title: DS-01-whole blood-chronic graft-vs-host disease-cycle 3; day 1

value: cycle 3; day 1

value: aplastic anemia

value: skin, eyes,gut


title: BB-04-whole blood-chronic graft-vs-host disease-cycle 3; day 1

status: Public on Jan 18 2017

type: RNA

city: Dallas

first: Nicole

last: Baldwin

address: 3434 Live Oak St

country: USA

institute: Baylor Research Institute

hyb_protocol: Labeled cRNA was hybridized overnight to HumanHT-12 V4 BeadChip arrays (Illumina).

scan_protocol: Following hybridization, each chip was washed, blocked, stained, and scanned on an Illumina BeadStation 500 following the manufacturer's protocols and iScan Control Software v3.3.28 (library v3.8.117).

data_processing:
Data was Global Average Normalized per Illumina GenomeStudio, all signal <10 has been set to 10.
The data in the non-normalized data matrix is the raw data computed from the chip by GenomeStudio.

label: biotin

molecule: total RNA

organism: Homo sapiens

source_name: whole blood, chronic graft-vs-host disease, bortezomib, cycle 3, day 1

label_protocol: Amplification and labeling used the Illumina TotalPrep RNA Amplification Kit (Ambion).

growth_protocol: Blood samples were collected in Tempus tubes (Applied Biosystems), vigorously mixed and stored at -80oC.

extract_protocol: Total RNA was isolated using the MagMAX RNA Isolation Kit for Blood RNA Tubes (Ambion/ Life Technologies). RNA integrity was assessed using Caliper (Perkin Elmer). Isolated total RNA was globin-reduced (GLOBINclear, Ambion/Life Technologies).

treatment_protocol: None.

tag: tissue

value: whole blood

tag: condition

value: steroid-refractory chronic graft-vs-host disease

tag: treatment group

value: bortezomib

tag: time point

tag: disease

value: acute myelogenous leukemia

tag: organ system

value: skin,eyes

tag: match degree

value: 8 out of 9

tag: response

value: near complete response

tag: age (yr)

tag: gender

value: M

tag: race

value: Caucasian

tag: ethnicity

value: non-Hispanic (NH)

tag: donor


title: ADE-06-whole blood-control group-disease control

source_name: whole blood, disease control

value: disease control

value: chronic myelogenous leukemia

value: 6 out of 6

value: disease control (DC)


title: JC-03-whole blood-chronic graft-vs-host disease-30 day post dose

source_name: whole blood, chronic graft-vs-host disease, bortezomib, 30 day post dose

value: 30 day post dose

value: skin

value: 8 out of 8

value: complete response


title: JC-03-whole blood-chronic graft-vs-host disease-baseline

source_name: whole blood, chronic graft-vs-host disease, bortezomib, baseline

value: whole blood

value: steroid-refractory chronic graft-vs-host disease

value: baseline


title: JM-05-whole blood-chronic graft-vs-host disease-baseline

value: bortezomib

value: chronic lymphocytic leukemia

value: identical match

value: stable disease


title: PJ-09-whole blood-chronic graft-vs-host disease-baseline

value: mantle cell lymphoma

value: eyes, skin

value: not evaluable

value: F

value: Caucasian


title: NW-05-whole blood-control group-disease control

value: disease control

value: acute myelogenous leukemia

value: 6 out of 6

value: disease control (DC)

value: M

value: non-Hispanic (NH)


title: whole blood-2-MIV-09-Day0-24hr-ex vivo

status: Public on Dec 25 2016

hyb_protocol: Biotinylated complementary RNA (cRNA) was hybridized to Illumina Human-6 Beadchip Array version 2 using Illumina standard protocol

scan_protocol: Hybridized chips were scanned in Illumina Beadstation 500.

data_processing: Fluorescent hybridization signals were assessed with Beadstudio software (Illumina). Statistical analysis and hierarchical clustering were performed using GeneSpring 7.3.1 software (Agilent Technologies)

source_name: whole blood-MIV-09-Day0-24hr-ex vivo

label_protocol: RNA from samples passing quality control was amplified and labeled with Illumina TotalPrep RNA amplification kit (Illumina, San Diego, CA). RNA integrity was assessed using an Agilent 2100 Analyzer (Agilent Technologies, Palo Alto, CA).

extract_protocol: After vaccine stimulation, cells were lysed in RLT buffer (RNeasy Plus Mini Kit, Qiagen, Hercules, CA), 1% β-mercaptoethanol and stored at -80oC. Total RNA was isolated from cell lysates according to manufacturer’s instructions.

treatment_protocol: Whole blood samples were drawn by finger prick. DC samples were prepared as follows: Buffy coats obtained from healthy donors (Carters Blood Care, Dallas, TX) were fractionated on a Ficoll gradient. Peripheral blood mononuclear cells (PBMCs) were further enriched for DCs through negative selection using the Pan DC kit (Stemcell Technologies). The enriched cells were sorted on a FACS Aria (BD Biosciences) for LIN-/ HLA-DR+/ CD123+ and CD11c- pDCs and LIN- / HLA DR+ / CD123- and CD11c+ mDCs. Purity was routinely >98%. DCs were stimulated at a density of 5x104 cells per well with vaccines (6 µL/mL) in 200 µL complete medium in 96-well plates for 0, 6, 16, 24 and 48h. For microarray analysis, 0.5x106 cells were cultured with (6 µL/mL) vaccine in 0.5 mL complete medium for 6h

tag: ^sample

value: whole blood_2_MIV-09_Day0-24hr

tag: cell population

value: whole blood

tag: stimulus

tag: timepoint

tag: experiment

tag: sample type

value: ex vivo


title: AS-04-whole blood-control group-disease control

tag: tissue

tag: condition

value: steroid-refractory chronic graft-vs-host disease

tag: treatment group


title: CS-07-whole blood-chronic graft-vs-host disease-baseline

value: bortezomib

tag: time point

value: baseline

tag: disease

value: acute lymphocytic leukemia

tag: organ system

value: gut,skin

value: complete response


title: DS-01-whole blood-chronic graft-vs-host disease-baseline

value: aplastic anemia

value: skin, eyes,gut

tag: match degree

tag: response

tag: age (yr)

value: F


title: CL-03-whole blood-control group-disease control

value: disease control

value: acute myelogenous leukemia

tag: gender

tag: race

value: Caucasian

tag: ethnicity


title: JM-05-whole blood-chronic graft-vs-host disease-cycle 3; day 1

value: cycle 3; day 1

value: chronic lymphocytic leukemia

value: skin

value: identical match

value: stable disease

value: M

tag: donor


title: SC-02-whole blood-chronic graft-vs-host disease-cycle 3; day 1

value: whole blood

value: steroid-refractory chronic graft-vs-host disease

value: bortezomib

value: non-Hodgkins lymphoma

value: skin, eyes, pulmonary

value: 6 out of 6

value: progression

value: non-Hispanic (NH)


title: TBM-IRIS_28I_IRIS Diagnosis

status: Public on Jun 10 2017

city: London

first: Rachel

last: Lai

address: Du Cane Road

department: Infectious Disease

country: United Kingdom

institute: Imperial College London

hyb_protocol: Standard Illumina hybridization protocol

scan_protocol: Standard Illumina scanning protocol

data_processing: The data were normalised using 75 Percentile Shift using GeneSpring GX 13.0 software

label: Biotin

label_protocol: Biotinylated cRNA were prepared with Life Technologies' Illumina TotalPrep-96 RNA Amplification kit

growth_protocol: Whole blood from patients were drawn into Paxgene Blood Tubes directly and stored at -20C until RNA extraction

extract_protocol: RNA from whole blood was extracted using Paxgene Blood RNA kit according the manufacturer's protocol. Quality control was performed with Agilent Bioanalyser.

tag: group

value: TBM-IRIS


title: CS-07-whole blood-chronic graft-vs-host disease-30 day post dose

value: 30 day post dose

value: acute lymphocytic leukemia

value: gut,skin

value: complete response


title: BB-04-whole blood-chronic graft-vs-host disease-baseline

value: baseline

value: acute myelogenous leukemia

value: skin,eyes

value: 8 out of 9

value: near complete response

value: Caucasian


title: whole blood-1-TIV-09-Day0-1.5hr-ex vivo

source_name: whole blood-TIV-09-Day0-1.5hr-ex vivo

tag: ^sample

value: whole blood_1_TIV-09_Day0-1.5hr

tag: cell population

value: whole blood

tag: stimulus

tag: timepoint

value: ex vivo


title: whole blood-8-TIV-09-Day0-36hr-ex vivo

source_name: whole blood-TIV-09-Day0-36hr-ex vivo

value: whole blood_8_TIV-09_Day0-36hr

tag: experiment

tag: sample type


title: RC-01-whole blood-control group-disease control

tag: tissue

tag: condition

value: steroid-refractory chronic graft-vs-host disease

tag: treatment group

value: disease control

tag: time point

value: 6 out of 6

value: disease control (DC)

value: F


title: whole blood-3-Saline-Day0-15hr-ex vivo

source_name: whole blood-Saline-Day0-15hr-ex vivo

value: whole blood_3_Saline_Day0-15hr

value: Saline


title: whole blood-8-TIV-09-Day3-ex vivo

source_name: whole blood-TIV-09-Day3-ex vivo

value: whole blood_8_TIV-09_Day3


title: CA-02-whole blood-control group-disease control

tag: disease

value: non-Hodgkins lymphoma

tag: organ system

tag: match degree

value: unknown

tag: response

value: not available

value: M

value: non-Hispanic (NH)


