title: CY499 7

description: CY499 7

scan_protocol: Scan Power : 100 PMT Volts : 543 Pixel Size : 10 Laser on time : 194017 Laser Power : 3.10 Scan Date : 2012-11-07 Scan Temperature : 33.01 Scan Time : 15:43:13 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 510, 4630


title: CY499 -2

status: Public on May 10 2016

type: RNA

city: Stanford

first: Fiona

last: Strouts

state: CA

address: Campus Drive

country: USA

institute: Stanford

description: CY499 -2

hyb_protocol: reference URL : http://www.chem.agilent.com/Library/usermanuals/Public/G4140-90050_GeneExpression_TwoColor_6.8.pdf Hybridization method : 8 ug of Cy5-labeled amplified RNA and 5 ug of Cy3-labeled Universal Human Reference aRNA (Stratagene) were hybridized to Human Exonic Evidence Based Oligonucleotide (HEEBO) microarrays. Dye-labeled RNA was fragmented and then mixed with 250 ?l 2_ Hi-RPM Hybridization Buffer (Agilent Technologies) and hybridized to the microarrays at 65?C for 14 hours using the hybridization gasket slides and microarray hybridization chamber (Agilent Technologies).

scan_protocol: Scan Power : 100 PMT Volts : 519 Pixel Size : 10 Laser on time : 193948 Laser Power : 3.11 Scan Date : 2012-11-07 Scan Temperature : 32.43 Scan Time : 14:33:49 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 440, 5360

molecule: total RNA

organism: Homo sapiens

source_name: Stratagene Human Universal Reference aa aRNA, NuGEN amplified, 5ug of pooled Alexa Fluor 3 labeled

label_protocol:
Type of label : Cy3
reference URL : http://www.gelifesciences.com/webapp/wcs/stores/servlet/ProductDisplay?categoryId=11158&catalogId=10101&productId=16547&storeId=11787&langId=-1

extract_protocol: Extraction method : Human Universal Reference RNA (Stratagene)

tag: reference sample name

source_name: PAXGene NHP aRNA, 8ug, EpiC amplified, Cy5 lab, spiked dop control

label_protocol:
Type of label : Cy5
reference URL : http://www.gelifesciences.com/webapp/wcs/stores/servlet/ProductDisplay?categoryId=11158&catalogId=10101&productId=16547&storeId=11787&langId=-1

extract_protocol:
Extraction method : PreAnalytiX PAXgene Blood RNA Kit
Amplification method : Epicentre TargetAmp Aminoallyl aRNA Amp Kit

treatment_protocol:
Vaccine Route : ID
Treatment : Placebo
Treatment group : 6
Vaccine Dose : Single
Day : -2

tag: test sample name

tag: time point (days)


title: CY499 3

description: CY499 3

scan_protocol: Scan Power : 100 PMT Volts : 505 Pixel Size : 10 Laser on time : 193978 Laser Power : 3.10 Scan Date : 2012-11-07 Scan Temperature : 32.74 Scan Time : 15:03:47 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

value: Human Universal Reference RNA (Stratagene)

treatment_protocol:
Vaccine Route : ID
Treatment : Placebo
Treatment group : 6
Vaccine Dose : Single
Day : 3


title: CY499 91

description: CY499 91

scan_protocol: Scan Power : 100 PMT Volts : 519 Pixel Size : 10 Laser on time : 194063 Laser Power : 3.11 Scan Date : 2012-11-07 Scan Temperature : 33.07 Scan Time : 16:28:28 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 840, 5020

treatment_protocol:
Vaccine Route : SC
Treatment : Virus
Treatment group : 6
Vaccine Dose : Single
Day : 91


title: CY481 D97

description: CY481 D97

scan_protocol: Scan Power : 100 PMT Volts : 509 Pixel Size : 10 Laser on time : 188843 Laser Power : 3.10 Scan Date : 2012-09-20 Scan Temperature : 33.07 Scan Time : 14:00:53 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 640, 4800

source_name: Stratagene Human Universal Reference aa aRNA, 5ug of pooled Cy3 labeled

treatment_protocol:
Vaccine Route : SC
Treatment : Virus
Treatment group : 6
Vaccine Dose : Single
Day : 97


title: CY488 D7

description: CY488 D7

scan_protocol: Scan Power : 100 PMT Volts : 511 Pixel Size : 10 Laser on time : 188951 Laser Power : 3.11 Scan Date : 2012-09-20 Scan Temperature : 33.56 Scan Time : 15:48:32 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : ID
Treatment : Placebo
Treatment group : 6
Vaccine Dose : Single
Day : 7


title: CY488 D93

description: CY488 D93

scan_protocol: Scan Power : 100 PMT Volts : 506 Pixel Size : 10 Laser on time : 189012 Laser Power : 3.09 Scan Date : 2012-09-20 Scan Temperature : 33.68 Scan Time : 16:51:05 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : SC
Treatment : Virus
Treatment group : 6
Vaccine Dose : Single
Day : 93


title: CY488 D5

description: CY488 D5

scan_protocol: Scan Power : 100 PMT Volts : 495 Pixel Size : 10 Laser on time : 188934 Laser Power : 3.11 Scan Date : 2012-09-20 Scan Temperature : 33.50 Scan Time : 15:31:09 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : ID
Treatment : Placebo
Treatment group : 6
Vaccine Dose : Single
Day : 5


title: CY499 5

description: CY499 5

scan_protocol: Scan Power : 100 PMT Volts : 514 Pixel Size : 10 Laser on time : 193996 Laser Power : 3.10 Scan Date : 2012-11-07 Scan Temperature : 32.86 Scan Time : 15:21:06 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY488 D-11

description: CY488 D-11

scan_protocol: Scan Power : 100 PMT Volts : 512 Pixel Size : 10 Laser on time : 188861 Laser Power : 3.11 Scan Date : 2012-09-20 Scan Temperature : 33.19 Scan Time : 14:18:13 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : ID
Treatment : Placebo
Treatment group : 6
Vaccine Dose : Single
Day : -11


title: CY488 D3

description: CY488 D3

scan_protocol: Scan Power : 100 PMT Volts : 488 Pixel Size : 10 Laser on time : 188917 Laser Power : 3.11 Scan Date : 2012-09-20 Scan Temperature : 33.47 Scan Time : 15:14:26 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY488 D88

description: CY488 D88

scan_protocol: Scan Power : 100 PMT Volts : 522 Pixel Size : 10 Laser on time : 188973 Laser Power : 3.09 Scan Date : 2012-09-20 Scan Temperature : 33.62 Scan Time : 16:10:13 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : SC
Treatment : Placebo
Treatment group : 6
Vaccine Dose : Single
Day : 88


title: CY481 D7

description: CY481 D7

scan_protocol: Scan Power : 100 PMT Volts : 510 Pixel Size : 10 Laser on time : 188756 Laser Power : 3.09 Scan Date : 2012-09-20 Scan Temperature : 32.13 Scan Time : 12:33:22 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY481 D93

description: CY481 D93

scan_protocol: Scan Power : 100 PMT Volts : 499 Pixel Size : 10 Laser on time : 188808 Laser Power : 3.10 Scan Date : 2012-09-20 Scan Temperature : 32.80 Scan Time : 13:24:39 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY488 D91

description: CY488 D91

scan_protocol: Scan Power : 100 PMT Volts : 502 Pixel Size : 10 Laser on time : 188993 Laser Power : 3.10 Scan Date : 2012-09-20 Scan Temperature : 33.65 Scan Time : 16:31:20 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY481 D88

description: CY481 D88

scan_protocol: Scan Power : 100 PMT Volts : 500 Pixel Size : 10 Laser on time : 188773 Laser Power : 3.11 Scan Date : 2012-09-20 Scan Temperature : 32.40 Scan Time : 12:50:02 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY481 D1

description: CY481 D1

scan_protocol: Scan Power : 100 PMT Volts : 492 Pixel Size : 10 Laser on time : 188706 Laser Power : 3.08 Scan Date : 2012-09-20 Scan Temperature : 31.21 Scan Time : 11:43:06 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : ID
Treatment : Placebo
Treatment group : 6
Vaccine Dose : Single
Day : 1


title: CY479 D97

description: PAXGene NHP aRNA, 8ug, Epicenter amplified, Cy5 labeled, spiked with 20ng doping control labeled separately

scan_protocol: Scan Power : 100 PMT Volts : 542 Pixel Size : 10 Laser on time : 181275 Laser Power : 3.10 Scan Date : 2012-06-29 Scan Temperature : 34.26 Scan Time : 15:27:39 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 760, 4360

source_name: 8ug NHP aRNA EpiC amp Cy5 labeled, spiked with 20ng dc


title: CY481 D91

description: CY481 D91

scan_protocol: Scan Power : 100 PMT Volts : 504 Pixel Size : 10 Laser on time : 188791 Laser Power : 3.10 Scan Date : 2012-09-20 Scan Temperature : 32.64 Scan Time : 13:07:35 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY481 D5

description: CY481 D5

scan_protocol: Scan Power : 100 PMT Volts : 493 Pixel Size : 10 Laser on time : 188741 Laser Power : 3.07 Scan Date : 2012-09-20 Scan Temperature : 31.88 Scan Time : 12:18:19 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY481 D-11

description: CY481 D-11

scan_protocol: Scan Power : 100 PMT Volts : 497 Pixel Size : 10 Laser on time : 188677 Laser Power : 3.06 Scan Date : 2012-09-20 Scan Temperature : 30.48 Scan Time : 11:13:34 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY488 D1

