title: TTseq_TotalRNA_Jurkat_30min_stimulated_Rep2


title: 12A6LN21

status: Public on Jul 18 2019

type: RNA

city: La Jolla

first: Luc

last: Teyton

state: CA

address: 10550 North Torrey Pines Road

country: USA

institute: TSRI

description: 12-20A 6weeks UPDATED.csv

data_processing: Custom R analysis pipeline

label: EVAGREEN

molecule: total RNA

organism: Mus musculus

source_name: LymphNode

label_protocol: IAg7 tetramers with PE fluorphores. Stain at 4C for 60 minutes

extract_protocol: Tetramer used to stain CD4+ T cells specific to either 12-20 or 13-21 of the insulin Beta chain from various NOD mice tissues.

tag: cell type

value: CD4+ T cell

tag: strain

value: NOD/ShiLtJ

tag: iag7 tetramer

tag: age (in weeks)


title: p12M3W8i24

source_name: Islets


title: 12A6S10

description: 12-20A 6weeks UPDATED.csv

source_name: Spleen


title: p12M3W8i23


title: p12M3W8i22


title: TTseq_TotalRNA_Jurkat_15min_stimulated_Rep2

type: SRA

city: Solna

first: Gert-Jan

last: Hendriks

address: Solnavägen 9

department: Cell and Molecular Biology

country: Sweden

institute: Karolinska Institutet

description: DESeq2_results_lfcThreshold1_TotalRNA_Jurkat_15min_stimulated_vs_unstimulated.csv

library_source: transcriptomic

data_processing:
NASC-seq: Trimming of reads was performed with trimgalore
NASC-seq: Reads were aligned to Hg38 using STAR aligner
NASC-seq: Duplicates were removed with Picard
NASC-seq: Data was further processed using the NASC-seq analysis pipeline
NASC-seq: Cell filtering for processing was performed, cells with less than 100000 total reads, less than 50000 mapping reads or less than 10% of reads mapping were removed from the analysis.
TT-seq data processing. Paired-end 75 base reads with additional 6 base reads of barcodes were demultiplexed and mapped with STAR (Dobin and Gingeras 2015) to the Hg38 (GRCh38) genome assembly (Human Genome Reference Consortium). Samtools (Li, Handsaker et al. 2009) was used to quality filter SAM files, whereby alignments with MAPQ smaller than 7 (-q 7) were skipped and only proper pairs (-f2) were selected. Read counts per gene were calculated using HTSeq (Anders, Pyl et al. 2015). The resulting count tables were used as input for differential expression analysis using the R/Bioconductor implementation of DESeq2.
Genome_build: Hg38
Supplementary_files_format_and_content: NASC-seq: The readcounts.csv file contains the readcounts for all features for all cells (even those filtered out during NASC-seq pipeline processing) for the corresponding experiment
Supplementary_files_format_and_content: NASC-seq: The newcounts.csv contains the 'counts' for reads that are considered newly produced for the corresponding experiment. Since we calculate fractions of total reads, this field may contain decimal values. Please note that we cannot caluclate the fraction of reads that is new/old for lowly expressed genes, (i.e. less than 16 reads), which results in the introduction of NA values.
Supplementary_files_format_and_content: NASC-seq: The oldcounts.csv contains the 'counts' for reads that are considered pre-existing for the corresponding experiment. Since we calculate fractions of total reads, this field may contain decimal values. Please note that we cannot caluclate the fraction of reads that is new/old for lowly expressed genes, (i.e. less than 16 reads), which results in the introduction of NA values.
Supplementary_files_format_and_content: TT-seq: DESeq2_results .csv files contain results from differential expression analysis using DESeq2 setting lfcThreshold = 1.

organism: Homo sapiens

source_name: Jurkat

growth_protocol:
NASC-seq: Cells were grown in RPMI 1640 medium (Gibco) supplemented with 10% fetal bovine serum (Sigma) and 1% Penicillin/Streptomycin (HyClone) at 37°C under 5% CO2.
TT-seq: Cells were grown in RPMI 1640 medium (Gibco) supplemented with 10% fetal bovine serum (Sigma) and 1% Penicillin/Streptomycin (HyClone) at 37°C under 5% CO2.

extract_protocol:
NASC-seq: Cells were distributed to NASC-seq lysis buffer with FACS.
TT-seq: Total RNA was extracted using TRIzol (Life Technologies), 4sU-labeled RNA was extracted according to Dolken et al., RNA, 2008 and fragmented with a BioRuptor Next Gen (Diagenode) at high power for one cycle of 30’’/30’’ ON/OFF (see also Schwalb et al., 2016)
NASC-seq: Libraries were prepared using the NASC-seq protocol
TT-seq: Sequencing libraries were prepared with the Ovation Universal RNA-Seq System (NuGEN) following the manufacturer's’ instructions

treatment_protocol:
NASC-seq: On the day of the experiment, Jurkat cells were seeded to a density of 1*10^6 cells/ml and stimulated with 50ng/μl phorbol 12-myristate 13-acetate (PMA) and 1μM ionomycin (Sigma) or treated with solvent control (DMSO, Sigma) for the indicated time at 37°C under 5% CO2. NASC-seq (Jurkat cells): Cells were labelled grown with 4sU (50μM) during the entire stimulus.
NASC-seq: K562 cells were passaged the day before the experiment and labeled with 4sU (50μM) for 60 minutes.
TT-seq: On the day of the experiment, Jurkat cells were seeded to a density of 1*10^6 cells/ml and stimulated with 50ng/μl phorbol 12-myristate 13-acetate (PMA) and 1μM ionomycin (Sigma) or treated with solvent control (DMSO, Sigma) for the indicated time at 37°C under 5% CO2. During the last 5 minutes of each time point cells were labelled in media with 500μM 4sU (Sigma) at 37°C under 5% CO2. Cells were harvested by centrifugation at 1400xg for 2 min.

tag: 4su labelling

value: 5min 4sU

tag: pma + ionomycin stimulation

value: PMA + ionomycin stimulated, 15 minutes

tag: method

value: TT-seq

tag: molecule

value: total RNA


title: TTseq_TotalRNA_Jurkat_15min_stimulated_Rep1


title: p12M3W8i21


title: TTseq_5min4sU_Jurkat_30min_unstimulated_Rep2

description: DESeq2_results_lfcThreshold1_5min4sU_Jurkat_30min_stimulated_vs_unstimulated.csv

value: Unstimulated

value: 4sU-labeled RNA


title: 12A6S11

description: 12-20A 6weeks UPDATED.csv


title: TTseq_5min4sU_Jurkat_30min_stimulated_Rep2

value: PMA + ionomycin stimulated, 30 minutes


title: TTseq_5min4sU_Jurkat_30min_unstimulated_Rep1


title: p12M3W8i17


title: TTseq_TotalRNA_Jurkat_30min_unstimulated_Rep1

description: DESeq2_results_lfcThreshold1_TotalRNA_Jurkat_30min_stimulated_vs_unstimulated.csv


title: p12M3W8i16


title: p12M3W8i15


title: 12A6S1

description: 12-20A 6weeks UPDATED.csv


title: p12M3W8i14


title: TTseq_5min4sU_Jurkat_15min_unstimulated_Rep2

description: DESeq2_results_lfcThreshold1_5min4sU_Jurkat_15min_stimulated_vs_unstimulated.csv


