title: PT212 PBMC 21pi

status: Public on May 22 2015

city: Baltimore

first: Lucio

last: Gama

state: MD - EUA

address: 733 N Broadway St - BRB 831

department: Molecular and Comparative Pathobiology

institute: Johns Hopkins School of Medicine

description:
PT212PBMC
Pigtailed macaque PT212 - PBMC mRNA - SIV-infected sacrificed at 21 days p.i.

hyb_protocol: Samples were hybridized according to NanoString's protocol.

scan_protocol: Samples were scanned according to NanoString's protocol.

data_processing: We are presenting only raw data. Data analysis was performed in different ways and presented in the linked paper.

label: Alexa 488, Alexa 594, Alexa 647, Cy3

organism: Macaca nemestrina

label_protocol: The nCounter Macaque Inflammatory Genes GAMA CodeSet (NanoString Technologies, Seattle, WA, USA) was used. Samples were labeled according to NanoString's protocol.

growth_protocol: Twenty juvenile pigtailed macaques (Macaca nemestrina) were dual-inoculated with the molecular clone SIV/17E-Fr and the immunosuppressive swarm SIV/DeltaB670. Groups of six infected macaque were euthanized at 4, 7, and 14 days post infection (p.i.), and two animals were euthanized at 21 days p.i. Four animals were mock-inoculated and used as uninfected controls. Assigned veterinarians and trained technicians monitored the animals twice daily for signs of distress, including diarrhea, weight loss, and opportunistic infections. Macaques were housed in facilities that are fully accredited by the Association for the Assessment and Accreditation of Laboratory Animal Care, International (AAALAC), and fed a balanced commercial macaque chow (Purina Mills). Throughout the experiments, animals were housed in cages providing 6 square feet of space with visual and auditory contact of conspecifics, and received environmental enrichment, such as manipulanda and novel foodstuffs. Before euthanasia, all macaques were perfused with sterile saline solution. Organs, including spleen and mesenteric lymph node (MLN), were harvested, sectioned, and frozen at -80C. Blood was collected for the isolation of peripheral blood mononuclear cells (PBMC) using a Percoll protocol (GE Healthcare Life Sciences, Pittsburgh, USA), and cell pellets were frozen and stored at -80C. All animal studies were approved by the Johns Hopkins University Institutional Care and Use Committee, and all procedures followed the guidelines of the Weatherall Report, the USDA Animal Welfare Act, and the Guide for the Care and Use of Laboratory Animals.

extract_protocol: Total RNA was isolated from frozen spleen, MLN, and PBMCs using the RNeasy kit (Qiagen, Valencia, CA, USA), according to the manufacturer’s protocol. Samples were eluted in 60 µL of RNase-free water and frozen at -80oC until time to be analyzed.

tag: infected with

value: two SIV strains; SIV/17E-Fr and the swarm SIV/DeltaB670

value: Peripheral blood mononuclear cells (PBMCs)

tag: days post infection (dpi)


title: PT211 PBMC 21pi

type: RNA

country: USA

description:
PT211PBMC
Pigtailed macaque PT211 - PBMC mRNA - SIV-infected sacrificed at 21 days p.i.

molecule: total RNA

tag: tissue


title: PT143 PBMC 14pi

description:
PT143PBMC
Pigtailed macaque PT143 - PBMC mRNA - SIV-infected sacrificed at 14 days p.i.


title: PT145 PBMC 14pi

description:
PT145PBMC
Pigtailed macaque PT145 - PBMC mRNA - SIV-infected sacrificed at 14 days p.i.


title: PT144 PBMC 14pi

description:
PT144PBMC
Pigtailed macaque PT144 - PBMC mRNA - SIV-infected sacrificed at 14 days p.i.


title: PT146 PBMC 14pi

description:
PT146PBMC
Pigtailed macaque PT146 - PBMC mRNA - SIV-infected sacrificed at 14 days p.i.


title: 54557402

status: Public on May 23 2015

city: Vairao

first: Antonio

last: Muñoz

state: Porto

address: Rua Padre Armando Quintas, 7 (Campus Agrario)

country: Portugal

institute: CIBIO-InBIO (University of Porto)

description: Roots from Olea europaea taken at 6 months of growth

hyb_protocol: Hybridization was performed by NimbleGen Systems Inc., Madison, WI, USA following their standard operating protocol. See www.nimblegen.com.

scan_protocol: Scanning was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.

data_processing: The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249), quantile normalization (Bolstad et al. Bioinformatics 19(2):185), and background correction as implemented in the NimbleScan software package, version 2.4.27 (Roche NimbleGen, Inc.).

molecule: polyA RNA

organism: Olea europaea

source_name: 6-months e

label_protocol: PolyA RNA was obtained and labeling was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com

growth_protocol: 21 seedlings originating from open pollination of olive cultivar ‘Arbequina’ were grown in a greenhouse in Centro IFAPA “Churriana” Málaga, Spain. At the sixth month the apical shoot was removed and kept for genomic analysis. Any lateral shoot was removed to force the growth along just one axis.  Roots samples were obtained from seedling and adult trees from the previous breeding program. Juvenile samples were taken from 9 two-month-old seedling plants from a “Picual x Arbequina” cross. Adult samples were taken from six-month old plants coming from vegetative propagation of adult “Picual” and “Arbequina” trees. Both types of plants had similar size at the time of sampling. The root and meristem samples were all taken in early spring.

extract_protocol: 1 cm long apical-shoot tips of olive seedlings were taken every three months, starting at the sixth month and frozen in liquid nitrogen. Tissues were homogenized with a mixer mill MM 400 (Retsch). Total RNA was extracted and purified from samples by TRIzol® Reagent (Invitrogen Corporation, Carlsbad, CA, USA) and treated with DNase I RNase free (Roche, Basel, Switzerland). Finally, total RNA was purified with the RNeasy Mini Kit® (Quiagen) and quantified by spectrophotometry with a Take3 Synergy HT spectrophotometer (Bio-Tek) and stored at -80°C until used.

treatment_protocol: Every three months a new (1 cm long) apical-shoot tip was taken, which included the meristem down to two very small young leaves. When the apical-shoot tip is removed the two lateral buds immediately below are activated, one of them is removed, and the other one becomes the new apical-shoot tip. Seedlings reaching 50 nodes or 1 m high were allowed to form a top canopy. From then, the samples were taken from apical shoots of higher branches.

tag: cultivar

value: Picual X Arbequina

value: root

tag: collection time

value: 6 months


title: Mec1_SLAMF1sh_rep2

city: Turin

first: SILVIA

last: DEAGLIO

address: Via Nizza 52

department: Medical Sciences

country: Italy

institute: University of Torino & Human Genetics Foundation

hyb_protocol: Standard Illumina hybridization protocol using Whole-Genome Expression Direct Hybridisation kit

scan_protocol: Standard Illumina scanning protocol (iScan System)

data_processing: Detection call for each probe set of the array were obtained with the GenomeStudio Gene Expression Module Software (Illumina) applying a standard quantile normalization

label: biotin

organism: Homo sapiens

label_protocol: Biotinylated cRNA were prepared with the Illumina® TotalPrep RNA Amplification Kit

extract_protocol: RNA was extracted from purified leukemic cells with QIAGEN RNeasy mini kit in accordance with the prescribed protocol provided with the kit. Quality control was performed with Agilent Bioanalyser.

tag: cell line

tag: cell type

value: CLL-like Mec-1 cell line (constitutively SLAMF1+)

tag: transfected with

value: SLAMF1 shRNA


title: 54557502

source_name: 6-months f


title: DQS4

type: genomic

city: Changsha

first: Jing

last: Cong

address: Yuelushan

country: China

institute: Central South University

description: GeoChip data for soil sample collected at about N40°, replicate 4

hyb_protocol: Then DNA was dried in a SpeedVac (ThermoSavant, Milford, MA, USA) at 45°C for 45 minutes.The dried DNA was rehydrated with 13 μL of DNase/RNase-free distilled water, mixed completely, and then centrifuged to collect all liquid at the bottom of the tube. A total of 42 μL of buffer, including 1×HI-RPM hybridization buffer,1×aCGH blocking agent, 0.05 μg/μL Cot-1 DNA, 10 pM universal standard, and 10% formamide (final concentrations), was added to each sample. After mixing completely, the solution was spun down and incubated at 95°C for 3 min, then incubated at 37°C for 30 min. The prepared samples were hybridized with GeoChip 5.0 arrays (60 K) at 67°C for 24 h with a rotation at 20 rpm in a hybridization oven.

scan_protocol: After purification, GeoChip microarrays were scanned by a NimbleGen MS200 scanner (Roche, Madison, WI, USA) at 633 nm using a laser power and photomultiplier tube (PMT) gain of 100% and 75%, respectively.

data_processing: The scanned images of hybridized GeoChips were converted and extracted using Agilent Feature Extraction 11.5 software (Agilent Technologies, Inc., CA, USA). Signal intensities were quantified and processed using the data analysis pipeline as previously described (He et al 2010). Then processed GeoChip data were analyzed using the following steps: (i) remove the poor quality spots, which were flagged as 1 or 3 by ImaGene or with a signal to noise ratio (SNR) of less than 2.0; (ii) normalize the signal intensity of each spot by dividing the signal intensity by the total intensity of the microarray followed by multiplying by a constant; (iii) transform the data to the natural logarithmic form; and (iv)  remove genes detected in at least two out of ten samples from the same site.

molecule: genomic DNA

organism: Bacteria

source_name: Soil microbes along the latitudinal gradient

label_protocol: As previously described (Qingyun Yan et al 2013), DNA samples were labeled with the fluorescent dye Cy3 using a random priming method and purified using the QIA quick purification kit (Qiagen, Valencia, CA, USA) and then dried in a SpeedVac (Thermo Savant, NY, USA).

extract_protocol: Soil genomic DNA was extracted using a FastDNA spin kit for soil (MP Biomedical, Carlsbad, CA, USA) following the manufacturer’s instructions. To purify it, DNA extract was mixed with 2.5 volume of 100% ice cold ethanol and 0.1 volume of 3 M NaOAc (pH 5.2) prior to overnight incubation at -20°C. DNA was precipitated by centrifugation for 30 minutes at 13,000 x g. Then supernatant was decanted and washed with 1 ml of 70% ethanol. DNA was air-dried and dissolved in 50 µl of nuclease-free water. DNA quality and quantity were measured using NanoDrop ND-1000 Spectrophotometer (NanoDrop Technologies Inc., Wilmington, DE, USA) and with PicoGreen (Ahn et al 1996) using a FLUOstar Optima (BMG Labtech, Jena, Germany), respectively.

treatment_protocol: From August to November 2012, soil samples were collected from all of the plots. Ten soil cores at a depth of 0-10 cm were randomly taken from each plot and mixed thoroughly to generate a soil sample representing the plot. Soil samples were kept on ice when transporting to laboratory, and sieved with 2 mm mesh to remove roots and stones. Soil samples were preserved at -80°C before DNA extraction.

tag: different latitudes


title: DQS6

description: GeoChip data for soil sample collected at about N40°, replicate 6


title: DQS8

description: GeoChip data for soil sample collected at about N40°, replicate 8


title: PT141 PBMC 14pi

description:
PT141PBMC
Pigtailed macaque PT141 - PBMC mRNA - SIV-infected sacrificed at 14 days p.i.


title: PT142 PBMC 14pi

description:
PT142PBMC
Pigtailed macaque PT142 - PBMC mRNA - SIV-infected sacrificed at 14 days p.i.


title: Mec1_CTRLsh_rep2

value: scrambled shRNA (control)


title: DQS3

description: GeoChip data for soil sample collected at about N40°, replicate 3


title: 54557302

source_name: 6-months d


title: 54556302

description: Roots from Olea europaea taken at 2 months of growth

source_name: 2-months d

value: Arbequina

value: 2 months


title: Mec1_CTRLsh_rep3


title: Mec1_SLAMF1sh_rep1


title: 54557002

source_name: 2-months e


title: DQS5

description: GeoChip data for soil sample collected at about N40°, replicate 5


title: Mec1_CTRLsh_rep1


title: 54558002

source_name: 2-months f


title: PT76 PBMC 7pi

description:
PT76PBMC
Pigtailed macaque PT76 - PBMC mRNA - SIV-infected sacrificed at 7 days p.i.


