title: Brain_animal-4233_line-62


title: Brain_animal-4806_line-6

status: Public on Sep 22 2009

type: RNA

city: Tjele

first: Jakob

last: Hedegaard

address: PO-box 50

department: Department of Genetics and Biotechnology

country: Denmark

institute: Aarhus University, Faculty of Agricultural Sciences

description: Expression profiling of 179 chicken brains sampled from three lines - 60 chickens from a high feather pecking line (HP), 60 from a low feather pecking line (LP) and 59 from a random bred control line (C). Expression profiling was conducted by hybridising each sample together with a common reference, consisting of brain RNA from an unrelated F1 animal

hyb_protocol: The slides were hybridized in a Discovery XT hybridization station (Ventana Discovery Systems, Tucson, AZ, USA). Transfer Chip Prep-2 from 4 ºC to room temperature 1 hour before use. Prepare ChipSpread by mixing equal volumes of ChipSpread A (20 mg/mL BSA, 4x SSC, 0.5 mg/mL sodium azide) and B (formamide; 2 mg/mL SDS) and incubate at room temperature for 1 hour before use. A total of 2.5 mL is needed per slide. Print labels, trim them and place them on the slides. Mix the Chip Map reagents (Chip Prep-1, -2 and - 3) by inversion, remove the cap and place the reagents in the Discovery. Place the slides in the machine and initiate the run. Cover slide with 2.5 mL ChipSpread when the message appears (after few minutes). The machine now runs for app. 1.5 hours to pre-hybridize the slides. Heat a waterbath to 90°C or use a PCR machine. Mix the Chiphybe, add 200 µL to the sample (<20 µL) and mix carefully. Heat the sample mixture at 90°C for 3 minutes and mix carefully by pipetting. Press "button" on the machine which then prepares the slides for hybridization. When the message appears apply 100 µL Chiphybe onto each slide. Then apply the samples (200 µL) onto each slide, press "button" and the machine hybridizes at 45 ºC for 6 hours. Wipe oil from backside of slides using a clean-room napkin and place slides in the slide-holder from the High Throughput Wash Station (Telechem, cat.no. HTW) placed in a mTub filled with RiboWash. If processing more than 20 slides, place equal number of slides in two slide-holders and continue in parallel. Dip the slides 20 times in RiboWash. Transfer the slide-holder to a HTW filled with RiboWash and wash for 2 min with magnetic stirring at 700 rpm. Refill the HTW with RiboWash and repeat the wash. Dip the slide-holder in 2x SSC filled in a mTub (200 mL 20x SSC, Elga H2O + 1800 mL water). Transfer the slide-holder to a HTW filled with 2x SSC and wash for 2 min with magnetic stirring at 700 rpm. Refill the HTW with 2x SSC and repeat the wash. Dip the slide-holder 10 times in 0.1x SSC filled in a mTub (5 mL 20x SSC, Elga H2O + 995 mL water) and leave the holder submerged in 0.1x SSC. Transfer the slides to a mBox slide holder placed in a mTub filled with Elga H2O. Dry arrays by centrifugation (at 300 x g for 4 min placed in a mBox).

scan_protocol: Scanner: ScanArray Express HT system (version 3.0, Perkin Elmer), 5 µm resolution, 100 % laser power and PMT adjusted individually for each channel. Image analysis software: GenePix Pro (version 6.0.1.27, Molecular Devices) using FeatureType = Irregular Filled and MorphologicalClosingFollowedByOpening as background measurement.

data_processing: Statistical analysis was carried out in the R computing environment (version 2.5.0 for Windows) using the package Linear Models for Microarray Analysis (Limma, version 2.10.0) which is part of the Bioconductor project. The log2-transformed ratios of Alexa-647 to Alexa-555 (median intensities, not background corrected) were normalized within-slide using loess with default parameters as implemented in Limma. Further analysis: Single gene analysis: Limma version 2.10.0; Gene set enrichment analysis :  Limma version 2.10.0 (GO/KEGG) / topGO version 1.2.1; 2 D clustering: heatmap.2 option in gplots version 2.3.2; co-expression: coXpress version 1.3.

molecule: total RNA

organism: Gallus gallus

label_protocol: Ten µg Total-RNA from each individual sample was labeled with Alexa-647 using the SuperScript Direct cDNA labeling System (Invitrogen). The labelled cDNA was purified using the NucleoSpin 96 Extract II PCR Clean-up kit (Macherey-Nagel).

growth_protocol: The birds were reared in floor pens covered with a 5-cm thick layer of wood shavings. The temperature was 34 C at 1-day-old and gradually reduced to 20 C at 8 weeks of age. This temperature was kept throughout the rest of the experiment. The light regime was 12L:12D from 0 to 14 weeks and then 1 hour light per week was added until the light regime was 16L:8D at 18 weeks of age. Thereafter the light regime was constant until the bird was used in the experiment.

extract_protocol: The whole brain was homogenized in liquid nitrogen using a TissueLyser (Qiagen/Retsch) fitted with 50 mL stainless steel grinding jars and 20 mm grinding balls. Total-RNA was purified and DNase treated using NucleoSpin RNA L (Macherey-Nagel) following the enclosed protocol.

treatment_protocol: From 1-day-old until 18 weeks of age: group housing. 18 weeks - 33 weeks of age: individual housing to collect the eggs. At 33 weeks of age the chickens were divided into groups of 20 hens for each line, separately. The birds had a week to get used to the new environment and group composition. At 34 weeks of age the chickens were subject to a social feather pecking test of 3h between 14:00h to 17:00h. This test is used in the selection procedure of the selection lines and is described in detail by Kjaer et al. [Kjaer, J.B., Sørensen, P, and G. Su. 2001. Divergent selection on feather pecking behaviour in laying hens (Gallus gallus domesticus). Appl. Anim. Behav. Sci. 71: 229-239]. The next day between 8:00h and 12:00h the bird was decapitated and the whole brain was taken and frozen directly in liquid nitrogen and stored at - 80 C until further use.

tag: strain

value: White Leghorn Control line (Gallus gallus domesticus); This is a random mating line maintained for 8 generations

tag: gender

value: female

tag: age

value: 34 weeks

tag: tissue

value: whole brain

tag: severe  feather pecking

tag: aggressive  feather pecking

tag: gentle  feather pecking

tag: receiving severe pecks

tag: receiving aggressive pecks

tag: receiving gentle pecks

tag: cage

label_protocol: Ten µg Total-RNA from the reference sample was labelled with Alexa-555 using the SuperScript Direct cDNA labeling System (Invitrogen). The labelled cDNA was purified using the NucleoSpin 96 Extract II PCR Clean-up kit (Macherey-Nagel). The labelled reference samples were mixed and divided into aliquots before combining it with the labelled sample.

treatment_protocol: From 1-day-old until 18 weeks of age: group housing. 18 weeks - 34 weeks of age: individual housing to collect the eggs. At 34 weeks of age: the bird was taken out of his cage and between 8:00h and 12:00h the bird was decapitated and the whole brain was taken and frozen directly in liquid nitrogen and stored at - 80 C until further use.

value: White Leghorn F1 animal from a cross between high feather pecking line x low feather pecking line (Gallus gallus domesticus)

value: whole brain.


title: Brain_animal-4822_line-6


title: Brain_animal-4569_line-61

value: White Leghorn Low Feather Pecking line (Gallus gallus domesticus); This is a line which is selected for a decrease in feather pecking behaviour for 8 generations


title: Brain_animal-4835_line-6


title: Brain_animal-4849_line-6


title: Brain_animal-4495_line-61


title: Brain_animal-4050_line-62

value: White Leghorn High Feather Pecking line (Gallus gallus domesticus); This is a line which is selected for an increase in feather pecking behaviour for 8 generations


title: Brain_animal-4232_line-62


title: Brain_animal-4574_line-61


title: Brain_animal-4061_line-62


title: Brain_animal-4375_line-61


title: Brain_animal-4862_line-6


title: Brain_animal-4271_line-62


title: Brain_animal-4250_line-62


title: Brain_animal-4684_line-6


title: Brain_animal-4419_line-61


title: Brain_animal-4532_line-61


title: Brain_animal-4074_line-62


title: Brain_animal-4072_line-62


title: Brain_animal-4124_line-62


title: Brain_animal-4877_line-6


title: Brain_animal-4148_line-62


title: Brain_animal-4262_line-62


title: Brain_animal-4808_line-6


title: Brain_animal-4513_line-61


title: Brain_animal-4286_line-62


title: Brain_animal-4682_line-6


title: Brain_animal-4392_line-61


title: Brain_animal-4299_line-62


title: Brain_animal-4841_line-6


title: Brain_animal-4058_line-62


title: Brain_animal-4045_line-62


title: Brain_animal-4231_line-62


title: Brain_animal-4500_line-61


title: Brain_animal-4538_line-61


title: Brain_animal-4009_line-62


title: Brain_animal-4294_line-62


title: Brain_animal-4365_line-61


title: Brain_animal-4097_line-62


title: Brain_animal-4524_line-61


title: Brain_animal-4669_line-6


title: Brain_animal-4826_line-6


title: Brain_animal-4551_line-61


title: Brain_animal-4467_line-61


title: Brain_animal-4712_line-6


title: Brain_animal-4105_line-62


title: Brain_animal-4800_line-6


title: Brain_animal-4218_line-62


title: Brain_animal-4100_line-62


title: Brain_animal-4204_line-62


title: Brain_animal-4082_line-62


title: Brain_animal-4065_line-62


title: Brain_animal-4515_line-61


title: Brain_animal-4240_line-62


title: Brain_animal-4130_line-62


title: Brain_animal-4489_line-61


title: Brain_animal-4445_line-61


title: Brain_animal-4666_line-6


title: Brain_animal-4112_line-62


title: Brain_animal-4036_line-62


title: Brain_animal-4528_line-61


title: Brain_animal-4205_line-62


title: Brain_animal-4475_line-61


title: Brain_animal-4813_line-6


title: Brain_animal-4447_line-61


title: Brain_animal-4109_line-62


title: Brain_animal-4517_line-61


title: Brain_animal-4011_line-62


title: Brain_animal-4481_line-61


title: Brain_animal-4439_line-61


title: Brain_animal-4169_line-62


title: Brain_animal-4722_line-6


title: Brain_animal-4431_line-61


title: Brain_animal-4548_line-61


title: Brain_animal-4561_line-61


title: Brain_animal-4540_line-61


title: Brain_animal-4469_line-61


title: Brain_animal-4173_line-62


title: Brain_animal-4133_line-62


title: Brain_animal-4086_line-62


title: Brain_animal-4788_line-6


title: Brain_animal-4156_line-62


title: Brain_animal-4535_line-61


title: Brain_animal-4211_line-62


title: Brain_animal-4626_line-6


title: Brain_animal-4428_line-61


title: Brain_animal-4435_line-61


title: Brain_animal-4521_line-61


title: Brain_animal-4464_line-61


title: Brain_animal-4679_line-6


title: Fibroblasts_DBApatient_4

status: Public on Sep 14 2009

city: Trieste

first: Paola

last: Roncaglia

state: TS

address: via Bonomea 265

department: Neurobiology

country: Italy

institute: SISSA/ISAS (International School for Advanced Studies)

hyb_protocol: 5 ug of cRNA were hybridized for 16 hr at 45°C on GeneChip Human Genome U133A 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.

scan_protocol: GeneChips were scanned using the GeneChip Scanner 3000 7G.

data_processing: Cell intensity values and probe detection calls were computed from the raw array data using the Affymetrix GeneChip Operating Software (GCOS). Further data processing was performed in the R computing environment using packages from BioConductor. Robust Multi-Array Average (RMA) normalization was applied. Normalized data were then filtered based on the Affymetrix detection call, so that only probes that had a Present call in at least one of the arrays were retained. Probes with low intensity values (less than 100) in all arrays were also excluded from statistical analysis.

label: biotin

organism: Homo sapiens

source_name: Dermal fibroblasts from DBA patient

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).