description: CY488 D1

scan_protocol: Scan Power : 100 PMT Volts : 487 Pixel Size : 10 Laser on time : 188898 Laser Power : 3.12 Scan Date : 2012-09-20 Scan Temperature : 33.38 Scan Time : 14:55:42 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY488 D-2

description: CY488 D-2

scan_protocol: Scan Power : 100 PMT Volts : 507 Pixel Size : 10 Laser on time : 188879 Laser Power : 3.11 Scan Date : 2012-09-20 Scan Temperature : 33.29 Scan Time : 14:36:36 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY481 D-2

description: CY481 D-2

scan_protocol: Scan Power : 100 PMT Volts : 492 Pixel Size : 10 Laser on time : 188694 Laser Power : 3.10 Scan Date : 2012-09-20 Scan Temperature : 30.87 Scan Time : 11:30:33 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY479 D95

scan_protocol: Scan Power : 100 PMT Volts : 532 Pixel Size : 10 Laser on time : 181258 Laser Power : 3.09 Scan Date : 2012-06-29 Scan Temperature : 34.20 Scan Time : 15:10:55 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : SC
Treatment : Virus
Treatment group : 6
Vaccine Dose : Single
Day : 95


title: CY481 D3

description: CY481 D3

scan_protocol: Scan Power : 100 PMT Volts : 496 Pixel Size : 10 Laser on time : 188724 Laser Power : 3.06 Scan Date : 2012-09-20 Scan Temperature : 31.55 Scan Time : 12:00:52 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY481 D95

description: CY481 D95

scan_protocol: Scan Power : 100 PMT Volts : 516 Pixel Size : 10 Laser on time : 188827 Laser Power : 3.10 Scan Date : 2012-09-20 Scan Temperature : 32.98 Scan Time : 13:43:51 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY479 D91

scan_protocol: Scan Power : 100 PMT Volts : 525 Pixel Size : 10 Laser on time : 182294 Laser Power : 3.11 Scan Date : 2012-07-03 Scan Temperature : 32.74 Scan Time : 12:44:51 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 920, 5400


title: CY479 D88

scan_protocol: Scan Power : 100 PMT Volts : 543 Pixel Size : 10 Laser on time : 181219 Laser Power : 3.09 Scan Date : 2012-06-29 Scan Temperature : 34.02 Scan Time : 14:31:46 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY479 D3

scan_protocol: Scan Power : 100 PMT Volts : 619 Pixel Size : 10 Laser on time : 181140 Laser Power : 3.11 Scan Date : 2012-06-29 Scan Temperature : 33.35 Scan Time : 13:12:13 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 520, 4760


title: CY479 D5

scan_protocol: Scan Power : 100 PMT Volts : 540 Pixel Size : 10 Laser on time : 181159 Laser Power : 3.09 Scan Date : 2012-06-29 Scan Temperature : 33.56 Scan Time : 13:31:56 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY479 D93

scan_protocol: Scan Power : 100 PMT Volts : 542 Pixel Size : 10 Laser on time : 181238 Laser Power : 3.09 Scan Date : 2012-06-29 Scan Temperature : 34.08 Scan Time : 14:50:45 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY479 D7

scan_protocol: Scan Power : 100 PMT Volts : 547 Pixel Size : 10 Laser on time : 181174 Laser Power : 3.10 Scan Date : 2012-06-29 Scan Temperature : 33.74 Scan Time : 13:47:31 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY479 D1

scan_protocol: Scan Power : 100 PMT Volts : 553 Pixel Size : 10 Laser on time : 181122 Laser Power : 3.10 Scan Date : 2012-06-29 Scan Temperature : 33.10 Scan Time : 12:54:39 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY479 D-2

scan_protocol: Scan Power : 100 PMT Volts : 522 Pixel Size : 10 Laser on time : 181102 Laser Power : 3.10 Scan Date : 2012-06-29 Scan Temperature : 32.80 Scan Time : 12:35:00 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: as1-1 tfl2-1_rep2

city: shanghai

first: Zhongfei

last: Li

address: songhu road 2005

country: China

institute: fudan university

description: as1-1 tfl2-1, 12-day-old seedling, replication 2

hyb_protocol: Each Slide was hybridized with 1.65μg Cy3-labeled cRNA using Gene Expression Hybridization Kit (Cat#5188-5242, Agilent technologies, Santa Clara, CA, US) in Hybridization Oven (Cat#G2545A, Agilent technologies, Santa Clara, CA, US), according to the manufacturer’s instructions. After 17 hours hybridization, slides were washed in staining dishes (Cat#121, Thermo Shandon, Waltham, MA, US) with Gene Expression Wash Buffer Kit(Cat#5188-5327, Agilent technologies, Santa Clara, CA, US), followed the manufacturer’s instructions.

scan_protocol: Slides were scanned by Agilent Microarray Scanner (Cat#G2565CA, Agilent technologies, Santa Clara, CA, US) with default settings, Dye channel: Green ,Scan resolution=5μm, PMT 100%，10% ，16bit.

data_processing: Feature Extraction software 10.7 (Agilent technologies, Santa Clara, CA, US) Raw data were normalized by Quantile algorithm, Gene Spring Software 11.0 (Agilent technologies, Santa Clara, CA, US).

organism: Arabidopsis thaliana

label_protocol: Total RNA was amplified and labeled by Low Input Quick Amp Labeling Kit, One-Color (Cat#5190-2305, Agilent technologies, Santa Clara, CA, US), followed the manufacturer’s instructions. Labeled cRNA were purified by RNeasy mini kit (Cat#74106, QIAGEN, GmBH, Germany).

growth_protocol: Plants were grown on MS medium at 22℃ under a light intensity of about 100 μEm-2s-1 in a 16 hrs-light/8 hrs-dark photoperiod.

extract_protocol: Total RNA was extracted using TRIZOL Reagent (Cat#15596-018，Life technologies, Carlsbad, CA, US)following the manufacturer’s instructions and checked for a RIN number to inspect RNA integration by an Agilent Bioanalyzer 2100 (Agilent technologies, Santa Clara, CA, US).Qualified total RNA was further purified by RNeasy mini kit (Cat#74106, QIAGEN, GmBH, Germany) and RNase-Free DNase Set  (Cat#79254, QIAGEN, GmBH, Germany).

tag: ecotype

tag: tissue

value: whole seedling

tag: genotype/variation

tag: age


title: CY0498 d7

description: CY0498 d7 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 480 Pixel Size : 10 Laser on time : 202474 Laser Power : 3.58 Scan Date : 2013-03-25 Scan Temperature : 35.39 Scan Time : 20:59:30 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 240, 4360

source_name: Strat UHR and v4 MJ doping control aa-aRNA labeled 31813

treatment_protocol:
Vaccine Route : SC
Treatment : Vaccine
Treatment group : 5
Vaccine Dose : Single
Day : 7


title: CY479 D-11

scan_protocol: Scan Power : 100 PMT Volts : 526 Pixel Size : 10 Laser on time : 181085 Laser Power : 3.09 Scan Date : 2012-06-29 Scan Temperature : 32.55 Scan Time : 12:18:16 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: tfl2-1_rep2

description: tfl2-1, 12-day-old seedling, replication 2


title: as1-1 tfl2-1_rep1

description: as1-1 tfl2-1, 12-day-old seedling, replication 1


title: WT_rep2

description: wild type, 12-day-old seedling, replication 2

value: WT


title: CY0498 d3

description: CY0498 d3 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 467 Pixel Size : 10 Laser on time : 202442 Laser Power : 3.55 Scan Date : 2013-03-25 Scan Temperature : 35.12 Scan Time : 20:28:22 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : SC
Treatment : Vaccine
Treatment group : 5
Vaccine Dose : Single
Day : 3


title: tfl2-1_rep1

description: tfl2-1, 12-day-old seedling, replication 1


title: as1-1_rep2

description: as1-1, 12-day-old seedling, replication 2


title: CY0498 d-2

description: CY0498 d-2 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 489 Pixel Size : 10 Laser on time : 202409 Laser Power : 3.55 Scan Date : 2013-03-25 Scan Temperature : 35.02 Scan Time : 19:55:16 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : SC
Treatment : Vaccine
Treatment group : 5
Vaccine Dose : Single
Day : -2


title: as1-1_rep1

description: as1-1, 12-day-old seedling, replication 1


title: CY0498 d5

description: CY0498 d5 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 482 Pixel Size : 10 Laser on time : 202458 Laser Power : 3.55 Scan Date : 2013-03-25 Scan Temperature : 35.27 Scan Time : 20:43:49 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : SC
Treatment : Vaccine
Treatment group : 5
Vaccine Dose : Single
Day : 5


title: WT_rep1

description: wild type, 12-day-old seedling, replication 1


title: CY0498 d1

description: CY0498 d1 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 489 Pixel Size : 10 Laser on time : 202427 Laser Power : 3.55 Scan Date : 2013-03-25 Scan Temperature : 35.06 Scan Time : 20:12:48 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : SC
Treatment : Vaccine
Treatment group : 5
Vaccine Dose : Single
Day : 1


title: CY0497 d3

description: CY0497 d3 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 472 Pixel Size : 10 Laser on time : 202214 Laser Power : 3.60 Scan Date : 2013-03-25 Scan Temperature : 35.57 Scan Time : 16:39:52 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0497 d5

description: CY0497 d5 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 479 Pixel Size : 10 Laser on time : 202230 Laser Power : 3.59 Scan Date : 2013-03-25 Scan Temperature : 35.54 Scan Time : 16:55:50 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0498 d-11