title: DQS2

description: GeoChip data for soil sample collected at about N40°, replicate 2


title: DQS1

description: GeoChip data for soil sample collected at about N40°, replicate 1


title: PT73 PBMC 7pi

description:
PT73PBMC
Pigtailed macaque PT73 - PBMC mRNA - SIV-infected sacrificed at 7 days p.i.


title: PT75 PBMC 7pi

description:
PT75PBMC
Pigtailed macaque PT75 - PBMC mRNA - SIV-infected sacrificed at 7 days p.i.


title: PT74 PBMC 7pi

description:
PT74PBMC
Pigtailed macaque PT74 - PBMC mRNA - SIV-infected sacrificed at 7 days p.i.


title: PT71 PBMC 7pi

description:
PT71PBMC
Pigtailed macaque PT71 - PBMC mRNA - SIV-infected sacrificed at 7 days p.i.


title: PT45 PBMC 4pi

description:
PT45PBMC
Pigtailed macaque PT45 - PBMC mRNA - SIV-infected sacrificed at 4 days p.i.


title: PT72  PBMC 7pi

description:
PT72PBMC
Pigtailed macaque PT72  - PBMC mRNA - SIV-infected sacrificed at 7 days p.i.


title: PT44 PBMC 4pi

description:
PT44PBMC
Pigtailed macaque PT44 - PBMC mRNA - SIV-infected sacrificed at 4 days p.i.


title: PT04 PBMC 0pi

description:
PT04PBMC
Pigtailed macaque PT04 - PBMC mRNA uninfected

value: none (mock control)


title: PT146 MLN 14pi

description:
PT146MLN
Pigtailed macaque PT146 - mesenteric lymph node mRNA - SIV-infected sacrificed at 14 days p.i.

value: mesenteric lymph node (MLN)


title: PT41 PBMC 4pi

description:
PT41PBMC
Pigtailed macaque PT41 - PBMC mRNA - SIV-infected sacrificed at 4 days p.i.


title: PT212 MLN 21pi

description:
PT212MLN
Pigtailed macaque PT212 - mesenteric lymph node mRNA - SIV-infected sacrificed at 21 days p.i.


title: PT46 PBMC 4pi

description:
PT46PBMC
Pigtailed macaque PT46 - PBMC mRNA - SIV-infected sacrificed at 4 days p.i.


title: PT42 PBMC 4pi

description:
PT42PBMC
Pigtailed macaque PT42 - PBMC mRNA - SIV-infected sacrificed at 4 days p.i.


title: PT01 PBMC 0pi

description:
PT01PBMC
Pigtailed macaque PT01 - PBMC mRNA uninfected


title: PT02 PBMC 0pi

description:
PT02PBMC
Pigtailed macaque PT02 - PBMC mRNA uninfected


title: PT211 MLN 21pi

description:
PT211MLN
Pigtailed macaque PT211 - mesenteric lymph node mRNA - SIV-infected sacrificed at 21 days p.i.


title: PT03 PBMC 0pi

description:
PT03PBMC
Pigtailed macaque PT03 - PBMC mRNA uninfected


title: PT76 MLN 7pi

description:
PT76MLN
Pigtailed macaque PT76 - mesenteric lymph node mRNA - SIV-infected sacrificed at 7 days p.i.


title: PT141 MLN 14pi

description:
PT141MLN
Pigtailed macaque PT141 - mesenteric lymph node mRNA - SIV-infected sacrificed at 14 days p.i.


title: Mec1_SLAMF1sh_rep3


title: PT143 MLN 14pi

description:
PT143MLN
Pigtailed macaque PT143 - mesenteric lymph node mRNA - SIV-infected sacrificed at 14 days p.i.


title: PT145 MLN 14pi

description:
PT145MLN
Pigtailed macaque PT145 - mesenteric lymph node mRNA - SIV-infected sacrificed at 14 days p.i.


title: PT144 MLN 14pi

description:
PT144MLN
Pigtailed macaque PT144 - mesenteric lymph node mRNA - SIV-infected sacrificed at 14 days p.i.


title: PT74 MLN 7pi

description:
PT74MLN
Pigtailed macaque PT74 - mesenteric lymph node mRNA - SIV-infected sacrificed at 7 days p.i.


title: PT43 PBMC 4pi

description:
PT43PBMC
Pigtailed macaque PT43 - PBMC mRNA - SIV-infected sacrificed at 4 days p.i.


title: HLS10

description: GeoChip data for soil sample collected at about N35°, replicate 10


title: PT75 MLN 7pi

description:
PT75MLN
Pigtailed macaque PT75 - mesenteric lymph node mRNA - SIV-infected sacrificed at 7 days p.i.


title: PT73 MLN 7pi

description:
PT73MLN
Pigtailed macaque PT73 - mesenteric lymph node mRNA - SIV-infected sacrificed at 7 days p.i.


title: PT71 MLN 7pi

description:
PT71MLN
Pigtailed macaque PT71 - mesenteric lymph node mRNA - SIV-infected sacrificed at 7 days p.i.


title: PT72  MLN 7pi

description:
PT72MLN
Pigtailed macaque PT72  - mesenteric lymph node mRNA - SIV-infected sacrificed at 7 days p.i.


title: PT45 MLN 4pi

description:
PT45MLN
Pigtailed macaque PT45 - mesenteric lymph node mRNA - SIV-infected sacrificed at 4 days p.i.


title: PT46 MLN 4pi

description:
PT46MLN
Pigtailed macaque PT46 - mesenteric lymph node mRNA - SIV-infected sacrificed at 4 days p.i.


title: PT44 MLN 4pi

description:
PT44MLN
Pigtailed macaque PT44 - mesenteric lymph node mRNA - SIV-infected sacrificed at 4 days p.i.


title: PT42 MLN 4pi

description:
PT42MLN
Pigtailed macaque PT42 - mesenteric lymph node mRNA - SIV-infected sacrificed at 4 days p.i.


title: PT41 MLN 4pi

description:
PT41MLN
Pigtailed macaque PT41 - mesenteric lymph node mRNA - SIV-infected sacrificed at 4 days p.i.


title: PT142 MLN 14pi

description:
PT142MLN
Pigtailed macaque PT142 - mesenteric lymph node mRNA - SIV-infected sacrificed at 14 days p.i.


title: PT04 MLN 0pi

description:
PT04MLN
Pigtailed macaque PT04 - mesenteric lymph node mRNA uninfected


title: PT146 spleen 14pi

description:
PT146SP
Pigtailed macaque PT146 - spleen mRNA - SIV-infected sacrificed at 14 days p.i.

value: spleen


title: PT212 spleen 21pi

description:
PT212SP
Pigtailed macaque PT212 - spleen mRNA - SIV-infected sacrificed at 21 days p.i.


title: PT03 MLN 0pi

description:
PT03MLN
Pigtailed macaque PT03 - mesenteric lymph node mRNA uninfected


title: PT211 spleen 21pi

description:
PT211SP
Pigtailed macaque PT211 - spleen mRNA - SIV-infected sacrificed at 21 days p.i.


title: PT145 spleen 14pi

description:
PT145SP
Pigtailed macaque PT145 - spleen mRNA - SIV-infected sacrificed at 14 days p.i.


title: PT02 MLN 0pi

description:
PT02MLN
Pigtailed macaque PT02 - mesenteric lymph node mRNA uninfected


title: PT142 spleen 14pi

description:
PT142SP
Pigtailed macaque PT142 - spleen mRNA - SIV-infected sacrificed at 14 days p.i.


title: PT73 spleen 7pi

description:
PT73SP
Pigtailed macaque PT73 - spleen mRNA - SIV-infected sacrificed at 7 days p.i.


title: PT141 spleen 14pi

description:
PT141SP
Pigtailed macaque PT141 - spleen mRNA - SIV-infected sacrificed at 14 days p.i.


title: PT75 spleen 7pi

description:
PT75SP
Pigtailed macaque PT75 - spleen mRNA - SIV-infected sacrificed at 7 days p.i.


title: PT76 spleen 7pi

description:
PT76SP
Pigtailed macaque PT76 - spleen mRNA - SIV-infected sacrificed at 7 days p.i.


title: PT04 spleen 0pi

description:
PT04SP
Pigtailed macaque PT04 - spleen mRNA uninfected


title: SEQC_NB498

type: SRA

city: Shanghai

first: Leming

last: Shi

address: 2005 Songhu Road

department: School of Life Sciences

institute: Fudan University

library_source: transcriptomic

data_processing:
Software used for basecalling are HCS1.4.8+RTA1.12.4.2, HCS1.4.8+RTA1.12.4.2 and HCS1.5+RTA1.13.48.
Sequenced reads were masked for low-complexity or low-quality sequence (entropy < 15), then mapped to the genome, the RefSeq and AceView 2011 gene models, the mitochondrial genes, the rRNA and RNA genes, the spike-in sequence, and finally the imaginary genome as a mapping specificity control. For each read repair, alignment on all targets, genes or genome, are scored, and only the best scores are kept.
The Magic expression index for the gene is measured as the log base 2 of the number of bases aligned in the gene, divided by the number of terabases aligned in known genes and by the length of the gene, with several corrections. Genes that are not significantly expressed, i.e., with less than 4 reads above the experimental noise level, acquire an N/A flag.
Genome_build: human genome (NCBI 37)
Supplementary_files_format_and_content: tab-delimited text files include index values for each sample

source_name: neuroblastoma

extract_protocol:
30-60mg of snap-frozen neuroblastoma specimen was cryo-sectioned and were homogenized in TRIzol reagent (Invitrogen, Karlsruhe, Germany) using the FastPrep FP120 cell disruptor (Qbiogene, Inc, Carlsbad, CA, USA).Total RNA was isolated following the TRIzol protocol (Invitrogen) and RNA integrity was assessed using the 2100 Bioanalyzer (Agilent, Waldbronn, Germany). Only samples with an RNA Integrity Number >7.5 were taken for further analysis.
Library construction was performed according to the standard TruSeqTM protocol.

treatment_protocol: All neuroblastoma samples of this set were obtained prior to any cytotoxic treatment and were snap-frozen immediately after surgery. Prior to RNA extraction tumor cell content was checked by a pathologist and only samples with >60% tumor content were processed further.

value: neuroblastoma

tag: dataset

tag: Sex

value: F

tag: age at diagnosis

tag: mycn status

tag: high risk

tag: inss stage

tag: class label

tag: progression

tag: death from disease


title: PT143 spleen 14pi

description:
PT143SP
Pigtailed macaque PT143 - spleen mRNA - SIV-infected sacrificed at 14 days p.i.

tag: infected with

tag: days post infection (dpi)


title: PT144 spleen 14pi

description:
PT144SP
Pigtailed macaque PT144 - spleen mRNA - SIV-infected sacrificed at 14 days p.i.

tag: tissue


title: PT46 spleen 4pi

description:
PT46SP
Pigtailed macaque PT46 - spleen mRNA - SIV-infected sacrificed at 4 days p.i.


title: SEQC_NB497


title: PT45 spleen 4pi

description:
PT45SP
Pigtailed macaque PT45 - spleen mRNA - SIV-infected sacrificed at 4 days p.i.


title: PT02 spleen 0pi

description:
PT02SP
Pigtailed macaque PT02 - spleen mRNA uninfected


title: PT44 spleen 4pi

description:
PT44SP
Pigtailed macaque PT44 - spleen mRNA - SIV-infected sacrificed at 4 days p.i.


title: PT03 spleen 0pi

description:
PT03SP
Pigtailed macaque PT03 - spleen mRNA uninfected


title: PT71 spleen 7pi

description:
PT71SP
Pigtailed macaque PT71 - spleen mRNA - SIV-infected sacrificed at 7 days p.i.


title: PT72  spleen 7pi

description:
PT72SP
Pigtailed macaque PT72  - spleen mRNA - SIV-infected sacrificed at 7 days p.i.


title: PT01 MLN 0pi

description:
PT01MLN
Pigtailed macaque PT01 - mesenteric lymph node mRNA uninfected


title: PT43 MLN 4pi

description:
PT43MLN
Pigtailed macaque PT43 - mesenteric lymph node mRNA - SIV-infected sacrificed at 4 days p.i.


title: PT41 spleen 4pi

description:
PT41SP
Pigtailed macaque PT41 - spleen mRNA - SIV-infected sacrificed at 4 days p.i.


