title: VAS7564A37

description:
Library name: VAS7564A37
C5HetVav_male_ileum_IEL_time_8_weeks_1


title: VAS7564A3

status: Public on Nov 20 2025

type: SRA

city: London

first: Probir

last: Chakravarty

address: 1Midland Road

country: United Kingdom

institute: Francis Crick

description:
Library name: VAS7564A3
C5HetVav_male_ileum_LP_time_8_weeks_1

library_source: transcriptomic

data_processing:
Trim adapters with Trimmomatic v0.39
Align reads to mm10 with STAR 2.7.11b
Count reads with Salmon 1.10.3
Variance-stabilised counts with DESeq2 (vst)
Assembly: GRCm38 release-95
Supplementary files format and content: csv format – vst normalized data

molecule: total RNA

organism: Mus musculus

source_name: LP

extract_protocol:
Small intestines were cut into small pieces digested and isolated following the instructions provided in Miltenyi Biotec Lamina propria dissociation kit protocol, 130-097-410. lamina propria and intraepithelial cells were resuspended in FACS buffer after centrifugation. Single cell suspensions were stained with lineage exclusion antibodies against CD19, CD3, NK1.1, Ly6G and gated in CD45+, CD11b+, CD64+ then, FACS sorted on an Aria Fusion (BD) with a 100um nozzle.
RNA-seq libraries were made using total RNA made with KAPA RNA HyperPrep with RiboErase following manufacturer’s instructions (Roche, 08098131702). SMART‑Seq libraries were pooled and sequenced on an Illumina NovaSeq 6000 (2 × 100 bp) (Illumina).

tag: tissue

value: LP

tag: genotype

value: CTRL

tag: batch


title: VAS7564A22

description:
Library name: VAS7564A22
C5deltaVav_female_colon_LP_time_8_weeks_2

value: KO


title: VAS7564A21

description:
Library name: VAS7564A21
C5deltaVav_female_colon_LP_time_8_weeks_1


title: VAS7564A2

description:
Library name: VAS7564A2
C5HetVav_female_ileum_LP_time_8_weeks_2


title: VAS7564A20

description:
Library name: VAS7564A20
C5HetVav_male_colon_LP_time_8_weeks_2


title: VAS7564A17

description:
Library name: VAS7564A17
C5HetVav_female_colon_LP_time_8_weeks_1


title: VAS7564A19

description:
Library name: VAS7564A19
C5HetVav_male_colon_LP_time_8_weeks_1


title: VAS7564A18

description:
Library name: VAS7564A18
C5HetVav_female_colon_LP_time_8_weeks_2


title: VAS7564A14

description:
Library name: VAS7564A14
C5deltaVav_female_ileum_IEL_time_8_weeks_2

source_name: IEL

value: IEL


title: VAS7564A13

description:
Library name: VAS7564A13
C5deltaVav_female_ileum_IEL_time_8_weeks_1


title: VAS7564A12

description:
Library name: VAS7564A12
C5HetVav_male_ileum_IEL_time_8_weeks_2


title: VAS7564A11

description:
Library name: VAS7564A11
C5HetVav_male_ileum_IEL_time_8_weeks_1


title: VAS7564A10

description:
Library name: VAS7564A10
C5HetVav_female_ileum_IEL_time_8_weeks_2


title: VAS7564A1

description:
Library name: VAS7564A1
C5HetVav_female_ileum_LP_time_8_weeks_1


title: C5HetVav.4

status: Public on Nov 13 2025

description: Library name: C5HetVav.4

library_source: transcriptomic single cell

data_processing:
Raw FASTQ reads were initially processed by the Cell Ranger version 9.0.0 pipeline, aligning to the mm10 (GRCm38, version 93) transcriptome
All subsequent analyses were performed in R (version 4.4.1)  using the Seurat (version 5.2.1) package
Assembly: mm10 [GRCm38]
Supplementary files format and content: Tab-separated barcodes ID's, features files and count files
Supplementary files format and content: Tab-separated meta.data from Seurat object with annotation, sample and UMAP embeddings per cell.

source_name: small intestine lamina propria

extract_protocol:
Small intestines  were cut into small pieces. Digested and isolated following the instructions provided in Miltenyi Biotec Lamina propria dissociation kit protocol, 130-097-410. Cells were resuspended in FACS buffer after centrifugation. Single cell suspensions were stained with CD45 antibody FACS sorted on an Aria Fusion (BD) with a 100um nozzle.
scRNA-seq

value: small intestine lamina propria

tag: gender

value: male

value: WT


title: C5HetVav.2

description: Library name: C5HetVav.2

value: female


title: C5HetVav.3

description: Library name: C5HetVav.3


title: C5HetVav.1

description: Library name: C5HetVav.1


title: C5deltaVav.4

description: Library name: C5deltaVav.4


title: C5deltaVav.3

description: Library name: C5deltaVav.3


title: Mouse Thymus (APC), Perinatal Day 28, Wild-type, Sample 1

status: Public on Oct 28 2025

city: Nashville

first: Qi

last: Liu

state: Tennessee

address: 2525 WEST END AVE

country: USA

institute: Vanderbilt University Medical Center

data_processing:
The demultiplexing, barcoded processing, gene counting and aggregation were performed with Cell Ranger software v6.0.1 (https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/what-is-cell-ranger)
Assembly: mm10
Supplementary files format and content: Tab-separated value files and matrix files with gene names, cell barcodes, and raw expression counts

source_name: Thymus

extract_protocol:
To sort hematopoietic APCs for scRNA-sequencing, thymi were harvested and enzymatically digested with an enzymatic solution comprising  LiberaseTM (Roche) and DNAse I in PBs at 37 degrees celsius. Isolated cells were spun down and stained with the corresponding panel of antibodies. The sort samples were resuspended in FWB+ EDTA buffer plus propidium iodide (Enzo). Sorted hematopoietic APCsells were then spun down in FWB without EDTA, counted and resuspended at a concentration of 700-1200 cells/µL prior to submission to the sequencing core.
Library prep was performed per the manufacturer's protocol for scRNA-seq samples (Chromium Next GEM Single Cell 3' v3.1).

value: Thymus

tag: cell type

value: Antigen Presenting Cells

value: Wild Type


title: C5deltaVav.1

description: Library name: C5deltaVav.1


title: Mouse Thymus (APC), Perinatal Day 28, Wild-type, Hashtagged Sample (GEX)


title: C5deltaVav.2

description: Library name: C5deltaVav.2


title: Mouse Thymus (APC), Perinatal Day 28, Rag2 KO, Sample 2

value: Rag2 KO


title: Mouse Thymus (APC), Perinatal Day 28, Wild-type, Hashtagged Sample (FB)


title: Mouse Thymus (APC), Perinatal Day 28, MHCII KO, Sample 2

value: MHCII KO


title: Mouse Thymus (APC), Perinatal Day 28, B2m KO, Sample 2

value: B2m KO


title: Mouse Thymus (APC), Perinatal Day 28, MHCII KO, Sample 1


title: Mouse Thymus (APC), Perinatal Day 28, Rag2 KO, Sample 1


title: Mouse Thymus (APC), Perinatal Day 28, B2m KO, Sample 1


title: BUC5254A11

description: Library name: BUC5254A11

data_processing:
The RSEM package (version 1.3.0) (Li and Dewey, 2011) was used in conjunction with the STAR alignment algorithm (version 2.5.2a) (Dobin et al., 2013) for the mapping and subsequent gene-level counting of the sequenced reads with respect to Ensembl mouse GRCm38 release 89  transcriptome
Normalisation of raw count data and differential expression analysis was performed with the DESeq2 package (version 1.16.1)  within the R programming environment (version 3.3.1)
Assembly: GRCm38 release 89
Supplementary files format and content: VST log2 normalised expression values. Rows = genes; Columns = samples.
Supplementary files format and content: raw_counts. Rows = genes; Columns = samples.

molecule: polyA RNA

source_name: Dendritic Cells

growth_protocol: RPMI 1640 media with 10% FCS, PSG, NaPyruvate, NEAA, HEPES, 2-Me

extract_protocol:
Qiagen Rneasy Kit
NEBNext Ultra II Directional PolyA mRNA Kit

treatment_protocol: DNGR-1 ligand (F-actin plus myosin II)

value: Dendritic Cells

tag: treatment

value: Stimulated


title: BUC5254A12

description: Library name: BUC5254A12


title: Mouse Thymus (APC), Perinatal Day 28, Wild-type, Sample 2


title: BUC5254A10

description: Library name: BUC5254A10


title: BUC5254A9

description: Library name: BUC5254A9

value: Unstimulated


title: BUC5254A8

description: Library name: BUC5254A8


title: BUC5254A4

description: Library name: BUC5254A4


title: BUC5254A6

description: Library name: BUC5254A6


title: BUC5254A5

description: Library name: BUC5254A5


title: BUC5254A7

description: Library name: BUC5254A7


title: BUC5254A3

description: Library name: BUC5254A3


title: BUC5254A2

description: Library name: BUC5254A2


title: BUC5254A1

description: Library name: BUC5254A1


title: HeLa, low-input, Control, replicate 4

status: Public on Oct 05 2025

city: Boston

first: Ryan

middle: A.

