title: Bdellovibrio bacteriovorus attack phase replicate 2

description: Biological replicate 2 of 3

treatment_protocol:
1) Grow the Bdellovibrio in a “prey lysate” of 1L Ca/HEPES, 60ml overnight E. coli YT culture and 50ml of a previous lysate in a 2L conical flask with 200rpm shaking in a 29°C incubator. Grow E. coli in 100ml YT in a 250ml flask overnight at 37°C in the shaking incubator.
2) Check that the lysate is fully lysed by microscopy (i.e. that virtually all the E. coli and bdelloplasts are gone and there are lots of motile attack phase bdellovibrios).
3) Pre-warm a benchtop centrifuge at 29°C.When lysate is fully lysed, spin 15,000g for 30 mins.
4) When lysate is fully lysed, spin 15,000g for 30 mins.
5) Spin down the E. coli in the benchtop centrifuge in 50ml falcon tubes, 5,000g, 10 mins at 29°C
6) Resuspend 50ml of E. coli in 50ml Ca/HEPES and dilute to OD600 of 1.0 then incubate at 29ºC in a 500ml flask with 200rpm shaking for 3 hours to stabilise expression.
7) Resuspend all of the bdellovibrios in 100ml Ca/HEPES buffer and incubate at 29°C in 500ml conical flask with 200rpm shaking for 3 hours to stabilise expression.
8) Pre-label 15ml falcon tubes for the samples and timepoints and add 1ml Phenol/ethanol solution (5% phenol 95% ethanol, v/v).
9) To start the infection, after 3 hours of pre-incubation, quickly add to the pre-incubated flasks:
* the TEST with 40ml E. coli and 50ml bdellovibrios and 30ml Ca/HEPES (pre-incubated)
* the S17-1 ONLY with 40ml E. coli and 80ml Ca/HEPES
* the BDELLOVIBRIO ONLY with 50ml bdellovibrio and 70ml Ca/HEPES
10) At each timepoint quickly take 4ml from each flask and add it to the phenol/ethanol tubes (for each sample), and quickly return the flasks to the incubator. Mix tubes well by inversion and put on ice for at least 45mins.
11) At each timepoint, also make a microscope slide of the test to check lysate synchrony and make a note of estimated percentage of E. coli, bdelloplasts and attack phase bdellovibrio
12) After the samples for RNA have been on ice for at least 1 hour, spin 10 mins, 3320g
15) Pour off the supernatant, leaving about 1ml to resuspend pellet carefully and transfer to microcentrifuge tube on ice.
16) Spin 13K 2 mins at 4ºC and then pipette off remaining supernatant carefully.
17) Store the tube containing the pellet a!Sample_molecule = total RNA


title: Cellular mRNA of SW480 - sample4

status: Public on Dec 03 2009

type: RNA

city: Pohang

first: Yong Song

last: Gho

address: San 31, Hyoja-dong, Nam-gu

country: South Korea

institute: Pohang University of Science and Technology

description: Exosomal and cellular mRNA profilies of SW480 cell line

hyb_protocol: Refer to the Illumina Gene Expression System Manual

data_processing: Intensities having the same probe ID were summarized by taking the average of log2(intensity-background). After the summarization, the data were normalized using quantile-normalization (Bolstad et al., Bioinformatics, 2003)

molecule: total RNA

organism: Homo sapiens

source_name: SW480 cells

extract_protocol: The total RNA was extracted from SW480 and purified microvesicles by the single-step isolation method using TRIzol reagent (Invitrogen Corporation) according to the manufacturer’s protocol. The RNA was resuspended in diethyl pyrocarbonate-treated water, quantified by UV absorbance at 260/280 nm and immediately used in the following experiments.

tag: SW480 human colorectal cancer cells


title: Microvesicular mRNA of SW480 - sample2

scan_protocol: Refer to the Illumina Gene Expression System Manual

source_name: SW480-derived microvesicles


title: Cellular mRNA of SW480 - sample2

label_protocol: Refer to the Illumina Gene Expression System Manual


title: Microvesicular mRNA of SW480 - sample1


title: Cellular mRNA of SW480 - sample3


title: Microvesicular mRNA of SW480 - sample4


title: Cellular mRNA of SW480 - sample1


title: Lymphatic endothelial cells_2 dyn/cm2 shear_2

status: Public on Dec 01 2009

city: Lausanne

first: Melody

last: Swartz

address: EPFL  Station 15

department: Science de la Vie

country: Switzerland

institute: Ecole Polytechnique Federal de Lausanne

description: Hybridization and scanning was performed by the Systems Biology and Translational Medicine Microarray Laboratory, Texas A&M Health Science Center, Temple, TX.

hyb_protocol: Spotted arrays were incubated 45 min @48ºC with 35 rpm orbital agitation in prehybridization buffer (5X SSC , 0.1% SDS, 0.2% BSA) and then gently agitated 2 x 5 min in nuclease-free water followed by 2 x 5 min in isopropanol before being spun dry and maintained at 48ºC until hybridization. Equal mass, dye-coupled amplified RNA samples were mixed, column purified, and fragmented by hydrolysis (Fragmentation Reagents, Ambion) prior to hybridization. The sample was then diluted to at least 0.5X with Slidehyb Glass Hybridization buffer (Ambion) and applied directly to the array surface. The sample was then covered with a Hybrislip (Grace Biolabs) and incubated for 16hrs @48ºC. Following hybridization, the arrays were gently agitated in 48ºC 1X SSC, 0.1% SDS for 6 min followed by room temperature 1X SSC, 0.1% SDS for 6 min followed room temperature 0.1X SSC for 3 x 6 min. The slides were then scanned immediately.

scan_protocol: The array is scanned at 635 nm and 532 nm wavelengths with a 10 µm resolution using Genepix 4000A scanner (Axon instruments). The two individual wavelength scans are then integrated and superimposed into a false color ratio image from which fluorescence data is collected using Genepix pro 6.0 (Axon instruments). All data is acquired in a tabular form and exported for analysis by other software.

data_processing: Unprocessed fluorescence intensity data was imported into GeneSpring GX 7.3 software (Agilent Technologies) and normalized by subtracting the local background intensity from the feature intensity for each channel, setting all Cy5 measurements less than 1 to 1, applying a per-gene and per-array, intensity-dependent (LOWESS) normalization utilizing 20% of data for smoothing and a Cy3 channel cutoff of 1, and dividing all genes by the median normalized value obtained for that gene across all arrays in the series. Values obtained from replicate oligos on the same array were averaged.

label_protocol: Total cellular RNA was subjected to one round of linear amplification using the Amino Allyl MessageAmp aRNA Kit (Ambion). Briefly, mRNA is reverse transcribed to form cDNA containing a T7 promoter. After conversion of the cDNA to double-stranded DNA, T7 RNA Polymerase is used to generate numerous antisense copies of each mRNA. During the in vitro transcription, 5-(3-aminoallyl)-UTP is incorporated into the amplified RNA, which is then chemically coupled to NHS esters of Cy dye (Amersham Biosciences).

growth_protocol: Blood and lymphatic microvascular endothelial cells were isolated from human neonatal foreskins via immunomagnetic separation and cultured according to a previously described method (Podgrabinska S, Braun P, Velasco P, Kloos B, Pepper MS, Jackson DG, Skobe M. Molecular characterization of lymphatic endothelial cells. PNAS. 2002;99:16069-74.). Cells were cultured on collagen type I (BD Biosciences, Bedford, MA) coated flasks in EBM basal medium (Cambrex, Verviers, Belgium) supplemented with 20% FBS, 1% L-glutamine, and 1% PSA (all from Invitrogen, Carlsbad, CA), and 25mg/mL c-AMP and 1mg/mL hydrocortisone acetate (both from Sigma, St. Louis, MO). Cells were used at passage 6-9.

extract_protocol: Endothelial cell total RNA was isolated using the RNAqueous-Micro kit (Ambion, Austin, TX) and DNase I treated according to the manufacturer’s instructions. RNA quantity and integrity were assessed using a 2100 Bioanalyzer and RNA6000 Nano LabChip Kit (Agilent Technologies, Palo Alto, CA) prior to microarray analysis.