title: PT43 spleen 4pi

description:
PT43SP
Pigtailed macaque PT43 - spleen mRNA - SIV-infected sacrificed at 4 days p.i.


title: PT42 spleen 4pi

description:
PT42SP
Pigtailed macaque PT42 - spleen mRNA - SIV-infected sacrificed at 4 days p.i.


title: SEQC_NB496

value: M


title: SEQC_NB492


title: SEQC_NB495


title: SEQC_NB494


title: SEQC_NB491


title: SEQC_NB490


title: SEQC_NB489


title: SEQC_NB487


title: SEQC_NB488


title: PT74 spleen 7pi

description:
PT74SP
Pigtailed macaque PT74 - spleen mRNA - SIV-infected sacrificed at 7 days p.i.


title: SEQC_NB486


title: SEQC_NB485


title: PT01 spleen 0pi

description:
PT01SP
Pigtailed macaque PT01 - spleen mRNA uninfected


title: SEQC_NB484


title: SEQC_NB482


title: SEQC_NB481


title: SEQC_NB480


title: SEQC_NB479


title: SEQC_NB477


title: SEQC_NB476


title: SEQC_NB473


title: SEQC_NB475


title: SEQC_NB493


title: SEQC_NB478


title: SEQC_NB483


title: SEQC_NB471


title: SEQC_NB474


title: SEQC_NB465


title: SEQC_NB470


title: SEQC_NB472


title: SEQC_NB469


title: SEQC_NB466


title: SEQC_NB468


title: SEQC_NB464


title: SEQC_NB460


title: SEQC_NB462


title: SEQC_NB461


title: SEQC_NB467


title: SEQC_NB463


title: SEQC_NB459


title: SEQC_NB457


title: SEQC_NB458


title: SEQC_NB456


title: SEQC_NB455


title: SEQC_NB454


title: SEQC_NB452


title: SEQC_NB453


title: SEQC_NB450


title: SEQC_NB451


title: SEQC_NB449


title: SEQC_NB448


title: SEQC_NB447


title: SEQC_NB445


title: SEQC_NB444


title: SEQC_NB446


title: SEQC_NB442


title: SEQC_NB443


title: SEQC_NB439


title: SEQC_NB441


title: SEQC_NB435


title: SEQC_NB437


title: SEQC_NB438


title: SEQC_NB432


title: SEQC_NB429


title: SEQC_NB433


title: SEQC_NB430


title: SEQC_NB431


title: SEQC_NB428


title: SEQC_NB427


title: SEQC_NB426


title: SEQC_NB425


title: SEQC_NB424


title: SEQC_NB422


title: SEQC_NB423


title: SEQC_NB421


title: SEQC_NB418


title: SEQC_NB417


title: SEQC_NB440


title: SEQC_NB415


title: SEQC_NB414


title: SEQC_NB436


title: SEQC_NB434


title: SEQC_NB413


title: SEQC_NB416


title: SEQC_NB412


title: SEQC_NB411


title: SEQC_NB409


title: SEQC_NB408


title: SEQC_NB410


title: SEQC_NB402


title: SEQC_NB403


title: SEQC_NB407


title: SEQC_NB406


title: SEQC_NB405


title: SEQC_NB401


title: SEQC_NB400


title: SEQC_NB399


title: SEQC_NB398


title: SEQC_NB419


title: SEQC_NB420


title: SEQC_NB397


title: SEQC_NB396


title: SEQC_NB394


title: SEQC_NB393


title: SEQC_NB390


title: SEQC_NB391


title: SEQC_NB395


title: SEQC_NB389


title: SEQC_NB383


title: SEQC_NB382


title: SEQC_NB384


title: SEQC_NB388


title: SEQC_NB392


title: SEQC_NB379


title: SEQC_NB386


title: SEQC_NB380


title: SEQC_NB387


title: SEQC_NB374


title: SEQC_NB373


title: SEQC_NB377


title: SEQC_NB375


title: SEQC_NB404


title: SEQC_NB372


title: SEQC_NB370


title: SEQC_NB369


title: SEQC_NB368


title: SEQC_NB371


title: SEQC_NB366


title: SEQC_NB365


title: SEQC_NB364


title: SEQC_NB385


title: SEQC_NB363


title: SEQC_NB362


title: SEQC_NB381


title: SEQC_NB361


title: SEQC_NB376


title: SEQC_NB359


title: SEQC_NB356


title: SEQC_NB378


title: SEQC_NB358


title: SEQC_NB355


title: SEQC_NB352


title: SEQC_NB350


title: SEQC_NB349


title: SEQC_NB347


title: SEQC_NB346


title: SEQC_NB344


title: SEQC_NB343


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title: SEQC_NB284


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title: SEQC_NB062


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title: SEQC_NB044


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title: SEQC_NB018


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title: SEQC_NB015


title: SEQC_NB016


title: SEQC_NB011


title: SEQC_NB030


title: SEQC_NB009


title: SEQC_NB014


title: SEQC_NB008


title: SEQC_NB010


title: SEQC_NB013


title: SEQC_NB007


title: SEQC_NB005


title: SEQC_NB012


title: SEQC_NB006


title: SEQC_NB004


title: SEQC_NB002


title: SEQC_NB003


title: SEQC_NB019


title: SEQC_NB001


title: Δku70 60h

city: Bochum

first: Kordula

last: Becker

address: Universitätsstr 150

country: Germany

institute: Ruhr-Universität Bochum

hyb_protocol: Finally, labeled cRNA was purified (GeneChip® Sample Cleanup Module, Affymetrix/Qiagen) prior to fragmentation. 15 µg of fragmented, biotinylated cRNA was hybridized to the P. chrysogenum MicroArrays (a proprietary GeneChip®, DSM_PENa520255F) at 45 °C for 16 h as described in the Affymetrix users' manual.

scan_protocol: Washing and staining of arrays were performed using the GeneChip® Fluidics Station 400 and scanning with the Affymetrix GeneArray Scanner 3000.

data_processing: Differentially expressed genes were determined with the R-package affylmGUI (Wettenhall et al. 2006) by using the implemented RMA algorithm for preprocessing the raw data (Irizarry et al. 2003a; Irizarry et al. 2003b) and the limmapackage for assessing differential expression (Smyth 2004).

organism: Penicillium chrysogenum

source_name: surface culture

label_protocol: Probe preparation and Target hybridization Double stranded cDNA synthesis was carried out using 10 ug of total RNA and the components of the One Cycle cDNA Synthesis Kit (Affymetrix, Santa Clara, USA). The double-stranded cDNA was purified with the GeneChip® Sample Cleanup Module (Affymetrix/Qiagen) followed by in vitro transcription and labeling using the GeneChip® IVT labeling Kit (Affymetrix).

growth_protocol: strains were grown on M322 agar plates with a Supor 200 Membrane Disc Filter (Pall Corporation) and RNA was gained from three independent cultures and subsequently pooled

extract_protocol: RNA extraction was perfomred using the TRIzol solution (Invitrogen, Germany) and RNeasy kit (Qiagen, Hilden, Germany) according to the manufacturer’s protocol

treatment_protocol: strains were grown for the indicated time under light conditions, 27°C

tag: cultivation time

tag: genotype/variation


title: MT-LP3

city: Piscataway

first: Wei

last: Yu

state: NJ

address: 675 Hoes Lane West

department: Pharmacology

institute: Rutgers

hyb_protocol: Samples were hybridized on the Mouse 430 arrays for a period of 17 hours at 45°C, after which, the arrays were washed and stained on the Affymetrix GeneChip Fluidics Stations 450

scan_protocol: Arrays were scanned using the Affymetrix 7G Microarray Scanner

data_processing: Initial data processing was performed by using Affymetrix's Expression Console at the Default settings of Gene Expression normalization. RMA data provided.

organism: Mus musculus

source_name: mouse lateral prostate

label_protocol: 5ug on cDNA was input for Fragmentation and Labeling using the NuGEN Encore Biotin Module

growth_protocol: total RNA was isolated from mice at the age of 16-week

extract_protocol: Total RNA was extracted from mice prostate tissues using RNeasy Mini Kit (Qiagen)

value: lateral prostate

tag: genotype

value: Med1 knock out

tag: age

value: 16 weeks


title: Δku70 96h


title: Patient ID 10 [4 Month; Donor AKI]

city: La Jolla

first: Sunil

last: Kurian

state: CA

address: 10550 N Torrey Pines Road

department: Molecular and Experimental Medicine

institute: The Scripps Research Institute

hyb_protocol: Custom Affymetrix Gene Titan HG 133 + PM Hybridization

scan_protocol: Affymetrix protocol

data_processing: RMA Normalized Signals

source_name: FFPE Kidney Biopsy

label_protocol: Affymetrix SensationPlus™ FFPE Amplification and 3’ IVT Labeling kit

growth_protocol: Formalin-Fixed, Paraffin Embedded Kidney Biopsy Tissue (3, 20μ sections)

extract_protocol: RNA was extracted using Ambion RecoverAll Total Nucleic Acid Kit

tag: date of transplantation

value: 4 Month

tag: kidney transplant recipient

value: Donor AKI


title: WT-LP1

value: wild type


title: MT-VP2

source_name: mouse ventral prostate

value: ventral prostate


title: ΔMAT1-1-1 36h

value: ΔMAT1 EK5


title: Patient ID 2 [4 Month; Donor AKI]


title: WT-VP1


title: MT-VP3


title: WT-LP2


title: WT-VP2


title: MT-VP1


title: ΔMAT1-1-1 96h


title: Patient ID 41 [4 Month; Donor AKI]


title: Δku70 36h


title: MT-LP2


title: WT-LP3


title: Patient ID 33 [4 Month; Donor AKI]


title: ΔMAT1-1-1 60h


title: Patient ID 17 [4 Month; Donor AKI]


title: Patient ID 26 [4 Month; Donor AKI]


title: Patient ID 1 [4 Month; No Donor AKI]

value: No Donor AKI


title: Patient ID 9 [4 Month; No Donor AKI]


title: MT-LP1


title: WT-VP3


title: Patient ID 18 [4 Month; No Donor AKI]


title: Patient ID 25 [4 Month; No Donor AKI]


title: Patient ID 2 [1 Month; Donor AKI]

value: 1 Month


title: Patient ID 10 [1 Month; Donor AKI]


title: Patient ID 35 [4 Month; No Donor AKI]


title: Patient ID 17 [1 Month; Donor AKI]


title: Patient ID 9 [1 Month; No Donor AKI]


title: Patient ID 43 [4 Month; Donor AKI]


title: Patient ID 1 [1 Month; No Donor AKI]


title: Patient ID 33 [1 Month; Donor AKI]


title: Patient ID 25 [1 Month; No Donor AKI]


title: Patient ID 41 [1 Month; Donor AKI]


title: Patient ID 42 [4 Month; No Donor AKI]


title: Patient ID 3 [4 Month; Donor AKI]


title: Patient ID 34 [4 Month; Donor AKI]


title: Patient ID 20 [4 Month; Donor AKI]


title: Patient ID 18 [1 Month; No Donor AKI]


title: Patient ID 26 [1 Month; Donor AKI]


title: Patient ID 12 [4 Month; Donor AKI]


title: Patient ID 28 [4 Month; No Donor AKI]


title: Patient ID 19 [4 Month; No Donor AKI]


title: Patient ID 4 [4 Month; No Donor AKI]


title: Patient ID 27 [4 Month; Donor AKI]


title: Patient ID 46 [4 Month; No Donor AKI]


title: Patient ID 35 [1 Month; No Donor AKI]


title: Patient ID 37 [4 Month; No Donor AKI]


title: Patient ID 42 [1 Month; No Donor AKI]


title: Patient ID 3 [1 Month; Donor AKI]


title: Patient ID 12 [1 Month; Donor AKI]


title: Patient ID 20 [1 Month; Donor AKI]


title: Patient ID 27 [1 Month; Donor AKI]


title: Patient ID 4 [1 Month; No Donor AKI]


title: Patient ID 28 [1 Month; No Donor AKI]


title: Patient ID 19 [1 Month; No Donor AKI]


title: Patient ID 11 [1 Month; No Donor AKI]


title: Patient ID 37 [1 Month; No Donor AKI]


title: Patient ID 43 [1 Month; Donor AKI]