title: whole blood-3-Saline-Day0-36hr-ex vivo

source_name: whole blood-Saline-Day0-36hr-ex vivo

value: whole blood_3_Saline_Day0-36hr


title: whole blood-6-Saline-Day0-3hr-ex vivo

source_name: whole blood-Saline-Day0-3hr-ex vivo

value: whole blood_6_Saline_Day0-3hr

value: whole blood


title: whole blood-8-TIV-09-Day0-9hr-ex vivo

source_name: whole blood-TIV-09-Day0-9hr-ex vivo

value: whole blood_8_TIV-09_Day0-9hr

value: ex vivo


title: whole blood-5-MIV-09--168hr-ex vivo

source_name: whole blood-MIV-09--168hr-ex vivo

value: whole blood_5_MIV-09_-168hr


title: whole blood-6-Saline-Day0-1.5hr-ex vivo

source_name: whole blood-Saline-Day0-1.5hr-ex vivo

value: whole blood_6_Saline_Day0-1.5hr


title: whole blood-1-TIV-09-Day0-12hr-ex vivo

source_name: whole blood-TIV-09-Day0-12hr-ex vivo

value: whole blood_1_TIV-09_Day0-12hr


title: whole blood-8-TIV-09-Day0-15hr-ex vivo

source_name: whole blood-TIV-09-Day0-15hr-ex vivo

value: whole blood_8_TIV-09_Day0-15hr


title: whole blood-10-TIV-09-Day0-9hr-ex vivo

value: whole blood_10_TIV-09_Day0-9hr


title: whole blood-3-Saline-Day0-1.5hr-ex vivo

value: whole blood_3_Saline_Day0-1.5hr

value: Saline


title: whole blood-10-TIV-09-Day0-ex vivo

source_name: whole blood-TIV-09-Day0-ex vivo

value: whole blood_10_TIV-09_Day0


title: whole blood-10-TIV-09-Day3-ex vivo

value: whole blood_10_TIV-09_Day3


title: whole blood-5-MIV-09-Day0-15hr-ex vivo

source_name: whole blood-MIV-09-Day0-15hr-ex vivo

value: whole blood_5_MIV-09_Day0-15hr


title: whole blood-10-TIV-09-Day0-12hr-ex vivo

value: whole blood_10_TIV-09_Day0-12hr


title: whole blood-1-TIV-09-Day2-ex vivo

source_name: whole blood-TIV-09-Day2-ex vivo

value: whole blood_1_TIV-09_Day2


title: whole blood-6-Saline-Day0-15hr-ex vivo

value: whole blood_6_Saline_Day0-15hr


title: whole blood-3-Saline-Day0-24hr-ex vivo

source_name: whole blood-Saline-Day0-24hr-ex vivo

value: whole blood_3_Saline_Day0-24hr


title: whole blood-3-Saline-Day0-ex vivo

source_name: whole blood-Saline-Day0-ex vivo

value: whole blood_3_Saline_Day0

value: whole blood


title: whole blood-5-MIV-09-Day0-ex vivo

source_name: whole blood-MIV-09-Day0-ex vivo

value: whole blood_5_MIV-09_Day0

value: ex vivo


title: whole blood-5-MIV-09-Day0-24hr-ex vivo

source_name: whole blood-MIV-09-Day0-24hr-ex vivo

value: whole blood_5_MIV-09_Day0-24hr


title: whole blood-6-Saline-Day0-12hr-ex vivo

source_name: whole blood-Saline-Day0-12hr-ex vivo

value: whole blood_6_Saline_Day0-12hr


title: whole blood-6-Saline-Day0-6hr-ex vivo

source_name: whole blood-Saline-Day0-6hr-ex vivo

value: whole blood_6_Saline_Day0-6hr


title: whole blood-10-TIV-09-Day0-6hr-ex vivo

source_name: whole blood-TIV-09-Day0-6hr-ex vivo

value: whole blood_10_TIV-09_Day0-6hr


title: whole blood-5-MIV-09-Day0-9hr-ex vivo

source_name: whole blood-MIV-09-Day0-9hr-ex vivo

value: whole blood_5_MIV-09_Day0-9hr


title: whole blood-5-MIV-09-Day7-ex vivo

source_name: whole blood-MIV-09-Day7-ex vivo

value: whole blood_5_MIV-09_Day7


title: whole blood-2-MIV-09-Day0-1.5hr-ex vivo

source_name: whole blood-MIV-09-Day0-1.5hr-ex vivo

value: whole blood_2_MIV-09_Day0-1.5hr


title: whole blood-1-TIV-09-Day7-ex vivo

source_name: whole blood-TIV-09-Day7-ex vivo

value: whole blood_1_TIV-09_Day7


title: whole blood-2-MIV-09-Day0-15hr-ex vivo

value: whole blood_2_MIV-09_Day0-15hr


title: whole blood-8-TIV-09-Day0-1.5hr-ex vivo

source_name: whole blood-TIV-09-Day0-1.5hr-ex vivo

value: whole blood_8_TIV-09_Day0-1.5hr


title: whole blood-6-Saline-Day0-36hr-ex vivo

source_name: whole blood-Saline-Day0-36hr-ex vivo

value: whole blood_6_Saline_Day0-36hr

value: Saline


title: whole blood-1-TIV-09-Day0-24hr-ex vivo

source_name: whole blood-TIV-09-Day0-24hr-ex vivo

value: whole blood_1_TIV-09_Day0-24hr


title: whole blood-3-Saline-Day0-12hr-ex vivo

value: whole blood_3_Saline_Day0-12hr


title: whole blood-3-Saline-Day7-ex vivo

source_name: whole blood-Saline-Day7-ex vivo

value: whole blood_3_Saline_Day7

value: whole blood


title: whole blood-10-TIV-09-Day0-15hr-ex vivo

source_name: whole blood-TIV-09-Day0-15hr-ex vivo

value: whole blood_10_TIV-09_Day0-15hr

value: ex vivo


title: whole blood-3-Saline-Day2-ex vivo

source_name: whole blood-Saline-Day2-ex vivo

value: whole blood_3_Saline_Day2


title: whole blood-5-MIV-09-Day0-1.5hr-ex vivo

value: whole blood_5_MIV-09_Day0-1.5hr


title: whole blood-3-Saline-Day3-ex vivo

source_name: whole blood-Saline-Day3-ex vivo

value: whole blood_3_Saline_Day3


title: whole blood-2-MIV-09-Day0-9hr-ex vivo

value: whole blood_2_MIV-09_Day0-9hr


title: whole blood-10-TIV-09-Day0-3hr-ex vivo

source_name: whole blood-TIV-09-Day0-3hr-ex vivo

value: whole blood_10_TIV-09_Day0-3hr


title: whole blood-2-MIV-09-Day0-ex vivo

source_name: whole blood-MIV-09-Day0-ex vivo

value: whole blood_2_MIV-09_Day0


title: whole blood-10-TIV-09-Day0-24hr-ex vivo

value: whole blood_10_TIV-09_Day0-24hr


title: whole blood-5-MIV-09-Day0-3hr-ex vivo

source_name: whole blood-MIV-09-Day0-3hr-ex vivo

value: whole blood_5_MIV-09_Day0-3hr


title: whole blood-2-MIV-09-Day0-12hr-ex vivo

source_name: whole blood-MIV-09-Day0-12hr-ex vivo

value: whole blood_2_MIV-09_Day0-12hr


title: whole blood-2-MIV-09-Day7-ex vivo

value: whole blood_2_MIV-09_Day7


title: whole blood-2-MIV-09--168hr-ex vivo

source_name: whole blood-MIV-09--168hr-ex vivo

value: whole blood_2_MIV-09_-168hr


title: whole blood-1-TIV-09--168hr-ex vivo

source_name: whole blood-TIV-09--168hr-ex vivo

value: whole blood_1_TIV-09_-168hr


title: whole blood-8-TIV-09-Day0-3hr-ex vivo

value: whole blood_8_TIV-09_Day0-3hr


title: whole blood-2-MIV-09-Day0-36hr-ex vivo

source_name: whole blood-MIV-09-Day0-36hr-ex vivo

value: whole blood_2_MIV-09_Day0-36hr


title: whole blood-5-MIV-09-Day3-ex vivo

source_name: whole blood-MIV-09-Day3-ex vivo

value: whole blood_5_MIV-09_Day3

value: whole blood


title: whole blood-10-TIV-09--168hr-ex vivo

value: whole blood_10_TIV-09_-168hr

value: ex vivo


title: whole blood-2-MIV-09-Day0-6hr-ex vivo

source_name: whole blood-MIV-09-Day0-6hr-ex vivo

value: whole blood_2_MIV-09_Day0-6hr


title: whole blood-6-Saline-Day7-ex vivo

value: whole blood_6_Saline_Day7

value: Saline


title: whole blood-1-TIV-09-Day0-3hr-ex vivo

value: whole blood_1_TIV-09_Day0-3hr


title: whole blood-10-TIV-09-Day0-36hr-ex vivo

source_name: whole blood-TIV-09-Day0-36hr-ex vivo

value: whole blood_10_TIV-09_Day0-36hr


title: whole blood-8-TIV-09-Day2-ex vivo

source_name: whole blood-TIV-09-Day2-ex vivo

value: whole blood_8_TIV-09_Day2


title: whole blood-1-TIV-09-Day0-ex vivo

source_name: whole blood-TIV-09-Day0-ex vivo

value: whole blood_1_TIV-09_Day0


title: whole blood-10-TIV-09-Day2-ex vivo

value: whole blood_10_TIV-09_Day2


title: whole blood-3-Saline-Day0-3hr-ex vivo

source_name: whole blood-Saline-Day0-3hr-ex vivo

value: whole blood_3_Saline_Day0-3hr


title: whole blood-8-TIV-09-Day0-6hr-ex vivo

source_name: whole blood-TIV-09-Day0-6hr-ex vivo

value: whole blood_8_TIV-09_Day0-6hr


title: whole blood-5-MIV-09-Day2-ex vivo

source_name: whole blood-MIV-09-Day2-ex vivo

value: whole blood_5_MIV-09_Day2


title: whole blood-1-TIV-09-Day0-6hr-ex vivo

value: whole blood_1_TIV-09_Day0-6hr


title: whole blood-2-MIV-09-Day2-ex vivo

value: whole blood_2_MIV-09_Day2


title: whole blood-8-TIV-09-Day0-ex vivo

value: whole blood_8_TIV-09_Day0


title: whole blood-2-MIV-09-Day0-3hr-ex vivo

value: whole blood_2_MIV-09_Day0-3hr

value: whole blood


title: whole blood-10-TIV-09-Day7-ex vivo

source_name: whole blood-TIV-09-Day7-ex vivo

value: whole blood_10_TIV-09_Day7

value: ex vivo


title: whole blood-1-TIV-09-Day0-36hr-ex vivo

value: whole blood_1_TIV-09_Day0-36hr


title: whole blood-6-Saline-Day0-24hr-ex vivo

source_name: whole blood-Saline-Day0-24hr-ex vivo

value: whole blood_6_Saline_Day0-24hr

value: Saline


title: whole blood-6-Saline-Day0-9hr-ex vivo

source_name: whole blood-Saline-Day0-9hr-ex vivo

value: whole blood_6_Saline_Day0-9hr


title: whole blood-3-Saline-Day0-6hr-ex vivo

source_name: whole blood-Saline-Day0-6hr-ex vivo

value: whole blood_3_Saline_Day0-6hr


title: whole blood-8-TIV-09--168hr-ex vivo

value: whole blood_8_TIV-09_-168hr


title: whole blood-2-MIV-09-Day3-ex vivo

value: whole blood_2_MIV-09_Day3


title: whole blood-6-Saline-Day3-ex vivo

source_name: whole blood-Saline-Day3-ex vivo

value: whole blood_6_Saline_Day3


title: whole blood-5-MIV-09-Day0-6hr-ex vivo

value: whole blood_5_MIV-09_Day0-6hr


title: whole blood-1-TIV-09-Day3-ex vivo

source_name: whole blood-TIV-09-Day3-ex vivo

value: whole blood_1_TIV-09_Day3


title: whole blood-3-Saline--168hr-ex vivo

source_name: whole blood-Saline--168hr-ex vivo

value: whole blood_3_Saline_-168hr


title: whole blood-6-Saline-Day2-ex vivo

source_name: whole blood-Saline-Day2-ex vivo

value: whole blood_6_Saline_Day2


title: whole blood-8-TIV-09-Day7-ex vivo

value: whole blood_8_TIV-09_Day7


title: whole blood-8-TIV-09-Day0-24hr-ex vivo

source_name: whole blood-TIV-09-Day0-24hr-ex vivo

value: whole blood_8_TIV-09_Day0-24hr


title: whole blood-5-MIV-09-Day0-36hr-ex vivo

source_name: whole blood-MIV-09-Day0-36hr-ex vivo

value: whole blood_5_MIV-09_Day0-36hr

value: whole blood


title: whole blood-8-TIV-09-Day0-12hr-ex vivo

source_name: whole blood-TIV-09-Day0-12hr-ex vivo

value: whole blood_8_TIV-09_Day0-12hr

value: ex vivo


title: whole blood-10-TIV-09-Day0-1.5hr-ex vivo

source_name: whole blood-TIV-09-Day0-1.5hr-ex vivo

value: whole blood_10_TIV-09_Day0-1.5hr


title: whole blood-3-Saline-Day0-9hr-ex vivo

value: whole blood_3_Saline_Day0-9hr

value: Saline


title: whole blood-1-TIV-09-Day0-15hr-ex vivo

source_name: whole blood-TIV-09-Day0-15hr-ex vivo

value: whole blood_1_TIV-09_Day0-15hr


title: pDC-BC1-Medium-6h-in vitro

source_name: pDC-Medium-6h-in vitro

value: pDC

value: Medium

value: pDC vs TIV-09/MIV-09

value: in vitro


title: whole blood-5-MIV-09-Day0-12hr-ex vivo

source_name: whole blood-MIV-09-Day0-12hr-ex vivo

value: whole blood_5_MIV-09_Day0-12hr


title: whole blood-6-Saline-Day0-ex vivo

source_name: whole blood-Saline-Day0-ex vivo

value: whole blood_6_Saline_Day0


title: whole blood-6-Saline--168hr-ex vivo

value: whole blood_6_Saline_-168hr


title: pDC-BC2-Medium-6h-in vitro


title: pDC-BC1-TIV-09-6h-in vitro

source_name: pDC-TIV-09-6h-in vitro


title: pDC-BC1-MIV-09-6h-in vitro

source_name: pDC-MIV-09-6h-in vitro


title: pDC-BC2-MIV-09-6h-in vitro


title: mDC-BC1-Medium-6h-in vitro

source_name: mDC-Medium-6h-in vitro

value: mDC

value: mDC vs TIV-09/MIV-09


title: IL4 DC-ND313-MIV-09-6h-in vitro

source_name: IL4 DC-MIV-09-6h-in vitro

growth_protocol: Monocyte-derived DCs (moDCs) were generated from monocytes isolated from healthy donor apheresis fractionated by elutriation. Monocytes were enriched by negative selection using EasySep Human Monocyte Enrichment without CD16 Depletion Kit (Stemcell technologies, Vancouver, Canada) and cultured in CellGro DC media (CellGenix, Freiburg, Germany) with 1% penicillin/streptomycin.

treatment_protocol: Cells were cultured in sterile 50 mL tissue culture bags (AFC, Gaithersburg, MD) at a density of 1x10^6 cells/mL along with GM-CSF at 10 ng/mL and IL-4 (R&D systems, Minneapolis, MN) at 50 ng/mL for 6 days. Cells were supplemented with additional cytokine doses on days 2 and 4.  On day 6, DCs were harvested and further cultured in 200 µL of RPMI 1640 supplemented with (1% glutamine, 1% penicillin/streptomycin, 1% HEPES, 1% non-amino-acids, 1% sodium pyruvate and 0.1% β-mercaptoethanol) (Invirogen) and10% fetal bovine serum (FBS) at a density of 1x105 cells/mL in 96-well plates. TIV-09 (6 µL/mL) and/or MIV-09 (6 µL/mL) (Sanofi Pasteur, Swiftwater, PA) was added, and cells were incubated at 37°C for 0, 6, 12, 24 and 48h. Supernatants were stored at -80°C.

value: IL4 DC

value: IL4 DC vs TIV-09/MIV-09


title: pDC-BC3-MIV-09-6h-in vitro


title: IL4 DC-ND293-TIV-09-6h-in vitro

source_name: IL4 DC-TIV-09-6h-in vitro


title: GEN2.2-anti-MYC

status: Public on Nov 30 2016

type: SRA

library_source: genomic

data_processing:
ChIP-seq libraries were sequenced 1x50 on a HiSeq 2500 (Illumina).
aligned to the hg19 reference genome using Bowtie2.
Downstream analysis was performed by the HOMER next-gen sequencing analytical suite (http://homer.salk.edu/homer/index.html)]. Peak finding was performed with the “findPeaks” command line with the parameters of “-style factor” and “-i input”.
The command line, “annotatePeaks.pl”, was used for peak annotation and finding the MYC motif occurrences in peaks.
Genome_build: hg19 reference genome
Supplementary_files_format_and_content: .txt files were generated using the HOMER next-gen sequencing analytical suite (http://homer.salk.edu/homer/index.html). Peaks represent regions in the genome where we find more ChIP-Seq tags than we would expect to see by chance.

molecule: genomic DNA

source_name: GEN2.2 cells

growth_protocol: GEN2.2 cells were kindly provided by Dr. Joël Plumas (Université Joseph Fourier, Grenoble, France) and cultured in GlutaMax-RPMI (GIBCO) supplemented with 10% FBS (Atlanta), MEM-nonessential amino acid solution (GIBCO), sodium pyruvate and gentamycin.

extract_protocol:
unstimulated GEN2.2 cells were cross linked with 1% of formaldehyde for 10 min at 37°C, sonicated and subjected to immunoprecipitation with 2 μg of anti-MYC antibody (Santacruz Biotechnology, N262X), or rabbit IgG control.
After reverse cross-linking and recovering the chromatin, the isolated chromatin was subjected to library preparation using NEXTflex Rapid DNA-Seq Kit (BIOO Scientific) according to manufacturer’s instruction with the following exceptions: 1) a bead size selection was performed before the PCR amplification and 2) the libraries were size-selected between 200-300 bp by 8% PAGE before sequencing.

tag: cell line

tag: antibody

value: anti-MYC


title: pDC-BC3-Medium-6h-in vitro

tag: donor


title: IL4 DC-ND313-TIV-09-6h-in vitro

tag: ^sample


title: IL4 DC-ND313-Medium-6h-in vitro

source_name: IL4 DC-Medium-6h-in vitro

value: IL4 DC_ND313_Medium_6h

tag: cell population


title: pDC-BC2-TIV-09-6h-in vitro

tag: stimulus


title: mDC-BC1-TIV-09-6h-in vitro

source_name: mDC-TIV-09-6h-in vitro

tag: timepoint


title: IL4 DC-ND311-MIV-09-6h-in vitro

tag: experiment


title: mDC-BC1-MIV-09-6h-in vitro

source_name: mDC-MIV-09-6h-in vitro

tag: sample type


title: IL4 DC-ND311-TIV-09-6h-in vitro


title: GEN2.2-4 hrs post CpGB-MYC siRNA-rep 3

hyb_protocol: Standard Illumina hybridization protocol.

scan_protocol: Standard Illumina scanning protocol.

data_processing: Standard Average Normalization as detailed by GenomeStudio

source_name: GEN2.2-4 hrs post CpGB-MYC siRNA

label_protocol: Standard Illumina labelling protocol.