description: CY0498 d-11 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 488 Pixel Size : 10 Laser on time : 202299 Laser Power : 3.58 Scan Date : 2013-03-25 Scan Temperature : 35.42 Scan Time : 18:05:12 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : SC
Treatment : Vaccine
Treatment group : 5
Vaccine Dose : Single
Day : -11


title: CY0497 d-2

description: CY0497 d-2 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 466 Pixel Size : 10 Laser on time : 202164 Laser Power : 3.60 Scan Date : 2013-03-25 Scan Temperature : 35.54 Scan Time : 15:50:08 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0497 d1

description: CY0497 d1 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 467 Pixel Size : 10 Laser on time : 202183 Laser Power : 3.60 Scan Date : 2013-03-25 Scan Temperature : 35.54 Scan Time : 16:08:22 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0496 d7

description: CY0496 d7 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 476 Pixel Size : 10 Laser on time : 202120 Laser Power : 3.60 Scan Date : 2013-03-25 Scan Temperature : 35.54 Scan Time : 15:04:47 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0497 d-11

description: CY0497 d-11 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 473 Pixel Size : 10 Laser on time : 202140 Laser Power : 3.60 Scan Date : 2013-03-25 Scan Temperature : 35.51 Scan Time : 15:25:45 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0497 d7

description: CY0497 d7 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 476 Pixel Size : 10 Laser on time : 202278 Laser Power : 3.58 Scan Date : 2013-03-25 Scan Temperature : 35.45 Scan Time : 17:43:40 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0496 d5

description: CY0496 d5 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 474 Pixel Size : 10 Laser on time : 202090 Laser Power : 3.60 Scan Date : 2013-03-25 Scan Temperature : 35.51 Scan Time : 14:35:51 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0496 d-2

description: CY0496 d-2 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 460 Pixel Size : 10 Laser on time : 202034 Laser Power : 3.61 Scan Date : 2013-03-25 Scan Temperature : 35.42 Scan Time : 13:38:40 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0496 d1

description: CY0496 d1 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 458 Pixel Size : 10 Laser on time : 202053 Laser Power : 3.60 Scan Date : 2013-03-25 Scan Temperature : 35.45 Scan Time : 13:58:04 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0496 d3

description: CY0496 d3 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 469 Pixel Size : 10 Laser on time : 202074 Laser Power : 3.60 Scan Date : 2013-03-25 Scan Temperature : 35.51 Scan Time : 14:19:16 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0495 d7

description: CY0495 d7 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 495 Pixel Size : 10 Laser on time : 202505 Laser Power : 3.59 Scan Date : 2013-03-25 Scan Temperature : 35.63 Scan Time : 21:31:26 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0495 d3

description: CY0495 d3 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 496 Pixel Size : 10 Laser on time : 201999 Laser Power : 3.57 Scan Date : 2013-03-25 Scan Temperature : 35.30 Scan Time : 13:02:45 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0495 d-2

description: CY0495 d-2 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 502 Pixel Size : 10 Laser on time : 201936 Laser Power : 3.57 Scan Date : 2013-03-25 Scan Temperature : 34.72 Scan Time : 12:00:13 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 360, 4690


title: CY0496 d-11

description: CY0496 d-11 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 479 Pixel Size : 10 Laser on time : 201628 Laser Power : 3.47 Scan Date : 2013-03-23 Scan Temperature : 34.60 Scan Time : 13:15:38 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 360, 3840


title: CY0495 d1

description: CY0495 d1 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 497 Pixel Size : 10 Laser on time : 201955 Laser Power : 3.57 Scan Date : 2013-03-25 Scan Temperature : 34.99 Scan Time : 12:19:57 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0494 d3

description: CY0494 d3 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 496 Pixel Size : 10 Laser on time : 201873 Laser Power : 3.56 Scan Date : 2013-03-25 Scan Temperature : 33.71 Scan Time : 10:56:55 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0494 d7

description: CY0494 d7 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 496 Pixel Size : 10 Laser on time : 201904 Laser Power : 3.57 Scan Date : 2013-03-25 Scan Temperature : 34.23 Scan Time : 11:27:57 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0494 d1

description: CY0494 d1 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 517 Pixel Size : 10 Laser on time : 201547 Laser Power : 3.50 Scan Date : 2013-03-23 Scan Temperature : 33.56 Scan Time : 11:54:06 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 560, 4900


title: CY0495 d5

description: CY0495 d5 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 494 Pixel Size : 10 Laser on time : 202489 Laser Power : 3.60 Scan Date : 2013-03-25 Scan Temperature : 35.51 Scan Time : 21:15:15 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0494 d-2

description: CY0494 d-2 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 499 Pixel Size : 10 Laser on time : 201856 Laser Power : 3.56 Scan Date : 2013-03-25 Scan Temperature : 33.35 Scan Time : 10:40:00 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0493 d5

description: CY0493 d5 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 503 Pixel Size : 10 Laser on time : 201598 Laser Power : 3.49 Scan Date : 2013-03-23 Scan Temperature : 34.35 Scan Time : 12:45:03 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0494 d-11

description: CY0494 d-11 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 494 Pixel Size : 10 Laser on time : 201840 Laser Power : 3.56 Scan Date : 2013-03-25 Scan Temperature : 32.98 Scan Time : 10:24:01 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0493 d-2

description: CY0493 d-2 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 501 Pixel Size : 10 Laser on time : 201527 Laser Power : 3.50 Scan Date : 2013-03-23 Scan Temperature : 33.19 Scan Time : 11:33:56 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0495 d-11

description: CY0495 d-11 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 473 Pixel Size : 10 Laser on time : 201920 Laser Power : 3.57 Scan Date : 2013-03-25 Scan Temperature : 34.51 Scan Time : 11:44:12 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY478 5

description: CY478 5

scan_protocol: Scan Power : 100 PMT Volts : 574 Pixel Size : 10 Laser on time : 192516 Laser Power : 3.06 Scan Date : 2012-11-03 Scan Temperature : 31.79 Scan Time : 18:34:03 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 760, 4440

treatment_protocol:
Vaccine Route : SC
Treatment : Vaccine
Treatment group : 4
Vaccine Dose : Double
Day : 5


title: CY0494 d5

description: CY0494 d5 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 499 Pixel Size : 10 Laser on time : 201888 Laser Power : 3.57 Scan Date : 2013-03-25 Scan Temperature : 33.99 Scan Time : 11:12:26 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0493 d1

description: CY0493 d1 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 505 Pixel Size : 10 Laser on time : 201563 Laser Power : 3.50 Scan Date : 2013-03-23 Scan Temperature : 33.86 Scan Time : 12:10:36 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0493 d7

description: CY0493 d7 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 489 Pixel Size : 10 Laser on time : 201825 Laser Power : 3.60 Scan Date : 2013-03-25 Scan Temperature : 32.64 Scan Time : 10:08:06 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0493 d3

description: CY0493 d3 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 494 Pixel Size : 10 Laser on time : 201582 Laser Power : 3.49 Scan Date : 2013-03-23 Scan Temperature : 34.17 Scan Time : 12:29:18 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY478 -2

description: CY478 -2

scan_protocol: Scan Power : 100 PMT Volts : 588 Pixel Size : 10 Laser on time : 192193 Laser Power : 3.10 Scan Date : 2012-11-02 Scan Temperature : 32.83 Scan Time : 15:07:50 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 520, 4640

treatment_protocol:
Vaccine Route : SC
Treatment : Vaccine
Treatment group : 4
Vaccine Dose : Double
Day : -2


title: CY477 5

description: CY477 5

scan_protocol: Scan Power : 100 PMT Volts : 534 Pixel Size : 10 Laser on time : 194415 Laser Power : 3.07 Scan Date : 2012-11-09 Scan Temperature : 31.64 Scan Time : 14:21:50 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 480, 3870


title: CY478 3

description: CY478 3

scan_protocol: Scan Power : 100 PMT Volts : 581 Pixel Size : 10 Laser on time : 192501 Laser Power : 3.07 Scan Date : 2012-11-03 Scan Temperature : 31.67 Scan Time : 18:18:14 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : SC
Treatment : Vaccine
Treatment group : 4
Vaccine Dose : Double
Day : 3


title: PE-PreT-AGA, rep19

city: Toronto

first: Brian

last: Cox

state: Ontario

address: 1 King's College Circle

department: Physiology

country: Canada

institute: University of Toronto

description:
SAMPLE_9981
Placenta sample purchased from the Research Centre for Women’s and Infants’ Health (RCWIH) BioBank (Toronto, Canada), which utilizes a systematic sampling procedure in which four tissue biopsies (one sample/quadrant) are collected and pooled per placenta. At the time of sample collection and purchase, PE was defined as the onset of systolic pressure ≥ 140 mmHg and/or diastolic pressure ≥ 90 mmHg after the 20th week of gestation, accompanied by proteinuria (greater than 300 mg protein/day, or greater ≥ 2+ by dipstick). CH: chronic maternal hypertension; systolic pressure ≥ 140 mmHg and/or sustained diastolic ≥ 90 mmHg before the 20th week of gestation. Preterm: delivery prior to 34 weeks gestation. SGA: small-for-gestational-age infant; neonatal birth weight < 10th percentile for gestational age and sex. AGA: average-for-gestational age infant.

hyb_protocol: Hybridization was performed by the Princess Margaret Genomics Centre (Toronto, Canada) as per Affymetrics protocols.

scan_protocol: Scanning was performed by the Princess Margaret Genomics Centre (Toronto, Canada) as per Affymetrics protocols.

data_processing:
Data was processed, normalized, and converted into log2 values in R 3.0.1 using the Affy library from Bioconductor.
The file complete_dataset.csv contains the expression information for 14,651 genes found in common across the different array platforms analyzed. Row names contain gene symbols.