title: Patient ID 46 [1 Month; No Donor AKI]


title: Patient ID 29 [4 Month; Donor AKI]


title: Patient ID 14 [4 Month; Donor AKI]


title: Patient ID 44 [4 Month; Donor AKI]


title: Patient ID 22 [4 Month; Donor AKI]


title: Patient ID 6 [4 Month; Donor AKI]


title: Patient ID 5 [4 Month; No Donor AKI]


title: Patient ID 13 [4 Month; No Donor AKI]


title: Patient ID 36 [4 Month; Donor AKI]


title: Patient ID 47 [4 Month; No Donor AKI]


title: Patient ID 14 [1 Month; Donor AKI]


title: Patient ID 44 [1 Month; Donor AKI]


title: Patient ID 34 [1 Month; Donor AKI]


title: Patient ID 6 [1 Month; Donor AKI]


title: Patient ID 38 [4 Month; No Donor AKI]


title: Patient ID 21 [4 Month; No Donor AKI]


title: Patient ID 36 [1 Month; Donor AKI]


title: Patient ID 29 [1 Month; Donor AKI]


title: Patient ID 30 [4 Month; No Donor AKI]


title: Patient ID 5 [1 Month; No Donor AKI]


title: Patient ID 22 [1 Month; Donor AKI]


title: Patient ID 13 [1 Month; No Donor AKI]


title: Patient ID 30 [1 Month; No Donor AKI]


title: Patient ID 38 [1 Month; No Donor AKI]


title: Patient ID 8 [4 Month; Donor AKI]


title: SEQC_NB360

tag: dataset

tag: Sex


title: SEQC_NB357

tag: age at diagnosis

tag: mycn status


title: Patient ID 21 [1 Month; No Donor AKI]


title: Patient ID 32 [4 Month; Donor AKI]


title: Patient ID 24 [4 Month; Donor AKI]


title: Patient ID 16 [4 Month; Donor AKI]


title: Patient ID 48 [4 Month; No Donor AKI]


title: Patient ID 7 [4 Month; No Donor AKI]


title: Patient ID 47 [1 Month; No Donor AKI]


title: Patient ID 31 [4 Month; No Donor AKI]


title: Patient ID 15 [1 Month; No Donor AKI]


title: Patient ID 45 [1 Month; Donor AKI]


title: Patient ID 8 [1 Month; Donor AKI]


title: Patient ID 39 [4 Month; No Donor AKI]


title: Patient ID 15 [4 Month; No Donor AKI]


title: Patient ID 40 [4 Month; Donor AKI]


title: Patient ID 7 [1 Month; No Donor AKI]


title: Patient ID 16 [1 Month; Donor AKI]


title: Patient ID 45 [4 Month; Donor AKI]


title: Patient ID 31 [1 Month; No Donor AKI]


title: Patient ID 23 [1 Month; No Donor AKI]


title: Patient ID 24 [1 Month; Donor AKI]


title: Patient ID 40 [1 Month; Donor AKI]


title: Patient ID 39 [1 Month; No Donor AKI]


title: Patient ID 23 [4 Month; No Donor AKI]


title: Patient ID 32 [1 Month; Donor AKI]


title: Patient ID 48 [1 Month; No Donor AKI]


title: IL-4-treated macrophages transfected with control mimics-3

city: Guangzhou

first: Shicheng

last: Su

address: 107 Yanjiang West Road

institute: Sun-Yat-Sen Memorial Hospital

description: mRNA expression of IL-4-treated macrophages transfected with control  mimics

hyb_protocol: Hybridization was performed by Agilent Gene Expression Hybridization Kit (Agilent p/n 5188-5242).

scan_protocol: The slides were scanned with the Agilent DNA Microarray Scanner.

data_processing:
Data was extracted using Agilent Feature Extraction software. Results were provided in the Raw Intensity.xls file. Normalization was performed using the Agilent GeneSpring GX v11.5.1.
After quantile normalization of the raw data,mRNAs that at least 2 out of 5 samples have flags in Present or Marginal (“All Targets Value”) were chosen for further data analysis. Differentially expressed  mRNAs were identified through Fold Change filtering.

label_protocol: each sample was amplified and transcribed into fluorescent cRNA along the entire length of the transcripts without 3’ bias utilizing a random priming method

growth_protocol: Peripheral blood monocytes from healthy donors were isolated by Ficoll density gradient centrifugation as previously described. Macrophages were obtained by culturing monocytes in DMEM medium supplemented with 10% heat inactivated human AB serum for 6 days.

extract_protocol: Total RNA was harvested using TRIzol (Invitrogen) mRNA was purified from total RNA after removal of rRNA (mRNA-ONLY™ Eukaryotic mRNA Isolation Kit, Epicentre).

treatment_protocol: Afterward, macrophages were transfected with control ASO, miR-142-5p ASO, control mimics or miR-130-3p mimics using lentiviral vectors. After 24 hr, the cells were treated with 20ng/ml IL-4 for 24h.

tag: donor id

value: healthy donor 3

value: buffy coats of peripheral blood

tag: cell type

value: primary human monocyte-derived macrophages

tag: transfected with

value: control mimics

tag: treated with

value: 20ng/ml IL-4 for 24h


title: P1_44

city: Dallas

first: Jason

middle: A

last: Skinner

state: TX

address: 3434 Live Oak

institute: Baylor Institute for Immunology Research

description:
6116733072_G
W44
Total RNA (globin reduced)

hyb_protocol: Standard Illumina HT-12 V4 hybridization protocol.

scan_protocol: Standard Illumina iScan protocol.

data_processing: We first applied a normal-exponential convolution model (Xie et al., Bioinformatics, 2009; Shi et al., Nucleic Acids Research, 2010) to correct for the background noise.  An offset of 16 (the default value) was then added to the data (to improve precision and avoid a compression of the fold changes) before they were log2 transformed (to stabilize the variance). Finally, a quantile-quantile normalization was performed. The ComBat method (Johnson et al., Biostatistics, 2007) was used on those normalized data to correct for batch effects (namely a small hybridization chamber effect that was identified through Principal Variance Component Analysis - Li et al., chap. 12, Batch Effects and Noise in Microarray Experiments: Sources and Solutions, Wiley, 2009). At last, only probes which pval detection (provided by Genome Studio) was below 0.01 in at least one sample were kept for analysis.

source_name: whole blood, P1, week 44

label_protocol: Biotinylated cRNA were prepared using Illumina Totalprep-96 Amplification Kits with 250ng input.

extract_protocol: RNA was extracted from Applied Biosystems Tempus Blood RNA Tubes using the Ambion MagMax-96 total RNA Isolation kits. Globin message reduction was conducted using Ambion GlobinClear Human 96 Kits.

tag: patient

tag: week

value: follow-up

value: whole blood


title: P17_32

description:
6116733072_L
W32
Total RNA (globin reduced)

source_name: whole blood, P17, week 32

tag: tissue


title: P6_40

description:
6116733072_I
W40
Total RNA (globin reduced)

source_name: whole blood, P6, week 40


title: P7_36

description:
6116733072_B
W36
Total RNA (globin reduced)

source_name: whole blood, P7, week 36


title: P11_24

description:
6116733073_E
ATI (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P11, week 24


title: IL-4-treated macrophages transfected with miR-130-3p mimics-2

description: mRNA expression of IL-4-treated macrophages transfected with miR-130-3p mimics

value: healthy donor 2

value: miR-130-3p mimics


title: P13_25

description:
6116733072_C
W25
Total RNA (globin reduced)

source_name: whole blood, P13, week 25


title: P15_28

description:
6116733073_B
W28
Total RNA (globin reduced)

source_name: whole blood, P15, week 28


title: P5_44

description:
6116733071_E
W44
Total RNA (globin reduced)

source_name: whole blood, P5, week 44


title: P9_27

description:
6116733073_G
W27
Total RNA (globin reduced)

source_name: whole blood, P9, week 27


title: P13_32

description:
6116733071_L
W32
Total RNA (globin reduced)

source_name: whole blood, P13, week 32


title: P10_32

description:
6116733071_J
W32
Total RNA (globin reduced)

source_name: whole blood, P10, week 32


title: P8_25

description:
6116733072_K
W25
Total RNA (globin reduced)

source_name: whole blood, P8, week 25


title: P15_22, post-ATI

description:
6116733072_A
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P15, week 22

value: follow-up and treatment


title: P18_25

description:
6116733071_K
W25
Total RNA (globin reduced)

source_name: whole blood, P18, week 25


title: P7_40

description:
6116733071_B
W40
Total RNA (globin reduced)

source_name: whole blood, P7, week 40


title: P1_48

description:
6116733071_I
APH3
Total RNA (globin reduced)

source_name: whole blood, P1, week 48


title: IL-4-treated macrophages transfected with control ASO-2

description: mRNA expression of IL-4-treated macrophages transfected with control ASO

value: control ASO


title: IL-4-treated macrophages transfected with control mimics-1

description: mRNA expression of IL-4-treated macrophages transfected with control mimics

value: healthy donor 1


title: IL-4-treated macrophages transfected with miR-130-3p mimics-3


title: P8_40

description:
6116733071_F
W40
Total RNA (globin reduced)

source_name: whole blood, P8, week 40


title: IL-4-treated macrophages transfected with miR-130-3p mimics-1


title: IL-4-treated macrophages transfected with control ASO-3


title: IL-4-treated macrophages transfected with control mimics-2

description: mRNA expression of IL-4-treated macrophages transfected with control  mimics


title: P19_28

description:
6116733073_C
W28
Total RNA (globin reduced)

source_name: whole blood, P19, week 28


title: P18_26

description:
6116733069_K
W26
Total RNA (globin reduced)

source_name: whole blood, P18, week 26


title: P3_40

description:
6116733069_L
W40
Total RNA (globin reduced)

source_name: whole blood, P3, week 40


title: U2OS_miR101_rep2

city: Goettingen

first: Gabriela

last: Salinas

state: Lower-Saxony

address: Kreuzbergring 57

department: Department of Pathology

institute: Universitaetsmedizin Goettingen

description: Gene expression upon miR101 overexpression

hyb_protocol: The hybridizations were performed for 17 hours at 10 rpm and 65°C in the Hybridization Oven (Agilent). Washing and staining of the arrays were done according to the manufacturer's recommendation.

scan_protocol: Cy3 intensities were detected by one-color scanning using an Agilent DNA microarray scanner (G2505B) at 5 micron resolution. Scanned image files were visually inspected for artefacts and then analyzed.

data_processing: Agilent's Feature Extraction Software Version 10.7.3.1 using default parameters.

source_name: U2OS, miR101 transfected, rep 2

label_protocol: Microarrays were done using the Low RNA Input linear Amplification Kit Plus, One Color protocol (Agilent Technologies, Inc. 2007; Cat. Nr: 5188-5339) and the Agilent RNA Spike-In Kit for One color (Agilent Technologies, Inc. 2007; Cat. N°: 5188-5282) following the manufacturer's standard protocol.

growth_protocol: U2OS cells were maintained in Dulbecco’s Modified Eagel medium (DMEM) containing 10% FBS, 2 mM L-Glutamine and 1% penicillin-streptomycin.

extract_protocol: Total RNA was isolated using Trizol (Invitrogen).

treatment_protocol: U2OS cells were transfected with synthetic miRNAs using Lipofectamine 2000 (Invitrogen).