extract_protocol: RNA isolation was performed using Qiagen RNeasy mini kit according to the manufacturer’s instructions

treatment_protocol: GEN2.2 cells were myc-ablated by Nucleofection (Nucleofector kit V, www.lonza.com). GEN2.2 cells were nucleofected with nucleofector kit V (Amaxa) with 0.4 nmol of siRNA for each reaction of 3-5 × 10^6 cells. siMYC and siHDAC3 were purchased from Dharmacon. The program number for electroporation was A033. The non-targeting control (NC) is a non-targeting pool from Dharmacon. GEN2.2 cells were stimulated with 0.5 µM of CpGB

tag: hrs post cpgb stimulation

tag: sirna

value: MYC

tag: replicate


title: mDC-BC3-Medium-6h-in vitro


title: mDC-BC2-MIV-09-6h-in vitro


title: pDC-BC3-TIV-09-6h-in vitro


title: GEN2.2-IgG

value: IgG


title: IL4 DC-ND293-MIV-09-6h-in vitro


title: mDC-BC2-TIV-09-6h-in vitro


title: IL4 DC-ND311-Medium-6h-in vitro

value: IL4 DC_ND311_Medium_6h


title: mDC-BC2-Medium-6h-in vitro


title: GEN2.2-2 hrs post CpGB-MYC siRNA-rep 3

source_name: GEN2.2-2 hrs post CpGB-MYC siRNA


title: IL4 DC-ND293-Medium-6h-in vitro

value: IL4 DC_ND293_Medium_6h


title: mDC-BC3-MIV-09-6h-in vitro


title: GEN2.2-2 hrs post CpGB-CONTROL siRNA-rep 4

source_name: GEN2.2-2 hrs post CpGB-CONTROL siRNA

value: CONTROL


title: RPMI_Mf_RNA

status: Public on Nov 01 2016

city: Parkville

first: Boris

last: Novakovic

state: Victoria

address: Murdoch Children's Research Institute, Royal Children's Hospital, Flemington Road

country: Australia

institute: Murdoch Children's Research Institute

library_source: transcriptomic

data_processing:
For quality control and visualization, RNA-seq reads were aligned to the hg19 reference genome using GSNAP (Wu and Nacu, 2010) with default parameters. To infer gene expression levels, RNA-seq reads were aligned to the Ensembl v68 human transcriptome using Bowtie v1. Quantification of gene expression was performed using MMSEQ. Differential expression was determined using DEseq.
Genome_build: hg19
Supplementary_files_format_and_content: text file with expression data.

source_name: Macrophages, exposed to RPMI media for 6 days

growth_protocol: Monocytes were differentiated into resting macrophages by ex vivo culture in RPMI 1640 medium (Sigma Aldrich) with 10% Human Serum. Trained innate immunity was induced by treatment with BG for 24 hours, or fumarate for 24 hours, followed by washout and 5 days in culture. Establishment of training in the resulting macrophages at day 6 was determined by TNF and IL6 release at 24 hours following LPS stimulation using ELISA. For ChIP-seq, 10x106 monocytes were seeded in 10cm dishes, for RNAseq 1.5 x 106 monocytes were seeded in 6 well plates.

extract_protocol: RNA was processed for sequencing using the RNeasy minikit for isolation, the RiboZero Gold kit for ribosomal RNA depletion, and fragmention was performed using a fragmentation buffer (200 mM Tris-acetate, 500 mM Potassium Acetate, 150 mM Magnesium Acetate, pH 8.2). Stranded RNA-seq data was produced by performing Uracil-specific excision with the USER enzyme, following second-strand cDNA synthesis. Library preparation was performed using the Kapa Hyperprep kit and NextFlex adapters.

value: Primary Cell

value: BLUEPRINT ChIP-seq data for cells in the haematopoietic lineages, from adult and cord blood samples.

value: NCMLS

value: Monocyte

value: Adult Human Peripheral Blood

value: RNA

value: Sanquin Blood bank, Nijmegen, the Netherlands

tag: treatment


title: BG_Mf_RNA

source_name: BG trained Macrophages, exposed to Beta Glucan for 24 hours, then RPMI media for 5 days

tag: disease


title: Fumarate_Mf_RNA

source_name: Fumarate trained Macrophages, exposed to fumarate for 24 hours, then RPMI media for 5 days


title: H3K4me3_RPMI_Mf

data_processing:
Illumina Casava software 1.8.2  used for basecalling of Hiseq2000 data. ChIP-seq reads were aligned to the hg19 genome assembly using bwa. For peak calling the BAM files were first filtered to remove the reads with mapping quality less than 15, followed by fragment size modeling (http://code.google.com/p/phantompeakqual-tools/). The peak calling algorithm MACS2 http://github.com/taoliu/MACS/) was used to detect the binding sites for the three studied histone marks at p-value of 10-10. H3K27ac and H3K4me3 were called using the default (narrow) setting.
Genome_build: hg19
Supplementary_files_format_and_content: BigWig files for tracks.

extract_protocol:
Purified cells were fixed with 1% formaldehyde (Sigma) at a concentration of approximately 10 million cells/ml. Fixed cell preparations were sonicated using a Diagenode Bioruptor UCD-300 for 3x 10 minutes (30 seconds on; 30 seconds off). 67µl of chromatin (1 million cells) was incubated with 229µl dilution buffer, 3µl protease inhibitor cocktail and 0.5-1µg of H3K27ac or H3K4me3 antibodies (Diagenode) and incubated overnight at 4ºC with rotation. Protein A/G magnetic beads were washed in dilution buffer with 0.15% SDS and 0.1% BSA, added to the chromatin/antibody mix and rotated for 60 minutes at 4°C. Beads were washed with 400µl buffer for 5 minutes at 4°C with five rounds of washes. After washing chromatin was eluted using elution buffer for 20 minutes. Supernatant was collected, 8µl 5M NaCl, 3µl proteinase K were added and samples were incubated for 4 hours at 65°C.Finally samples were purified using Qiagen; Qiaquick MinElute PCR purification Kit and eluted in 20µl EB.
Illumina library preparation was done using the Kapa Hyper Prep Kit. For end repair and A-tailing double stranded DNA was incubated with end repair and A-tailing buffer and enzyme and incubated first for 30 minutes at 20°C and then for 30 minutes at 65°C.Subsequently adapters were  ligated  by adding 30µl ligation buffer, 10 Kapa l DNA  ligase, 5µl diluted adaptor  in a total volume of 110µl and incubated for 15 minutes at 15°C.Post-ligation cleanup was performed using Agencourt AMPure XP reagent and products were eluted in 20µl elution buffer. Libraries were amplified by adding 25µl 2x KAPA HiFi Hotstart ReadyMix and 5µl 10x Library Amplification Primer Mix and PCR, 10 cycles. Samples were purified using the QIAquick MinElute PCR purification kit and 300bp fragments selected using E-gel. Correct size selection was confirmed by BioAnalyzer analysis.   Sequencing was performed using Illumina HiSeq 2000 machines and generated 43bp single end reads.

value: Macrophages, exposed to RPMI media for 6 days

tag: chip antibody

value: Rabbit polyclonal anti-H3K4me3 (Diagenode, cat. # pAb-003-050)


title: H3K27ac_BG_Mf

value: BG trained Macrophages, exposed to Beta Glucan for 24 hours, then RPMI media for 5 days

value: Rabbit polyclonal anti-H3K27ac (Diagenode, cat. # pAb-196-050)


title: H3K4me3_Fumarate_Mf

value: Fumarate trained Macrophages, exposed to fumarate for 24 hours, then RPMI media for 5 days


title: H3K27ac_RPMI_Mf


title: H3K27ac_Fumarate_Mf


title: GEN2.2-2 hrs post CpGB-CONTROL siRNA-rep 2


title: GEN2.2-4 hrs post CpGB-MYC siRNA-rep 2

value: MYC


title: GEN2.2-4 hrs post CpGB-CONTROL siRNA-rep 4

source_name: GEN2.2-4 hrs post CpGB-CONTROL siRNA


title: H3K4me3_BG_Mf


title: GEN2.2-2 hrs post CpGB-CONTROL siRNA-rep 1


title: GEN2.2-0 hrs post CpGB-CONTROL siRNA-rep 2

source_name: GEN2.2-0 hrs post CpGB-CONTROL siRNA


title: GEN2.2-4 hrs post CpGB-CONTROL siRNA-rep 2


title: whole blood-1-TIV-09-Day0-9hr-ex vivo

source_name: whole blood-TIV-09-Day0-9hr-ex vivo

value: whole blood_1_TIV-09_Day0-9hr

value: whole blood

value: ex vivo


title: GEN2.2-4 hrs post CpGB-CONTROL siRNA-rep 3

value: CONTROL


title: GEN2.2-0 hrs post CpGB-MYC siRNA-rep 2

source_name: GEN2.2-0 hrs post CpGB-MYC siRNA


title: GEN2.2-4 hrs post CpGB-MYC siRNA-rep 1


title: GEN2.2-0 hrs post CpGB-MYC siRNA-rep 3


title: GEN2.2-2 hrs post CpGB-MYC siRNA-rep 2


title: GEN2.2-2 hrs post CpGB-CONTROL siRNA-rep 3


title: GEN2.2-0 hrs post CpGB-CONTROL siRNA-rep 1


title: GEN2.2-0 hrs post CpGB-MYC siRNA-rep 1


title: GEN2.2-0 hrs post CpGB-CONTROL siRNA-rep 3


title: GEN2.2-2 hrs post CpGB-MYC siRNA-rep 1


title: GEN2.2-4 hrs post CpGB-CONTROL siRNA-rep 1


title: whole blood-Healthy Control-13 (6747965060_B)

status: Public on Jul 27 2016

description:
Sample name: 6747965060_B
Illumina HT12 V4 R2

hyb_protocol: Standard Illumina hybridization protocol .

scan_protocol: Standard Illumina scanning protocol .

data_processing: The data were normalized using average normalization in GenomeStudio’s gene expression module.

source_name: whole blood,Healthy Control

label_protocol: Biotinylated cRNA were prepared with the Illumina TotalPrep kit for Illumina arrays.

extract_protocol: Blood samples for microarray analyses were placed in baby tempus tubes (Applied Biosystems, CA, USA), frozen and batch shipped to a central laboratory for hybridization

tag: age (days)

tag: gender

value: M

tag: race

value: White

tag: ethnicity

tag: condition

value: Healthy Control

tag: supplemental condition information

value: CTRL

tag: tissue


title: whole blood-Healthy Control-14 (6303248051_L)

description:
Sample name: 6303248051_L
Illumina HT12 V4 R2


title: whole blood-Healthy Control-2 (6747965060_F)

description:
Sample name: 6747965060_F
Illumina HT12 V4 R2

value: F


title: whole blood-Healthy Control-7 (6747965060_J)

description:
Sample name: 6747965060_J
Illumina HT12 V4 R2

value: Black or African American


title: whole blood-Healthy Control-3 (6747965057_C)

description:
Sample name: 6747965057_C
Illumina HT12 V4 R2


title: whole blood-Healthy Control-9 (6303248100_J)

description:
Sample name: 6303248100_J
Illumina HT12 V4 R2


title: whole blood-Healthy Control-6 (6747965052_A)

description:
Sample name: 6747965052_A
Illumina HT12 V4 R2


title: whole blood-Healthy Control-10 (6747965057_B)

description:
Sample name: 6747965057_B
Illumina HT12 V4 R2

value: Other


title: whole blood-nonSBI-76 (6303248089_I)

description:
Sample name: 6303248089_I
Illumina HT12 V4 R2

source_name: whole blood,nonSBI

value: Not Hispanic or Latino

value: nonSBI

value: SBI-(No viral test)


title: whole blood-Healthy Control-5 (6303248089_H)

description:
Sample name: 6303248089_H
Illumina HT12 V4 R2


title: whole blood-nonSBI-75 (6303248089_B)

description:
Sample name: 6303248089_B
Illumina HT12 V4 R2


title: whole blood-nonSBI-83 (6747965055_F)

description:
Sample name: 6747965055_F
Illumina HT12 V4 R2


title: whole blood-nonSBI-82 (6747965052_F)

description:
Sample name: 6747965052_F
Illumina HT12 V4 R2


title: whole blood-nonSBI-81 (6747965050_L)

description:
Sample name: 6747965050_L
Illumina HT12 V4 R2


title: whole blood-nonSBI-77 (6303248100_D)

description:
Sample name: 6303248100_D
Illumina HT12 V4 R2

value: Hispanic or Latino


title: whole blood-Healthy Control-11 (6747965062_E)

description:
Sample name: 6747965062_E
Illumina HT12 V4 R2


title: whole blood-Healthy Control-1 (6747965052_L)

description:
Sample name: 6747965052_L
Illumina HT12 V4 R2


title: whole blood-nonSBI-78 (6303248100_G)

description:
Sample name: 6303248100_G
Illumina HT12 V4 R2

value: Stated as Unknown


title: whole blood-Healthy Control-4 (6303248050_I)

description:
Sample name: 6303248050_I
Illumina HT12 V4 R2


title: whole blood-Healthy Control-12 (6303248100_F)

description:
Sample name: 6303248100_F
Illumina HT12 V4 R2


title: whole blood-nonSBI-74 (6303248089_A)

description:
Sample name: 6303248089_A
Illumina HT12 V4 R2


title: whole blood-nonSBI-72 (6303248082_F)

description:
Sample name: 6303248082_F
Illumina HT12 V4 R2


title: whole blood-nonSBI-71 (6303248082_C)

description:
Sample name: 6303248082_C
Illumina HT12 V4 R2


title: whole blood-nonSBI-80 (6303256013_A)

description:
Sample name: 6303256013_A
Illumina HT12 V4 R2


title: whole blood-nonSBI-79 (6747965050_K)

description:
Sample name: 6747965050_K
Illumina HT12 V4 R2


title: whole blood-nonSBI-84 (6747965056_H)

description:
Sample name: 6747965056_H
Illumina HT12 V4 R2


title: whole blood-nonSBI-85 (6747965056_J)

description:
Sample name: 6747965056_J
Illumina HT12 V4 R2


title: whole blood-nonSBI-70 (6303248051_H)

description:
Sample name: 6303248051_H
Illumina HT12 V4 R2


title: whole blood-nonSBI-69 (6303248051_F)

description:
Sample name: 6303248051_F
Illumina HT12 V4 R2

value: Unknown


title: whole blood-nonSBI-67 (6303248051_D)

description:
Sample name: 6303248051_D
Illumina HT12 V4 R2


title: whole blood-Healthy Control-8 (6747965062_K)

description:
Sample name: 6747965062_K
Illumina HT12 V4 R2


title: whole blood-nonSBI-68 (6747965050_E)