label: biotin

source_name: Human placenta from PE-PreT-AGA pregnancy

label_protocol: Biotinylated cDNA was prepared by the Princess Margaret Genomics Centre (Toronto, Canada) as per Affymetrics protocols.

extract_protocol: To control for batch affect, samples were randomized into groups of 20 for processing. A 100 mg aliquot was used to prepare an mRNA extract using Trizol followed by RNAeasy spin columns. RNA purity and integrity were determined using 28S to 18S rRNA ratio (Agilent Bioanalyzer).

treatment_protocol: Four tissue biopsies (one sample/quadrant, excluding the chorionic plate) are collected per placenta, rinsed in PBS to remove contaminating maternal blood, pooled, crushed into a powder, and snap-frozen in liquid nitrogen.

tag: diagnosis

value: PE

value: Placenta

tag: maternal age

tag: maternal bmi

tag: maternal ethnicity

value: Caucasian

tag: maternal blood type

value: A

tag: previous nulliparity

value: Yes

tag: previous miscarriage

value: No

tag: previous hypertensive pregnancy

tag: mean uterine pi

tag: mean umbilical pi

tag: maximum systolic bp

tag: maximum diastolic bp

tag: mode proteinuria

tag: hellp diagnosis

tag: iugr diagnosis

tag: attempted vaginal delivery

tag: mode of delivery

value: C-Section

tag: ga (week)

tag: ga (day)

tag: infant gender

value: M

tag: newborn weight z-score

tag: apgar score (1 min)

tag: apgar score (5 min)

tag: nicu transfer

tag: placental weight z-score

tag: umbilical cord diameter

tag: chorioamnionitis diagnosis


title: CY478 1

description: PAXGene NHP aRNA, 8ug, Epicenter amplified, Cy5 lab, spiked dop control

scan_protocol: Scan Power : 100 PMT Volts : 580 Pixel Size : 10 Laser on time : 192215 Laser Power : 3.10 Scan Date : 2012-11-02 Scan Temperature : 32.92 Scan Time : 15:28:25 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

tag: reference sample name

treatment_protocol:
Vaccine Route : SC
Treatment : Vaccine
Treatment group : 4
Vaccine Dose : Double
Day : 1

tag: test sample name

tag: time point (days)


title: CY477 3

description: CY477 3

scan_protocol: Scan Power : 100 PMT Volts : 527 Pixel Size : 10 Laser on time : 194398 Laser Power : 3.08 Scan Date : 2012-11-09 Scan Temperature : 31.36 Scan Time : 14:05:29 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 480, 4920


title: CY478 7

description: CY478 7

scan_protocol: Scan Power : 100 PMT Volts : 598 Pixel Size : 10 Laser on time : 192547 Laser Power : 3.08 Scan Date : 2012-11-03 Scan Temperature : 32.16 Scan Time : 19:04:59 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : SC
Treatment : Vaccine
Treatment group : 4
Vaccine Dose : Double
Day : 7


title: CY477 1

description: CY477 1

scan_protocol: Scan Power : 100 PMT Volts : 726 Pixel Size : 10 Laser on time : 194383 Laser Power : 3.10 Scan Date : 2012-11-09 Scan Temperature : 31.09 Scan Time : 13:50:30 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 480, 5310


title: CY0493 d-11

description: CY0493 d-11 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 493 Pixel Size : 10 Laser on time : 201511 Laser Power : 3.51 Scan Date : 2013-03-23 Scan Temperature : 32.92 Scan Time : 11:18:03 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY477 D-2

description: CY477 D-2

scan_protocol: Scan Power : 100 PMT Volts : 531 Pixel Size : 10 Laser on time : 194349 Laser Power : 3.07 Scan Date : 2012-11-09 Scan Temperature : 30.29 Scan Time : 13:15:46 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 480, 4440


title: CY478 -11

description: CY478 -11

scan_protocol: Scan Power : 100 PMT Volts : 567 Pixel Size : 10 Laser on time : 192145 Laser Power : 3.10 Scan Date : 2012-11-02 Scan Temperature : 32.43 Scan Time : 14:19:54 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : SC
Treatment : Vaccine
Treatment group : 4
Vaccine Dose : Double
Day : -11


title: CY476 d1

description: CY476 d1 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 449 Pixel Size : 10 Laser on time : 202734 Laser Power : 3.57 Scan Date : 2013-03-26 Scan Temperature : 33.47 Scan Time : 16:38:35 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

source_name: CY476 d1 pax RNA 31713


title: PE-Term-AGA, rep13

description:
SAMPLE_9945
Placenta sample purchased from the Research Centre for Women’s and Infants’ Health (RCWIH) BioBank (Toronto, Canada), which utilizes a systematic sampling procedure in which four tissue biopsies (one sample/quadrant) are collected and pooled per placenta. At the time of sample collection and purchase, PE was defined as the onset of systolic pressure ≥ 140 mmHg and/or diastolic pressure ≥ 90 mmHg after the 20th week of gestation, accompanied by proteinuria (greater than 300 mg protein/day, or greater ≥ 2+ by dipstick). CH: chronic maternal hypertension; systolic pressure ≥ 140 mmHg and/or sustained diastolic ≥ 90 mmHg before the 20th week of gestation. Preterm: delivery prior to 34 weeks gestation. SGA: small-for-gestational-age infant; neonatal birth weight < 10th percentile for gestational age and sex. AGA: average-for-gestational age infant.

source_name: Human placenta from PE-Term-AGA pregnancy

tag: diagnosis

tag: tissue

tag: maternal age

tag: maternal bmi

tag: maternal ethnicity

tag: maternal blood type

value: O

tag: previous nulliparity

tag: previous miscarriage

tag: previous hypertensive pregnancy

tag: mean uterine pi

tag: mean umbilical pi

tag: maximum systolic bp

tag: maximum diastolic bp

tag: mode proteinuria

tag: hellp diagnosis

value: Vaginal


title: CY475 D5

description: CY475 D5

scan_protocol: Scan Power : 100 PMT Volts : 510 Pixel Size : 10 Laser on time : 189612 Laser Power : 3.08 Scan Date : 2012-09-21 Scan Temperature : 33.86 Scan Time : 18:32:50 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 520, 3400

tag: reference sample name

tag: test sample name


title: CY476 d-2

description: CY476 d-2 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 476 Pixel Size : 10 Laser on time : 202718 Laser Power : 3.57 Scan Date : 2013-03-26 Scan Temperature : 33.04 Scan Time : 16:22:37 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

tag: time point (days)


title: CY476 d5

description: CY476 d5 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 462 Pixel Size : 10 Laser on time : 202766 Laser Power : 3.59 Scan Date : 2013-03-26 Scan Temperature : 34.23 Scan Time : 17:11:17 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

source_name: CY476 d5 pax RNA 31713


title: CY476 d3

description: CY476 d3 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 473 Pixel Size : 10 Laser on time : 202750 Laser Power : 3.57 Scan Date : 2013-03-26 Scan Temperature : 33.90 Scan Time : 16:55:38 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

source_name: CY476 d3 pax RNA 31713


title: CY477 D-11

description: CY477 D-11

scan_protocol: Scan Power : 100 PMT Volts : 528 Pixel Size : 10 Laser on time : 194329 Laser Power : 3.06 Scan Date : 2012-11-09 Scan Temperature : 29.84 Scan Time : 12:56:02 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY476 d7

description: CY476 d7 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 469 Pixel Size : 10 Laser on time : 202782 Laser Power : 3.59 Scan Date : 2013-03-26 Scan Temperature : 34.51 Scan Time : 17:26:44 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

source_name: CY476 d7 pax RNA 31713


title: CY476 d-11

description: CY476 d-11 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 462 Pixel Size : 10 Laser on time : 202701 Laser Power : 3.62 Scan Date : 2013-03-26 Scan Temperature : 32.64 Scan Time : 16:06:09 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY475 D3

description: CY475 D3

scan_protocol: Scan Power : 100 PMT Volts : 519 Pixel Size : 10 Laser on time : 189543 Laser Power : 3.10 Scan Date : 2012-09-21 Scan Temperature : 33.65 Scan Time : 17:23:59 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY475 D1

description: CY475 D1

scan_protocol: Scan Power : 100 PMT Volts : 523 Pixel Size : 10 Laser on time : 189527 Laser Power : 3.10 Scan Date : 2012-09-21 Scan Temperature : 33.71 Scan Time : 17:08:33 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY477 D7

description: CY477 D7

scan_protocol: Scan Power : 100 PMT Volts : 550 Pixel Size : 10 Laser on time : 192923 Laser Power : 3.08 Scan Date : 2012-11-04 Scan Temperature : 30.39 Scan Time : 19:04:24 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 640, 4520


title: CY474 D7

description: CY474 D7

scan_protocol: Scan Power : 100 PMT Volts : 512 Pixel Size : 10 Laser on time : 189596 Laser Power : 3.09 Scan Date : 2012-09-21 Scan Temperature : 33.80 Scan Time : 18:17:35 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: PE-PreT-AGA, rep17

description:
SAMPLE_8802
Placenta sample purchased from the Research Centre for Women’s and Infants’ Health (RCWIH) BioBank (Toronto, Canada), which utilizes a systematic sampling procedure in which four tissue biopsies (one sample/quadrant) are collected and pooled per placenta. At the time of sample collection and purchase, PE was defined as the onset of systolic pressure ≥ 140 mmHg and/or diastolic pressure ≥ 90 mmHg after the 20th week of gestation, accompanied by proteinuria (greater than 300 mg protein/day, or greater ≥ 2+ by dipstick). CH: chronic maternal hypertension; systolic pressure ≥ 140 mmHg and/or sustained diastolic ≥ 90 mmHg before the 20th week of gestation. Preterm: delivery prior to 34 weeks gestation. SGA: small-for-gestational-age infant; neonatal birth weight < 10th percentile for gestational age and sex. AGA: average-for-gestational age infant.