tag: cell line

tag: transfection


title: P4_32

description:
6116733069_A
W32
Total RNA (globin reduced)

source_name: whole blood, P4, week 32


title: IL-4-treated macrophages transfected with miR-142-5p ASO-2

description: mRNA expression of IL-4-treated macrophages transfected with miR-142-5p ASO

value: miR-142-5p ASO


title: U2OS_miR101_rep1

source_name: U2OS, miR101 transfected, rep 1


title: P9_22, post-ATI

description:
6116733069_F
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P9, week 22


title: IL-4-treated macrophages transfected with miR-142-5p ASO-1


title: P6_48

description:
6116733069_J
APH3
Total RNA (globin reduced)

source_name: whole blood, P6, week 48


title: P4_24

description:
6116733069_G
ATI (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P4, week 24


title: P15_48

description:
6116733068_D
APH3
Total RNA (globin reduced)

source_name: whole blood, P15, week 48


title: U2OS_miR101_rep3

source_name: U2OS, miR101 transfected, rep 3


title: P9_48

description:
6116733068_A
APH3
Total RNA (globin reduced)

source_name: whole blood, P9, week 48


title: P18_28

description:
6116733056_G
W28
Total RNA (globin reduced)

source_name: whole blood, P18, week 28


title: P11_28

description:
6116733068_C
W28
Total RNA (globin reduced)

source_name: whole blood, P11, week 28


title: P9_44

description:
6116733056_D
W44
Total RNA (globin reduced)

source_name: whole blood, P9, week 44


title: P16_36

description:
6116733056_B
W36
Total RNA (globin reduced)

source_name: whole blood, P16, week 36


title: U2OS_NC_rep3

source_name: U2OS, NC transfected, rep 3

value: NC


title: P1_25

description:
6116733056_F
W25
Total RNA (globin reduced)

source_name: whole blood, P1, week 25


title: P17_48

description:
6116733056_J
APH3
Total RNA (globin reduced)

source_name: whole blood, P17, week 48


title: P14_44

description:
6116733056_H
W44
Total RNA (globin reduced)

source_name: whole blood, P14, week 44


title: U2OS_NC_rep4

source_name: U2OS, NC transfected, rep 4


title: IL-4-treated macrophages transfected with miR-142-5p ASO-3


title: P14_40

description:
6116733068_B
W40
Total RNA (globin reduced)

source_name: whole blood, P14, week 40


title: P18_22, post-ATI

description:
6116733068_J
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P18, week 22


title: P2_27

description:
6116733068_F
W27
Total RNA (globin reduced)

source_name: whole blood, P2, week 27


title: P5_36

description:
6116733071_D
W36
Total RNA (globin reduced)

source_name: whole blood, P5, week 36


title: P19_22, post-ATI

description:
6116733056_A
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P19, week 22


title: Patient ID 11 [4 Month; No Donor AKI]

source_name: FFPE Kidney Biopsy

value: 4 Month


title: P4_22, post-ATI

description:
6116733053_J
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P4, week 22


title: P19_25

description:
6116733038_K
W25
Total RNA (globin reduced)

source_name: whole blood, P19, week 25


title: U2OS_NC_rep2

description: Gene expression upon miR101 overexpression

source_name: U2OS, NC transfected, rep 2


title: U2OS_NC_rep1

source_name: U2OS, NC transfected, rep 1


title: P9_26

description:
6116733053_C
W26
Total RNA (globin reduced)

source_name: whole blood, P9, week 26


title: P14_36

description:
6116733038_I
W36
Total RNA (globin reduced)

source_name: whole blood, P14, week 36


title: P14_22, post-ATI

description:
6116733053_F
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P14, week 22


title: P9_40

description:
6116733038_G
W40
Total RNA (globin reduced)

source_name: whole blood, P9, week 40


title: P7_44

description:
6116733053_G
W44
Total RNA (globin reduced)

source_name: whole blood, P7, week 44


title: Small sized cells (P2)

city: Minato-ku

first: Yoshikazu

last: Johmura

state: Tokyo

address: 4-6-1, Shirokanedai

department: Institute of Medical Science

country: Japan

institute: University of Tokyo

hyb_protocol: Hybridyzation was followed by CodeLink Bioarray instructions.

scan_protocol: The arrays were scanned with a GenePix 4000B (Molecular Devices, LLC)Film) and signal intensities quantified with CodeLink Expression Analysis Software (Applied Mcroarrays)

data_processing: The net intensites were calculated by the dfferences between raw intensities and background

source_name: human skin fibroblasts

label_protocol: One mg of total RNA was labelled using MessageAmp II-Biotin Enhanced kit (Applied Microarrays) acording to the instructions.

growth_protocol: HCA2 cells were cultured with DMEM supplemented with 10% FBS

extract_protocol: Total RNA were extracted from sorted large or small sized HCA2 cells treated wth IR (10Gy) according to size and structure (FSC and SSC) by FACScan.

treatment_protocol: HCA2 cells were cultured for 72 hr after IR treatment (10Gy)

tag: ploidy

value: diploid


title: P13_36

description:
6116733032_F
W36
Total RNA (globin reduced)

source_name: whole blood, P13, week 36


title: P18_27

description:
6116733038_E
W27
Total RNA (globin reduced)

source_name: whole blood, P18, week 27


title: Large sized cells (P1)

value: tetraploid


title: P8_27

description:
6116733032_K
W27
Total RNA (globin reduced)

source_name: whole blood, P8, week 27


title: P15_32

description:
6116733032_J
W32
Total RNA (globin reduced)

source_name: whole blood, P15, week 32


title: P2_24

description:
6116733053_A
ATI (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P2, week 24


title: P19_36

description:
6116733038_A
W36
Total RNA (globin reduced)

source_name: whole blood, P19, week 36


title: H1299 miR222-3p

city: Kamakura

first: Satoshi

last: Kondo

state: Kanagawa

address: Tebiro 6-10-1

department: New Projects Development Division

institute: Toray Industries,Inc.

description: H1299 was transiently transfected with miR-222

hyb_protocol: Hybridized for 16 h at 37 C with rotary shake (250 rpm). Hybridization buffer and washing protocol was followed by the protocol supplied by TORAY Industries, Inc..

scan_protocol: 3D-Gene Scanner ((Toray Industries Inc., Tokyo, Japan) was used for scanning. Images were quantified using Extraction(Toray Industries Inc., Tokyo, Japan).

data_processing: The raw data of each spot was normalized by substitution with a mean intensity of the background signal determined by all blank spots’ signal intensities of 95% confidence intervals.

source_name: Lung cancer cell line

label_protocol: cDNA and Amino Allyl aRNA was synthesis by Amino Allyl MessageAmp II aRNA Amplification Kit (Ambion#1753). CyeDye Coupling and fragmentation were performed as the protocol supplied by TORAY Industries, Inc..

growth_protocol: The lung cancer cell lines were cultured in RPMI-1640 (Sigma-Aldrich, St. Louis, MO, USA) supplemented with 10% FBS.

extract_protocol: 5 μg of total RNA isolated using Trizol (Invitrogen Corp., Carlsbad, CA, USA) was reverse transcribed with Superscript III First-Strand Synthesis System using a Random Primer System (Invitrogen).

treatment_protocol: Cells were transiently transfected with either 10 nM predesigned microRNA mimics (hsa-miR-221 and hsa-miR-222) or control microRNA (microRNA control, AC/eGFP) purchased from Cosmo Bio (Tokyo, Japan), using Lipofectamine RNAiMAX (Invitrogen) according to the manufacturer’s protocol.

tag: treatment

value: transfected with miR-222


title: H1299 miR221-3p

description: H1299 was transiently transfected with miR-221

value: transfected with miR-221


title: P18_24

description:
6116733038_H
ATI (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P18, week 24


title: P8_22, post-ATI

description:
6116733038_C
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P8, week 22


title: P19_44

description:
6116733038_B
W44
Total RNA (globin reduced)

source_name: whole blood, P19, week 44


title: P4_28

description:
6116733032_G
W28
Total RNA (globin reduced)

source_name: whole blood, P4, week 28


title: H3255 miR222-3p

description: H3255 was transiently transfected with miR-222


title: H1299 miR control ac/eGFP

description: H1299 was transiently transfected with miR control

value: transfected with miR control


title: P14_27

description:
6116733032_H
W27
Total RNA (globin reduced)

source_name: whole blood, P14, week 27


title: P5_32

description:
6116733032_E
W32
Total RNA (globin reduced)

source_name: whole blood, P5, week 32


title: P2_22, post-ATI

description:
6116733032_D
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P2, week 22


title: H3255 miR control ac/eGFP

description: H3255 was transiently transfected with miR control


title: P13_22, post-ATI

description:
6116733030_L
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P13, week 22


title: P13_44

description:
6116733032_C
W44
Total RNA (globin reduced)

source_name: whole blood, P13, week 44


title: P10_26

description:
6116733030_E
W26
Total RNA (globin reduced)

source_name: whole blood, P10, week 26


title: P2_32

description:
6116733030_J
W32
Total RNA (globin reduced)

source_name: whole blood, P2, week 32


title: P11_40

description:
6116733030_D
W40
Total RNA (globin reduced)

source_name: whole blood, P11, week 40


title: P17_36

description:
6116733030_I
W36
Total RNA (globin reduced)

source_name: whole blood, P17, week 36


title: P11_25

description:
6116733030_A
W25
Total RNA (globin reduced)

source_name: whole blood, P11, week 25


title: THP1 human monocyte cell line treated with Copaxone for 6HRs AFFY_CEL_68062aa0265.CEL

city: Natanya

first: Tal

middle: Haim

last: Hasson

address: Hatrufa 12

department: Analytical R&D

country: Israel

institute: Teva Pharmaceuticals

hyb_protocol: This cDNA was purified and used as a template for in vitro transcription using T7 RNA polymerase and biotinylated ribonucleotides. The resulting cRNA was purified using magnetic beads and quantified using spectrophotometry. Purified cRNA was fragmented using a 5X Fragmentation buffer, then hybridized to Affymetrix GeneChip® Human Genome U133 Plus 2.0 arrays.

scan_protocol: standard Affymetrix procedures

data_processing: Data was normalized using RMA from Bioconductor's AFFY package. The normalize matrix was then batch corrected using COMBAT. The processing batch characteristic was utilized as the batch and the timepoint and treatment_by_lot characteristics were utilized as covariates during the batch-correction step

source_name: THP-1 human monocyte cell line

label_protocol: All specimens were amplified and labeled using the Enzo BioArray Single-Round RNA amplification and Biotin labeling system.

growth_protocol: THP-1 cells are routinely cultivated according to the ATCC recommendations. The cells are split up and fed with fresh culture medium 24 – 48 hours before each test. The usual cell split ratio is 1.5-2 (depending on the metabolic and reproducing activity of the cells)

extract_protocol: Total RNA was isolated from the Qiagen miRNEasy Kit according to the manufacturer’s instructions.

treatment_protocol: In-vitro assay is performed in a 6-well, flat-bottomed cell culture sterile test plates. Each treatment at each time point was replicated 6 times to ensure robustness of the result. 1mL from the prepared 100 microgram/mL treated glatiramoid (or 200 microgram/mL mannitol control) activation solution were transferred into the THP-1 6-well plate. The 6-well plate was then plated in a humidified 37°C, 5% CO2 incubator. Incubation was conducted for 6, 12 or 24 hours. The final treatment concentration is 50 ug/mL for drug and 100ug/mL for placebo

tag: processing batch

tag: timepoint

value: Copaxone


title: P8_24

description:
6116733029_J
ATI (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P8, week 24

tag: dataset


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 12HRs AFFY_CEL_6806260ed2b.CEL

value: Other glatiramoid


title: P5_28

description:
6116733029_H
W28
Total RNA (globin reduced)

source_name: whole blood, P5, week 28

value: follow-up


title: P7_28

description:
6116733030_G
W28
Total RNA (globin reduced)

source_name: whole blood, P7, week 28

value: whole blood


title: P1_24

description:
6116733030_C
ATI (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P1, week 24


title: THP1 human monocyte cell line treated with Copaxone for 24HRs AFFY_CEL_6801251cc56.CEL


title: THP1 human monocyte cell line treated with Probioglat for 6HRs AFFY_CEL_6804da4a057.CEL

value: Probioglat


title: P13_24

description:
6116733029_K
ATI (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P13, week 24


title: THP1 human monocyte cell line treated with Copaxone for 12HRs AFFY_CEL_680a7d9fd7.CEL


title: H3255 miR221-3p

description: H3255 was transiently transfected with miR-221

source_name: Lung cancer cell line


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 6HRs AFFY_CEL_680414213e7.CEL


title: P3_24

description:
6116733029_C
ATI (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P3, week 24


title: THP1 human monocyte cell line treated with Mannitol for 24HRs AFFY_CEL_68039276c85.CEL

value: Mannitol


title: P9_32

description:
6116733028_J
W32
Total RNA (globin reduced)

source_name: whole blood, P9, week 32


title: P13_28

description:
6116733028_I
W28
Total RNA (globin reduced)

source_name: whole blood, P13, week 28


title: P9_25

description:
6116733029_F
W25
Total RNA (globin reduced)

source_name: whole blood, P9, week 25


title: IL-4-treated macrophages transfected with control ASO-1

description: mRNA expression of IL-4-treated macrophages transfected with control ASO