treatment_protocol: The effects of shear stress on endothelial cell monolayers was examined using a parallel plate flow chamber (GlycoTech, Rockville, MD). Endothelial cells grown to confluence were either subjected to 0, 2 or 20 dyn/cm2 of laminar shear stress for 12 h.

tag: Biomaterial

value: cultured cells

tag: Sex

value: male

tag: Tissue

value: foreskin

tag: Age

value: neonatal

tag: Passage

tag: Shear exposure

value: 2 dyn/cm2 shear, 12 h

source_name: Human universal reference RNA

extract_protocol: This RNA was purchased from Stratagene (Cedar Creek, TX) and prepared according to the manufacturer's instructions.

tag: Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines (1. Adenocarcinoma, mammary gland; 2. Melanoma; 3. Hepatoblastoma, liver; 4. Liposarcoma; 5. Adenocarcinoma, cervix; 6. Histiocytic lymphoma, macrophage, histocyte; 7. Embryonal carcinoma, testis; 8. Lymphoblastic leukemia, T lymphoblast; 9. Glioblastoma, brain; 10. Plasmacytoma, myeloma, B lymphocyte). Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA.


title: Lymphatic endothelial cells_0 dyn/cm2 shear_4

value: 0 dyn/cm2 shear, 12 h


title: Bdellovibrio bacteriovorus bdelloplast replicate 3

status: Public on Dec 09 2009

city: Nottingham

first: Carey

last: Lambert

state: Notts

address: Queen's Medical Centre

department: Genetics

country: United Kingdom

institute: Nottingham University

description: Biological replicate 3 of 3

hyb_protocol: see the Nimblegen website for details

scan_protocol: see the Nimblegen website for details

data_processing: Normalized gene calls using the RMA package, see the Nimblegen website for details

organism: Bdellovibrio bacteriovorus HD100

source_name: Total RNA from bdelloplast

label_protocol: see the Nimblegen website for details

extract_protocol: IFR protocol, eluting in 50µl and DNase treating with Ambion DNA-free kitSee the Institute of Food Research (Norwich, UK) for more details.

tag: Total RNA from 30 minute sample of a semi-synchronous infection of B. bacteriovorus on E. coli S17-1


title: Lymphatic endothelial cells_0 dyn/cm2 shear_3


title: Lymphatic endothelial cells_20 dyn/cm2 shear_3

value: 20 dyn/cm2 shear, 12 h


title: Lymphatic endothelial cells_2 dyn/cm2 shear_3


title: Microvesicular mRNA of SW480 - sample3


title: CoPPIX 24h 3

status: Public on Dec 15 2009

city: Bergisch Gladbach

first: Silvia

last: Rueberg

address: Friedrich-Ebert-Str. 68

department: Genomic Services

country: Germany

institute: Miltenyi Biotec GmbH

description: Cy3 and Cy5 labeled (sample_ch1 and sample_ch2) cDNA were combined  and hybridzed on the PIQOR ™ custom_CTID88 Microarray, mouse,

hyb_protocol: PIQOR ™ Microarray pretreatment: microarrays were heated in distilled H20 at 95 °C for 2 min, microarrays were transfered into ethanol for at least 30 seconds and then dried by using pressured air. Hybridization: Hybridization was performed using a GeneTAC hybridization station (PerkinElmer, Rodgau-Juegesheim, Germany). Microarrays were prehybridized with 100 µl Prehybridization Solution at 65 °C

scan_protocol: Image capture and signal quantification of hybridized PIQOR (TM) microarrays were done with the ScanArray 3000 Microarray Scanner (GSI Lumonics, Watertown,MA, USA) and the ImaGene software Version 4.1 (BioDiscovery, Los Angeles, CA, USA).

data_processing: Mean signal and mean local background intensities were obtained for each spot of the microarray images using the ImaGene software Version 4.1 (Biodiscovery, Los Angeles, CA, USA). Low-quality spots were flagged and excluded from data analysis. Unflagged spots were analysed with the PIQORTM Analyzer software (Miltenyi Biotec, Bergisch Gladbach, Germany). The PIQOR Analyzer allows automated data processing of the raw data text files derived from the ImaGene software. This includes background subtraction to obtain the net signal intensity, data normalization, and calculation of the Cy5/Cy3 ratios. Subsequently, the mean of the ratios of the four corresponding spots representing the same cDNA was computed. The ratios were normalized using the LOWESS method. As an additional quality filtering step, only genes were taken into account for the calculation of the Cy5/Cy3 ratio that have at least in one channel a signal intensity that was at least 2-fold higher than the mean background.

organism: Mus musculus

source_name: control:liver, pool of 9 untreated mice

label_protocol: mRNA was isolated from 100 µg total RNA (Oligotex mRNA Mini Kit, Qiagen, Hilden, Germany), mRNA was reverse transcribed in the presence of Cy3-dCTPs according to the PIQOR ™ User manual (Miltenyi Biotec, Bergisch Gladbach, Germany)

extract_protocol: NucleoSpin RNA L Kit (Macherey-Nagel GmbH and Co KG, Dueren, Germany)

tag: wildtype C57BL/6 (8-10 weeks), liver, untreated

source_name: tissue: liver, treatment: 5 mg/kg CoPPIX (metalloporphyrin cobalt-protoporphyrin IX, i.p., timepoint: 24 h

tag: wildtype C57BL/6 (8-10 weeks), liver, biological replicate 3 of 3


title: Lymphatic endothelial cells_20 dyn/cm2 shear_4


title: Lymphatic endothelial cells_0 dyn/cm2 shear_2


title: Blood endothelial cells_20 dyn/cm2 shear_4

source_name: blood endothelial cells, 20 dyn/cm2 shear


title: Lymphatic endothelial cells_2 dyn/cm2 shear_4


title: Lymphatic endothelial cells_0 dyn/cm2 shear_1


title: Lymphatic endothelial cells_20 dyn/cm2 shear_1


title: Blood endothelial cells_0 dyn/cm2 shear_3

source_name: blood endothelial cells, 0 dyn/cm2 shear


title: Lymphatic endothelial cells_20 dyn/cm2 shear_2


title: Lymphatic endothelial cells_2 dyn/cm2 shear_1


title: Blood endothelial cells_20 dyn/cm2 shear_3


title: SpragueDawley-liver-control-rep3

status: Public on Nov 24 2009

city: Toronto

first: Paul

middle: C

last: Boutros

state: Ontario

address: 101 College Street, Suite 800

country: Canada

institute: Ontario Institute for Cancer Research

description: Gene expression data from control rat liver

hyb_protocol: The isolated RNA was then assayed on Affymetrix RAE230-2 arrays at The Centre for Applied Genomics at The Hospital for Sick Children (Toronto, Canada) following standard manufacturer's protocols. That is, a total of 1.5 µg of purified total RNA template was reverse-transcribed to generate double-stranded cDNA. Following second strand cDNA synthesis, biotin-labeled antisense cRNA was generated by in vitro transcription. Next, 15 µg of each generated cRNA preparation was fragmented and hybridized to an Affymetrix RAE230-2 oliogonucleotide array. Automated washing, staining and scanning was done according to the manufacturer's protocols.

data_processing: Affymetrix array data were loaded into the R statistical environment (v2.4.1) using the affy package (v1.12.2) of the BioConductor open-source library (Gentleman et al., 2004). The raw data were then pre-processed using the GC-RMA variant (Wu et al., 2004) of the common RMA algorithm (Irizarry et al., 2003a), as implemented in the gcrma package of BioConductor (v2.6.0).

label: biotin

organism: Rattus norvegicus

source_name: control rat liver

growth_protocol: Male Sprague Dawley (SD) rats between the ages of 10 and 12 weeks were obtained from the breeding colonies of the National Public Health Institute, Division of Environmental Health, Kuopio, Finland. Rats were kept in stainless steel wire-mesh cages with unlimited access to standard animal feed (R36, Ewos, Södertälje, Sweden) and tap water. Lights were on between 7:00 and 19:00. Ambient room temperature and humidity were maintained at 21.5 ± 1 ?C and 55 ± 10%, respectively.

extract_protocol: Liver was harvested, sliced, snap-frozen and stored in liquid nitrogen until homogenization. Total RNA was extracted using RNeasy kits (Qiagen) according to the manufacturer’s instructions. DNase (Qiagen) was added to the RNeasy elution column as recommended by the manufacturer. RNA yield was quantified by UV spectrophotometry and RNA integrity was verified using an Agilent 2100 Bioanalyser.