last: Flynn

state: MA

address: 1 Blackfan Circle

department: Department of Pediatrics

institute: Boston Children's Hospital

description:
Library name: dVH4h
count_matrix_homo.csv

library_source: other

data_processing:
FASTQ files were demultiplexed by Illumina software. Reads were trimmed with cutadapt (v4.9) to remove UMIs, adapters, poly(A/G) tails, and low-quality bases, discarding reads <15 nt. Trimmed reads were aligned with bowtie2 (v2.5.4) to curated small ncRNA transcriptomes (human, mouse, or dog), retaining multimappers. Multi-mapped reads were resolved by an EM-based probabilistic assignment scheme adapted from salmon/alevin, yielding transcript-level counts. After EM hard-assignment, per-base pileups were generated from BAM files using samtools (v1.21) mpileup and processed with cpup (https://github.com/y9c/cpup) to extract per-position base counts (reference vs. non-reference bases, insertions, deletions, skips, mismatches). Count matrices were annotated with sample metadata (Input, IP, Control) and deposited as processed data. Software: cutadapt v4.9; bowtie2 v2.5.4; samtools v1.21; cpup v0.1; R v4.3.3
Assembly: Curated small ncRNA transcriptomes (see GitHub: www.github.com/FlynnLab/rPAL-seq)
Supplementary files format and content: count_matrix_homo.csv, count_matrix_mus.csv, count_matrix_canis.csv: Species-specific, EM-assigned transcript-level raw read counts (rounded to nearest integer). Each row corresponds to a transcript. Each column corresponds to a library. Values are raw counts used for DESeq2 analysis.
Supplementary files format and content: counts_long.csv: Per-base variant count matrix in long format. Each row represents one genomic position within a transcript. Columns include transcript/position identifiers (chr_pos, chr, pos, ref_base), sample metadata (super_group, group_name, replicates, pair_id, sample_id, sample, condition), sequencing depth (depth_raw), reference counts (REF), variant subcategories (SGID, A_star, C_star, G_star, T_star), and summary totals (mismatches, total_variant, nonvariant). Values are raw base counts used as input for variant enrichment analyses.

molecule: other

organism: Homo sapiens

source_name: HeLa

growth_protocol: OCI-AML2, OCI-AML3, Molm13, Jurkat, Jeko1, Nalm6, and EMT6 cells were cultured in RPMI-1640 medium (Gibco, cat. no. 61870036); HeLa, A549, 293T, Huh7, LPS853 and LN308 were cultured in DMEM medium (Gibco, cat. no. 10566024). DiFi and MDCK cells were cultured in DMEM medium supplemented with 1% L-glutamine (Gibco, cat. no. 25030081) and 1% non-essential amino acids (Gibco, cat. no. 11140050). All media were supplemented with 10% FBS (R&D Systems, cat. no. S11150) and 1% penicillin-streptomycin (Gibco, cat. no. 15140122). Cells were maintained at 37 °C, 5% CO2. All cell lines tested negative for mycoplasma contamination (Universal mycoplasma detection kit; ATCC, cat. no. 30-1012K).

extract_protocol:
Cells were washed with PBS and lysed directly in RNAzol (Molecular Research Center) without trypsinization (1 mL per 10 cm plate of adherent cells or per 5 × 10^6 suspension cells). Lysates were homogenized, clarified by centrifugation, and crude small RNA was precipitated with isopropanol and water. RNA was purified on Zymo Research spin columns using guanidine/ethanol washes, on-column Proteinase K digestion, and water elution. Purified RNA was further treated with StcE mucinase (Sigma) followed by an additional Zymo column cleanup. Small RNAs were fractionated by mixing RNA with adjusted RNA binding buffer (Zymo RNA binding buffer mixed with one volume of ethanol) and recovered from the flow-through on a second Zymo column._x000B_To obtain secreted fractions, cells were cultured to ~80% confluence, washed with PBS, and incubated in serum-free medium for 48 h. Conditioned medium was cleared by centrifugation and filtration, concentrated with a 100 kDa cutoff filter, and ultracentrifuged to obtain small EVs (sEVs). Exomeres were isolated from the supernatant by additional ultracentrifugation, and supermeres were recovered from the exomere supernatant by higher-speed ultracentrifugation. Crude sEVs were further purified by iodixanol (Sigma) density-gradient centrifugation, and pooled fractions containing sEVs were washed and pelleted in PBS.
Total or small RNA (50 ng–2 µg) was 3' polyadenylated with end blocking and purified. Polyadenylated RNA was subjected to enhanced rPAL labeling, biotin enrichment on neutravidin beads, and sialidase-mediated release of sialoglycoRNA. Released RNA was reverse-transcribed using anchored oligo-dT primers with template switching, followed by PCR amplification with dual-indexed primers. Amplicons (200–500 bp) were purified by gel extraction and bead clean-up. Libraries were assessed by TapeStation, pooled by concentration, and sequenced on an Illumina NovaSeq X (single-end 100 bp, dual 8 bp indexes).

treatment_protocol: For production of extracellular vesicles (EVs) and non-vesicular extracellular nanoparticles (NVEPs), cells were cultured until 80% confluent. The cells were then washed three times with PBS and cultured in serum-free medium for 48 h.