scan_protocol: Scanning was performed by the Princess Margaret Genomics Centre (Toronto, Canada) as per Affymetrics protocols.

tag: diagnosis

tag: tissue

value: Black

tag: iugr diagnosis

tag: attempted vaginal delivery

tag: mode of delivery

tag: ga (week)

tag: ga (day)

tag: infant gender

value: F

tag: newborn weight z-score

tag: apgar score (1 min)

tag: apgar score (5 min)

tag: nicu transfer

tag: placental weight z-score

tag: umbilical cord diameter

tag: chorioamnionitis diagnosis


title: PE-PreT-CH, rep12

description:
SAMPLE_8971
Placenta sample purchased from the Research Centre for Women’s and Infants’ Health (RCWIH) BioBank (Toronto, Canada), which utilizes a systematic sampling procedure in which four tissue biopsies (one sample/quadrant) are collected and pooled per placenta. At the time of sample collection and purchase, PE was defined as the onset of systolic pressure ≥ 140 mmHg and/or diastolic pressure ≥ 90 mmHg after the 20th week of gestation, accompanied by proteinuria (greater than 300 mg protein/day, or greater ≥ 2+ by dipstick). CH: chronic maternal hypertension; systolic pressure ≥ 140 mmHg and/or sustained diastolic ≥ 90 mmHg before the 20th week of gestation. Preterm: delivery prior to 34 weeks gestation. SGA: small-for-gestational-age infant; neonatal birth weight < 10th percentile for gestational age and sex. AGA: average-for-gestational age infant.

source_name: Human placenta from PE-PreT-CH pregnancy

tag: maternal age

tag: maternal bmi

tag: maternal ethnicity

tag: maternal blood type

value: B

tag: previous nulliparity

tag: previous miscarriage

tag: previous hypertensive pregnancy

tag: mean uterine pi

tag: mean umbilical pi

tag: maximum systolic bp

tag: maximum diastolic bp

tag: mode proteinuria

tag: hellp diagnosis


title: CY473 D7

description: CY473 D7

scan_protocol: Scan Power : 100 PMT Volts : 507 Pixel Size : 10 Laser on time : 189349 Laser Power : 3.10 Scan Date : 2012-09-21 Scan Temperature : 32.61 Scan Time : 14:10:24 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 640, 4800

tag: reference sample name

tag: test sample name

tag: time point (days)


title: CY474 D3

description: CY474 D3

scan_protocol: Scan Power : 100 PMT Volts : 509 Pixel Size : 10 Laser on time : 189420 Laser Power : 3.11 Scan Date : 2012-09-21 Scan Temperature : 33.25 Scan Time : 15:20:12 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY475 D-2

description: CY475 D-2

scan_protocol: Scan Power : 100 PMT Volts : 518 Pixel Size : 10 Laser on time : 189487 Laser Power : 3.09 Scan Date : 2012-09-21 Scan Temperature : 33.68 Scan Time : 16:27:47 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY474 D5

description: CY474 D5

scan_protocol: Scan Power : 100 PMT Volts : 498 Pixel Size : 10 Laser on time : 189580 Laser Power : 3.10 Scan Date : 2012-09-21 Scan Temperature : 33.77 Scan Time : 18:02:13 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY474 D1

description: CY474 D1

scan_protocol: Scan Power : 100 PMT Volts : 500 Pixel Size : 10 Laser on time : 189404 Laser Power : 3.10 Scan Date : 2012-09-21 Scan Temperature : 33.13 Scan Time : 15:05:03 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: PE-Term-AGA, rep11

description:
SAMPLE_8095
Placenta sample purchased from the Research Centre for Women’s and Infants’ Health (RCWIH) BioBank (Toronto, Canada), which utilizes a systematic sampling procedure in which four tissue biopsies (one sample/quadrant) are collected and pooled per placenta. At the time of sample collection and purchase, PE was defined as the onset of systolic pressure ≥ 140 mmHg and/or diastolic pressure ≥ 90 mmHg after the 20th week of gestation, accompanied by proteinuria (greater than 300 mg protein/day, or greater ≥ 2+ by dipstick). CH: chronic maternal hypertension; systolic pressure ≥ 140 mmHg and/or sustained diastolic ≥ 90 mmHg before the 20th week of gestation. Preterm: delivery prior to 34 weeks gestation. SGA: small-for-gestational-age infant; neonatal birth weight < 10th percentile for gestational age and sex. AGA: average-for-gestational age infant.

tag: diagnosis

tag: tissue

value: AB

tag: iugr diagnosis

tag: attempted vaginal delivery

tag: mode of delivery

tag: ga (week)

tag: ga (day)

tag: infant gender

tag: newborn weight z-score

tag: apgar score (1 min)

tag: apgar score (5 min)

tag: nicu transfer

tag: placental weight z-score

tag: umbilical cord diameter

tag: chorioamnionitis diagnosis


title: CY473 D1

description: CY473 D1

scan_protocol: Scan Power : 100 PMT Volts : 517 Pixel Size : 10 Laser on time : 189290 Laser Power : 3.07 Scan Date : 2012-09-21 Scan Temperature : 31.55 Scan Time : 13:11:28 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

tag: reference sample name

value: Human Universal Reference RNA (Stratagene)

tag: test sample name


title: PE-Term-AGA, rep12

description:
SAMPLE_8790
Placenta sample purchased from the Research Centre for Women’s and Infants’ Health (RCWIH) BioBank (Toronto, Canada), which utilizes a systematic sampling procedure in which four tissue biopsies (one sample/quadrant) are collected and pooled per placenta. At the time of sample collection and purchase, PE was defined as the onset of systolic pressure ≥ 140 mmHg and/or diastolic pressure ≥ 90 mmHg after the 20th week of gestation, accompanied by proteinuria (greater than 300 mg protein/day, or greater ≥ 2+ by dipstick). CH: chronic maternal hypertension; systolic pressure ≥ 140 mmHg and/or sustained diastolic ≥ 90 mmHg before the 20th week of gestation. Preterm: delivery prior to 34 weeks gestation. SGA: small-for-gestational-age infant; neonatal birth weight < 10th percentile for gestational age and sex. AGA: average-for-gestational age infant.

tag: diagnosis

tag: maternal age

tag: maternal bmi

tag: maternal ethnicity

value: East Indian

tag: maternal blood type

tag: previous nulliparity

tag: previous miscarriage

tag: previous hypertensive pregnancy

tag: mean uterine pi

tag: mean umbilical pi

tag: maximum systolic bp

tag: maximum diastolic bp

tag: mode proteinuria

tag: hellp diagnosis


title: PE-PreT-AGA, rep16

description:
SAMPLE_8158
Placenta sample purchased from the Research Centre for Women’s and Infants’ Health (RCWIH) BioBank (Toronto, Canada), which utilizes a systematic sampling procedure in which four tissue biopsies (one sample/quadrant) are collected and pooled per placenta. At the time of sample collection and purchase, PE was defined as the onset of systolic pressure ≥ 140 mmHg and/or diastolic pressure ≥ 90 mmHg after the 20th week of gestation, accompanied by proteinuria (greater than 300 mg protein/day, or greater ≥ 2+ by dipstick). CH: chronic maternal hypertension; systolic pressure ≥ 140 mmHg and/or sustained diastolic ≥ 90 mmHg before the 20th week of gestation. Preterm: delivery prior to 34 weeks gestation. SGA: small-for-gestational-age infant; neonatal birth weight < 10th percentile for gestational age and sex. AGA: average-for-gestational age infant.

tag: tissue

tag: iugr diagnosis

tag: attempted vaginal delivery

tag: mode of delivery

tag: ga (week)

tag: ga (day)

tag: infant gender

tag: newborn weight z-score

tag: apgar score (1 min)

tag: apgar score (5 min)

tag: nicu transfer

tag: placental weight z-score

tag: umbilical cord diameter

tag: chorioamnionitis diagnosis


title: CY474 D-11

description: CY474 D-11

scan_protocol: Scan Power : 100 PMT Volts : 517 Pixel Size : 10 Laser on time : 189371 Laser Power : 3.10 Scan Date : 2012-09-21 Scan Temperature : 32.83 Scan Time : 14:31:39 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

tag: reference sample name

tag: test sample name

tag: time point (days)


title: CY474 D-2

description: CY474 D-2

scan_protocol: Scan Power : 100 PMT Volts : 515 Pixel Size : 10 Laser on time : 189387 Laser Power : 3.10 Scan Date : 2012-09-21 Scan Temperature : 33.01 Scan Time : 14:47:55 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY473 D3

description: CY473 D3

scan_protocol: Scan Power : 100 PMT Volts : 503 Pixel Size : 10 Laser on time : 189309 Laser Power : 3.07 Scan Date : 2012-09-21 Scan Temperature : 31.97 Scan Time : 13:30:30 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY475 D-11

description: CY475 D-11

scan_protocol: Scan Power : 100 PMT Volts : 509 Pixel Size : 10 Laser on time : 189467 Laser Power : 3.10 Scan Date : 2012-09-21 Scan Temperature : 33.56 Scan Time : 16:07:17 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY473 D-11

description: CY473 D-11

scan_protocol: Scan Power : 100 PMT Volts : 512 Pixel Size : 10 Laser on time : 189258 Laser Power : 3.06 Scan Date : 2012-09-21 Scan Temperature : 30.72 Scan Time : 12:38:09 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0487 d7