treatment_protocol: No treatments were given.

tag: Strain:Sprague/Dawley, Age:10-12 weeks, Tissue

value: liver, Gender:Male


title: Blood endothelial cells_0 dyn/cm2 shear_4


title: SpragueDawley-liver-control-rep1

scan_protocol: The isolated RNA was then assayed on Affymetrix RAE230-2 arrays at The Centre for Applied Genomics at The Hospital for Sick Children (Toronto, Canada) following standard manufacturer's protocols. That is, a total of 1.5 µg of purified total RNA template was reverse-transcribed to generate double-stranded cDNA. Following second strand cDNA synthesis, biotin-labeled antisense cRNA was generated by in vitro transcription. Next, 15 µg of each generated cRNA preparation was fragmented and hybridized to an Affymetrix RAE230-2 oliogonucleotide array. Automated washing, staining and scanning was done according to the manufacturer's protocols.


title: SpragueDawley-liver-control-rep4

label_protocol: The isolated RNA was then assayed on Affymetrix RAE230-2 arrays at The Centre for Applied Genomics at The Hospital for Sick Children (Toronto, Canada) following standard manufacturer's protocols. That is, a total of 1.5 µg of purified total RNA template was reverse-transcribed to generate double-stranded cDNA. Following second strand cDNA synthesis, biotin-labeled antisense cRNA was generated by in vitro transcription. Next, 15 µg of each generated cRNA preparation was fragmented and hybridized to an Affymetrix RAE230-2 oliogonucleotide array. Automated washing, staining and scanning was done according to the manufacturer's protocols.


title: SpragueDawley-liver-control-rep2


title: Blood endothelial cells_20 dyn/cm2 shear_1

tag: Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines (1. Adenocarcinoma, mammary gland; 2. Melanoma; 3. Hepatoblastoma, liver; 4. Liposarcoma; 5. Adenocarcinoma, cervix; 6. Histiocytic lymphoma, macrophage, histocyte; 7. Embryonal carcinoma, testis; 8. Lymphoblastic leukemia, T lymphoblast; 9. Glioblastoma, brain; 10. Plasmacytoma, myeloma, B lymphocyte). Equal quantities of DNase-treated total RNA from each cell line were  pooled to make the Universal Human Reference RNA.


title: Blood endothelial cells_20 dyn/cm2 shear_2


title: Blood endothelial cells_0 dyn/cm2 shear_2


title: Blood endothelial cells_0 dyn/cm2 shear_1


title: Medium control HBMEC 6hr biol-rep2

status: Public on Nov 10 2009

city: Baltimore

first: Abhai

middle: K

last: Tripathi

state: MD

address: 615 N Wolfe St

department: Mol Microbiol and Immunology, SPH and Neurology, SOM

country: USA

institute: Johns Hopkins University

description: Gene expression data from HBMEC incubated with experimental medium alone.

hyb_protocol: 10ug fragmented, biotinylated cRNA was hybridized to Human Genome U133A 2.0 GeneChips for 16hours at 45oC and 60rpm.  The signal amplification protocol for washing/staining was performed in a FS450 automated fluidics station according to Affymetrix protocol.

scan_protocol: GeneChips were scanned in an Affymetrix GCS3000 scanner with autoloader.

data_processing: The data were analyzed with GCOS 1.4 software.  "All probe sets" scaling was performed with a target signal value of 500.  No normalization was performed.

label: Biotin

source_name: Brain endothelial cells, exposed to Pf-IRBC, 6hrs

label_protocol: 5 ug total RNA was processed according to the Affymetrix Technical manual Rev5 protocol to generate biotinylated cRNA.

growth_protocol: Cells were cultured in RPMI 1640 medium, supplemented with fetal calf serum (10%), Nu serum IV (10%), vitamins (1%), nonessential amino acids (1%), sodium pyruvate (1 mM) and L-glutamine (2 mM). The cells were maintained in T25 flasks (Corning Costar Corporation, Cambridge, MA) in a humid atmosphere at 37°C with 5% CO2. For microarray experiments and cytokine determinations (ELISA, Protein Array and BD Flex bead assay), the cells were used at < passage 6. For microarray experiments HBMEC was grown in collagen coated 6 well plates until cells achieved about 80-90 % confluence, then medium was changed to RPMI 1640 with 5% FBS one day before co-incubation with P. falciparum

extract_protocol: Total RNA was extracted from cells homogenized in TRIZOL according to manufacturer's instructions.

treatment_protocol: Before each experiment percoll enriched Pf-IRBCs (trophozoites) were stained with Giemsa and examined by light microscopy for quality controlFor all the studies the Pf-IRBC to HBMEC ratio was kept at 50:1 to cover the whole surface of monolayer and to mimic the conditions of brain sequestration. For controls the matched identical uninfected RBCs from the same donor used for parasite culture was maintained under the same conditions. For microarray studies HBMECs were grown to confluence in 6-well plate and then co-cultured with Pf-IRBCs and uninfected RBCs at 37 °C for another 6 hours. After incubation the culture-supernatants were aspirated carefully and stored at -70C for follow-up studies. Endothelial monolayers were then washed twice with ice-cold PBS and then immediately resuspended into 1 ml of Trizol reagent.

tag: Primary Human Microvascular endothelial cells from adult. HBMEC 13


title: RBC control HBMEC 6hr biol-rep1

description: Gene expression data from HBMEC co-cultured with uninfected control RBC.

source_name: Brain endothelial cells, exposed to Pf-IRBC-P, 6hrs


title: RBC control HBMEC 6hr biol-rep2


title: Medium control HBMEC 6hr biol-rep1


title: Unselected 3D7 HBMEC 6hr biol-rep2

description: Gene expression data from HBMEC co-cultured with P. falciparum infected RBC.

source_name: Brain endothelial cells, exposed to normal RBC, 6hrs


title: renal proximal tubule epithelial cells 3

status: Public on Nov 03 2009

city: BARI

first: Fabio

last: Sallustio

address: P.zza G.Cesare

department: DETO

country: Italy

institute: University of Bari

hyb_protocol: Human Genome U133 A (Affymetrix) were hybridizated with 15 micrograms of fragmented cRNA, according to manufacturer’s instructions.

scan_protocol: We used the default settings of GCOS software to scan the chips.

data_processing: We used the default settings of Affymetrix Microarray Suite software version 5 (MAS 5.0; Affymetrix) to calculate scaled gene expression values.

source_name: Primary epithelial cells from normal human renal proximal tubule

label_protocol: The One-Cycle cDNA Synthesis Kit (Affymetrix) was used. Starting from 1.5 micrograms of total RNA we performed the in vitro transcription (IVT) reaction for complementary RNA (cRNA) amplification and biotin labeling, according to the manufacturer’s instructions.The biotinylated cRNA targets were then cleaned up, fragmented, and hybridized to GeneChip brand expression arrays

extract_protocol: Total RNA was extracted from a minimum of 10^6 cultured cells for each line by using the SV Total RNA isolation kit (Promega, Madison, WI) according the manufacturer’s instructions. Total RNA was quantified by NanoDrop® ND-1000 Spectrophotometer and its quality was assessed by electrophoresis on agarose gel (1%).

tag: Primary human renal proximal tubule cells were purchased from Lonza (Valais, Switzerland)


title: MESENCHYMAL STEM CELL 3

description: We used the default settings of GCOS software to scan the chips

source_name: Human bone marrow derived stem cells

tag: Mesenchymal Stem Cells were purchased from Lonza (Valais, Switzerland)


title: Selected 3D7 HBMEC 6hr biol-rep2

description: Gene expression data from HBMEC co-cultured with P. falciparum infected RBC earlier selected for endothelial binding.

source_name: Brain endothelial cells, exposed to experimental medium, 6hrs


title: Unselected 3D7 HBMEC 6hr biol-rep1


title: Selected 3D7 HBMEC 6hr biol-rep1


title: MESENCHYMAL STEM CELL 1

source_name: Human bone marrow derived stem cells.


