title: 48h_Sox2_OSKM_ChIP_seq


title: MEF_cMyc_endo_ChIP_seq

status: Public on Jan 19 2017

type: SRA

city: Los Angeles

first: Kathrin

last: Plath

state: CA

address: 615 Charles E. Young Drive South

department: Biological Chemistry

country: USA

institute: UCLA

library_source: genomic

data_processing:
Basecalls performed using CASAVA version 1.4
ChIP-seq reads were aligned to the mm9 genome assembly using Bowtie aligner only those reads that aligned to a unique position with no more than two sequence mismatches were retained for further analysis
Histone mark signal was converted into wig files at 25 bp resolution
Histone marks were binarised using a p-value cut-off of 1e-4 and chromatin states were derived using chromHMM v1.1.0
TF peaks were called using MACS2 with the following setting:q-val <0.005 and Enrichment Fold (>=4).
Genome_build: mm9
Supplementary_files_format_and_content: peaks calls are provided as part of  Peak_calls_table

molecule: genomic DNA

organism: Mus musculus

source_name: MEFs

growth_protocol: All cell types (MEFs, 48h-OSKM inducing MEFs, pre-iPSCs, ESCs) were grown in standard mouse ESC media containing KO DMEM, 15% FBS, leukemia inhibiotry factor (Lig), b-mercaptoethanol, penicillin/streptomycin, L-glutamine and non-essential amino acids. Additionally, pre-iPSCs and ESCs were grown on irradiated feeders, but feeder-depleted and grown on gelatin overnight for genomics experiments. For the 48h reprogramming time-point, tetO-OSKM MEFs were cultures in ESC media containing 2ug/mL doxycycline for 48h to induce the expression of OSKM.

extract_protocol:
Histone Modifications were assesed by means of Native ChIP. 50 x 106 Nuclei were isolated from non-crosslinked cells (MEFs, 48hOSKM, pre-i#1 and ESC) by incubation in 2 mL of a hypotonic solution (0.3M sucrose, 60mM KCl, 15mM NaCl, 5mM MgCl2, 15mM Tris-HCl pH 7.5, 0.5mM DTT, 0.1% NP40, and protease inhibitor cocktail) followed by subsequent centrifugation through a sucrose cushion (1.2M sucrose, 60mM KCL, 15mM NaCl, 5mM MgCl2, 0.1mM EGTA, 15 mM Tris-HCl pH 7.5, 0.5mM DTT, and protease inhibitor cocktail). Nuclei were then re-suspended in MNAse-digestion buffer (0.32M sucrose, 50mM Tris-HCl pH 7.5, 4mM MgCl2, 1mM CaCl2, and protease inhibitor cocktail) and digested with 3 units of MNase (Roche 10107921001) for 10 minutes at 37oC. The first soluble fraction (S1) was recovered by centrifugation for 10 min at 10,000 rpm. The nuclei pellet was then dialyzed overnight in 1l of dialysis buffer (1mM Tris-HCl pH7.5, 0.2mM EDTA, protease inhibitors) to more completely release the chromatin fraction (S2) from nuclei. 10 ug of soluble chromatin (S1 and S2) was then incubated with 5 ug of antibodies targeting histone modifications-conjugated to magnetic beads (Active Motif; 53014) under constant stirring at 4oC for 16 hrs. The antibodies used were anti-H3K9ac (Abcam; ab4441), anti-H3K4me3 (Abcam; ab8580), anti-H3K4me2 (Abcam ab7766), anti-H3K4me1 (Abcam; ab8895), anti-H3K27me3 (Active Motif; 39155), antiH3K27ac (Abcam; ab4729), and anti-H3K36me3 (Abcam; ab9050). Beads were washed twice with wash buffer A (50mM Tris-HCl pH 7.5, 10mM EDTA, 75mM NaCl), wash buffer B (50mM Tris-HCl pH 7.5, 10mM EDTA, 125mM NaCl), and wash buffer C (50mM Tris-HCl pH 7.5, 10mM EDTA, 175 mM NaCl). DNA was extracted using phenol:chloroform:iso-amylacohol and used for downstream library construction. DNA from fractions S1 and S2 was also isolated directly using phenol:chloroform:iso-amylacohol extraction and used as an whole genome input control (native Input). All protocols for Illumina/Solexa sequencing library preparation, sequencing, and quality control were performed as recommended by Illumina, with the minor modification of limiting the PCR amplification step to 10 cycles. All constructed libraries were sequenced using single-end 50 bp sequencing reactions.
Transcription factor occupancy data generated in this study were acquired using ChIP after crosslinking cells. X-ChIP was also employed for mapping H3K79me2 (Active Motif, 39143), H3K9me3 (abcam, ab8898 or Millipore, 05-1242), H3 (abcam, ab1791) and H3.3 (Abnova, H00003021-M01). Briefly, cells were grown to a final concentration of 5x107 cells for each ChIP-seq experiment. To stabilize HATs/HDACs (p300, Hdac1) and Brg1 on chromatin, cells were treated with 2 mM disuccinimidyl glutarate (DSG) for 10 minutes prior to formaldehyde crosslinking. For all other antibodies used, cells were chemically cross-linked at room temperature by the addition of formaldehyde to 1% final concentration for 10 minutes and quenched with 0.125 M final concentration glycine. Cross-linked cells were re-suspended in sonication buffer (50mM Hepes-KOH pH 7.5, 140mM NaCl, 1mM EDTA, 1% TritonX-100, 0.1% Na-deoxycholate, 0.1% SDS) and sonicated using a Diagenode Bioruptor for three 10-minute rounds using pulsing settings (30 sec ON; 1 min OFF). 10 ug of sonicated chromatin was then incubated overnight at 4oC with 5 ug of antibodies-conjugated to magnetic beads. The antibodies used were: anti-Esrrb (RnD; H6705), anti-Klf4 (RnD; AF3158), anti-cMyc (RnD; AF3696), anti-Nanog (cosmobio REC-RCAB001P), anti-Oct4 (RnD; AF1759), anti-Sox2 (RnD AF2018), anti-p300 (SantaCruz;sc-585), anti-Runx1 (Novus Biologicals NBP1-61277), anti-Fra1 (SantaCruz;sc-183X), anti-Cebpa (SantaCruz; sc-61X), anti-Cebpb (SantaCruz;sc-150X), anti-Hdac1(abcam; ab7028) and anti-Brg1(abcam; ab110641). Following the IP the beads were washed twice with RIPA buffer (50mM Tris-HCl pH8, 150 mM NaCl, 2mM EDTA, 1% NP-40, 0.1% Na-deocycholate, 0.1% SDS), low salt buffer (20mM Tris pH 8.1, 150mM NaCl, 2mM EDTA, 1% Triton X-100, 0.1% SDS), high salt buffer (20mM Tris pH 8.1, 500mM NaCl, 2mM EDTA, 1% Triton X-100, 0.1% SDS), LiCl buffer (10mM Tris pH 8.1, 250mM LiCl, 1mM EDTA, 1% Na-deoxycholate, 1% NP-40), and 1xTE. Finally, DNA was extracted by reverse crosslinking at 60oC overnight with proteinase K (20ug/ul) and 1% SDS followed by phenol:chloroform:iso-amylacohol purification. Libraries were constructed as indicated above and sequenced using single-end 50 bp sequencing reactions
Libraries were prepared according to Illumina's instructions accompanying the TruSeq library preparation kit. Briefly, DNA was end-repaired using a combination of T4 DNA polymerase, E. coli DNA Pol I large fragment (Klenow polymerase) and T4 polynucleotide kinase. The blunt, phosphorylated ends were treated with Klenow fragment (32 to 52 exo minus) and dATP to yield a protruding 3- 'A' base for ligation of Illumina's adapters which have a single 'T' base overhang at the 3’ end. After adapter ligation DNA was PCR amplified with Illumina primers for 15 cycles and library fragments of ~250 bp (insert plus adaptor and PCR primer sequences) were band isolated from an agarose gel. The purified DNA was captured on an Illumina flow cell for cluster generation. Libraries were sequenced on the Genome Analyzer following the manufacturer's protocols.