description: CY0487 d7 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 475 Pixel Size : 10 Laser on time : 200294 Laser Power : 3.57 Scan Date : 2013-03-21 Scan Temperature : 36.06 Scan Time : 18:06:17 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 520, 4000

treatment_protocol:
Vaccine Route : ID
Treatment : Vaccine
Treatment group : 3
Vaccine Dose : Single
Day : 7


title: CY473 D-2

description: CY473 D-2

scan_protocol: Scan Power : 100 PMT Volts : 517 Pixel Size : 10 Laser on time : 189275 Laser Power : 3.09 Scan Date : 2012-09-21 Scan Temperature : 31.15 Scan Time : 12:55:34 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY475 D7

description: CY475 D7

scan_protocol: Scan Power : 100 PMT Volts : 516 Pixel Size : 10 Laser on time : 189564 Laser Power : 3.10 Scan Date : 2012-09-21 Scan Temperature : 33.74 Scan Time : 17:45:30 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0487 d1

description: CY0487 d1 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 483 Pixel Size : 10 Laser on time : 200260 Laser Power : 3.58 Scan Date : 2013-03-21 Scan Temperature : 35.97 Scan Time : 17:32:14 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : ID
Treatment : Vaccine
Treatment group : 3
Vaccine Dose : Single
Day : 1


title: CY473 D5

description: CY473 D5

scan_protocol: Scan Power : 100 PMT Volts : 500 Pixel Size : 10 Laser on time : 189326 Laser Power : 3.10 Scan Date : 2012-09-21 Scan Temperature : 32.28 Scan Time : 13:46:38 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0487 d3

description: CY0487 d3 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 478 Pixel Size : 10 Laser on time : 200221 Laser Power : 3.59 Scan Date : 2013-03-21 Scan Temperature : 35.79 Scan Time : 16:53:04 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : ID
Treatment : Vaccine
Treatment group : 3
Vaccine Dose : Single
Day : 3


title: CY0487 d5

description: CY0487 d5 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 476 Pixel Size : 10 Laser on time : 200276 Laser Power : 3.58 Scan Date : 2013-03-21 Scan Temperature : 36.00 Scan Time : 17:48:25 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : ID
Treatment : Vaccine
Treatment group : 3
Vaccine Dose : Single
Day : 5


title: CY0487 d-11

description: CY0487 d-11 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 488 Pixel Size : 10 Laser on time : 200206 Laser Power : 3.59 Scan Date : 2013-03-21 Scan Temperature : 35.73 Scan Time : 16:36:59 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : ID
Treatment : Vaccine
Treatment group : 3
Vaccine Dose : Single
Day : -11


title: CY0487 d-2

description: CY0487 d-2 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 485 Pixel Size : 10 Laser on time : 200240 Laser Power : 3.59 Scan Date : 2013-03-21 Scan Temperature : 35.88 Scan Time : 17:12:17 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

treatment_protocol:
Vaccine Route : ID
Treatment : Vaccine
Treatment group : 3
Vaccine Dose : Single
Day : -2


title: Cont-preT-AGA, rep25

description:
SAMPLE_7799
Placenta sample purchased from the Research Centre for Women’s and Infants’ Health (RCWIH) BioBank (Toronto, Canada), which utilizes a systematic sampling procedure in which four tissue biopsies (one sample/quadrant) are collected and pooled per placenta. At the time of sample collection and purchase, PE was defined as the onset of systolic pressure ≥ 140 mmHg and/or diastolic pressure ≥ 90 mmHg after the 20th week of gestation, accompanied by proteinuria (greater than 300 mg protein/day, or greater ≥ 2+ by dipstick). CH: chronic maternal hypertension; systolic pressure ≥ 140 mmHg and/or sustained diastolic ≥ 90 mmHg before the 20th week of gestation. Preterm: delivery prior to 34 weeks gestation. SGA: small-for-gestational-age infant; neonatal birth weight < 10th percentile for gestational age and sex. AGA: average-for-gestational age infant.

scan_protocol: Scanning was performed by the Princess Margaret Genomics Centre (Toronto, Canada) as per Affymetrics protocols.

source_name: Human placenta from Cont-preT-AGA pregnancy

tag: diagnosis

value: non-PE

tag: tissue

tag: maternal age

tag: maternal bmi

tag: maternal ethnicity

tag: maternal blood type

tag: previous nulliparity

tag: previous miscarriage

tag: previous hypertensive pregnancy

tag: mean uterine pi

tag: mean umbilical pi

tag: maximum systolic bp

tag: maximum diastolic bp

tag: mode proteinuria

tag: hellp diagnosis


title: CY486 D-2

description: PAXGene NHP aRNA, 8ug, Epicenter amplified, Cy5 labeled, spiked 20ng doping control

scan_protocol: Scan Power : 100 PMT Volts : 530 Pixel Size : 10 Laser on time : 184424 Laser Power : 3.07 Scan Date : 2012-07-12 Scan Temperature : 31.67 Scan Time : 13:07:35 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 560, 5480

tag: reference sample name

tag: test sample name


title: PE-PreT-AGA, rep13

description:
SAMPLE_7934
Placenta sample purchased from the Research Centre for Women’s and Infants’ Health (RCWIH) BioBank (Toronto, Canada), which utilizes a systematic sampling procedure in which four tissue biopsies (one sample/quadrant) are collected and pooled per placenta. At the time of sample collection and purchase, PE was defined as the onset of systolic pressure ≥ 140 mmHg and/or diastolic pressure ≥ 90 mmHg after the 20th week of gestation, accompanied by proteinuria (greater than 300 mg protein/day, or greater ≥ 2+ by dipstick). CH: chronic maternal hypertension; systolic pressure ≥ 140 mmHg and/or sustained diastolic ≥ 90 mmHg before the 20th week of gestation. Preterm: delivery prior to 34 weeks gestation. SGA: small-for-gestational-age infant; neonatal birth weight < 10th percentile for gestational age and sex. AGA: average-for-gestational age infant.

tag: diagnosis

value: PE

value: Asian

tag: iugr diagnosis

tag: attempted vaginal delivery

tag: mode of delivery

tag: ga (week)

tag: ga (day)

tag: infant gender

tag: newborn weight z-score

tag: apgar score (1 min)

tag: apgar score (5 min)

tag: nicu transfer

tag: placental weight z-score

tag: umbilical cord diameter

tag: chorioamnionitis diagnosis


title: CY486 D1

scan_protocol: Scan Power : 100 PMT Volts : 531 Pixel Size : 10 Laser on time : 184439 Laser Power : 3.08 Scan Date : 2012-07-12 Scan Temperature : 32.03 Scan Time : 13:23:28 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

tag: time point (days)


title: Cont-preT-AGA, rep23

description:
SAMPLE_7637
Placenta sample purchased from the Research Centre for Women’s and Infants’ Health (RCWIH) BioBank (Toronto, Canada), which utilizes a systematic sampling procedure in which four tissue biopsies (one sample/quadrant) are collected and pooled per placenta. At the time of sample collection and purchase, PE was defined as the onset of systolic pressure ≥ 140 mmHg and/or diastolic pressure ≥ 90 mmHg after the 20th week of gestation, accompanied by proteinuria (greater than 300 mg protein/day, or greater ≥ 2+ by dipstick). CH: chronic maternal hypertension; systolic pressure ≥ 140 mmHg and/or sustained diastolic ≥ 90 mmHg before the 20th week of gestation. Preterm: delivery prior to 34 weeks gestation. SGA: small-for-gestational-age infant; neonatal birth weight < 10th percentile for gestational age and sex. AGA: average-for-gestational age infant.

tag: tissue

value: Placenta

tag: maternal age

tag: maternal bmi

tag: maternal ethnicity

value: Caucasian

tag: maternal blood type

tag: previous nulliparity

tag: previous miscarriage

tag: previous hypertensive pregnancy

tag: mean uterine pi

tag: mean umbilical pi

tag: maximum systolic bp

tag: maximum diastolic bp

tag: mode proteinuria

tag: hellp diagnosis


title: CY0485 d7

description: CY0485 d7 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 476 Pixel Size : 10 Laser on time : 200169 Laser Power : 3.60 Scan Date : 2013-03-21 Scan Temperature : 35.67 Scan Time : 16:00:20 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

tag: reference sample name

tag: test sample name


title: CY0485 d5

description: CY0485 d5 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 483 Pixel Size : 10 Laser on time : 200144 Laser Power : 3.60 Scan Date : 2013-03-21 Scan Temperature : 35.45 Scan Time : 15:36:14 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

tag: time point (days)


title: PE-PreT-CH, rep10

description:
SAMPLE_7289
Placenta sample purchased from the Research Centre for Women’s and Infants’ Health (RCWIH) BioBank (Toronto, Canada), which utilizes a systematic sampling procedure in which four tissue biopsies (one sample/quadrant) are collected and pooled per placenta. At the time of sample collection and purchase, PE was defined as the onset of systolic pressure ≥ 140 mmHg and/or diastolic pressure ≥ 90 mmHg after the 20th week of gestation, accompanied by proteinuria (greater than 300 mg protein/day, or greater ≥ 2+ by dipstick). CH: chronic maternal hypertension; systolic pressure ≥ 140 mmHg and/or sustained diastolic ≥ 90 mmHg before the 20th week of gestation. Preterm: delivery prior to 34 weeks gestation. SGA: small-for-gestational-age infant; neonatal birth weight < 10th percentile for gestational age and sex. AGA: average-for-gestational age infant.