description:
Sample name: 6747965050_E
Illumina HT12 V4 R2


title: whole blood-nonSBI-65 (6303248050_E)

description:
Sample name: 6303248050_E
Illumina HT12 V4 R2


title: whole blood-nonSBI-66 (6303248050_H)

description:
Sample name: 6303248050_H
Illumina HT12 V4 R2


title: whole blood-nonSBI-73 (6303248082_J)

description:
Sample name: 6303248082_J
Illumina HT12 V4 R2


title: whole blood-nonSBI-57 (6747965050_B)

description:
Sample name: 6747965050_B
Illumina HT12 V4 R2


title: whole blood-nonSBI-61 (6747965062_I)

description:
Sample name: 6747965062_I
Illumina HT12 V4 R2


title: whole blood-nonSBI-56 (6747965060_A)

description:
Sample name: 6747965060_A
Illumina HT12 V4 R2

value: SBI-(Viral -)


title: whole blood-nonSBI-63 (6747965063_H)

description:
Sample name: 6747965063_H
Illumina HT12 V4 R2

value: whole blood


title: whole blood-nonSBI-64 (6747965063_K)

description:
Sample name: 6747965063_K
Illumina HT12 V4 R2


title: whole blood-nonSBI-55 (6747965057_K)

description:
Sample name: 6747965057_K
Illumina HT12 V4 R2


title: whole blood-nonSBI-60 (6747965060_D)

description:
Sample name: 6747965060_D
Illumina HT12 V4 R2


title: whole blood-nonSBI-58 (6747965056_L)

description:
Sample name: 6747965056_L
Illumina HT12 V4 R2


title: whole blood-nonSBI-53 (6747965057_E)

description:
Sample name: 6747965057_E
Illumina HT12 V4 R2


title: whole blood-nonSBI-49 (6303248100_B)

description:
Sample name: 6303248100_B
Illumina HT12 V4 R2


title: whole blood-nonSBI-52 (6747965055_J)

description:
Sample name: 6747965055_J
Illumina HT12 V4 R2


title: whole blood-nonSBI-54 (6747965057_I)

description:
Sample name: 6747965057_I
Illumina HT12 V4 R2


title: whole blood-nonSBI-51 (6747965055_G)

description:
Sample name: 6747965055_G
Illumina HT12 V4 R2


title: whole blood-nonSBI-62 (6747965063_F)

description:
Sample name: 6747965063_F
Illumina HT12 V4 R2


title: whole blood-nonSBI-48 (6303248089_K)

description:
Sample name: 6303248089_K
Illumina HT12 V4 R2


title: whole blood-nonSBI-50 (6747965052_H)

description:
Sample name: 6747965052_H
Illumina HT12 V4 R2


title: whole blood-nonSBI-45 (6303248051_G)

description:
Sample name: 6303248051_G
Illumina HT12 V4 R2


title: whole blood-nonSBI-44 (6303248051_C)

description:
Sample name: 6303248051_C
Illumina HT12 V4 R2


title: whole blood-nonSBI-59 (6747965057_H)

description:
Sample name: 6747965057_H
Illumina HT12 V4 R2


title: GEN2.2-0 hrs post CpGB-CONTROL siRNA-rep 4

tag: cell line


title: whole blood-nonSBI-39 (6747965063_E)

description:
Sample name: 6747965063_E
Illumina HT12 V4 R2


title: whole blood-nonSBI-36 (6747965063_A)

description:
Sample name: 6747965063_A
Illumina HT12 V4 R2


title: whole blood-nonSBI-41 (6747965052_C)

description:
Sample name: 6747965052_C
Illumina HT12 V4 R2


title: whole blood-nonSBI-35 (6747965062_L)

description:
Sample name: 6747965062_L
Illumina HT12 V4 R2


title: whole blood-nonSBI-33 (6747965062_G)

description:
Sample name: 6747965062_G
Illumina HT12 V4 R2


title: whole blood-nonSBI-42 (6303248050_G)

description:
Sample name: 6303248050_G
Illumina HT12 V4 R2


title: whole blood-nonSBI-32 (6747965060_H)

description:
Sample name: 6747965060_H
Illumina HT12 V4 R2


title: whole blood-nonSBI-47 (6303248089_E)

description:
Sample name: 6303248089_E
Illumina HT12 V4 R2


title: whole blood-nonSBI-34 (6747965062_H)

description:
Sample name: 6747965062_H
Illumina HT12 V4 R2


title: whole blood-nonSBI-27 (6747965052_I)

description:
Sample name: 6747965052_I
Illumina HT12 V4 R2

value: SBI-(ENTERO)


title: whole blood-nonSBI-28 (6747965055_C)

description:
Sample name: 6747965055_C
Illumina HT12 V4 R2


title: whole blood-nonSBI-46 (6303248051_I)

description:
Sample name: 6303248051_I
Illumina HT12 V4 R2


title: whole blood-nonSBI-29 (6747965055_D)

description:
Sample name: 6747965055_D
Illumina HT12 V4 R2


title: whole blood-nonSBI-30 (6747965050_C)

description:
Sample name: 6747965050_C
Illumina HT12 V4 R2


title: whole blood-nonSBI-38 (6747965063_D)

description:
Sample name: 6747965063_D
Illumina HT12 V4 R2


title: whole blood-nonSBI-25 (6747965052_E)

description:
Sample name: 6747965052_E
Illumina HT12 V4 R2

value: American Indian or Alaska Native


title: whole blood-nonSBI-43 (6303248050_J)

description:
Sample name: 6303248050_J
Illumina HT12 V4 R2

value: M


title: whole blood-nonSBI-23 (6747965050_J)

description:
Sample name: 6747965050_J
Illumina HT12 V4 R2

value: White


title: whole blood-nonSBI-24 (6747965052_B)

description:
Sample name: 6747965052_B
Illumina HT12 V4 R2


title: whole blood-nonSBI-26 (6747965052_G)

description:
Sample name: 6747965052_G
Illumina HT12 V4 R2


title: whole blood-nonSBI-31 (6747965060_G)

description:
Sample name: 6747965060_G
Illumina HT12 V4 R2


title: whole blood-nonSBI-21 (6303248100_K)

description:
Sample name: 6303248100_K
Illumina HT12 V4 R2

value: SBI-(ENTERO) / RHINO


title: whole blood-nonSBI-22 (6303248100_L)

description:
Sample name: 6303248100_L
Illumina HT12 V4 R2


title: whole blood-nonSBI-18 (6303248082_E)

description:
Sample name: 6303248082_E
Illumina HT12 V4 R2


title: whole blood-nonSBI-20 (6303248089_J)

description:
Sample name: 6303248089_J
Illumina HT12 V4 R2


title: whole blood-nonSBI-37 (6747965063_B)

description:
Sample name: 6747965063_B
Illumina HT12 V4 R2


title: whole blood-nonSBI-17 (6303248082_B)

description:
Sample name: 6303248082_B
Illumina HT12 V4 R2


title: whole blood-nonSBI-19 (6303248082_G)

description:
Sample name: 6303248082_G
Illumina HT12 V4 R2


title: whole blood-nonSBI-16 (6303248051_B)

description:
Sample name: 6303248051_B
Illumina HT12 V4 R2


title: whole blood-nonSBI-15 (6303248050_D)

description:
Sample name: 6303248050_D
Illumina HT12 V4 R2


title: whole blood-nonSBI-6 (6747965056_K)

description:
Sample name: 6747965056_K
Illumina HT12 V4 R2


title: whole blood-nonSBI-9 (6747965062_B)

description:
Sample name: 6747965062_B
Illumina HT12 V4 R2


title: whole blood-nonSBI-1 (6747965050_D)

description:
Sample name: 6747965050_D
Illumina HT12 V4 R2


title: whole blood-SBI-55 (6747965057_D)

description:
Sample name: 6747965057_D
Illumina HT12 V4 R2

source_name: whole blood,SBI

value: SBI

value: UTI


title: whole blood-nonSBI-8 (6747965060_L)

description:
Sample name: 6747965060_L
Illumina HT12 V4 R2

value: F


title: whole blood-SBI-54 (6747965057_A)

description:
Sample name: 6747965057_A
Illumina HT12 V4 R2


title: whole blood-nonSBI-4 (6747965056_B)

description:
Sample name: 6747965056_B
Illumina HT12 V4 R2

value: Black or African American


title: whole blood-nonSBI-14 (6303248050_C)

description:
Sample name: 6303248050_C
Illumina HT12 V4 R2

value: Not Hispanic or Latino


title: whole blood-SBI-53 (6747965056_A)

description:
Sample name: 6747965056_A
Illumina HT12 V4 R2


title: whole blood-SBI-52 (6747965055_K)

description:
Sample name: 6747965055_K
Illumina HT12 V4 R2


title: whole blood-nonSBI-2 (6747965055_H)

description:
Sample name: 6747965055_H
Illumina HT12 V4 R2

value: nonSBI


title: whole blood-nonSBI-5 (6747965056_D)

description:
Sample name: 6747965056_D
Illumina HT12 V4 R2


title: whole blood-nonSBI-7 (6747965060_E)

description:
Sample name: 6747965060_E
Illumina HT12 V4 R2


title: whole blood-SBI-45 (6303248089_D)

description:
Sample name: 6303248089_D
Illumina HT12 V4 R2


title: whole blood-SBI-46 (6303248089_G)

description:
Sample name: 6303248089_G
Illumina HT12 V4 R2

value: Asian


title: whole blood-nonSBI-12 (6747965050_I)

description:
Sample name: 6747965050_I
Illumina HT12 V4 R2


title: whole blood-SBI-49 (6303248100_C)

description:
Sample name: 6303248100_C
Illumina HT12 V4 R2


title: whole blood-SBI-48 (6747965052_J)

description:
Sample name: 6747965052_J
Illumina HT12 V4 R2

value: Hispanic or Latino


title: whole blood-nonSBI-13 (6303248050_A)

description:
Sample name: 6303248050_A
Illumina HT12 V4 R2


title: whole blood-SBI-50 (6747965055_E)

description:
Sample name: 6747965055_E
Illumina HT12 V4 R2


title: whole blood-nonSBI-11 (6747965062_J)

description:
Sample name: 6747965062_J
Illumina HT12 V4 R2

value: Other


title: whole blood-SBI-44 (6303248089_C)

description:
Sample name: 6303248089_C
Illumina HT12 V4 R2


title: whole blood-SBI-43 (6303248082_I)

description:
Sample name: 6303248082_I
Illumina HT12 V4 R2


title: whole blood-SBI-51 (6747965055_I)

description:
Sample name: 6747965055_I
Illumina HT12 V4 R2


title: whole blood-SBI-41 (6303248082_D)

description:
Sample name: 6303248082_D
Illumina HT12 V4 R2


title: whole blood-SBI-42 (6303248082_H)

description:
Sample name: 6303248082_H
Illumina HT12 V4 R2


title: whole blood-SBI-47 (6303248100_A)

description:
Sample name: 6303248100_A
Illumina HT12 V4 R2


title: whole blood-nonSBI-10 (6747965062_F)

description:
Sample name: 6747965062_F
Illumina HT12 V4 R2


title: whole blood-SBI-39 (6303248051_K)

description:
Sample name: 6303248051_K
Illumina HT12 V4 R2


title: whole blood-SBI-40 (6303248082_A)

description:
Sample name: 6303248082_A
Illumina HT12 V4 R2


title: whole blood-SBI-37 (6747965050_G)

description:
Sample name: 6747965050_G
Illumina HT12 V4 R2


title: whole blood-SBI-34 (6303248050_F)

description:
Sample name: 6303248050_F
Illumina HT12 V4 R2


title: whole blood-SBI-32 (6747965063_J)

description:
Sample name: 6747965063_J
Illumina HT12 V4 R2

value: Stated as Unknown


title: whole blood-SBI-29 (6747965062_A)

description:
Sample name: 6747965062_A
Illumina HT12 V4 R2


title: whole blood-SBI-35 (6303248050_K)

description:
Sample name: 6303248050_K
Illumina HT12 V4 R2


title: whole blood-SBI-28 (6747965060_K)

description:
Sample name: 6747965060_K
Illumina HT12 V4 R2


title: whole blood-SBI-33 (6303248050_B)

description:
Sample name: 6303248050_B
Illumina HT12 V4 R2


title: whole blood-SBI-38 (6303248051_J)

description:
Sample name: 6303248051_J
Illumina HT12 V4 R2


title: whole blood-SBI-30 (6747965063_C)

description:
Sample name: 6747965063_C
Illumina HT12 V4 R2


title: whole blood-SBI-31 (6747965063_G)

description:
Sample name: 6747965063_G
Illumina HT12 V4 R2


title: whole blood-SBI-23 (6747965056_E)

description:
Sample name: 6747965056_E
Illumina HT12 V4 R2

value: Bacteremia


title: whole blood-SBI-27 (6747965057_L)

description:
Sample name: 6747965057_L
Illumina HT12 V4 R2

value: whole blood


title: whole blood-SBI-25 (6747965056_G)

description:
Sample name: 6747965056_G
Illumina HT12 V4 R2


title: whole blood-SBI-21 (6747965055_A)

description:
Sample name: 6747965055_A
Illumina HT12 V4 R2


title: whole blood-SBI-18 (6303256013_B)

description:
Sample name: 6303256013_B
Illumina HT12 V4 R2


title: whole blood-SBI-20 (6747965052_K)

description:
Sample name: 6747965052_K
Illumina HT12 V4 R2


title: whole blood-SBI-26 (6747965050_F)

description:
Sample name: 6747965050_F
Illumina HT12 V4 R2


title: whole blood-SBI-36 (6303248051_A)

description:
Sample name: 6303248051_A
Illumina HT12 V4 R2


title: whole blood-SBI-19 (6747965052_D)

description:
Sample name: 6747965052_D
Illumina HT12 V4 R2


title: whole blood-SBI-14 (6303248089_F)

description:
Sample name: 6303248089_F
Illumina HT12 V4 R2


title: whole blood-nonSBI-3 (6747965055_L)

description:
Sample name: 6747965055_L
Illumina HT12 V4 R2

value: SBI-(ENTERO)


title: whole blood-SBI-16 (6303248100_H)

description:
Sample name: 6303248100_H
Illumina HT12 V4 R2


title: whole blood-SBI-17 (6303248100_I)

description:
Sample name: 6303248100_I
Illumina HT12 V4 R2


title: whole blood-SBI-24 (6747965056_F)

description:
Sample name: 6747965056_F
Illumina HT12 V4 R2


title: whole blood-SBI-22 (6747965056_C)

description:
Sample name: 6747965056_C
Illumina HT12 V4 R2


title: whole blood-nonSBI-40 (6747965063_L)