title: MESENCHYMAL STEM CELL 2


title: renal proximal tubule epithelial cells 1


title: renal proximal tubule epithelial cells 2


title: GLOMERULAR PROGENITOR 3

source_name: progenitor cells isolated from renal glomerular fraction

tag: macroscopically normal cortical tissue from clear cell renal carcinoma affected kidney

tag: donor ID

tag: donor gender

tag: donor age


title: TUBULAR PROGENITOR CELL 3

source_name: progenitor cells isolated from renal tubular fraction


title: GLOMERULAR PROGENITOR CELL 2

hyb_protocol: Human Genome U133 A (Affymetrix) were hybridizated with 15 micrograms of fragmented cRNA, according to manufacturer’s instructions

value: female


title: Olfactory epithelium of adult Rag1 mutant zebrafish: final sample

status: Public on Oct 28 2009

city: Singapore

first: Suresh

last: Jesuthasan

address: 1 Research Link

country: Singapore

institute: Temasek Life Sciences Laboratory

hyb_protocol: Hybridization was carried out at the Kimmel Cancer Center using a HS 4800 hybridization station (Tecan).

scan_protocol: Signals were detected with Alexa647-conjugated Streptavidin. Slides were scanned at the Kimmel Cancer Center.

data_processing: Data was processed with GeneSpring.

label: Alexa647-conjugated Streptavidin

organism: Danio rerio

source_name: Olfactory epithelium, mutant

label_protocol: RNA was labeled by in vitro transcription

growth_protocol: Fish were grown in a standard zebrafish facility (Aquatic Habitats)

extract_protocol: Olfactory rosettes were dissected from freshly killed adult zebrafish, and transfered to a tube containing 250 µl Trizol with 0.5 µg/ml glycogen. These were then homogenized. Total RNA was extracted according to the manufacturer's protocol (www.invitrogen.com/content/sfs/manuals/15596026.pdf)

treatment_protocol: Untreated

tag: Strain

value: Rag1 homozygous mutant;

tag: Gender

value: mixed;

value: 1 - 2 years;

tag: Tissue

value: olfactory rosettes.


title: WT vs WT overexpressing YJL070C

status: Public on Oct 30 2009

city: Paris

first: Laurent

last: Jourdren

address: 46 rue d'Ulm

department: Biologie

country: France

institute: École Normale Supérieure

description: Technical replicate 1 of 2.

hyb_protocol: 2µg of labelled cDNA is mixed with one volume of 2X GE buffer (Agilent) and 10% of blocking agent. The hybridization sample volume is dispense on the selected microarray and incubated overnight at 65¡C in a hybridization oven (Agilent). The array slides are washed 1 minute in "wash 1 buffer" at room temperature and one minute in "wash 2 buffer" at 37¡C. The array slides are then air dryed and ready for scaning.

scan_protocol: Scanned on a genepix 4000B scanner (Axon)

data_processing:
Scanning software: GenePix Pro 6.1
Normalization using Goulphar WebTool http://transcriptome.ens.fr/goulphar/
Genepix flags are removed from the analysis. Spots are considered as saturating spot above 50000 and removed. Background is not subtracted from the main signal. Global Lowess normalisation method.

organism: Saccharomyces cerevisiae

source_name: Total RNA extracted from WT (BY4742) strain overexpressing YJL070C labeled with Cyanine-5 (red).

label_protocol: 2 µg RNA are retro transcribed using Superscript III retro transcriptase and incorporation of dUTP amino-allyl for indirect labeling. The cDNA are purified using QiaQuick column (Quiagen) and incubated 1 hour at room temperature in presence of 0.05M NaBicarbonate and NHS-ester Cy5. The coupling is stoped by addition of hydroxylamine to a final concentration of 0.6M. Labeled cDNA are purified using QiaQuick column.

growth_protocol: Cell growth 24 hours at 28°C in SD medium (Casaminoacid 0.2%, Adenin 300µM, Tryptophan 200µM) to an OD = 1.0

extract_protocol: Hot phenol extract procedure followed by RNEasy Mini Kit purification step (Quiagen)

tag: WT BY4742 (Mat alpha, his3D1, leu2D0, lys2D0, ura3D0) strain overexpressing YJL070C

source_name: Total RNA extracted from WT (BY4742) strain labeled with Cyanine-3 (green).

label_protocol: 2 µg RNA are retro transcribed using Superscript III retro transcriptase and incorporation of dUTP amino-allyl for indirect labeling. The cDNA are purified using QiaQuick column (Quiagen) and incubated 1 hour at room temperature in presence of 0.05M NaBicarbonate and NHS-ester Cy3. The coupling is stoped by addition of hydroxylamine to a final concentration of 0.6M. Labeled cDNA are purified using QiaQuick column.


title: 4064

status: Public on Oct 20 2009

city: Leuven

first: Rekin's

last: Janky

address: Herestraat 49 Box 816

department: Nucleomics Core

country: Belgium

institute: VIB

description: To study their metabolic potential in natural ecosystems, we developed a species-independent LAB microarray, containing 2,269 30-mer oligonucleotides, and targeting 406 genes that play a key role in the production of sugar catabolites, bacteriocins, exopolysaccharides, and aromas, in probiotic and biosafety characteristics, and in stress response. Also, genes linked to negative traits such as antibiotic resistance and virulence are represented.  This experiment is a validation experiment, where we hybridized labelled RNA from 20 LAB strains, covering 86% of all oligos.

hyb_protocol: Hybridization mixtures were prepared using 50 pmol labeled aRNA in 210 µL Hybridization Buffer (GE Healthcare) containing 50% formamide (Sigma-Aldrich). The hybridization mixtures were denaturized at 96C for 3 min, put on ice for at least 5 min, and were hold at 32C for 5 min and subsequently centrifuged at 12,000 rpm for 5 min.   The samples were hybridized with an HS 4800 Pro Hybridization Station (Tecan Systems Inc, San Jose, USA) at 32C for 16 h. Post-hybridization washing (automated) was performed in 1x SSC / 0.2% SDS at 32C, 27C and 23C for 20sec, 20sec and 30sec, respectively.   This was followed by 0.1x SSC / 0.2% SDS for 1 min at 23C and in 0.1x SSC at 23C for 30 sec. Slides were dried for 2 min at 30C using  nitrogen gas.

scan_protocol: Slides were scanned using the Agilent scanner (Agilent) at 10 micron and images were analysed using ArrayVision v7 (GE Healthcare).

data_processing: We apply a background correction, i.e. we subtract the local background for the local foreground intensities.  We compute the base 2 log-ratio for each probe and average the log-ratios over the 4 replicates on the array.

organism: Enterococcus faecalis

label_protocol: RNA was linearly amplified using Genisphere SensAmp kit (Genisphere, Hatfield, Pennsylvania, USA) using 200 ng of total RNA. The protocol was followed according to manufacturer's instructions. The amplified RNA (aRNA) was purified using the RNeasy Mini Kit (Qiagen), and the purified aRNA was Cy5 labeled by a reverse transcription reaction as earlier described by Puskas LG, Zvara A, Hackler L, Van Hummelen P: RNA amplification results in reproducible microarray data with slight ratio bias. Biotechniques 2002, 32(6):1330-1340.

extract_protocol: For RNA extractions, 10 mL of an overnight culture was collected in 40 mL RNAprotect (Qiagen, Hilden, Germany) that was 2:1 diluted with 1x PBS buffer (Invitrogen, Carlsbad, California, USA), mixed, and kept at room temperature for minimal 5 min. The sample was subsequently centrifuged at 5,000 g for 15 min. The pellet was resuspended in 200 µL TE buffer (30 mM Tris-HCl, 1 mM EDTA, pH 8.0) containing 1.3 U/µL mutanolysin (Sigma-Aldrich, Milwaukee, Wisconsin, USA) and 50 µg/µL lysozym (Sigma-Aldrich), and incubated in a shaking water bath at 37°C for 1 h. According to the RNeasy Mini Kit protocol, 700 µL of RLT buffer containing 10µL/mL ²-mercaptoethanol was added to the lysate, and the solution was mixed and transferred to a tube containing approximate 50 mg of acid-washed beads (Sigma-Aldrich) that was vortexed for 5 min. The tube was centrifuged for 10 sec. in a microcentrifuge at full speed and 850 µL of supernatant was added to 590 µL 80% ethanol. 700 µL of this mixture was applied on the RNeasy Mini column. Manufacturer's standard instructions were followed from that point. RNA quality was checked by measuring the 260nm/280nm and 260nm/230nm ratios using a NanoDrop ND-1000 spectrophotometer (NanoDrop, Wilmington, Delaware, USA), and by electrophoresis using a Bioanalyzer 2100 (Agilent Technologies, Palo Alto, California, USA).