tag: strain

tag: cell type

value: MEF


title: 48h_H3K27ac_KtetO_ChIP-seq

source_name: MEFs expressing Klf4 from inducible system for 48h


title: MEF_Klf4_endo_ChIP_seq


title: ESC_WCE_ChIP-Seq

source_name: ESC

value: ESC


title: preiPSC#1_Inputnative_MNase_ChIP-Seq

source_name: pre-iPSC line 1(12.1)

value: pre-iPSC


title: MEF_Inputnative_MNase_ChIP-Seq

source_name: mouse embryonic fibroblasts


title: ESC_H3_ChIP-Seq


title: 48h_Inputnative_MNase_ChIP-Seq

source_name: MEFs expressing OSKM for 48h


title: preiPSC#1_WCE_ChIP-Seq


title: MEF_WCE_ChIP-Seq


title: ESC_Inputnative_MNase_ChIP-Seq


title: preiPSC#1_H3_ChIP-Seq


title: 48h_H3_ChIP-Seq


title: ESC_H3.3_ChIP-Seq


title: ESC_H3K9me3_ChIP-Seq


title: MEF_H3.3_ChIP-Seq


title: 48h_H3.3_ChIP-Seq


title: MEF_H3_ChIP-Seq


title: preiPSC#1_H3.3_ChIP-Seq


title: preiPSC#1_H3K9me3_ChIP-Seq


title: 48h_H3K9me3_ChIP-Seq


title: 48h_H3K36me3_ChIP-Seq


title: ESC_H3K36me3_ChIP-Seq


title: MEF_H3K9me3_ChIP-Seq


title: preiPSC#1_H3K36me3_ChIP-Seq


title: MEF_H3K36me3_ChIP-Seq


title: ESC_H3K79me2_ChIP-Seq


title: MEF_H3K79me2_ChIP-Seq


title: preiPSC#1_H3K79me2_ChIP-Seq


title: 48h_H3K79me2_ChIP-Seq


title: preiPSC#1_H3K27me3_ChIP-Seq


title: 48h_H3K27me3_ChIP-Seq


title: MEF_H3K27me3_ChIP-Seq


title: preiPSC#1_H3K27ac_ChIP-Seq


title: 48h_H3K27ac_ChIP-Seq


title: MEF_H3K27ac_ChIP-Seq


title: ESC_H3K9ac_ChIP-Seq


title: preiPSC#1_H3K9ac_ChIP-Seq


title: ESC_H3K4me1_ChIP-Seq


title: MEF_H3K9ac_ChIP-Seq


title: 48h_H3K9ac_ChIP-Seq


title: MEF_H3K4me1_ChIP-Seq


title: 48h_H3K4me1_ChIP-Seq


title: preiPSC#1_H3K4me1_ChIP-Seq


title: ESC_H3K4me2_ChIP-Seq


title: ESC_H3K4me3_ChIP-Seq


title: preiPSC#1_H3K4me2_ChIP-Seq


title: ESC_ATAC-Seq

data_processing:
Basecalls performed using CASAVA version 1.4
ChIP-seq reads were aligned to the mm9 genome assembly using Bowtie aligner only those reads that aligned to a unique position with no more than two sequence mismatches were retained for further analysis
peaks were called using MACS2 software
Genome_build: mm9
Supplementary_files_format_and_content: peaks calls are provided as part of  Peak_calls_table

growth_protocol: All cell types (MEFs, 48h-OSKM inducing MEFs, 48h-Oct4 inducing MEFs, 48h-Sox2 inducing MEFs, 48h-Klf4 overexpressing MEFs, pre-iPSCs, ESCs) were grown in standart mouse ESC media containing KO DMEM, 15% FBS, leukemia inhibiotry factor (Lig), b-mercaptoethanol, penicillin/streptomycin, L-glutamine and non-essential amino acids. Additionally, pre-iPSCs and ESCs were grown on irradiated feeders, but feeder-depleted and grown on gelatin overnight for genomics experiments. For the 48h reprogramming time-point, tetO-OSKM MEFs, were cultured in ESC media containing 2ug/mL doxycycline for 48h to induce the expression of OSKM. MEFs expressing exogenously Oct4, Sox2 or Klf4 for 48h were cultured also cultured in ESC media with 2ug/mL doxycycline for 48h.

extract_protocol:
genomic DNA
50000 cells (129v MEFs, un-induced MEFs, 48hOSKM, 48hOct4, 48hSox2, 48hKlf4, pre-i#1, pre-i#2 or ESCs) were re-suspended in 50μl lysis buffer (10 mM Tris pH 7.4, 10 mM NaCl, 3 mM MgCl2, 0.1% NP40, and 1 × Complete Protease inhibitor (Roche)) and spun at 500g for 10 min at 4 °C to collect nuclei. Nuclei were washed in 1x PBS and subsequently re-suspended in 50 μl Transposase reaction (25 μl 2 × Tagmentation buffer, 22.5 μl water, 2.5 μl Tn5 Transposase enzyme, following instructions by Illumina). Reactions were incubated for 30 min at 37 °C and DNA purified using Qiagen MinElute columns (Qiagen). The transposed DNA was subsequently amplified with custom primers as described (Buenrostro et al., 2013) for 7-9 cycles and libraries were visualized on a 2% TBE gel prior to sequencing with a single-end-sequencing length of 50 nucleotides


title: MEF_H3K4me3_ChIP-Seq


title: MEF_H3K4me2_ChIP-Seq


title: 48h_H3K4me3_ChIP-Seq


title: preiPSC#2_ATAC-seq

source_name: pre-iPSC line 2(1A2)


title: 48h_H3K4me2_ChIP-Seq


title: ESC_H3K27me3_ChIP-Seq


title: preiPSC#1_ATAC-seq


title: preiPSC#1_H3K4me3_ChIP-Seq


title: 48h_StetO_ATAC-seq

source_name: MEFs expressing Sox2 from inducible system for 48h


title: 48h_OtetO_ATAC-seq

source_name: MEFs expressing Oct4 from inducible system for 48h


title: ESC_H3K27ac_ChIP-Seq


title: 48h_OSKM_ATAC-seq


title: MEF_ATAC-seq

description: The processed data file contains data merged from GSM2417068 and GSM2417069.


title: 48h_KpMX_ATAC-seq

source_name: MEFs expressing Klf4 from pMX vector for 48h


title: MEF(NODOX)_ATAC-seq

description: processed data for this sample is available on GSM2417068. This file contains data merged from GSM2417068 and GSM2417069.

source_name: mouse embryonic fibroblasts with incorporated but not expressing tetO-OSKM cassette


title: WholeBloodRNA_JR1230_Spring

status: Public on Apr 28 2015

type: RNA

city: Houston

first: John

middle: W

last: Belmont

state: TX

address: One Baylor Plaza, BCM 320

department: Molecular and Human Genetics

institute: Baylor College of Medicine

hyb_protocol: Standard Illumina hybridization protocol

scan_protocol: Standard Illumina scanning protocol. Scanning was performed on an Illumina iScan system

data_processing: Raw data underwent background adjustment, variance stabilization transformation, and robust spline normalization using R package lumi (available from Bioconductor)

label: biotin

molecule: total RNA

organism: Homo sapiens

source_name: Whole blood

label_protocol: Biotinylated cRNA was prepared with the Ambion Illumina TotalPrep RNA Amplification Kit

extract_protocol: RNA was extracted with the QIAGEN PAXgene Blood RNA System, in accordance with the protocol provided with the kit. Quality control was performed on a BioRad Experion microfluidic electrophoresis system

tag: subject id

tag: time point

value: Spring

tag: gender

value: female

tag: infection

value: our tests did not detect one of the viruses sought

tag: baseline anti-a/h1n1 ab titers

tag: spring anti-a/h1n1 ab titers


title: WholeBloodRNA_JR1459_Spring


title: WholeBloodRNA_JR1800_Baseline

value: Baseline


title: Neutrophil_individual_mouse_blood_2

status: Public on Sep 21 2016

city: Montpellier

first: Hervé

last: Seitz

address: 141 rue de la Cardonille

department: IGH (UMR 9002)

country: France

institute: CNRS

description: Individual mouse #2 (for measurement of inter-individual variability in gene expression)

hyb_protocol: Hybridization was performed at 45°C and washes were performed between 37.07 and 38.00°C, on an Affymetrix GeneChip station (IRB, Montpellier).