description:
Sample name: 6747965063_L
Illumina HT12 V4 R2

value: SBI-(Viral -)


title: whole blood-SBI-13 (6303248082_L)

description:
Sample name: 6303248082_L
Illumina HT12 V4 R2

value: M


title: whole blood-SBI-12 (6747965050_H)

description:
Sample name: 6747965050_H
Illumina HT12 V4 R2


title: whole blood-SBI-7 (6747965060_I)

description:
Sample name: 6747965060_I
Illumina HT12 V4 R2

value: White


title: whole blood-SBI-10 (6303248050_L)

description:
Sample name: 6303248050_L
Illumina HT12 V4 R2


title: whole blood-SBI-2 (6747965056_I)

description:
Sample name: 6747965056_I
Illumina HT12 V4 R2


title: whole blood-Healthy Control-4 (5543531006_J)

description:
Sample name: 5543531006_J
Illumina HT12 V4 R1

value: Healthy Control

value: CTRL


title: whole blood-SBI-3 (6747965057_F)

description:
Sample name: 6747965057_F
Illumina HT12 V4 R2

value: SBI


title: whole blood-SBI-4 (6747965057_G)

description:
Sample name: 6747965057_G
Illumina HT12 V4 R2

value: F


title: whole blood-SBI-6 (6747965060_C)

description:
Sample name: 6747965060_C
Illumina HT12 V4 R2


title: whole blood-Healthy Control-3 (5543531001_B)

description:
Sample name: 5543531001_B
Illumina HT12 V4 R1

value: Black or African American


title: whole blood-nonSBI-104 (5543531007_D)

description:
Sample name: 5543531007_D
Illumina HT12 V4 R1

value: Not Hispanic or Latino

value: SBI- VTN_NSBI


title: whole blood-Healthy Control-2 (5543531001_E)

description:
Sample name: 5543531001_E
Illumina HT12 V4 R1


title: whole blood-nonSBI-105 (5543531008_E)

description:
Sample name: 5543531008_E
Illumina HT12 V4 R1

value: nonSBI


title: whole blood-SBI-11 (6303248082_K)

description:
Sample name: 6303248082_K
Illumina HT12 V4 R2

value: Hispanic or Latino


title: whole blood-SBI-8 (6747965062_C)

description:
Sample name: 6747965062_C
Illumina HT12 V4 R2


title: whole blood-SBI-9 (6747965063_I)

description:
Sample name: 6747965063_I
Illumina HT12 V4 R2


title: whole blood-SBI-1 (6747965050_A)

description:
Sample name: 6747965050_A
Illumina HT12 V4 R2


title: whole blood-Healthy Control-5 (5543531007_A)

description:
Sample name: 5543531007_A
Illumina HT12 V4 R1


title: whole blood-nonSBI-103 (5543531006_C)

description:
Sample name: 5543531006_C
Illumina HT12 V4 R1

value: Other


title: whole blood-nonSBI-101 (5543531003_F)

description:
Sample name: 5543531003_F
Illumina HT12 V4 R1


title: whole blood-SBI-5 (6747965057_J)

description:
Sample name: 6747965057_J
Illumina HT12 V4 R2


title: whole blood-nonSBI-98 (5543434059_E)

description:
Sample name: 5543434059_E
Illumina HT12 V4 R1


title: whole blood-nonSBI-100 (5543531002_B)

description:
Sample name: 5543531002_B
Illumina HT12 V4 R1


title: whole blood-nonSBI-99 (5543531001_L)

description:
Sample name: 5543531001_L
Illumina HT12 V4 R1


title: whole blood-nonSBI-95 (5543531009_H)

description:
Sample name: 5543531009_H
Illumina HT12 V4 R1

value: SBI- VIRUS-_NSBI


title: whole blood-nonSBI-96 (5543531010_B)

description:
Sample name: 5543531010_B
Illumina HT12 V4 R1


title: whole blood-nonSBI-94 (5543531009_E)

description:
Sample name: 5543531009_E
Illumina HT12 V4 R1


title: whole blood-Healthy Control-1 (5543531010_D)

description:
Sample name: 5543531010_D
Illumina HT12 V4 R1


title: whole blood-nonSBI-93 (5543531008_F)

description:
Sample name: 5543531008_F
Illumina HT12 V4 R1


title: whole blood-SBI-15 (6303248100_E)

description:
Sample name: 6303248100_E
Illumina HT12 V4 R2

value: Bacteremia


title: whole blood-nonSBI-97 (5543531010_L)

description:
Sample name: 5543531010_L
Illumina HT12 V4 R1

value: Unknown

value: whole blood


title: whole blood-nonSBI-92 (5543531008_A)

description:
Sample name: 5543531008_A
Illumina HT12 V4 R1


title: whole blood-nonSBI-91 (5543531006_D)

description:
Sample name: 5543531006_D
Illumina HT12 V4 R1


title: whole blood-nonSBI-85 (5543531001_C)

description:
Sample name: 5543531001_C
Illumina HT12 V4 R1


title: whole blood-nonSBI-89 (5543434058_B)

description:
Sample name: 5543434058_B
Illumina HT12 V4 R1


title: whole blood-nonSBI-88 (5543531002_C)

description:
Sample name: 5543531002_C
Illumina HT12 V4 R1


title: whole blood-nonSBI-79 (5543531008_D)

description:
Sample name: 5543531008_D
Illumina HT12 V4 R1

value: Native Hawiian or Other Pacific Islander

value: SBI- flu+  H1N1-_NSBI


title: whole blood-nonSBI-80 (5543531009_F)

description:
Sample name: 5543531009_F
Illumina HT12 V4 R1

value: M

value: White


title: whole blood-nonSBI-102 (5543531004_E)

description:
Sample name: 5543531004_E
Illumina HT12 V4 R1


title: whole blood-nonSBI-86 (5543434055_H)

description:
Sample name: 5543434055_H
Illumina HT12 V4 R1


title: whole blood-nonSBI-77 (5543434058_E)

description:
Sample name: 5543434058_E
Illumina HT12 V4 R1


title: whole blood-nonSBI-76 (5543531007_J)

description:
Sample name: 5543531007_J
Illumina HT12 V4 R1


title: whole blood-nonSBI-78 (5543531008_C)

description:
Sample name: 5543531008_C
Illumina HT12 V4 R1


title: whole blood-nonSBI-90 (5543531004_B)

description:
Sample name: 5543531004_B
Illumina HT12 V4 R1


title: whole blood-nonSBI-67 (5543531004_G)

description:
Sample name: 5543531004_G
Illumina HT12 V4 R1


title: whole blood-nonSBI-71 (5543531006_K)

description:
Sample name: 5543531006_K
Illumina HT12 V4 R1


title: whole blood-nonSBI-72 (5543531006_L)

description:
Sample name: 5543531006_L
Illumina HT12 V4 R1


title: whole blood-nonSBI-84 (5543434060_K)

description:
Sample name: 5543434060_K
Illumina HT12 V4 R1


title: whole blood-nonSBI-74 (5543531007_F)

description:
Sample name: 5543531007_F
Illumina HT12 V4 R1


title: whole blood-nonSBI-73 (5543531007_C)

description:
Sample name: 5543531007_C
Illumina HT12 V4 R1


title: whole blood-nonSBI-82 (5543531009_K)

description:
Sample name: 5543531009_K
Illumina HT12 V4 R1


title: whole blood-nonSBI-87 (5543531002_A)

description:
Sample name: 5543531002_A
Illumina HT12 V4 R1


title: whole blood-nonSBI-81 (5543531009_I)

description:
Sample name: 5543531009_I
Illumina HT12 V4 R1

value: Asian


title: whole blood-nonSBI-83 (5543434055_A)

description:
Sample name: 5543434055_A
Illumina HT12 V4 R1


title: whole blood-nonSBI-70 (5543531006_E)

description:
Sample name: 5543531006_E
Illumina HT12 V4 R1


title: whole blood-nonSBI-69 (5543531006_A)

description:
Sample name: 5543531006_A
Illumina HT12 V4 R1


title: whole blood-nonSBI-65 (5543531003_B)

description:
Sample name: 5543531003_B
Illumina HT12 V4 R1


title: whole blood-nonSBI-68 (5543531004_K)

description:
Sample name: 5543531004_K
Illumina HT12 V4 R1

value: Stated as Unknown


title: whole blood-nonSBI-75 (5543531007_I)

description:
Sample name: 5543531007_I
Illumina HT12 V4 R1


title: whole blood-nonSBI-63 (5543531002_K)

description:
Sample name: 5543531002_K
Illumina HT12 V4 R1

value: F


title: whole blood-nonSBI-66 (5543531003_E)

description:
Sample name: 5543531003_E
Illumina HT12 V4 R1

value: Black or African American


title: whole blood-nonSBI-64 (5543531002_L)

description:
Sample name: 5543531002_L
Illumina HT12 V4 R1

value: Not Hispanic or Latino


title: whole blood-nonSBI-61 (5543434055_J)

description:
Sample name: 5543434055_J
Illumina HT12 V4 R1


title: whole blood-nonSBI-57 (5543434060_L)

description:
Sample name: 5543434060_L
Illumina HT12 V4 R1


title: whole blood-nonSBI-59 (5543531001_F)

description:
Sample name: 5543531001_F
Illumina HT12 V4 R1


title: whole blood-nonSBI-56 (5543434055_F)

description:
Sample name: 5543434055_F
Illumina HT12 V4 R1


title: whole blood-nonSBI-51 (5543434059_A)

description:
Sample name: 5543434059_A
Illumina HT12 V4 R1


title: whole blood-nonSBI-60 (5543531001_G)

description:
Sample name: 5543531001_G
Illumina HT12 V4 R1


title: whole blood-nonSBI-58 (5543531001_A)

description:
Sample name: 5543531001_A
Illumina HT12 V4 R1


title: whole blood-nonSBI-50 (5543531010_J)

description:
Sample name: 5543531010_J
Illumina HT12 V4 R1


title: whole blood-nonSBI-62 (5543531002_F)

description:
Sample name: 5543531002_F
Illumina HT12 V4 R1


title: whole blood-nonSBI-47 (5543531008_J)

description:
Sample name: 5543531008_J
Illumina HT12 V4 R1

value: SBI- flu+  H1N1+_NSBI


title: whole blood-nonSBI-49 (5543531010_I)

description:
Sample name: 5543531010_I
Illumina HT12 V4 R1

value: nonSBI


title: whole blood-nonSBI-45 (5543531007_H)

description:
Sample name: 5543531007_H
Illumina HT12 V4 R1

value: Hispanic or Latino


title: whole blood-nonSBI-46 (5543531008_B)

description:
Sample name: 5543531008_B
Illumina HT12 V4 R1


title: whole blood-nonSBI-53 (5543434059_H)

description:
Sample name: 5543434059_H
Illumina HT12 V4 R1

value: Other


title: whole blood-nonSBI-48 (5543531009_D)

description:
Sample name: 5543531009_D
Illumina HT12 V4 R1


title: whole blood-nonSBI-55 (5543434059_L)

description:
Sample name: 5543434059_L
Illumina HT12 V4 R1


title: whole blood-nonSBI-44 (5543434058_D)

description:
Sample name: 5543434058_D
Illumina HT12 V4 R1


title: whole blood-nonSBI-52 (5543434059_D)

description:
Sample name: 5543434059_D
Illumina HT12 V4 R1


title: whole blood-nonSBI-43 (5543531004_F)

description:
Sample name: 5543531004_F
Illumina HT12 V4 R1


title: whole blood-nonSBI-42 (5543531002_J)

description:
Sample name: 5543531002_J
Illumina HT12 V4 R1


title: whole blood-nonSBI-54 (5543434059_K)

description:
Sample name: 5543434059_K
Illumina HT12 V4 R1


title: whole blood-nonSBI-38 (5543434060_E)

description:
Sample name: 5543434060_E
Illumina HT12 V4 R1


title: whole blood-nonSBI-39 (5543434060_I)

description:
Sample name: 5543434060_I
Illumina HT12 V4 R1


title: whole blood-nonSBI-35 (5543434060_A)

description:
Sample name: 5543434060_A
Illumina HT12 V4 R1


title: whole blood-nonSBI-33 (5543531007_L)

description:
Sample name: 5543531007_L
Illumina HT12 V4 R1

value: SBI- VIRUS+_NSBI


title: whole blood-nonSBI-34 (5543531010_C)

description:
Sample name: 5543531010_C
Illumina HT12 V4 R1


title: whole blood-nonSBI-40 (5543531001_D)

description:
Sample name: 5543531001_D
Illumina HT12 V4 R1


title: whole blood-nonSBI-41 (5543531002_I)

description:
Sample name: 5543531002_I
Illumina HT12 V4 R1


title: whole blood-nonSBI-36 (5543434060_B)

description:
Sample name: 5543434060_B
Illumina HT12 V4 R1


title: whole blood-nonSBI-37 (5543434060_C)

description:
Sample name: 5543434060_C
Illumina HT12 V4 R1


title: whole blood-nonSBI-29 (5543531009_J)

description:
Sample name: 5543531009_J
Illumina HT12 V4 R1

value: SBI- ENTEROVIRUS_NSBI


title: whole blood-nonSBI-32 (5543531009_B)

description:
Sample name: 5543531009_B
Illumina HT12 V4 R1

value: SBI- VIRUS+(RSV)_NSBI


title: whole blood-nonSBI-31 (5543531003_H)

description:
Sample name: 5543531003_H
Illumina HT12 V4 R1

value: whole blood


title: whole blood-nonSBI-22 (5543531004_D)

description:
Sample name: 5543531004_D
Illumina HT12 V4 R1


title: whole blood-nonSBI-28 (5543531009_G)

description:
Sample name: 5543531009_G
Illumina HT12 V4 R1


title: whole blood-nonSBI-19 (5543531003_K)

description:
Sample name: 5543531003_K
Illumina HT12 V4 R1


title: whole blood-nonSBI-21 (5543531004_C)

description:
Sample name: 5543531004_C
Illumina HT12 V4 R1


title: whole blood-nonSBI-24 (5543531006_F)

description:
Sample name: 5543531006_F
Illumina HT12 V4 R1


title: whole blood-nonSBI-26 (5543531008_L)

description:
Sample name: 5543531008_L
Illumina HT12 V4 R1


title: whole blood-nonSBI-27 (5543434058_I)

description:
Sample name: 5543434058_I
Illumina HT12 V4 R1


title: whole blood-nonSBI-16 (5543531003_C)

description:
Sample name: 5543531003_C
Illumina HT12 V4 R1


title: whole blood-nonSBI-15 (5543531003_A)

