRNA molecules (Dharmacon, Lafayette, CO, USA) targeting VPS39 (LQ-014052-01, siVPS39) or a negative control (Non-targeting plus #D-001810-10, NC). siRNAs were mixed with Opti-MEM reduced serum medium (Gibco, ThermoFisher Scientific, #31985-062) and Lipofectamine RNAiMAX (Invitrogen, #13778-075) (≈0.8 µl/cm2, ≈0.3% [v/v]) and incubated for 20 minutes at room temperature. siRNA/Lipofectamine in Opti-MEM was then diluted 1:5 (corresponding to a final siRNA concentration of 50 nM) in differentiation medium 1 without antibiotics, and added to the cells. Myoblasts were then cultured and differentiated as described. Cells were harvested at day 3 after the start of differentiation and siRNA transfection.

value: Negative control (NC)


title: 190RQS17


title: 190RQS18


title: 190RQS20


title: 190RQS16


title: Myoblast_siVPS39_3

scan_protocol: According to the manufacturer’s recommendations.

source_name: Myoblast, siVPS39

value: VPS39-silenced (siVPS39)


title: 190RQS15


title: Myoblast_siVPS39_5

label_protocol: According to the manufacturer’s recommendations.


title: Myoblast_siVPS39_4


title: Myoblast_NC_4


title: Myoblast_siVPS39_6


title: Myoblast_NC_6


title: 191RQS9


title: I10.7350589.scRNA-seq


title: I07.7350589.scRNA-seq


title: I13.7350589.scRNA-seq


title: Myoblast_NC_2


title: 190RQS13


title: I11.7350589.scRNA-seq


title: Myoblast_NC_3


title: 190RQS12


title: Myoblast_siVPS39_1


title: 190RQS11


title: 190RQS7


title: I12.7350589.scRNA-seq


title: Myoblast_siVPS39_2


title: Myoblast_NC_5


title: 190RQS10


title: I06.7350589.scRNA-seq


title: I09.7350589.scRNA-seq


title: 190RQS9


title: I15.7350589.scRNA-seq


title: I08.7350589.scRNA-seq


title: I04.7350589.scRNA-seq


title: 190RQS8


title: 190RQS4


title: 190RQS6


title: 190RQS5


title: I05.7350589.scRNA-seq


title: I03.7350589.scRNA-seq


title: I01.7350589.scRNA-seq


title: 190RQS3


title: 190RQS2


title: 190RQS1


title: H24.7350589.scRNA-seq


title: H23.7350589.scRNA-seq


title: 198CS9

data_processing:
Genome_build: TAIR10
Adapters were trimmed off from raw reads with Trimmomatic with argument "ILLUMINACLIP:$FA_ADAPTER:6:30:10 LEADING:3 TRAILING:3 MINLEN:36 SLIDINGWINDOW:4:15". Raw reads were mapped to the genome "TAIR10" with Bowtie2 under argument:"--no-mixed --no-discordant --no-unal -k2". Any read that mapped to more than one genomic location was discarded. PCR duplicate reads were removed with Picard using default setting.
Genomic binding profile was quantified in RPKM (Reads Per Kilobase per Million mapped reads) using a bin-size of 10bp. "deeptools.bamCoverage" is used.
For each treated ChIP-Seq library, peaks were called against a chipseq input sample 195CS13 using MACS2 with argument "--keep-dup 1 -p 0.1".
Supplementary_files_format_and_content:  *.narrowPeak: containing MACS2-called peaks. as described
Supplementary_files_format_and_content:  *_RPKM.bw: RPKM-normalised bigwig track at 10bp resolution

source_name: seedling

growth_protocol:
Seeds were surface-sterilised using ethanol or vapour-phase sterilisation (Clough & Bent, 1998) and stratified in respective growth media in the dark at 4˚C for 72 hours. Growth cabinets were maintained at 65% relative humidity and 170 µmol/m2/s light, unless specified otherwise, and as specified per experiment seedlings were grown at 20˚C with a 12-hour photoperiod or at 22˚C with either continuous light, a 16-hour long-day photoperiod or an 8-hour short-day photoperiod.
For ChIP-seq, A. thaliana seedlings were grown for 8 days on 1-mm-pore nylon mesh rafts placed on half-strength MS medium (pH 5.7) with 0.8% w/v agar (P1001, Duchefa) (‘MS agar’ hereafter) (22˚C long days).

extract_protocol:
The seedling were grown for 10 days and treated as indicated. 3 g plant material for each treatment was fixed under vacuum for 20min in 1xPBS (10 mM PO43−, 137 mM NaCl, and 2.7 mM KCl) containing 1% Formaldehyde (F8775 SIGMA). The reaction was quenched by adding glycine to a final concentration of 62mM. Chromatin immunoprecipitation (ChIP) was performed as described (Jaeger et al), with the exception that 100μl of ANTI-FLAG® M2 Affinity Gel (A2220 Sigma) were used for immunoprecipitation.
Sequencing libraries were prepared using TruSeq ChIP Sample Preparation Kit (Illumina, IP-202-1024) and prepared according to manufacturer instructions. DNA libraries were quantified using a Qubit fluorometer, and liibrary profiles were analysed using a TapeStation 2200 with High Sensitivity D1000 ScreenTapes (5067-5584, Agilent). Libraries were sequenced on a NextSeq-500 (Illumina; single end, 75bp reads) according to Illumina guidelines.

value: seedling

value: long days (16L/8D)

tag: fragmentation method

value: sonication

tag: chip antibody

value: FLAG M2 agarose affinity gel antibody SIGMA A2243

tag: age

value: 8 days

tag: objective time


title: I14.7350589.scRNA-seq

value: 6 somite stage


title: 198CS7

tag: genotype

tag: tissue

value: FLAG M2 agarose affinity gel antibody SIGMA A2241


title: 198CS6

value: FLAG M2 agarose affinity gel antibody SIGMA A2240


title: 198CS8

value: FLAG M2 agarose affinity gel antibody SIGMA A2242


title: 190RQS14


title: H22.7350589.scRNA-seq

value: Cranial neural crest cells


title: I20.7350589.scRNA-seq


title: 198CS4

value: FLAG M2 agarose affinity gel antibody SIGMA A2238


title: 198CS5

value: FLAG M2 agarose affinity gel antibody SIGMA A2239


title: 198CS3

value: FLAG M2 agarose affinity gel antibody SIGMA A2237


title: 198CS24

value: CAMTA3-FLAG in camta123

value: single

value: FLAG M2 agarose affinity gel antibody SIGMA A2236


title: H21.7350589.scRNA-seq


title: H18.7350589.scRNA-seq


title: H20.7350589.scRNA-seq


title: H16.7350589.scRNA-seq


title: H19.7350589.scRNA-seq


title: 191RQS14

value: seedlings

value: LD(16-hour long-day)


title: H15.7350589.scRNA-seq


title: 198CS22

value: CAMTA2-FLAG in camta123

value: seedling

value: long days (16L/8D)

value: FLAG M2 agarose affinity gel antibody SIGMA A2234