scan_protocol: Image acquisition was performed on a 3000 7G Affymetrix scanner (IRB, Montpellier).

data_processing: Intensity values were background-subtracted and normalized using the RMA method.

source_name: Neutrophils, mouse #2

label_protocol: cDNAs were labeled using the Affymetrix IVT labeling kit with the two-cycle cDNA synthesis protocol, and hybridized on MG-430 PM array strips (Affymetrix cat. # 901570)

growth_protocol: Pathogen-free S/SPF C57BL/6J mice were obtained from Charles River Laboratories. Experiments were performed using ten 3-month old male mice following 9 days of acclimatization to our mouse facility.

extract_protocol: Blood samples were collected in heparin-treated tubes. Five blood samples were analyzed separately ("biological replicates") and the other five samples were pooled, then split into five "technical replicates ». All ten samples were then treated identically in a double-blind manner. Neutrophils were isolated by magnetic labeling with the anti-mouse Ly6G PE antibody (BD Biosciences cat. #551461) and MS columns (Miltenyi Biotec cat. #130-042-201). Neutrophil purity (ranging from 71.5 to 99.5%) was mo itored by flow cytometry. RNA was extracted using the QIAamp RNA extraction kit (Qiagen cat. #52304). Neutrophil lysis and RNA extraction were performed on a QIAcube robot for optimal sample-to-sample reproducibility. RNA was precipitated, DNase-treated,then  further p rified using the RNeasy kit (Qiagen cat. #74104.)

value: male

tag: age

value: 3 months


title: WholeBloodRNA_JR1870_Baseline


title: Neutrophil_pooled_mouse_blood_replicate_2

description: Technical replicate #2 (from the pooled blood of 5 mice, to measure technical noise)

source_name: Neutrophils, technical replicate #2


title: Neutrophil_individual_mouse_blood_4

description: Individual mouse #4 (for measurement of inter-individual variability in gene expression)

source_name: Neutrophils, mouse #4


title: WholeBloodRNA_JR1268_Spring


title: WholeBloodRNA_JR1800_Spring


title: WholeBloodRNA_JR0533_Baseline


title: Neutrophil_individual_mouse_blood_5

description: Individual mouse #5 (for measurement of inter-individual variability in gene expression)

source_name: Neutrophils, mouse #5


title: Neutrophil_individual_mouse_blood_3

description: Individual mouse #3 (for measurement of inter-individual variability in gene expression)

source_name: Neutrophils, mouse #3


title: WholeBloodRNA_JR0462_Spring


title: WholeBloodRNA_JR1268_Baseline


title: WholeBloodRNA_JR0462_Baseline


title: WholeBloodRNA_JR1230_Baseline


title: Neutrophil_individual_mouse_blood_1

description: Individual mouse #1 (for measurement of inter-individual variability in gene expression)

source_name: Neutrophils, mouse #1


title: WholeBloodRNA_JR1870_Spring


title: Neutrophil_pooled_mouse_blood_replicate_4

description: Technical replicate #4 (from the pooled blood of 5 mice, to measure technical noise)

source_name: Neutrophils, technical replicate #4


title: Neutrophil_pooled_mouse_blood_replicate_5

description: Technical replicate #5 (from the pooled blood of 5 mice, to measure technical noise)

source_name: Neutrophils, technical replicate #5


title: Neutrophil_pooled_mouse_blood_replicate_3

description: Technical replicate #3 (from the pooled blood of 5 mice, to measure technical noise)

source_name: Neutrophils, technical replicate #3


title: Neutrophil_pooled_mouse_blood_replicate_1

description: Technical replicate #1 (from the pooled blood of 5 mice, to measure technical noise)