tag: cell line

value: HeLa

value: epithelial

tag: sample group

value: HeLa, low-input, Control


title: HeLa, low-input, IP, replicate 4

description:
Library name: dVH4p
count_matrix_homo.csv

value: HeLa, low-input, IP


title: HeLa, low-input, Control, replicate 3

description:
Library name: dVH3h
count_matrix_homo.csv


title: HeLa, low-input, Control, replicate 2

description:
Library name: dVH2h
count_matrix_homo.csv


title: HeLa, low-input, IP, replicate 3

description:
Library name: dVH3p
count_matrix_homo.csv


title: HeLa, low-input, IP, replicate 1

description:
Library name: dVH1p
count_matrix_homo.csv


title: HeLa, low-input, Control, replicate 1

description:
Library name: dVH1h
count_matrix_homo.csv


title: AML3, low-input, IP, replicate 3

description:
Library name: dVA3p
count_matrix_homo.csv

value: hematopoietic

value: AML3, low-input, IP


title: AML3, low-input, Control, replicate 3

description:
Library name: dVA3h
count_matrix_homo.csv

value: AML3, low-input, Control


title: AML3, low-input, IP, replicate 4

description:
Library name: dVA4p
count_matrix_homo.csv


title: AML3, low-input, Control, replicate 4

description:
Library name: dVA4h
count_matrix_homo.csv


title: HeLa, low-input, IP, replicate 2

description:
Library name: dVH2p
count_matrix_homo.csv


title: AML3, low-input, Control, replicate 2

description:
Library name: dVA2h
count_matrix_homo.csv


title: AML3, low-input, IP, replicate 2

description:
Library name: dVA2p
count_matrix_homo.csv


title: AML3, low-input, Control, replicate 1

description:
Library name: dVA1h
count_matrix_homo.csv


title: AML3, low-input, IP, replicate 1

description:
Library name: dVA1p
count_matrix_homo.csv


title: HeLa, Control, replicate 4

description:
Library name: VH4h
count_matrix_homo.csv
counts_long.csv

value: HeLa, Control


title: HeLa, IP, replicate 4

description:
Library name: VH4p
count_matrix_homo.csv
counts_long.csv

value: HeLa, IP


title: HeLa, Control, replicate 3

description:
Library name: VH3h
count_matrix_homo.csv
counts_long.csv


title: HeLa, Input, replicate 4

description:
Library name: VH4i
count_matrix_homo.csv
counts_long.csv

value: HeLa, Input


title: HeLa, IP, replicate 3

description:
Library name: VH3p
count_matrix_homo.csv
counts_long.csv


title: HeLa, Input, replicate 2

description:
Library name: VH2i
count_matrix_homo.csv
counts_long.csv


title: HeLa, IP, replicate 1

description:
Library name: VH1p
count_matrix_homo.csv
counts_long.csv


title: HeLa, Control, replicate 2

description:
Library name: VH2h
count_matrix_homo.csv
counts_long.csv


title: HeLa, Input, replicate 3

description:
Library name: VH3i
count_matrix_homo.csv
counts_long.csv


title: HeLa, Control, replicate 1

description:
Library name: VH1h
count_matrix_homo.csv
counts_long.csv


title: HeLa, IP, replicate 2

description:
Library name: VH2p
count_matrix_homo.csv
counts_long.csv


title: HeLa, Input, replicate 1

description:
Library name: VH1i
count_matrix_homo.csv
counts_long.csv


title: AML3, Control, replicate 4

description:
Library name: VA4h
count_matrix_homo.csv
counts_long.csv

value: AML3, Control


title: AML3, IP, replicate 4

description:
Library name: VA4p
count_matrix_homo.csv
counts_long.csv

value: AML3, IP


title: AML3, Input, replicate 4

description:
Library name: VA4i
count_matrix_homo.csv
counts_long.csv

value: AML3, Input


title: AML3, IP, replicate 3

description:
Library name: VA3p
count_matrix_homo.csv
counts_long.csv


title: AML3, Control, replicate 3

description:
Library name: VA3h
count_matrix_homo.csv
counts_long.csv


title: AML3, Input, replicate 3

description:
Library name: VA3i
count_matrix_homo.csv
counts_long.csv


title: AML3, Control, replicate 2

description:
Library name: VA2h
count_matrix_homo.csv
counts_long.csv


title: AML3, IP, replicate 2

description:
Library name: VA2p
count_matrix_homo.csv
counts_long.csv


title: DiFi, IP, replicate 3

description:
Library name: e24p
count_matrix_homo.csv
counts_long.csv

source_name: DiFi

value: DiFi

value: DiFi, IP


title: AML3, Control, replicate 1

description:
Library name: VA1h
count_matrix_homo.csv
counts_long.csv


title: AML3, Input, replicate 1

description:
Library name: VA1i
count_matrix_homo.csv
counts_long.csv


title: AML3, IP, replicate 1

description:
Library name: VA1p
count_matrix_homo.csv
counts_long.csv


title: AML3, Input, replicate 2

description:
Library name: VA2i
count_matrix_homo.csv
counts_long.csv


title: DiFi, Input, replicate 3

description:
Library name: e24i
count_matrix_homo.csv
counts_long.csv

value: DiFi, Input


title: DiFi, Control, replicate 3

description:
Library name: e24h
count_matrix_homo.csv
counts_long.csv

value: DiFi, Control


title: DiFi, Control, replicate 2

description:
Library name: e23h
count_matrix_homo.csv
counts_long.csv


title: DiFi, Input, replicate 2

description:
Library name: e23i
count_matrix_homo.csv
counts_long.csv


title: DiFi, IP, replicate 2

description:
Library name: e23p
count_matrix_homo.csv
counts_long.csv


title: DiFi, Control, replicate 1

description:
Library name: e22h
count_matrix_homo.csv
counts_long.csv


title: DiFi, IP, replicate 1

description:
Library name: e22p
count_matrix_homo.csv
counts_long.csv


title: MDCK, Control, replicate 3

description:
Library name: e21h
count_matrix_canis.csv

source_name: MDCK

value: MDCK

value: MDCK, Control


title: DiFi, Input, replicate 1

description:
Library name: e22i
count_matrix_homo.csv
counts_long.csv

value: epithelial


title: MDCK, IP, replicate 3

description:
Library name: e21p
count_matrix_canis.csv

value: MDCK, IP


title: MDCK, Input, replicate 3

description:
Library name: e21i
count_matrix_canis.csv

value: MDCK, Input


title: MDCK, Control, replicate 1

description:
Library name: e19h
count_matrix_canis.csv


title: MDCK, Control, replicate 2

description:
Library name: e20h
count_matrix_canis.csv


title: MDCK, Input, replicate 2

description:
Library name: e20i
count_matrix_canis.csv


title: MDCK, IP, replicate 2

description:
Library name: e20p
count_matrix_canis.csv


title: MDCK, Input, replicate 1

description:
Library name: e19i
count_matrix_canis.csv


title: MDCK, IP, replicate 1

description:
Library name: e19p
count_matrix_canis.csv


title: DiFi Supermere, Control, replicate 3

description:
Library name: e18h
count_matrix_homo.csv

value: DiFi Supermere, Control


title: DiFi Supermere, Input, replicate 3

description:
Library name: e18i
count_matrix_homo.csv

value: DiFi Supermere, Input


title: DiFi Supermere, IP, replicate 3

description:
Library name: e18p
count_matrix_homo.csv

value: DiFi Supermere, IP


title: DiFi Exomere, Control, replicate 3

description:
Library name: e17h
count_matrix_homo.csv

value: DiFi Exomere, Control


title: DiFi Exomere, Input, replicate 3

description:
Library name: e17i
count_matrix_homo.csv

value: DiFi Exomere, Input


title: DiFi Exomere, IP, replicate 3

description:
Library name: e17p
count_matrix_homo.csv

value: DiFi Exomere, IP


title: JHH368CoCAF

status: Public on Apr 01 2026

city: Baltimore

first: Jacquelyn

middle: W

last: Zimmerman

state: Maryland

address: 1650 Orleans St, Room 186

institute: Johns Hopkins Sidney Kimmel Comp. Cancer Center

description:
Library name: JHH368CoCAF
CAF Patient 368, Coculture

data_processing:
Salmon v.1.9.0
Alignment was performed utilizing Salmon v1.9.0 on the Joint High-Performance Computing Exchange (JHPCE). “salmon_partial_sa_index__default.tgz” was used as the index for alignment for the HG38 genome, which was premade and available on refgenie (http://refgenomes.databio.org/v3/genomes/splash/2230c535660fb4774114bfa966a62f823fdb6d21acf138d4). Salmon quantification, [salmon quant], was completed in mapping-based mode (--validateMappings) with automatic library detection. Salmon quantifications were the imported into R using tximport v1.20.0, with the use of the “tgMap.tsv” file also provided in the HG38 refgenie repository for accurate gene-level summarization.
We evaluated sample quality from the distribution of reads as visualized in a boxplot of log counts. We observed no samples with zero median expression, reflective of a low read count, so samples were not of low quality. We used principal component analysis (PCA) of the variance stabilization transform (vst) RNA-seq data to evaluate sample clustering. Projection of the discovered CoGAPS Pattern 7 onto the VST data was completed using ProjectR (V1.8.0). The bulk-seq normalized data and CoGAPs feature loadings were run through the projectR function of the package(14). The projection results were combined with the bulk-seq metadata and plotted using ggplot2 (V3.3.5) and paired t-test results added using ggpubr (V0.4.0)(14).
Analysis completed using DESeq2
Assembly: HG38
Supplementary files format and content: tab-separated values

source_name: pancreas

extract_protocol:
Cells that were coculture were sorted by FACS and immediately underwent RNA extraction (Qiagen RNeasy kit 74004) per manufacturers protocol. RNA was quantified at 260nm using NanoDrop1000 (Thermo Fisher Scientific) and 200ug of RNA was sent to Novogene Corporation Inc. RNA integrity (RIN) was measured at Novogene with Agilent 2100 Bioanalyzer (Agilent, Santa Clara, CA). All samples were required to demonstrate RIN > 6.8 and ranged from 7.2 to 10.0.
Messenger RNA was purified from total RNA using poly-T oligo-attached magnetic beads. After fragmentation, the first strand cDNA was synthesized using random hexamer primers, followed by the second strand cDNA synthesis using either dUTP for directional library or dTTP for non-directional library. For the non-directional library, it was ready after end repair, A-tailing, adapter ligation, size selection, amplification, and purification. For the directional library, it was ready after end repair, A-tailing, adapter ligation, size selection, USER enzyme digestion, amplification, and purification.