tag: The bacterial strain Enterococcus faecalis LMG 8222.

organism: Leuconostoc mesenteroides

label_protocol: RNA was linearly amplified using Genisphere's SensAmp kit (Genisphere, Hatfield, Pennsylvania, USA) using 200 ng of total RNA. The protocol was followed according to manufacturer's instructions. The amplified RNA (aRNA) was purified using the RNeasy Mini Kit (Qiagen), and the purified aRNA was Cy3 labeled by a reverse transcription reaction as earlier described by Puskas LG, Zvara A, Hackler L, Van Hummelen P: RNA amplification results in reproducible microarray data with slight ratio bias. Biotechniques 2002, 32(6):1330-1340.

tag: The bacterial strain Leuconostoc mesenteroides subsp. mesenteroides LMG 6893.


title: amd1 knock-out mutant vs WT (dye swap)

description: Technical replicate 2 of 2 (dye swap).

source_name: Total RNA extracted from WT (BY4742) strain labeled with Cyanine-5 (red).

growth_protocol: Cell growth 24 hours at 28°C in SD medium (Casaminoacid 0.2%, Adenin 300µM, Uracil 200µM, Tryptophan 200µM) to an OD = 1.0

tag: WT BY4742 (Mat alpha, his3D1, leu2D0, lys2D0, ura3D0) strain

source_name: Total RNA extracted from amd1 knock-out mutant in BY4742 strain labeled with Cyanine-3 (green).

tag: amd1 knock-out in BY4742 (Mat alpha, his3D1, leu2D0, lys2D0, ura3D0) strain


title: 4063

organism: Enterococcus faecium

tag: The bacterial strain Enterococcus faecium RSZ C5.


title: 4062

organism: Latilactobacillus sakei

tag: The bacterial strain L. sakei subsp. sakei CTC 494.


title: WT overexpressing YJL070C vs WT (dye swap)

description: Technical replicate 2 of 2 (dye swap).

source_name: Total RNA extracted from WT (BY4742) strain overexpressing YJL070C labeled with Cyanine-3 (green).


title: 4065

organism: Lactiplantibacillus plantarum

tag: The bacterial strain L. plantarum 80.


title: TUBULAR PROGENITOR CELL 2


title: WT vs amd1 knock-out mutant

description: Technical replicate 1 of 2.

source_name: Total RNA extracted from amd1 knock-out mutant in BY4742 strain labeled with Cyanine-5 (red).


title: Olfactory epithelium of adult zebrafish: third sample

source_name: olfactory epithelium, wild type

value: wild type siblings of Rag1 mutants;

value: olfactory rosettes;

tag: Age

value: 1 - 2 years.


title: Olfactory epithelium of adult zebrafish: second sample

source_name: Adult zebrafish olfactory epithelium

value: wild type siblings of Rag1 mutant;


title: 4060

organism: Lactococcus lactis

tag: The bacterial strain Lactococcus lactis subsp. lactis LDV 22186.

tag: The bacterial strain Lactococcus lactis subsp. cremoris MG1363.


title: 4059

organism: Lactobacillus delbrueckii

tag: The bacterial strain L. delbrueckii subsp. delbrueckii LMG 6901.


title: 4061


title: WT vs WT with 0.1µg/ml MPA

description: Technical replicate 1 of 2.

source_name: Total RNA extracted from WT (BY4742) strain with 0.1µg/ml Mycophenolic acid (MPA) added 1 hour before the harvest for extraction add labeled with Cyanine-5 (red).

tag: WT BY4742 (Mat alpha, his3D1, leu2D0, lys2D0, ura3D0) strain with 0.1µg/ml MPA


title: WT with 0.1µg/ml MPA vs WT (dye swap)

description: Technical replicate 2 of 2 (dye swap).

source_name: Total RNA extracted from WT (BY4742) strain with 0.1µg/ml Mycophenolic acid (MPA) added 1 hour before the harvest for extraction add labeled with Cyanine-3 (green).


title: GLOMERULAR PROGENITOR CELL 1

tag: macroscopically normal cortical tissue from clear cell renal carcinoma affected kidney

tag: donor id

tag: donor gender

tag: donor age


title: macroH2A1 (R replicate)

status: Public on Nov 13 2009

type: genomic

city: Dallas

first: W. Lee

last: Kraus

state: TX

address: 5323 Harry Hines Blvd.

institute: UT Southwestern Medical Center

description: see the NimbleGen website

hyb_protocol: see the NimbleGen website

scan_protocol: see the NimbleGen website

data_processing: Genomic data analysis was performed using the statistical programming language R (R Development Core Team) (5). All data processing scripts are available upon request. The log2 ratio data from each of the arrays was subjected to lowess normalization.

label: Cy 3

molecule: genomic DNA

source_name: input

label_protocol: see the NimbleGen website

extract_protocol: MCF-7 breast cancer cells were grown to ~80 to 90% confluence, cross-linked with 1% paraformaldehyde in PBS for 10 min. at 37°C, and quenched in 125 mM glycine in PBS for 5 min at 4°C. The cells were collected by centrifugation and sonicated in lysis buffer (1% SDS, 10 mM EDTA, 50 mM Tris•HCl, pH 7.9, 1x protease inhibitor cocktail) to generate chromatin fragments of ~500 bp in length. The material was clarified by centrifugation, diluted 10-fold in dilution buffer (0.5% Triton X-100, 2 mM EDTA, 150 mM NaCl, 20 mM Tris•HCl, pH 7.9, 1x protease inhibitor cocktail), and pre-cleared with protein A-agarose beads. The pre-cleared, chromatin-containing supernatant was extracted with phenol:chloroform:isoamyl alcohol and precipitated with ethanol. The DNA was then amplified by LM-PCR.

tag: MCF-7 cell ChIP input

source_name: macroH2A1 IP

extract_protocol: MCF-7 breast cancer cells were grown to ~80 to 90% confluence, cross-linked with 1% paraformaldehyde in PBS for 10 min. at 37°C, and quenched in 125 mM glycine in PBS for 5 min at 4°C. The cells were collected by centrifugation and sonicated in lysis buffer (1% SDS, 10 mM EDTA, 50 mM Tris•HCl, pH 7.9, 1x protease inhibitor cocktail) to generate chromatin fragments of ~500 bp in length. The material was clarified by centrifugation, diluted 10-fold in dilution buffer (0.5% Triton X-100, 2 mM EDTA, 150 mM NaCl, 20 mM Tris•HCl, pH 7.9, 1x protease inhibitor cocktail), and pre-cleared with protein A-agarose beads. The pre-cleared, chromatin-containing supernatant was used in immunoprecipitation reactions with antibodies against macroH2A1. The immunoprecipitated genomic DNA was cleared of protein and residual RNA by digestion with proteinase K and RNase H, respectively. The DNA was then extracted with phenol:chloroform:isoamyl alcohol and precipitated with ethanol.

tag: MCF-7 cell macroH2A1 IP


title: 4057

organism: Lactobacillus johnsonii

tag: The bacterial strain L. johnsonii La1.

organism: Lactobacillus acidophilus

tag: The bacterial strain L. acidophilus 1BB 801.


title: TUBULAR PROGENITOR CELL 1

tag: donor ID


title: Olfactory epithelium of adult Rag1 mutant zebrafish: second sample

source_name: Olfactory epithelium, wild type

tag: Strain

tag: Gender

tag: Tissue


title: 4056

organism: Limosilactobacillus fermentum

tag: The bacterial strain L. fermentum IMDO 130101.


title: 4055

tag: The bacterial strain L. fermentum 222.


title: 4665

organism: Companilactobacillus paralimentarius

tag: The bacterial strain L. paralimentarius R-19091.

tag: The bacterial strain L. plantarum R-29870.


title: 4549

organism: Fructilactobacillus sanfranciscensis

tag: The bacterial strain L. sanfranciscensis LMG 16002T.