value: buffy coats of peripheral blood

value: primary human monocyte-derived macrophages

value: 20ng/ml IL-4 for 24h


title: P1_32

description:
6116733032_A
W32
Total RNA (globin reduced)

source_name: whole blood, P1, week 32


title: P6_28

description:
6116733029_I
W28
Total RNA (globin reduced)

source_name: whole blood, P6, week 28


title: THP1 human monocyte cell line treated with Other_glatiramoid_2 for 24HRs AFFY_CEL_6801b1f7fce.CEL


title: THP1 human monocyte cell line treated with Mannitol for 12HRs AFFY_CEL_68089c170c.CEL


title: P10_44

description:
6116733028_B
W44
Total RNA (globin reduced)

source_name: whole blood, P10, week 44


title: P16_22, post-ATI

description:
6116733028_A
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P16, week 22

value: follow-up and treatment


title: P6_44

description:
6116733024_G
W44
Total RNA (globin reduced)

source_name: whole blood, P6, week 44


title: P5_27

description:
6116733028_D
W27
Total RNA (globin reduced)

source_name: whole blood, P5, week 27


title: P18_36

description:
6116733028_G
W36
Total RNA (globin reduced)

source_name: whole blood, P18, week 36


title: P13_27

description:
6116733026_A
W27
Total RNA (globin reduced)

source_name: whole blood, P13, week 27


title: THP1 human monocyte cell line treated with Copaxone for 6HRs AFFY_CEL_68030c31577.CEL

source_name: THP-1 human monocyte cell line


title: P11_26

description:
6116733024_J
W26
Total RNA (globin reduced)

source_name: whole blood, P11, week 26


title: P3_22, post-ATI

description:
6116733028_H
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P3, week 22


title: P19_24

description:
6116733024_L
ATI (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P19, week 24


title: P3_36

description:
6116733028_F
W36
Total RNA (globin reduced)

source_name: whole blood, P3, week 36


title: THP1 human monocyte cell line treated with Copaxone for 6HRs AFFY_CEL_6801578f528.CEL


title: P16_25

description:
6116733026_H
W25
Total RNA (globin reduced)

source_name: whole blood, P16, week 25


title: THP1 human monocyte cell line treated with Copaxone for 6HRs AFFY_CEL_68043ed447a.CEL


title: THP1 human monocyte cell line treated with Copaxone for 6HRs AFFY_CEL_68010d03af8.CEL


title: P11_48

description:
6116733026_G
APH3
Total RNA (globin reduced)

source_name: whole blood, P11, week 48


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 6HRs AFFY_CEL_6801e8f4cdc.CEL


title: P15_40

description:
6116733023_H
W40
Total RNA (globin reduced)

source_name: whole blood, P15, week 40


title: P8_28

description:
6116733024_F
W28
Total RNA (globin reduced)

source_name: whole blood, P8, week 28


title: P17_24

description:
6116733024_A
ATI (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P17, week 24


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 6HRs AFFY_CEL_6803cb24220.CEL


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 24HRs AFFY_CEL_680363066a9.CEL


title: P19_27

description:
6116733024_E
W27
Total RNA (globin reduced)

source_name: whole blood, P19, week 27


title: THP1 human monocyte cell line treated with Mannitol for 12HRs AFFY_CEL_6803a8c8593.CEL


title: P4_36

description:
6116733024_D
W36
Total RNA (globin reduced)

source_name: whole blood, P4, week 36


title: P3_44

description:
6116733026_K
W44
Total RNA (globin reduced)

source_name: whole blood, P3, week 44


title: P18_48

description:
6116733023_I
APH3
Total RNA (globin reduced)

source_name: whole blood, P18, week 48


title: P15_26

description:
6116733023_J
W26
Total RNA (globin reduced)

source_name: whole blood, P15, week 26


title: THP1 human monocyte cell line treated with Other_glatiramoid_2 for 12HRs AFFY_CEL_6804196b66e.CEL


title: THP1 human monocyte cell line treated with GA/RS for 6HRs AFFY_CEL_6806a17c495.CEL

value: GA/RS


title: P10_22, post-ATI

description:
6116733020_J
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P10, week 22


title: P17_27

description:
6116733022_A
W27
Total RNA (globin reduced)

source_name: whole blood, P17, week 27


title: P15_44

description:
6116733022_K
W44
Total RNA (globin reduced)

source_name: whole blood, P15, week 44


title: P1_28

description:
6116733023_A
W28
Total RNA (globin reduced)

source_name: whole blood, P1, week 28


title: P10_27

description:
6116733023_G
W27
Total RNA (globin reduced)

source_name: whole blood, P10, week 27


title: P17_22, post-ATI

description:
6116733022_E
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P17, week 22


title: P4_40

description:
6116733022_H
W40
Total RNA (globin reduced)

source_name: whole blood, P4, week 40


title: P7_26

description:
6116733020_L
W26
Total RNA (globin reduced)

source_name: whole blood, P7, week 26


title: THP1 human monocyte cell line treated with Mannitol for 6HRs AFFY_CEL_68079f68a48.CEL

source_name: THP-1 human monocyte cell line


title: P10_24

description:
6116733020_A
ATI (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P10, week 24


title: P3_27

description:
6116733020_H
W27
Total RNA (globin reduced)

source_name: whole blood, P3, week 27


title: THP1 human monocyte cell line treated with Copaxone for 24HRs AFFY_CEL_68041ce5c.CEL


title: P4_44

description:
6116733019_G
W44
Total RNA (globin reduced)

source_name: whole blood, P4, week 44


title: THP1 human monocyte cell line treated with Probioglat for 24HRs AFFY_CEL_680461baee8.CEL


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 12HRs AFFY_CEL_6805aa8cd8f.CEL


title: THP1 human monocyte cell line treated with GA/RS for 12HRs AFFY_CEL_6801bd16eea.CEL


title: THP1 human monocyte cell line treated with Copaxone for 12HRs AFFY_CEL_6804fa73f8a.CEL


title: P13_26

description:
6116733020_K
W26
Total RNA (globin reduced)

source_name: whole blood, P13, week 26


title: P14_28

description:
6116733022_I
W28
Total RNA (globin reduced)

source_name: whole blood, P14, week 28


title: P7_22, post-ATI

description:
6116733019_A
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P7, week 22


title: P9_28

description:
6116733020_F
W28
Total RNA (globin reduced)

source_name: whole blood, P9, week 28


title: THP1 human monocyte cell line treated with Other_glatiramoid_2 for 6HRs AFFY_CEL_6802bbb9bad.CEL


title: THP1 human monocyte cell line treated with Copaxone for 6HRs AFFY_CEL_68079f69cbf.CEL


title: THP1 human monocyte cell line treated with GA/RS for 24HRs AFFY_CEL_68070386f73.CEL


title: P16_32

description:
6116733019_C
W32
Total RNA (globin reduced)

source_name: whole blood, P16, week 32


title: P14_32

description:
6116733019_B
W32
Total RNA (globin reduced)

source_name: whole blood, P14, week 32


title: P3_32

description:
6116733019_H
W32
Total RNA (globin reduced)

source_name: whole blood, P3, week 32


title: P11_44

description:
6116733019_E
W44
Total RNA (globin reduced)

source_name: whole blood, P11, week 44


title: P16_28

description:
6116733018_I
W28
Total RNA (globin reduced)

source_name: whole blood, P16, week 28


title: P15_24

description:
6116733018_C
ATI (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P15, week 24


title: P5_25

description:
6116733017_L
W25
Total RNA (globin reduced)

source_name: whole blood, P5, week 25


title: P11_32

description:
6116733018_E
W32
Total RNA (globin reduced)

source_name: whole blood, P11, week 32


title: P18_32

description:
6116733017_G
W32
Total RNA (globin reduced)

source_name: whole blood, P18, week 32


title: THP1 human monocyte cell line treated with Mannitol for 6HRs AFFY_CEL_680f14cc6b.CEL

source_name: THP-1 human monocyte cell line


title: THP1 human monocyte cell line treated with Other_glatiramoid_2 for 6HRs AFFY_CEL_68066456ca8.CEL


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 6HRs AFFY_CEL_6805e7ae055.CEL


title: THP1 human monocyte cell line treated with GA/RS for 6HRs AFFY_CEL_68064bcb43b.CEL


title: P5_24

description:
6116733017_H
ATI (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P5, week 24


title: P10_40

description:
6116733018_K
W40
Total RNA (globin reduced)

source_name: whole blood, P10, week 40


title: P9_24

description:
6116733018_A
ATI (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P9, week 24


title: P14_25

description:
6116733018_F
W25
Total RNA (globin reduced)

source_name: whole blood, P14, week 25


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 12HRs AFFY_CEL_6806291eb30.CEL


title: P2_25

description:
6116733017_A
W25
Total RNA (globin reduced)

source_name: whole blood, P2, week 25


title: P6_32

description:
6116733018_G
W32
Total RNA (globin reduced)

source_name: whole blood, P6, week 32


title: P1_40

description:
6116733015_G
W40
Total RNA (globin reduced)

source_name: whole blood, P1, week 40


title: P1_36

description:
6116733015_K
W36
Total RNA (globin reduced)

source_name: whole blood, P1, week 36


title: P8_26

description:
6116733015_J
W26
Total RNA (globin reduced)

source_name: whole blood, P8, week 26


title: THP1 human monocyte cell line treated with Copaxone for 24HRs AFFY_CEL_680638a4b40.CEL


title: P2_26

description:
6116733017_D
W26
Total RNA (globin reduced)

source_name: whole blood, P2, week 26


title: THP1 human monocyte cell line treated with Copaxone for 12HRs AFFY_CEL_68040b7fac9.CEL


title: THP1 human monocyte cell line treated with GA/RS for 12HRs AFFY_CEL_6802eca77e0.CEL


title: P1_22, post-ATI

description:
6116733017_E
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P1, week 22


title: THP1 human monocyte cell line treated with Copaxone for 24HRs AFFY_CEL_680741ddb3.CEL


title: THP1 human monocyte cell line treated with Mannitol for 24HRs AFFY_CEL_68044564df9.CEL


title: P7_25

description:
6116733017_B
W25
Total RNA (globin reduced)

source_name: whole blood, P7, week 25


title: P17_28

description:
6116733015_I
W28
Total RNA (globin reduced)

source_name: whole blood, P17, week 28


title: P7_27

description:
6116733014_K
W27
Total RNA (globin reduced)

source_name: whole blood, P7, week 27


title: THP1 human monocyte cell line treated with Copaxone for 24HRs AFFY_CEL_68057207a06.CEL


title: THP1 human monocyte cell line treated with Copaxone for 12HRs AFFY_CEL_68058bc9b35.CEL


title: P4_26

description:
6116733014_F
W26
Total RNA (globin reduced)

source_name: whole blood, P4, week 26


title: P16_26

description:
6116733015_D
W26
Total RNA (globin reduced)

source_name: whole blood, P16, week 26


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 12HRs AFFY_CEL_6806bb52198.CEL

source_name: THP-1 human monocyte cell line


title: P6_27

description:
6116733013_K
W27
Total RNA (globin reduced)

source_name: whole blood, P6, week 27


title: P4_25

description:
6116733014_E
W25
Total RNA (globin reduced)

source_name: whole blood, P4, week 25


title: P18_40

description:
6116733015_E
W40
Total RNA (globin reduced)

source_name: whole blood, P18, week 40


title: P3_28

description:
6116733015_A
W28
Total RNA (globin reduced)

source_name: whole blood, P3, week 28


title: P13_48

description:
6116733014_B
APH3
Total RNA (globin reduced)

source_name: whole blood, P13, week 48


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 6HRs AFFY_CEL_6803cc90110.CEL


title: THP1 human monocyte cell line treated with Copaxone for 6HRs AFFY_CEL_68049c474f.CEL


title: P15_36

description:
6116733013_C
W36
Total RNA (globin reduced)

source_name: whole blood, P15, week 36


title: P1_26

description:
6116733015_C
W26
Total RNA (globin reduced)

source_name: whole blood, P1, week 26


title: P14_26

description:
6116733011_I
W26
Total RNA (globin reduced)

source_name: whole blood, P14, week 26


title: P11_22, post-ATI

description:
6116733011_K
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P11, week 22


title: THP1 human monocyte cell line treated with Probioglat for 12HRs AFFY_CEL_6801070aa97.CEL


title: P10_48

description:
6116733014_L
APH3
Total RNA (globin reduced)

source_name: whole blood, P10, week 48


title: THP1 human monocyte cell line treated with Copaxone for 6HRs AFFY_CEL_6803c4e6273.CEL


title: P17_44

description:
6116733013_B
W44
Total RNA (globin reduced)

source_name: whole blood, P17, week 44


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 24HRs AFFY_CEL_6801d5901a5.CEL


title: P6_24

description:
6116733013_J
ATI (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P6, week 24


title: THP1 human monocyte cell line treated with Copaxone for 24HRs AFFY_CEL_68035c7dd08.CEL


title: P6_25

description:
6116733013_D
W25
Total RNA (globin reduced)

source_name: whole blood, P6, week 25


title: P14_24

description:
6116733017_I
ATI (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P14, week 24


title: P8_44

description:
6116733014_H
W44
Total RNA (globin reduced)

source_name: whole blood, P8, week 44


title: P3_25

description:
6116733011_G
W25
Total RNA (globin reduced)

source_name: whole blood, P3, week 25


title: THP1 human monocyte cell line treated with Probioglat for 24HRs AFFY_CEL_68011563de4.CEL

source_name: THP-1 human monocyte cell line


title: P10_25

description:
6116733011_B
W25
Total RNA (globin reduced)

source_name: whole blood, P10, week 25


title: P17_40

description:
6116733008_H
W40
Total RNA (globin reduced)

source_name: whole blood, P17, week 40


title: P1_27

description:
6116733011_A
W27
Total RNA (globin reduced)

source_name: whole blood, P1, week 27


title: THP1 human monocyte cell line treated with Copaxone for 12HRs AFFY_CEL_6806dcf63bb.CEL