growth_protocol: Fibroblasts were cultured in IMDM (Iscove's Modified Dulbecco's Medium) supplemented with 4 mM L-glutamine, 10% foetal calf serum, 0.1 mg/ml streptomycin, 100U/ml penicylline (Sigma-Aldrich, St. Louis, MO, USA) at 37°C and 5% CO2.

extract_protocol: Trizol extraction of total RNA was performed according to the manufacturer's instructions.

treatment_protocol: Total RNA was extracted from 1 million cells upon reaching 80% confluence, within passages 2-5 of tissue culture.

tag: disease state

value: Diamond-Blackfan anaemia

value: Male


title: Fibroblasts_DBApatient_3

value: Female


title: cells with quinine, replicate 2

status: Public on Sep 11 2009

city: Lisbon

first: Sandra

last: Santos

address: Av Rovisco Pais

department: BSRG

country: Portugal

institute: IBB-IST

description: Gene expression data from mid-exponential phase yeast cells incubated with quinine for 15 min

hyb_protocol: Fifteen micrograms of fragmented cRNA was used in a 300 μL hybridization cocktail, containing added hybridization controls. Two hundred microliters of mixture were hybridized on arrays for 16 h at 45ºC. Standard post-hybridization wash and double-stain protocols (EukGE-WS2v4) were used on an Affymetrix GeneChip Fluidics Station 400.

scan_protocol: Arrays were scanned on an Affymetrix GeneChip Scanner 2500.

data_processing: Scanned microarrays were analysed, in a first step, with Affymetrix MAS 5.0 software. For subsequent analysis, dChip 1.3 (http://www.dchip.org, Cheng Li Laboratory, Harvard MA) was used. Each GeneChip experiment was performed with biological replicates.

organism: Saccharomyces cerevisiae

source_name: Yeast cells with quinine

label_protocol: Biotinylated cRNA were prepared from 8 ug total RNA, using the Enzo BioArray High Yield RNA transcript labelling kit.

growth_protocol: Cells of S. cerevisiae BY4741 grown in MM4 media were harvested in mid-exponential phase.

extract_protocol: Total RNA extraction was performed according to the hot phenol method (24). RNA was processed for use on Affymetrix (Santa Clara, CA) Yeast Genome S98 GeneChip arrays, according to the manufacturer’s instructions.

treatment_protocol: Cells were re-inoculated into fresh medium either or not supplemented with 1 g.L-1 of quinine dissolved in ethanol (final concentration 0.7% (v/v)). After a 15 min incubation in the absence (sample A) or presence (sample B) of the antimalarial drug, cells were harvested and immediately frozen in liquid nitrogen, and kept at -80ºC until RNA extraction.

tag: agent

value: quinine


title: Fibroblasts_HealthyControl_6

source_name: Dermal fibroblasts from healthy individual

value: Healthy Control


title: Fibroblasts_HealthyControl_3


title: Fibroblasts_DBApatient_2


title: cells with quinine, replicate 1


title: Fibroblasts_HealthyControl_5


title: Fibroblasts_HealthyControl_2


title: Fibroblasts_HealthyControl_4


title: Brain_animal-4007_line-62


title: Fibroblasts_DBApatient_1


title: control cells without drug, replicate 2

description: Gene expression data from mid-exponential phase yeast cells incubated without quinine

source_name: Yeast cells without drug

value: control


title: PAO1 untreated Replicate 3

status: Public on Sep 01 2009

city: Cork

first: Fergal

last: O'Gara

address: UCC, Western Rd

department: Microbiology Dept, Univerisity College Cork

country: Ireland

institute: BIOMERIT Research Centre

description:
Threshold of Signal Log ratio: -1/1; change is I (increased), MI (marginally increased), D (decreased), MD (marginally decreased);
Only following genes were considered: Minimal threshold of regulation ±1.5 fold; minimal change p-values  0.05, respectively;

hyb_protocol: Hybridization of the probes was carried out according to the manufacturer’s “Expression Analysis Protocol (p. 25: Modified Fluidic Protocol for P. aeruginosa cDNA Assay)”, see http://www.affymetrix.com:

scan_protocol: Scanned according to Affymetrix protocol http://www.affymetrix.com:

data_processing: Gene Spring 9.0 and Gene Director

organism: Pseudomonas aeruginosa PAO1

source_name: Pseudomonas aeruginosa PAO1 RNA extracted untreated

label_protocol: cDNA was labelled using the Enzo BioArray Terminal Labeling Kit

growth_protocol: P. aeruginosa PAO1 was grown in Mueller Hinton broth at 180 rpm at 37 C, to an OD 600 0.8

extract_protocol: RNA was extracted using Ambion bacteria RNA kit

treatment_protocol: P. aeruginosa PAO1 was grown to an OD 600 0.8

tag: protocol

value: untreated sample


title: Brain_animal-4424_line-61


title: Brain_animal-4554_line-61


title: Brain_animal-4453_line-61


title: PAO1 treated with subMIC colistin Replicate 3

source_name: Pseudomonas aeruginosa PAO1 RNA extracted treated with colistin

growth_protocol: P. aeruginosa PAO1 was grown in Mueller Hinton broth at 180 rpm at 37 C. P. aeruginosa PAO1 was grown in the presence of 0.15 ug ml of colistin and grown to an OD 600 0.8

value: exposed to subinhibitory concentration of colistin (0.15 ug/ml)

value: colistin


title: PAO1 untreated Replicate 2


title: PAO1 treated with subMIC colistin Replicate 1

growth_protocol: P. aeruginosa PAO1 was grown in Mueller Hinton broth at 180 rpm at 37 C. P. aeruginosa PAO1 was grown in presence of 0.15 ug ml of colistin and grown to an OD 600 0.8

treatment_protocol: P. aeruginosa PAO1 was grown in the presence of 0.15 ug ml of colistin and grown to an OD 600 0.8


title: Fibroblasts_HealthyControl_1


title: control cells without drug, replicate 1


title: PAO1 untreated Replicate 1

growth_protocol: P. aeruginosa PAO1 was grown in Mueller Hinton broth at 180 rpm at 37 degrees C, to an OD 600 0.8


title: Rat ventricle normal bio replicate 2

status: Public on Aug 24 2009

city: Ottawa

first: Adolfo

middle: J

last: de Bold

state: ON

address: 40 Ruskin St.

department: Cardiovascular Endocrinology

country: Canada

institute: University of Ottawa Heart Institute

description: Gene expression data from rat ventricular free wall

hyb_protocol: A total of 20 microg of fragmented cRNA was hybridized to each GeneChip® Rat Genome 230 2.0 array. After 16 hours of incubation at 45 C, the GeneChips® were washed and stained with Streptavidin- phycoerythrin biotinylated anti-streptavidin antibody in the Affymetrix GeneChip® Fluidics Station 400

scan_protocol: GeneChips were scanned using the Affymetrix GeneChip® 3000 Scanner

data_processing: The data was analyzed with Robust Multiple-Array Averaging (RMA) which uses a model based background correction, quantile normalization and robust averaging expression summary method.

organism: Rattus norvegicus

source_name: normal rat ventricular tissue

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 micrograms of total RNA (Expression Analysis Technical Manual, 2004, Affymetrix).

treatment_protocol: Ventricular free wall was obtained from Sprague Dawley rats, sacrificed by decapitation. The tissue was snap-frozen in liquid nitrogen and stored at -80 ºC until RNA extraction

value: ventricle

value: Sprague-Dawley

tag: weight


title: Rat atrium normal bio replicate 4

description: Gene expression data from rat atrial appendage

source_name: normal rat atrial tissue

treatment_protocol: Atrial appendages were obtained from Sprague Dawley rats, sacrificed by decapitation. The tissue was snap-frozen in liquid nitrogen and stored at -80 ºC until RNA extraction

value: atrium


title: Rat ventricle normal bio replicate 1


title: Rat atrium normal bio replicate 1


title: non infected MOCK control (2)

status: Public on Aug 21 2009

city: Braunschweig

first: Robert

last: Geffers

address: Inhoffenstr. 7

department: Dep. Molecular Bacteriology

country: Germany

institute: HCI - Helmholtz Centre for Infection Research

description: non infected MOCK control (2)

hyb_protocol: Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at conditions recommended by the manufacturer. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.

scan_protocol: GeneChips were scanned using the Affymetrix GCS 3000.

data_processing: The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.

source_name: non infected MOCK control

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).

growth_protocol: Six days RPMI, 2% autologous human serum, IL-4, GM-CSF

extract_protocol: RNAeasy

tag: infection

value: Dendritic cells derived from human monocytes


title: Chlamydia pneumoniae infected (12)

description: Chlamydia pneumoniae infected (12)

source_name: Chlamydia pneumoniae infected

treatment_protocol: C. pneumoniae infection

value: Chlamydia pneumoniae


title: Rat ventricle normal bio replicate 3


title: Rat atrium normal bio replicate 3


title: non infected MOCK control (1)

description: non infected MOCK control (1)


title: Chlamydia pneumoniae infected (10)

description: Chlamydia pneumoniae infected (10)


title: Rat atrium normal bio replicate 2


title: PAO1 treated with subMIC colistin Replicate 2


title: HighSES 13

status: Public on May 26 2009

city: Los Angeles

first: Steve

last: Cole

state: CA

address: 11-934 Factor Bldg, UCLA

department: Medicine

country: USA

institute: UCLA School of Medicine

description: Affymetrix U133A

hyb_protocol: Standard Affymetrix hybridization protocol for gen expression profiling (carried out in UCLA DNA Microarray Core).

scan_protocol: Standard Affymetrixscan protocol for gene expression profiling (carried out in UCLA DNA Microarray Core).

data_processing: RMA (RMAExpress) processing of Affymetrix .CEL files generated by UCLA DNA Microarray Core.

source_name: Peripheral blood CD2+ leukocytes

label_protocol: Standard Affymetrix probe synthesis for gene expression profiling (carried out in UCLA DNA Microarray Core).

extract_protocol: Peripheral blood leukocytes were isolated from fresh whole blood by ficol density gradient, CD2+ cells were isolated by MACS immunomagnetic positive selection, and total RNA was extracted using Qiagen RNEasy.

tag: other

value: High socioeconomic status (SES)


title: HighSES 12

description: Affymetrix U133A


title: HighSES 11

description: Affymetrix U133A


title: NSCB_CGH_385K_182_UC01

status: Public on May 27 2009

type: genomic

city: Madison

first: Melodee

last: Patterson

state: WI

address: 510 Charmany Dr Ste 58 & 59

institute: WiCell

description: This CGH experiment is designed to detect deletion, insertation, amplication, etc. in the sample relative to the reference.