value: pancreas

value: Patient-derived organoid

value: CAF

value: coculture


title: DiFi sEV, Control, replicate 3

description:
Library name: e16h
count_matrix_homo.csv

value: DiFi

value: DiFi sEV, Control


title: DiFi sEV, IP, replicate 3

description:
Library name: e16p
count_matrix_homo.csv

value: DiFi sEV, IP


title: DiFi sEV, Input, replicate 3

description:
Library name: e16i
count_matrix_homo.csv

value: DiFi sEV, Input


title: DiFi Supermere, IP, replicate 2

description:
Library name: e15p
count_matrix_homo.csv

value: epithelial


title: DiFi Supermere, Control, replicate 2

description:
Library name: e15h
count_matrix_homo.csv


title: DiFi Supermere, Input, replicate 2

description:
Library name: e15i
count_matrix_homo.csv


title: DiFi Exomere, Control, replicate 2

description:
Library name: e14h
count_matrix_homo.csv


title: DiFi Exomere, IP, replicate 2

description:
Library name: e14p
count_matrix_homo.csv


title: DiFi sEV, Control, replicate 2

description:
Library name: e13h
count_matrix_homo.csv


title: DiFi Exomere, Input, replicate 2

description:
Library name: e14i
count_matrix_homo.csv


title: DiFi sEV, IP, replicate 2

description:
Library name: e13p
count_matrix_homo.csv


title: DiFi sEV, Input, replicate 2

description:
Library name: e13i
count_matrix_homo.csv


title: DiFi Supermere, Control, replicate 1

description:
Library name: e12h
count_matrix_homo.csv


title: DiFi Supermere, IP, replicate 1

description:
Library name: e12p
count_matrix_homo.csv


title: DiFi Supermere, Input, replicate 1

description:
Library name: e12i
count_matrix_homo.csv


title: DiFi Exomere, IP, replicate 1

description:
Library name: e11p
count_matrix_homo.csv


title: DiFi Exomere, Control, replicate 1

description:
Library name: e11h
count_matrix_homo.csv


title: DiFi Exomere, Input, replicate 1

description:
Library name: e11i
count_matrix_homo.csv


title: DiFi sEV, Control, replicate 1

description:
Library name: e10h
count_matrix_homo.csv


title: DiFi sEV, IP, replicate 1

description:
Library name: e10p
count_matrix_homo.csv


title: Nalm6, Control, replicate 4

description:
Library name: 44h
count_matrix_homo.csv
counts_long.csv

value: hematopoietic

value: Nalm6, Control


title: DiFi sEV, Input, replicate 1

description:
Library name: e10i
count_matrix_homo.csv


title: Nalm6, Input, replicate 4

description:
Library name: 44i
count_matrix_homo.csv
counts_long.csv

value: Nalm6, Input


title: Nalm6, IP, replicate 4

description:
Library name: 44p
count_matrix_homo.csv
counts_long.csv

value: Nalm6, IP


title: Nalm6, Control, replicate 3

description:
Library name: 43h
count_matrix_homo.csv
counts_long.csv


title: Nalm6, IP, replicate 3

description:
Library name: 43p
count_matrix_homo.csv
counts_long.csv


title: Nalm6, Control, replicate 2

description:
Library name: 42h
count_matrix_homo.csv
counts_long.csv


title: Nalm6, Input, replicate 3

description:
Library name: 43i
count_matrix_homo.csv
counts_long.csv


title: Nalm6, IP, replicate 2

description:
Library name: 42p
count_matrix_homo.csv
counts_long.csv


title: Nalm6, Input, replicate 2

description:
Library name: 42i
count_matrix_homo.csv
counts_long.csv


title: Nalm6, IP, replicate 1

description:
Library name: 41p
count_matrix_homo.csv
counts_long.csv


title: Nalm6, Input, replicate 1

description:
Library name: 41i
count_matrix_homo.csv
counts_long.csv


title: Nalm6, Control, replicate 1

description:
Library name: 41h
count_matrix_homo.csv
counts_long.csv


title: Jeko1, IP, replicate 4

description:
Library name: 40p
count_matrix_homo.csv
counts_long.csv

value: Jeko1, IP


title: Jeko1, Control, replicate 4

description:
Library name: 40h
count_matrix_homo.csv
counts_long.csv

value: Jeko1, Control


title: Jeko1, Input, replicate 4

description:
Library name: 40i
count_matrix_homo.csv
counts_long.csv

value: Jeko1, Input


title: Jeko1, IP, replicate 3

description:
Library name: 39p
count_matrix_homo.csv
counts_long.csv


title: Jeko1, Control, replicate 3

description:
Library name: 39h
count_matrix_homo.csv
counts_long.csv


title: Jeko1, Input, replicate 3

description:
Library name: 39i
count_matrix_homo.csv
counts_long.csv


title: Jeko1, IP, replicate 2

description:
Library name: 38p
count_matrix_homo.csv
counts_long.csv


title: Jeko1, Control, replicate 2

description:
Library name: 38h
count_matrix_homo.csv
counts_long.csv


title: Jeko1, Input, replicate 2

description:
Library name: 38i
count_matrix_homo.csv
counts_long.csv


title: Jeko1, IP, replicate 1

description:
Library name: 37p
count_matrix_homo.csv
counts_long.csv


title: Jeko1, Input, replicate 1

description:
Library name: 37i
count_matrix_homo.csv
counts_long.csv


title: Jurkat, Input, replicate 4

description:
Library name: 36i
count_matrix_homo.csv
counts_long.csv

source_name: Jurkat

value: Jurkat

value: Jurkat, Input


title: Jurkat, IP, replicate 4

description:
Library name: 36p
count_matrix_homo.csv
counts_long.csv

value: Jurkat, IP


title: Jurkat, Control, replicate 4

description:
Library name: 36h
count_matrix_homo.csv
counts_long.csv

value: Jurkat, Control


title: Jurkat, IP, replicate 3

description:
Library name: 35p
count_matrix_homo.csv
counts_long.csv


title: Jurkat, Input, replicate 3

description:
Library name: 35i
count_matrix_homo.csv
counts_long.csv


title: Jurkat, Control, replicate 2

description:
Library name: 34h
count_matrix_homo.csv
counts_long.csv


title: Jurkat, IP, replicate 1

description:
Library name: 33p
count_matrix_homo.csv
counts_long.csv


title: Jurkat, Input, replicate 1

description:
Library name: 33i
count_matrix_homo.csv
counts_long.csv


title: Jurkat, Control, replicate 1

description:
Library name: 33h
count_matrix_homo.csv
counts_long.csv


title: AML2, Control, replicate 4

description:
Library name: 32h
count_matrix_homo.csv
counts_long.csv

value: AML2, Control


title: AML2, Input, replicate 4

description:
Library name: 32i
count_matrix_homo.csv
counts_long.csv

value: AML2, Input


title: AML2, IP, replicate 4

description:
Library name: 32p
count_matrix_homo.csv
counts_long.csv

value: AML2, IP


title: AML2, Input, replicate 3

description:
Library name: 31i
count_matrix_homo.csv
counts_long.csv


title: AML2, IP, replicate 3

description:
Library name: 31p
count_matrix_homo.csv
counts_long.csv


title: AML2, Control, replicate 2

description:
Library name: 30h
count_matrix_homo.csv
counts_long.csv


title: AML2, IP, replicate 2

description:
Library name: 30p
count_matrix_homo.csv
counts_long.csv


title: AML2, Control, replicate 1

description:
Library name: 29h
count_matrix_homo.csv
counts_long.csv


title: AML2, Input, replicate 1

description:
Library name: 29i
count_matrix_homo.csv
counts_long.csv


title: A549, Control, replicate 4

description:
Library name: 24h
count_matrix_homo.csv
counts_long.csv

value: A549, Control


title: A549, Input, replicate 4

description:
Library name: 24i
count_matrix_homo.csv
counts_long.csv

value: A549, Input


title: AML2, IP, replicate 1

description:
Library name: 29p
count_matrix_homo.csv
counts_long.csv


title: A549, IP, replicate 4

description:
Library name: 24p
count_matrix_homo.csv
counts_long.csv

value: epithelial


title: A549, Control, replicate 2

description:
Library name: 22h
count_matrix_homo.csv
counts_long.csv


title: A549, IP, replicate 2

description:
Library name: 22p
count_matrix_homo.csv
counts_long.csv


title: A549, Input, replicate 1

description:
Library name: 21i
count_matrix_homo.csv
counts_long.csv


title: A549, IP, replicate 1

description:
Library name: 21p
count_matrix_homo.csv
counts_long.csv


title: Molm13, Control, replicate 4

description:
Library name: 20h
count_matrix_homo.csv
counts_long.csv

value: hematopoietic

value: Molm13, Control


title: A549, Control, replicate 1

description:
Library name: 21h
count_matrix_homo.csv
counts_long.csv


title: Molm13, IP, replicate 4

description:
Library name: 20p
count_matrix_homo.csv
counts_long.csv

value: Molm13, IP


title: PAD Soleus 3

status: Public on Jun 01 2026

city: Omaha

first: Hanjun

last: Wang

state: Nebraska

address: 984455 University of Nebraska Medical Center 985850 University of Nebraska Medic

department: Anesthesiology

institute: University of Nebraska Medical Center

description: Library name: Sample Soleus 8

data_processing:
Sequencing and bioinformatical analysis were completed by LC Sciences, LLC, TX, USA.
Assembly: Sequencing and bioinformatical analysis were completed by LC Sciences, LLC, TX, USA.
Supplementary files format and content: CSV file including PFKM values for each sample

organism: Rattus norvegicus

source_name: skeletal muscle

extract_protocol:
Poly(A) RNA sequencing library was prepared following Illumina’s TruSeq-stranded-mRNA sample preparation protocol. RNA integrity was checked with Agilent Technologies 2100 Bioanalyzer. Poly(A) tail-containing mRNAs were purified using oligo-(dT) magnetic beads with two rounds of purification. After purification, poly(A) RNA was fragmented using a divalent cation buffer at elevated temperatures.
The DNA library construction is shown in the following workflow. Quality control analysis and quantification of the sequencing library were performed using Agilent Technologies 2100 Bioanalyzer High Sensitivity DNA Chip. Paired-ended sequencing was performed on Illumina’s NovaSeq 6000 sequencing system.

treatment_protocol: sham and hindlimb ischemia

value: skeletal muscle

value: Sprague Dawley

value: hindlimb ischemia


title: Molm13, Input, replicate 4

description:
Library name: 20i
count_matrix_homo.csv
counts_long.csv

value: Molm13, Input


title: Molm13, IP, replicate 3

description:
Library name: 19p
count_matrix_homo.csv
counts_long.csv


title: Molm13, Input, replicate 3

description:
Library name: 19i
count_matrix_homo.csv
counts_long.csv


title: Molm13, Control, replicate 3

description:
Library name: 19h
count_matrix_homo.csv
counts_long.csv


title: Molm13, IP, replicate 2

description:
Library name: 18p
count_matrix_homo.csv
counts_long.csv


title: Molm13, Input, replicate 2

description:
Library name: 18i
count_matrix_homo.csv
counts_long.csv


title: Molm13, Control, replicate 1

description:
Library name: 17h
count_matrix_homo.csv
counts_long.csv


title: Molm13, Input, replicate 1

description:
Library name: 17i
count_matrix_homo.csv
counts_long.csv


title: Huh7, Control, replicate 4

description:
Library name: 16h
count_matrix_homo.csv
counts_long.csv

value: Huh7, Control


title: Molm13, IP, replicate 1

description:
Library name: 17p
count_matrix_homo.csv
counts_long.csv


title: Huh7, IP, replicate 4

description:
Library name: 16p
count_matrix_homo.csv
counts_long.csv

value: Huh7, IP


title: genomic DNA from AML patient AD574

type: genomic

city: singapore

first: yi

last: chai

department: CSI

country: Singapore

institute: National University of SIngapore

hyb_protocol: Bisulphite converted DNA was amplified, fragmented and hybridized to human Infinium MethylationEPIC BeadChip (Illumina) according to the manufacturer's standard protocol.

scan_protocol: Arrays were imaged using BeadArray Reader (HiScan) and standard recommended Illumina scanner settings

data_processing: ChAMP pipeline with quality control

label: Cy3 and Cy5

molecule: genomic DNA

source_name: bone marrow

label_protocol: Standard Illumina Protocol for Infinium MethylationEPIC BeadChip arrays.