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 24HRs AFFY_CEL_6805286422a.CEL


title: P11_36

description:
6116733008_B
W36
Total RNA (globin reduced)

source_name: whole blood, P11, week 36


title: P3_26

description:
6116733008_F
W26
Total RNA (globin reduced)

source_name: whole blood, P3, week 26


title: P17_26

description:
6116733008_C
W26
Total RNA (globin reduced)

source_name: whole blood, P17, week 26


title: P5_22, post-ATI

description:
6116733006_E
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P5, week 22


title: THP1 human monocyte cell line treated with Copaxone for 24HRs AFFY_CEL_68060a64140.CEL


title: P8_32

description:
6116733011_F
W32
Total RNA (globin reduced)

source_name: whole blood, P8, week 32


title: P2_28

description:
6116733006_L
W28
Total RNA (globin reduced)

source_name: whole blood, P2, week 28


title: P6_36

description:
6116733008_J
W36
Total RNA (globin reduced)

source_name: whole blood, P6, week 36


title: P15_27

description:
6116733006_G
W27
Total RNA (globin reduced)

source_name: whole blood, P15, week 27


title: P16_27

description:
6116733006_J
W27
Total RNA (globin reduced)

source_name: whole blood, P16, week 27


title: THP1 human monocyte cell line treated with Copaxone for 12HRs AFFY_CEL_68059a422c0.CEL


title: P4_27

description:
6116733006_I
W27
Total RNA (globin reduced)

source_name: whole blood, P4, week 27


title: THP1 human monocyte cell line treated with Other_glatiramoid_2 for 24HRs AFFY_CEL_6802ed0609f.CEL


title: P5_26

description:
6116733006_B
W26
Total RNA (globin reduced)

source_name: whole blood, P5, week 26


title: P17_25

description:
6116733011_C
W25
Total RNA (globin reduced)

source_name: whole blood, P17, week 25


title: THP1 human monocyte cell line treated with Mannitol for 24HRs AFFY_CEL_6802293cf1b.CEL


title: THP1 human monocyte cell line treated with Copaxone for 24HRs AFFY_CEL_68072d6dd85.CEL


title: P19_48

description:
6116733005_L
APH3
Total RNA (globin reduced)

source_name: whole blood, P19, week 48


title: P19_40

description:
6116733005_I
W40
Total RNA (globin reduced)

source_name: whole blood, P19, week 40


title: P16_24

description:
6116733005_J
ATI (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P16, week 24


title: P18_44

description:
6116733020_E
W44
Total RNA (globin reduced)

source_name: whole blood, P18, week 44


title: P5_40

description:
6116733005_F
W40
Total RNA (globin reduced)

source_name: whole blood, P5, week 40


title: P7_32

description:
6116733011_E
W32
Total RNA (globin reduced)

source_name: whole blood, P7, week 32


title: P9_36

description:
6116733005_D
W36
Total RNA (globin reduced)

source_name: whole blood, P9, week 36


title: P19_32

description:
6116733005_B
W32
Total RNA (globin reduced)

source_name: whole blood, P19, week 32


title: P8_48

description:
6116733005_C
APH3
Total RNA (globin reduced)

source_name: whole blood, P8, week 48


title: THP1 human monocyte cell line treated with Copaxone for 12HRs AFFY_CEL_68070213a4d.CEL

source_name: THP-1 human monocyte cell line


title: P4_48

description:
6116733004_L
APH3
Total RNA (globin reduced)

source_name: whole blood, P4, week 48


title: P8_36

description:
6116733004_J
W36
Total RNA (globin reduced)

source_name: whole blood, P8, week 36


title: P7_24

description:
6116733004_H
ATI (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P7, week 24


title: P5_48

description:
6116733004_K
APH3
Total RNA (globin reduced)

source_name: whole blood, P5, week 48


title: P6_26

description:
6116733008_D
W26
Total RNA (globin reduced)

source_name: whole blood, P6, week 26


title: P10_28

description:
6116733004_I
W28
Total RNA (globin reduced)

source_name: whole blood, P10, week 28


title: THP1 human monocyte cell line treated with Copaxone for 24HRs AFFY_CEL_68076fa205b.CEL


title: THP1 human monocyte cell line treated with Probioglat for 12HRs AFFY_CEL_680518eb227.CEL


title: P15_25

description:
6116733004_E
W25
Total RNA (globin reduced)

source_name: whole blood, P15, week 25


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 24HRs AFFY_CEL_6805d5713d2.CEL


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 6HRs AFFY_CEL_680960bee7.CEL


title: THP1 human monocyte cell line treated with Copaxone for 12HRs AFFY_CEL_680ce8570e.CEL


title: P10_36

description:
6116733004_A
W36
Total RNA (globin reduced)

source_name: whole blood, P10, week 36


title: P6_22, post-ATI

description:
6116733004_B
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P6, week 22


title: THP1 human monocyte cell line treated with Copaxone for 12HRs AFFY_CEL_6804213c80d.CEL


title: THP1 human monocyte cell line treated with Other_glatiramoid_2 for 24HRs AFFY_CEL_680104b2ce0.CEL


title: P6_16

description:
6116733073_H
APH2
Total RNA (globin reduced)

source_name: whole blood, P6, week 16

value: treatment


title: P4_8

description:
6116733073_I
DC3
Total RNA (globin reduced)

source_name: whole blood, P4, week 8


title: THP1 human monocyte cell line treated with Mannitol for 12HRs AFFY_CEL_680a4f44d6.CEL


title: P11_27

description:
6116733004_G
W27
Total RNA (globin reduced)

source_name: whole blood, P11, week 27


title: P11_M8

description:
6116733073_D
Baseline
Total RNA (globin reduced)

source_name: whole blood, P11, week -8


title: P3_16

description:
6116733073_F
APH2
Total RNA (globin reduced)

source_name: whole blood, P3, week 16


title: P17_0

description:
6116733073_K
DC1
Total RNA (globin reduced)

source_name: whole blood, P17, week 0


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 6HRs AFFY_CEL_6803effba75.CEL


title: P18_16

description:
6116733073_A
APH2
Total RNA (globin reduced)

source_name: whole blood, P18, week 16


title: THP1 human monocyte cell line treated with Copaxone for 6HRs AFFY_CEL_6804e6487db.CEL

source_name: THP-1 human monocyte cell line


title: THP1 human monocyte cell line treated with Copaxone for 24HRs AFFY_CEL_680515e46fb.CEL


title: P10_0

description:
6116733072_J
DC1
Total RNA (globin reduced)

source_name: whole blood, P10, week 0


title: P10_M8

description:
6116733072_H
Baseline
Total RNA (globin reduced)

source_name: whole blood, P10, week -8


title: P4_0

description:
6116733072_D
DC1
Total RNA (globin reduced)

source_name: whole blood, P4, week 0


title: P11_16

description:
6116733071_C
APH2
Total RNA (globin reduced)

source_name: whole blood, P11, week 16


title: P2_8

description:
6116733072_F
DC3
Total RNA (globin reduced)

source_name: whole blood, P2, week 8


title: P15_22, pre-ATI

description:
6116733072_A
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P15, week 22


title: P17_16

description:
6116733069_H
APH2
Total RNA (globin reduced)

source_name: whole blood, P17, week 16


title: P14_0

description:
6116733069_E
DC1
Total RNA (globin reduced)

source_name: whole blood, P14, week 0


title: THP1 human monocyte cell line treated with GA/RS for 24HRs AFFY_CEL_6803776cab5.CEL


title: THP1 human monocyte cell line treated with Probioglat for 6HRs AFFY_CEL_6804d64e618.CEL


title: P5_M8

description:
6116733069_C
Baseline
Total RNA (globin reduced)

source_name: whole blood, P5, week -8


title: P17_12

description:
6116733068_L
DC4
Total RNA (globin reduced)

source_name: whole blood, P17, week 12


title: P1_16

description:
6116733069_B
APH2
Total RNA (globin reduced)

source_name: whole blood, P1, week 16


title: THP1 human monocyte cell line treated with Probioglat for 12HRs AFFY_CEL_68062825f41.CEL


title: P18_M8

description:
6116733068_K
Baseline
Total RNA (globin reduced)

source_name: whole blood, P18, week -8


title: THP1 human monocyte cell line treated with Probioglat for 6HRs AFFY_CEL_68037b21b24.CEL


title: P18_22, pre-ATI

description:
6116733068_J
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P18, week 22


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 12HRs AFFY_CEL_6807003e2e9.CEL


title: P16_12

description:
6116733068_I
DC4
Total RNA (globin reduced)

source_name: whole blood, P16, week 12


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 12HRs AFFY_CEL_680340035b7.CEL


title: P9_M4

description:
6116733068_G
APH1
Total RNA (globin reduced)

source_name: whole blood, P9, week -4


title: P9_22, pre-ATI

description:
6116733069_F
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P9, week 22


title: P2_M4

description:
6116733068_E
APH1
Total RNA (globin reduced)

source_name: whole blood, P2, week -4


title: P16_0

description:
6116733062_L
DC1
Total RNA (globin reduced)

source_name: whole blood, P16, week 0


title: THP1 human monocyte cell line treated with Probioglat for 24HRs AFFY_CEL_6801eba9f0.CEL

source_name: THP-1 human monocyte cell line


title: THP1 human monocyte cell line treated with Copaxone for 6HRs AFFY_CEL_6806bee52fb.CEL


title: P19_12

description:
6116733062_F
DC4
Total RNA (globin reduced)

source_name: whole blood, P19, week 12


title: P18_4

description:
6116733062_B
DC2
Total RNA (globin reduced)

source_name: whole blood, P18, week 4


title: P6_8

description:
6116733062_I
DC3
Total RNA (globin reduced)

source_name: whole blood, P6, week 8


title: THP1 human monocyte cell line treated with Copaxone for 12HRs AFFY_CEL_6805366efdc.CEL


title: P16_M8

description:
6116733062_D
Baseline
Total RNA (globin reduced)

source_name: whole blood, P16, week -8


title: P10_12

description:
6116733062_K
DC4
Total RNA (globin reduced)

source_name: whole blood, P10, week 12


title: P13_16

description:
6116733056_L
APH2
Total RNA (globin reduced)

source_name: whole blood, P13, week 16


title: P1_12

description:
6116733062_G
DC4
Total RNA (globin reduced)

source_name: whole blood, P1, week 12


title: THP1 human monocyte cell line treated with Copaxone for 24HRs AFFY_CEL_68079c0d83a.CEL


title: P1_0

description:
6116733056_K
DC1
Total RNA (globin reduced)