source_name: Neutrophils, technical replicate #1


title: WholeBloodRNA_JR0496_Baseline


title: WholeBloodRNA_JR0533_Spring


title: WholeBloodRNA_JR1424_Baseline


title: WholeBloodRNA_JR1459_Baseline


title: WholeBloodRNA_JR1183_Baseline


title: WholeBloodRNA_JR0461_Baseline


title: WholeBloodRNA_JR0438_Spring


title: WholeBloodRNA_JR0438_Baseline


title: WholeBloodRNA_JR0547_Day4

value: respiratory syncytial virus A


title: WholeBloodRNA_JR0224_Spring


title: WholeBloodRNA_JR0151_Baseline


title: WholeBloodRNA_JR0324_Baseline


title: WholeBloodRNA_JR0039_Spring


title: WholeBloodRNA_JR0325_Baseline


title: WholeBloodRNA_JR0319_Baseline


title: WholeBloodRNA_JR0043_Spring


title: WholeBloodRNA_JR0106_Spring


title: WholeBloodRNA_JR0178_Baseline


title: WholeBloodRNA_JR0547_Day21


title: WholeBloodRNA_JR0324_Spring


title: WholeBloodRNA_JR0106_Baseline


title: WholeBloodRNA_JR0301_Spring


title: WholeBloodRNA_JR0151_Spring


title: WholeBloodRNA_JR0224_Baseline


title: WholeBloodRNA_JR0547_Day6


title: WholeBloodRNA_JR0319_Spring


title: WholeBloodRNA_JR0043_Baseline


title: WholeBloodRNA_JR0017_Day0


title: WholeBloodRNA_JR0325_Spring


title: WholeBloodRNA_JR0039_Baseline


title: WholeBloodRNA_JR0301_Baseline


title: WholeBloodRNA_JR0018_Baseline


title: WholeBloodRNA_JR0547_Day2


title: WholeBloodRNA_JR0547_Day0


title: WholeBloodRNA_JR0547_Baseline


title: WholeBloodRNA_JR0547_Spring


title: WholeBloodRNA_JR0471_Day6

value: enterovirus


title: WholeBloodRNA_JR1447_Day0

value: human coronavirus NL63


title: WholeBloodRNA_JR0471_Spring


title: WholeBloodRNA_JR1447_Day6


title: WholeBloodRNA_JR0471_Baseline


title: WholeBloodRNA_JR0471_Day21


title: WholeBloodRNA_JR1447_Day2


title: WholeBloodRNA_JR1447_Baseline


title: WholeBloodRNA_JR1145_Spring

value: human rhinovirus and respiratory syncytial virus A


title: WholeBloodRNA_JR0471_Day0


title: WholeBloodRNA_JR1944_Day4

value: human rhinovirus and respiratory syncytial virus B


title: WholeBloodRNA_JR1944_Day21


title: WholeBloodRNA_JR1944_Day6


title: WholeBloodRNA_JR0471_Day2


title: WholeBloodRNA_JR1145_Day21


title: WholeBloodRNA_JR1944_Day0


title: WholeBloodRNA_JR1944_Spring


title: WholeBloodRNA_JR1145_Day6


title: WholeBloodRNA_JR1944_Day2


title: WholeBloodRNA_JR1145_Day2


title: WholeBloodRNA_JR1446_Day21

value: human rhinovirus and human coronavirus NL63


title: WholeBloodRNA_JR1447_Day4


title: WholeBloodRNA_JR1145_Day0


title: WholeBloodRNA_JR1447_Day21


title: WholeBloodRNA_JR0471_Day4


title: WholeBloodRNA_JR1145_Day4


title: WholeBloodRNA_JR1145_Baseline


title: WholeBloodRNA_JR1446_Day6


title: WholeBloodRNA_JR1446_Spring


title: WholeBloodRNA_JR1702_Day21

value: human rhinovirus and human coronavirus HKU1


title: WholeBloodRNA_JR1702_Day4


title: WholeBloodRNA_JR1446_Day4


title: WholeBloodRNA_JR1446_Day0


title: WholeBloodRNA_JR0611_Day21


title: WholeBloodRNA_JR1446_Baseline


title: WholeBloodRNA_JR0611_Day4


title: WholeBloodRNA_JR1446_Day2


title: WholeBloodRNA_JR1702_Day6


title: WholeBloodRNA_JR1702_Baseline


title: WholeBloodRNA_JR0207_Day2


title: WholeBloodRNA_JR0207_Day6


title: WholeBloodRNA_JR0207_Baseline


title: WholeBloodRNA_JR0207_Day0


title: WholeBloodRNA_JR1447_Spring


title: WholeBloodRNA_JR0209_Day21

value: human rhinovirus and enterovirus


title: WholeBloodRNA_JR0611_Day6


title: WholeBloodRNA_JR0207_Spring


title: WholeBloodRNA_JR0611_Day0


title: WholeBloodRNA_JR1702_Day0


title: WholeBloodRNA_JR0611_Day2


title: WholeBloodRNA_JR0611_Spring


title: WholeBloodRNA_JR1702_Day2


title: WholeBloodRNA_JR0209_Day6


title: WholeBloodRNA_JR0209_Spring


title: WholeBloodRNA_JR0209_Day4


title: WholeBloodRNA_JR0207_Day21


title: WholeBloodRNA_JR1466_Day21

value: human rhinovirus


title: WholeBloodRNA_JR1466_Day0


title: WholeBloodRNA_JR1292_Day6


title: WholeBloodRNA_JR0209_Day2


title: WholeBloodRNA_JR1466_Day2


title: WholeBloodRNA_JR0207_Day4


title: WholeBloodRNA_JR0209_Day0


title: WholeBloodRNA_JR1466_Day4


title: WholeBloodRNA_JR1292_Spring


title: WholeBloodRNA_JR0209_Baseline


title: WholeBloodRNA_JR1292_Baseline


title: WholeBloodRNA_JR1292_Day4


title: WholeBloodRNA_JR1292_Day0


title: WholeBloodRNA_JR1242_Day6


title: WholeBloodRNA_JR1292_Day2


title: WholeBloodRNA_JR1242_Spring


title: WholeBloodRNA_JR1242_Day21


title: WholeBloodRNA_JR1242_Day4


title: WholeBloodRNA_JR1242_Day0


title: WholeBloodRNA_JR1091_Day21


title: WholeBloodRNA_JR1242_Baseline


title: WholeBloodRNA_JR1192_Day21


title: WholeBloodRNA_JR1292_Day21


title: WholeBloodRNA_JR1192_Baseline


title: WholeBloodRNA_JR1242_Day2


title: WholeBloodRNA_JR1466_Baseline


title: WholeBloodRNA_JR1192_Day0


title: WholeBloodRNA_JR1192_Day2


title: WholeBloodRNA_JR1091_Day2


title: WholeBloodRNA_JR1075_Day6


title: WholeBloodRNA_JR1091_Day0


title: WholeBloodRNA_JR1075_Baseline


title: WholeBloodRNA_JR1075_Day4


title: WholeBloodRNA_JR1192_Day6


title: WholeBloodRNA_JR1192_Day4


title: WholeBloodRNA_JR1091_Day4


title: WholeBloodRNA_JR1091_Baseline


title: WholeBloodRNA_JR0526_Baseline


title: WholeBloodRNA_JR1192_Spring


title: WholeBloodRNA_JR0526_Day21


title: WholeBloodRNA_JR1075_Day0


title: WholeBloodRNA_JR0526_Day2


title: WholeBloodRNA_JR1091_Day6


title: WholeBloodRNA_JR0526_Day6


title: WholeBloodRNA_JR0510_Day0


title: WholeBloodRNA_JR0526_Day0


title: WholeBloodRNA_JR1075_Day21


title: WholeBloodRNA_JR0510_Day2


title: WholeBloodRNA_JR0510_Day4


title: WholeBloodRNA_JR0526_Spring


title: WholeBloodRNA_JR0526_Day4


title: WholeBloodRNA_JR0421_Day4


title: WholeBloodRNA_JR0421_Day6


title: WholeBloodRNA_JR0510_Spring


title: WholeBloodRNA_JR0510_Day6


title: WholeBloodRNA_JR0421_Day21


title: WholeBloodRNA_JR0510_Day21


title: WholeBloodRNA_JR0421_Day0


title: WholeBloodRNA_JR0412_Spring


title: WholeBloodRNA_JR0412_Day6


title: WholeBloodRNA_JR0421_Spring


title: WholeBloodRNA_JR0412_Day21


title: WholeBloodRNA_JR0421_Day2


title: WholeBloodRNA_JR0412_Day4


title: WholeBloodRNA_JR0412_Day2


title: WholeBloodRNA_JR0412_Baseline


title: WholeBloodRNA_JR0392_Day21


title: WholeBloodRNA_JR0392_Spring


title: WholeBloodRNA_JR0412_Day0


title: WholeBloodRNA_JR0386_Day0


title: WholeBloodRNA_JR0510_Baseline


title: WholeBloodRNA_JR0392_Day6


title: WholeBloodRNA_JR0392_Day0


title: WholeBloodRNA_JR0386_Baseline


title: WholeBloodRNA_JR0374_Day0


title: WholeBloodRNA_JR0386_Day21


title: WholeBloodRNA_JR0386_Day2


title: WholeBloodRNA_JR0386_Day4


title: WholeBloodRNA_JR0374_Day21


title: WholeBloodRNA_JR0374_Day6