title: TTseq_5min4sU_Jurkat_15min_unstimulated_Rep1


title: p12M3W8i13


title: TTseq_5min4sU_Jurkat_15min_stimulated_Rep2


title: TTseq_TotalRNA_Jurkat_15min_unstimulated_Rep1


title: P2_H9_exp4_Jurkat_60min4sU_Stimulated

description:
exp4_readcounts.csv
exp4_newcounts.csv
exp4_oldcounts.csv

molecule: polyA RNA

value: 60min 4sU

value: PMA + ionomycin stimulated, 60 minutes

value: NASC-seq

value: polyA RNA


title: TTseq_5min4sU_Jurkat_15min_stimulated_Rep1


title: p12M3W8i12


title: p12M3W8i11


title: p12M3W8i10


title: P2_H7_exp4_Jurkat_60min4sU_Unstimulated


title: P2_H8_exp4_Jurkat_60min4sU_Stimulated


title: p12M3W8i19


title: p12M3W8i9


title: P2_H6_exp4_Jurkat_60min4sU_Unstimulated


title: p12M3W8i8


title: p12M3W8i7


title: P2_H3_exp4_Jurkat_60min4sU_Unstimulated


title: P2_H4_exp4_Jurkat_60min4sU_Unstimulated


title: P2_H5_exp4_Jurkat_60min4sU_Unstimulated


title: TTseq_5min4sU_Jurkat_30min_stimulated_Rep1


title: P2_H2_exp4_Jurkat_unlabelled_Unstimulated

value: no 4sU labelling


title: P2_H12_exp4_Jurkat_60min4sU_Stimulated


title: p12M3W8i3


title: p12M3W8i2


title: p12M3W8b24

source_name: Blood


title: p12M3W8i1


title: P2_G9_exp4_Jurkat_60min4sU_Stimulated


title: p12M3W8b23


title: P2_G8_exp4_Jurkat_60min4sU_Stimulated


title: p12M3W8b22


title: p12M3W8b21


title: p12M3W8b20


title: p12M3W8b19


title: P2_G4_exp4_Jurkat_60min4sU_Unstimulated


title: P2_G6_exp4_Jurkat_60min4sU_Unstimulated


title: P2_G5_exp4_Jurkat_60min4sU_Unstimulated


title: P2_G3_exp4_Negative_control

source_name: Negative control

value: Negative control


title: p12M3W8b18


title: p12M3W8i4


title: p12M3W8i5


title: p12M3W8b17


title: P2_G2_exp4_Jurkat_unlabelled_Unstimulated


title: p12M3W8b16


title: P2_G12_exp4_Jurkat_60min4sU_Stimulated


title: P2_H11_exp4_Jurkat_60min4sU_Stimulated


title: P2_H1_exp4_Jurkat_unlabelled_Unstimulated


title: P2_H10_exp4_Jurkat_60min4sU_Stimulated


title: p12M3W8b15


title: P2_G10_exp4_Negative_control


title: p12M3W8b13


title: p12M3W8b14


title: P2_G7_exp4_Jurkat_60min4sU_Unstimulated


title: p12M3W8b12


title: P2_F9_exp4_Jurkat_60min4sU_Stimulated


title: P2_G11_exp4_Jurkat_60min4sU_Stimulated


title: P2_G1_exp4_Jurkat_unlabelled_Unstimulated


title: P2_F8_exp4_Jurkat_60min4sU_Stimulated


title: P2_F7_exp4_Jurkat_60min4sU_Unstimulated


title: p12M3W8b10


title: p12M3W8b9


title: P2_F6_exp4_Jurkat_60min4sU_Unstimulated


title: P2_F5_exp4_Jurkat_60min4sU_Unstimulated


title: P2_F4_exp4_Jurkat_60min4sU_Unstimulated


title: P2_F3_exp4_Jurkat_60min4sU_Unstimulated


title: p12M3W8b7


title: p12M3W8b6


title: P2_F2_exp4_Jurkat_unlabelled_Unstimulated


title: p12M3W8b5


title: p12M3W8b4


title: P2_F12_exp4_Jurkat_60min4sU_Stimulated


title: P2_F11_exp4_Jurkat_60min4sU_Stimulated


title: p12M3W8b3


title: p12M3W8b2


title: P2_F10_exp4_Jurkat_60min4sU_Stimulated


title: P2_F1_exp4_Jurkat_unlabelled_Unstimulated


title: p12M3W8b1


title: P2_E9_exp4_Jurkat_60min4sU_Stimulated


title: p12M3W8LN21


title: p12M3W8b11


title: p12M3W8LN23


title: p12M3W8LN22


title: P2_E7_exp4_Jurkat_60min4sU_Unstimulated


title: P2_E8_exp4_Jurkat_60min4sU_Stimulated


title: p12M3W8LN20


title: P2_E5_exp4_Jurkat_60min4sU_Unstimulated


title: p12M3W8b8


title: p12M3W8LN18


title: P2_E4_exp4_Jurkat_60min4sU_Unstimulated


title: p12M3W8LN17


title: p12M3W8LN16


title: P2_E2_exp4_Jurkat_unlabelled_Unstimulated


title: P2_E3_exp4_Jurkat_60min4sU_Unstimulated


title: p12M3W8LN15


title: p12M3W8LN14


title: P2_E12_exp4_Jurkat_60min4sU_Stimulated


title: p12M3W8LN13


title: P2_E11_exp4_Jurkat_60min4sU_Stimulated


title: P2_E10_exp4_Jurkat_60min4sU_Stimulated


title: p12M3W8LN12


title: P2_E6_exp4_Jurkat_60min4sU_Unstimulated


title: p12M3W8LN11


title: P2_E1_exp4_Jurkat_unlabelled_Unstimulated


title: p12M3W8LN9


title: P2_D9_exp4_Jurkat_60min4sU_Stimulated


title: p12M3W8LN7


title: P2_D8_exp4_Jurkat_60min4sU_Stimulated


title: P2_D7_exp4_Jurkat_60min4sU_Unstimulated


title: p12M3W8LN19


title: p12M3W8LN8


title: P2_D5_exp4_Jurkat_60min4sU_Unstimulated


title: p12M3W8LN6


title: P2_D4_exp4_Jurkat_60min4sU_Unstimulated


title: p12M3W8LN4


title: p12M3W8LN5


title: P2_D3_exp4_Jurkat_60min4sU_Unstimulated


title: p12M3W8LN3


title: p12M3W8S24


title: p12M3W8LN2


title: P2_D11_exp4_Jurkat_60min4sU_Stimulated


title: P2_D12_exp4_Jurkat_60min4sU_Stimulated


title: p12M3W8S22


title: P2_D10_exp4_Jurkat_60min4sU_Stimulated


title: p12M3W8S23


title: p12M3W8S21


title: P2_D6_exp4_Jurkat_60min4sU_Unstimulated


title: p12M3W8S20


title: p12M3W8S19


title: P2_C7_exp4_Jurkat_60min4sU_Unstimulated


title: P2_C4_exp4_Jurkat_60min4sU_Unstimulated


title: P2_C6_exp4_Jurkat_60min4sU_Unstimulated


title: P2_C9_exp4_Jurkat_60min4sU_Stimulated


title: p12M3W8S15


title: p12M3W8S17


title: P2_D2_exp4_Jurkat_unlabelled_Unstimulated


title: p12M3W8S14


title: P2_C5_exp4_Jurkat_60min4sU_Unstimulated


title: P2_C3_exp4_Jurkat_60min4sU_Unstimulated


title: P2_C2_exp4_Jurkat_unlabelled_Unstimulated


title: p12M3W8S13


title: p12M3W8S12


title: p12M3W8S11


title: P2_C11_exp4_Jurkat_60min4sU_Stimulated


title: P2_D1_exp4_Jurkat_unlabelled_Unstimulated


title: P2_C10_exp4_Jurkat_60min4sU_Stimulated


title: P2_C12_exp4_Jurkat_60min4sU_Stimulated


title: p12M3W8S18


title: P2_C8_exp4_Jurkat_60min4sU_Stimulated


title: P2_B9_exp4_Jurkat_60min4sU_Stimulated


title: P2_C1_exp4_Jurkat_unlabelled_Unstimulated


title: P2_B8_exp4_Jurkat_60min4sU_Stimulated


title: 12-20W13M3LN24


title: 12-20W13M3LN23


title: p12M3W8S5


title: p12M3W8S6


title: p12M3W8S3


title: p12M3W8S8


title: p12M3W8S7


title: p12M3W8S10


title: p12M3W8S9


title: 12-20W13M3LN22


title: p12M3W8i18


title: 12-20W13M3LN21


title: 12-20W13M3LN20


title: 12-20W13M3LN19


title: p12M3W8S4


title: 12-20W13M3LN18


title: 12-20W13M3LN17


title: P2_B5_exp4_Jurkat_60min4sU_Unstimulated


title: P2_B3_exp4_Jurkat_60min4sU_Unstimulated


title: P2_B10_exp4_Jurkat_60min4sU_Stimulated


title: P2_B7_exp4_Jurkat_60min4sU_Unstimulated


title: P2_B12_exp4_Jurkat_60min4sU_Stimulated


title: P2_B6_exp4_Jurkat_60min4sU_Unstimulated


title: P2_B4_exp4_Jurkat_60min4sU_Unstimulated


title: P2_B11_exp4_Jurkat_60min4sU_Stimulated


title: P2_B2_exp4_Jurkat_unlabelled_Unstimulated


title: 12-20W13M3LN16


title: 12-20W13M3LN14


title: p12M3W8i6


title: 12-20W13M3LN15


title: 12-20W13M3LN13


title: 12-20W13M3LN12


title: P2_A8_exp4_Jurkat_60min4sU_Stimulated


title: P2_B1_exp4_Jurkat_unlabelled_Unstimulated


title: P2_A7_exp4_Jurkat_60min4sU_Unstimulated


title: 12-20W13M3LN11


title: P2_A9_exp4_Jurkat_60min4sU_Stimulated


title: P2_A6_exp4_Jurkat_60min4sU_Unstimulated


title: P2_A4_exp4_Jurkat_60min4sU_Unstimulated


title: P2_A5_exp4_Jurkat_60min4sU_Unstimulated


title: P2_A2_exp4_Jurkat_unlabelled_Unstimulated


title: 12-20W13M3LN10


title: P2_A11_exp4_Jurkat_60min4sU_Stimulated


title: P2_A10_exp4_Jurkat_60min4sU_Stimulated


title: 12-20W13M3LN8


title: P2_A3_exp4_Jurkat_60min4sU_Unstimulated


title: 12-20W13M3LN4


title: 12-20W13M3LN7


title: 12-20W13M3LN6


title: P1_H9_exp4_Jurkat_60min4sU_Stimulated


title: P1_H6_exp4_Jurkat_60min4sU_Unstimulated


title: 12-20W13M3LN9


title: 12-20W13M3LN5


title: P2_A12_exp4_Jurkat_60min4sU_Stimulated


title: P1_H7_exp4_Jurkat_60min4sU_Unstimulated


title: 12-20W13M3LN3


title: P1_H2_exp4_Jurkat_unlabelled_Unstimulated


title: 13-21W13M3LN22


title: P1_H12_exp4_Jurkat_60min4sU_Stimulated


title: 12-20W13M3LN1


title: P1_H5_exp4_Jurkat_60min4sU_Unstimulated


title: 13-21W13M3LN20


title: P1_H10_exp4_Jurkat_60min4sU_Stimulated


title: 13-21W13M3LN19


title: 13-21W13M3LN24


title: P1_H3_exp4_Jurkat_60min4sU_Unstimulated


title: 13-21W13M3LN21


title: P1_H11_exp4_Jurkat_60min4sU_Stimulated


title: 12-20W13M3LN2


title: P2_A1_exp4_Jurkat_unlabelled_Unstimulated


title: P1_H1_exp4_Jurkat_unlabelled_Unstimulated


title: 13-21W13M3LN17


title: P1_H4_exp4_Jurkat_60min4sU_Unstimulated


title: 13-21W13M3LN14


title: P1_G8_exp4_Jurkat_60min4sU_Stimulated


title: 13-21W13M3LN16


title: P1_G7_exp4_Jurkat_60min4sU_Unstimulated


title: P1_H8_exp4_Jurkat_60min4sU_Stimulated


title: 13-21W13M3LN13


title: 13-21W13M3LN12


title: 13-21W13M3LN18


title: 13-21W13M3LN11


title: P1_G3_exp4_Negative_control


title: 13-21W13M3LN9


title: 13-21W13M3LN7


title: 13-21W13M3LN10


title: P1_G4_exp4_Jurkat_60min4sU_Unstimulated


title: P1_G5_exp4_Jurkat_60min4sU_Unstimulated


title: 13-21W13M3LN5


title: 13-21W13M3LN8


title: P1_G10_exp4_Negative_control


title: P1_G12_exp4_Jurkat_60min4sU_Stimulated


title: P1_G11_exp4_Jurkat_60min4sU_Stimulated


title: P1_G2_exp4_Jurkat_unlabelled_Unstimulated


title: 13-21W13M3LN6


title: 13-21W13M3LN4


title: P1_F9_exp4_Jurkat_60min4sU_Stimulated


title: P1_F8_exp4_Jurkat_60min4sU_Stimulated


title: 13-21W13M3LN3


title: P1_G6_exp4_Jurkat_60min4sU_Unstimulated


title: P1_F7_exp4_Jurkat_60min4sU_Unstimulated


title: 13-21W13M3LN2


title: 13-21W13M3I24


title: 13-21W13M3LN1


title: 13-21W13M3I23


title: P1_F3_exp4_Jurkat_60min4sU_Unstimulated


title: P1_F5_exp4_Jurkat_60min4sU_Unstimulated


title: P1_G1_exp4_Jurkat_unlabelled_Unstimulated


title: 13-21W13M3I22


title: 13-21W13M3I21


title: P1_F2_exp4_Jurkat_unlabelled_Unstimulated


title: P1_F12_exp4_Jurkat_60min4sU_Stimulated


title: 13-21W13M3I19


title: P1_F4_exp4_Jurkat_60min4sU_Unstimulated


title: 13-21W13M3I20


title: 13-21W13M3I17


title: 13-21W13M3I16


title: P1_F10_exp4_Jurkat_60min4sU_Stimulated


title: 13-21W13M3I15


title: P1_E9_exp4_Jurkat_60min4sU_Stimulated


title: P1_F1_exp4_Jurkat_unlabelled_Unstimulated


title: 13-21W13M3I18


title: P1_E7_exp4_Jurkat_60min4sU_Unstimulated


title: P1_E8_exp4_Jurkat_60min4sU_Stimulated


title: 13-21W13M3I14


title: 13-21W13M3I13


title: P1_F6_exp4_Jurkat_60min4sU_Unstimulated


title: P1_E6_exp4_Jurkat_60min4sU_Unstimulated


title: 13-21W13M3I12


title: 13-21W13M3I11


title: P1_E4_exp4_Jurkat_60min4sU_Unstimulated


title: P1_F11_exp4_Jurkat_60min4sU_Stimulated


title: P1_E2_exp4_Jurkat_unlabelled_Unstimulated


title: 13-21W13M3I8


title: 13-21W13M3I9


title: P1_E12_exp4_Jurkat_60min4sU_Stimulated


title: 13-21W13M3I7


title: 13-21W13M3I10


title: 13-21W13M3I6


title: P1_E11_exp4_Jurkat_60min4sU_Stimulated


title: 13-21W13M3I5


title: P1_E10_exp4_Jurkat_60min4sU_Stimulated


title: P1_D9_exp4_Jurkat_60min4sU_Stimulated


title: P1_E3_exp4_Jurkat_60min4sU_Unstimulated


title: P1_D8_exp4_Jurkat_60min4sU_Stimulated


title: 13-21W13M3I2


title: P1_G9_exp4_Jurkat_60min4sU_Stimulated


title: 12-20W13M3I24


title: P1_E5_exp4_Jurkat_60min4sU_Unstimulated


title: 12-20W13M3I23


title: P1_D5_exp4_Jurkat_60min4sU_Unstimulated


title: 13-21W13M3I1


title: P1_D4_exp4_Jurkat_60min4sU_Unstimulated


title: 12-20W13M3I22


title: P1_D3_exp4_Jurkat_60min4sU_Unstimulated


title: 12-20W13M3I21


title: P1_E1_exp4_Jurkat_unlabelled_Unstimulated


title: 13-21W13M3I4


title: 13-21W13M3I3


title: P1_D11_exp4_Jurkat_60min4sU_Stimulated


title: 12-20W13M3I18


title: P1_D7_exp4_Jurkat_60min4sU_Unstimulated


title: 12-20W13M3I19


title: P1_D12_exp4_Jurkat_60min4sU_Stimulated


title: P1_D1_exp4_Jurkat_unlabelled_Unstimulated


title: 12-20W13M3I17


title: P1_C8_exp4_Jurkat_60min4sU_Stimulated


title: P1_C9_exp4_Jurkat_60min4sU_Stimulated


title: 12-20W13M3I16


title: P1_D6_exp4_Jurkat_60min4sU_Unstimulated


title: 12-20W13M3I14


title: 12-20W13M3I13


title: P1_C6_exp4_Jurkat_60min4sU_Unstimulated


title: P1_C5_exp4_Jurkat_60min4sU_Unstimulated


title: 12-20W13M3I12


title: 12-20W13M3I10


title: 12-20W13M3I11


title: P1_D10_exp4_Jurkat_60min4sU_Stimulated


title: P1_C3_exp4_Jurkat_60min4sU_Unstimulated


title: 12-20W13M3I15


title: 12-20W13M3I9


title: P1_C2_exp4_Jurkat_unlabelled_Unstimulated


title: 12-20W13M3I20


title: P1_C12_exp4_Jurkat_60min4sU_Stimulated


title: P1_C7_exp4_Jurkat_60min4sU_Unstimulated


title: 12-20W13M3I7


title: 12-20W13M3I6


title: P1_C10_exp4_Jurkat_60min4sU_Stimulated


title: P1_C11_exp4_Jurkat_60min4sU_Stimulated


title: 12-20W13M3I5


title: P1_D2_exp4_Jurkat_unlabelled_Unstimulated