source_name: whole blood, P1, week 0


title: P18_8

description:
6116733062_E
DC3
Total RNA (globin reduced)

source_name: whole blood, P18, week 8


title: P18_M4

description:
6116733056_E
APH1
Total RNA (globin reduced)

source_name: whole blood, P18, week -4


title: P3_0

description:
6116733053_L
DC1
Total RNA (globin reduced)

source_name: whole blood, P3, week 0


title: P13_M8

description:
6116733053_I
Baseline
Total RNA (globin reduced)

source_name: whole blood, P13, week -8


title: THP1 human monocyte cell line treated with Mannitol for 6HRs AFFY_CEL_6801d3383ee.CEL


title: THP1 human monocyte cell line treated with GA/RS for 24HRs AFFY_CEL_680e10891c.CEL


title: P19_22, pre-ATI

description:
6116733056_A
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P19, week 22


title: THP1 human monocyte cell line treated with Copaxone for 12HRs AFFY_CEL_68042bb79b2.CEL


title: THP1 human monocyte cell line treated with Other_glatiramoid_2 for 12HRs AFFY_CEL_6802ea9ccae.CEL


title: P5_8

description:
6116733056_I
DC3
Total RNA (globin reduced)

source_name: whole blood, P5, week 8


title: P8_M8

description:
6116733056_C
Baseline
Total RNA (globin reduced)

source_name: whole blood, P8, week -8


title: P9_M8

description:
6116733062_A
Baseline
Total RNA (globin reduced)

source_name: whole blood, P9, week -8


title: P4_22, pre-ATI

description:
6116733053_J
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P4, week 22


title: THP1 human monocyte cell line treated with Other_glatiramoid_2 for 6HRs AFFY_CEL_68017649f18.CEL

source_name: THP-1 human monocyte cell line


title: P19_4

description:
6116733053_H
DC2
Total RNA (globin reduced)

source_name: whole blood, P19, week 4


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 24HRs AFFY_CEL_680d4b40f4.CEL


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 24HRs AFFY_CEL_6804503c8f4.CEL


title: THP1 human monocyte cell line treated with Copaxone for 6HRs AFFY_CEL_6804b263c20.CEL


title: P7_M8

description:
6116733053_D
Baseline
Total RNA (globin reduced)

source_name: whole blood, P7, week -8


title: P8_22, pre-ATI

description:
6116733038_C
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P8, week 22


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 12HRs AFFY_CEL_680108e6c9c.CEL


title: P4_M4

description:
6116733053_E
APH1
Total RNA (globin reduced)

source_name: whole blood, P4, week -4


title: P14_22, pre-ATI

description:
6116733053_F
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P14, week 22


title: P3_M8

description:
6116733053_B
Baseline
Total RNA (globin reduced)

source_name: whole blood, P3, week -8


title: P2_22, pre-ATI

description:
6116733032_D
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P2, week 22


title: THP1 human monocyte cell line treated with Copaxone for 24HRs AFFY_CEL_680789ff9f5.CEL


title: P6_M8

description:
6116733032_L
Baseline
Total RNA (globin reduced)

source_name: whole blood, P6, week -8


title: THP1 human monocyte cell line treated with Copaxone for 12HRs AFFY_CEL_6806c2d3af9.CEL


title: P6_0

description:
6116733032_B
DC1
Total RNA (globin reduced)

source_name: whole blood, P6, week 0


title: P2_0

description:
6116733032_I
DC1
Total RNA (globin reduced)

source_name: whole blood, P2, week 0


title: THP1 human monocyte cell line treated with GA/RS for 6HRs AFFY_CEL_68034778846.CEL


title: P9_16

description:
6116733030_F
APH2
Total RNA (globin reduced)

source_name: whole blood, P9, week 16


title: P15_8

description:
6116733030_B
DC3
Total RNA (globin reduced)

source_name: whole blood, P15, week 8


title: P8_12

description:
6116733038_F
DC4
Total RNA (globin reduced)

source_name: whole blood, P8, week 12


title: THP1 human monocyte cell line treated with Mannitol for 12HRs AFFY_CEL_68058d68dfb.CEL


title: THP1 human monocyte cell line treated with Copaxone for 12HRs AFFY_CEL_6805e724231.CEL


title: THP1 human monocyte cell line treated with GA/RS for 12HRs AFFY_CEL_680719ad45c.CEL


title: P3_M4

description:
6116733029_B
APH1
Total RNA (globin reduced)

source_name: whole blood, P3, week -4


title: P7_16

description:
6116733029_E
APH2
Total RNA (globin reduced)

source_name: whole blood, P7, week 16


title: P13_22, pre-ATI

description:
6116733030_L
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P13, week 22


title: P10_8

description:
6116733029_D
DC3
Total RNA (globin reduced)

source_name: whole blood, P10, week 8


title: THP1 human monocyte cell line treated with Copaxone for 6HRs AFFY_CEL_68058331a6b.CEL

source_name: THP-1 human monocyte cell line


title: THP1 human monocyte cell line treated with Other_glatiramoid_2 for 6HRs AFFY_CEL_68042f9eaa4.CEL


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 24HRs AFFY_CEL_680b44aefd.CEL


title: P13_8

description:
6116733030_H
DC3
Total RNA (globin reduced)

source_name: whole blood, P13, week 8


title: P17_8

description:
6116733029_A
DC3
Total RNA (globin reduced)

source_name: whole blood, P17, week 8


title: P15_0

description:
6116733028_E
DC1
Total RNA (globin reduced)

source_name: whole blood, P15, week 0


title: P6_M4

description:
6116733028_K
APH1
Total RNA (globin reduced)

source_name: whole blood, P6, week -4


title: P17_M4

description:
6116733026_I
APH1
Total RNA (globin reduced)

source_name: whole blood, P17, week -4


title: P6_4

description:
6116733028_C
DC2
Total RNA (globin reduced)

source_name: whole blood, P6, week 4


title: THP1 human monocyte cell line treated with Mannitol for 6HRs AFFY_CEL_6805be20e19.CEL


title: THP1 human monocyte cell line treated with Copaxone for 12HRs AFFY_CEL_68018534add.CEL


title: P1_M4

description:
6116733026_F
APH1
Total RNA (globin reduced)

source_name: whole blood, P1, week -4


title: P7_0

description:
6116733026_J
DC1
Total RNA (globin reduced)

source_name: whole blood, P7, week 0


title: P11_M4

description:
6116733026_D
APH1
Total RNA (globin reduced)

source_name: whole blood, P11, week -4


title: P3_22, pre-ATI

description:
6116733028_H
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P3, week 22


title: P16_22, pre-ATI

description:
6116733028_A
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P16, week 22


title: THP1 human monocyte cell line treated with Copaxone for 12HRs AFFY_CEL_68028322613.CEL


title: P3_4

description:
6116733026_B
DC2
Total RNA (globin reduced)

source_name: whole blood, P3, week 4


title: P5_4

description:
6116733024_H
DC2
Total RNA (globin reduced)

source_name: whole blood, P5, week 4


title: P19_M4

description:
6116733024_I
APH1
Total RNA (globin reduced)

source_name: whole blood, P19, week -4


title: P5_M4

description:
6116733023_F
APH1
Total RNA (globin reduced)

source_name: whole blood, P5, week -4


title: P10_M4

description:
6116733026_C
APH1
Total RNA (globin reduced)

source_name: whole blood, P10, week -4


title: THP1 human monocyte cell line treated with Probioglat for 24HRs AFFY_CEL_68017d0c87e.CEL

source_name: THP-1 human monocyte cell line


title: THP1 human monocyte cell line treated with Copaxone for 24HRs AFFY_CEL_68051b52e9f.CEL


title: P5_16

description:
6116733024_C
APH2
Total RNA (globin reduced)

source_name: whole blood, P5, week 16


title: P15_12

description:
6116733024_K
DC4
Total RNA (globin reduced)

source_name: whole blood, P15, week 12


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 6HRs AFFY_CEL_680587a4e97.CEL


title: P11_4

description:
6116733030_K
DC2
Total RNA (globin reduced)

source_name: whole blood, P11, week 4


title: THP1 human monocyte cell line treated with GA/RS for 24HRs AFFY_CEL_6807144bc04.CEL


title: THP1 human monocyte cell line treated with Probioglat for 12HRs AFFY_CEL_680430291b8.CEL


title: P2_16

description:
6116733023_C
APH2
Total RNA (globin reduced)

source_name: whole blood, P2, week 16


title: P4_4

description:
6116733023_D
DC2
Total RNA (globin reduced)

source_name: whole blood, P4, week 4


title: P8_0

description:
6116733022_J
DC1
Total RNA (globin reduced)

source_name: whole blood, P8, week 0


title: P15_M8

description:
6116733029_G
Baseline
Total RNA (globin reduced)

source_name: whole blood, P15, week -8


title: P15_16

description:
6116733022_G
APH2
Total RNA (globin reduced)

source_name: whole blood, P15, week 16


title: P17_22, pre-ATI

description:
6116733022_E
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P17, week 22


title: P19_16

description:
6116733022_D
APH2
Total RNA (globin reduced)

source_name: whole blood, P19, week 16


title: THP1 human monocyte cell line treated with Probioglat for 12HRs AFFY_CEL_680cecac7c.CEL


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 24HRs AFFY_CEL_68022b75b3f.CEL


title: P1_M8

description:
6116733022_F
Baseline
Total RNA (globin reduced)

source_name: whole blood, P1, week -8


title: P10_22, pre-ATI

description:
6116733020_J
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P10, week 22


title: P3_12

description:
6116733020_C
DC4
Total RNA (globin reduced)

source_name: whole blood, P3, week 12


title: P15_M4

description:
6116733022_B
APH1
Total RNA (globin reduced)

source_name: whole blood, P15, week -4


title: THP1 human monocyte cell line treated with Copaxone for 24HRs AFFY_CEL_68015c71c12.CEL


title: P18_12

description:
6116733019_I
DC4
Total RNA (globin reduced)

source_name: whole blood, P18, week 12


title: THP1 human monocyte cell line treated with Copaxone for 24HRs AFFY_CEL_68043e44c86.CEL


title: THP1 human monocyte cell line treated with GA/RS for 12HRs AFFY_CEL_68036401c1e.CEL


title: P9_8

description:
6116733018_J
DC3
Total RNA (globin reduced)

source_name: whole blood, P9, week 8


title: P7_22, pre-ATI

description:
6116733019_A
W22 (Treatment Baseline)
Total RNA (globin reduced)

source_name: whole blood, P7, week 22


title: P7_8

description:
6116733019_D
DC3
Total RNA (globin reduced)

source_name: whole blood, P7, week 8


title: P4_12

description:
6116733020_G
DC4
Total RNA (globin reduced)

source_name: whole blood, P4, week 12


title: P19_M8

description:
6116733020_I
Baseline
Total RNA (globin reduced)

source_name: whole blood, P19, week -8


title: P1_4

description:
6116733019_J
DC2
Total RNA (globin reduced)

source_name: whole blood, P1, week 4


title: P16_16

description:
6116733019_K
APH2
Total RNA (globin reduced)

source_name: whole blood, P16, week 16


title: THP1 human monocyte cell line treated with Other_glatiramoid_1 for 12HRs AFFY_CEL_6803cdf7d50.CEL

source_name: THP-1 human monocyte cell line


title: P10_4

description:
6116733022_C
DC2
Total RNA (globin reduced)

source_name: whole blood, P10, week 4


title: P13_4

description:
6116733018_L
DC2
Total RNA (globin reduced)

source_name: whole blood, P13, week 4


title: THP1 human monocyte cell line treated with Copaxone for 6HRs AFFY_CEL_68034a46faf.CEL


title: THP1 human monocyte cell line treated with Mannitol for 12HRs AFFY_CEL_68028560cb6.CEL


title: P14_8

description:
6116733019_F
DC3
Total RNA (globin reduced)

source_name: whole blood, P14, week 8


title: P2_4

description:
6116733018_B
DC2
Total RNA (globin reduced)

source_name: whole blood, P2, week 4


title: P2_12

description:
6116733018_H
DC4
Total RNA (globin reduced)

source_name: whole blood, P2, week 12


title: P4_16

description:
6116733017_J
APH2
Total RNA (globin reduced)

source_name: whole blood, P4, week 16