title: WholeBloodRNA_JR0374_Day2


title: WholeBloodRNA_JR0374_Day4


title: WholeBloodRNA_JR0392_Baseline


title: WholeBloodRNA_JR0386_Day6


title: WholeBloodRNA_JR0386_Spring


title: WholeBloodRNA_JR0374_Baseline


title: WholeBloodRNA_JR0363_Day6


title: WholeBloodRNA_JR0369_Day4


title: WholeBloodRNA_JR0363_Day21


title: WholeBloodRNA_JR0369_Baseline


title: WholeBloodRNA_JR0369_Spring


title: WholeBloodRNA_JR0369_Day2


title: WholeBloodRNA_JR0369_Day0


title: WholeBloodRNA_JR0369_Day21


title: WholeBloodRNA_JR0297_Day6


title: WholeBloodRNA_JR0363_Day2


title: WholeBloodRNA_JR0363_Day4


title: WholeBloodRNA_JR0363_Spring


title: WholeBloodRNA_JR0297_Day2


title: WholeBloodRNA_JR0363_Baseline


title: WholeBloodRNA_JR0291_Baseline


title: WholeBloodRNA_JR0297_Spring


title: WholeBloodRNA_JR0291_Day2


title: WholeBloodRNA_JR0291_Day4


title: WholeBloodRNA_JR0287_Day6


title: WholeBloodRNA_JR0363_Day0


title: WholeBloodRNA_JR0297_Day4


title: WholeBloodRNA_JR0287_Day0


title: WholeBloodRNA_JR0287_Day4


title: WholeBloodRNA_JR0276_Spring


title: WholeBloodRNA_JR0297_Baseline


title: WholeBloodRNA_JR0297_Day21


title: WholeBloodRNA_JR0287_Day2


title: WholeBloodRNA_JR0291_Day21


title: WholeBloodRNA_JR0287_Spring


title: WholeBloodRNA_JR0276_Day21


title: WholeBloodRNA_JR0276_Day6


title: WholeBloodRNA_JR0291_Day6


title: WholeBloodRNA_JR0287_Baseline


title: WholeBloodRNA_JR0291_Day0


title: WholeBloodRNA_JR1075_Day2


title: WholeBloodRNA_JR0287_Day21


title: WholeBloodRNA_JR0421_Baseline


title: WholeBloodRNA_JR0276_Day2


title: WholeBloodRNA_JR0276_Day4


title: WholeBloodRNA_JR0276_Day0


title: WholeBloodRNA_JR0228_Day21


title: WholeBloodRNA_JR0223_Day21


title: WholeBloodRNA_JR0223_Day2


title: WholeBloodRNA_JR0223_Day6


title: WholeBloodRNA_JR0228_Day0


title: WholeBloodRNA_JR0228_Day4


title: WholeBloodRNA_JR0228_Spring


title: WholeBloodRNA_JR0276_Baseline


title: WholeBloodRNA_JR0228_Day6


title: WholeBloodRNA_JR0223_Day0


title: WholeBloodRNA_JR0228_Baseline


title: WholeBloodRNA_JR0228_Day2


title: WholeBloodRNA_JR0154_Spring


title: WholeBloodRNA_JR0176_Day0


title: WholeBloodRNA_JR0223_Baseline


title: WholeBloodRNA_JR0176_Day21


title: WholeBloodRNA_JR0176_Day2


title: WholeBloodRNA_JR0223_Spring


title: WholeBloodRNA_JR0176_Day4


title: WholeBloodRNA_JR0154_Day4


title: WholeBloodRNA_JR0176_Baseline


title: WholeBloodRNA_JR0176_Day6


title: WholeBloodRNA_JR0154_Day2


title: WholeBloodRNA_JR0223_Day4


title: WholeBloodRNA_JR0154_Day6


title: WholeBloodRNA_JR0154_Day21


title: WholeBloodRNA_JR0153_Spring


title: WholeBloodRNA_JR0154_Day0


title: WholeBloodRNA_JR0153_Day21


title: WholeBloodRNA_JR0153_Day2


title: WholeBloodRNA_JR0153_Day6


title: WholeBloodRNA_JR0154_Baseline


title: WholeBloodRNA_JR0297_Day0


title: WholeBloodRNA_JR0148_Day0


title: WholeBloodRNA_JR0153_Day0


title: WholeBloodRNA_JR0336_Spring

value: human coronavirus HKU1


title: WholeBloodRNA_JR0336_Day21


title: WholeBloodRNA_JR0148_Day4


title: WholeBloodRNA_JR0148_Baseline


title: WholeBloodRNA_JR0148_Day2


title: WholeBloodRNA_JR0153_Baseline


title: WholeBloodRNA_JR0148_Day21


title: WholeBloodRNA_JR0336_Day4


title: WholeBloodRNA_JR0148_Day6


title: WholeBloodRNA_JR0336_Day2


title: WholeBloodRNA_JR0148_Spring


title: WholeBloodRNA_JR0336_Baseline


title: WholeBloodRNA_JR1717_Day21

value: influenza B virus and human rhinovirus


title: WholeBloodRNA_JR0336_Day0


title: WholeBloodRNA_JR1717_Day4


title: WholeBloodRNA_JR1717_Spring

value: Spring


title: WholeBloodRNA_JR1717_Baseline

value: female


title: WholeBloodRNA_JR1717_Day0


title: WholeBloodRNA_JR1717_Day2


title: WholeBloodRNA_JR1717_Day6


title: WholeBloodRNA_JR1672_Day21


title: WholeBloodRNA_JR1672_Day2


title: WholeBloodRNA_JR1672_Day0


title: WholeBloodRNA_JR1275_Day6


title: WholeBloodRNA_JR1672_Day6


title: WholeBloodRNA_JR1275_Day2


title: WholeBloodRNA_JR1120_Day0


title: WholeBloodRNA_JR1120_Day6


title: WholeBloodRNA_JR1275_Spring


title: WholeBloodRNA_JR1275_Day4


title: WholeBloodRNA_JR1120_Day4


title: WholeBloodRNA_JR1120_Day2


title: WholeBloodRNA_JR1120_Spring


title: WholeBloodRNA_JR1120_Day21


title: WholeBloodRNA_JR1053_Day2


title: WholeBloodRNA_JR1053_Day6


title: WholeBloodRNA_JR1275_Day21


title: WholeBloodRNA_JR1120_Baseline


title: WholeBloodRNA_JR1053_Day21


title: WholeBloodRNA_JR1053_Baseline


title: WholeBloodRNA_JR1978_Day4

value: influenza B virus


title: WholeBloodRNA_JR1978_Day21


title: WholeBloodRNA_JR1275_Day0


title: WholeBloodRNA_JR1053_Day0


title: WholeBloodRNA_JR1978_Day6


title: WholeBloodRNA_JR1672_Baseline

value: Baseline


title: WholeBloodRNA_JR1053_Day4

value: male


title: WholeBloodRNA_JR1978_Day2


title: WholeBloodRNA_JR1491_Day6


title: WholeBloodRNA_JR1978_Day0


title: WholeBloodRNA_JR1939_Day6


title: WholeBloodRNA_JR1939_Spring


title: WholeBloodRNA_JR1491_Baseline


title: WholeBloodRNA_JR1412_Day21


title: WholeBloodRNA_JR1939_Baseline


title: WholeBloodRNA_JR1337_Day21

value: influenza A virus and respiratory syncytial virus B


title: WholeBloodRNA_JR1491_Day0


title: WholeBloodRNA_JR1491_Day4


title: WholeBloodRNA_JR1491_Day2


title: WholeBloodRNA_JR1939_Day2


title: WholeBloodRNA_JR1491_Spring


title: WholeBloodRNA_JR1939_Day21


title: WholeBloodRNA_JR1412_Spring


title: WholeBloodRNA_JR1978_Baseline


title: WholeBloodRNA_JR1939_Day0


title: WholeBloodRNA_JR1412_Baseline


title: WholeBloodRNA_JR1412_Day2


title: WholeBloodRNA_JR1412_Day4


title: WholeBloodRNA_JR1491_Day21


title: WholeBloodRNA_JR1939_Day4


title: WholeBloodRNA_JR1337_Spring


title: WholeBloodRNA_JR1412_Day0


title: WholeBloodRNA_JR1412_Day6


title: WholeBloodRNA_JR1337_Day6


title: WholeBloodRNA_JR1337_Day2


title: WholeBloodRNA_JR1337_Day4


title: WholeBloodRNA_JR1949_Baseline

value: influenza A virus and human rhinovirus


title: WholeBloodRNA_JR1829_Day21

value: influenza A virus and human coronavirus OC43


title: WholeBloodRNA_JR1949_Day21


title: WholeBloodRNA_JR1337_Baseline


title: WholeBloodRNA_JR1829_Baseline


title: WholeBloodRNA_JR1949_Day0


title: WholeBloodRNA_JR1949_Day6


title: WholeBloodRNA_JR1829_Day0


title: WholeBloodRNA_JR1829_Day4


title: WholeBloodRNA_JR1893_Day21


title: WholeBloodRNA_JR1337_Day0


title: WholeBloodRNA_JR1829_Day6


title: WholeBloodRNA_JR1893_Day4


title: WholeBloodRNA_JR1893_Day6


title: WholeBloodRNA_JR1829_Day2


title: WholeBloodRNA_JR1275_Baseline


title: WholeBloodRNA_JR1949_Day2


title: WholeBloodRNA_JR1949_Spring


title: WholeBloodRNA_JR1829_Spring