description:
Sample name: 5543531003_A
Illumina HT12 V4 R1


title: whole blood-nonSBI-30 (5543531008_K)

description:
Sample name: 5543531008_K
Illumina HT12 V4 R1

value: SBI- VIRUS+(PARAIN)_NSBI


title: whole blood-nonSBI-11 (5543531001_I)

description:
Sample name: 5543531001_I
Illumina HT12 V4 R1

value: SBI- ENTEROVIRUS_NSBI / RHINO


title: whole blood-nonSBI-25 (5543531007_B)

description:
Sample name: 5543531007_B
Illumina HT12 V4 R1

value: M


title: whole blood-nonSBI-17 (5543531003_I)

description:
Sample name: 5543531003_I
Illumina HT12 V4 R1


title: whole blood-nonSBI-18 (5543531003_J)

description:
Sample name: 5543531003_J
Illumina HT12 V4 R1

value: White


title: whole blood-nonSBI-23 (5543434058_C)

description:
Sample name: 5543434058_C
Illumina HT12 V4 R1


title: whole blood-nonSBI-12 (5543531001_K)

description:
Sample name: 5543531001_K
Illumina HT12 V4 R1


title: whole blood-nonSBI-20 (5543531004_A)

description:
Sample name: 5543531004_A
Illumina HT12 V4 R1

value: Unknown


title: whole blood-nonSBI-14 (5543531002_H)

description:
Sample name: 5543531002_H
Illumina HT12 V4 R1


title: whole blood-nonSBI-3 (5543531010_G)

description:
Sample name: 5543531010_G
Illumina HT12 V4 R1


title: whole blood-nonSBI-4 (5543531010_K)

description:
Sample name: 5543531010_K
Illumina HT12 V4 R1


title: whole blood-nonSBI-6 (5543434059_C)

description:
Sample name: 5543434059_C
Illumina HT12 V4 R1


title: whole blood-nonSBI-9 (5543434060_J)

description:
Sample name: 5543434060_J
Illumina HT12 V4 R1


title: whole blood-nonSBI-1 (5543434055_E)

description:
Sample name: 5543434055_E
Illumina HT12 V4 R1


title: whole blood-nonSBI-10 (5543531001_H)

description:
Sample name: 5543531001_H
Illumina HT12 V4 R1


title: whole blood-nonSBI-8 (5543434059_J)

description:
Sample name: 5543434059_J
Illumina HT12 V4 R1


title: whole blood-nonSBI-7 (5543434059_F)

description:
Sample name: 5543434059_F
Illumina HT12 V4 R1


title: whole blood-nonSBI-5 (5543434055_B)

description:
Sample name: 5543434055_B
Illumina HT12 V4 R1


title: whole blood-nonSBI-2 (5543434058_K)

description:
Sample name: 5543434058_K
Illumina HT12 V4 R1


title: whole blood-nonSBI-13 (5543531002_G)

description:
Sample name: 5543531002_G
Illumina HT12 V4 R1


title: whole blood-SBI-30 (5543531010_H)

description:
Sample name: 5543531010_H
Illumina HT12 V4 R1

value: SBI


title: whole blood-SBI-24 (5543531008_G)

description:
Sample name: 5543531008_G
Illumina HT12 V4 R1


title: whole blood-SBI-26 (5543531009_L)

description:
Sample name: 5543531009_L
Illumina HT12 V4 R1


title: whole blood-SBI-20 (5543531006_H)

description:
Sample name: 5543531006_H
Illumina HT12 V4 R1


title: whole blood-SBI-32 (5543434058_F)

description:
Sample name: 5543434058_F
Illumina HT12 V4 R1

value: F


title: whole blood-SBI-27 (5543531010_A)

description:
Sample name: 5543531010_A
Illumina HT12 V4 R1


title: whole blood-SBI-29 (5543531010_F)

description:
Sample name: 5543531010_F
Illumina HT12 V4 R1


title: whole blood-SBI-31 (5543434058_A)

description:
Sample name: 5543434058_A
Illumina HT12 V4 R1


title: whole blood-SBI-28 (5543531010_E)

description:
Sample name: 5543531010_E
Illumina HT12 V4 R1

value: Black or African American


title: whole blood-SBI-17 (5543531004_I)

description:
Sample name: 5543531004_I
Illumina HT12 V4 R1

value: Not Hispanic or Latino


title: whole blood-SBI-23 (5543531007_K)

description:
Sample name: 5543531007_K
Illumina HT12 V4 R1


title: whole blood-SBI-12 (5543531002_D)

description:
Sample name: 5543531002_D
Illumina HT12 V4 R1


title: whole blood-SBI-13 (5543531002_E)

description:
Sample name: 5543531002_E
Illumina HT12 V4 R1


title: whole blood-SBI-34 (5543434058_H)

description:
Sample name: 5543434058_H
Illumina HT12 V4 R1


title: whole blood-SBI-25 (5543531009_C)

description:
Sample name: 5543531009_C
Illumina HT12 V4 R1


title: whole blood-SBI-18 (5543531004_J)

description:
Sample name: 5543531004_J
Illumina HT12 V4 R1


title: whole blood-SBI-15 (5543434055_I)

description:
Sample name: 5543434055_I
Illumina HT12 V4 R1


title: whole blood-SBI-16 (5543531004_H)

description:
Sample name: 5543531004_H
Illumina HT12 V4 R1


title: whole blood-SBI-33 (5543434058_G)

description:
Sample name: 5543434058_G
Illumina HT12 V4 R1


title: whole blood-SBI-21 (5543531006_I)

description:
Sample name: 5543531006_I
Illumina HT12 V4 R1


title: whole blood-SBI-11 (5543434060_D)

description:
Sample name: 5543434060_D
Illumina HT12 V4 R1


title: whole blood-SBI-22 (5543531007_E)

description:
Sample name: 5543531007_E
Illumina HT12 V4 R1


title: whole blood-SBI-19 (5543531006_B)

description:
Sample name: 5543531006_B
Illumina HT12 V4 R1


title: whole blood-SBI-10 (5543434059_I)

description:
Sample name: 5543434059_I
Illumina HT12 V4 R1


title: whole blood-SBI-9 (5543434059_B)

description:
Sample name: 5543434059_B
Illumina HT12 V4 R1


title: whole blood-SBI-14 (5543531003_L)

description:
Sample name: 5543531003_L
Illumina HT12 V4 R1


title: whole blood-SBI-8 (5543434055_G)

description:
Sample name: 5543434055_G
Illumina HT12 V4 R1


title: whole blood-SBI-6 (5543531007_G)

description:
Sample name: 5543531007_G
Illumina HT12 V4 R1


title: whole blood-SBI-7 (5543434058_L)

description:
Sample name: 5543434058_L
Illumina HT12 V4 R1


title: WT colon 1

status: Public on Jun 20 2016

data_processing:
Basecalls from CASAVA 1.8.2
Reads were aligned using TopHat2 against the MM10 genome assembly
Reads were deduplicated using Samtools 0.1.19
Gene Counts were calcualted using HTSeq 0.6.1
Genome_build: MM10
Supplementary_files_format_and_content: TXT files of raw counts of reads against GRCm38.75

organism: Mus musculus

source_name: Colon

extract_protocol:
Inflammed colonic mucosa of Itch-/- mice and from the colonic mucosa of wild-type mice  were harvested, flash frozen on dry ice, and total RNA was prepared using Qiagen RNeasy Mini Kit .
RNA libraries were prepared for sequencing using standard Illumina protocols

tag: genotype

value: Colon

tag: state

value: Inflammation


title: Itch KO colon 2

value: Itch KO


title: Itch KO colon 1


title: WT colon 2


title: whole blood-SBI-2 (5543434060_F)

description:
Sample name: 5543434060_F
Illumina HT12 V4 R1


title: whole blood-SBI-1 (5543434055_K)

description:
Sample name: 5543434055_K
Illumina HT12 V4 R1


title: whole blood-SBI-3 (5543434060_G)

description:
Sample name: 5543434060_G
Illumina HT12 V4 R1

value: Hispanic or Latino


title: whole blood-Outpatient-18 [9970511052_C]

status: Public on May 09 2016

source_name: whole blood,Outpatient

extract_protocol: Whole blood samples (1-3ml) were collected in Tempus tubes (Applied Biosystems) and stored at -20°C

tag: Sex

value: Male

value: Black

tag: age (mos)

value: RSV

tag: group

value: Outpatient

tag: batch


title: whole blood-SBI-5 (5543531001_J)

description:
Sample name: 5543531001_J
Illumina HT12 V4 R1

value: whole blood


title: whole blood-Outpatient-17 [10010265080_I]


title: whole blood-SBI-4 (5543531003_D)

description:
Sample name: 5543531003_D
Illumina HT12 V4 R1


title: whole blood-Outpatient-12 [9970511055_A]

value: Female


title: whole blood-Outpatient-19 [9970518086_C]


title: whole blood-Outpatient-4 [9972748019_D]


title: whole blood-Outpatient-14 [9972748021_H]


title: whole blood-Outpatient-13 [10010265085_D]

value: Biracial


title: whole blood-Outpatient-16 [9970511055_F]

value: White


title: whole blood-Outpatient-9 [9970511055_E]


title: whole blood-Outpatient-5 [9972748004_B]


title: whole blood-Outpatient-7 [9972748019_H]


title: whole blood-Outpatient-11 [9972748016_A]


title: whole blood-Outpatient-6 [9972748019_K]

value: Hispanic


title: whole blood-Outpatient-15 [9972748021_B]


title: whole blood-Outpatient-10 [9970511055_G]


title: whole blood-Inpatient-61 [9972748021_E]

source_name: whole blood,Inpatient

value: Other

value: Inpatient


title: whole blood-Outpatient-20 [9970511061_G]


title: whole blood-Outpatient-3 [9972748016_H]

value: Ethiopian/white


title: whole blood-Outpatient-1 [9970511055_K]


title: whole blood-Outpatient-2 [9970511052_K]


title: whole blood-Inpatient-57 [6303205225_C]


title: whole blood-Inpatient-60 [10010265080_D]


title: whole blood-Inpatient-59 [10010265085_C]


title: whole blood-Inpatient-56 [6303205241_B]


title: whole blood-Inpatient-58 [6303205244_B]


title: whole blood-Inpatient-55 [6303205234_G]


title: whole blood-Inpatient-54 [6303205225_I]


title: whole blood-Inpatient-53 [6303205241_L]


title: whole blood-Inpatient-51 [6303205243_G]


title: whole blood-Inpatient-52 [6303205230_L]


title: whole blood-Inpatient-50 [6303205232_C]


title: whole blood-Inpatient-38 [6303205200_C]


title: whole blood-Inpatient-42 [6303205239_A]


title: whole blood-Inpatient-36 [6303205198_B]


title: whole blood-Inpatient-34 [6303205241_J]


title: whole blood-Inpatient-37 [6303205244_C]


title: whole blood-Inpatient-48 [6303205239_H]


title: whole blood-Inpatient-46 [6303205243_J]


title: whole blood-Inpatient-49 [6303205198_A]


title: whole blood-Inpatient-41 [6303205244_F]


title: whole blood-Inpatient-44 [6303205244_E]


title: whole blood-Inpatient-43 [6303205225_A]


title: whole blood-Inpatient-40 [6303205230_J]


title: whole blood-Inpatient-45 [6303205225_E]


title: whole blood-Inpatient-35 [6303205198_C]


title: whole blood-Inpatient-28 [6303205243_E]

value: unknown


title: whole blood-Inpatient-25 [6303205198_H]


title: whole blood-Inpatient-26 [6303205243_L]


title: whole blood-Inpatient-24 [6303205200_E]


title: whole blood-Inpatient-29 [6303205234_A]


title: whole blood-Inpatient-33 [6303205234_F]

value: Asian


title: whole blood-Inpatient-30 [6303205243_D]


title: whole blood-Inpatient-27 [6303205232_F]


title: whole blood-Inpatient-31 [6303205239_L]


title: whole blood-Inpatient-32 [6303205241_C]


title: whole blood-Inpatient-47 [6303205198_F]


title: whole blood-Inpatient-23 [6303205198_L]


title: whole blood-Inpatient-22 [6303205239_E]


title: whole blood-Inpatient-16 [6303205200_L]


title: whole blood-Inpatient-10 [6303205243_C]


title: whole blood-Inpatient-15 [6303205243_F]


title: whole blood-Inpatient-12 [6303205241_G]


title: whole blood-Inpatient-18 [6303205225_K]


title: whole blood-Inpatient-11 [6303205200_G]


title: whole blood-Inpatient-20 [6303205241_K]


title: whole blood-Inpatient-14 [6303205230_A]


title: whole blood-Inpatient-8 [6303205234_J]


title: whole blood-Inpatient-17 [6303205200_D]


title: whole blood-Inpatient-13 [6303205234_L]


title: whole blood-Inpatient-6 [6303205241_E]


title: whole blood-Inpatient-3 [6303205200_B]


title: whole blood-Inpatient-4 [6303205225_B]


title: whole blood-Inpatient-2 [9972748040_F]


title: whole blood-Healthy control-21 [6303205225_D]

source_name: whole blood,Healthy control

value: Healthy

value: Healthy control


title: whole blood-Healthy control-22 [6303205232_J]


title: whole blood-Inpatient-5 [6303205230_D]


title: whole blood-Healthy control-23 [9972748036_L]


title: whole blood-Inpatient-7 [6303205239_D]


title: whole blood-Inpatient-39 [6303205234_D]


title: whole blood-Inpatient-9 [6303205230_H]


title: whole blood-Healthy control-18 [6303205232_B]


title: whole blood-Outpatient-8 [9972748021_G]


title: whole blood-Healthy control-19 [6303205232_K]


title: whole blood-Healthy control-20 [6303205241_A]


title: whole blood-Healthy control-17 [6303205200_K]


title: whole blood-Inpatient-1 [9972748004_L]


title: whole blood-Healthy control-10 [9972748037_H]


title: whole blood-Healthy control-11 [9972748026_H]


title: whole blood-Healthy control-8 [9972748004_D]


title: whole blood-Healthy control-12 [10010265080_E]


title: whole blood-Healthy control-14 [9972748026_I]


title: whole blood-Healthy control-9 [9972748026_K]


title: whole blood-Healthy control-4 [9972748036_F]


title: whole blood-Healthy control-16 [6303205234_C]


title: whole blood-Healthy control-3 [9972748019_E]


title: ILC2 cultured with IL-1b #1

status: Public on Apr 25 2016

data_processing:
Basecalls from CASAVA 1.8.2
Reads were aligned using TopHat2 against the B37 genome assembly
Reads were deduplicated using Samtools 0.1.19
Gene Counts were calcualted using HTSeq 0.6.1
Genome_build: B37
Supplementary_files_format_and_content: TXT, Read Counts

source_name: peripheral blood, ex vivo culture

growth_protocol: ILC2s are cultured in IMDM 10%FBS supplemented with human recombinant IL-2 and IL-1b (both 10 ng/ml)

extract_protocol:
Clontech SMARTer Ultra Low RNA kit
Clontech Low Input Library Prep kit

tag: donor type

value: healthy donor

value: peripheral blood

tag: cell type

value: innate lymphoid cells (ILC2)

tag: culture type

value: additionally cultured with IL-1b (10 ng/ml)


title: freshly isolated ILC2s #3

source_name: peripheral blood

growth_protocol: ILC2s are cultured in IMDM 10%FBS supplemented with human recombinant IL-2 (10 ng/ml)

value: freshly isolated


title: ILC2 cultured with IL-1b #2


title: freshly isolated ILC2s #2


title: ILC2 cultured with IL-1b #3


title: freshly isolated ILC2s #1


title: whole blood-Healthy control-5 [10010265080_K]

value: Male

tag: disease

value: whole blood


title: whole blood-Healthy control-1 [9972748004_C]


title: whole blood-Healthy control-2 [9972748036_B]

value: Black


title: whole blood-Healthy control-6 [9972748026_E]

value: White


title: whole blood-Healthy control-15 [9972748036_A]

value: Female


title: whole blood-healthy-20 7509310043_D

status: Public on Apr 14 2016

description: whole blood

source_name: whole blood, healthy

extract_protocol: Blood samples (1-3 mL) for microarray analyses were collected in Tempus tubes (Applied Biosystems, CA, USA) and stored at -20°C.