organism: Latilactobacillus curvatus

tag: The bacterial strain L. curvatus R-27961.


title: Olfactory epithelium of adult zebrafish

value: wild type siblings of Rag1 mutants

value: mixed male and female

value: Olfactory epithelium

tag: Age

value: 1 - 2 years


title: 4545

tag: The bacterial strain L. fermentum LMG 8154.


title: 4058

tag: The bacterial strain L. delbrueckii subsp. delbrueckii LMG 6901.


title: 4547

organism: Limosilactobacillus pontis

tag: The bacterial strain L. pontis LMG 14187T.


title: 4548


title: 4544


title: Olfactory epithelium of adult Rag1 mutant zebrafish

value: Rag1 homozygous mutants;

value: mixed male and female;


title: 4054

tag: The bacterial strain L. plantarum LMG 9211.


title: 4053

tag: The bacterial strain L. plantarum ACA-DC 287.


title: 4052

tag: The bacterial strain L. plantarum 80.


title: 4541

hyb_protocol: Hybridization mixtures were prepared using 40 pmol labeled DNA in 210 µL Hybridization Buffer (GE Healthcare) containing 50% formamide (Sigma-Aldrich). The hybridization mixtures were denaturized at 96C for 3 min, put on ice for at least 5 min, and were hold at 32C for 5 min and subsequently centrifuged at 12,000 rpm for 5 min. The samples were hybridized with an HS 4800 Pro Hybridization Station (Tecan Systems Inc, San Jose, USA) at 32C for 16 h. Post-hybridization washing (automated) was performed in 1x SSC / 0.2% SDS at 32C, 27C and 23C for 20sec, 20sec and 30sec, respectively. This was followed by 0.1x SSC / 0.2% SDS for 1 min at 23C and in 0.1x SSC at 23C for 30 sec. Slides were dried for 2 min at 30C using nitrogen gas.

data_processing: We apply a background correction, i.e. we subtract the local background for the local foreground intensities.  Data are base 2 log transformed and for each clone averaged over the 4 replicates on the array.

label_protocol: DNA samples were labeled using an adapted protocol based on the BioPrimeTM DNA Labeling System (Invitrogen). 20 µL of the 2.5x mix of random primer and reaction buffer was added to 2 µg DNA in a volume of 21 µL. The mixture was incubated at 90C for 5 min and immediately put on ice. 5 µL of a dNTP mix (1.2mM dATP, 1.2 mM dGTP, 1.2 mM dTTP, and 0.6 mM dCTP), 3µL 1mM Cy3TM dCTP (GE Healthcare), and 1 µL of Klenow fragments were added. The mixture was incubated at 37C for 16 h in a thermal cycler. The reaction was stopped by adding 5 µL of Stop Buffer. The amplification product was purified using the MinElute PCR Purification Kit (Qiagen) and the concentration was measured using NanoDrop.

growth_protocol: The strain was grown overnight in MRS-5  medium.

extract_protocol: DNA extraction was performed according to the method described by Dirk Gevers, Geert Huys, Jean Swings (2001) Applicability of rep-PCR fingerprinting for identification of Lactobacillus species. FEMS Microbiology Letters 205 (1), 31-36.


title: 4543


title: 4539


title: 4542


title: 4540


title: macroH2A1 (M replicate)

description: see the NimbleGen website

organism: Homo sapiens

tag: MCF-7 cell ChIP input

tag: MCF-7 cell macroH2A IP


title: 4537


title: 4538


title: 4536


title: 4167

tag: The bacterial strain Leuconostoc mesenteroides subsp. mesenteroides LMG 6893.


title: 4534


title: 4535


title: 4532


title: 4533


title: 4166

tag: The bacterial strain Enterococcus faecalis LMG 8222.


title: 4163

tag: The bacterial strain Lactococcus lactis subsp. cremoris MG1363.


title: 4165

tag: The bacterial strain Enterococcus faecium RSZ C5.


title: 4164

tag: The bacterial strain L. sakei subsp. sakei CTC 494.


title: 4161


title: 4155


title: 4160

tag: The bacterial strain L. acidophilus 1BB 801.


title: 4159

tag: The bacterial strain L. johnsonii La1.


title: 4162

tag: The bacterial strain Lactococcus lactis subsp. lactis LDV 22186.


title: 4158

tag: The bacterial strain L. fermentum IMDO 130101.


title: 4156


title: 4154


title: 4153


title: 4157

tag: The bacterial strain L. fermentum 222.


title: 4152


title: 4151


title: 4148


title: 4147

tag: The bacterial strain L. delbrueckii subsp. delbrueckii LMG 6901.


title: 4143


title: 4144


title: 4145


title: 4150


title: 4142


title: 4149


title: 4140


title: 4141


title: 4146


title: Hypoxia-4

status: Public on Oct 10 2009

city: Philadelphia

first: Murat

middle: T

last: Budak

state: PA

institute: University of Pennsylvania

description: The purity and concentration of total RNA were determined by measurement of absorbance at 260 and 280nm using a Nanodrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE). To satisfy our purity criteria, we discarded all RNA samples that did not have a 260/280 ratio between 1.8 and 2.1. To satisfy our criteria for integrity, we required that all RNA used in our experiments have single peaks for the 18S and 28S bands as determined by the Agilent 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA).

hyb_protocol: Please see GeneChip® One-Cycle Target Labeling kit (Affymetrix, Santa Clara, CA) protocol.

scan_protocol: Agilent model G2500A GeneArray scanner used.

data_processing: MAS5 normalized data

label: Biotin labeled

organism: Mus musculus

source_name: Mouse quadriceps(QF) muscle

extract_protocol: Total RNA was isolated from each QF muscle by Tri-Reagent (Ambion, Austin, TX) as described by manufacturer. Isolated total RNA were cleaned up by RNeasy mini kit (Qiagen, Valencia, CA) as described by manufacturer.

treatment_protocol: Adult male C57Bl/10 mice were used in experiments. At the beginning of the experiment mice were divided into two groups, control (room condition) and hypoxic (hypoxic condition), over a period of 2 weeks. The hypoxic group was gradually exposed to lower levels of hypoxia in an especially designed and hermetically closed hypoxic chamber. A Pegas 4000 MF(Columbus Instruments) gas blending system was used. The oxygen level was gradually decreased from 21% to 8% over one week and animals were kept at 8% oxygen for another 7 days.

tag: Adult male C57Bl/10 mouse


title: Control-2

label_protocol: Please see GeneChip® One-Cycle Target Labeling kit (Affymetrix, Santa Clara, CA) protocol.


title: Control-4


title: Hypoxia-3


title: Control-3


title: 1:14 LPS epithelial (Cy3)

status: Public on Oct 01 2009

city: RTP

first: John

last: Tomfohr

state: NC

address: 111 T.W. Alexander Dr. P.O. Box 12233

institute: NIEHS

description: human airway epithelial cells

hyb_protocol: Following fragmentation, 750 nanograms of both cRNA samples were hybridized to an Agilent Human Whole Genome Microarray according to the protocols provided by the manufacturer.

scan_protocol: Microarrays were scanned using the Agilent DNA Microarray Scanner (G2565BA).