title: WholeBloodRNA_JR1893_Day2


title: WholeBloodRNA_JR1820_Day6


title: WholeBloodRNA_JR1893_Baseline


title: WholeBloodRNA_JR1820_Spring


title: WholeBloodRNA_JR1893_Day0


title: WholeBloodRNA_JR1893_Spring


title: WholeBloodRNA_JR1820_Day4


title: WholeBloodRNA_JR1820_Day2


title: WholeBloodRNA_JR1820_Day21


title: WholeBloodRNA_JR1820_Baseline


title: WholeBloodRNA_JR1820_Day0


title: WholeBloodRNA_JR1774_Day21


title: WholeBloodRNA_JR1730_Day0


title: WholeBloodRNA_JR1724_Spring


title: WholeBloodRNA_JR1730_Day4


title: WholeBloodRNA_JR1730_Day6


title: WholeBloodRNA_JR1724_Day21


title: WholeBloodRNA_JR1730_Spring


title: WholeBloodRNA_JR1053_Spring


title: WholeBloodRNA_JR1724_Day6


title: WholeBloodRNA_JR1774_Day2


title: WholeBloodRNA_JR1724_Day4


title: WholeBloodRNA_JR1774_Day6


title: WholeBloodRNA_JR1774_Baseline


title: WholeBloodRNA_JR1774_Spring


title: WholeBloodRNA_JR1724_Day0


title: WholeBloodRNA_JR1730_Baseline


title: WholeBloodRNA_JR1724_Day2


title: WholeBloodRNA_JR1558_Day6


title: WholeBloodRNA_JR1730_Day21


title: WholeBloodRNA_JR1724_Baseline


title: WholeBloodRNA_JR1558_Day0


title: WholeBloodRNA_JR1364_Spring


title: WholeBloodRNA_JR1558_Day21


title: WholeBloodRNA_JR1558_Day4


title: WholeBloodRNA_JR1558_Day2


title: WholeBloodRNA_JR1730_Day2


title: WholeBloodRNA_JR1774_Day4


title: WholeBloodRNA_JR1558_Spring


title: WholeBloodRNA_JR1364_Day21


title: WholeBloodRNA_JR1178_Day21


title: WholeBloodRNA_JR1364_Baseline


title: WholeBloodRNA_JR1152_Day21


title: WholeBloodRNA_JR1152_Day6


title: WholeBloodRNA_JR1152_Day4


title: WholeBloodRNA_JR1178_Day2


title: WholeBloodRNA_JR1178_Day0


title: WholeBloodRNA_JR1178_Day4


title: WholeBloodRNA_JR1178_Spring


title: WholeBloodRNA_JR1152_Baseline


title: WholeBloodRNA_JR1152_Day2


title: WholeBloodRNA_JR1152_Spring


title: WholeBloodRNA_JR1364_Day4


title: WholeBloodRNA_JR1152_Day0


title: WholeBloodRNA_JR0354_Day2


title: WholeBloodRNA_JR1178_Day6


title: WholeBloodRNA_JR0354_Day0


title: WholeBloodRNA_JR0311_Spring


title: WholeBloodRNA_JR0354_Day4


title: WholeBloodRNA_JR1364_Day2


title: WholeBloodRNA_JR0311_Day6


title: WholeBloodRNA_JR0354_Day21


title: WholeBloodRNA_JR0354_Day6


title: WholeBloodRNA_JR1364_Day0


title: WholeBloodRNA_JR1364_Day6


title: WholeBloodRNA_JR1178_Baseline


title: WholeBloodRNA_JR0311_Day21


title: WholeBloodRNA_JR0354_Baseline


title: WholeBloodRNA_JR0354_Spring


title: WholeBloodRNA_JR0311_Day2


title: WholeBloodRNA_JR0311_Day4


title: WholeBloodRNA_JR0311_Day0


title: WholeBloodRNA_JR0199_Day6


title: WholeBloodRNA_JR0199_Spring


title: WholeBloodRNA_JR0311_Baseline


title: WholeBloodRNA_JR0199_Day21


title: WholeBloodRNA_JR0199_Day4


title: WholeBloodRNA_JR0174_Day4


title: WholeBloodRNA_JR0199_Baseline


title: WholeBloodRNA_JR0147_Spring


title: WholeBloodRNA_JR0174_Day2


title: WholeBloodRNA_JR0033_Day6


title: WholeBloodRNA_JR0033_Spring


title: WholeBloodRNA_JR0147_Day4


title: WholeBloodRNA_JR0174_Day6


title: WholeBloodRNA_JR0174_Baseline


title: WholeBloodRNA_JR0033_Day21


title: WholeBloodRNA_JR0199_Day0


title: WholeBloodRNA_JR0147_Day21


title: WholeBloodRNA_JR0033_Day0


title: WholeBloodRNA_JR0147_Baseline


title: WholeBloodRNA_JR0199_Day2


title: WholeBloodRNA_JR0147_Day6


title: WholeBloodRNA_JR0033_Day2


title: WholeBloodRNA_JR0033_Day4


title: WholeBloodRNA_JR0173_Spring

value: influenza A virus and human coronavirus 229E


title: WholeBloodRNA_JR0174_Spring


title: WholeBloodRNA_JR0173_Day6


title: WholeBloodRNA_JR0173_Day2


title: WholeBloodRNA_JR1995_Day21

value: influenza A virus


title: WholeBloodRNA_JR0173_Baseline


title: WholeBloodRNA_JR1995_Spring


title: WholeBloodRNA_JR1995_Day4


title: WholeBloodRNA_JR0173_Day21


title: WholeBloodRNA_JR0033_Baseline


title: WholeBloodRNA_JR1995_Day6


title: WholeBloodRNA_JR0173_Day4


title: WholeBloodRNA_JR1995_Day0


title: WholeBloodRNA_JR1995_Day2


title: WholeBloodRNA_JR0173_Day0


title: WholeBloodRNA_JR1981_Spring


title: WholeBloodRNA_JR1995_Baseline


title: WholeBloodRNA_JR1981_Day6


title: WholeBloodRNA_JR1981_Day4


title: WholeBloodRNA_JR1905_Day21


title: WholeBloodRNA_JR1981_Day0


title: WholeBloodRNA_JR1905_Day0


title: WholeBloodRNA_JR1905_Day2


title: WholeBloodRNA_JR1905_Baseline


title: WholeBloodRNA_JR1866_Baseline


title: WholeBloodRNA_JR1866_Day0


title: WholeBloodRNA_JR1866_Day2


title: WholeBloodRNA_JR1981_Baseline


title: WholeBloodRNA_JR1866_Day21


title: WholeBloodRNA_JR1866_Day6


title: WholeBloodRNA_JR1905_Spring


title: WholeBloodRNA_JR1905_Day6


title: WholeBloodRNA_JR1825_Day21


title: WholeBloodRNA_JR1866_Day4


title: WholeBloodRNA_JR1905_Day4


title: WholeBloodRNA_JR1825_Spring


title: WholeBloodRNA_JR1981_Day2


title: WholeBloodRNA_JR1825_Day2


title: WholeBloodRNA_JR1981_Day21


title: WholeBloodRNA_JR1825_Baseline


title: WholeBloodRNA_JR1825_Day6


title: WholeBloodRNA_JR1818_Spring


title: WholeBloodRNA_JR1866_Spring


title: WholeBloodRNA_JR1825_Day4


title: WholeBloodRNA_JR1825_Day0


title: WholeBloodRNA_JR1818_Day21


title: WholeBloodRNA_JR1818_Day0


title: WholeBloodRNA_JR1784_Day2


title: WholeBloodRNA_JR1818_Day2


title: WholeBloodRNA_JR1818_Baseline


title: WholeBloodRNA_JR1759_Day0


title: WholeBloodRNA_JR1784_Day4


title: WholeBloodRNA_JR1760_Day6


title: WholeBloodRNA_JR1759_Day6


title: WholeBloodRNA_JR1760_Day21


title: WholeBloodRNA_JR1759_Spring


title: WholeBloodRNA_JR1784_Day21


title: WholeBloodRNA_JR1784_Day0


title: WholeBloodRNA_JR1727_Spring


title: WholeBloodRNA_JR1784_Baseline


title: WholeBloodRNA_JR1727_Day6


title: WholeBloodRNA_JR1760_Day0


title: WholeBloodRNA_JR1759_Day21


title: WholeBloodRNA_JR1760_Day2


title: WholeBloodRNA_JR1727_Day2


title: WholeBloodRNA_JR1727_Day4


title: WholeBloodRNA_JR1760_Day4


title: WholeBloodRNA_JR1727_Day21


title: WholeBloodRNA_JR1759_Day2


title: WholeBloodRNA_JR0147_Day0


title: WholeBloodRNA_JR1759_Baseline


title: WholeBloodRNA_JR1784_Spring


title: WholeBloodRNA_JR1784_Day6


title: WholeBloodRNA_JR1727_Baseline


title: WholeBloodRNA_JR1527_Day4


title: WholeBloodRNA_JR1539_Day21


title: WholeBloodRNA_JR1484_Day6


title: WholeBloodRNA_JR1527_Baseline


title: WholeBloodRNA_JR1484_Spring


title: WholeBloodRNA_JR1760_Baseline


title: WholeBloodRNA_JR1760_Spring


title: WholeBloodRNA_JR1539_Day2


title: WholeBloodRNA_JR1539_Baseline


title: WholeBloodRNA_JR1527_Day6


title: WholeBloodRNA_JR1484_Day21


title: WholeBloodRNA_JR1527_Spring


title: WholeBloodRNA_JR1527_Day2