title: 12-20W13M3I3


title: P1_B8_exp4_Jurkat_60min4sU_Stimulated


title: 12-20W13M3I2


title: 12-20W13M3I4


title: P1_B7_exp4_Jurkat_60min4sU_Unstimulated


title: P1_C1_exp4_Jurkat_unlabelled_Unstimulated


title: P1_B5_exp4_Jurkat_60min4sU_Unstimulated


title: 12-20W13M3I1


title: P1_C4_exp4_Jurkat_60min4sU_Unstimulated


title: P1_B2_exp4_Jurkat_unlabelled_Unstimulated


title: 13-21W13M2LN23


title: 13-21W13M2LN22


title: 13-21W13M2LN20


title: 13-21W13M2LN21


title: 12-20W13M3I8


title: P1_B12_exp4_Jurkat_60min4sU_Stimulated


title: P1_B4_exp4_Jurkat_60min4sU_Unstimulated


title: 13-21W13M2LN19


title: P1_B9_exp4_Jurkat_60min4sU_Stimulated


title: 13-21W13M2LN18


title: P1_B10_exp4_Jurkat_60min4sU_Stimulated


title: 13-21W13M2LN17


title: 13-21W13M2LN16


title: P1_B11_exp4_Jurkat_60min4sU_Stimulated


title: 13-21W13M2LN15


title: P1_A8_exp4_Jurkat_60min4sU_Stimulated


title: P1_B1_exp4_Jurkat_unlabelled_Unstimulated


title: P1_B6_exp4_Jurkat_60min4sU_Unstimulated


title: 13-21W13M2LN14


title: P1_A7_exp4_Jurkat_60min4sU_Unstimulated


title: 13-21W13M2LN12


title: P1_A9_exp4_Jurkat_60min4sU_Stimulated


title: P1_B3_exp4_Jurkat_60min4sU_Unstimulated


title: 13-21W13M2LN11


title: P1_A5_exp4_Jurkat_60min4sU_Unstimulated


title: P1_A4_exp4_Jurkat_60min4sU_Unstimulated


title: 13-21W13M2LN24


title: 13-21W13M2LN9


title: 13-21W13M2LN10


title: 13-21W13M2LN7


title: 13-21W13M2LN8


title: 13-21W13M2LN13


title: P1_A12_exp4_Jurkat_60min4sU_Stimulated


title: P1_A3_exp4_Jurkat_60min4sU_Unstimulated


title: P1_A2_exp4_Jurkat_unlabelled_Unstimulated


title: P1_A10_exp4_Jurkat_60min4sU_Stimulated


title: P1_A11_exp4_Jurkat_60min4sU_Stimulated


title: 13-21W13M2LN5


title: 13-21W13M2LN6


title: P1_A6_exp4_Jurkat_60min4sU_Unstimulated


title: 13-21W13M2LN3


title: 13-21W13M2LN1


title: P2_H8_exp3_Jurkat_30min4sU_Stimulated

description:
exp3_readcounts.csv
exp3_newcounts.csv
exp3_oldcounts.csv

value: 30min 4sU


title: P2_H7_exp3_Jurkat_30min4sU_Unstimulated


title: 13-21W13M2LN2


title: P2_H6_exp3_Jurkat_30min4sU_Unstimulated


title: P2_H9_exp3_Jurkat_30min4sU_Stimulated


title: P2_H5_exp3_Jurkat_30min4sU_Unstimulated


title: 13-21W13M2I23


title: P2_H4_exp3_Jurkat_30min4sU_Unstimulated


title: P1_A1_exp4_Jurkat_unlabelled_Unstimulated


title: 13-21W13M2I24


title: P2_H3_exp3_Jurkat_30min4sU_Unstimulated


title: 13-21W13M2I21


title: 13-21W13M2I20


title: P2_H12_exp3_Jurkat_30min4sU_Stimulated


title: P2_H2_exp3_Jurkat_unlabelled_Unstimulated


title: 13-21W13M2I18


title: 13-21W13M2I19


title: 13-21W13M2I17


title: 13-21W13M2LN4


title: P2_G9_exp3_Jurkat_30min4sU_Stimulated


title: P2_G8_exp3_Jurkat_30min4sU_Stimulated


title: P2_H10_exp3_Jurkat_30min4sU_Stimulated


title: P2_H1_exp3_Jurkat_unlabelled_Unstimulated


title: P2_H11_exp3_Jurkat_30min4sU_Stimulated


title: 13-21W13M2I16


title: 13-21W13M2I14


title: 13-21W13M2I15


title: 13-21W13M2I13


title: 13-21W13M2I12


title: P2_G6_exp3_Jurkat_30min4sU_Unstimulated


title: P2_G4_exp3_Jurkat_30min4sU_Unstimulated


title: 13-21W13M2I10


title: 13-21W13M2I22


title: P2_G2_exp3_Jurkat_unlabelled_Unstimulated


title: P2_G7_exp3_Jurkat_30min4sU_Unstimulated


title: 13-21W13M2I9


title: 13-21W13M2I8


title: P2_G11_exp3_Jurkat_30min4sU_Stimulated


title: P2_G10_exp3_Negative_control


title: 13-21W13M2I6


title: P2_G3_exp3_Negative_control


title: 13-21W13M2I5


title: 13-21W13M2I4


title: 13-21W13M2I3


title: P2_F8_exp3_Jurkat_30min4sU_Stimulated


title: P2_G1_exp3_Jurkat_unlabelled_Unstimulated


title: P2_F6_exp3_Jurkat_30min4sU_Unstimulated


title: 13-21W13M2I1


title: 12-20W13M2LN24


title: 13-21W13M2I11


title: P2_G5_exp3_Jurkat_30min4sU_Unstimulated


title: 13-21W13M2I2


title: P2_F5_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W13M2LN23


title: P2_F4_exp3_Jurkat_30min4sU_Unstimulated


title: P2_F3_exp3_Jurkat_30min4sU_Unstimulated


title: P2_G12_exp3_Jurkat_30min4sU_Stimulated


title: P2_F2_exp3_Jurkat_unlabelled_Unstimulated


title: 12-20W13M2LN20


title: 13-21W13M2I7


title: 12-20W13M2LN21


title: P2_F12_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W13M2LN22


title: 12-20W13M2LN19


title: P2_F10_exp3_Jurkat_30min4sU_Stimulated


title: P2_F11_exp3_Jurkat_30min4sU_Stimulated


title: P2_F9_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W13M2LN16


title: P2_F1_exp3_Jurkat_unlabelled_Unstimulated


title: P2_E9_exp3_Jurkat_30min4sU_Stimulated


title: P2_F7_exp3_Jurkat_30min4sU_Unstimulated


title: P2_E8_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W13M2LN14


title: 12-20W13M2LN13


title: P2_E7_exp3_Jurkat_30min4sU_Unstimulated


title: P2_E6_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W13M2LN12


title: P2_E4_exp3_Jurkat_30min4sU_Unstimulated


title: P2_E5_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W13M2LN15


title: 12-20W13M2LN10


title: P2_E3_exp3_Jurkat_30min4sU_Unstimulated


title: P2_E2_exp3_Jurkat_unlabelled_Unstimulated


title: 12-20W13M2LN8


title: 12-20W13M2LN9


title: P2_E12_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W13M2LN7


title: P2_E11_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W13M2LN18


title: P2_E10_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W13M2LN4


title: 12-20W13M2LN17


title: P2_D9_exp3_Jurkat_30min4sU_Stimulated


title: P2_D8_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W13M2LN5


title: 12-20W13M2LN6


title: 12-20W13M2LN3


title: 12-20W13M2LN11


title: 12-20W13M2LN2


title: P2_D7_exp3_Jurkat_30min4sU_Unstimulated


title: P2_D6_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W13M2I24


title: P2_D5_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W13M2I21


title: 12-20W13M2I23


title: 12-20W13M2I22


title: 12-20W13M2I20


title: 12-20W13M2I19


title: P2_D3_exp3_Jurkat_30min4sU_Unstimulated


title: P2_D2_exp3_Jurkat_unlabelled_Unstimulated


title: 12-20W13M2I18


title: P2_D11_exp3_Jurkat_30min4sU_Stimulated


title: P2_D4_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W13M2I17


title: P2_D12_exp3_Jurkat_30min4sU_Stimulated


title: P2_D10_exp3_Jurkat_30min4sU_Stimulated


title: P2_D1_exp3_Jurkat_unlabelled_Unstimulated


title: P2_C9_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W13M2I16


title: P2_E1_exp3_Jurkat_unlabelled_Unstimulated


title: P2_C8_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W13M2I15


title: P2_C7_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W13M2I14


title: 12-20W13M2LN1


title: 12-20W13M2I13


title: P2_C6_exp3_Jurkat_30min4sU_Unstimulated


title: P2_C5_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W13M2I12


title: 12-20W13M2I11


title: P2_C4_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W13M2I10


title: 12-20W13M2I9


title: 12-20W13M2I8


title: P2_C12_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W13M2I7


title: 12-20W13M2I6


title: 12-20W13M2I5


title: P2_C2_exp3_Jurkat_unlabelled_Unstimulated


title: 12-20W13M2I4


title: P2_B9_exp3_Jurkat_30min4sU_Stimulated


title: P2_C11_exp3_Jurkat_30min4sU_Stimulated


title: P2_C1_exp3_Jurkat_unlabelled_Unstimulated


title: P2_C10_exp3_Jurkat_30min4sU_Stimulated


title: P2_B8_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W13M2I1


title: 12-20W8M4b48


title: 12-20W13M2I2


title: P2_B7_exp3_Jurkat_30min4sU_Unstimulated


title: P2_B5_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W13M2I3


title: P2_B4_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M4b47


title: P2_B6_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M4b45


title: 12-20W8M4b46


title: P2_C3_exp3_Jurkat_30min4sU_Unstimulated


title: P2_B2_exp3_Jurkat_unlabelled_Unstimulated


title: 12-20W8M4b43


title: P2_B12_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M4b42


title: 12-20W8M4b41


title: P2_B11_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M4b40


title: P2_B1_exp3_Jurkat_unlabelled_Unstimulated


title: P2_A9_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M4b37


title: 12-20W8M4b39


title: P2_B10_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M4b38


title: P2_A8_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M4b34


title: 12-20W8M4b36


title: P2_A6_exp3_Jurkat_30min4sU_Unstimulated


title: P2_A5_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M4b35


title: 12-20W8M4b33


title: P2_A4_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M4b32


title: P2_A7_exp3_Jurkat_30min4sU_Unstimulated


title: P2_A2_exp3_Jurkat_unlabelled_Unstimulated


title: 12-20W8M4b31


title: 12-20W8M4b30


title: P2_B3_exp3_Jurkat_30min4sU_Unstimulated


title: P2_A12_exp3_Jurkat_30min4sU_Stimulated


title: P2_A11_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M4b29


title: 12-20W8M4b28


title: P2_A10_exp3_Jurkat_30min4sU_Stimulated


title: P1_H9_exp3_Jurkat_30min4sU_Stimulated


title: P2_A1_exp3_Jurkat_unlabelled_Unstimulated


title: P1_H8_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M4b24


title: 12-20W8M4b25


title: P1_H6_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M4b23


title: 12-20W8M4b21


title: 12-20W8M4b27


title: P1_H5_exp3_Jurkat_30min4sU_Unstimulated


title: P1_H4_exp3_Jurkat_30min4sU_Unstimulated


title: P1_H2_exp3_Jurkat_unlabelled_Unstimulated


title: 12-20W8M4b22


title: 12-20W8M4b20


title: P1_H3_exp3_Jurkat_30min4sU_Unstimulated


title: P1_H11_exp3_Jurkat_30min4sU_Stimulated


title: P1_H10_exp3_Jurkat_30min4sU_Stimulated


title: P1_H12_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M4b16


title: 12-20W8M4b19


title: 12-20W8M4b17


title: 12-20W8M4b18


title: P1_H1_exp3_Jurkat_unlabelled_Unstimulated


title: 12-20W8M4b15


title: P1_G8_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M4b14


title: P1_G9_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M4b13


title: 12-20W8M4b26


title: P1_G6_exp3_Jurkat_30min4sU_Unstimulated


title: P2_A3_exp3_Jurkat_30min4sU_Unstimulated


title: P1_G5_exp3_Jurkat_30min4sU_Unstimulated


title: P1_G7_exp3_Jurkat_30min4sU_Unstimulated


title: P1_H7_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M4b9


title: 12-20W8M4b11


title: 12-20W8M4b10


title: 12-20W8M4b8


title: 12-20W8M4b7


title: P1_G3_exp3_Negative_control


title: P1_G12_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M4b6


title: 12-20W8M4b5


title: 12-20W8M4b4


title: P1_G1_exp3_Jurkat_unlabelled_Unstimulated


title: P1_F9_exp3_Jurkat_30min4sU_Stimulated


title: P1_F8_exp3_Jurkat_30min4sU_Stimulated


title: P1_G10_exp3_Negative_control


title: P1_F7_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M3b47


title: 12-20W8M4b12


title: P1_F6_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M3b44


title: P1_F4_exp3_Jurkat_30min4sU_Unstimulated


title: P1_F5_exp3_Jurkat_30min4sU_Unstimulated


title: P1_G4_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M3b43


title: 12-20W8M3b42


title: P1_G11_exp3_Jurkat_30min4sU_Stimulated


title: P1_G2_exp3_Jurkat_unlabelled_Unstimulated


title: P1_F2_exp3_Jurkat_unlabelled_Unstimulated


title: P1_F3_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M3b40


title: 12-20W8M4b3


title: 12-20W8M3b39


title: P1_F12_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M3b38


title: P1_F11_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M3b37


title: 12-20W8M4b2


title: P1_F1_exp3_Jurkat_unlabelled_Unstimulated


title: P1_F10_exp3_Jurkat_30min4sU_Stimulated


title: P1_E9_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M3b36


title: P1_E8_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M3b45


title: 12-20W8M3b35


title: P1_E7_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M3b34


title: P1_E6_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M3b33


title: 12-20W8M3b32


title: P1_E5_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M3b31


title: 12-20W8M3b41


title: P1_E4_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M3b30


title: 12-20W8M3b29


title: P1_E2_exp3_Jurkat_unlabelled_Unstimulated


title: 12-20W8M3b28


title: P1_E3_exp3_Jurkat_30min4sU_Unstimulated


title: P1_E12_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M3b26


title: 12-20W8M3b27


title: 12-20W8M3b24


title: 12-20W8M3b25