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 22:01:46

source_name: Stratagene Universal Human Reference RNA

label_protocol: Cy3 and Cy5-labeled cRNA was prepared from 50 nanograms of total RNA using the Agilent Low RNA Input Linear Amplification Kit (Palo Alto, CA).

extract_protocol: RNA was extracted using the RNeasy Mini-kit (Qiagen).

tag: Reference RNA

source_name: 1:14 LPS epithelial

tag: subject id = 1:14 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: Hypoxia-1


title: 1:15 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Tuesday, April 26, 2005 14:07:48

source_name: 1:15 HDM epithelial

tag: subject id = 1:15 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: Hypoxia-2


title: 2:02 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 14, 2005 13:32:32

source_name: 2:02 saline epithelial

tag: subject id = 2:02 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 1:14 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 22:29:17

source_name: 1:14 HDM epithelial

tag: subject id = 1:14 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: Control-1


title: 1:16 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 13:29:49

source_name: 1:16 LPS epithelial

tag: subject id = 1:16 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 1:15 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Tuesday, April 26, 2005 13:45:19

source_name: 1:15 LPS epithelial

tag: subject id = 1:15 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:01 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 14, 2005 11:12:41

source_name: 2:01 HDM epithelial

tag: subject id = 2:01 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:02 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 14, 2005 13:17:20

source_name: 2:02 HDM epithelial

tag: subject id = 2:02 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 1:14 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 22:44:53

source_name: 1:14 saline epithelial

tag: subject id = 1:14 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 1:15 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Tuesday, April 26, 2005 14:26:26

source_name: 1:15 saline epithelial

tag: subject id = 1:15 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:03 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 11:27:44

source_name: 2:03 saline epithelial

tag: subject id = 2:03 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:02 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 14, 2005 13:02:53

source_name: 2:02 LPS epithelial

tag: subject id = 2:02 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 1:16 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 12:37:13

source_name: 1:16 saline epithelial

tag: subject id = 1:16 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 1:16 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 11:43:09

source_name: 1:16 HDM epithelial

tag: subject id = 1:16 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:05 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 14, 2005 08:49:42

source_name: 2:05 saline epithelial

tag: subject id = 2:05 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:05 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Wednesday, April 13, 2005 16:47:21

source_name: 2:05 HDM epithelial

tag: subject id = 2:05 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:03 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 11:09:59

source_name: Stratagene Universal Human Reference RNA

tag: Reference RNA

source_name: 2:03 HDM epithelial

tag: subject id = 2:03 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:01 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 14, 2005 12:19:11

source_name: 2:01 LPS epithelial

tag: subject id = 2:01 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:05 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Wednesday, April 13, 2005 16:34:02

source_name: 2:05 LPS epithelial

tag: subject id = 2:05 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:03 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 10:54:26

source_name: 2:03 LPS epithelial

tag: subject id = 2:03 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:06 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, May 05, 2005 21:37:43

source_name: 2:06 saline epithelial

tag: subject id = 2:06 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:06 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, May 05, 2005 18:22:31

source_name: 2:06 HDM epithelial

tag: subject id = 2:06 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:07 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 09:22:00

source_name: 2:07 saline epithelial

tag: subject id = 2:07 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:08 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 12:36:10

source_name: 2:08 HDM epithelial

tag: subject id = 2:08 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:10 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Wednesday, April 06, 2005 16:47:59

source_name: 2:10 saline epithelial

tag: subject id = 2:10 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:14 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Monday, April 18, 2005 11:52:57

source_name: 2:14 LPS epithelial

tag: subject id = 2:14 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:07 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 09:07:42

source_name: 2:07 HDM epithelial

tag: subject id = 2:07 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:11 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, May 05, 2005 19:48:51

source_name: 2:11 LPS epithelial

tag: subject id = 2:11 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:09 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 16:23:26

source_name: 2:09 saline epithelial

tag: subject id = 2:09 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:11 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, May 05, 2005 22:12:40

source_name: 2:11 saline epithelial

tag: subject id = 2:11 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:14 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Wednesday, April 06, 2005 15:12:50

source_name: 2:14 saline epithelial

tag: subject id = 2:14 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:09 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 15:44:05

source_name: 2:09 LPS epithelial

tag: subject id = 2:09 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:14 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Monday, April 18, 2005 12:08:19

source_name: Stratagene Universal Human Reference RNA

tag: Reference RNA

source_name: 2:14 HDM epithelial

tag: subject id = 2:14 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:08 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 13:13:40

source_name: 2:08 saline epithelial

tag: subject id = 2:08 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:15 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Saturday, May 07, 2005 13:55:03

source_name: 2:15 LPS epithelial

tag: subject id = 2:15 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:10 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Wednesday, April 06, 2005 16:33:00

source_name: 2:10 HDM epithelial

tag: subject id = 2:10 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:07 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 14, 2005 09:48:48

source_name: 2:07 LPS epithelial

tag: subject id = 2:07 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:09 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 16:04:17

source_name: 2:09 HDM epithelial

tag: subject id = 2:09 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:01 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Wednesday, April 13, 2005 15:32:36

source_name: 3:01 saline epithelial

tag: subject id = 3:01 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:10 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Wednesday, April 06, 2005 16:15:55

source_name: 2:10 LPS epithelial

tag: subject id = 2:10 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:06 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 08:20:45

source_name: 2:06 LPS epithelial

tag: subject id = 2:06 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:08 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 12:21:36

source_name: 2:08 LPS epithelial

tag: subject id = 2:08 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:01 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Wednesday, April 13, 2005 15:15:57

source_name: 3:01 HDM epithelial

tag: subject id = 3:01 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:15 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Saturday, May 07, 2005 14:34:29

source_name: 2:15 saline epithelial

tag: subject id = 2:15 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:02 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, May 26, 2005 13:56:54

source_name: 3:02 saline epithelial

tag: subject id = 3:02 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:01 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 14, 2005 14:37:57

source_name: 3:01 LPS epithelial

tag: subject id = 3:01 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:11 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, May 05, 2005 17:47:38

source_name: 2:11 HDM epithelial

tag: subject id = 2:11 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:15 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Saturday, May 07, 2005 14:03:37

source_name: 2:15 HDM epithelial

tag: subject id = 2:15 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:05 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Monday, May 23, 2005 08:44:58

source_name: Stratagene Universal Human Reference RNA

tag: Reference RNA

source_name: 3:05 HDM epithelial

tag: subject id = 3:05 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:07 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Saturday, May 07, 2005 19:51:34

source_name: 3:07 saline epithelial

tag: subject id = 3:07 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:05 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Saturday, May 07, 2005 06:37:19

source_name: 3:05 saline epithelial

tag: subject id = 3:05 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:05 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Tuesday, April 19, 2005 14:50:00

source_name: 3:05 LPS epithelial

tag: subject id = 3:05 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:02 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Monday, April 18, 2005 10:09:16

source_name: 3:02 HDM epithelial

tag: subject id = 3:02 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:07 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Saturday, May 07, 2005 18:13:32

source_name: 3:07 LPS epithelial

tag: subject id = 3:07 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:07 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Saturday, May 07, 2005 18:55:56

source_name: 3:07 HDM epithelial

tag: subject id = 3:07 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:12 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 10:54:24

source_name: 4:12 saline epithelial

tag: subject id = 4:12 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:12 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 10:20:16

source_name: 4:12 LPS epithelial

tag: subject id = 4:12 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:14 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 01, 2005 15:08:24

source_name: 4:14 saline epithelial

tag: subject id = 4:14 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:15 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Tuesday, April 26, 2005 15:14:19

source_name: 4:15 HDM epithelial

tag: subject id = 4:15 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:16 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Wednesday, April 27, 2005 13:23:27

source_name: 4:16 LPS epithelial

tag: subject id = 4:16 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:15 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Tuesday, April 26, 2005 15:01:06

source_name: 4:15 LPS epithelial

tag: subject id = 4:15 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:17 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 19:27:21

source_name: 4:17 saline epithelial

tag: subject id = 4:17 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 1:14 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 22:57:57

source_name: 1:14 saline epithelial

tag: subject id = 1:14 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 1:14 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 21:34:53

source_name: 1:14 LPS epithelial

tag: subject id = 1:14 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 1:16 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 12:44:30

source_name: 1:16 saline epithelial

tag: subject id = 1:16 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no

source_name: Stratagene Universal Human Reference RNA

tag: Reference RNA


title: 1:16 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 11:50:42

source_name: 1:16 HDM epithelial

tag: subject id = 1:16 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:17 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Saturday, May 07, 2005 09:14:29

source_name: 4:17 LPS epithelial

tag: subject id = 4:17 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:15 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Tuesday, April 26, 2005 10:27:34

source_name: 4:15 saline epithelial

tag: subject id = 4:15 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:14 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 28, 2005 11:11:39

source_name: 4:14 LPS epithelial

tag: subject id = 4:14 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:02 LPS epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Monday, April 18, 2005 09:52:37

source_name: 3:02 LPS epithelial

tag: subject id = 3:02 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:16 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 28, 2005 13:38:19

source_name: 4:16 HDM epithelial

tag: subject id = 4:16 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:16 saline epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 28, 2005 14:01:44

source_name: 4:16 saline epithelial

tag: subject id = 4:16 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 1:16 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 13:36:12