hyb_protocol: 7.9.1. Set the Roche NimbleGen Hybridization System 12 to 48°C. With the cover closed, allow at least 3 hours for the temperature to stabilize. 7.9.2. Hybridization Solution Master Mix per Chip 7.9.2.1. Thaw Alignment Oligo on ice, protected from light. 7.9.2.2. Add 11.8µl 2X Hybridization Buffer to 0.2ml PCR tube. 7.9.2.3. Add 4.7µl Hybridization Component A. 7.9.2.4. Add 0.5µl Alignment Oligo. Total amount of solution is 17.0µl. 7.9.2.5. Vortex to mix. 7.9.2.6. Briefly centrifuge samples using a tabletop centrifuge and keep on ice, protected from light. 7.9.3. Combine Test and Reference DNA Samples 7.9.3.1. Quantify each sample using the NanoDrop as described in SOP-SS-001 7.9.3.2. Combine 6µg each of test and reference labeled DNA in a PCR tube and bring to total volume of 5µl with VWR water. The combined volume of the test and reference samples must not exceed 5.0µl. Each of the labeled samples must fall within the concentration range of 2400-3400/ml. 7.9.3.2.1. If the concentration of the labeled sample is low, dehydrate the labeled sample in the SpeedVac at high heat for 3 minutes with tube lids open. Monitor the volume of sample to prevent complete dehydration. 7.9.3.2.2. If the concentration is still too low, reprecipitate starting from the second DNA precipitation (do NOT add 11.5ul of 5M NaCl) and rehydrate the pellet in a smaller volume of VWR water. 7.9.3.2.3. If the concentration of either sample is greater than 3400 µg/ml, dilute with VWR water to achieve the acceptable concentration range. 7.9.3.3. Add 13µl Hybridization Solution Master Mix to combined labeled DNA. 7.9.3.4. Vortex the samples for 20 seconds and quickly centrifuge in tabletop centrifuge. Keep samples protected from light. 7.9.3.5. Place samples in 95ºC thermocycler for 5 minutes. 7.9.3.6. Briefly vortex and centrifuge samples. 7.9.3.7. Quickly transfer the 0.2ml PCR tubes to the Roche NimbleGen Hybridization System 12 sample block (pre-heated to 48°C) for at least 5 minutes before sample loading. 7.9.4. Prepare X1 Mixer 7.9.4.1. Prepare X1 mixer according to NimbleGen™ Arrays User Guide (CGH Analysis v5.0). 7.9.5. Load Sample 7.9.5.1. Quickly transfer labeled DNA sample from PCR tube in 48ºC sample block to a 2.0 ml tube. 7.9.5.2. Dispense 18µl of sample into the bottom X1 mixer hole using a Gilson Microman M100 pipette. 7.9.5.3. Dry any excess sample from X1 mixer holes using a Kimwipe. 7.9.5.4. Seal top and bottom X1 mixer holes with mixer port seals. 7.9.5.5. Close the bay clamp. 7.9.5.6. Dampen humid cover with Millipore water and place over bays. Humid covers must be kept damp throughout hybridization. 7.9.5.7. Close the Roche NimbleGen Hybridization System 12 lid. 7.9.5.8. Turn on the Mixing Panel on the Hybridization System, set the mix mode to B, and press the mix button to start mixing. 7.9.5.9. Confirm that the Hybridization System recognizes the slide in each occupied bay by indicator light turning green. 7.9.5.10. Hybridize the sample to the array(s) for 40-42 hours at 48°C. 7.10. Sample Storage 7.10.1. Label the remaining labeled DNA according to the following format: 7.10.2. Store labeled DNA samples at -20C in “CGH Labeled Samples” box for up to two weeks. 7.11. Array Washing 7.11.1. Turn on GenePix 4000B to warm up lasers prior to beginning wash procedure. 7.11.2. Disassemble and wash arrays according to NimbleGen™ Arrays User Guide (CGH Analysis v5.0) with the following exceptions: 7.11.2.1. Heat both Wash Buffer I solutions to 42ºC. 7.11.2.2. Agitate array in Wash Buffer I for 3 minutes. 7.11.2.3. Follow 1 minute agitation in Wash Buffer 2 with a 2 minute incubation. 7.11.3. Perform washes protecting arrays from light and ozone. 7.11.4. Place array in corresponding case and wrap case in aluminum foil. 7.11.4.1. Label with CGH number. 7.11.5. Scan arrays immediately after washing (ref: SOP-CH-309). 7.12. Array Storage 7.12.1. Store scanned arrays in the dessicator.

scan_protocol: NimbleGen scan protocol

data_processing:
1. Image extraction: NimbleScan provided by NimbleGen is used to extract signal data from image files (*.TFF). Signals from the scan for Cy3 (green channel) are saved in a file named as chipID_532.pair while signals from the scan for Cy5 (red channel) are saved in a file named as chipID_635.pair.
2. Normalization: Signals from Cy3/Cy5 channels are transformed by logarithms to base 2 and normalized with loess or qspline (Workman et al., 2002) algorithms by R to resolve the systematic errors and bias introduced by the microarray experimental platform. The log ratios of the signals are obtained by subtracting the log transformed signals from one channel by the corresponding ones from another channel.
3. Data smoothing and break-points identification: Ratios of the normalized data are plotted by the corresponding genome locations. The data are smoothed by an adaptive weights smoothing algorithm (GLAD R-package, Wang et al., 2005), break-points are identified by a binary segmentation algorithm (DNAcopy R-package, Olshen et al., 2004) or by the segmentation algorithm available within Nimbelgen’s Nimblescan software.
4. Data visualization: CGH results can be saved as SignalMap GFF files and can be visualized by SignalMap provided by NimbleGen. CGH results can also be visualized by other software, such as aCGHViewer (Shankar et al., 2006), CHARMView (Myers et al., 2005), etc. However, different software requires different input format.

molecule: genomic DNA

label_protocol:
7.7.1. Cy3/Cy5 Labeling
7.7.1.1. Verify that the DNA concentration is between 25 and 30ng/ul for all test and reference samples.
7.7.1.2. Thaw the Cy3/Cy5 random nonamers on ice, protected from light.
7.7.1.3. Add 1µg of sonicated test DNA to 40 µl Cy3 dye. Bring to volume in 80 µl VWR water. Repeat for all test samples to be labeled.
7.7.1.4. Add 1 µg of sonicated reference DNA to 40 µl Cy5 dye. Bring to volume in 80 µl VWR water. Repeat for all reference samples to be labeled.
7.7.1.5. Vortex and quickly centrifuge test and reference DNA samples.
7.7.1.6. Incubate samples for 10 minutes at 98ºC protecting from light.
7.7.1.7. Rapidly transfer samples to an ice-water bath for 5 minutes protecting from light.
7.7.1.8. Prepare 20µl of the following aha-dNTP/Klenow Master Mix for each test and reference sample.
7.7.1.8.1. aha-dNTP/Klenow Master Mix per Sample
7.7.1.8.1.1. Thaw all reagents and aha-dNTP/Klenow master mix on ice.
7.7.1.8.1.2. Add 9µl VWR water to 0.2ml PCR tube.
7.7.1.8.1.3. Add 10µl 50X aha-dNTP Mix.
7.7.1.8.1.4. Add 1µl Klenow (50U/µl). DO NOT vortex. Total amount of solution is 20µl.
7.7.1.9. Add 20μl of the aha-dNTP/Klenow Master Mix to each of the cooled samples. Keep on ice.
7.7.1.10. Pipette to mix (15 times). DO NOT vortex.
7.7.1.11. Briefly centrifuge samples using a tabletop centrifuge.
7.7.1.12. Incubate the samples for 2 hours 15 minutes at 37°C in thermocycler protected from light.
7.7.1.13. Remove samples from thermocycler, keep at room temperature. Heat thermocycler to 98ºC. Place samples back into thermocycler and incubate for 10 minutes at 98ºC.
7.7.1.14. Rapidly transfer samples to an ice-water bath for 5 minutes protecting samples from light.
7.7.1.15. Add 1 µl of Klenow (50U/µl) to each sample.
7.7.1.16. Pipette to mix (15 times). DO NOT vortex.
7.7.1.17. Briefly centrifuge samples using a tabletop centrifuge.
7.7.1.18. Place samples in thermocycler at 37ºC for overnight amplification.
7.7.2. First DNA Precipitation
7.7.2.1. Set Roche Nimblegen Hybridization System 12 to 48ºC if proceeding to hybridization in the same day to allow for at least 3 hours of stabilization.
7.7.2.2. Cool centrifuge to 4ºC.
7.7.2.3. Add 10µl of 0.5M EDTA to each sample to stop the overnight amplification reaction.
7.7.2.4. Add 11.5 µl of 5M NaCl to each sample, then vortex for 10 seconds.
7.7.2.5. Briefly centrifuge samples using a tabletop centrifuge.
7.7.2.6. Transfer each sample into a 1.5ml tube containing 200 µl of isopropanol.
7.7.2.7. Vortex samples for 20 seconds.
7.7.2.8. Incubate at room temperature for 10 minutes, protected from light.
7.7.2.9. Centrifuge at 13,000 rpm 4ºC for 10 minutes.
7.7.2.10. Aspirate supernatant.
7.7.2.11. Rinse pellet with 500µl of 80% ice-cold ethanol. As you rinse, gently wash pellet from tube wall.
7.7.2.12. Centrifuge at 13,000 rpm 4ºC for 2 minutes.
7.7.2.13. Aspirate supernatant.
7.7.2.14. Dry contents in a SpeedVac with tube lids open on ‘low’ heat until dry (5-15 minutes), protected from light. Close lids when dried.
7.7.2.15. Proceed to Alexa Fluor Labeling or store labeled samples at -20°C, protected from light.
7.7.2.15.1. Frozen samples are stable for up to 2 weeks at -20ºC.
7.7.3. Alexa Fluor Labeling
7.7.3.1. Thaw one vial of Alexa Fluor 555 dye per Cy3-labeled test DNA sample on ice. Keep protected from light.
7.7.3.2. Thaw one vial of Alexa Fluor 647 dye per Cy5-labeled reference DNA sample on ice. Keep protected from light.
7.7.3.3. Thaw Alexa Fluor Labeling Buffer on ice.
7.7.3.4. Add 5 µl VWR water to each DNA sample.
7.7.3.5. Place samples in thermocycler at 42ºC for 5 minutes.
7.7.3.6. Add 3 µl Labeling Buffer to each DNA sample.
7.7.3.7. Vortex and quickly centrifuge DNA samples.
7.7.3.8. Add 2 µl DMSO to one of the vials of Alexa Fluor dye (either 555 or 647).
7.7.3.9. Vortex for 10 seconds to dissolve Alexa Fluor dye.
7.7.3.10. Immediately add 8 µl of corresponding DNA to the dissolved dye.
7.7.3.11. Pipette up and down to further dissolve dye pellet, replace lid and vortex briefly to mix.
7.7.3.12. Incubate at room temperature, protected from light for 1 hour.
7.7.3.13. Repeat steps 7.7.3.8.-7.7.3.12 for each Cy-labeled DNA to be labeled with Alexa Fluor dyes.
7.7.4. Second DNA Precipitation
7.7.4.1. Add 100 µl VWR water to each labeled DNA sample.
7.7.4.2. Add 11.5 µl of 5M NaCl to each sample.
7.7.4.3. Vortex for 10 seconds.
7.7.4.4. Briefly centrifuge samples using a tabletop centrifuge.
7.7.4.5. Transfer each sample into 1.5ml tubes containing 200 µl each of isopropanol.
7.7.4.6. Vortex samples for 20 seconds.
7.7.4.7. Incubate at room temperature for 10 minutes, protected from light.
7.7.4.8. Centrifuge at 13,000 rpm 4ºC for 10 minutes.
7.7.4.9. Aspirate supernatant.
7.7.4.10. Add 500µl of 80% ice-cold ethanol to the pellet and gently wash pellet from tube wall by pipetting.
7.7.4.11. Centrifuge at 13,000 rpm 4ºC for 2 minutes.
7.7.4.12. Aspirate supernatant.
7.7.4.13. Dry contents in a SpeedVac with tube lids open on ‘low’ heat until dry (5-15 minutes), protected from light. Close lids when dried.
7.7.4.14. Proceed to ‘Specific Activity Calculation’ or store labeled samples at -20°C, protected from light. Frozen samples are stable for up to 2 weeks at -20ºC.