title: P1_E1_exp3_Jurkat_unlabelled_Unstimulated


title: 12-20W8M3b22


title: P1_E11_exp3_Jurkat_30min4sU_Stimulated


title: P1_D9_exp3_Jurkat_30min4sU_Stimulated


title: P1_D8_exp3_Jurkat_30min4sU_Stimulated


title: P1_D6_exp3_Jurkat_30min4sU_Unstimulated


title: P1_D7_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M3b21


title: P1_D5_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M3b20


title: P1_D4_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M3b19


title: 12-20W8M3b18


title: 12-20W8M3b17


title: 12-20W8M3b16


title: P1_D12_exp3_Jurkat_30min4sU_Stimulated


title: P1_D2_exp3_Jurkat_unlabelled_Unstimulated


title: P1_D11_exp3_Jurkat_30min4sU_Stimulated


title: P1_E10_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M3b14


title: 12-20W8M3b12


title: 12-20W8M3b23


title: 12-20W8M3b13


title: 12-20W8M3b15


title: P1_D10_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M3b11


title: 12-20W8M3b10


title: 12-20W8M3b7


title: 12-20W8M3b9


title: 12-20W8M3b8


title: 12-20W8M3b6


title: P1_C8_exp3_Jurkat_30min4sU_Stimulated


title: P1_C9_exp3_Jurkat_30min4sU_Stimulated


title: P1_C4_exp3_Jurkat_30min4sU_Unstimulated


title: P1_C7_exp3_Jurkat_30min4sU_Unstimulated


title: P1_C5_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M3b5


title: P1_C3_exp3_Jurkat_30min4sU_Unstimulated


title: P1_C2_exp3_Jurkat_unlabelled_Unstimulated


title: 12-20W8M3b4


title: P1_D3_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M3b3


title: P1_D1_exp3_Jurkat_unlabelled_Unstimulated


title: P1_C12_exp3_Jurkat_30min4sU_Stimulated


title: P1_C11_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M3b1


title: P1_C6_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M2b47


title: 12-20W8M2b46


title: P1_B8_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M3b2


title: 12-20W8M2b48


title: P1_C1_exp3_Jurkat_unlabelled_Unstimulated


title: 12-20W8M2b42


title: P1_B5_exp3_Jurkat_30min4sU_Unstimulated


title: P1_B7_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M2b43


title: P1_C10_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M2b39


title: 12-20W8M2b45


title: 12-20W8M2b38


title: P1_B6_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M2b41


title: P1_B3_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M2b37


title: P1_B11_exp3_Jurkat_30min4sU_Stimulated


title: P1_B2_exp3_Jurkat_unlabelled_Unstimulated


title: 12-20W8M2b36


title: 12-20W8M2b40


title: P1_A9_exp3_Jurkat_30min4sU_Stimulated


title: P1_B12_exp3_Jurkat_30min4sU_Stimulated


title: P1_A8_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M2b34


title: 12-20W8M2b33


title: P1_B1_exp3_Jurkat_unlabelled_Unstimulated


title: P1_B4_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M2b32


title: 12-20W8M2b31


title: P1_A6_exp3_Jurkat_30min4sU_Unstimulated


title: P1_A5_exp3_Jurkat_30min4sU_Unstimulated


title: P1_A4_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M2b30


title: P1_B9_exp3_Jurkat_30min4sU_Stimulated


title: P1_B10_exp3_Jurkat_30min4sU_Stimulated


title: P1_A3_exp3_Jurkat_30min4sU_Unstimulated


title: 12-20W8M2b28


title: 12-20W8M2b35


title: 12-20W8M2b29


title: 12-20W8M2b27


title: P1_A11_exp3_Jurkat_30min4sU_Stimulated


title: 12-20W8M2b26


title: 12-20W8M2b23


title: P1_A10_exp3_Jurkat_30min4sU_Stimulated


title: P1_A12_exp3_Jurkat_30min4sU_Stimulated


title: P1_A7_exp3_Jurkat_30min4sU_Unstimulated


title: P2_H8_exp2_Jurkat_15min_Stimulated

description:
exp2_readcounts.csv
exp2_newcounts.csv
exp2_oldcounts.csv

value: 15min 4sU


title: 12-20W8M2b22

value: CD4+ T cell


title: 12-20W8M2b25

value: NOD/ShiLtJ


title: P2_H6_exp2_Jurkat_15min_Unstimulated


title: 12-20W8M2b24


title: P2_H7_exp2_Jurkat_15min_Unstimulated


title: 12-20W8M2b19


title: 12-20W8M2b20


title: 12-20W8M2b18


title: P2_H5_exp2_Jurkat_15min_Unstimulated


title: P2_H4_exp2_Jurkat_15min_Unstimulated


title: 12-20W8M2b17


title: P2_H3_exp2_Jurkat_15min_Unstimulated


title: P1_A2_exp3_Jurkat_unlabelled_Unstimulated


title: P2_H2_exp2_Jurkat_unlabelled_Unstimulated


title: P2_H12_exp2_Jurkat_15min_Stimulated


title: 12-20W8M2b16


title: 12-20W8M2b14


title: 12-20W8M2b13


title: P1_A1_exp3_Jurkat_unlabelled_Unstimulated


title: P2_H9_exp2_Jurkat_15min_Stimulated


title: P2_H11_exp2_Jurkat_15min_Stimulated


title: 12-20W8M2b15


title: 12-20W8M2b21


title: P2_H10_exp2_Jurkat_15min_Stimulated


title: 12-20W8M2b10


title: 12-20W8M2b11


title: P2_G9_exp2_Jurkat_15min_Stimulated


title: P2_G8_exp2_Jurkat_15min_Stimulated


title: P2_G7_exp2_Jurkat_15min_Unstimulated


title: 12-20W8M2b12


title: 12-20W8M2b8


title: P2_G6_exp2_Jurkat_15min_Unstimulated


title: P2_G5_exp2_Jurkat_15min_Unstimulated


title: 12-20W8M2b6


title: 12-20W8M2b5


title: 12-20W8M2b7


title: P2_G4_exp2_Jurkat_15min_Unstimulated


title: P2_G3_exp2_Negative_control


title: P2_G2_exp2_Jurkat_unlabelled_Unstimulated


title: 12-20W8M2b3


title: P2_G12_exp2_Jurkat_15min_Stimulated


title: 12-20W8M1b45


title: P2_H1_exp2_Jurkat_unlabelled_Unstimulated


title: 12-20W8M2b2


title: 12-20W8M1b44


title: 12-20W8M1b42


title: 12-20W8M2b9


title: P2_F9_exp2_Jurkat_15min_Stimulated


title: P2_G1_exp2_Jurkat_unlabelled_Unstimulated


title: P2_G11_exp2_Jurkat_15min_Stimulated


title: 12-20W8M1b43


title: P2_F6_exp2_Jurkat_15min_Unstimulated


title: P2_G10_exp2_Negative_control


title: P2_F5_exp2_Jurkat_15min_Unstimulated


title: P2_F8_exp2_Jurkat_15min_Stimulated


title: P2_F4_exp2_Jurkat_15min_Unstimulated


title: 12-20W8M1b40


title: 12-20W8M1b38


title: P2_F7_exp2_Jurkat_15min_Unstimulated


title: 12-20W8M1b39


title: 12-20W8M1b37


title: 12-20W8M1b41


title: P2_F2_exp2_Jurkat_unlabelled_Unstimulated


title: P2_F12_exp2_Jurkat_15min_Stimulated


title: 12-20W8M2b4


title: P2_F3_exp2_Jurkat_15min_Unstimulated


title: 12-20W8M1b47


title: 12-20W8M1b36


title: 12-20W8M1b35


title: P2_F11_exp2_Jurkat_15min_Stimulated


title: 12-20W8M1b34


title: P2_F10_exp2_Jurkat_15min_Stimulated


title: 12-20W8M1b33


title: P2_F1_exp2_Jurkat_unlabelled_Unstimulated


title: P2_E9_exp2_Jurkat_15min_Stimulated


title: 12-20W8M1b32


title: 12-20W8M1b31


title: P2_E8_exp2_Jurkat_15min_Stimulated


title: P2_E7_exp2_Jurkat_15min_Unstimulated


title: 12-20W8M1b30


title: 12-20W8M1b29


title: P2_E5_exp2_Jurkat_15min_Unstimulated


title: 12-20W8M1b28


title: 12-20W8M1b25


title: 12-20W8M1b27


title: 12-20W8M1b26


title: P2_E4_exp2_Jurkat_15min_Unstimulated


title: P2_E2_exp2_Jurkat_unlabelled_Unstimulated


title: 12-20W8M1b24


title: P2_E12_exp2_Jurkat_15min_Stimulated


title: P2_E3_exp2_Jurkat_15min_Unstimulated


title: 12-20W8M1b22


title: 12-20W8M1b23


title: 12-20W8M1b21


title: P2_E1_exp2_Jurkat_unlabelled_Unstimulated


title: P2_E11_exp2_Jurkat_15min_Stimulated


title: P2_E10_exp2_Jurkat_15min_Stimulated


title: 12-20W8M1b19


title: 12-20W8M1b18


title: 12-20W8M1b20


title: P2_D8_exp2_Jurkat_15min_Stimulated


title: P2_D6_exp2_Jurkat_15min_Unstimulated


title: P2_D9_exp2_Jurkat_15min_Stimulated


title: P2_E6_exp2_Jurkat_15min_Unstimulated


title: P2_D7_exp2_Jurkat_15min_Unstimulated


title: P2_D5_exp2_Jurkat_15min_Unstimulated


title: 12-20W8M1b16


title: 12-20W8M1b17


title: 12-20W8M1b14


title: P2_D4_exp2_Jurkat_15min_Unstimulated


title: P2_D2_exp2_Jurkat_unlabelled_Unstimulated


title: P2_D3_exp2_Jurkat_15min_Unstimulated


title: P2_D12_exp2_Jurkat_15min_Stimulated


title: 12-20W8M1b13


title: P2_D11_exp2_Jurkat_15min_Stimulated


title: P2_D1_exp2_Jurkat_unlabelled_Unstimulated


title: 12-20W8M1b8


title: 12-20W8M1b7


title: P2_C9_exp2_Jurkat_15min_Stimulated


title: P2_D10_exp2_Jurkat_15min_Stimulated


title: 12-20W8M1b6


title: 12-20W8M1b9


title: 12-20W8M1b5


title: P2_C8_exp2_Jurkat_15min_Stimulated


title: P2_C7_exp2_Jurkat_15min_Unstimulated


title: P2_C6_exp2_Jurkat_15min_Unstimulated


title: 12-20W8M1b4


title: 12-20W8M1b15


title: P2_C5_exp2_Jurkat_15min_Unstimulated


title: 12-20W8M1b11


title: 12-20W8M1b12


title: 12-20W8M1b3


title: 12-20W8M1b10


title: 12-20W8M1b2


title: 12-20W8M1b1


title: 13-212LN24

description: Insulin 7weeks Mouse2.csv


title: P2_C12_exp2_Jurkat_15min_Stimulated


title: P2_C3_exp2_Jurkat_15min_Unstimulated


title: P2_C2_exp2_Jurkat_unlabelled_Unstimulated


title: 13-212LN23

description: Insulin 7weeks Mouse2.csv


title: P2_C11_exp2_Jurkat_15min_Stimulated


title: 13-212LN22

description: Insulin 7weeks Mouse2.csv


title: P2_C1_exp2_Jurkat_unlabelled_Unstimulated


title: 13-212LN18

description: Insulin 7weeks Mouse2.csv


title: 13-212LN19

description: Insulin 7weeks Mouse2.csv


title: P2_B9_exp2_Jurkat_15min_Stimulated


title: P2_B8_exp2_Jurkat_15min_Stimulated


title: P2_B7_exp2_Jurkat_15min_Unstimulated


title: P2_B5_exp2_Jurkat_15min_Unstimulated


title: P2_B4_exp2_Jurkat_15min_Unstimulated


title: P2_B6_exp2_Jurkat_15min_Unstimulated


title: 13-212LN13

description: Insulin 7weeks Mouse2.csv


title: 13-212LN15

description: Insulin 7weeks Mouse2.csv


title: 13-212LN14

description: Insulin 7weeks Mouse2.csv


title: 13-212LN16

description: Insulin 7weeks Mouse2.csv


title: 13-212LN11

description: Insulin 7weeks Mouse2.csv


title: 13-212LN12

description: Insulin 7weeks Mouse2.csv


title: P2_B3_exp2_Jurkat_15min_Unstimulated


title: 13-212LN17

description: Insulin 7weeks Mouse2.csv


title: 13-212LN10

description: Insulin 7weeks Mouse2.csv


title: P2_B2_exp2_Jurkat_unlabelled_Unstimulated


title: P2_B12_exp2_Jurkat_15min_Stimulated


title: P2_C10_exp2_Jurkat_15min_Stimulated


title: P2_B10_exp2_Jurkat_15min_Stimulated


title: 13-212LN9

description: Insulin 7weeks Mouse2.csv


title: P2_A8_exp2_Jurkat_15min_Stimulated


title: P2_B1_exp2_Jurkat_unlabelled_Unstimulated


title: 13-212LN21

description: Insulin 7weeks Mouse2.csv


title: 13-212LN20

description: Insulin 7weeks Mouse2.csv


title: P2_A7_exp2_Jurkat_15min_Unstimulated


title: 13-212LN6

description: Insulin 7weeks Mouse2.csv


title: P2_A9_exp2_Jurkat_15min_Stimulated


title: 13-212LN8

description: Insulin 7weeks Mouse2.csv


title: P2_A6_exp2_Jurkat_15min_Unstimulated


title: 13-212LN5

description: Insulin 7weeks Mouse2.csv


title: P2_A5_exp2_Jurkat_15min_Unstimulated


title: P2_B11_exp2_Jurkat_15min_Stimulated


title: 13-212LN3

description: Insulin 7weeks Mouse2.csv


title: P2_A3_exp2_Jurkat_15min_Unstimulated


title: 13-212LN1

description: Insulin 7weeks Mouse2.csv


title: P2_A2_exp2_Jurkat_unlabelled_Unstimulated


title: 12-202LN24

description: Insulin 7weeks Mouse2.csv


title: 12-202LN23

description: Insulin 7weeks Mouse2.csv


title: P2_A10_exp2_Jurkat_15min_Stimulated


title: P2_A11_exp2_Jurkat_15min_Stimulated


title: P2_A12_exp2_Jurkat_15min_Stimulated


title: 12-202LN20

description: Insulin 7weeks Mouse2.csv


title: P2_A1_exp2_Jurkat_unlabelled_Unstimulated


title: 12-202LN21

description: Insulin 7weeks Mouse2.csv


title: 13-212LN7

description: Insulin 7weeks Mouse2.csv


title: 12-202LN19

description: Insulin 7weeks Mouse2.csv


title: P1_H8_exp2_Jurkat_15min_Stimulated


title: 13-212LN4

description: Insulin 7weeks Mouse2.csv


title: 12-202LN18

description: Insulin 7weeks Mouse2.csv


title: P1_H5_exp2_Jurkat_15min_Unstimulated


title: P1_H4_exp2_Jurkat_15min_Unstimulated


title: P2_A4_exp2_Jurkat_15min_Unstimulated


title: 12-202LN17

description: Insulin 7weeks Mouse2.csv


title: P1_H7_exp2_Jurkat_15min_Unstimulated


title: 12-202LN15

description: Insulin 7weeks Mouse2.csv


title: 13-212LN2

description: Insulin 7weeks Mouse2.csv


title: P1_H6_exp2_Jurkat_15min_Unstimulated


title: 12-202LN16

description: Insulin 7weeks Mouse2.csv


title: 12-202LN22

description: Insulin 7weeks Mouse2.csv


title: 12-202LN14

description: Insulin 7weeks Mouse2.csv


title: 12-202LN13

description: Insulin 7weeks Mouse2.csv


title: 12-202LN12

description: Insulin 7weeks Mouse2.csv


title: P1_H12_exp2_Jurkat_15min_Stimulated


title: 12-202LN10

description: Insulin 7weeks Mouse2.csv


title: P1_H9_exp2_Jurkat_15min_Stimulated


title: 12-202LN9

description: Insulin 7weeks Mouse2.csv


title: P1_H3_exp2_Jurkat_15min_Unstimulated


title: P1_G8_exp2_Jurkat_15min_Stimulated