tag: age (mos.)

tag: gender

value: M

value: O

tag: final condition

value: healthy


title: whole blood-healthy-23 7509310062_J

description: whole blood

value: F

tag: race


title: whole blood-healthy-15 7509310032_I

description: whole blood


title: whole blood-healthy-18 7509310040_H

description: whole blood

value: W


title: whole blood-healthy-13 7509310032_C

description: whole blood


title: whole blood-healthy-17 7509310040_G

description: whole blood


title: whole blood-healthy-22 7509310055_D

description: whole blood


title: whole blood-healthy-12 7509310032_B

description: whole blood


title: whole blood-healthy-14 7509310032_D

description: whole blood


title: whole blood-healthy-19 7509310040_K

description: whole blood


title: whole blood-Inpatient-21 [6303205232_G]

value: RSV

value: Inpatient


title: whole blood-healthy-16 7509310040_D

description: whole blood


title: whole blood-healthy-21 7509310043_F

description: whole blood


title: whole blood-healthy-10 7509301128_D

description: whole blood


title: whole blood-healthy-11 7509301165_A

description: whole blood


title: whole blood-healthy-5 7509310066_F

description: whole blood


title: whole blood-healthy-3 7509310055_K

description: whole blood


title: whole blood-healthy-2 7509310055_H

description: whole blood

value: A


title: whole blood-inKD-6 7509310064_E

description: whole blood

source_name: whole blood, inKD

value: inKD


title: whole blood-healthy-6 7509301065_I

description: whole blood


title: whole blood-healthy-7 7509301075_F

description: whole blood


title: whole blood-healthy-4 7509310058_E

description: whole blood


title: whole blood-healthy-1 7509310043_L

description: whole blood


title: whole blood-inKD-8 7509310067_H

description: whole blood


title: whole blood-healthy-9 7509301084_G

description: whole blood


title: whole blood-inKD-7 7509310067_A

description: whole blood


title: whole blood-Inpatient-19 [6303205225_F]


title: whole blood-healthy-8 7509301084_F

description: whole blood


title: whole blood-cKD-19 7509310067_K

description: whole blood

source_name: whole blood, cKD

value: cKD


title: whole blood-cKD-14 7509310058_I

description: whole blood


title: whole blood-inKD-3 7509310062_H

description: whole blood


title: whole blood-inKD-2 7509310061_E

description: whole blood


title: whole blood-cKD-13 7509310067_J

description: whole blood


title: whole blood-GAS-1 7509310058_B

description: whole blood

source_name: whole blood, GAS

value: B

value: GAS


title: whole blood-inKD-5 7509310064_D

description: whole blood


title: whole blood-cKD-10 7509310064_H

description: whole blood


title: whole blood-cKD-9 7509310064_F

description: whole blood


title: whole blood-cKD-16 7509310060_K

description: whole blood


title: whole blood-cKD-18 7509310066_I

description: whole blood


title: whole blood-inKD-1 7509310058_J

description: whole blood


title: whole blood-cKD-2 7509310058_D

description: whole blood


title: whole blood-inKD-4 7509310062_K

description: whole blood


title: whole blood-HAdV-8 7509310064_L

description: whole blood

source_name: whole blood, HAdV

value: HAdV


title: whole blood-cKD-15 7509310060_D

description: whole blood

value: whole blood


title: whole blood-cKD-3 7509310060_I

description: whole blood


title: whole blood-cKD-17 7509310063_G

description: whole blood


title: whole blood-cKD-1 7509310058_A

description: whole blood


title: whole blood-cKD-8 7509310063_J

description: whole blood


title: whole blood-cKD-11 7509310065_F

description: whole blood


title: whole blood-cKD-7 7509310062_C

description: whole blood


title: whole blood-cKD-5 7509310061_C

description: whole blood


title: whole blood-HAdV-9 7509310065_D

description: whole blood


title: whole blood-HAdV-10 7509310065_H

description: whole blood


title: whole blood-cKD-12 7509310066_E

description: whole blood


title: whole blood-cKD-6 7509310061_F

description: whole blood


title: whole blood-cKD-4 7509310061_B

description: whole blood


title: whole blood-Healthy control-7 [9970511049_A]

value: Male

value: Black

value: Healthy

value: Healthy control


title: whole blood-Healthy control-13 [9972748016_J]


title: whole blood-HAdV-5 7509310066_H

description: whole blood


title: whole blood-HAdV-2 7509310063_H

description: whole blood

value: M


title: whole blood-HAdV-6 7509310058_G

description: whole blood


title: whole blood-HAdV-4 7509310065_E

description: whole blood


title: whole blood-HAdV-1 7509310060_B

description: whole blood


title: whole blood-healthy-14 5863972145_J

description: whole blood

value: healthy


title: whole blood-healthy-5 5863972134_D

description: whole blood

value: F

value: O


title: whole blood-healthy-8 5863972110_E

description: whole blood

value: W


title: whole blood-GAS/SF-2 5863972094_G

description: whole blood

source_name: whole blood, GAS/SF

value: GAS/SF


title: whole blood-inKD-4 5863972152_C

description: whole blood


title: whole blood-healthy-7 5863972151_G

description: whole blood

value: H


title: whole blood-HAdV-7 7509310062_E

description: whole blood


title: whole blood-inKD-2 5863972117_H

description: whole blood

value: inKD


title: whole blood-healthy-11 5863972132_J

description: whole blood


title: whole blood-healthy-2 5863972124_G

description: whole blood


title: whole blood-healthy-1 5863972114_J

description: whole blood


title: whole blood-GAS/SF-3 5863972147_K

description: whole blood


title: whole blood-healthy-13 5863972144_E

description: whole blood


title: whole blood-healthy-3 5863972124_L

description: whole blood


title: whole blood-inKD-5 5863972152_D

description: whole blood


title: whole blood-healthy-12 5863972132_K

description: whole blood


title: whole blood-inKD-1 5863972107_F

description: whole blood

value: A


title: whole blood-healthy-9 5863972111_K

description: whole blood


title: whole blood-healthy-4 5863972130_G

description: whole blood

value: B


title: whole blood-HAdV-3 7509310065_B

description: whole blood


title: whole blood-GAS-13 5863972152_F

description: whole blood

value: GAS


title: whole blood-healthy-6 5863972138_G

description: whole blood


title: whole blood-healthy-10 5863972131_F

description: whole blood


title: whole blood-GAS-8 5863972110_F

description: whole blood


title: whole blood-inKD-3 5863972134_F

description: whole blood


title: whole blood-GAS-11 5863972128_K

description: whole blood


title: whole blood-GAS/SF-1 5863972122_J

description: whole blood


title: whole blood-GAS-9 5863972113_G

description: whole blood


title: whole blood-GAS-12 5863972145_A

description: whole blood


title: whole blood-GAS-7 5863972105_I

description: whole blood


title: whole blood-GAS-5 5863972137_D

description: whole blood


title: whole blood-GAS-3 5863972121_F

description: whole blood


title: whole blood-cKD-51 5863972137_G

description: whole blood

value: cKD


title: whole blood-cKD-52 5863972139_F

description: whole blood

value: whole blood


title: whole blood-cKD-47 5863972135_D

description: whole blood


title: whole blood-cKD-54 5863972146_K

description: whole blood


title: whole blood-GAS-2 5863972113_E

description: whole blood


title: whole blood-GAS-1 5863972107_G

description: whole blood


title: whole blood-cKD-50 5863972136_D

description: whole blood


title: whole blood-cKD-57 5863972151_B

description: whole blood


title: whole blood-cKD-45 5863972133_H

description: whole blood


title: whole blood-cKD-49 5863972135_H

description: whole blood


title: whole blood-GAS-6 5863972150_G

description: whole blood


title: whole blood-cKD-44 5863972133_A

description: whole blood


title: whole blood-cKD-48 5863972135_F

description: whole blood


title: whole blood-cKD-42 5863972132_B

description: whole blood


title: whole blood-GAS-4 5863972128_A

description: whole blood


title: whole blood-cKD-53 5863972141_C

description: whole blood


title: whole blood-cKD-56 5863972150_B

description: whole blood


title: whole blood-cKD-55 5863972147_B

description: whole blood


title: whole blood-cKD-43 5863972132_D

description: whole blood


title: whole blood-cKD-41 5863972130_H

description: whole blood


title: whole blood-cKD-37 5863972121_K

description: whole blood


title: whole blood-cKD-39 5863972129_F

description: whole blood


title: whole blood-cKD-46 5863972134_J

description: whole blood


title: whole blood-cKD-35 5863972117_F

description: whole blood


title: whole blood-cKD-40 5863972129_K

description: whole blood


title: whole blood-cKD-38 5863972128_L

description: whole blood


title: whole blood-cKD-34 5863972116_J

description: whole blood


title: whole blood-cKD-31 5863972111_E

description: whole blood


title: whole blood-cKD-33 5863972112_B

description: whole blood


title: whole blood-cKD-29 5863972105_K

description: whole blood


title: whole blood-cKD-28 5863972105_E

description: whole blood


title: whole blood-cKD-25 5863972103_L

description: whole blood


title: whole blood-cKD-24 5863972152_E

description: whole blood


title: whole blood-cKD-30 5863972110_L

description: whole blood


title: whole blood-cKD-27 5863972103_C

description: whole blood


title: whole blood-cKD-32 5863972111_I

description: whole blood


title: whole blood-cKD-22 5863972150_F

description: whole blood


title: whole blood-cKD-18 5863972141_J

description: whole blood


title: whole blood-cKD-16 5863972130_A

description: whole blood


title: whole blood-cKD-20 5863972147_C

description: whole blood


title: whole blood-cKD-15 5863972129_B

description: whole blood


title: whole blood-cKD-19 5863972146_L

description: whole blood


title: whole blood-cKD-13 5863972125_A

description: whole blood


title: whole blood-cKD-12 5863972124_I

description: whole blood


title: whole blood-cKD-11 5863972122_H

description: whole blood


title: whole blood-cKD-10 5863972122_G

description: whole blood


title: whole blood-cKD-8 5863972120_H

description: whole blood


title: whole blood-cKD-9 5863972121_H

description: whole blood


title: whole blood-cKD-26 5863972101_J

description: whole blood


title: whole blood-cKD-36 5863972117_L

description: whole blood


title: whole blood-cKD-14 5863972125_K

description: whole blood


title: whole blood-cKD-5 5863972116_L

description: whole blood


title: whole blood-cKD-2 5863972112_L

description: whole blood


title: whole blood-cKD-3 5863972114_D

description: whole blood


title: whole blood-cKD-4 5863972114_L

description: whole blood


title: whole blood-HAdV-9 5863972111_G

description: whole blood

value: HAdV


title: whole blood-GAS-10 5863972124_E

description: whole blood


title: whole blood-HAdV-8 5863972152_L

description: whole blood


title: whole blood-cKD-23 5863972151_I

description: whole blood


title: whole blood-cKD-1 5863972107_L

description: whole blood


title: whole blood-cKD-7 5863972117_J

description: whole blood


title: whole blood-cKD-17 5863972131_C

description: whole blood


title: whole blood-cKD-21 5863972148_E

description: whole blood


title: whole blood-HAdV-5 5863972094_D

description: whole blood


title: whole blood-HAdV-7 5863972138_L

description: whole blood


title: whole blood-HAdV-4 5863972153_L

description: whole blood


title: whole blood-HAdV-3 5863972144_F

description: whole blood


title: whole blood-HAdV-6 5863972112_I

description: whole blood


title: whole blood-HAdV-2 5863972138_C

description: whole blood


title: whole blood-cKD-6 5863972117_C

description: whole blood


title: whole blood-HAdV-1 5863972112_C

description: whole blood


title: Monocytes_RMPI 2%FBS +CCCP

status: Public on Apr 07 2016

data_processing: Fluorescent hybridization signals were assessed with Beadstudio software (Illumina).

source_name: Monocytes_RMPI 2%FBS +CCCP

extract_protocol: Blood from healthy donors was collected in ACD tubes (BD Vacutainer). Neutrophils were then immediately isolated as previously described (Garcia-Romo et al., 2011). All neutrophil cultures were carried out in complete RPMI supplemented with 2% FBS at cell density 1.25 millions cells/500 μl. Monocytes were obtained from healthy PBMC after magnetic enrichment using negative selection (Stem Cell Technology). Cells were cultured with medium or CCCP (25 μM) for 60 min and then lysed with RLT Lysis Buffer (Qiagen). Total RNA was isolated using the RNeasy kit (Qiagen).

tag: tissue type

value: Fraction V

tag: collection method

value: Magnetic sorting

tag: cell population

value: Monocytes

tag: cell count

value: 2.5 millions

tag: culture conditions

value: RMPI 2%FBS +CCCP

tag: time point

value: 60 MIN


title: Monocytes_RMPI 2%FBS

source_name: Monocytes_RMPI 2%FBS

value: RMPI 2%FBS


title: whole blood-SLE-337-V3-SLE-1

status: Public on Mar 31 2016

description: Sample name: 7196801066_A

data_processing: 24 healthy controls were run in both training and test sets (48 total samples, 24 of which are technical replicates). A ratio of (mean test/mean training) was calculated for each probe from the raw data. All training set samples were adjusted by that ratio.