extract_protocol:
1. Determine When to Harvest hES cells for DNA Extraction
A) At least 1x10^6 hES cells should be harvested for DNA extraction, depending on the quantity required.
B) Yields of genomic DNA will vary from sample to sample depending on the amount and type of cells processed. In addition, the quality of starting material will affect DNA yield.
C) Estimated yield for hES cells: 5pg of DNA per cell (5μg DNA per 10^6 cells). One well of a 6-well plate will normally have between 1-4x106 hES cells by day 5 after passage.
2. Trypsinize the Cells
A) The following steps should be performed in a sterile biosafety cabinet while wearing personal protective equipment.
B) Add 1.5ml of 1X trypsin-EDTA working solution (pre-warmed to 37oC) to each well of a 6- well plate.
C) Return the plate to the 37C incubator for 2-3 minutes.
D) Remove the plate from the incubator and observe cell detachment with an inverted phase contrast microscope. Proceed to next step when colony edges begin to lift off the plate.
E) Using a sterile glass serological pipet, gently pipet up and down to detach the cells and break up the cell clumps.
F) Pool the detached cells in a 15ml centrifuge tube containing 5ml of trypsin stop solution within 5-7 minutes of adding the trypsin-EDTA solution.
G) Gently pipet the solution up and down to mix thoroughly.
H) Centrifuge the tube for 5 minutes at 1000 RPM.
3. RNA Digestion
A) Aspirate the supernatant and gently flick the tube until the pellet is resuspended.
B) Slowly add 200μl PBS to the cells while tapping gently on the tube to ensure good mixing.
C) Add 4μl RNase A (100mg/ml) and incubate at room temperature (RT) for 2 minutes.
4. Protein Digestion
A) Add 20μl Proteinase K and 200μl Buffer AL to the sample, mixing thoroughly by vortexing. It is important that the solution is immediately and thoroughly mixed by vortexing and pipetting to yield a homogenous solution.
NOTE: Do not add proteinase K directly to buffer AL.
B) Incubate the cell solution in a 70°C waterbath for 10 minutes.
5. DNA Precipitation and Separation of Cellular Components
A) Add 200μl ethanol (96-100%) to the sample, and mix thoroughly by vortexing.
B) A white precipitate may form on addition of ethanol. This precipitate does not interfere with the DNeasy procedure.
C) Pipet the mixture (including all of the precipitate) into the DNeasy Mini spin column placed in a 2ml collection tube. Centrifuge at ≥6000 x g (8000 rpm) for 1 minute. Discard flowthrough and collection tube.
NOTE: In order to obtain optimum DNA yield and quality, it is important not to overload the spin column. The maximum number of hES cells that should be used in a DNA extraction is 5x106 (normally, 2 wells of a 6-well plate). For larger amounts of starting material use multiple spin columns.
6. Wash the DNA
A) Place the DNeasy spin column in a new collection tube and add 500μl of Buffer AW1.
B) Centrifuge at ≥6000 x g (8000rpm) for 1 minute. Discard flow-through and collection tube.
C) Place the DNeasy spin column in a new collection tube and add 500μl of buffer AW2.
D) Centrifuge at 20,000 x g (14,000 rpm) for 3 minutes to dry the DNeasy membrane. Discard flow-through and collection tube.
NOTE: It is important to dry the membrane of the DNeasy Mini spin column, since residual ethanol may interfere with subsequent reactions. This centrifugation step ensures that no residual ethanol will be carried over during the following elution.
E) Following the centrifugation step, remove the DNeasy Mini spin column carefully so the column does not come into contact with the flow-through, since this will result in carryover of ethanol. If carryover of ethanol occurs, place the spin column in a new collection tube and centrifuge again for 1 minute at 20,000 x g (14,000 rpm). Again discard the flow-through and collection tube.
7. Elution
A) Place the DNeasy Mini spin column in a clean 1.5ml or 2ml microcentrifuge tube and pipet 50-200μl Buffer AE directly onto the DNeasy membrane. Incubate the column at room temperature for 1 minute and then centrifuge for 1 minute at ≥6000 x g (8000rpm) to elute.
NOTE: Elution with less than 200μl of Buffer AE increases the final DNA concentration in the elute, but also decreases the overall DNA yield.
B) Repeat elution step as described in 7 A).
NOTE: A new microcentrifuge tube can be used for the second elution step to prevent dilution of the first elute. Alternatively, to combine the two elutes, the microcentrifuge tube from step 4.7.1 can be reused for the second elution step.
NOTE: More than 200μl should not be eluted into a 1.5 ml microcentrifuge tube because the DNeasy spin column will come into contact with the elute.

tag: cell line

value: human embryonic stem (hES) cell line NSCB# 2538, CGH# 182

value: human embryonic stem (hES) cell line H9 [reference]


title: NSCB_CGH_385K_179_UC01

value: human embryonic stem (hES) cell line NSCB# 8184, CGH# 179


title: Rat ventricle normal bio replicate 4

tag: gender

value: Male

tag: strain


title: HighSES 9

description: Affymetrix U133A


title: NSCB_CGH_390K_178_BG02

value: human embryonic stem (hES) cell line NSCB# 0835, CGH# 178


title: NSCB_CGH_390K_184_BG01

value: human embryonic stem (hES) cell line NSCB# 8333, CGH# 184


title: HighSES 4

description: Affymetrix U133A


title: HighSES 3

description: Affymetrix U133A


title: HighSES 8

description: Affymetrix U133A


title: NSCB_CGH_385K_180_UC01

value: human embryonic stem (hES) cell line NSCB# 1595B, CGH# 180


title: HighSES 7

description: Affymetrix U133A


title: HighSES 10

description: Affymetrix U133A


title: HighSES 6

description: Affymetrix U133A


title: HIghSES 2

description: Affymetrix U133A


title: NSCB_CGH_385K_177_ES05

value: human embryonic stem (hES) cell line NSCB# 9158, CGH# 177


title: NSCB_CGH_385K_115_ES03

hyb_protocol: 1. Incubate at 95°C (in heat block), 5 min., spin briefly 2. Place at 42°C (in Maui machine), 5-15 min. 3. Prepare microarray: A) pre-heat array on Maui station B) put array into array-holder (with number facing up going in first) carefully remove glue-sticker from lid and put lid onto array C) take array w/ lid out of array-holder thoroughly attach lid using thick slide place array onto Maui station, approx. 2 min. make sure lid is completely attached D) Add 40 µl hyb solution onto microarray and allow to settle (approx. 15 sec.), dry lid thoroughly 4. Place stickers onto lid, press down on both at the same time, make sure are thoroughly attached 5. Squeeze bubbles away from center of array 6. Wet humid cover and place on Maui station 7. Incubate on Maui at 42°C overnight (17 hours) 8. Remove microarray w/lid from Maui and put in array-holder in Wash 1 (at 42°C) 9. Peel lid off chip while submerged 10. Incubate 10-15 sec. w/ gentle agitation 11. Transfer slide into a slide rack in a new container of Wash 1 (r.t.) Incubate 2 min. w/ gentle agitation 12. Transfer to Wash 2 13. Incubate 1 min. w/ gentle agitation 14. Transfer to Wash 3 15. Incubate 15 sec. w/ gentle agitation 16. Spin approx. 1 min. in Array-Go-Round (place arrays such that numbers are facing to the right when rack is placed in front part of wheel) (the rod on slide holder should be on the inside) 17. Blow off any residual liquid 18. Keep slides protected from light and scan as soon as possible

label_protocol:
1. Dry the sample in the Speed Vac set at 30°C.
2. Resuspend the sample in 4.5μl 0.1 M Na2CO3, pH 9.0.
3. Resuspend the Cy3 NHS ester in 4.5μl DMSO
4. Add Cy3 NHS ester to sample
5. Incubate at 22°C in a heat block for 1 hour. Protect the heat block and sample from light.
6. Purify the sample using a Qiaquick PCR purification Kit:
A) Add 35μl 100 mM NaOAc, pH 5.2 to the sample.
B) Add 250μl PB buffer to the sample and load the sample on the column.
C) Spin at 13.000 rpm for 1 minute and remove the flow through.
D) Add 750μl PE buffer to the column.
E) Spin at 13.000 rpm for 1 minute and remove the flow through.
F) Spin at 13.000 rpm for 1 minute.
G) Transfer the column to new tube.
H) Add 30μl H20 and incubate for 1 minute on the column.
I) Elute once by centrifuging at 13.000 rpm for 1 minute.

value: human embryonic stem (hES) cell line NSCB# 9295, CGH# 000115

label_protocol:
1. Dry the sample in the Speed Vac set at 30°C.
2. Resuspend the sample in 4.5μl 0.1 M Na2CO3, pH 9.0.
3. Resuspend the Cy5 NHS ester in 4.5μl DMSO
4. Add Cy5 NHS ester to sample
5. Incubate at 22°C in a heat block for 1 hour. Protect the heat block and sample from light.
6. Purify the sample using a Qiaquick PCR purification Kit:
A) Add 35μl 100 mM NaOAc, pH 5.2 to the sample.
B) Add 250μl PB buffer to the sample and load the sample on the column.
C) Spin at 13.000 rpm for 1 minute and remove the flow through.
D) Add 750μl PE buffer to the column.
E) Spin at 13.000 rpm for 1 minute and remove the flow through.
F) Spin at 13.000 rpm for 1 minute.
G) Transfer the column to new tube.
H) Add 30μl H20 and incubate for 1 minute on the column.
I) Elute once by centrifuging at 13.000 rpm for 1 minute.


title: HighSES 5

description: Affymetrix U133A


title: LowSES 15

description: Affymetrix U133A

value: Low socioeconomic status (SES)


title: NSCB_CGH_385K_172_UC01

value: human embryonic stem (hES) cell line NSCB# 9561, CGH# 172


title: NSCB_CGH_385K_183_WA13

value: human embryonic stem (hES) cell line NSCB# 2540, CGH# 183


title: HighSES 1

description: Affymetrix U133A


title: LowSES 16

description: Affymetrix U133A


title: LowSES 14

description: Affymetrix U133A


title: LowSES 10

description: Affymetrix U133A


title: LowSES 8

description: Affymetrix U133A


title: 8 adipose tissue dietary intervention

status: Public on May 12 2009

city: Toulouse

first: Frederic

last: Capel

address: 1 Av Jean Poulhes

department: INSERM UPS U858

country: France

institute: INSERM

description: obese premenopausal women followed a dietary intervention program.

hyb_protocol: according to the manufacturer instructions (Agilent Technologies)

scan_protocol: Data acquisition from microarrays was obtained with a GenePix 4000B scanner (Axon instruments) and image processing was performed with Feature Extraction 8.5 (Agilent Technologies)

data_processing: log transformation and Lowess normalization without background substraction

label_protocol: Agilent low RNA input amplification kit

extract_protocol: Needle microbiopsy of subcutaneous adipose tissue was performed under local anesthesia from the abdominal region. Total RNA were isolated from adipose tissue biopsies with Qiagen RNeasy kit , Quality and quantity were determined by capilary electrophoresis (Experion, BioRad laboratories)

treatment_protocol: Basal

tag: tissue

value: female adipose tissue

source_name: Weight stabilization-8

treatment_protocol: Weight stabilization


title: LowSES 2

description: Affymetrix U133A


title: LowSES 9

description: Affymetrix U133A


title: 8 adipose tissue dietary intervention rev rep


title: LowSES 7

description: Affymetrix U133A


title: LowSES 6

description: Affymetrix U133A


title: NSCB_CGH_385K_181_UC01

value: human embryonic stem (hES) cell line NSCB# 5258, CGH# 181


title: LowSES 13

description: Affymetrix U133A


title: LowSES 5

description: Affymetrix U133A


title: LowSES 1

description: Affymetrix U133A


title: LowSES 3

description: Affymetrix U133A


title: LowSES 4

description: Affymetrix U133A


title: 7 adipose tissue dietary intervention rev rep

source_name: Weight stabilization-7


title: LowSES 12

description: Affymetrix U133A


title: LowSES 11

description: Affymetrix U133A


title: 4 adipose tissue dietary intervention

source_name: Weight stabilization-4


title: 7 adipose tissue dietary intervention


title: 6 adipose tissue dietary intervention rev rep

source_name: Weight stabilization-6


title: 4 adipose tissue dietary intervention rev rep


title: 3 adipose tissue dietary intervention

source_name: Weight stabilization-3


title: 5 adipose tissue dietary intervention

source_name: Weight stabilization-5


title: 3 adipose tissue dietary intervention rev rep


title: 2 adipose tissue dietary intervention

source_name: Weight stabilization-2


title: 1 adipose tissue dietary intervention rev rep

source_name: Weight stabilization-1


title: 1 adipose tissue dietary intervention


title: 8 adipose tissue weight stabilization

source_name: Energy restriction-8

treatment_protocol: Energy restriction


title: 7 adipose tissue weight stabilization

extract_protocol: Needle microbiopsy of subcutaneous ose tissue was performed under local anesthesia from the abdominal region. Total RNA were isolated from ose tissue biopsies with Qiagen RNeasy kit , Quality and quantity were determined by capilary electrophoresi