title: WholeBloodRNA_JR1484_Day2


title: WholeBloodRNA_JR1539_Spring


title: WholeBloodRNA_JR1527_Day21


title: WholeBloodRNA_JR1407_Spring


title: WholeBloodRNA_JR1463_Day6


title: WholeBloodRNA_JR1463_Day0


title: WholeBloodRNA_JR1407_Day21


title: WholeBloodRNA_JR1463_Day2


title: WholeBloodRNA_JR1727_Day0


title: WholeBloodRNA_JR1463_Baseline


title: WholeBloodRNA_JR1463_Day21


title: WholeBloodRNA_JR1484_Day0


title: WholeBloodRNA_JR1463_Day4


title: WholeBloodRNA_JR1484_Day4


title: WholeBloodRNA_JR1463_Spring


title: WholeBloodRNA_JR1407_Day6


title: WholeBloodRNA_JR1407_Day2


title: WholeBloodRNA_JR1407_Day0


title: WholeBloodRNA_JR1407_Baseline


title: WholeBloodRNA_JR1273_Day6


title: WholeBloodRNA_JR1200_Day2


title: WholeBloodRNA_JR1200_Baseline


title: WholeBloodRNA_JR1273_Day2


title: WholeBloodRNA_JR1273_Day21


title: WholeBloodRNA_JR1484_Baseline


title: WholeBloodRNA_JR1407_Day4


title: WholeBloodRNA_JR1200_Day6


title: WholeBloodRNA_JR1273_Baseline


title: WholeBloodRNA_JR1182_Spring


title: WholeBloodRNA_JR1189_Day21


title: WholeBloodRNA_JR1189_Spring


title: WholeBloodRNA_JR1200_Day0


title: WholeBloodRNA_JR1200_Day21


title: WholeBloodRNA_JR1273_Day4


title: WholeBloodRNA_JR1189_Day6


title: WholeBloodRNA_JR1189_Day2


title: WholeBloodRNA_JR1189_Baseline


title: WholeBloodRNA_JR1200_Day4


title: WholeBloodRNA_JR1182_Day2


title: WholeBloodRNA_JR1182_Day21


title: WholeBloodRNA_JR1182_Day4


title: WholeBloodRNA_JR1182_Day0


title: WholeBloodRNA_JR1189_Day0


title: WholeBloodRNA_JR1182_Baseline


title: WholeBloodRNA_JR1182_Day6


title: WholeBloodRNA_JR1189_Day4


title: WholeBloodRNA_JR1132_Day21


title: WholeBloodRNA_JR1089_Day0


title: WholeBloodRNA_JR1089_Day6


title: WholeBloodRNA_JR1089_Day4


title: WholeBloodRNA_JR1089_Day21


title: WholeBloodRNA_JR1132_Day0


title: WholeBloodRNA_JR1089_Day2


title: WholeBloodRNA_JR1132_Day4


title: WholeBloodRNA_JR1089_Baseline


title: WholeBloodRNA_JR1089_Spring


title: WholeBloodRNA_JR0608_Day2


title: WholeBloodRNA_JR0608_Spring


title: WholeBloodRNA_JR1132_Day2


title: WholeBloodRNA_JR1132_Day6


title: WholeBloodRNA_JR0538_Day21


title: WholeBloodRNA_JR1132_Spring


title: WholeBloodRNA_JR0538_Day6


title: WholeBloodRNA_JR0538_Baseline


title: WholeBloodRNA_JR0608_Day6


title: WholeBloodRNA_JR0516_Spring


title: WholeBloodRNA_JR0538_Day0


title: WholeBloodRNA_JR0538_Day4


title: WholeBloodRNA_JR0538_Day2


title: WholeBloodRNA_JR0608_Day4


title: WholeBloodRNA_JR0608_Day21


title: WholeBloodRNA_JR0608_Day0


title: WholeBloodRNA_JR0516_Day21


title: WholeBloodRNA_JR0538_Spring


title: WholeBloodRNA_JR0488_Spring


title: WholeBloodRNA_JR0516_Day4


title: WholeBloodRNA_JR0516_Day6


title: WholeBloodRNA_JR0488_Day2


title: WholeBloodRNA_JR0488_Day4


title: WholeBloodRNA_JR0516_Day2


title: WholeBloodRNA_JR0516_Day0


title: WholeBloodRNA_JR0488_Day0


title: WholeBloodRNA_JR0487_Day21


title: WholeBloodRNA_JR0516_Baseline


title: WholeBloodRNA_JR0488_Baseline


title: WholeBloodRNA_JR0487_Day6


title: WholeBloodRNA_JR0488_Day6


title: WholeBloodRNA_JR0487_Day2


title: WholeBloodRNA_JR0393_Day6


title: WholeBloodRNA_JR0393_Baseline


title: WholeBloodRNA_JR0487_Day0


title: WholeBloodRNA_JR0487_Spring


title: WholeBloodRNA_JR0393_Spring


title: WholeBloodRNA_JR0393_Day21


title: WholeBloodRNA_JR0487_Day4


title: WholeBloodRNA_JR0487_Baseline


title: WholeBloodRNA_JR0393_Day4


title: WholeBloodRNA_JR0373_Day21


title: WholeBloodRNA_JR0393_Day0


title: WholeBloodRNA_JR0393_Day2


title: WholeBloodRNA_JR0373_Day2


title: WholeBloodRNA_JR0357_Day21


title: WholeBloodRNA_JR0373_Day0


title: WholeBloodRNA_JR0315_Spring


title: WholeBloodRNA_JR0357_Baseline


title: WholeBloodRNA_JR0315_Day4


title: WholeBloodRNA_JR0373_Spring


title: WholeBloodRNA_JR0357_Day6


title: WholeBloodRNA_JR0373_Day4


title: WholeBloodRNA_JR0357_Day0


title: WholeBloodRNA_JR0315_Day0


title: WholeBloodRNA_JR0315_Baseline


title: WholeBloodRNA_JR0308_Day21


title: WholeBloodRNA_JR0357_Day2


title: WholeBloodRNA_JR0357_Spring


title: WholeBloodRNA_JR0315_Day2


title: WholeBloodRNA_JR0308_Spring


title: WholeBloodRNA_JR0315_Day6


title: WholeBloodRNA_JR0357_Day4


title: WholeBloodRNA_JR0373_Baseline


title: WholeBloodRNA_JR1132_Baseline


title: WholeBloodRNA_JR0302_Spring


title: WholeBloodRNA_JR0302_Day2


title: WholeBloodRNA_JR0308_Day6


title: WholeBloodRNA_JR0308_Day4


title: WholeBloodRNA_JR0308_Baseline


title: WholeBloodRNA_JR0302_Day21


title: WholeBloodRNA_JR0308_Day2


title: WholeBloodRNA_JR0302_Day4


title: WholeBloodRNA_JR0315_Day21


title: WholeBloodRNA_JR0271_Day21


title: WholeBloodRNA_JR0302_Day0


title: WholeBloodRNA_JR0308_Day0


title: WholeBloodRNA_JR0302_Baseline


title: WholeBloodRNA_JR0271_Day0


title: WholeBloodRNA_JR0302_Day6


title: WholeBloodRNA_JR0271_Day6


title: WholeBloodRNA_JR0251_Day2


title: WholeBloodRNA_JR0251_Day6


title: WholeBloodRNA_JR0251_Spring


title: WholeBloodRNA_JR0251_Baseline


title: WholeBloodRNA_JR0271_Day2


title: WholeBloodRNA_JR0271_Baseline


title: WholeBloodRNA_JR0225_Day21


title: WholeBloodRNA_JR0271_Day4


title: WholeBloodRNA_JR0251_Day4


title: WholeBloodRNA_JR0251_Day21


title: WholeBloodRNA_JR0225_Day6


title: WholeBloodRNA_JR0251_Day0


title: WholeBloodRNA_JR0225_Spring


title: WholeBloodRNA_JR0225_Day4


title: WholeBloodRNA_JR0215_Day0


title: WholeBloodRNA_JR0198_Day0


title: WholeBloodRNA_JR0215_Spring


title: WholeBloodRNA_JR0215_Day21


title: WholeBloodRNA_JR0215_Baseline


title: WholeBloodRNA_JR0215_Day2


title: WholeBloodRNA_JR0225_Baseline


title: WholeBloodRNA_JR0225_Day0


title: WholeBloodRNA_JR0198_Baseline


title: WholeBloodRNA_JR0167_Day6


title: WholeBloodRNA_JR0167_Day4


title: WholeBloodRNA_JR0198_Day21


title: WholeBloodRNA_JR0225_Day2


title: WholeBloodRNA_JR0215_Day6


title: WholeBloodRNA_JR0488_Day21


title: WholeBloodRNA_JR0167_Day2


title: WholeBloodRNA_JR0198_Spring


title: WholeBloodRNA_JR0167_Baseline


title: WholeBloodRNA_JR0158_Spring


title: WholeBloodRNA_JR0158_Day0


title: WholeBloodRNA_JR0167_Day0


title: WholeBloodRNA_JR0198_Day2


title: WholeBloodRNA_JR0158_Day2


title: WholeBloodRNA_JR0167_Spring


title: WholeBloodRNA_JR0158_Day6


title: WholeBloodRNA_JR0158_Day4


title: WholeBloodRNA_JR0198_Day4


title: WholeBloodRNA_JR0167_Day21


title: WholeBloodRNA_JR0158_Day21


title: WholeBloodRNA_JR0198_Day6


title: WholeBloodRNA_JR0082_Spring


title: WholeBloodRNA_JR0082_Day4


title: WholeBloodRNA_JR0082_Day2


title: WholeBloodRNA_JR0158_Baseline