source_name: 1:16 LPS epithelial

tag: subject id = 1:16 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:12 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 10:38:54

source_name: 4:12 HDM epithelial

tag: subject id = 4:12 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:02 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Wednesday, May 25, 2005 08:47:14

source_name: 2:02 saline epithelial

tag: subject id = 2:02 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:14 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 28, 2005 13:19:44

source_name: 4:14 HDM epithelial

tag: subject id = 4:14 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 1:15 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Tuesday, April 26, 2005 14:00:12

source_name: 1:15 LPS epithelial

tag: subject id = 1:15 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:02 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 14, 2005 13:24:28

source_name: 2:02 HDM epithelial

tag: subject id = 2:02 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:01 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 14, 2005 11:19:12

source_name: 2:01 HDM epithelial

tag: subject id = 2:01 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 1:15 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Tuesday, April 26, 2005 14:14:26

source_name: 1:15 HDM epithelial

tag: subject id = 1:15 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 1:15 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Tuesday, April 26, 2005 14:33:00

source_name: 1:15 saline epithelial

tag: subject id = 1:15 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:02 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 14, 2005 13:10:10

source_name: 2:02 LPS epithelial

tag: subject id = 2:02 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no

source_name: Stratagene Universal Human Reference RNA

tag: Reference RNA


title: 2:03 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 11:18:21

source_name: 2:03 HDM epithelial

tag: subject id = 2:03 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:17 HDM epithelial (Cy3)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 19:09:09

source_name: 4:17 HDM epithelial

tag: subject id = 4:17 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:03 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 11:02:05

source_name: 2:03 LPS epithelial

tag: subject id = 2:03 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:05 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Wednesday, April 13, 2005 16:54:18

source_name: 2:05 HDM epithelial

tag: subject id = 2:05 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:05 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 14, 2005 08:56:36

source_name: 2:05 saline epithelial

tag: subject id = 2:05 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:03 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 11:34:52

source_name: 2:03 saline epithelial

tag: subject id = 2:03 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:06 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, May 05, 2005 21:54:18

source_name: 2:06 saline epithelial

tag: subject id = 2:06 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:06 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, May 05, 2005 18:39:07

source_name: 2:06 HDM epithelial

tag: subject id = 2:06 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:09 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 15:51:26

source_name: 2:09 LPS epithelial

tag: subject id = 2:09 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:06 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, May 05, 2005 18:59:59

source_name: 2:06 LPS epithelial

tag: subject id = 2:06 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:01 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 14, 2005 12:25:45

source_name: 2:01 LPS epithelial

tag: subject id = 2:01 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:08 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 13:24:13

source_name: 2:08 saline epithelial

tag: subject id = 2:08 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:11 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, May 05, 2005 17:25:57

source_name: 2:11 LPS epithelial

tag: subject id = 2:11 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:08 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 12:29:09

source_name: 2:08 LPS epithelial

tag: subject id = 2:08 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:10 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, May 26, 2005 14:12:48

source_name: 2:10 LPS epithelial

tag: subject id = 2:10 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:09 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 16:32:31

source_name: 2:09 saline epithelial

tag: subject id = 2:09 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:11 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 07:30:37

source_name: 2:11 saline epithelial

tag: subject id = 2:11 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no

source_name: Stratagene Universal Human Reference RNA

tag: Reference RNA


title: 3:01 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Wednesday, April 13, 2005 15:39:40

source_name: 3:01 saline epithelial

tag: subject id = 3:01 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:02 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Monday, April 18, 2005 10:41:46

source_name: 3:02 saline epithelial

tag: subject id = 3:02 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:09 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 16:12:24

source_name: 2:09 HDM epithelial

tag: subject id = 2:09 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:11 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, May 05, 2005 18:03:50

source_name: 2:11 HDM epithelial

tag: subject id = 2:11 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:10 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Wednesday, April 27, 2005 13:29:38

source_name: 2:10 saline epithelial

tag: subject id = 2:10 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:08 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 12:43:26

source_name: 2:08 HDM epithelial

tag: subject id = 2:08 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:15 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Saturday, May 07, 2005 14:24:16

source_name: 2:15 HDM epithelial

tag: subject id = 2:15 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:01 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 14, 2005 14:44:52

source_name: 3:01 LPS epithelial

tag: subject id = 3:01 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:14 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, June 03, 2005 09:02:12

source_name: 2:14 HDM epithelial

tag: subject id = 2:14 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:07 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 09:28:55

source_name: 2:07 saline epithelial

tag: subject id = 2:07 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:14 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Monday, April 18, 2005 12:00:21

source_name: 2:14 LPS epithelial

tag: subject id = 2:14 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:02 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Monday, April 18, 2005 10:21:36

source_name: 3:02 HDM epithelial

tag: subject id = 3:02 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:01 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Wednesday, April 13, 2005 15:22:50

source_name: 3:01 HDM epithelial

tag: subject id = 3:01 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:07 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 15, 2005 09:14:38

source_name: 2:07 HDM epithelial

tag: subject id = 2:07 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:07 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Thursday, April 14, 2005 09:56:02

source_name: 2:07 LPS epithelial

tag: subject id = 2:07 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:15 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Saturday, May 07, 2005 14:13:25

source_name: 2:15 LPS epithelial

tag: subject id = 2:15 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:05 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Wednesday, April 13, 2005 16:40:34

source_name: 2:05 LPS epithelial

tag: subject id = 2:05 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no

source_name: Stratagene Universal Human Reference RNA

tag: Reference RNA


title: 3:05 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Saturday, May 07, 2005 06:58:07

source_name: 3:05 saline epithelial

tag: subject id = 3:05 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:10 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Wednesday, April 06, 2005 16:41:08

source_name: 2:10 HDM epithelial

tag: subject id = 2:10 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 1:14 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Saturday, May 07, 2005 06:01:02

source_name: 1:14 HDM epithelial

tag: subject id = 1:14 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:05 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Tuesday, April 19, 2005 14:56:23

source_name: 3:05 LPS epithelial

tag: subject id = 3:05 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:05 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Saturday, May 07, 2005 06:47:16

source_name: 3:05 HDM epithelial

tag: subject id = 3:05 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:07 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Saturday, May 07, 2005 19:14:55

source_name: 3:07 HDM epithelial

tag: subject id = 3:07 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:02 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Monday, April 18, 2005 10:01:24

source_name: 3:02 LPS epithelial

tag: subject id = 3:02 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:14 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Wednesday, April 06, 2005 15:20:05

source_name: 2:14 saline epithelial

tag: subject id = 2:14 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:12 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 10:46:21

source_name: 4:12 HDM epithelial

tag: subject id = 4:12 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 3:07 LPS epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Saturday, May 07, 2005 18:32:52

source_name: 3:07 LPS epithelial

tag: subject id = 3:07 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = LPS | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:12 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 11:01:23

source_name: 4:12 saline epithelial

tag: subject id = 4:12 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:17 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, May 06, 2005 19:17:38

source_name: 4:17 HDM epithelial

tag: subject id = 4:17 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:15 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Tuesday, April 26, 2005 15:20:39

source_name: 4:15 HDM epithelial

tag: subject id = 4:15 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:03 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Wednesday, June 30, 2004 15:13:53

source_name: 4:03 saline epithelial

tag: subject id = 4:03 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 1 (2004) | included in published analysis = no


title: 4:14 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Friday, April 01, 2005 14:57:00

source_name: 4:14 HDM epithelial

tag: subject id = 4:14 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 4:16 HDM epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Monday, May 23, 2005 08:56:00

source_name: 4:16 HDM epithelial

tag: subject id = 4:16 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = HDM | cell type = epithelial | batch = 2 (2005) | included in published analysis = no


title: 2:15 saline epithelial (Cy5)

description: human airway epithelial cells

data_processing: Processed with FeatureExtraction Version A.7.5.1 on Saturday, May 07, 2005 14:46:36

source_name: 2:15 saline epithelial

tag: subject id = 2:15 (1:control, 2:atopy only, 3:asthma only, 4:atopy+asthma) | exposure = saline | cell type = epithelial | batch = 2 (2005) | included in published analysis = no

source_name: Stratagene Universal Human Reference RNA

tag: Reference RNA