value: female ose tissue

source_name: Energy restriction-7


title: 2 adipose tissue dietary intervention rev rep


title: 7 adipose tissue weight stabilization rev rep


title: 5 adipose tissue dietary intervention rev rep


title: 6 adipose tissue weight stabilization rev rep

source_name: Energy restriction-6


title: 6 adipose tissue dietary intervention


title: 4 adipose tissue weight stabilization

source_name: Energy restriction-4


title: 5 adipose tissue weight stabilization

source_name: Energy restriction-5


title: 5 adipose tissue weight stabilization rev rep


title: 6 adipose tissue weight stabilization


title: 4 adipose tissue weight stabilization rev rep


title: 8 adipose tissue weight stabilization rev rep


title: 2 adipose tissue weight stabilization rev rep

source_name: Energy restriction-2


title: 3 adipose tissue weight stabilization

source_name: Energy restriction-3


title: 1 adipose tissue weight stabilization rev rep

source_name: Energy restriction-1


title: 3 adipose tissue weight stabilization rev rep


title: 6 adipose tissue energy restriction


title: 5 adipose tissue energy restriction


title: 2 adipose tissue weight stabilization


title: 8 adipose tissue energy restriction rev rep


title: 7 adipose tissue energy restriction


title: 8 adipose tissue energy restriction


title: 1 adipose tissue weight stabilization


title: 4 adipose tissue energy restriction


title: 6 adipose tissue energy restriction rev rep


title: 4 adipose tissue energy restriction rev rep


title: 3 adipose tissue energy restriction rev rep


title: 7 adipose tissue energy restriction rev rep


title: 1 adipose tissue energy restriction


title: 3 adipose tissue energy restriction


title: 1 adipose tissue energy restriction rev rep


title: Toxoplasma gondii Type II Me49 Compound 1 - 2

city: St Louis

first: Michael

middle: Sean

last: Behnke

state: MO

address: 660 S. Euclid Ave

department: Molecular Microbiology

institute: Washington University School of Medicine

description:
Type II strain Me49 grown in human foreskin fibroblasts under 3uM Compound 1 for 48hrs.
For additional Material and Methods see:
Mol Microbiol. 2008 Jun;68(6):1502-18. Epub 2008 Apr 21.
The transcription of bradyzoite genes in Toxoplasma gondii is controlled byautonomous promoter elements.
Behnke MS, Radke JB, Smith AT, Sullivan WJ Jr, White MW.

hyb_protocol: Standard Affymetrix protocol with 5ug labeled cRNA.

scan_protocol: Standard Affymetrix protocol

data_processing: GeneSpring 7.2 RMA, Data transformation: Set measurements less than 0.01 to 0.01, Per Chip and Per Gene: Median Polishing

organism: Toxoplasma gondii

source_name: Toxoplasma gondii Type II Me49 Compound 1 48hrs

label_protocol: Affymetrix One Cycle:  3ug starting RNA - Standard One Cycle protocol

extract_protocol: Parasites were purified from host cells and RNA was extracted using the Qiagen RNeasy kit (b-mercaptoethanol and DNase I treatment).

value: type II strain Me49

tag: developmental stage

value: bradyzoite

tag: growth condition


title: 5 adipose tissue energy restriction rev rep


title: 2 adipose tissue energy restriction


title: Toxoplasma gondii Type II Me49 Compound 1 - 1

value: grown in human foreskin fibroblasts under 3uM Compound 1 for 48hrs


title: Toxoplasma gondii Type II Me49 tachyzoite - 2

description:
Type II strain Me49 tachyzoites grown in human foreskin fibroblasts.
For additional Material and Methods see:
Mol Microbiol. 2008 Jun;68(6):1502-18. Epub 2008 Apr 21.
The transcription of bradyzoite genes in Toxoplasma gondii is controlled byautonomous promoter elements.
Behnke MS, Radke JB, Smith AT, Sullivan WJ Jr, White MW.

source_name: Type II Me49 tachyzoite

value: tachyzoite

value: grown in human foreskin fibroblasts


title: Toxoplasma gondii Type III CTGara tachyzoite - 2

description:
Type III strain CTGara tachyzoites grown in human foreskin fibroblasts.
For additional Material and Methods see:
Mol Microbiol. 2008 Jun;68(6):1502-18. Epub 2008 Apr 21.
The transcription of bradyzoite genes in Toxoplasma gondii is controlled byautonomous promoter elements.
Behnke MS, Radke JB, Smith AT, Sullivan WJ Jr, White MW.

source_name: Type III CTGara tachyzoite

value: type III strain CTGara


title: Toxoplasma gondii Type III CTGara Compound 1 - 1

description:
Type III strain CTGara grown in human foreskin fibroblasts under 3uM Compound 1 for 48hrs.
For additional Material and Methods see:
Mol Microbiol. 2008 Jun;68(6):1502-18. Epub 2008 Apr 21.
The transcription of bradyzoite genes in Toxoplasma gondii is controlled byautonomous promoter elements.
Behnke MS, Radke JB, Smith AT, Sullivan WJ Jr, White MW.

source_name: Type III CTGara Compound 1 48hrs


title: 2 adipose tissue energy restriction rev rep


title: Toxoplasma gondii Type II Me49 tachyzoite - 1


title: Toxoplasma gondii Type I GT1 tachyzoite - 2

description:
Type I strain GT1 tachyzoites grown in human foreskin fibroblasts.
For additional Material and Methods see:
Mol Microbiol. 2008 Jun;68(6):1502-18. Epub 2008 Apr 21.
The transcription of bradyzoite genes in Toxoplasma gondii is controlled byautonomous promoter elements.
Behnke MS, Radke JB, Smith AT, Sullivan WJ Jr, White MW.

source_name: Type I GT1 tachyzoite

value: type I strain GT1


title: Toxoplasma gondii Type III CTGara Compound 1 - 2


title: Toxoplasma gondii Type III CTGara tachyzoite - 1

source_name: Type III CTGara tacahyzoite


title: Toxoplasma gondii Type I GT1 Compound 1 - 1

description:
Type I strain GT1 grown in human foreskin fibroblasts under 3uM Compound 1 for 48hrs.
For additional Material and Methods see:
Mol Microbiol. 2008 Jun;68(6):1502-18. Epub 2008 Apr 21.
The transcription of bradyzoite genes in Toxoplasma gondii is controlled byautonomous promoter elements.
Behnke MS, Radke JB, Smith AT, Sullivan WJ Jr, White MW.

source_name: Toxoplasma gondii Type I GT1 Compound 1 48hrs


title: Toxoplasma gondii Type I GT1 Compound 1 - 2


title: Toxoplasma gondii Type I GT1 tachyzoite - 1


title: Thioacetamide 6hr Rat Liver Control Pool vs. Thioacetamide 6hr Rat 006 Liver-1

status: Public on Apr 28 2009

city: RTP

first: Pierre

middle: Robert

last: Bushel

state: NC

department: Biostatistics and Computational Biology Branch

institute: NIEHS

description: 15 mg/kg X 6 hr

hyb_protocol: Equal amounts of Cy3- or Cy5-labeled cRNA were hybridized to the array for 17 hours prior to washing and scanning.

scan_protocol: Pixel intensity data were extracted from scanned images using the Agilent Technologies Scanner and Feature Extraction Software (Agilent Technologies).  See the header of the Agilent data files for more details of the scanning and data acquisition harware and software versions and parameters.

data_processing: log base 2 ratio of Dye Normalized rProcessedSignal to gProcessedSignal

source_name: 0 mg/kg Thioacetamide 6hr Rat Liver Control Pool

label_protocol: 1 ug of total RNA was amplified and labeled with a fluorescent dye using the Low RNA Input Linear Amplification Labeling kit (Agilent Technologies, Palo Alto, CA, USA) following the manufacturer's protocol.

extract_protocol: RNA was isolated from the flash frozen portion of the left lateral liver lobe using RNeasy Midi columns (Qiagen, Valencia, CA, USA) according to the manufacturer's protocol.

value: male

tag: age

value: 10-12 weeks

value: Liver

source_name: 15mg/kg Thioacetamide 6hr Rat 006 Liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 022 liver-2

description: 10 mg/kg X 24 hr

source_name: 10 mg/kg N-Nitrosomorpholine 24hr rat 022 liver

source_name: 0 mg/kg N-Nitrosomorpholine 24hr rat 017018019020 liver pool


title: Thioacetamide 6hr Rat Liver Control Pool vs. Thioacetamide 6hr Rat 007 Liver-1

description: 15 mg/kg X 6 hr

source_name: 15mg/kg Thioacetamide 6hr Rat 007 Liver


title: Thioacetamide 6hr Rat Liver Control Pool vs. Thioacetamide 6hr Rat 007 Liver-2

description: 15 mg/kg X 6 hr


title: Thioacetamide 48hr Rat Liver Control vs. Thioacetamide 48hr Rat 044 Liver-1

description: 50 mg/kg X 48 hr

source_name: 50mg/kg Thioacetamide 48hr Rat 044 Liver

source_name: 0 mg/kg Thioacetamide 48hr Rat Liver Control


title: Thioacetamide 24hr Rat Liver Control Pool vs. Thioacetamide 24hr Rat 032 Liver-1

description: 150 mg/kg X 24 hr

source_name: 150mg/kg Thioacetamide 24hr Rat 032 Liver

source_name: 0 mg/kg Thioacetamide 24hr Rat Liver Control Pool


title: Thioacetamide 6hr Rat Liver Control Pool vs. Thioacetamide 6hr Rat 006 Liver-2

description: 15 mg/kg X 6 hr


title: Thioacetamide 48hr Rat Liver Control vs. Thioacetamide 48hr Rat 045 Liver-1

description: 150 mg/kg X 48 hr

source_name: 150mg/kg Thioacetamide 48hr Rat 045 Liver


title: Thioacetamide 6hr Rat Liver Control Pool vs. Thioacetamide 6hr Rat 005 Liver-1

description: 15 mg/kg X 6 hr

source_name: 15mg/kg Thioacetamide 6hr Rat 005 Liver


title: Thioacetamide 6hr Rat Liver Control Pool vs. Thioacetamide 6hr Rat 005 Liver-2

description: 15 mg/kg X 6 hr


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 044 liver-2

description: 50 mg/kg X 48 hr

source_name: 0 mg/kg N-Nitrosomorpholine 48hr rat 033034035036 liver pool

source_name: 50 mg/kg N-Nitrosomorpholine 48hr rat 044 liver


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 012 liver-2

description: 50 mg/kg X 6 hr

source_name: 50 mg/kg N-Nitrosomorpholine 6hr rat 012 liver

source_name: 0 mg/kg N-Nitrosomorpholine 6hr rat 01002003004 liver pool


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 044 liver-1

description: 50 mg/kg X 48 hr


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 048 liver-2

description: 300 mg/kg X 48 hr

source_name: 300 mg/kg N-Nitrosomorpholine 48hr rat 048 liver


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 043 liver-1

description: 50 mg/kg X 48 hr

source_name: 50 mg/kg N-Nitrosomorpholine 48hr rat 043 liver


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 040 liver-2

description: 10 mg/kg X 48 hr

source_name: 10 mg/kg N-Nitrosomorpholine 48hr rat 040 liver


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 048 liver-1

description: 300 mg/kg X 48 hr


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 047 liver-1

description: 300 mg/kg X 48 hr

source_name: 300 mg/kg N-Nitrosomorpholine 48hr rat 047 liver


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. Nitrosomorpholine 48hr rat 045 liver-2