extract_protocol: Genomic DNA was extracted from bone marrow samples with standard DNA extraction protocols

value: primary cells


title: Huh7, Input, replicate 4

description:
Library name: 16i
count_matrix_homo.csv
counts_long.csv

value: Huh7, Input


title: Huh7, Control, replicate 3

description:
Library name: 15h
count_matrix_homo.csv
counts_long.csv


title: Huh7, IP, replicate 3

description:
Library name: 15p
count_matrix_homo.csv
counts_long.csv


title: Huh7, Input, replicate 3

description:
Library name: 15i
count_matrix_homo.csv
counts_long.csv


title: Huh7, Control, replicate 2

description:
Library name: 14h
count_matrix_homo.csv
counts_long.csv


title: snRNA seq of striatum of 2 mouse models of PD: mild 6OHDA_3

city: Stockholm

first: Konstantinos

last: Meletis

address: Solnavagen 9

department: Neuroscience

country: Sweden

institute: Karolinska Institutet

description:
Library name: snRNAseq_mouse_models_mild_6OHDA_3
6OHDA_3

data_processing:
We generated the count matrix from the sequencing data for each sample (fastq) using the software commercialized by 10x Genomics Cellranger (10x Genomics Cell Ranger v7.1.0)
Assembly: mm10-2020-A
Supplementary files format and content: filtered_feature_bc_matrix_<filename>.h5, sparse matrix of gene expression counts. Rows = Genes (Features), Columns = Cell Barcodes (IDs) and Expression Counts

source_name: Brain

extract_protocol:
Striatum from one hemisphere of 19 brains was collected for nuclei isolation. Brain tissue was placed into a tube together with lysis buffer (10?mM Tris-HCl, 10?nM NaCl, 3?nM MgCl2, 0.1% Nonidet P40 Substitute 0.1%, 1?mM DTT, 1U/µl RNAse inhibitor and Nuclease free water), homogenized by pestle homogenization in a tissue grinder tube and incubated on ice for 5?min. The nuclei were extracted by following 10x Genomics protocol for Nuclei Isolation from Complex Tissues for Single Cell Multiome ATAC?+?Gene Expression Sequencing (User Guide, CG000375 Rev A). Each sample was filtered through a 70?µm cell strainer, sorted and permeabilized nuclei were pelleted at 500?×?g for 5?min at 4?°C, and resuspended in 1 ml PBS 1x, 1% BSA + 1 U/?l RNase inhibitor, for two times. After the second centrifuge nuclei were stained with 7-AAD Ready Made Solution (SML 633-1ML) 0.01% for FACS sorting.
The nuclei were processed according to the 10X Genomics Chromium Next GEM Single Cell 3' Reagent Kits v3.1 (Dual Index) protocol (User Guide CG000315 Rev C). For each sample, we aimed to recover between 2,000 and 7,000 nuclei. Libraries were constructed for sequencing in accordance with the protocol and manufacturer's recommendations. Sequencing was performed using an Illumina NextSeq 2000, targeting a depth of 300 to 400 million reads per sample. The sequencing read lengths were as follows: Read 1, 28 cycles; i7 and i5 index, 10 cycles each; Read 2, 90 cycles.

treatment_protocol: Mild Neurotoxin Model (6-OHDA): Adult wild-type mice received unilateral injections of 6-hydroxydopamine (6-OHDA) at a low dose (0.6 µg/µL) into the medial forebrain bundle (MFB), selectively damaging nigrostriatal dopaminergic neurons and inducing mild Parkinsonian pathology. Untreated wild-type mice served as controls.  Progressive Genetic Model (MitoPark): The MitoPark model (Slc6a3-cre; Tfam^flx/flx) induces mitochondrial dysfunction specifically in dopaminergic neurons, leading to progressive neurodegeneration. Samples were collected at two timepoints:

value: Brain

value: no cell line

value: all cells

value: mild 6OHA injeciton (0.6 ug)


title: Huh7, Input, replicate 2

description:
Library name: 14i
count_matrix_homo.csv
counts_long.csv


title: Huh7, IP, replicate 2

description:
Library name: 14p
count_matrix_homo.csv
counts_long.csv


title: snRNA seq of striatum of 2 mouse models of PD: control_5

description:
Library name: snRNAseq_mouse_models_control_7
C2_S8

value: -/DAT-cre, TfamloxP/TfamloxP

value: Control  animals


title: Huh7, Control, replicate 1

description:
Library name: 13h
count_matrix_homo.csv
counts_long.csv

value: epithelial


title: Huh7, IP, replicate 1

description:
Library name: 13p
count_matrix_homo.csv
counts_long.csv


title: Huh7, Input, replicate 1

description:
Library name: 13i
count_matrix_homo.csv
counts_long.csv


title: LN308, Input, replicate 4

description:
Library name: 12i
count_matrix_homo.csv
counts_long.csv

value: neural (glial)

value: LN308, Input


title: LN308, Control, replicate 2

description:
Library name: 10h
count_matrix_homo.csv
counts_long.csv

value: LN308, Control


title: LN308, IP, replicate 2

description:
Library name: 10p
count_matrix_homo.csv
counts_long.csv

value: LN308, IP


title: LN308, Input, replicate 2

description:
Library name: 10i
count_matrix_homo.csv
counts_long.csv


title: WT Sal_NO Recovery_NO rIL10_13

type: RNA

city: San Jose

first: Eleana

middle: Stephanie

last: Guardado

address: 3166 Kimlee Dr

institute: Stanford

description: Mouse 1

scan_protocol: Chip was imaged and quantified by a nCounter Sprint profiler.

data_processing: All samples passed the NanoString system quality control (QC) test. Data were analyzed using nSolver 4.0 and by performing a NanoString Advanced analysis. The following housekeeping genes showing the strongest correlation with each other were used for normalization of gene expression: Acad9, Cnot10, Mtmr14, Nol7, Nubp1, Pgk1, Ppia, and Rplp0. The agglomerative analysis on nSolver was used to generate heatmaps. Per NanoString’s recommendation, 50 transcript counts was taken as the “count threshold”. The 20 most upregulated genes among all treatments were identified by the differential expression analysis. The STRING database (https://string-db.org) was used to explore protein-protein interactions among differentially regulated genes from NanoString that were statistically significant based on the unadjusted p-values [20].

source_name: RNA from lung tissue

growth_protocol: Male C57BL/6J and B6.129P2-Lcn2tm1Aade/AkiJ mice 8-13 weeks of age were received from The Jackson Laboratory (Bar Harbor, ME, USA) and housed in micro-isolator cages (five per cage) at the University of California, Riverside animal barrier facilities. Mice were allowed unrestricted access to food and water, monitored for any behavioral or physiological changes, and weighed weekly. All experiments and procedures were approved by the University of California River-side Institutional Animal Care and Use Committee.

extract_protocol: Animals were euthanized with isoflurane and collection of bronchoalveolar lavage fluid (BALF) and lung tissue was performed as described below. For BALF collection, a cannula was first inserted into the trachea and secured by tying a knot with a suture around the trachea. A syringe was used to rinse/wash the whole lung with 1 ml of sterile 1X PBS, which was collected in a separate tube to prevent over-dilution in subsequent enzyme-linked immunoassays (ELISAs). The lungs were washed two additional times with 1 ml PBS, and combined in a second tube for downstream cellular analyses. After BALF collection, the left lung lobe was tied off, excised and frozen in RNAlater to be used for NanoString analyses.

treatment_protocol: WT and LCN-2 KO mice were repetitively exposed to DE prepared from dusts collected from swine confinement facilities or their saline vehicle control. An aqueous solution of dust extract was prepared as described above and published previously and administered to mice as a 50 l intranasal instillation (IN) of 12.5% DE or saline under light isoflurane anesthesia. Male mice of 8-13 weeks old were given IN instillations in the mornings for 15 weekdays.  For this work, we evaluated two time points after repetitive DE exposure: 1) five hours after last IN (no recovery period), and 2) 72 hours after last IN (recovery period). For studies that included IL-10 administration, 1 ug of recombinant mouse IL-10 per 25 g mouse body weight was administered to LCN-2 KO animals on the day of the final DE IN and at 48 hr post final DE IN.

value: Male

value: Lung

value: WT


title: genomic DNA from AML patient AD363


title: LN308, Control, replicate 1

description:
Library name: 9h
count_matrix_homo.csv
counts_long.csv


title: LN308, IP, replicate 1

description:
Library name: 9p
count_matrix_homo.csv
counts_long.csv


title: LN308, Input, replicate 1

description:
Library name: 9i
count_matrix_homo.csv
counts_long.csv


title: UPN827 cells, TN1562 TrailNet 3or6 month T1D plasma

city: Milwaukee

first: Martin

last: Hessner

state: WI

address: 8701 Watertown Plank Road

department: Pediatrics

institute: Medical College of Wisconsin

description: Gene expression data from UPN827 cells stimulated with T1D plasma

hyb_protocol: The Affymetrix GeneChip Human Genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.

scan_protocol: After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner

data_processing: Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log intensity/ratios.  The statistical significance of differential gene expression and false discovery rates (FDR) were derived through ANOVA function in Partek GS.

label: biotin

source_name: UPN827 cells stimulated with TN1562 TrailNet 3or6 month T1D plasma

label_protocol: cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.

growth_protocol: Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN827 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).