title: WholeBloodRNA_JR0082_Day6


title: WholeBloodRNA_JR0082_Day21


title: WholeBloodRNA_JR0080_Day6


title: WholeBloodRNA_JR0082_Baseline


title: WholeBloodRNA_JR0080_Day4


title: WholeBloodRNA_JR0080_Day21


title: WholeBloodRNA_JR0080_Spring


title: WholeBloodRNA_JR0082_Day0


title: WholeBloodRNA_JR0080_Day2


title: WholeBloodRNA_JR0080_Day0


title: WholeBloodRNA_JR0080_Baseline


title: WholeBloodRNA_JR0035_Spring


title: WholeBloodRNA_JR0053_Day0


title: WholeBloodRNA_JR0053_Day21


title: WholeBloodRNA_JR0035_Day4


title: WholeBloodRNA_JR0053_Day4


title: WholeBloodRNA_JR0053_Spring


title: WholeBloodRNA_JR0053_Baseline


title: WholeBloodRNA_JR0035_Day2


title: WholeBloodRNA_JR0023_Spring


title: WholeBloodRNA_JR0053_Day2


title: WholeBloodRNA_JR0035_Baseline


title: WholeBloodRNA_JR0035_Day6


title: WholeBloodRNA_JR0035_Day0


title: WholeBloodRNA_JR0021_Day4


title: WholeBloodRNA_JR0023_Day2


title: WholeBloodRNA_JR0021_Day6


title: WholeBloodRNA_JR0021_Day21


title: WholeBloodRNA_JR0023_Day4


title: WholeBloodRNA_JR0023_Baseline


title: WholeBloodRNA_JR0023_Day21


title: WholeBloodRNA_JR0053_Day6


title: WholeBloodRNA_JR0023_Day0


title: WholeBloodRNA_JR0035_Day21


title: WholeBloodRNA_JR0021_Day0


title: WholeBloodRNA_JR0021_Spring


title: WholeBloodRNA_JR0021_Baseline


title: sample 133_untreated_11

status: Public on Jul 11 2012

city: Boston

first: Judie

middle: Ann

last: Howrylak

state: MA

address: 75 Francis Street

department: Pulmonary and Critical Care Medicine

institute: Brigham and Women's Hospital

description:
sample 133
128115_GC008233485DR_5388500012_L

scan_protocol: Standard Illumina scanning protocol

data_processing: The data were normalised using quantile normalisation with GenomeStudio

source_name: untreated

label_protocol: Biotinylated cRNA were prepared with the Ambion Total RNA Amplification  kit for Illumina arrays

extract_protocol: Total RNA was extracted using Qiagen's PAXgene Blood RNA Kit

tag: tissue

value: whole blood


title: sample 133_untreated_12

description:
sample 133
128115_GC008233485DR_5388500017_L


title: WholeBloodRNA_JR0023_Day6


title: Pt#5B-Tact

status: Public on Oct 07 2013

city: Amsterdam

first: Richard

last: Volckmann

state: Noord-Holland

address: van der Boechorststraat 6a

department: Laboratory of Experimental Oncology and Radiobiology

country: Netherlands

institute: msterdam UMC and University of Amsterdam

hyb_protocol: 10 µg of labeled cRNA was hybridized to Affymetrix Human genome U133 Plus 2.0 arrays according to manufacturer’s protocol (Affymetrix).

scan_protocol: Arrays were scanned with a GeneChip Scanner 3000 (Affymetrix) according to manufacturer’s protoco

data_processing: Expression data (cel files) were normalized with the MAS5.0 algorithm (target signal = 100) using GCOS software (Affymetrix)

source_name: Tumor

label_protocol: RNA sample integrity was checked on an Agilent 2100 Bioanalyzer (Agilent Technologies). 4 µg of total RNA was used for cRNA synthesis and fragmented. Labeling was performed with One-Cycle cDNA synthesis Kit (Affymetrix) according to manufacturer’s protocol. Sample quality was checked on a Bioanalyzer prior and after fragmentation.

growth_protocol: primary material

extract_protocol: Total RNA was isolated using Trizol (Invitrogen) and purified with RNeasy (Qiagen) according to manufacturer’s protocol,

treatment_protocol: CLL cells were cultured with CD40L-expressing fibroblasts, autologous activated T cells (anti-CD3/anti-CD28), or CD40L-expressing fibroblasts + IL-21 (25 ng/ml) for 16 hours. CLL cells were then sorted to purity as CD20+ CD5+ cells.

value: tumor

value: CD20+ CD5+ cells from CLL cell culture

tag: treatment

value: IL-21 + cocultured with CD40L- cells


title: sample 133_untreated_10

description:
sample 133
128115_GC008233485DR_5388500011_L


title: Pt#5B-PB


title: sample 133_untreated_9

description:
sample 133
128115_GC008233485DR_5388500010_L


title: WholeBloodRNA_JR0021_Day2


title: sample 133_untreated_8

description:
sample 133
128115_GC008233485DR_5388500009_L


title: sample 133_untreated_7

description:
sample 133
128115_GC008233485DR_5388500008_L


title: sample 133_untreated_5

description:
sample 133
128115_GC008233485DR_5388500006_L


title: sample 133_untreated_1

description:
sample 133
128115_GC008233485DR_5388500001_L


title: sample 133_untreated_3

description:
sample 133
128115_GC008233485DR_5388500003_L


title: sample 133_untreated_4

description:
sample 133
128115_GC008233485DR_5388500004_L


title: sample 127_untreated

description:
sample 127
169691_DO011133148DR_5388500003_I


title: sample 133_untreated_6

description:
sample 133
128115_GC008233485DR_5388500007_L


title: sample 120_untreated

description:
sample 120
169692_DO011133166DR_5388500002_I


title: sample 81_untreated

description:
sample 81
169724_DO011139099DR_5388500011_I


title: sample 82_untreated

description:
sample 82
169725_DO011139115DR_5388500012_I


title: sample 133_untreated_2

description:
sample 133
128115_GC008233485DR_5388500002_L


title: sample 62_untreated

description:
sample 62
169718_DO011138973DR_5388500006_K


title: sample 128_untreated

description:
sample 128
169719_DO011138991DR_5388500004_I


title: sample 51_untreated

description:
sample 51
169720_DO011139016DR_5388500003_G


title: sample 91_untreated

description:
sample 91
169727_DO011139151DR_5388500017_I


title: sample 80_untreated

description:
sample 80
169723_DO011139070DR_5388500008_K


title: sample 94_untreated

description:
sample 94
169726_DO011139133DR_5388500001_I


title: sample 47_untreated

description:
sample 47
169722_DO011139052DR_5388500002_G


title: sample 13_untreated

description:
sample 13
169699_DO01113330XDR_5388500011_G


title: sample 19_untreated

description:
sample 19
169700_DO011133328DR_5388500017_G


title: sample 17_untreated

description:
sample 17
169701_DO011133346DR_5388500012_G


title: sample 59_untreated

description:
sample 59
169717_DO011138955DR_5388500004_G


title: sample 12_untreated

description:
sample 12
169698_DO011133283DR_5388500010_I


title: sample 68_untreated

description:
sample 68
169721_DO011139034DR_5388500007_K


title: sample 4_untreated

description:
sample 4
169695_DO011133229DR_5388500007_I


title: sample 5_untreated

description:
sample 5
169696_DO011133247DR_5388500008_I


title: sample 3_untreated

description:
sample 3
169694_DO011133200DR_5388500006_C


title: sample 16_untreated

description:
sample 16
169701_DO011133346DR_5388500001_G


title: sample 11_untreated

description:
sample 11
169697_DO011133265DR_5388500009_I