description: 300 mg/kg X 48 hr

source_name: 300 mg/kg Nitrosomorpholine 48hr rat 045 liver


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 047 liver-2

description: 300 mg/kg X 48 hr


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 043 liver-2

description: 50 mg/kg X 48 hr


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 046 liver-1

description: 300 mg/kg X 48 hr

source_name: 300 mg/kg N-Nitrosomorpholine 48hr rat 046 liver


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 046 liver-2

description: 300 mg/kg X 48 hr


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 011 liver-2

description: 50 mg/kg X 6 hr

source_name: 50 mg/kg N-Nitrosomorpholine 6hr rat 011 liver


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 042 liver-2

description: 50 mg/kg X 48 hr

source_name: 50 mg/kg N-Nitrosomorpholine 48hr rat 042 liver


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 041 liver-2

description: 50 mg/kg X 48 hr

source_name: 50 mg/kg N-Nitrosomorpholine 48hr rat 041 liver


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 042 liver-1

description: 50 mg/kg X 48 hr


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 038 liver-2

description: 10 mg/kg X 48 hr

source_name: 10 mg/kg N-Nitrosomorpholine 48hr rat 038 liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 024 liver-2

description: 10 mg/kg X 24 hr

source_name: 0 mg/kg N-Nitrosomorpholine 24hr rat 017018019020 liver pool

source_name: 10 mg/kg N-Nitrosomorpholine 24hr rat 024 liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 027 liver-2

description: 50 mg/kg X 24 hr

source_name: 50 mg/kg N-Nitrosomorpholine 24hr rat 027 liver


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 039 liver-2

description: 10 mg/kg X 48 hr

source_name: 0 mg/kg N-Nitrosomorpholine 48hr rat 033034035036 liver pool

source_name: 10 mg/kg N-Nitrosomorpholine 48hr rat 039 liver


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 041 liver-1

description: 50 mg/kg X 48 hr


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 016 liver-2

description: 300 mg/kg X 6 hr

source_name: 300 mg/kg N-Nitrosomorpholine 6hr rat 016 liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 026 liver-1

description: 50 mg/kg X 24 hr

source_name: 50 mg/kg N-Nitrosomorpholine 24hr rat 026 liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 025 liver-1

description: 50 mg/kg X 24 hr

source_name: 50 mg/kg N-Nitrosomorpholine 24hr rat 025 liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 029 liver-2

description: 300 mg/kg X 24 hr

source_name: 300 mg/kg N-Nitrosomorpholine 24hr rat 029 liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 021 liver-1

description: 10 mg/kg X 24 hr

source_name: 10 mg/kg N-Nitrosomorpholine 24hr rat 021 liver


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 006 liver-2

description: 10 mg/kg X 6 hr

source_name: 10 mg/kg N-Nitrosomorpholine 6hr rat 006 liver

source_name: 0 mg/kg N-Nitrosomorpholine 6hr rat 01002003004 liver pool


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 040 liver-1

description: 10 mg/kg X 48 hr

source_name: 10 mg/kg N-Nitrosomorpholine 48hr rat 040 liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 021 liver-2

description: 10 mg/kg X 24 hr


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 016 liver-1

description: 300 mg/kg X 6 hr


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. Nitrosomorpholine 48hr rat 045 liver-1

description: 300 mg/kg X 48 hr

source_name: 300 mg/kg Nitrosomorpholine 48hr rat 045 liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 026 liver-2

description: 50 mg/kg X 24 hr


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 030 liver-2

description: 300 mg/kg X 24 hr

source_name: 300 mg/kg N-Nitrosomorpholine 24hr rat 030 liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 025 liver-2

description: 50 mg/kg X 24 hr


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 039 liver-1

description: 10 mg/kg X 48 hr


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 028 liver-1

description: 50 mg/kg X 24 hr

source_name: 50 mg/kg N-Nitrosomorpholine 24hr rat 028 liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 029 liver-1

description: 300 mg/kg X 24 hr


title: SAMPLE 62 PBMC

status: Public on Mar 05 2010

city: Baltimore

first: Alan

middle: E.

last: Berger

state: MD

address: 5501 Hopkins Bayview Circle Room 3B.74C

department: School of Medicine

institute: Johns Hopkins University

description:
SAMPLE 62 PBMC
Wegener's granulomatosis biological replicate 39

hyb_protocol: cRNA was hybridized to Illumina HumanRef-8 v2 Expression BeadChips, and signal was detected with streptavidin-Cy3, using the standard Illumina hybridization protocol.

scan_protocol: All signal intensity quantification was performed using an Illumina BeadStation 500GX Genetic Analysis Systems scanner, using the standard Illumina scanning protocol.

data_processing: A single intensity (expression) value for each Illumina probe on the array was obtained using Illumina BeadStudio software with standard settings and no background correction.  The expression values for all the probes for each sample were scaled to have median 256 (28) and then log (base 2) transformed.

source_name: PBMC_Wegener's granulomatosis

label_protocol: Biotin-labeled, complementary RNA (cRNA) was prepared from total RNA according to the chip manufacturer’s protocol (Illumina, San Diego, CA).

extract_protocol: Venous blood was collected by simple venipuncture under aseptic conditions.  All samples were processed within one hour of collection to minimize gene expression variations associated with longer sample incubation times.  PBMCs were separated by Ficoll density gradient, and PMNs isolated following 1-3 rounds of hypotonic RBC lysis.  Cells were assessed for viability by trypan blue dye exclusion, were immediately lysed in Trizol reagent (Invitrogen, Carlsbad, California) and stored at -80°C.  Total RNA was extracted from either the PBMC or PMN fractions using the Trizol reagent method (Invitrogen, Carlsbad, California).  Additional purification was performed on RNAeasy columns (Qiagen, Valencia, CA), and the quality of total RNA samples was assessed using an Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA).

tag: cell type

value: PBMC

tag: wg signature status

value: WG Sig -


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 028 liver-2

description: 50 mg/kg X 24 hr

source_name: 0 mg/kg N-Nitrosomorpholine 24hr rat 017018019020 liver pool


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 013 liver-2

description: 300 mg/kg X 6 hr

source_name: 300 mg/kg N-Nitrosomorpholine 6hr rat 013 liver


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 012 liver-1

description: 50 mg/kg X 6 hr

source_name: 50 mg/kg N-Nitrosomorpholine 6hr rat 012 liver


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 011 liver-1

description: 50 mg/kg X 6 hr

source_name: 50 mg/kg N-Nitrosomorpholine 6hr rat 011 liver


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 038 liver-1

description: 10 mg/kg X 48 hr

source_name: 10 mg/kg N-Nitrosomorpholine 48hr rat 038 liver

source_name: 0 mg/kg N-Nitrosomorpholine 48hr rat 033034035036 liver pool


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 022 liver-1

description: 10 mg/kg X 24 hr

source_name: 10 mg/kg N-Nitrosomorpholine 24hr rat 022 liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 027 liver-1

description: 50 mg/kg X 24 hr

source_name: 50 mg/kg N-Nitrosomorpholine 24hr rat 027 liver


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 015 liver-2

description: 300 mg/kg X 6 hr

source_name: 300 mg/kg N-Nitrosomorpholine 6hr rat 015 liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 032 liver-2

description: 300 mg/kg X 24 hr

source_name: 300 mg/kg N-Nitrosomorpholine 24hr rat 032 liver


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 010 liver-1

description: 50 mg/kg X 6 hr

source_name: 50 mg/kg N-Nitrosomorpholine 6hr rat 010 liver


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 010 liver-2

description: 50 mg/kg X 6 hr

source_name: 0 mg/kg N-Nitrosomorpholine 6hr rat 01002003004 liver pool


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 009 liver-2

description: 50 mg/kg X 6 hr

source_name: 50 mg/kg N-Nitrosomorpholine 6hr rat 009 liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 023 liver-2

description: 10 mg/kg X 24 hr

source_name: 10 mg/kg N-Nitrosomorpholine 24hr rat 023 liver


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 009 liver-1

description: 50 mg/kg X 6 hr


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 014 liver-2

description: 300 mg/kg X 6 hr

source_name: 300 mg/kg N-Nitrosomorpholine 6hr rat 014 liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 024 liver-1

description: 10 mg/kg X 24 hr

source_name: 10 mg/kg N-Nitrosomorpholine 24hr rat 024 liver


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 008 liver-2

description: 10 mg/kg X 6 hr

source_name: 10 mg/kg N-Nitrosomorpholine 6hr rat 008 liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 023 liver-1

description: 10 mg/kg X 24 hr

source_name: 0 mg/kg N-Nitrosomorpholine 24hr rat 017018019020 liver pool


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 013 liver-1

description: 300 mg/kg X 6 hr

source_name: 300 mg/kg N-Nitrosomorpholine 6hr rat 013 liver


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 014 liver-1

description: 300 mg/kg X 6 hr


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 037 liver-2

description: 10 mg/kg X 48 hr

source_name: 10 mg/kg N-Nitrosomorpholine 48hr rat 037 liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 030 liver-1

description: 300 mg/kg X 24 hr

source_name: 300 mg/kg N-Nitrosomorpholine 24hr rat 030 liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 031 liver-2

description: 300 mg/kg X 24 hr

source_name: 300 mg/kg N-Nitrosomorpholine 24hr rat 031 liver


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 015 liver-1

description: 300 mg/kg X 6 hr


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 008 liver-1

description: 10 mg/kg X 6 hr


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 005 liver-2

description: 10 mg/kg X 6 hr

source_name: 10 mg/kg N-Nitrosomorpholine 6hr rat 005 liver


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 031 liver-1

description: 300 mg/kg X 24 hr


title: N-Nitrosomorpholine 48hr rat 033034035036 liver pool vs. N-Nitrosomorpholine 48hr rat 037 liver-1

description: 10 mg/kg X 48 hr

source_name: 0 mg/kg N-Nitrosomorpholine 48hr rat 033034035036 liver pool


title: N-Nitrosomorpholine 24hr rat 017018019020 liver pool vs. N-Nitrosomorpholine 24hr rat 032 liver-1

description: 300 mg/kg X 24 hr


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3449.2 Liver-2

description: 300 mg/kg X 24hr

source_name: 0 mg/kg Monocrotaline 24hr rat Pool Liver

source_name: 300 mg/kg Monocrotaline 24hr rat 3449.2 Liver


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 006 liver-1

description: 10 mg/kg X 6 hr

source_name: 10 mg/kg N-Nitrosomorpholine 6hr rat 006 liver


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 007 liver-1

description: 10 mg/kg X 6 hr

source_name: 10 mg/kg N-Nitrosomorpholine 6hr rat 007 liver


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 007 liver-2

description: 10 mg/kg X 6 hr

source_name: 0 mg/kg N-Nitrosomorpholine 6hr rat 01002003004 liver pool


title: Monocrotaline 48hr rat Pool Liver vs. Monocrotaline 48hr rat 3521.2 Liver-2

description: 10 mg/kg X 48hr

source_name: 10 mg/kg Monocrotaline 48hr rat 3521.2 Liver

source_name: 0 mg/kg Monocrotaline 48hr rat Pool Liver


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3215.2 Liver-2

description: 10 mg/kg X 6hr

source_name: 0 mg/kg Monocrotaline 6hr rat Pool Liver

source_name: 10 mg/kg Monocrotaline 6hr rat 3215.2 Liver


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3278.2 Liver-2

description: 300 mg/kg X 6hr

source_name: 300 mg/kg Monocrotaline 6hr rat 3278.2 Liver


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3440.2 Liver-2

description: 300 mg/kg X 24hr

source_name: 300 mg/kg Monocrotaline 24hr rat 3440.2 Liver


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3224.2 Liver-1

description: 10 mg/kg X 6hr

source_name: 10 mg/kg Monocrotaline 6hr rat 3224.2 Liver


title: Monocrotaline 48hr rat Pool Liver vs. Monocrotaline 48hr rat 3548.2 Liver-2