title: 12-202LN11

description: Insulin 7weeks Mouse2.csv


title: P1_H1_exp2_Jurkat_unlabelled_Unstimulated


title: P1_H11_exp2_Jurkat_15min_Stimulated


title: 12-202LN8

description: Insulin 7weeks Mouse2.csv


title: P1_G9_exp2_Jurkat_15min_Stimulated


title: 12-202LN7

description: Insulin 7weeks Mouse2.csv


title: P1_H2_exp2_Jurkat_unlabelled_Unstimulated


title: P1_H10_exp2_Jurkat_15min_Stimulated


title: 12-202LN6

description: Insulin 7weeks Mouse2.csv


title: P1_G6_exp2_Jurkat_15min_Unstimulated


title: P1_G7_exp2_Jurkat_15min_Unstimulated


title: 12-202LN5

description: Insulin 7weeks Mouse2.csv


title: 12-202LN3

description: Insulin 7weeks Mouse2.csv


title: P1_G3_exp2_Negative_control


title: 12-202LN1

description: Insulin 7weeks Mouse2.csv


title: P1_G2_exp2_Jurkat_unlabelled_Unstimulated


title: 12-202LN4

description: Insulin 7weeks Mouse2.csv


title: P1_G5_exp2_Jurkat_15min_Unstimulated


title: P1_G4_exp2_Jurkat_15min_Unstimulated


title: P2_C4_exp2_Jurkat_15min_Unstimulated


title: 13-212I18

description: Insulin 7weeks Mouse2.csv


title: 13-212I17

description: Insulin 7weeks Mouse2.csv


title: P1_G12_exp2_Jurkat_15min_Stimulated


title: 13-212I16

description: Insulin 7weeks Mouse2.csv


title: P1_G11_exp2_Jurkat_15min_Stimulated


title: P1_G10_exp2_Negative_control


title: P1_G1_exp2_Jurkat_unlabelled_Unstimulated


title: P1_F7_exp2_Jurkat_15min_Unstimulated


title: P1_F8_exp2_Jurkat_15min_Stimulated


title: 13-212I15

description: Insulin 7weeks Mouse2.csv


title: 13-212I12

description: Insulin 7weeks Mouse2.csv


title: 12-202LN2

description: Insulin 7weeks Mouse2.csv


title: P1_F9_exp2_Jurkat_15min_Stimulated


title: 13-212I13

description: Insulin 7weeks Mouse2.csv


title: 13-212I10

description: Insulin 7weeks Mouse2.csv


title: 13-212I9

description: Insulin 7weeks Mouse2.csv


title: P1_F5_exp2_Jurkat_15min_Unstimulated


title: P1_F6_exp2_Jurkat_15min_Unstimulated


title: 13-212I8

description: Insulin 7weeks Mouse2.csv


title: 13-212I7

description: Insulin 7weeks Mouse2.csv


title: 13-212I11

description: Insulin 7weeks Mouse2.csv


title: P1_F2_exp2_Jurkat_unlabelled_Unstimulated


title: P1_F12_exp2_Jurkat_15min_Stimulated


title: 13-212I5

description: Insulin 7weeks Mouse2.csv


title: P1_F3_exp2_Jurkat_15min_Unstimulated


title: 13-212I4

description: Insulin 7weeks Mouse2.csv


title: 13-212I3

description: Insulin 7weeks Mouse2.csv


title: P1_F11_exp2_Jurkat_15min_Stimulated


title: P1_F1_exp2_Jurkat_unlabelled_Unstimulated


title: 13-212I2

description: Insulin 7weeks Mouse2.csv


title: P1_F10_exp2_Jurkat_15min_Stimulated


title: P1_E8_exp2_Jurkat_15min_Stimulated


title: P1_E9_exp2_Jurkat_15min_Stimulated


title: 13-212I1

description: Insulin 7weeks Mouse2.csv


title: 13-212I14

description: Insulin 7weeks Mouse2.csv


title: P1_E7_exp2_Jurkat_15min_Unstimulated


title: 12-202I20

description: Insulin 7weeks Mouse2.csv


title: P1_E6_exp2_Jurkat_15min_Unstimulated


title: 12-202I18

description: Insulin 7weeks Mouse2.csv


title: P1_E5_exp2_Jurkat_15min_Unstimulated


title: P1_F4_exp2_Jurkat_15min_Unstimulated


title: 12-202I16

description: Insulin 7weeks Mouse2.csv


title: 13-212I6

description: Insulin 7weeks Mouse2.csv


title: 12-202I14

description: Insulin 7weeks Mouse2.csv


title: 12-202I17

description: Insulin 7weeks Mouse2.csv


title: P1_E3_exp2_Jurkat_15min_Unstimulated


title: P1_E2_exp2_Jurkat_unlabelled_Unstimulated


title: 12-202I15

description: Insulin 7weeks Mouse2.csv


title: P1_E12_exp2_Jurkat_15min_Stimulated


title: 12-202I12

description: Insulin 7weeks Mouse2.csv


title: P1_E11_exp2_Jurkat_15min_Stimulated


title: P1_E10_exp2_Jurkat_15min_Stimulated


title: P1_E1_exp2_Jurkat_unlabelled_Unstimulated


title: 12-202I10

description: Insulin 7weeks Mouse2.csv


title: 12-202I11

description: Insulin 7weeks Mouse2.csv


title: P1_D9_exp2_Jurkat_15min_Stimulated


title: 12-202I8

description: Insulin 7weeks Mouse2.csv


title: 12-202I19

description: Insulin 7weeks Mouse2.csv


title: P1_D8_exp2_Jurkat_15min_Stimulated


title: 12-202I9

description: Insulin 7weeks Mouse2.csv


title: 12-202I7

description: Insulin 7weeks Mouse2.csv


title: 12-202I6

description: Insulin 7weeks Mouse2.csv


title: P1_E4_exp2_Jurkat_15min_Unstimulated


title: 12-202I4

description: Insulin 7weeks Mouse2.csv


title: P1_D5_exp2_Jurkat_15min_Unstimulated


title: P1_D3_exp2_Jurkat_15min_Unstimulated


title: P1_D6_exp2_Jurkat_15min_Unstimulated


title: 12-202I13

description: Insulin 7weeks Mouse2.csv


title: P1_D4_exp2_Jurkat_15min_Unstimulated


title: 12-202I3

description: Insulin 7weeks Mouse2.csv


title: P1_D12_exp2_Jurkat_15min_Stimulated


title: 12-202I5

description: Insulin 7weeks Mouse2.csv


title: 12-202I1

description: Insulin 7weeks Mouse2.csv


title: P1_D2_exp2_Jurkat_unlabelled_Unstimulated


title: 13-21W7M11I24

description: Insulin7weeksMouse11(LN and Islets).csv


title: P1_D10_exp2_Jurkat_15min_Stimulated


title: 13-21W7M11I21

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M11I23

description: Insulin7weeksMouse11(LN and Islets).csv


title: P1_D11_exp2_Jurkat_15min_Stimulated


title: P1_D7_exp2_Jurkat_15min_Unstimulated


title: P1_C9_exp2_Jurkat_15min_Stimulated


title: P1_C8_exp2_Jurkat_15min_Stimulated


title: 13-21W7M11I19

description: Insulin7weeksMouse11(LN and Islets).csv


title: P1_C7_exp2_Jurkat_15min_Unstimulated


title: P1_C6_exp2_Jurkat_15min_Unstimulated


title: 13-21W7M11I13

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M11I15

description: Insulin7weeksMouse11(LN and Islets).csv


title: P1_D1_exp2_Jurkat_unlabelled_Unstimulated


title: P1_C10_exp2_Jurkat_15min_Stimulated


title: P1_C2_exp2_Jurkat_unlabelled_Unstimulated


title: P1_C11_exp2_Jurkat_15min_Stimulated


title: 13-21W7M11I12

description: Insulin7weeksMouse11(LN and Islets).csv


title: P1_C3_exp2_Jurkat_15min_Unstimulated


title: 12-202I2

description: Insulin 7weeks Mouse2.csv


title: P1_B9_exp2_Jurkat_15min_Stimulated


title: 13-21W7M11I17

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M11I11

description: Insulin7weeksMouse11(LN and Islets).csv


title: P1_B5_exp2_Jurkat_15min_Unstimulated


title: P1_C12_exp2_Jurkat_15min_Stimulated


title: 13-21W7M11LN24

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M11I10

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M11I8

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M11I7

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M11LN22

description: Insulin7weeksMouse11(LN and Islets).csv


title: P1_B3_exp2_Jurkat_15min_Unstimulated


title: P1_B12_exp2_Jurkat_15min_Stimulated


title: 13-21W7M11I22

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M11I6

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M11I5

description: Insulin7weeksMouse11(LN and Islets).csv


title: P1_B11_exp2_Jurkat_15min_Stimulated


title: P1_C1_exp2_Jurkat_unlabelled_Unstimulated


title: P1_B8_exp2_Jurkat_15min_Stimulated


title: P1_B7_exp2_Jurkat_15min_Unstimulated


title: 13-21W7M11I2

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M11I4

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M11I3

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M11LN20

description: Insulin7weeksMouse11(LN and Islets).csv


title: P1_C4_exp2_Jurkat_15min_Unstimulated


title: 13-21W7M11I1

description: Insulin7weeksMouse11(LN and Islets).csv


title: P1_C5_exp2_Jurkat_15min_Unstimulated


title: P1_B4_exp2_Jurkat_15min_Unstimulated


title: 13-21W7M11LN16

description: Insulin7weeksMouse11(LN and Islets).csv


title: P1_B2_exp2_Jurkat_unlabelled_Unstimulated


title: P1_A7_exp2_Jurkat_15min_Unstimulated


title: P1_A8_exp2_Jurkat_15min_Stimulated


title: 13-21W7M11LN11

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M11LN21

description: Insulin7weeksMouse11(LN and Islets).csv


title: P1_B6_exp2_Jurkat_15min_Unstimulated


title: 13-21W7M11LN18

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M11LN17

description: Insulin7weeksMouse11(LN and Islets).csv


title: P1_B10_exp2_Jurkat_15min_Stimulated


title: 13-21W7M11LN14

description: Insulin7weeksMouse11(LN and Islets).csv


title: P1_A9_exp2_Jurkat_15min_Stimulated


title: P1_B1_exp2_Jurkat_unlabelled_Unstimulated


title: 13-21W7M11LN10

description: Insulin7weeksMouse11(LN and Islets).csv


title: P1_A6_exp2_Jurkat_15min_Unstimulated


title: 13-21W7M11LN9

description: Insulin7weeksMouse11(LN and Islets).csv


title: P1_A5_exp2_Jurkat_15min_Unstimulated


title: 13-21W7M11LN7

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M11LN3

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M11LN1

description: Insulin7weeksMouse11(LN and Islets).csv


title: 12-20W7M11I22

description: Insulin7weeksMouse11(LN and Islets).csv


title: 12-20W7M11I20

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M11LN12

description: Insulin7weeksMouse11(LN and Islets).csv


title: 12-20W7M11I19

description: Insulin7weeksMouse11(LN and Islets).csv


title: P1_A4_exp2_Jurkat_15min_Unstimulated


title: 12-20W7M11I18

description: Insulin7weeksMouse11(LN and Islets).csv


title: P1_A3_exp2_Jurkat_15min_Unstimulated


title: P1_A2_exp2_Jurkat_unlabelled_Unstimulated


title: P1_A1_exp2_Jurkat_unlabelled_Unstimulated


title: P1_A10_exp2_Jurkat_15min_Stimulated


title: P1_A11_exp2_Jurkat_15min_Stimulated


title: P1_A12_exp2_Jurkat_15min_Stimulated


title: 12-20W7M11I15

description: Insulin7weeksMouse11(LN and Islets).csv


title: 12-20W7M11I17

description: Insulin7weeksMouse11(LN and Islets).csv


title: 12-20W7M11I16

description: Insulin7weeksMouse11(LN and Islets).csv


title: P2_H9_exp1_K562_60min4sU

description:
exp1_readcounts.csv
exp1_newcounts.csv
exp1_oldcounts.csv


title: 12-20W7M11I13

description: Insulin7weeksMouse11(LN and Islets).csv


title: P2_H7_exp1_K562_60min4sU


title: 12-20W7M11I14

description: Insulin7weeksMouse11(LN and Islets).csv


title: P2_H6_exp1_K562_60min4sU


title: P2_H8_exp1_K562_60min4sU


title: 12-20W7M11I12

description: Insulin7weeksMouse11(LN and Islets).csv


title: P2_H5_exp1_K562_60min4sU


title: 12-20W7M11I7

description: Insulin7weeksMouse11(LN and Islets).csv


title: P2_H4_exp1_K562_60min4sU


title: P2_H3_exp1_K562_unlabelled


title: 12-20W7M11I5

description: Insulin7weeksMouse11(LN and Islets).csv


title: 12-20W7M11I6

description: Insulin7weeksMouse11(LN and Islets).csv


title: 12-20W7M11I4

description: Insulin7weeksMouse11(LN and Islets).csv


title: 12-20W7M11LN24

description: Insulin7weeksMouse11(LN and Islets).csv


title: P2_H2_exp1_K562_unlabelled


title: 12-20W7M11LN23

description: Insulin7weeksMouse11(LN and Islets).csv


title: P2_H12_exp1_K562_60min4sU


title: 12-20W7M11I3

description: Insulin7weeksMouse11(LN and Islets).csv


title: 12-20W7M11LN22

description: Insulin7weeksMouse11(LN and Islets).csv


title: 12-20W7M11LN21

description: Insulin7weeksMouse11(LN and Islets).csv


title: 12-20W7M11I8

description: Insulin7weeksMouse11(LN and Islets).csv


title: 12-20W7M11I9

description: Insulin7weeksMouse11(LN and Islets).csv


title: 12-20W7M11LN19

description: Insulin7weeksMouse11(LN and Islets).csv


title: P2_H10_exp1_K562_60min4sU


title: P2_H11_exp1_K562_60min4sU


title: P2_H1_exp1_K562_unlabelled


title: 12-20W7M11LN18

description: Insulin7weeksMouse11(LN and Islets).csv


title: 12-20W7M11LN20

description: Insulin7weeksMouse11(LN and Islets).csv


title: 12-20W7M11LN17

description: Insulin7weeksMouse11(LN and Islets).csv


title: Tri21_#2 [GPL10332]

city: Suita

first: Daisuke

last: Okuzaki

state: Osaka

address: Yamadaoka 3-1

department: Immunology Frontier Research Center

country: Japan

institute: Osaka univ.

description: Trisomy 21 dermal fibroblasts

hyb_protocol: Before hybridization, 1,650 ng labeled cRNA of each product was fragmented and mixed with control targets and hybridization buffer according to the manufacturer's protocol (Agilent Technologies). Hybridizations were done for approximately 17h at 65°C. The slides were washed according to the manufacturer's manual, and scanning of microarrays was performed with 5µm resolution using a DNA microarray laser scanner (Agilent Technologies).