tag: diagnosis

tag: tissue

value: Yes

tag: iugr diagnosis

tag: attempted vaginal delivery

tag: mode of delivery

tag: ga (week)

tag: ga (day)

tag: infant gender

tag: newborn weight z-score

tag: apgar score (1 min)

tag: apgar score (5 min)

tag: nicu transfer

tag: placental weight z-score

tag: umbilical cord diameter

tag: chorioamnionitis diagnosis


title: CY0485 d3

description: CY0485 d3 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 477 Pixel Size : 10 Laser on time : 200127 Laser Power : 3.60 Scan Date : 2013-03-21 Scan Temperature : 35.33 Scan Time : 15:19:03 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

tag: reference sample name

tag: test sample name


title: CY0485 d-11

description: CY0485 d-11 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 478 Pixel Size : 10 Laser on time : 200062 Laser Power : 3.59 Scan Date : 2013-03-21 Scan Temperature : 34.75 Scan Time : 14:12:50 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

tag: time point (days)


title: PE-PreT-AGA, rep14

description:
SAMPLE_7949
Placenta sample purchased from the Research Centre for Women’s and Infants’ Health (RCWIH) BioBank (Toronto, Canada), which utilizes a systematic sampling procedure in which four tissue biopsies (one sample/quadrant) are collected and pooled per placenta. At the time of sample collection and purchase, PE was defined as the onset of systolic pressure ≥ 140 mmHg and/or diastolic pressure ≥ 90 mmHg after the 20th week of gestation, accompanied by proteinuria (greater than 300 mg protein/day, or greater ≥ 2+ by dipstick). CH: chronic maternal hypertension; systolic pressure ≥ 140 mmHg and/or sustained diastolic ≥ 90 mmHg before the 20th week of gestation. Preterm: delivery prior to 34 weeks gestation. SGA: small-for-gestational-age infant; neonatal birth weight < 10th percentile for gestational age and sex. AGA: average-for-gestational age infant.

tag: diagnosis

tag: tissue

tag: maternal age

tag: maternal bmi

tag: maternal ethnicity

tag: maternal blood type

value: A

tag: previous nulliparity

tag: previous miscarriage

value: No

tag: previous hypertensive pregnancy

tag: mean uterine pi

tag: mean umbilical pi

tag: maximum systolic bp

tag: maximum diastolic bp

tag: mode proteinuria

tag: hellp diagnosis


title: CY0485 d-2

description: CY0485 d-2 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 474 Pixel Size : 10 Laser on time : 200097 Laser Power : 3.59 Scan Date : 2013-03-21 Scan Temperature : 35.12 Scan Time : 14:48:51 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

tag: reference sample name

tag: test sample name


title: Cont-preT-AGA, rep22

description:
SAMPLE_7328
Placenta sample purchased from the Research Centre for Women’s and Infants’ Health (RCWIH) BioBank (Toronto, Canada), which utilizes a systematic sampling procedure in which four tissue biopsies (one sample/quadrant) are collected and pooled per placenta. At the time of sample collection and purchase, PE was defined as the onset of systolic pressure ≥ 140 mmHg and/or diastolic pressure ≥ 90 mmHg after the 20th week of gestation, accompanied by proteinuria (greater than 300 mg protein/day, or greater ≥ 2+ by dipstick). CH: chronic maternal hypertension; systolic pressure ≥ 140 mmHg and/or sustained diastolic ≥ 90 mmHg before the 20th week of gestation. Preterm: delivery prior to 34 weeks gestation. SGA: small-for-gestational-age infant; neonatal birth weight < 10th percentile for gestational age and sex. AGA: average-for-gestational age infant.

tag: diagnosis

tag: iugr diagnosis

tag: attempted vaginal delivery

tag: mode of delivery

tag: ga (week)

tag: ga (day)

tag: infant gender

value: M

tag: newborn weight z-score

tag: apgar score (1 min)

tag: apgar score (5 min)

tag: nicu transfer

tag: placental weight z-score

tag: umbilical cord diameter

tag: chorioamnionitis diagnosis


title: CY486 D-11b

scan_protocol: Scan Power : 100 PMT Volts : 505 Pixel Size : 10 Laser on time : 184692 Laser Power : 3.09 Scan Date : 2012-07-13 Scan Temperature : 32.22 Scan Time : 12:28:36 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 440, 4560

tag: time point (days)


title: CY0485 d1

description: CY0485 d1 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 492 Pixel Size : 10 Laser on time : 200113 Laser Power : 3.60 Scan Date : 2013-03-21 Scan Temperature : 35.21 Scan Time : 15:04:54 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

tag: reference sample name


title: CY0484 d7

description: CY0484 d7 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 473 Pixel Size : 10 Laser on time : 200027 Laser Power : 3.56 Scan Date : 2013-03-21 Scan Temperature : 34.29 Scan Time : 13:38:24 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

tag: test sample name


title: CY0484 d5

description: CY0484 d5 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 471 Pixel Size : 10 Laser on time : 200011 Laser Power : 3.58 Scan Date : 2013-03-21 Scan Temperature : 34.14 Scan Time : 13:22:57 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY486 D5

scan_protocol: Scan Power : 100 PMT Volts : 515 Pixel Size : 10 Laser on time : 184477 Laser Power : 3.10 Scan Date : 2012-07-12 Scan Temperature : 32.71 Scan Time : 14:01:17 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0484 d1

description: CY0484 d1 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 462 Pixel Size : 10 Laser on time : 199620 Laser Power : 3.66 Scan Date : 2013-03-20 Scan Temperature : 35.30 Scan Time : 18:31:48 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0484 d-11

description: CY0484 d-11 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 465 Pixel Size : 10 Laser on time : 199444 Laser Power : 3.62 Scan Date : 2013-03-20 Scan Temperature : 33.53 Scan Time : 15:36:01 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0484 d3

description: CY0484 d3 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 467 Pixel Size : 10 Laser on time : 199662 Laser Power : 3.66 Scan Date : 2013-03-20 Scan Temperature : 35.60 Scan Time : 19:13:41 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY486 D3

description: PAXGene NHP aRNA, 8ug, Epicenter amplified, Cy5 labeled, spiked 20ng doping control

scan_protocol: Scan Power : 100 PMT Volts : 521 Pixel Size : 10 Laser on time : 184459 Laser Power : 3.11 Scan Date : 2012-07-12 Scan Temperature : 32.43 Scan Time : 13:43:58 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY0484 d-2

description: CY0484 d-2 paxgene total RNA amplified with targetamp, vs amplified Stratagene UHR

scan_protocol: Scan Power : 100 PMT Volts : 469 Pixel Size : 10 Laser on time : 199529 Laser Power : 3.62 Scan Date : 2013-03-20 Scan Temperature : 35.18 Scan Time : 17:00:30 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: PE-PreT-AGA, rep11

description:
SAMPLE_7043
Placenta sample purchased from the Research Centre for Women’s and Infants’ Health (RCWIH) BioBank (Toronto, Canada), which utilizes a systematic sampling procedure in which four tissue biopsies (one sample/quadrant) are collected and pooled per placenta. At the time of sample collection and purchase, PE was defined as the onset of systolic pressure ≥ 140 mmHg and/or diastolic pressure ≥ 90 mmHg after the 20th week of gestation, accompanied by proteinuria (greater than 300 mg protein/day, or greater ≥ 2+ by dipstick). CH: chronic maternal hypertension; systolic pressure ≥ 140 mmHg and/or sustained diastolic ≥ 90 mmHg before the 20th week of gestation. Preterm: delivery prior to 34 weeks gestation. SGA: small-for-gestational-age infant; neonatal birth weight < 10th percentile for gestational age and sex. AGA: average-for-gestational age infant.

scan_protocol: Scanning was performed by the Princess Margaret Genomics Centre (Toronto, Canada) as per Affymetrics protocols.

tag: diagnosis

tag: tissue

tag: maternal age

tag: maternal bmi

tag: maternal ethnicity

tag: maternal blood type

tag: previous nulliparity

tag: previous miscarriage

tag: previous hypertensive pregnancy

tag: mean uterine pi

tag: mean umbilical pi

tag: maximum systolic bp

tag: maximum diastolic bp

tag: mode proteinuria

tag: hellp diagnosis

value: C-Section


title: CY483R D7

description: PAXGene NHP aRNA, 8ug, Epicenter amplified, Cy5 labeled, spiked with 20ng doping control labeled separately

scan_protocol: Scan Power : 100 PMT Volts : 560 Pixel Size : 10 Laser on time : 187751 Laser Power : 3.11 Scan Date : 2012-07-27 Scan Temperature : 32.55 Scan Time : 15:37:31 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 640, 6120

tag: reference sample name

tag: time point (days)


title: CY486 D7

scan_protocol: Scan Power : 100 PMT Volts : 516 Pixel Size : 10 Laser on time : 184494 Laser Power : 3.10 Scan Date : 2012-07-12 Scan Temperature : 32.98 Scan Time : 14:17:58 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

tag: test sample name


title: CY483R D1

scan_protocol: Scan Power : 100 PMT Volts : 548 Pixel Size : 10 Laser on time : 187655 Laser Power : 3.07 Scan Date : 2012-07-27 Scan Temperature : 31.79 Scan Time : 14:01:04 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: Cont-preT-AGA, rep21

description:
SAMPLE_6766
Placenta sample purchased from the Research Centre for Women’s and Infants’ Health (RCWIH) BioBank (Toronto, Canada), which utilizes a systematic sampling procedure in which four tissue biopsies (one sample/quadrant) are collected and pooled per placenta. At the time of sample collection and purchase, PE was defined as the onset of systolic pressure ≥ 140 mmHg and/or diastolic pressure ≥ 90 mmHg after the 20th week of gestation, accompanied by proteinuria (greater than 300 mg protein/day, or greater ≥ 2+ by dipstick). CH: chronic maternal hypertension; systolic pressure ≥ 140 mmHg and/or sustained diastolic ≥ 90 mmHg before the 20th week of gestation. Preterm: delivery prior to 34 weeks gestation. SGA: small-for-gestational-age infant; neonatal birth weight < 10th percentile for gestational age and sex. AGA: average-for-gestational age infant.