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

treatment_protocol: Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of participant plasma  that was sampled at baseline or the 3-6 months post-baseline from six TrailNet new-onset T1D intervention trails, or from our local Recent onset T1DM cohort. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl.  After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).

tag: responder cells

value: UPN827 cells

tag: sample timepoint

value: TrailNet 3 or 6 month


title: LPS853, IP, replicate 4

description:
Library name: 8p
count_matrix_homo.csv
counts_long.csv

value: mesenchymal

value: LPS853, IP


title: LPS853, Control, replicate 3

description:
Library name: 7h
count_matrix_homo.csv
counts_long.csv

value: LPS853, Control


title: LPS853, IP, replicate 3

description:
Library name: 7p
count_matrix_homo.csv
counts_long.csv


title: LPS853, Input, replicate 3

description:
Library name: 7i
count_matrix_homo.csv
counts_long.csv

value: LPS853, Input


title: LPS853, Control, replicate 2

description:
Library name: 6h
count_matrix_homo.csv
counts_long.csv


title: LPS853, IP, replicate 2

description:
Library name: 6p
count_matrix_homo.csv
counts_long.csv


title: LPS853, Input, replicate 2

description:
Library name: 6i
count_matrix_homo.csv
counts_long.csv


title: LPS853, Control, replicate 1

description:
Library name: 5h
count_matrix_homo.csv
counts_long.csv


title: 293T, Control, replicate 4

description:
Library name: 4h
count_matrix_homo.csv
counts_long.csv

value: 293T, Control


title: 293T, IP, replicate 4

description:
Library name: 4p
count_matrix_homo.csv
counts_long.csv


title: 293T, Input, replicate 4

description:
Library name: 4i
count_matrix_homo.csv
counts_long.csv

value: 293T, Input


title: LN308, IP, replicate 3

description:
Library name: 11p
count_matrix_homo.csv
counts_long.csv


title: 293T, Control, replicate 3

description:
Library name: 3h
count_matrix_homo.csv
counts_long.csv


title: 293T, IP, replicate 3

description:
Library name: 3p
count_matrix_homo.csv
counts_long.csv


title: LN308, Input, replicate 3

description:
Library name: 11i
count_matrix_homo.csv
counts_long.csv


title: 293T, Input, replicate 3

description:
Library name: 3i
count_matrix_homo.csv
counts_long.csv


title: 293T, Control, replicate 2

description:
Library name: 2h
count_matrix_homo.csv
counts_long.csv


title: 293T, IP, replicate 2

description:
Library name: 2p
count_matrix_homo.csv
counts_long.csv


title: 293T, Input, replicate 2

description:
Library name: 2i
count_matrix_homo.csv
counts_long.csv


title: 293T, Control, replicate 1

description:
Library name: 1h
count_matrix_homo.csv
counts_long.csv


title: LPS853, Control, replicate 4

description:
Library name: 8h
count_matrix_homo.csv
counts_long.csv


title: 293T, IP, replicate 1

description:
Library name: 1p
count_matrix_homo.csv
counts_long.csv


title: LPS853, Input, replicate 4

description:
Library name: 8i
count_matrix_homo.csv
counts_long.csv


title: 293T, Input, replicate 1

description:
Library name: 1i
count_matrix_homo.csv
counts_long.csv


title: Jeko1, Control, replicate 1

description:
Library name: 37h
count_matrix_homo.csv
counts_long.csv

value: hematopoietic

value: Jeko1, Control


title: EMT6, Control, replicate 4

description:
Library name: 28h
count_matrix_mus.csv

value: epithelial

value: EMT6, Control


title: EMT6, IP, replicate 4

description:
Library name: 28p
count_matrix_mus.csv

value: EMT6, IP


title: Jurkat, Control, replicate 3

description:
Library name: 35h
count_matrix_homo.csv
counts_long.csv

value: Jurkat

value: Jurkat, Control


title: EMT6, Input, replicate 4

description:
Library name: 28i
count_matrix_mus.csv

value: EMT6, Input


title: EMT6, Control, replicate 3

description:
Library name: 27h
count_matrix_mus.csv


title: EMT6, IP, replicate 3

description:
Library name: 27p
count_matrix_mus.csv


title: Jurkat, IP, replicate 2

description:
Library name: 34p
count_matrix_homo.csv
counts_long.csv

value: Jurkat, IP


title: EMT6, Input, replicate 3

description:
Library name: 27i
count_matrix_mus.csv


title: EMT6, Control, replicate 2

description:
Library name: 26h
count_matrix_mus.csv


title: EMT6, Control, replicate 1

description:
Library name: 25h
count_matrix_mus.csv


title: EMT6, Input, replicate 1

description:
Library name: 25i
count_matrix_mus.csv


title: MDCK Supermere, Control, replicate 3

description:
Library name: e9h
count_matrix_canis.csv

organism: Canis lupus familiaris

value: MDCK

value: MDCK Supermere, Control


title: EMT6, IP, replicate 1

description:
Library name: 25p
count_matrix_mus.csv


title: MDCK Supermere, Input, replicate 3

description:
Library name: e9i
count_matrix_canis.csv

value: MDCK Supermere, Input


title: MDCK Exomere, Control, replicate 3

description:
Library name: e8h
count_matrix_canis.csv

value: MDCK Exomere, Control


title: MDCK Exomere, IP, replicate 3

description:
Library name: e8p
count_matrix_canis.csv

value: MDCK Exomere, IP


title: MDCK Exomere, Input, replicate 3

description:
Library name: e8i
count_matrix_canis.csv

value: MDCK Exomere, Input


title: MDCK sEV, IP, replicate 3

description:
Library name: e7p
count_matrix_canis.csv

value: MDCK sEV, IP


title: MDCK Supermere, Control, replicate 2

description:
Library name: e6h
count_matrix_canis.csv


title: MDCK Supermere, IP, replicate 2

description:
Library name: e6p
count_matrix_canis.csv

value: MDCK Supermere, IP


title: MDCK Supermere, Input, replicate 2

description:
Library name: e6i
count_matrix_canis.csv


title: MDCK Exomere, Control, replicate 2

description:
Library name: e5h
count_matrix_canis.csv


title: MDCK Exomere, IP, replicate 2

description:
Library name: e5p
count_matrix_canis.csv


title: MDCK Exomere, Input, replicate 2

description:
Library name: e5i
count_matrix_canis.csv


title: MDCK sEV, Control, replicate 2

description:
Library name: e4h
count_matrix_canis.csv

value: MDCK sEV, Control


title: MDCK sEV, IP, replicate 2

description:
Library name: e4p
count_matrix_canis.csv


title: MDCK sEV, Input, replicate 2

description:
Library name: e4i
count_matrix_canis.csv

value: MDCK sEV, Input


title: MDCK Supermere, Control, replicate 1

description:
Library name: e3h
count_matrix_canis.csv

value: epithelial


title: MDCK Supermere, IP, replicate 1

description:
Library name: e3p
count_matrix_canis.csv


title: MDCK Exomere, Control, replicate 1

description:
Library name: e2h
count_matrix_canis.csv


title: MDCK Exomere, IP, replicate 1

description:
Library name: e2p
count_matrix_canis.csv


title: MDCK Exomere, Input, replicate 1

description:
Library name: e2i
count_matrix_canis.csv


title: MDCK sEV, Control, replicate 1

description:
Library name: e1h
count_matrix_canis.csv


title: MDCK sEV, IP, replicate 1

description:
Library name: e1p
count_matrix_canis.csv


title: Control_Cap

status: Public on Oct 02 2025

city: Ithaca

first: Saori

last: Uematsu

address: 526 Campus Road, Cornell University

department: Division of Nutritional Sciences

institute: Cornell University

data_processing:
The sequencing results were demultiplexed and converted to FASTQ format using Illumina bcl2fastq (v2.20.0.422) software.
The 5’ and 3’ adapters of the reads were trimmed by Cutadapt (version 2.8) using the following parameters:  -a “A{10}” -m 15 –max-n=0.1. The trimmed reads with length shorter than 15 nucleotides were excluded from the analysis.
The trimmed reads were first aligned to rRNAs using Bowtie (version 1.2.3) with the following parameters: -v 0 –norc.
The reads unaligned to rRNAs were then mapped to the custom mouse transcriptome using STAR (version 2.7.10a) with default parameters. To avoid ambiguity, reads mapped to multiple positions or with >2 mismatches were disregarded for further analysis.
Normalized read density was calculated by custom python scripts.
Assembly: GRCh39.p13
Supplementary files format and content: comma-delimited text files including sense and antisense peak positions for trans-RNA-seq samples.
Supplementary files format and content: comma-delimited text files including normalized read density around start and stop codons for Ribo-seq samples.