scan_protocol: The array was scanned using Agilent G2505C DNA microarray scanner. Images were quantified using Agilent Feature Extraction Software (version 10.5.1.1).

data_processing: For data normalization, 75th percentile normalization was used for analysis.

source_name: Trisomy 21 dermal fibroblasts

label_protocol: 50 ng of total RNA was labeled using Low Input Quick-Amp Labeling Kit (Agilent Technologies, Pato Alto, CA, USA). In brief, cDNA was reverse transcribed from 50 ng of total RNA with an oligo-dT-T7 promoter primer and AffinityScript MT -RT. Fluorescent antisense cRNA was synthesized with cyanine 3-CTP (Cy3-CTP), and T7 polymerase. The fluorescent-labeled antisense cRNA was purified with miRNeasy columns (Qiagen) according to manufacturer's protocols and resuspended in water. The purified products were quantified at A552nm for Cy3-CTP with Agilent 2100 Bioanalyzer (Agilent Technologies).

growth_protocol: On day 0, 1×105 cells were seeded into 10-cm dishes. Three days after seeding, without changing the medium, the number of cells was counted after detaching cells from the culture plate using trypsin–EDTA solution (0.25% (w/v) trypsin, 1 mmol/l EDTA-4Na solution, FUJIFILM Wako Pure Chemical Corporation).

extract_protocol: RNA was extracted from 1×105 cells using NucleoSpin RNA II (Macherey-Nagel, Oensingen, Switzerland)

value: fibroblast


title: Tri18_#2 [GPL10332]

description: Trisomy 18 dermal fibroblasts

source_name: Trisomy 18 dermal fibroblasts


title: Tri13_#1 [GPL10332]

description: Trisomy 13 dermal fibroblasts

source_name: Trisomy 13 dermal fibroblasts


title: P2_G9_exp1_K562_60min4sU


title: 12-20W7M11LN15

description: Insulin7weeksMouse11(LN and Islets).csv


title: P2_G8_exp1_K562_60min4sU


title: 12-20W7M11LN10

description: Insulin7weeksMouse11(LN and Islets).csv


title: 12-20W7M11LN11

description: Insulin7weeksMouse11(LN and Islets).csv


title: 12-20W7M11LN12

description: Insulin7weeksMouse11(LN and Islets).csv


title: P2_G7_exp1_K562_60min4sU


title: Dip_#2 [GPL10332]

description: normal dermal fibroblasts

source_name: normal dermal fibroblasts


title: 12-20W7M11LN8

description: Insulin7weeksMouse11(LN and Islets).csv


title: Dip_#3 [GPL10332]

description: normal dermal fibroblasts


title: Dip_#1 [GPL10332]

description: normal dermal fibroblasts


title: 12-20W7M11LN3

description: Insulin7weeksMouse11(LN and Islets).csv


title: 12-20W7M11LN5

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M10I23

description: Insulin7weeksMouse10(Islets and LN).csv


title: 12-20W7M11LN6

description: Insulin7weeksMouse11(LN and Islets).csv


title: P2_G6_exp1_K562_60min4sU


title: 13-21W7M10I22

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_G5_exp1_K562_60min4sU


title: Tri18_#1 [GPL10332]

description: Trisomy 18 dermal fibroblasts


title: 13-21W7M10I21

description: Insulin7weeksMouse10(Islets and LN).csv


title: Tri21_#1 [GPL10332]

description: Trisomy 21 dermal fibroblasts


title: P2_G4_exp1_K562_60min4sU


title: 13-21W7M10I19

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_G3_exp1_K562_unlabelled


title: 13-21W7M10I18

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_G2_exp1_Negative_control


title: 13-21W7M10I16

description: Insulin7weeksMouse10(Islets and LN).csv


title: 12-20W7M11LN7

description: Insulin7weeksMouse11(LN and Islets).csv


title: 13-21W7M10I14

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_G12_exp1_K562_60min4sU


title: 13-21W7M10I15

description: Insulin7weeksMouse10(Islets and LN).csv


title: 21.20mg.LS.Day1

city: New York

first: Ana

last: Pavel

state: NY

address: One Gustave L. Levy Place

department: Dermatology

institute: Icahn School of Medicine at Mount Sinai

description: Gene expression data from skin biopsy

hyb_protocol: Affymetrix Human U133Plus 2.0 gene arrays were used. Total RNA (50 ng) was reverse transcribed and amplified with Ovation Whole Blood Solution from NuGen (San Carlos, CA). The labeled target was fragmented and hybridized to probe gene arrays, using Encore Biotin Module from NuGen (San Carlos, CA). The chips were washed, stained with streptavidin-phycoerythrin, and scanned (HP GeneArray Scanner; Hewlett-Packard Company, Palo Alto, CA). On each chip, the human housekeeping genes β-actin and glyceraldehyde-3-phosphate dehydrogenase (GAPDH) served as controls. Suite 5.0 software normalized the expression level values using these controls.

scan_protocol: Hewlett-Packard GeneArray Scanner G2500A

data_processing: Quality control of Affymetrix chips was done using standard QC metrics and R packages. Expression measures were obtained using GC Robust Multi-array Average (GCRMA) algorithm. Batch effects corresponding to the hybridization date were detected by principal component analyses and adjusted using ComBat algorithm from R’s sva package. Probe sets with expression >3 in at least 15 samples were used for further analyses. Gene expression changes were modeled using mixed-effect models, with treatment, time and tissue type as a fixed interaction term, and a random effect for each patient. Fold changes (FCHs) for the comparisons of interest were estimated, and hypothesis testing was conducted with contrasts under the general framework of linear models in the R limma package. P-values were adjusted for multiple hypotheses using the Benjamini-Hochberg procedure, which controls the false discovery rate (FDR).

label: biotin

source_name: Skin biopsy

label_protocol: Ovation WB Reagent (Nugen)

extract_protocol: Skin biopsies from lesional and non-lesional skin at baseline, day15 and day29 were stored in RNAlater® (Invitrogen) until further processing. RNA was extracted (Covance Genomics Lab).