tag: diagnosis

tag: tissue

value: Other

tag: iugr diagnosis

tag: attempted vaginal delivery

tag: mode of delivery

tag: ga (week)

tag: ga (day)

tag: infant gender

tag: newborn weight z-score

tag: apgar score (1 min)

tag: apgar score (5 min)

tag: nicu transfer

tag: placental weight z-score

tag: umbilical cord diameter

tag: chorioamnionitis diagnosis


title: CY483R D5

scan_protocol: Scan Power : 100 PMT Volts : 548 Pixel Size : 10 Laser on time : 187712 Laser Power : 3.10 Scan Date : 2012-07-27 Scan Temperature : 32.31 Scan Time : 14:57:49 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

tag: reference sample name

tag: time point (days)


title: PE-PreT-AGA, rep15

description:
SAMPLE_8022
Placenta sample purchased from the Research Centre for Women’s and Infants’ Health (RCWIH) BioBank (Toronto, Canada), which utilizes a systematic sampling procedure in which four tissue biopsies (one sample/quadrant) are collected and pooled per placenta. At the time of sample collection and purchase, PE was defined as the onset of systolic pressure ≥ 140 mmHg and/or diastolic pressure ≥ 90 mmHg after the 20th week of gestation, accompanied by proteinuria (greater than 300 mg protein/day, or greater ≥ 2+ by dipstick). CH: chronic maternal hypertension; systolic pressure ≥ 140 mmHg and/or sustained diastolic ≥ 90 mmHg before the 20th week of gestation. Preterm: delivery prior to 34 weeks gestation. SGA: small-for-gestational-age infant; neonatal birth weight < 10th percentile for gestational age and sex. AGA: average-for-gestational age infant.

tag: diagnosis

tag: maternal age

tag: maternal bmi

tag: maternal ethnicity

tag: maternal blood type

tag: previous nulliparity

tag: previous miscarriage

tag: previous hypertensive pregnancy

tag: mean uterine pi

tag: mean umbilical pi

tag: maximum systolic bp

tag: maximum diastolic bp

tag: mode proteinuria

tag: hellp diagnosis


title: CY483R D-2

scan_protocol: Scan Power : 100 PMT Volts : 544 Pixel Size : 10 Laser on time : 187602 Laser Power : 3.10 Scan Date : 2012-07-27 Scan Temperature : 31.03 Scan Time : 13:07:37 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

tag: test sample name


title: Cont-preT-AGA, rep20

description:
SAMPLE_6666
Placenta sample purchased from the Research Centre for Women’s and Infants’ Health (RCWIH) BioBank (Toronto, Canada), which utilizes a systematic sampling procedure in which four tissue biopsies (one sample/quadrant) are collected and pooled per placenta. At the time of sample collection and purchase, PE was defined as the onset of systolic pressure ≥ 140 mmHg and/or diastolic pressure ≥ 90 mmHg after the 20th week of gestation, accompanied by proteinuria (greater than 300 mg protein/day, or greater ≥ 2+ by dipstick). CH: chronic maternal hypertension; systolic pressure ≥ 140 mmHg and/or sustained diastolic ≥ 90 mmHg before the 20th week of gestation. Preterm: delivery prior to 34 weeks gestation. SGA: small-for-gestational-age infant; neonatal birth weight < 10th percentile for gestational age and sex. AGA: average-for-gestational age infant.

tag: tissue

value: O

tag: iugr diagnosis

tag: attempted vaginal delivery

tag: mode of delivery

value: Vaginal

tag: ga (week)

tag: ga (day)

tag: infant gender

tag: newborn weight z-score

tag: apgar score (1 min)

tag: apgar score (5 min)

tag: nicu transfer

tag: placental weight z-score

tag: umbilical cord diameter

tag: chorioamnionitis diagnosis


title: CY482 D3

scan_protocol: Scan Power : 100 PMT Volts : 532 Pixel Size : 10 Laser on time : 183012 Laser Power : 3.10 Scan Date : 2012-07-08 Scan Temperature : 30.97 Scan Time : 17:02:42 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 920, 4390

tag: reference sample name

tag: time point (days)


title: normal ovarian surface epithelial cells (OSE19)

type: genomic

city: Omaha

first: Adam

middle: R.

last: Karpf

state: Nebraska

address: 985950 Nebraska Medical Center

department: Eppley Institute for Research in Cancer

institute: University of Nebraska Medical Center

description: Epithelial layer by mechanical scraping of resected ovaries

hyb_protocol: Bisulfite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450K Beadchip using standard Illumina protocol

scan_protocol: Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting

data_processing: Rnbeads Version 1.0.0

label: Cy5 and Cy3

molecule: genomic DNA

source_name: Fresh-frozen normal ovarian surface epithelial cells

label_protocol: Standard Illumina Protocol

extract_protocol: Isolated genomic DNA using the Puregene Tissue Kit (Qiagen), which includes RNAse treatment

tag: gender

value: Female

tag: patient age

tag: cell type

value: normal ovarian surface epithelial cells


title: normal ovarian surface epithelial cells (OSE22)


title: normal ovarian surface epithelial cells (OSE21)


title: CY482 D5

scan_protocol: Scan Power : 100 PMT Volts : 527 Pixel Size : 10 Laser on time : 183033 Laser Power : 3.09 Scan Date : 2012-07-08 Scan Temperature : 31.39 Scan Time : 17:23:44 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 520, 4330

value: Human Universal Reference RNA (Stratagene)

tag: test sample name


title: CY483R D-11

scan_protocol: Scan Power : 100 PMT Volts : 537 Pixel Size : 10 Laser on time : 187583 Laser Power : 3.06 Scan Date : 2012-07-27 Scan Temperature : 30.72 Scan Time : 12:48:24 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: CY482 D1

scan_protocol: Scan Power : 100 PMT Volts : 514 Pixel Size : 10 Laser on time : 182731 Laser Power : 3.09 Scan Date : 2012-07-05 Scan Temperature : 31.42 Scan Time : 11:51:11 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0

data_processing:
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.0.51
Datafile type : GenePix Results 3
Image Origin : 920, 5400


title: Control109_0.8%Bu_1.5h_rep2

city: Wuxi

first: Ye

last: Ni

state: Jiangsu

address: 1800 Lihu Road

department: School of Biotechnology

institute: Jiangnan University

description: Gene expression after 1.5hr under 0.8% (v/v) butanol,

hyb_protocol: 1.5 ug of Cy3-labelled cRNA (specific activity >10.0 pmol Cy3/ug cRNA) was fragmented at 60°C for 30 minutes in a reaction volume of 250 ml containing 1x Agilent fragmentation buffer and 2x Agilent blocking agent following the manufacturers instructions. On completion of the fragmentation reaction, 250 ml of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to Agilent-020097 for 17 hours at 65°C in a rotating Agilent hybridization oven.  After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37°C GE Wash buffer 2 (Agilent), then dried immediately by brief centrifugation.

scan_protocol: Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2505B) using one color scan setting for 1x44k array slides (Scan Area 61x21.6 mm, Scan resolution 10um, Dye channel is set to Green and Green PMT is set to 100%).

data_processing: Data was extracted with Agilent Feature Extraction software 10.7 (Agilent) using default parameters (protocol GE1-v1_91) to obtain background subtracted and spatially detrended Processed Signal intensities. Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded.

organism: Escherichia coli

source_name: Control, 0.8%butanol,1.5h,replicate 2

label_protocol: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the One-Color Low RNA Input Linear Amplification PLUS kit (Agilent) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).  Dye incorporation and cRNA yield were checked with the NanoDrop ND-1000 Spectrophotometer.

growth_protocol: E. coli strains harboring σ70 mutant B8 and WT were cultured overnight and inoculated (1%) into fresh medium.

extract_protocol: Total RNA was extracted using Qiagen RNeasy kit (Hilden, Germany) following manufacturer’s instructions and checked for a RIN number to inspect RNA integration by an Agilent Bioanalyzer 2100 (Agilent technologies, Santa Clara, CA, US). Qualified total RNA was further purified by RNeasy mini kit (QIAGEN, GmBH, Germany) and RNase‐Free DNase Set (QIAGEN, GmBH, Germany).

treatment_protocol: n-Butanol (0.8%, v/v) was added at 0.8 OD660 and further incubated for 1.5 h.

tag: strain

tag: genotype/variation

value: Wild type strain

tag: phenotype

value: 0.6% n-butanol tolerance


title: normal ovarian surface epithelial cells (OSE11)


title: normal ovarian surface epithelial cells (OSE18)


title: CY482 D-11

scan_protocol: Scan Power : 100 PMT Volts : 517 Pixel Size : 10 Laser on time : 182518 Laser Power : 3.12 Scan Date : 2012-07-03 Scan Temperature : 33.13 Scan Time : 16:28:55 Scanner Make : Axon Instruments (V1.00) Scanner Model : GenePix 4000B [81971] Scanning software : AxImageIO Scanning software version : 2.0.3.2 Focus Position : 0


title: Control109_0.8%Bu_1.5h_rep1

source_name: Control, 0.8%butanol,1.5h,replicate 1