extract_protocol:
For Ribo-seq, RNA was extracted using Trizol LS reagent (Invitrogen) followed by ethanol precipitation. The ribosome-protected mRNA fragments (RPFs) were separated on a 15% polyacrylamide TBE-urea gel (Invitrogen) and visualized using SYBR Gold (Invitrogen). Selected regions in the gel corresponding to 25-35 nt were excised and dissolved by soaking in 400 μl RNA elution buffer (300 mM NaOAc pH 5.2, 1 mM EDTA, 0.1 U/μl SUPERase·In) for 10 min at 70 °C. The gel debris was removed using a Spin-X column (Corning), followed by ethanol precipitation. To enrich capped small RNAs, 50 μg of total cellular RNA was fractionated using the RNA Clean & Concentrator kit (Zymo research). Briefly, adjusted RNA Binding Buffer was prepared by mixing an equal volume of buffer and 100% ethanol. Total RNA sample were mixed with 2 volumes of the adjusted buffer and transferred to the column. The mix was then centrifuged at 16,000 g for 30 s, and the flow-through was collected. 1 volume of ethanol were mixed with flow-through and transferred to a new column. The mix were centrifuged at 16,000 g for 30 s, and the flow-through was discarded. The column was washed by RNA Prep Buffer and Wash buffer, and the bound RNA was eluted with 50 μl DNase/RNase-Free water.  The eluted RNAs were dephosphorylated with 50 U of CIP (NEB) in a 100 μl reaction containing 1 × rCutSmart Buffer and 0.5 U/μl SUPERase·In at 37 °C for 1 h, followed by phenol-chloroform extraction and ethanol precipitation. Three-fourths of resulting RNAs were decapped with 0.75 μl of 5 U/μl Cap-Clip Acid Pyrophosphatase (Cellscript) in 1 × Cap-Clip Acid Pyrophosphatase Buffer at 37 °C for 1 h, followed by phenol-chloroform extraction and ethanol precipitation. The remaining one-fourth RNAs were phosphorylated with 20 U of T4 PNK in a 20 μl reaction containing 0.5 U/μl SUPERase·In, 2 mM ATP and 1 × T4 PNK Buffer at 37 °C for 1 h, followed by ethanol precipitation.
For Ribo-seq and trans-RNA-seq, 14 μl RNAs (10~200 ng) were mixed with 1 μl T4 PNK (NEB), 20 U SUPERase·In in 1 × T4 PNK buffer and incubated at 37 °C for 30 min followed by 65 °C for 20 min. After ethanol precipitation, 10 μl dissolved RNA were mixed with 1 μl homemade Ezra enzyme, 1 μl Poly(A) Polymerase (NEB) and 20 U SUPERase·In in 7 μl Ezra buffer. After incubation at 37 °C for 30 min followed by 65 °C for 20 min, 1 μl of 1 μM 5’ end adaptor, 1 μl of 1 μM biotinylated reverse transcription primer, 20 U SUPERase·In were added and incubated at 70 °C for 3 min followed by slowly cooling down (3 °C/min) to 25 °C. The hybridized RNA sample was mixed with 10 μl of pre-washed streptavidin beads and incubated at room temperature for 10 min. Beads were washed and re-suspended in 10 μl nuclease-free water. Ligation was performed for 60 min at 25 °C by mixing beads with a 10 μl reaction mixture (1 × T4 Rnl2 reaction buffer, 20 U SUPERase·In, 15% PEG8000 and 200 U T4 RNA ligase 2 truncated KQ (NEB)). After washing once with 2 × SSC, beads were re-suspended in 12 μl nuclease-free water and mixed with 8 μl cDNA synthesis mixture (5 × first strand buffer, 0.1 M DTT, 10 mM dNTP, RNaseOUT and SuperScript III) followed by incubation at 50 °C for 30 min. After washing once with 2 × SSC, beads were resuspended in 10 μl nuclease-free water and incubated at 95 °C for 2 min, then immediately placed on the ice for 1 min. After placing on magnet stand for 1 min, the supernatant cDNA was amplified by PCR using barcoded sequencing primers. PCR was performed by mixing 1 × HF buffer, 0.5 mM dNTP, 0.25 μM PCR 5primers and 0.025 U Phusion polymerase. PCR was carried out under the following conditions: 98 °C, 30 s; (98 °C, 5 s; 68 °C, 15 s; 72 °C, 10 s) for 12 cycles; 72 °C, 3 min. PCR products were separated on a 8% polyacrylamide TBE gel (Invitrogen). DNA products with the expected size 180 bp were excised and recovered from DNA elution buffer (300 mM NaCl, 1 mM EDTA).

value: WT


title: MDCK sEV, Input, replicate 1

description:
Library name: e1i
count_matrix_canis.csv


title: Ribo_starvation_trans2

data_processing:
Library strategy: Ribo-seq
The sequencing results were demultiplexed and converted to FASTQ format using Illumina bcl2fastq (v2.20.0.422) software.
The 5’ and 3’ adapters of the reads were trimmed by Cutadapt (version 2.8) using the following parameters:  -a “A{10}” -m 15 –max-n=0.1. The trimmed reads with length shorter than 15 nucleotides were excluded from the analysis.
The trimmed reads were first aligned to rRNAs using Bowtie (version 1.2.3) with the following parameters: -v 0 –norc.
The reads unaligned to rRNAs were then mapped to the custom mouse transcriptome using STAR (version 2.7.10a) with default parameters. To avoid ambiguity, reads mapped to multiple positions or with >2 mismatches were disregarded for further analysis.
Normalized read density was calculated by custom python scripts.
Assembly: GRCh39.p13;GRCm39
Supplementary files format and content:
comma-delimited text files including sense and antisense peak positions for trans-RNA-seq samples
comma-delimited text files including normalized read density around start and stop codons for Ribo-seq samples
comma-delimited text files including RPKM and TPM of RNA-seq samples
tab-delimited text files including identified ORF results by PRICE of Ribo-seq samples

value: starvation, transfection with trans-RNA against ATF4


title: MDCK sEV, Input, replicate 3

description:
Library name: e7i
count_matrix_canis.csv


title: LN308, IP, replicate 4

description:
Library name: 12p
count_matrix_homo.csv
counts_long.csv

value: neural (glial)

value: LN308, IP


title: MDCK sEV, Control, replicate 3

description:
Library name: e7h
count_matrix_canis.csv


title: Ribo_starvation

value: starvation


title: Ribo_starvation_trans1


title: Ribo_control

value: control


title: RNA-Seq_fasting

description: Library name: Sample_8

data_processing:
The sequencing results were demultiplexed and converted to FASTQ format using Illumina bcl2fastq (v2.20.0.422) software.
The 5’ and 3’ adapters of the reads were trimmed by Cutadapt (version 2.8) using the following parameters:  -a “A{10}” -m 15 –max-n=0.1. The trimmed reads with length shorter than 15 nucleotides were excluded from the analysis.
The trimmed reads were first aligned to rRNAs using Bowtie (version 1.2.3) with the following parameters: -v 0 –norc.
The reads unaligned to rRNAs were then mapped to the custom human or mouse transcriptome using STAR (version 2.7.10a) with default parameters. To avoid ambiguity, reads mapped to multiple positions or with >2 mismatches were disregarded for further analysis.
Normalized read density was calculated by custom python scripts.
Assembly: GRCh39.p13;GRCm39
Supplementary files format and content: comma-delimited text files including sense and antisense peak positions for trans-RNA-seq samples.
Supplementary files format and content: comma-delimited text files including normalized read density around start and stop codons for Ribo-seq samples.
Supplementary files format and content: comma-delimited text files including RPKM and TPM of RNA-seq samples.

source_name: liver

extract_protocol:
For Ribo-seq, RNA was extracted using Trizol LS reagent (Invitrogen) followed by ethanol precipitation. The ribosome-protected mRNA fragments (RPFs) were separated on a 15% polyacrylamide TBE-urea gel (Invitrogen) and visualized using SYBR Gold (Invitrogen). Selected regions in the gel corresponding to 25-35 nt were excised and dissolved by soaking in 400 μl RNA elution buffer (300 mM NaOAc pH 5.2, 1 mM EDTA, 0.1 U/μl SUPERase·In) for 10 min at 70 °C. The gel debris was removed using a Spin-X column (Corning), followed by ethanol precipitation. To enrich capped small RNAs, 50 μg of total cellular RNA was fractionated using the RNA Clean & Concentrator kit (Zymo research). Briefly, adjusted RNA Binding Buffer was prepared by mixing an equal volume of buffer and 100% ethanol. Total RNA sample were mixed with 2 volumes of the adjusted buffer and transferred to the column. The mix was then centrifuged at 16,000 g for 30 s, and the flow-through was collected. 1 volume of ethanol were mixed with flow-through and transferred to a new column. The mix were centrifuged at 16,000 g for 30 s, and the flow-through was discarded. The column was washed by RNA Prep Buffer and Wash buffer, and the bound RNA was eluted with 50 μl DNase/RNase-Free water.  The eluted RNAs were dephosphorylated with 50 U of CIP (NEB) in a 100 μl reaction containing 1 × rCutSmart Buffer and 0.5 U/μl SUPERase·In at 37 °C for 1 h, followed by phenol-chloroform extraction and ethanol precipitation. Three-fourths of resulting RNAs were decapped with 0.75 μl of 5 U/μl Cap-Clip Acid Pyrophosphatase (Cellscript) in 1 × Cap-Clip Acid Pyrophosphatase Buffer at 37 °C for 1 h, followed by phenol-chloroform extraction and ethanol precipitation. The remaining one-fourth RNAs were phosphorylated with 20 U of T4 PNK in a 20 μl reaction containing 0.5 U/μl SUPERase·In, 2 mM ATP and 1 × T4 PNK Buffer at 37 °C for 1 h, followed by ethanol precipitation.
For Ribo-seq, trans-RNA-seq, and RNA-seq, 14 μl RNAs (10~200 ng) were mixed with 1 μl T4 PNK (NEB), 20 U SUPERase·In in 1 × T4 PNK buffer and incubated at 37 °C for 30 min followed by 65 °C for 20 min. After ethanol precipitation, 10 μl dissolved RNA were mixed with 1 μl homemade Ezra enzyme, 1 μl Poly(A) Polymerase (NEB) and 20 U SUPERase·In in 7 μl Ezra buffer. After incubation at 37 °C for 30 min followed by 65 °C for 20 min, 1 μl of 1 μM 5’ end adaptor, 1 μl of 1 μM biotinylated reverse transcription primer, 20 U SUPERase·In were added and incubated at 70 °C for 3 min followed by slowly cooling down (3 °C/min) to 25 °C. The hybridized RNA sample was mixed with 10 μl of pre-washed streptavidin beads and incubated at room temperature for 10 min. Beads were washed and re-suspended in 10 μl nuclease-free water. Ligation was performed for 60 min at 25 °C by mixing beads with a 10 μl reaction mixture (1 × T4 Rnl2 reaction buffer, 20 U SUPERase·In, 15% PEG8000 and 200 U T4 RNA ligase 2 truncated KQ (NEB)). After washing once with 2 × SSC, beads were re-suspended in 12 μl nuclease-free water and mixed with 8 μl cDNA synthesis mixture (5 × first strand buffer, 0.1 M DTT, 10 mM dNTP, RNaseOUT and SuperScript III) followed by incubation at 50 °C for 30 min. After washing once with 2 × SSC, beads were resuspended in 10 μl nuclease-free water and incubated at 95 °C for 2 min, then immediately placed on the ice for 1 min. After placing on magnet stand for 1 min, the supernatant cDNA was amplified by PCR using barcoded sequencing primers. PCR was performed by mixing 1 × HF buffer, 0.5 mM dNTP, 0.25 μM PCR 5primers and 0.025 U Phusion polymerase. PCR was carried out under the following conditions: 98 °C, 30 s; (98 °C, 5 s; 68 °C, 15 s; 72 °C, 10 s) for 12 cycles; 72 °C, 3 min. PCR products were separated on a 8% polyacrylamide TBE gel (Invitrogen). DNA products with the expected size 180 bp were excised and recovered from DNA elution buffer (300 mM NaCl, 1 mM EDTA).