tag: tissue

value: LS

tag: week

tag: treatment


title: 25.Placebo.NL.Day1

description: Gene expression data from skin biopsy

value: NL

value: Placebo


title: 20.20mg.LS.Day29

description: Gene expression data from skin biopsy


title: 25.Placebo.LS.Day1

description: Gene expression data from skin biopsy


title: 21.20mg.NL.Day1

description: Gene expression data from skin biopsy


title: 13-21W7M10I8

description: Insulin7weeksMouse10(Islets and LN).csv


title: 21.20mg.LS.Day29

description: Gene expression data from skin biopsy


title: 21.20mg.LS.Day15

description: Gene expression data from skin biopsy


title: 20.20mg.NL.Day1

description: Gene expression data from skin biopsy


title: 13-21W7M10I13

description: Insulin7weeksMouse10(Islets and LN).csv


title: 13-21W7M10I7

description: Insulin7weeksMouse10(Islets and LN).csv


title: 13-21W7M10I12

description: Insulin7weeksMouse10(Islets and LN).csv


title: 20.20mg.LS.Day1

description: Gene expression data from skin biopsy


title: P2_G10_exp1_K562_60min4sU


title: P2_G1_exp1_K562_unlabelled


title: 13-21W7M10I11

description: Insulin7weeksMouse10(Islets and LN).csv


title: 13-21W7M10I6

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_G11_exp1_Negative_control


title: 13-21W7M10I4

description: Insulin7weeksMouse10(Islets and LN).csv


title: 13-21W7M10I3

description: Insulin7weeksMouse10(Islets and LN).csv


title: 13-21W7M10I2

description: Insulin7weeksMouse10(Islets and LN).csv


title: 29.Placebo.LS.Day29

description: Gene expression data from skin biopsy


title: 13-21W7M10I1

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_F8_exp1_K562_60min4sU


title: 29.Placebo.LS.Day15

description: Gene expression data from skin biopsy


title: 29.Placebo.NL.Day1

description: Gene expression data from skin biopsy


title: 13-21W7M10LN23

description: Insulin7weeksMouse10(Islets and LN).csv


title: 13-21W7M10LN21

description: Insulin7weeksMouse10(Islets and LN).csv


title: 32.Placebo.LS.Day29

description: Gene expression data from skin biopsy


title: P2_F7_exp1_K562_60min4sU


title: 13-21W7M10LN19

description: Insulin7weeksMouse10(Islets and LN).csv


title: 13-21W7M10LN18

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_F5_exp1_K562_60min4sU


title: P2_F6_exp1_K562_60min4sU


title: 13-21W7M10LN16

description: Insulin7weeksMouse10(Islets and LN).csv


title: 29.Placebo.LS.Day1

description: Gene expression data from skin biopsy


title: P2_F9_exp1_K562_60min4sU


title: P2_F4_exp1_K562_60min4sU


title: 13-21W7M10LN14

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_F3_exp1_K562_unlabelled


title: 32.Placebo.LS.Day15

description: Gene expression data from skin biopsy


title: 32.Placebo.NL.Day1

description: Gene expression data from skin biopsy


title: 32.Placebo.LS.Day1

description: Gene expression data from skin biopsy


title: 13-21W7M10LN20

description: Insulin7weeksMouse10(Islets and LN).csv


title: 7.80mg.LS.Day29

description: Gene expression data from skin biopsy


title: 13-21W7M10LN11

description: Insulin7weeksMouse10(Islets and LN).csv


title: 13-21W7M10LN17

description: Insulin7weeksMouse10(Islets and LN).csv


title: 13-21W7M10LN3

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_F2_exp1_K562_unlabelled


title: P2_F11_exp1_K562_60min4sU


title: 13-21W7M10LN8

description: Insulin7weeksMouse10(Islets and LN).csv


title: 13-21W7M10LN12

description: Insulin7weeksMouse10(Islets and LN).csv


title: 12-20W7M10I21

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_F12_exp1_K562_60min4sU


title: 12-20W7M10I23

description: Insulin7weeksMouse10(Islets and LN).csv


title: 12-20W7M10I20

description: Insulin7weeksMouse10(Islets and LN).csv


title: 13-21W7M10LN7

description: Insulin7weeksMouse10(Islets and LN).csv


title: 7.80mg.LS.Day15

description: Gene expression data from skin biopsy


title: 13-21W7M10LN1

description: Insulin7weeksMouse10(Islets and LN).csv


title: 13-21W7M10LN9

description: Insulin7weeksMouse10(Islets and LN).csv


title: 13-21W7M10LN13

description: Insulin7weeksMouse10(Islets and LN).csv


title: 7.80mg.NL.Day1

description: Gene expression data from skin biopsy


title: P2_F10_exp1_K562_60min4sU


title: P2_E9_exp1_K562_60min4sU


title: 6.80mg.LS.Day29

description: Gene expression data from skin biopsy


title: 6.80mg.LS.Day15

description: Gene expression data from skin biopsy


title: 12-20W7M10I16

description: Insulin7weeksMouse10(Islets and LN).csv


title: 12-20W7M10I18

description: Insulin7weeksMouse10(Islets and LN).csv


title: 12-20W7M10I12

description: Insulin7weeksMouse10(Islets and LN).csv


title: 12-20W7M10I9

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_E8_exp1_K562_60min4sU


title: 12-20W7M10I8

description: Insulin7weeksMouse10(Islets and LN).csv


title: 6.80mg.NL.Day1

description: Gene expression data from skin biopsy


title: 12-20W7M10I19

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_F1_exp1_K562_unlabelled


title: 7.80mg.LS.Day1

description: Gene expression data from skin biopsy


title: 12-20W7M10I6

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_E6_exp1_K562_60min4sU


title: 5.80mg.LS.Day29

description: Gene expression data from skin biopsy


title: 12-20W7M10I7

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_E5_exp1_K562_60min4sU


title: 12-20W7M10LN24

description: Insulin7weeksMouse10(Islets and LN).csv


title: 12-20W7M10I4

description: Insulin7weeksMouse10(Islets and LN).csv


title: 5.80mg.LS.Day15

description: Gene expression data from skin biopsy


title: 6.80mg.LS.Day1

description: Gene expression data from skin biopsy


title: 12-20W7M10LN23

description: Insulin7weeksMouse10(Islets and LN).csv


title: 5.80mg.NL.Day1

description: Gene expression data from skin biopsy


title: 12-20W7M10LN21

description: Insulin7weeksMouse10(Islets and LN).csv


title: 12-20W7M10I5

description: Insulin7weeksMouse10(Islets and LN).csv


title: 12-20W7M10LN17

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_E7_exp1_K562_60min4sU


title: 31.Placebo.LS.Day29

description: Gene expression data from skin biopsy


title: 12-20W7M10LN16

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_E4_exp1_K562_60min4sU


title: 5.80mg.LS.Day1

description: Gene expression data from skin biopsy


title: 12-20W7M10LN10

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_E12_exp1_K562_60min4sU


title: 12-20W7M10LN11

description: Insulin7weeksMouse10(Islets and LN).csv


title: 31.Placebo.LS.Day15

description: Gene expression data from skin biopsy


title: 12-20W7M10LN13

description: Insulin7weeksMouse10(Islets and LN).csv


title: 12-20W7M10LN9

description: Insulin7weeksMouse10(Islets and LN).csv


title: 12-20W7M10LN8

description: Insulin7weeksMouse10(Islets and LN).csv


title: 12-20W7M10LN7

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_E11_exp1_K562_60min4sU


title: P2_E2_exp1_K562_unlabelled


title: P2_E1_exp1_K562_unlabelled


title: 12-20W7M10LN20

description: Insulin7weeksMouse10(Islets and LN).csv


title: 12-20W7M10LN5

description: Insulin7weeksMouse10(Islets and LN).csv


title: P2_E3_exp1_K562_unlabelled


title: 13-214i6

description: Islets Insulin2 (sort091015).csv


title: P2_E10_exp1_K562_60min4sU


title: 13-214i7

description: Islets Insulin2 (sort091015).csv


title: 13-214i5

description: Islets Insulin2 (sort091015).csv


title: 4.80mg.LS.Day29

description: Gene expression data from skin biopsy


title: 13-214i3

description: Islets Insulin2 (sort091015).csv


title: 31.Placebo.LS.Day1

description: Gene expression data from skin biopsy


title: 4.80mg.LS.Day15

description: Gene expression data from skin biopsy


title: 4.80mg.NL.Day1

description: Gene expression data from skin biopsy


title: P2_D9_exp1_K562_60min4sU


title: 13-214i1

description: Islets Insulin2 (sort091015).csv


title: P2_D8_exp1_K562_60min4sU


title: 31.Placebo.NL.Day1

description: Gene expression data from skin biopsy


title: 13-214i4

description: Islets Insulin2 (sort091015).csv


title: 13-214i2

description: Islets Insulin2 (sort091015).csv


title: 4.80mg.LS.Day1

description: Gene expression data from skin biopsy


title: 12-20W7M10LN4

description: Insulin7weeksMouse10(Islets and LN).csv


title: 3.80mg.LS.Day29

description: Gene expression data from skin biopsy


title: P2_D6_exp1_K562_60min4sU


title: 12-204i4

description: Islets Insulin2 (sort091015).csv


title: 12-204i1

description: Islets Insulin2 (sort091015).csv


title: 12-204i2

description: Islets Insulin2 (sort091015).csv


title: 12-204i3

description: Islets Insulin2 (sort091015).csv


title: 12-204i5

description: Islets Insulin2 (sort091015).csv


title: P2_D5_exp1_K562_60min4sU


title: P2_D7_exp1_K562_60min4sU


title: 13-213i28

description: Islets Insulin2 (sort091015).csv


title: 13-213i27

description: Islets Insulin2 (sort091015).csv


title: 12-204i7

description: Islets Insulin2 (sort091015).csv


title: 13-213i26

description: Islets Insulin2 (sort091015).csv


title: 3.80mg.NL.Day1

description: Gene expression data from skin biopsy


title: 3.80mg.LS.Day1

description: Gene expression data from skin biopsy


title: 13-213i23

description: Islets Insulin2 (sort091015).csv


title: 13-213i22

description: Islets Insulin2 (sort091015).csv


title: 13-213i25

description: Islets Insulin2 (sort091015).csv


title: 13-213i24

description: Islets Insulin2 (sort091015).csv


title: 2.80mg.LS.Day1

description: Gene expression data from skin biopsy


title: 8.80mg.LS.Day29

description: Gene expression data from skin biopsy


title: 2.80mg.NL.Day1

description: Gene expression data from skin biopsy


title: P2_D12_exp1_K562_60min4sU


title: P2_D4_exp1_K562_60min4sU


title: 13-213i21

description: Islets Insulin2 (sort091015).csv


title: P2_D3_exp1_K562_unlabelled


title: 13-213i19

description: Islets Insulin2 (sort091015).csv


title: P2_D10_exp1_K562_60min4sU


title: P2_D11_exp1_K562_60min4sU


title: 13-213i20

description: Islets Insulin2 (sort091015).csv


title: P2_D1_exp1_K562_unlabelled


title: 13-213i18

description: Islets Insulin2 (sort091015).csv


title: 13-213i17

description: Islets Insulin2 (sort091015).csv


title: P2_D2_exp1_K562_unlabelled


title: 13-213i14

description: Islets Insulin2 (sort091015).csv


title: 13-213i15

description: Islets Insulin2 (sort091015).csv


title: 8.80mg.LS.Day15

description: Gene expression data from skin biopsy


title: 8.80mg.LS.Day1

description: Gene expression data from skin biopsy


title: P2_C9_exp1_K562_60min4sU


title: 13-213i13

description: Islets Insulin2 (sort091015).csv


title: 8.80mg.NL.Day1

description: Gene expression data from skin biopsy


title: 1.80mg.LS.Day29

description: Gene expression data from skin biopsy


title: 13-213i6

description: Islets Insulin2 (sort091015).csv


title: 13-213i7

description: Islets Insulin2 (sort091015).csv


title: 13-213i8

description: Islets Insulin2 (sort091015).csv


title: 13-213i12

description: Islets Insulin2 (sort091015).csv


title: 1.80mg.LS.Day15

description: Gene expression data from skin biopsy


title: 13-213i9

description: Islets Insulin2 (sort091015).csv


title: 13-213i5

description: Islets Insulin2 (sort091015).csv


title: 13-213i11

description: Islets Insulin2 (sort091015).csv


title: P2_C8_exp1_K562_60min4sU


title: P2_C7_exp1_K562_60min4sU


title: P2_C6_exp1_K562_60min4sU


title: 13-213i3

description: Islets Insulin2 (sort091015).csv


title: 1.80mg.NL.Day1

description: Gene expression data from skin biopsy


title: P2_C4_exp1_K562_60min4sU


title: 13-213i4

description: Islets Insulin2 (sort091015).csv


title: 16.40mg.LS.Day29

description: Gene expression data from skin biopsy


title: 16.40mg.LS.Day15

description: Gene expression data from skin biopsy


title: 13-213i2

description: Islets Insulin2 (sort091015).csv


title: 12-203i38

description: Islets Insulin2 (sort091015).csv


title: P2_C3_exp1_K562_unlabelled


title: 12-203i37

description: Islets Insulin2 (sort091015).csv


title: 16.40mg.NL.Day1

description: Gene expression data from skin biopsy


title: P2_C2_exp1_K562_unlabelled


title: P2_C5_exp1_K562_60min4sU


title: 16.40mg.LS.Day1

description: Gene expression data from skin biopsy


title: P2_C12_exp1_K562_60min4sU


title: 1.80mg.LS.Day1

description: Gene expression data from skin biopsy


title: 12-203i35

description: Islets Insulin2 (sort091015).csv


title: 12-203i36

description: Islets Insulin2 (sort091015).csv


title: 12-203i33

description: Islets Insulin2 (sort091015).csv


title: 12-203i31

description: Islets Insulin2 (sort091015).csv


title: 12-203i34

description: Islets Insulin2 (sort091015).csv


title: 17.40mg.LS.Day1

description: Gene expression data from skin biopsy


title: P2_C11_exp1_K562_60min4sU


title: 17.40mg.NL.Day1

description: Gene expression data from skin biopsy


title: 13-213i1

description: Islets Insulin2 (sort091015).csv


title: 12-203i29

description: Islets Insulin2 (sort091015).csv


title: P2_C1_exp1_K562_unlabelled


title: P2_C10_exp1_K562_60min4sU


title: 12-203i28

description: Islets Insulin2 (sort091015).csv


title: 12-203i26

description: Islets Insulin2 (sort091015).csv


title: 12-203i27

description: Islets Insulin2 (sort091015).csv


title: P2_B9_exp1_K562_60min4sU


title: 12-203i25

description: Islets Insulin2 (sort091015).csv


title: P2_B8_exp1_K562_60min4sU


title: 12-203i32

description: Islets Insulin2 (sort091015).csv


title: 12-203i24

description: Islets Insulin2 (sort091015).csv


title: P2_B7_exp1_K562_60min4sU


title: 12-203i22

description: Islets Insulin2 (sort091015).csv


title: 12-203i23

description: Islets Insulin2 (sort091015).csv


title: 12-203i20

description: Islets Insulin2 (sort091015).csv


title: 12-203i30

description: Islets Insulin2 (sort091015).csv


title: 12-203i18

description: Islets Insulin2 (sort091015).csv


title: P2_B4_exp1_K562_60min4sU


title: 12-203i21

description: Islets Insulin2 (sort091015).csv


title: P2_B6_exp1_K562_60min4sU


title: 15.40mg.NL.Day1

description: Gene expression data from skin biopsy


title: 12-203i17

description: Islets Insulin2 (sort091015).csv


title: 14.40mg.LS.Day15

description: Gene expression data from skin biopsy


title: 15.40mg.LS.Day15

description: Gene expression data from skin biopsy


title: 15.40mg.LS.Day29

description: Gene expression data from skin biopsy


title: 14.40mg.LS.Day29

description: Gene expression data from skin biopsy


title: 14.40mg.NL.Day1

description: Gene expression data from skin biopsy


title: P2_B3_exp1_K562_unlabelled


title: 26.Placebo.LS.Day29

description: Gene expression data from skin biopsy


title: 15.40mg.LS.Day1

description: Gene expression data from skin biopsy


title: 14.40mg.LS.Day1

description: Gene expression data from skin biopsy


title: 12-203i16

description: Islets Insulin2 (sort091015).csv


title: 12-203i14

description: Islets Insulin2 (sort091015).csv


title: 12-203i15

description: Islets Insulin2 (sort091015).csv


title: P2_B2_exp1_K562_unlabelled


title: P2_B5_exp1_K562_60min4sU


title: 12-203i12

description: Islets Insulin2 (sort091015).csv


title: 12-203i13

description: Islets Insulin2 (sort091015).csv


title: 12-203i19

description: Islets Insulin2 (sort091015).csv


title: 12-203i11

description: Islets Insulin2 (sort091015).csv


title: P2_B12_exp1_K562_60min4sU


title: 26.Placebo.LS.Day15

description: Gene expression data from skin biopsy


title: 26.Placebo.NL.Day1

description: Gene expression data from skin biopsy


title: 12-203i9

description: Islets Insulin2 (sort091015).csv


title: 12-203i8

description: Islets Insulin2 (sort091015).csv


title: 12-203i6

description: Islets Insulin2 (sort091015).csv


title: 12-203i7

description: Islets Insulin2 (sort091015).csv


title: P2_B10_exp1_K562_60min4sU


title: 12-203i4

description: Islets Insulin2 (sort091015).csv


title: P2_B1_exp1_K562_unlabelled


title: 26.Placebo.LS.Day1

description: Gene expression data from skin biopsy


title: 12-203i5

description: Islets Insulin2 (sort091015).csv


title: 12-203i3

description: Islets Insulin2 (sort091015).csv


title: P2_A9_exp1_K562_60min4sU


title: 12-203i2

description: Islets Insulin2 (sort091015).csv


title: 13.40mg.LS.Day29

description: Gene expression data from skin biopsy


title: 12-203i1

description: Islets Insulin2 (sort091015).csv


title: 13-212i39

description: Islets Insulin1 (sort090415).csv


title: P2_A7_exp1_K562_60min4sU


title: 13-212i36

description: Islets Insulin1 (sort090415).csv


title: 13.40mg.NL.Day1

description: Gene expression data from skin biopsy


title: 13.40mg.LS.Day15

description: Gene expression data from skin biopsy


title: P2_B11_exp1_K562_60min4sU


title: P2_A6_exp1_K562_60min4sU


title: 13.40mg.LS.Day1

description: Gene expression data from skin biopsy


title: 13-212i35

description: Islets Insulin1 (sort090415).csv


title: 13-212i34

description: Islets Insulin1 (sort090415).csv


title: 12.40mg.LS.Day15

description: Gene expression data from skin biopsy


title: 13-212i33

description: Islets Insulin1 (sort090415).csv


title: P2_A5_exp1_K562_60min4sU


title: 13-212i31