description: 50 mg/kg X 48hr

source_name: 50 mg/kg Monocrotaline 48hr rat 3548.2 Liver


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3224.2 Liver-2

description: 10 mg/kg X 6hr


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3287.2 Liver-2

description: 300 mg/kg X 6hr

source_name: 300 mg/kg Monocrotaline 6hr rat 3287.2 Liver


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3278.2 Liver-1

description: 300 mg/kg X 6hr


title: Monocrotaline 48hr rat Pool Liver vs. Monocrotaline 48hr rat 3548.2 Liver-1

description: 50 mg/kg X 48hr


title: N-Nitrosomorpholine 6hr rat 01002003004 liver pool vs. N-Nitrosomorpholine 6hr rat 005 liver-1

description: 10 mg/kg X 6 hr


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3296.2 Liver-1

description: 300 mg/kg X 6hr

source_name: 300 mg/kg Monocrotaline 6hr rat 3296.2 Liver


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3305.2 Liver-2

description: 300 mg/kg X 6hr

source_name: 300 mg/kg Monocrotaline 6hr rat 3305.2 Liver


title: Monocrotaline 48hr rat Pool Liver vs. Monocrotaline 48hr rat 3494.2 Liver-2

description: 10 mg/kg X 48hr

source_name: 10 mg/kg Monocrotaline 48hr rat 3494.2 Liver


title: Monocrotaline 48hr rat Pool Liver vs. Monocrotaline 48hr rat 3494.2 Liver-1

description: 10 mg/kg X 48hr


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3404.2 Liver-2

description: 50 mg/kg X 24hr

source_name: 50 mg/kg Monocrotaline 24hr rat 3404.2 Liver

source_name: 0 mg/kg Monocrotaline 24hr rat Pool Liver


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3215.2 Liver-1

description: 10 mg/kg X 6hr


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3305.2 Liver-1

description: 300 mg/kg X 6hr


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3287.2 Liver-1

description: 300 mg/kg X 6hr


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3269.2 Liver-2

description: 50 mg/kg X 6hr

source_name: 50 mg/kg Monocrotaline 6hr rat 3269.2 Liver


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3296.2 Liver-2

description: 300 mg/kg X 6hr


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3269.2 Liver-1

description: 50 mg/kg X 6hr


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3206.2 Liver-2

description: 10 mg/kg X 6hr

source_name: 10 mg/kg Monocrotaline 6hr rat 3206.2 Liver


title: Monocrotaline 48hr rat Pool Liver vs. Monocrotaline 48hr rat 3512.2 Liver-1

description: 10 mg/kg X 48hr

source_name: 10 mg/kg Monocrotaline 48hr rat 3512.2 Liver


title: Monocrotaline 48hr rat Pool Liver vs. Monocrotaline 48hr rat 3530.2 Liver-2

description: 50 mg/kg X 48hr

source_name: 50 mg/kg Monocrotaline 48hr rat 3530.2 Liver


title: Monocrotaline 48hr rat Pool Liver vs. Monocrotaline 48hr rat 3512.2 Liver-2

description: 10 mg/kg X 48hr

source_name: 0 mg/kg Monocrotaline 48hr rat Pool Liver


title: Monocrotaline 48hr rat Pool Liver vs. Monocrotaline 48hr rat 3530.2 Liver-1

description: 50 mg/kg X 48hr


title: Monocrotaline 48hr rat Pool Liver vs. Monocrotaline 48hr rat 3539.2 Liver-1

description: 50 mg/kg X 48hr

source_name: 50 mg/kg Monocrotaline 48hr rat 3539.2 Liver


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3206.2 Liver-1

description: 10 mg/kg X 6hr

source_name: 0 mg/kg Monocrotaline 6hr rat Pool Liver


title: Monocrotaline 48hr rat Pool Liver vs. Monocrotaline 48hr rat 3503.2 Liver-2

description: 10 mg/kg X 48hr

source_name: 10 mg/kg Monocrotaline 48hr rat 3503.2 Liver


title: Monocrotaline 48hr rat Pool Liver vs. Monocrotaline 48hr rat 3539.2 Liver-2

description: 50 mg/kg X 48hr


title: Monocrotaline 48hr rat Pool Liver vs. Monocrotaline 48hr rat 3503.2 Liver-1

description: 10 mg/kg X 48hr


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3260.2 Liver-2

description: 50 mg/kg X 6hr

source_name: 50 mg/kg Monocrotaline 6hr rat 3260.2 Liver


title: Monocrotaline 48hr rat Pool Liver vs. Monocrotaline 48hr rat 3521.2 Liver-1

description: 10 mg/kg X 48hr

source_name: 10 mg/kg Monocrotaline 48hr rat 3521.2 Liver


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3251.2 Liver-2

description: 50 mg/kg X 6hr

source_name: 50 mg/kg Monocrotaline 6hr rat 3251.2 Liver


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3242.2 Liver-2

description: 50 mg/kg X 6hr

source_name: 50 mg/kg Monocrotaline 6hr rat 3242.2 Liver


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3260.2 Liver-1

description: 50 mg/kg X 6hr


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3386.2 Liver-2

description: 50 mg/kg X 24hr

source_name: 50 mg/kg Monocrotaline 24hr rat 3386.2 Liver


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3377.2 Liver-2

description: 10 mg/kg X 24hr

source_name: 10 mg/kg Monocrotaline 24hr rat 3377.2 Liver


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3359.2 Liver-2

description: 10 mg/kg X 24hr

source_name: 10 mg/kg Monocrotaline 24hr rat 3359.2 Liver


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3368.2 Liver-1

description: 10 mg/kg X 24hr

source_name: 10 mg/kg Monocrotaline 24hr rat 3368.2 Liver


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3368.2 Liver-2

description: 10 mg/kg X 24hr

source_name: 0 mg/kg Monocrotaline 24hr rat Pool Liver


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3377.2 Liver-1

description: 10 mg/kg X 24hr


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3251.2 Liver-1

description: 50 mg/kg X 6hr


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3359.2 Liver-1

description: 10 mg/kg X 24hr


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3386.2 Liver-1

description: 50 mg/kg X 24hr


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3350.2 Liver-1

description: 10 mg/kg X 24hr

source_name: 10 mg/kg Monocrotaline 24hr rat 3350.2 Liver


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3440.2 Liver-1

description: 300 mg/kg X 24hr

source_name: 300 mg/kg Monocrotaline 24hr rat 3440.2 Liver


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3422.2 Liver-2

description: 300 mg/kg X 24hr

source_name: 300 mg/kg Monocrotaline 24hr rat 3422.2 Liver


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3431.2 Liver-1

description: 300 mg/kg X 24hr

source_name: 300 mg/kg Monocrotaline 24hr rat 3431.2 Liver


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3449.2 Liver-1

description: 300 mg/kg X 24hr

source_name: 300 mg/kg Monocrotaline 24hr rat 3449.2 Liver


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3413.2 Liver-1

description: 50 mg/kg X 24hr

source_name: 50 mg/kg Monocrotaline 24hr rat 3413.2 Liver


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3422.2 Liver-1

description: 300 mg/kg X 24hr


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3350.2 Liver-2

description: 10 mg/kg X 24hr


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3413.2 Liver-2

description: 50 mg/kg X 24hr


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3395.2 Liver-2

description: 50 mg/kg X 24hr

source_name: 50 mg/kg Monocrotaline 24hr rat 3395.2 Liver


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3404.2 Liver-1

description: 50 mg/kg X 24hr

source_name: 50 mg/kg Monocrotaline 24hr rat 3404.2 Liver


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3431.2 Liver-2

description: 300 mg/kg X 24hr


title: Monocrotaline 24hr rat Pool Liver vs. Monocrotaline 24hr rat 3395.2 Liver-1

description: 50 mg/kg X 24hr


title: Monocrotaline 48hr rat Pool Liver vs. Monocrotaline 48hr rat 3557.2 Liver-2

description: 50 mg/kg X 48hr

source_name: 0 mg/kg Monocrotaline 48hr rat Pool Liver

source_name: 50 mg/kg Monocrotaline 48hr rat 3557.2 Liver


title: Monocrotaline 48hr rat Pool Liver vs. Monocrotaline 48hr rat 3557.2 Liver-1