value: liver

value: fasting


title: RNA-Seq_fasting_trans1

description: Library name: Sample_9

value: fasting, transfection with trans-RNA against ATF4


title: experiment_H001AS8_P23_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23

status: Public on Sep 30 2025

city: Torino

first: Elisa

last: Balmas

address: via Nizza 52

country: Italy

institute: University of Torino

description:
differentiation DD23
RT_primers_conditions.txt
sci_RNA_cds_monocle_cell_info.txt
sci_RNA_cds_monocle_counts_norm.txt
sci_RNA_cds_monocle_ceount_prenorm.txt
sci_RNA_cds_monocle_processed.txt

data_processing:
Illumina base calls for iPS2-sci-seq were converted to fastq and demultiplexed with bcl2fastq v2.20.0.422, using i7 and i5 PCR indexes.
count data were obtained from fastq files with the catcheR_scicount function  implemented in our catcheR package https://github.com/alessandro-bertero/catcheR
Reads 1 and 2 were concatenated, adaptor trimmed with TrimGalore 0.6.10, aligned with STAR 2.5.1b to human GRCh38 (GENECODE v21/Ensembl77) gene annotation, and filtered to have a MAPQ score equal of higher than 30 with samtools 1.7. Uniquely mapping reads were extracted, and reads with identical UMI, RT index, and tagmentation site were collapsed as PCR duplicates. RT_primers_conditions.txt file was used to demultiplex the first level of indexing.  Samtools and bedtools 2.27.1 were used to calculate the percentage of ribosomal RNA and to assign reads to genes. Reads were finally assigned to nuclei by further demultiplexing with the RT indexes. Cells with less than 500 UMI were filtered out as noise/low quality. The remaining sparse count matrix was converted to a complete count matrix with the sparsetodense function of Monocle 2.22.
shRNA and cell barcodes have been identified with catcheR_scicatch function implemented in our catcheR package https://github.com/alessandro-bertero/catcheR (this allow to link the cell ID to a cell perturbation)
Assembly: custom reference combining human reference genome (hg19), mouse reference genome (mm10), built by UW genome research (Seattle,WA) and used for Cao J et al. 2017 PMID: 28818938
Supplementary files format and content: sci_RNA_cds_monocle_cell_info.txt is the annotation file post QC and processing
Supplementary files format and content: sci_RNA_cds_monocle_counts_norm.txt normalized read count post QC and processing
Supplementary files format and content: sci_RNA_cds_monocle_counts_prenorm.txt unnormalized read count post QC and processing
Supplementary files format and content: sci_RNA_cds_monocle_processed.rds full post QC and processing single cell dataset file

source_name: hPSC derived cardiomyocytes

growth_protocol: hPSC were differentiated into cardiomyocites with RBA media.

extract_protocol:
Nuclear extraction by IGEPAL 0.3% ipotonic buffer. PFA fixation. RNAse inhibitors have been used during all steps to avoid RNA degradation.
2-level indexing sci-RNAseq protocol for the gene expression library and the barcode library. shRNA barcodes have been enriched during RT and PCR indexing by a nested PCR binding the TET repressor.
sci-RNASeq 2 levels of combinatorial indexing

treatment_protocol: hPSC tranfected in pool with iPS-2seq plasmids in AAVS1 locus (multiple perturbations in pool). shRNA expression has been induced throughout differentiation with Tetracycline. hPSC derived cardiomyocytes were cultured for 23 days with tetracycline. Then Harvested at single cell suspension and processed for nuclear extraction.

value: hPSC derived cardiomyocytes

value: hPSC derived cardiomyocytes DD23

value: Tetracycline


title: experiment_H001AS8_P24_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P20_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P19_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P17_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P15_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: RNA-Seq_fed

description: Library name: Sample_7


title: experiment_H001AS8_P22_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P13_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P21_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P18_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P11_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P12_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P09_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P10_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P16_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: EMT6, IP, replicate 2

description:
Library name: 26p
count_matrix_mus.csv

value: EMT6, IP


title: experiment_H001AS8_P07_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: MDCK Supermere, IP, replicate 3

description:
Library name: e9p
count_matrix_canis.csv

value: MDCK

value: MDCK Supermere, IP


title: experiment_H001AS8_P08_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P04_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P05_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P06_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P03_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P02_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P14_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_P01_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O24_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O23_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O21_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O22_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O20_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O19_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O18_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O17_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O15_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O16_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O13_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O14_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O12_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O11_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O10_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O09_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O05_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O08_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O07_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O06_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: MDCK Supermere, Input, replicate 1

description:
Library name: e3i
count_matrix_canis.csv

value: MDCK Supermere, Input


title: experiment_H001AS8_O04_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O03_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O02_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_O01_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N24_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N21_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N22_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N23_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N20_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N19_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N18_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: AML2, Input, replicate 2

description:
Library name: 30i
count_matrix_homo.csv
counts_long.csv

value: hematopoietic

value: AML2, Input


title: experiment_H001AS8_N16_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N17_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: Control_Total

value: WT


title: experiment_H001AS8_N15_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N13_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N12_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N14_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N11_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N10_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N09_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N08_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N07_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N06_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N05_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N04_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N03_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N02_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_N01_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M24_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M23_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M21_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M22_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M20_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M19_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M17_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M16_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M15_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M14_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M18_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M13_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M12_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M10_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M08_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M07_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M09_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M06_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M05_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M04_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M03_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M02_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M01_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L24_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L23_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L22_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L21_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L20_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L19_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L18_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L17_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L16_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L15_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L14_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L13_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L12_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L10_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L11_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L09_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L08_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L07_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L06_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L05_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L04_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L02_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L03_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_L01_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K22_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K21_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K23_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K24_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K20_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K19_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K18_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K16_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K17_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K15_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_M11_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K14_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K13_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K11_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K12_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K10_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K09_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K08_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K07_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K06_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K05_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K04_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K02_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K03_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J24_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_K01_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J23_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J22_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J21_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J20_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J19_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J17_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J15_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J16_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J18_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J13_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J14_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J12_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J11_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J10_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J09_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J08_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J06_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J05_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J07_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J04_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J01_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J02_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_J03_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I24_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I23_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I21_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I22_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I19_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I20_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I18_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I16_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I15_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I14_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I17_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I12_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I13_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I11_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I10_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I09_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I08_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I07_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I06_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I04_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I03_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I05_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I02_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_I01_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H24_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H23_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H22_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H21_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H20_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H18_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H16_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H19_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H17_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H15_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H14_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H13_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H12_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H11_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H09_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H07_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H08_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H06_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H10_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H05_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: EMT6, Input, replicate 2

description:
Library name: 26i
count_matrix_mus.csv

value: epithelial

value: EMT6, Input


title: experiment_H001AS8_H04_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H03_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H02_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_H01_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G24_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G23_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G22_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G19_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G21_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G20_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G18_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G17_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G16_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G15_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G12_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G13_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G14_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G10_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G11_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G09_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G08_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G07_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G06_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G05_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G03_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G04_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G02_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F24_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_G01_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F23_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F22_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F21_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F19_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F18_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F20_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F17_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F16_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F15_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F14_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F13_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F12_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F11_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F10_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F09_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F08_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F07_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F05_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F06_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F04_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F03_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F02_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_F01_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E24_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E23_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E21_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E22_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E20_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E19_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E18_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E17_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E16_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E15_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E14_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E13_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E12_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E09_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E11_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E10_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E08_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E07_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E06_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E05_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E04_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E03_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E02_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_E01_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D24_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D21_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D22_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D23_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D20_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D19_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D18_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D16_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D17_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D15_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D14_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D13_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D12_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D11_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D10_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D09_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D08_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D07_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D06_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D05_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D04_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D03_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D02_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_D01_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C24_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C23_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C20_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C22_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C21_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C19_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C18_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C17_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C16_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C15_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C14_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C13_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C12_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C11_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C09_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C10_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C08_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C06_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C07_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C05_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C03_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C04_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C01_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_C02_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_B24_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_B23_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_B21_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_B20_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_B22_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_B19_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_B18_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_B16_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_B17_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_B15_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_B14_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_B13_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_B12_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_B10_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23


title: experiment_H001AS8_B11_sci-iPS-2sec dataset on hPSC derived Cardiomyocytes DD23