description: Islets Insulin1 (sort090415).csv


title: 13-212i32

description: Islets Insulin1 (sort090415).csv


title: 13-212i30

description: Islets Insulin1 (sort090415).csv


title: P2_A4_exp1_K562_60min4sU


title: 12.40mg.LS.Day1

description: Gene expression data from skin biopsy


title: P2_A3_exp1_K562_unlabelled


title: 13-212i37

description: Islets Insulin1 (sort090415).csv


title: 13-212i28

description: Islets Insulin1 (sort090415).csv


title: 13-212i29

description: Islets Insulin1 (sort090415).csv


title: P2_A2_exp1_K562_unlabelled


title: 12.40mg.NL.Day1

description: Gene expression data from skin biopsy


title: 30.Placebo.LS.Day29

description: Gene expression data from skin biopsy


title: 30.Placebo.NL.Day1

description: Gene expression data from skin biopsy


title: 12.40mg.LS.Day29

description: Gene expression data from skin biopsy


title: 30.Placebo.LS.Day1

description: Gene expression data from skin biopsy


title: P2_A12_exp1_K562_60min4sU


title: 13-212i27

description: Islets Insulin1 (sort090415).csv


title: 13-212i26

description: Islets Insulin1 (sort090415).csv


title: 2.80mg.LS.Day29

description: Gene expression data from skin biopsy


title: 13-212i24

description: Islets Insulin1 (sort090415).csv


title: 13-212i25

description: Islets Insulin1 (sort090415).csv


title: 13-212i22

description: Islets Insulin1 (sort090415).csv


title: P2_A8_exp1_K562_60min4sU


title: 13-212i21

description: Islets Insulin1 (sort090415).csv


title: 13-212i20

description: Islets Insulin1 (sort090415).csv


title: P2_A10_exp1_K562_60min4sU


title: 13-212i18

description: Islets Insulin1 (sort090415).csv


title: 11.40mg.LS.Day15

description: Gene expression data from skin biopsy


title: 13-212i19

description: Islets Insulin1 (sort090415).csv


title: 13-212i17

description: Islets Insulin1 (sort090415).csv


title: P2_A1_exp1_K562_unlabelled


title: P1_H9_exp1_K562_60min4sU


title: 11.40mg.LS.Day1

description: Gene expression data from skin biopsy


title: 13-212i16

description: Islets Insulin1 (sort090415).csv


title: P2_A11_exp1_K562_60min4sU


title: 13-212i13

description: Islets Insulin1 (sort090415).csv


title: 13-212i14

description: Islets Insulin1 (sort090415).csv


title: 10.40mg.LS.Day15

description: Gene expression data from skin biopsy


title: 13-212i10

description: Islets Insulin1 (sort090415).csv


title: P1_H7_exp1_K562_60min4sU


title: 13-212i12

description: Islets Insulin1 (sort090415).csv


title: P1_H8_exp1_K562_60min4sU


title: 13-212i15

description: Islets Insulin1 (sort090415).csv


title: 10.40mg.LS.Day29

description: Gene expression data from skin biopsy


title: P1_H6_exp1_K562_60min4sU


title: 11.40mg.NL.Day1

description: Gene expression data from skin biopsy


title: P1_H5_exp1_K562_60min4sU


title: 13-212i9

description: Islets Insulin1 (sort090415).csv


title: 13-212i8

description: Islets Insulin1 (sort090415).csv


title: 13-212i7

description: Islets Insulin1 (sort090415).csv


title: 13-212i6

description: Islets Insulin1 (sort090415).csv


title: 24.20mg.LS.Day29

description: Gene expression data from skin biopsy


title: 24.20mg.NL.Day1

description: Gene expression data from skin biopsy


title: 10.40mg.NL.Day1

description: Gene expression data from skin biopsy


title: 13-212i4

description: Islets Insulin1 (sort090415).csv


title: 13-212i11

description: Islets Insulin1 (sort090415).csv


title: 13-212i3

description: Islets Insulin1 (sort090415).csv


title: P1_H3_exp1_K562_unlabelled


title: P1_H2_exp1_K562_unlabelled


title: 12-203i10

description: Islets Insulin2 (sort091015).csv


title: 24.20mg.LS.Day15

description: Gene expression data from skin biopsy


title: P1_H12_exp1_K562_60min4sU


title: 13-212i1

description: Islets Insulin1 (sort090415).csv


title: 12-202i36

description: Islets Insulin1 (sort090415).csv


title: 12-202i37

description: Islets Insulin1 (sort090415).csv


title: 33.Placebo.LS.Day29

description: Gene expression data from skin biopsy


title: 12-202i35

description: Islets Insulin1 (sort090415).csv


title: 12-202i38

description: Islets Insulin1 (sort090415).csv


title: 12-202i34

description: Islets Insulin1 (sort090415).csv


title: P1_H4_exp1_K562_60min4sU


title: P1_H11_exp1_K562_60min4sU


title: 12-202i32

description: Islets Insulin1 (sort090415).csv


title: P1_H10_exp1_K562_60min4sU


title: 13-212i5

description: Islets Insulin1 (sort090415).csv


title: P1_H1_exp1_K562_unlabelled


title: 12-202i31

description: Islets Insulin1 (sort090415).csv


title: 33.Placebo.NL.Day1

description: Gene expression data from skin biopsy


title: 12-202i30

description: Islets Insulin1 (sort090415).csv


title: 24.20mg.LS.Day1

description: Gene expression data from skin biopsy


title: 19.20mg.LS.Day29

description: Gene expression data from skin biopsy


title: 12-202i28

description: Islets Insulin1 (sort090415).csv


title: 33.Placebo.LS.Day1

description: Gene expression data from skin biopsy


title: 12-202i29

description: Islets Insulin1 (sort090415).csv


title: 19.20mg.LS.Day15

description: Gene expression data from skin biopsy


title: 12-202i27

description: Islets Insulin1 (sort090415).csv


title: 12-202i25

description: Islets Insulin1 (sort090415).csv


title: 12-202i26

description: Islets Insulin1 (sort090415).csv


title: P1_G8_exp1_K562_60min4sU


title: P1_G9_exp1_K562_60min4sU


title: P1_G7_exp1_K562_60min4sU


title: 19.20mg.LS.Day1

description: Gene expression data from skin biopsy


title: 12-202i24

description: Islets Insulin1 (sort090415).csv


title: 12-202i33

description: Islets Insulin1 (sort090415).csv


title: 12-202i21

description: Islets Insulin1 (sort090415).csv


title: 12-202i22

description: Islets Insulin1 (sort090415).csv


title: 19.20mg.NL.Day1

description: Gene expression data from skin biopsy


title: P1_G6_exp1_K562_60min4sU


title: 33.Placebo.LS.Day15

description: Gene expression data from skin biopsy


title: 12-202i23

description: Islets Insulin1 (sort090415).csv


title: 18.20mg.LS.Day29

description: Gene expression data from skin biopsy


title: 18.20mg.NL.Day1

description: Gene expression data from skin biopsy


title: 12-202i18

description: Islets Insulin1 (sort090415).csv


title: 12-202i17

description: Islets Insulin1 (sort090415).csv


title: 10.40mg.LS.Day1

description: Gene expression data from skin biopsy


title: P1_G4_exp1_K562_60min4sU


title: P1_G2_exp1_Negative_control


title: P1_G3_exp1_K562_unlabelled


title: 12-202i19

description: Islets Insulin1 (sort090415).csv


title: 12-202i13

description: Islets Insulin1 (sort090415).csv


title: 12-202i14

description: Islets Insulin1 (sort090415).csv


title: 12-202i16

description: Islets Insulin1 (sort090415).csv


title: 12-202i12

description: Islets Insulin1 (sort090415).csv


title: P1_G12_exp1_K562_60min4sU


title: 12-202i11

description: Islets Insulin1 (sort090415).csv


title: P1_G5_exp1_K562_60min4sU


title: P1_G11_exp1_Negative_control


title: 12-202i20

description: Islets Insulin1 (sort090415).csv


title: 12-202i9

description: Islets Insulin1 (sort090415).csv


title: P1_G10_exp1_K562_60min4sU


title: 12-202i10

description: Islets Insulin1 (sort090415).csv


title: 18.20mg.LS.Day1

description: Gene expression data from skin biopsy


title: 12-202i8

description: Islets Insulin1 (sort090415).csv


title: P1_G1_exp1_K562_unlabelled


title: 12-202i7

description: Islets Insulin1 (sort090415).csv


title: 12-202i15

description: Islets Insulin1 (sort090415).csv


title: 12-202i5

description: Islets Insulin1 (sort090415).csv


title: 12-202i6

description: Islets Insulin1 (sort090415).csv


title: 12-202i4

description: Islets Insulin1 (sort090415).csv


title: 12-202i3

description: Islets Insulin1 (sort090415).csv


title: P1_F9_exp1_K562_60min4sU


title: P1_F8_exp1_K562_60min4sU


title: 12-202i2

description: Islets Insulin1 (sort090415).csv


title: P1_F7_exp1_K562_60min4sU


title: 13-211i7

description: Islets Insulin1 (sort090415).csv


title: 23.20mg.LS.Day29

description: Gene expression data from skin biopsy


title: 13-211i6

description: Islets Insulin1 (sort090415).csv


title: 22.20mg.LS.Day29

description: Gene expression data from skin biopsy


title: 23.20mg.LS.Day1

description: Gene expression data from skin biopsy


title: 13-211i4

description: Islets Insulin1 (sort090415).csv


title: 13-211i2

description: Islets Insulin1 (sort090415).csv


title: P1_F5_exp1_K562_60min4sU


title: P1_F4_exp1_K562_60min4sU


title: 12-201i8

description: Islets Insulin1 (sort090415).csv


title: sample collected from indication biopsy with borderline changes from patient 4C <14 days after transplantation

city: Praha 4

first: Petra

last: Hruba

address: Videnska 1958

department: Transplant Laboratory

country: Czech Republic

institute: Institute for Clinical and Experimental Medicine

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from standard criteria donor
SCD_PRAGUE_4C

hyb_protocol: Labeled cRNA (700 ng with specific activity >10.0 pmol Cy3/ug cRNA) was hybridized to Agilent SurePrintG3 Human Gene Expression v3 8x60K Array at 65 °C for 17 hours in a rotating hybridization oven at a speed of 10 rounds per minute. After hybridization, microarrays were washed sequentially 1 min in Wash Buffer 1 and 1 minute with pre-warm (37°C) Wash buffer 2 (Agilent Technologies), then immediately dried and scanned.

scan_protocol: Scanning was performed on an Agilent Microarray Scaner C and data extraction and quality control were done by Agilent Feature Extraction Software (ver. 10.7.3.1).

data_processing:
The R software lumi package was used to process raw data obtained from microarray analysis, while the quantile method was used for normalization.
Quantile normalized signal intensities in log2 space

source_name: kidney allograft biopsy

label_protocol: A total of 150 ng of RNA served as a template for the amplification and generation of Cy3 fluorescent cRNA using the Low Input Quick Amp Labeling kit, One Colour (Agilent Technologies, Santa Clara, CA, USA) according to the manufacturer´s instructions. Dye incorporation and  cRNA yield were determined using NanoDrop ND-1000 Spectrofotometr.

extract_protocol: The small portion (2mm) of the  the renal graft biopsy was immediately placed in RNA later (Ambion Corporation, Austin, TX), snap frozen and stored at -80 °C until RNA extraction. RNA was isolated from renal biopsies using the RNeasy Micro Kit (Qiagen, Hilden, Germany). Quality and integrity of RNA were determined using the Agilent RNA 6000 Nano Kit on the Agilent 2100 Bioanalyzer (Agilent Technologies). RNA was quantified using Qubit® fluorometer with Qubit® RNA BR Assay (ThermoFisher Scientific, Waltham, MA, USA).

treatment_protocol: Transcriptomic profiles of early case biopsies diagnosed as borderline changes were studied in deceased expanded criteria (ECD), standard criteria  (SCD) and living donors (LD)  after kidney transplantation to evaluate the influence of donor categories on expression profiles.

tag: patient id

tag: type of  donor (standard criteria donor=0, expanded criteria donor=1, living donor=3


title: 12-201i7

description: Islets Insulin1 (sort090415).csv


title: sample collected from indication biopsy with borderline changes from patient 2C <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from standard criteria donor
SCD_PRAGUE_2C


title: 12-202i1

description: Islets Insulin1 (sort090415).csv


title: 22.20mg.LS.Day15

description: Gene expression data from skin biopsy


title: 12-201i5

description: Islets Insulin1 (sort090415).csv


title: 12-201i4

description: Islets Insulin1 (sort090415).csv


title: sample collected from indication biopsy with borderline changes from patient 8B <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from living donor
LD_PRAGUE_8B


title: 22.20mg.LS.Day1

description: Gene expression data from skin biopsy


title: 23.20mg.NL.Day1

description: Gene expression data from skin biopsy


title: sample collected from indication biopsy with borderline changes from patient 3C <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from standard criteria donor
SCD_PRAGUE_3C


title: P1_F3_exp1_K562_unlabelled


title: P1_F2_exp1_K562_unlabelled


title: sample collected from indication biopsy with borderline changes from patient 1C <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from standard criteria donor
SCD_PRAGUE_1C


title: P1_F6_exp1_K562_60min4sU


title: sample collected from indication biopsy with borderline changes from patient 7B <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from living donor
LD_PRAGUE_7B


title: 12-201i2

description: Islets Insulin1 (sort090415).csv


title: 12-201i3

description: Islets Insulin1 (sort090415).csv


title: P1_F12_exp1_K562_60min4sU


title: 13-211i1

description: Islets Insulin1 (sort090415).csv


title: P1_F11_exp1_K562_60min4sU


title: 28.Placebo.LS.Day29

description: Gene expression data from skin biopsy


title: 13-21W13M4LN22


title: 13-21W13M4LN23


title: 25.Placebo.LS.Day29

description: Gene expression data from skin biopsy


title: sample collected from indication biopsy with borderline changes from patient 5B <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from living donor
LD_PRAGUE_5B


title: 13-21W13M4LN21


title: sample collected from indication biopsy with borderline changes from patient 4B <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from living donor
LD_PRAGUE_4B


title: sample collected from indication biopsy with borderline changes from patient 6B <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from living donor
LD_PRAGUE_6B


title: P1_F10_exp1_K562_60min4sU


title: 13-21W13M4LN20


title: 13-21W13M4LN19


title: sample collected from indication biopsy with borderline changes from patient 3B <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from living donor
LD_PRAGUE_3B


title: P1_F1_exp1_K562_unlabelled


title: 13-21W13M4LN18


title: 13-21W13M4LN17


title: 13-21W13M4LN16


title: sample collected from indication biopsy with borderline changes from patient 2B <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from living donor
LD_PRAGUE_2B


title: 13-21W13M4LN24


title: P1_E8_exp1_K562_60min4sU


title: 13-21W13M4LN15


title: sample collected from indication biopsy with borderline changes from patient 1B <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from living donor
LD_PRAGUE_1B


title: 12-201i1

description: Islets Insulin1 (sort090415).csv


title: 13-21W13M4LN14


title: 13-21W13M4LN13


title: P1_E9_exp1_K562_60min4sU


title: P1_E7_exp1_K562_60min4sU


title: 13-21W13M4LN12


title: sample collected from indication biopsy with borderline changes from patient 9A <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from expanded criteria donor
ECD_PRAGUE_9A


title: 13-21W13M4LN11


title: P1_E6_exp1_K562_60min4sU


title: sample collected from indication biopsy with borderline changes from patient 8A <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from expanded criteria donor
ECD_PRAGUE_8A


title: 13-21W13M4LN10


title: 13-21W13M4LN7


title: 13-21W13M4LN9


title: sample collected from indication biopsy with borderline changes from patient 7A <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from expanded criteria donor
ECD_PRAGUE_7A


title: sample collected from indication biopsy with borderline changes from patient 6A <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from expanded criteria donor
ECD_PRAGUE_6A


title: 13-21W13M4LN5


title: 13-21W13M4LN6


title: 13-21W13M4LN4


title: P1_E2_exp1_K562_unlabelled

description:
exp1_readcounts.csv
exp1_newcounts.csv
exp1_oldcounts.csv


title: sample collected from indication biopsy with borderline changes from patient 5A <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from expanded criteria donor
ECD_PRAGUE_5A


title: P1_E3_exp1_K562_unlabelled


title: 22.20mg.NL.Day1

description: Gene expression data from skin biopsy


title: sample collected from indication biopsy with borderline changes from patient 4A <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from expanded criteria donor
ECD_PRAGUE_4A


title: P1_E12_exp1_K562_60min4sU


title: 12-20W13M4LN24


title: 13-21W13M4LN1


title: 12-20W13M4LN23


title: 13-21W13M4LN2


title: 13-21W13M4LN3


title: 12-20W13M4LN22


title: 12-20W13M4LN20


title: sample collected from indication biopsy with borderline changes from patient 2A <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from expanded criteria donor
ECD_PRAGUE_2A


title: sample collected from indication biopsy with borderline changes from patient 3A <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from expanded criteria donor
ECD_PRAGUE_3A


title: sample collected from indication biopsy with borderline changes from patient 1A <14 days after transplantation

description:
Gene expression in early indication biopsy with borderline changes in kidney graft from expanded criteria donor
ECD_PRAGUE_1A


title: P1_E10_exp1_K562_60min4sU


title: 12-20W13M4LN21


title: 13-21W13M4LN8


title: P1_E5_exp1_K562_60min4sU


title: P1_E4_exp1_K562_60min4sU


title: 12-20W13M4LN19