description: 50 mg/kg X 48hr


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 7 liver-1

description: 25 mg/kg X 6 hr

source_name: Pooled 0 mg/kg N114-310, Galactosamine 6hr Rat left_liver_lobe

source_name: 25 mg/kg  Galactosamine 6hr rat 7 liver


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3233.2 Liver-1

description: 10 mg/kg X 6hr

source_name: 0 mg/kg Monocrotaline 6hr rat Pool Liver

source_name: 10 mg/kg Monocrotaline 6hr rat 3233.2 Liver


title: Monocrotaline 6hr rat Pool Liver vs. Monocrotaline 6hr rat 3242.2 Liver-1

description: 50 mg/kg X 6hr

source_name: 50 mg/kg Monocrotaline 6hr rat 3242.2 Liver


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 6 liver-2

description: 25 mg/kg X 6 hr

source_name: 25 mg/kg  Galactosamine 6hr rat 6 liver


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 5 liver-2

description: 25 mg/kg X 6 hr

source_name: 25 mg/kg  Galactosamine 6hr rat 5 liver


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 9 liver-2

description: 100 mg/kg X 6 hr

source_name: 100 mg/kg  Galactosamine 6hr rat 9 liver


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 8 liver-2

description: 25 mg/kg X 6 hr

source_name: 25 mg/kg  Galactosamine 6hr rat 8 liver


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 10 liver-2

description: 100 mg/kg X 6 hr

source_name: 100 mg/kg  Galactosamine 6hr rat 10 liver


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 13 liver-1

description: 400 mg/kg X 6 hr

source_name: 400 mg/kg  Galactosamine 6hr rat 13 liver


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 14 liver-2

description: 400 mg/kg X 6 hr

source_name: 400 mg/kg  Galactosamine 6hr rat 14 liver


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 8 liver-1

description: 25 mg/kg X 6 hr


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 6 liver-1

description: 25 mg/kg X 6 hr


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 9 liver-1

description: 100 mg/kg X 6 hr


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 12 liver-2

description: 100 mg/kg X 6 hr

source_name: 100 mg/kg  Galactosamine 6hr rat 12 liver


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 11 liver-2

description: 100 mg/kg X 6 hr

source_name: 100 mg/kg  Galactosamine 6hr rat 11 liver


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 13 liver-2

description: 400 mg/kg X 6 hr


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 12 liver-1

description: 100 mg/kg X 6 hr


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 16 liver-2

description: 400 mg/kg X 6 hr

source_name: 400 mg/kg  Galactosamine 6hr rat 16 liver


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 14 liver-1

description: 400 mg/kg X 6 hr


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 42 liver-2

description: 100 mg/kg X 48 hr

source_name: 100 mg/kg  Galactosamine 48hr rat 42 liver

source_name: Pooled 0 mg/kg N114-310, Galactosamine 48hr Rat left_liver_lobe


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 11 liver-1

description: 100 mg/kg X 6 hr

source_name: Pooled 0 mg/kg N114-310, Galactosamine 6hr Rat left_liver_lobe


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 10 liver-1

description: 100 mg/kg X 6 hr


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 16 liver-1

description: 400 mg/kg X 6 hr


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 43 liver-2

description: 100 mg/kg X 48 hr

source_name: 100 mg/kg  Galactosamine 48hr rat 43 liver


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr Rat 15 left_liver_lobe-1

description: 400 mg/kg X 6 hr

source_name: 400 mg/kg N114-310, Galactosamine 6hr Rat 15 left_liver_lobe


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 41 liver-1

description: 100 mg/kg X 48 hr

source_name: 100 mg/kg  Galactosamine 48hr rat 41 liver


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 41 liver-2

description: 100 mg/kg X 48 hr


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 21 liver-2

description: 25 mg/kg X 24 hr

source_name: Pooled 0 mg/kg N114-310, Galactosamine 24hr Rat left_liver_lobe

source_name: 25 mg/kg  Galactosamine 24hr rat 21 liver


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 26 liver-2

description: 100 mg/kg X 24 hr

source_name: 100 mg/kg  Galactosamine 24hr rat 26 liver


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 48 liver-2

description: 400 mg/kg X 48 hr

source_name: 400 mg/kg  Galactosamine 48hr rat 48 liver


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 28 liver-2

description: 100 mg/kg X 24 hr

source_name: 100 mg/kg  Galactosamine 24hr rat 28 liver


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 30 liver-2

description: 400 mg/kg X 24 hr

source_name: 400 mg/kg  Galactosamine 24hr rat 30 liver


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 7 liver-2

description: 25 mg/kg X 6 hr

source_name: 25 mg/kg  Galactosamine 6hr rat 7 liver


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 27 liver-1

description: 100 mg/kg X 24 hr

source_name: 100 mg/kg  Galactosamine 24hr rat 27 liver


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 27 liver-2

description: 100 mg/kg X 24 hr


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 26 liver-1

description: 100 mg/kg X 24 hr


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 42 liver-1

description: 100 mg/kg X 48 hr


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 25 liver-1

description: 100 mg/kg X 24 hr

source_name: 100 mg/kg  Galactosamine 24hr rat 25 liver


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 29 liver-1

description: 400 mg/kg X 24 hr

source_name: 400 mg/kg  Galactosamine 24hr rat 29 liver


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 29 liver-2

description: 400 mg/kg X 24 hr


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 28 liver-1

description: 100 mg/kg X 24 hr


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 24 liver-1

description: 25 mg/kg X 24 hr

source_name: 25 mg/kg  Galactosamine 24hr rat 24 liver


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 30 liver-1

description: 400 mg/kg X 24 hr


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 24 liver-2

description: 25 mg/kg X 24 hr


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 25 liver-2

description: 100 mg/kg X 24 hr


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 23 liver-1

description: 25 mg/kg X 24 hr

source_name: 25 mg/kg  Galactosamine 24hr rat 23 liver


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 23 liver-2

description: 25 mg/kg X 24 hr


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 22 liver-1

description: 25 mg/kg X 24 hr

source_name: 25 mg/kg  Galactosamine 24hr rat 22 liver


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 22 liver-2

description: 25 mg/kg X 24 hr


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 40 liver-2

description: 25 mg/kg X 48 hr

source_name: 25 mg/kg  Galactosamine 48hr rat 40 liver

source_name: Pooled 0 mg/kg N114-310, Galactosamine 48hr Rat left_liver_lobe


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 39 liver-1

description: 25 mg/kg X 48 hr

source_name: 25 mg/kg  Galactosamine 48hr rat 39 liver


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 40 liver-1

description: 25 mg/kg X 48 hr


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 21 liver-1

description: 25 mg/kg X 24 hr


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 48 liver-1

description: 400 mg/kg X 48 hr


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 39 liver-2

description: 25 mg/kg X 48 hr


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 47 liver-2

description: 400 mg/kg X 48 hr

source_name: 400 mg/kg  Galactosamine 48hr rat 47 liver


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 37 liver-2

description: 25 mg/kg X 48 hr

source_name: 25 mg/kg  Galactosamine 48hr rat 37 liver


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 45 liver-2

description: 400 mg/kg X 48 hr

source_name: 400 mg/kg  Galactosamine 48hr rat 45 liver


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 47 liver-1

description: 400 mg/kg X 48 hr


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 46 liver-2

description: 400 mg/kg X 48 hr

source_name: 400 mg/kg  Galactosamine 48hr rat 46 liver


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 38 liver-2

description: 25 mg/kg X 48 hr

source_name: 25 mg/kg  Galactosamine 48hr rat 38 liver


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 38 liver-1

description: 25 mg/kg X 48 hr


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 43 liver-1

description: 100 mg/kg X 48 hr

source_name: 100 mg/kg  Galactosamine 48hr rat 43 liver


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 32 liver-1

description: 400 mg/kg X 24 hr

source_name: Pooled 0 mg/kg N114-310, Galactosamine 24hr Rat left_liver_lobe

source_name: 400 mg/kg  Galactosamine 24hr rat 32 liver


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 45 liver-1

description: 400 mg/kg X 48 hr


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 46 liver-1

description: 400 mg/kg X 48 hr


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 37 liver-1

description: 25 mg/kg X 48 hr


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 32 liver-2

description: 400 mg/kg X 24 hr


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 44 liver-1

description: 100 mg/kg X 48 hr

source_name: 100 mg/kg  Galactosamine 48hr rat 44 liver


title: Galactosamine 48hr Rat left_liver_lobe vs. Galactosamine 48hr rat 44 liver-2

description: 100 mg/kg X 48 hr


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 31 liver-2

description: 400 mg/kg X 24 hr

source_name: 400 mg/kg  Galactosamine 24hr rat 31 liver


title: Galactosamine 24hr Rat left_liver_lobe vs. Galactosamine 24hr rat 31 liver-1

description: 400 mg/kg X 24 hr


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 85 liver-12

description: 25 mg/kg X 48 hr

source_name: 25mg/kg Diquat Dibromide 48hr rat 90 liver

source_name: 0mg/kg Diquat Dibromide 48hr rat liver pool


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 85 liver-11

description: 25 mg/kg X 48 hr


title: Diquat Dibromide 24hr rat liver pool vs. Diquat Dibromide 24hr rat 59 liver-12

description: 25 mg/kg X 24 hr

source_name: 25mg/kg Diquat Dibromide 24hr rat 58 liver

source_name: 0mg/kg Diquat Dibromide 24hr rat liver pool


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 85 liver-10

description: 25 mg/kg X 48 hr

source_name: 25mg/kg Diquat Dibromide 48hr rat 89 liver


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr rat 5 liver-1

description: 25 mg/kg X 6 hr

source_name: Pooled 0 mg/kg N114-310, Galactosamine 6hr Rat left_liver_lobe

source_name: 25 mg/kg  Galactosamine 6hr rat 5 liver


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 85 liver-9

description: 25 mg/kg X 48 hr


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 85 liver-8

description: 25 mg/kg X 48 hr

source_name: 25mg/kg Diquat Dibromide 48hr rat 88 liver


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 83 liver-12

description: 20 mg/kg X 48 hr

source_name: 20mg/kg Diquat Dibromide 48hr rat 79 liver


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 85 liver-7

description: 25 mg/kg X 48 hr


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 83 liver-11

description: 20 mg/kg X 48 hr


title: Galactosamine 6hr Rat left_liver_lobe vs. Galactosamine 6hr Rat 15 left_liver_lobe-2

description: 400 mg/kg X 6 hr

source_name: 400 mg/kg N114-310, Galactosamine 6hr Rat 15 left_liver_lobe


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 76 liver-10

description: 10 mg/kg X 48 hr

source_name: 10mg/kg Diquat Dibromide 48hr rat 77 liver


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 83 liver-7

description: 20 mg/kg X 48 hr

source_name: 20mg/kg Diquat Dibromide 48hr rat 82 liver


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 76 liver-11

description: 10 mg/kg X 48 hr

source_name: 10mg/kg Diquat Dibromide 48hr rat 78 liver


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 83 liver-9

description: 20 mg/kg X 48 hr

source_name: 20mg/kg Diquat Dibromide 48hr rat 80 liver


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 83 liver-5

description: 20 mg/kg X 48 hr

source_name: 20mg/kg Diquat Dibromide 48hr rat 84 liver


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 83 liver-6

description: 20 mg/kg X 48 hr

source_name: 20mg/kg Diquat Dibromide 48hr rat 81 liver


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 83 liver-3

description: 20 mg/kg X 48 hr

source_name: 20mg/kg Diquat Dibromide 48hr rat 83 liver


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 83 liver-8

description: 20 mg/kg X 48 hr


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 76 liver-12

description: 10 mg/kg X 48 hr


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 83 liver-2

description: 20 mg/kg X 48 hr


title: Diquat Dibromide 6hr rat liver pool vs. Diquat Dibromide 6hr rat 16 liver-10

description: 10 mg/kg X 6 hr

source_name: 0mg/kg Diquat Dibromide 6hr rat liver pool

source_name: 10mg/kg Diquat Dibromide 6hr rat 14 liver


title: Diquat Dibromide 6hr rat liver pool vs. Diquat Dibromide 6hr rat 16 liver-11

description: 10 mg/kg X 6 hr


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 76 liver-9

description: 10 mg/kg X 48 hr

source_name: 0mg/kg Diquat Dibromide 48hr rat liver pool

source_name: 10mg/kg Diquat Dibromide 48hr rat 75 liver


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 83 liver-4

description: 20 mg/kg X 48 hr


title: Diquat Dibromide 6hr rat liver pool vs. Diquat Dibromide 6hr rat 16 liver-9

description: 10 mg/kg X 6 hr

source_name: 10mg/kg Diquat Dibromide 6hr rat 13 liver


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 83 liver-10

description: 20 mg/kg X 48 hr


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 76 liver-7

description: 10 mg/kg X 48 hr

source_name: 10mg/kg Diquat Dibromide 48hr rat 74 liver


title: Diquat Dibromide 6hr rat liver pool vs. Diquat Dibromide 6hr rat 16 liver-8

description: 10 mg/kg X 6 hr


title: Diquat Dibromide 6hr rat liver pool vs. Diquat Dibromide 6hr rat 16 liver-12

description: 10 mg/kg X 6 hr

source_name: 10mg/kg Diquat Dibromide 6hr rat 15 liver


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 76 liver-6

description: 10 mg/kg X 48 hr

source_name: 10mg/kg Diquat Dibromide 48hr rat 73 liver


title: Diquat Dibromide 24hr rat liver pool vs. Diquat Dibromide 24hr rat 40 liver-12

description: 5 mg/kg X 24 hr

source_name: 5mg/kg Diquat Dibromide 24hr rat 38 liver

source_name: 0mg/kg Diquat Dibromide 24hr rat liver pool


title: Diquat Dibromide 24hr rat liver pool vs. Diquat Dibromide 24hr rat 40 liver-10

description: 5 mg/kg X 24 hr

source_name: 5mg/kg Diquat Dibromide 24hr rat 37 liver


title: Diquat Dibromide 24hr rat liver pool vs. Diquat Dibromide 24hr rat 40 liver-11

description: 5 mg/kg X 24 hr


title: Diquat Dibromide 24hr rat liver pool vs. Diquat Dibromide 24hr rat 40 liver-9

description: 5 mg/kg X 24 hr


title: Diquat Dibromide 6hr rat liver pool vs. Diquat Dibromide 6hr rat 25 liver-12

description: 25 mg/kg X 6 hr

source_name: 25mg/kg Diquat Dibromide 6hr rat 30 liver


title: Diquat Dibromide 24hr rat liver pool vs. Diquat Dibromide 24hr rat 59 liver-11

description: 25 mg/kg X 24 hr

source_name: 25mg/kg Diquat Dibromide 24hr rat 56 liver


title: Diquat Dibromide 24hr rat liver pool vs. Diquat Dibromide 24hr rat 59 liver-10

description: 25 mg/kg X 24 hr


title: Diquat Dibromide 24hr rat liver pool vs. Diquat Dibromide 24hr rat 59 liver-9

description: 25 mg/kg X 24 hr

source_name: 25mg/kg Diquat Dibromide 24hr rat 55 liver


title: Diquat Dibromide 24hr rat liver pool vs. Diquat Dibromide 24hr rat 59 liver-8

description: 25 mg/kg X 24 hr


title: Diquat Dibromide 24hr rat liver pool vs. Diquat Dibromide 24hr rat 54 liver-12

description: 20 mg/kg X 24 hr

source_name: 20mg/kg Diquat Dibromide 24hr rat 54 liver


title: Diquat Dibromide 48hr rat liver pool vs. Diquat Dibromide 48hr rat 76 liver-8

description: 10 mg/kg X 48 hr


title: Diquat Dibromide 24hr rat liver pool vs. Diquat Dibromide 24hr rat 54 liver-10

description: 20 mg/kg X 24 hr

source_name: 20mg/kg Diquat Dibromide 24hr rat 53 liver