source_name: whole blood,SLE-337,V3,SLE

value: FALSE

tag: subject

tag: visit

tag: set

value: Training

tag: disease state

value: SLE

value: F

tag: age

value: Whole Blood

value: Non-proliferative

value: Data Not Available

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

tag: mch

tag: mchc

tag: rdw

tag: mpv

tag: cr

tag: alb

tag: ast

tag: alt

tag: ald

tag: ldh

tag: treatment

value: CIV

tag: sledai

tag: mdg

tag: seizure

tag: psychosis

tag: cva

tag: vasculitis

tag: arthritis

tag: myositis

tag: hematuria

tag: proteinuria

tag: pyuria

tag: alopecia

tag: pleurisy

tag: pericarditis

tag: fever

tag: thrombocytopenia

tag: leukopenia

tag: renal

tag: musculoskeletal

tag: serology

value: Serology

value: NoLN

tag: tissue


title: whole blood-SLE-340-V1-SLE-1

description: Sample name: 7196801065_J

source_name: whole blood,SLE-340,V1,SLE

tag: batch

tag: subject

tag: visit

tag: set

tag: disease state

tag: gender

tag: race

value: C

tag: age

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

tag: mch

tag: mchc

tag: rdw

tag: mpv

tag: cr

tag: alb

tag: ast

tag: alt

tag: ald

tag: ldh

tag: treatment

value: No Treatment

value: NT

tag: sledai

tag: mdg

tag: seizure

tag: psychosis

tag: cva

value: Global

value: whole blood


title: whole blood-SLE-323-V4-SLE-1

description: Sample name: 7196801066_I

source_name: whole blood,SLE-323,V4,SLE

tag: batch

tag: subject

tag: visit

tag: set

tag: disease state

tag: gender

value: M

tag: race

value: AA

tag: age

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

value: Oral Steroid

value: OS

tag: vasculitis

tag: arthritis

tag: myositis

tag: hematuria

tag: proteinuria

tag: pyuria

tag: alopecia

tag: pleurisy

tag: pericarditis

tag: fever

tag: thrombocytopenia

tag: leukopenia

tag: renal

tag: musculoskeletal

tag: serology

tag: tissue


title: whole blood-SLE-321-V1-SLE-1

description: Sample name: 7196801066_F

source_name: whole blood,SLE-321,V1,SLE

tag: batch

value: FALSE

tag: subject

tag: visit

tag: set

value: Training

tag: disease state

value: SLE

tag: gender

tag: race

tag: age

value: Proliferative

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

tag: mch

tag: mchc

tag: rdw

tag: mpv

tag: cr

tag: alb

tag: ast

tag: alt

tag: ald

tag: ldh

tag: treatment

tag: sledai

tag: mdg

tag: seizure

tag: psychosis

tag: cva

value: Renal

value: Prolif


title: Neutrophils _RMPI 2%FBS

source_name: Neutrophils _RMPI 2%FBS

tag: tissue type

value: Blood

tag: collection method

value: Dextran Isolation

tag: cell population

value: Neutrophils

tag: cell count

value: 2.5 millions

tag: culture conditions

value: RMPI 2%FBS

tag: time point

value: 60 MIN


title: whole blood-SLE-341-V1-SLE-1

description: Sample name: 7196801066_B

source_name: whole blood,SLE-341,V1,SLE

tag: batch

tag: subject

tag: visit

tag: set

tag: disease state

tag: gender

value: F

tag: race

tag: age

value: Whole Blood

value: NoLN

value: Data Not Available

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

tag: mch

tag: mchc

tag: rdw

tag: mpv

tag: cr

tag: alb

value: No Treatment

value: NT

tag: vasculitis

tag: arthritis

tag: myositis

tag: hematuria

tag: proteinuria

tag: pyuria

tag: alopecia

tag: pleurisy

tag: pericarditis

tag: fever

tag: thrombocytopenia

tag: leukopenia

tag: renal

tag: musculoskeletal

tag: serology

value: Musculoskeletal

tag: tissue

value: whole blood


title: whole blood-SLE-313-V8-SLE-1

description: Sample name: 7196801065_F

source_name: whole blood,SLE-313,V8,SLE

tag: batch

value: FALSE

tag: subject

tag: visit

tag: set

value: Training

tag: disease state

value: SLE

tag: gender

tag: race

value: AA

tag: age

value: Proliferative

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

tag: mch

tag: mchc

tag: rdw

tag: mpv

tag: cr

tag: alb

tag: ast

tag: alt

tag: ald

tag: ldh

tag: treatment

value: MMF

tag: sledai

tag: mdg

tag: seizure

tag: psychosis

tag: cva


title: whole blood-SLE-321-V4-SLE-1

description: Sample name: 7196801066_G

source_name: whole blood,SLE-321,V4,SLE

tag: batch

tag: subject

tag: visit

tag: set

tag: disease state

tag: gender

tag: race

tag: age

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

value: Oral Steroid

value: OS

tag: vasculitis

tag: arthritis

tag: myositis

tag: hematuria

tag: proteinuria

tag: pyuria

tag: alopecia

tag: pleurisy

tag: pericarditis

tag: fever

tag: thrombocytopenia

tag: leukopenia

tag: renal

tag: musculoskeletal

tag: serology

value: Serology

tag: tissue


title: whole blood-SLE-319-V1-SLE-1

description: Sample name: 7196801065_H

source_name: whole blood,SLE-319,V1,SLE

tag: batch

tag: subject

tag: visit

tag: set

tag: disease state

tag: gender

value: F

tag: race

value: C

tag: age

value: Non-proliferative

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

tag: mch

tag: mchc

tag: rdw

tag: mpv

tag: cr

tag: alb

tag: ast

tag: alt

tag: ald

tag: ldh

tag: treatment

tag: sledai

tag: mdg

tag: seizure

tag: psychosis

tag: cva


title: whole blood-SLE-340-V3-SLE-1

description: Sample name: 7196801065_A

source_name: whole blood,SLE-340,V3,SLE

tag: batch

tag: subject

tag: visit

tag: set

tag: disease state

tag: gender

tag: race

tag: age

value: Whole Blood

value: Data Not Available

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

value: Plaquenil

value: HC

tag: vasculitis

tag: arthritis

tag: myositis

tag: hematuria

tag: proteinuria

tag: pyuria

tag: alopecia

tag: pleurisy

tag: pericarditis

tag: fever

tag: thrombocytopenia

tag: leukopenia

tag: renal

tag: musculoskeletal

tag: serology

value: NoLN

tag: tissue


title: whole blood-SLE-321-V2-SLE-1

description: Sample name: 7196801067_D

source_name: whole blood,SLE-321,V2,SLE

tag: batch

value: FALSE

tag: subject

tag: visit

tag: set

tag: disease state

tag: gender

tag: race

tag: age

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

tag: mch

tag: mchc

tag: rdw

tag: mpv

tag: cr

tag: alb

tag: ast

tag: alt

tag: ald

tag: ldh

tag: treatment

tag: sledai

tag: mdg

tag: seizure

tag: psychosis

tag: cva

value: Renal

value: Prolif

value: whole blood


title: whole blood-SLE-308-V3-SLE-1

description: Sample name: 7196801060_K

source_name: whole blood,SLE-308,V3,SLE

tag: batch

tag: subject

tag: visit

tag: set

value: Training

tag: disease state

value: SLE

tag: gender

tag: race

value: H

tag: age

value: Proliferative

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

value: CIV

tag: vasculitis

tag: arthritis

tag: myositis

tag: hematuria

tag: proteinuria

tag: pyuria

tag: alopecia

tag: pleurisy

tag: pericarditis

tag: fever

tag: thrombocytopenia

tag: leukopenia

tag: renal

tag: musculoskeletal

tag: serology

tag: tissue


title: whole blood-SLE-321-V5-SLE-1

description: Sample name: 7196801066_E

source_name: whole blood,SLE-321,V5,SLE

tag: batch

tag: subject

tag: visit

tag: set

tag: disease state

tag: gender

value: F

tag: race

value: AA

tag: age

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

tag: mch

tag: mchc

tag: rdw

tag: mpv

tag: cr

tag: alb

tag: ast

tag: alt

tag: ald

tag: ldh

tag: treatment

value: Oral Steroid

value: OS

tag: sledai

tag: mdg

tag: seizure

tag: psychosis

tag: cva

value: Serology


title: whole blood-SLE-333-V3-SLE-1

description: Sample name: 7196801062_H

source_name: whole blood,SLE-333,V3,SLE

tag: batch

tag: subject

tag: visit

tag: set

tag: disease state

tag: gender

tag: race

tag: age

value: Whole Blood

value: Data Not Available

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

tag: vasculitis

tag: arthritis

tag: myositis

tag: hematuria

tag: proteinuria

tag: pyuria

tag: alopecia

tag: pleurisy

tag: pericarditis

tag: fever

tag: thrombocytopenia

tag: leukopenia

tag: renal

tag: musculoskeletal

tag: serology

tag: tissue


title: Neutrophils _RMPI 2%FBS +CCCP

source_name: Neutrophils _RMPI 2%FBS +CCCP

tag: tissue type

value: Blood

tag: collection method

value: Dextran Isolation

tag: cell population

value: Neutrophils

tag: cell count

value: 2.5 millions

tag: culture conditions

value: RMPI 2%FBS +CCCP

tag: time point

value: 60 MIN


title: whole blood-SLE-345-V1-SLE-1

description: Sample name: 7196801059_L

source_name: whole blood,SLE-345,V1,SLE

tag: batch

value: FALSE

tag: subject

tag: visit

tag: set

value: Training

tag: disease state

value: SLE

tag: gender

tag: race

tag: age

value: Non-proliferative

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

tag: mch

tag: mchc

tag: rdw

tag: mpv

tag: cr

tag: alb

tag: ast

tag: alt

tag: ald

tag: ldh

tag: treatment

tag: sledai

tag: mdg

tag: seizure

tag: psychosis

tag: cva

tag: vasculitis

tag: arthritis

tag: myositis

tag: hematuria

tag: proteinuria

tag: pyuria

value: NoLN

value: whole blood


title: whole blood-SLE-313-V5-SLE-1

description: Sample name: 7196801067_F

source_name: whole blood,SLE-313,V5,SLE

tag: batch

tag: subject

tag: visit

tag: set

tag: disease state

tag: gender

value: F

tag: race

value: AA

tag: age

value: Proliferative

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

tag: mch

tag: mchc

tag: rdw

tag: mpv

tag: cr

tag: alb

value: Oral Steroid

tag: alopecia

tag: pleurisy

tag: pericarditis

tag: fever

tag: thrombocytopenia

tag: leukopenia

tag: renal

tag: musculoskeletal

tag: serology

tag: tissue


title: whole blood-SLE-304-V7-SLE-1

description: Sample name: 7196801062_J

source_name: whole blood,SLE-304,V7,SLE

tag: batch

tag: subject

tag: visit

tag: set

tag: disease state

tag: gender

tag: race

value: H

tag: age

value: Whole Blood

value: Data Not Available

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

tag: ast

tag: alt

tag: ald

tag: ldh

tag: treatment

value: OS

tag: sledai

tag: mdg

tag: seizure

tag: psychosis

tag: cva

tag: vasculitis

tag: arthritis

tag: myositis

tag: hematuria

tag: proteinuria

tag: pyuria

value: Musculoskeletal


title: whole blood-SLE-334-V2-SLE-1

description: Sample name: 7196801062_E

source_name: whole blood,SLE-334,V2,SLE

tag: batch

tag: subject

tag: visit

tag: set

tag: disease state

tag: gender

tag: race

value: C

tag: age

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

tag: mch

tag: mchc

tag: rdw

tag: mpv

tag: cr

tag: alb

value: CIV

tag: alopecia

tag: pleurisy

tag: pericarditis

tag: fever

tag: thrombocytopenia

tag: leukopenia

tag: renal

tag: musculoskeletal

tag: serology

tag: tissue


title: whole blood-SLE-346-V2-SLE-1

description: Sample name: 7196801060_G

source_name: whole blood,SLE-346,V2,SLE

tag: batch

value: FALSE

tag: subject

tag: visit

tag: set

tag: disease state

tag: gender

tag: race

tag: age

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

tag: ast

tag: alt

tag: ald

tag: ldh

tag: treatment

tag: sledai

tag: mdg

tag: seizure

tag: psychosis

tag: cva

tag: vasculitis

tag: arthritis

tag: myositis

tag: hematuria

tag: proteinuria

tag: pyuria

value: Renal

value: Prolif


title: whole blood-SLE-340-V2-SLE-1

description: Sample name: 7196801065_I

source_name: whole blood,SLE-340,V2,SLE

tag: batch

tag: subject

tag: visit

tag: set

value: Training

tag: disease state

value: SLE

tag: gender

tag: race

tag: age

value: Non-proliferative

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

tag: mch

tag: mchc

tag: rdw

tag: mpv

tag: cr

tag: alb

tag: alopecia

tag: pleurisy

tag: pericarditis

tag: fever

tag: thrombocytopenia

tag: leukopenia

tag: renal

tag: musculoskeletal

tag: serology

tag: tissue


title: whole blood-SLE-349-V1-SLE-1

description: Sample name: 7196801059_H

source_name: whole blood,SLE-349,V1,SLE

tag: batch

tag: subject

tag: visit

tag: set

tag: disease state

tag: gender

value: F

tag: race

tag: age

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

tag: ast

tag: alt

tag: ald

tag: ldh

tag: treatment

value: MMF

tag: sledai

tag: mdg

tag: seizure

tag: psychosis

tag: cva

tag: vasculitis

tag: arthritis

tag: myositis

tag: hematuria

tag: proteinuria

tag: pyuria

value: Serology

value: NoLN

value: whole blood


title: whole blood-SLE-313-V4-SLE-1

description: Sample name: 7196801059_C

source_name: whole blood,SLE-313,V4,SLE

tag: batch

tag: subject

tag: visit

tag: set

tag: disease state

tag: gender

tag: race

value: AA

tag: age

value: Whole Blood

value: Proliferative

tag: wbc

tag: esr

tag: hgb

tag: hct

tag: mcv

tag: mch

tag: mchc

tag: rdw

tag: mpv

tag: cr

tag: alb

value: Oral Steroid

tag: alopecia

tag: pleurisy

tag: pericarditis

tag: fever

tag: thrombocytopenia

tag: leukopenia

tag: renal

tag: musculoskeletal

tag: serology

tag: tissue