title: PEGforRace: genomic DNA from whole blood of subject Sample231

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample223

status: Public on Jul 13 2016

type: genomic

city: Los Angeles

first: Steve

last: Horvath

state: CA

address: 695 Charles E. Young Drive South, Box 708822

department: Human Genetics

country: USA

institute: University of California, Los Angeles

description: genomic DNA from Blood

hyb_protocol: bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450 Beadchip using standard Illumina protocol

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

data_processing:
BeadStudio software v3.2.
Unmethylated and methylated signal intensities and detection p values

label: Cy3 and Cy5

molecule: genomic DNA

organism: Homo sapiens

source_name: Whole Blood

label_protocol: Standard Illumina Protocol

extract_protocol: genomic DNA was extracted and purified from EDTA tubes using the RecoverEase DNA Isolation Kit.

tag: Sex

value: female

tag: age

tag: ethnicity

value: Caucasian

tag: dnamage

tag: plasmablast

tag: natural killer cell

tag: b cell

tag: monocyte

tag: granulocyte


title: PEGforRace: genomic DNA from whole blood of subject Sample221

description: genomic DNA from Blood

value: male


title: PEGforRace: genomic DNA from whole blood of subject Sample217

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample218

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample215

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample237

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample214

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample213

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample210

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample209

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample207

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample227

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample206

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample211

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample205

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample204

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample203

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample202

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample199

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample216

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample197

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample208

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample212

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample198

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample195

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample194

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample192

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample196

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample193

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample189

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample190

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample191

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample201

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample187

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample188

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample183

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample182

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample184

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample181

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample180

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample179

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample186

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample176

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample200

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample177

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample173

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample174

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample168

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample166

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample170

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample169

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample171

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample165

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample164

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample161

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample162

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample159

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample163

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample160

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample185

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample178

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample157

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample156

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample152

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample154

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample175

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample150

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample172

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample153

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample149

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample148

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample146

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample167

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample147

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample143

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample144

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample145

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample141

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample140

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample142

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample139

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample158

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample136

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample137

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample138

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample155

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample134

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample135

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample130

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample151

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample129

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample132

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample127

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample133

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample125

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample126

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample123

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample122

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample128

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample124

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample120

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample118

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample119

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample117

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample115

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample116

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample112

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample110

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample114

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample109

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample108

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample107

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample131

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample111

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample113

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample105

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample103

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample104

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample102

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample101

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample100

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample106

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample99

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample96

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample94

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample93

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample95

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample97

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample121

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample98

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample91

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample92

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample90

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample87

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample88

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample84

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample85

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample83

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample80

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample81

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample79

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample82

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample78

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample76

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample77

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample71

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample73

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample75

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample74

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample70

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample72

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample68

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample63

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample67

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample65

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample69

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample64

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample89

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample66

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample61

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample59

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample58

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample60

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample86

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample62

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample57

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample50

description: genomic DNA from Blood

value: Hispanic


title: PEGforRace: genomic DNA from whole blood of subject Sample55

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample54

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample53

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample56

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample52

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample48

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample49

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample47

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample45

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample43

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample42

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample46

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample44

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample41

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample40

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample36

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample38

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample34

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample35

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample39

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample37

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample32

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample29

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample30

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample33

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample31

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample28

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample51

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample27

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample26

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample22

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample23

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample18

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample24

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample25

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample19

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample16

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample21

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample15

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample20

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample17

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample14

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample13

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample10

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample12

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample11

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample9

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample5

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample3

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample4

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample1

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample8

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample2

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample7

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample309

description: genomic DNA from Blood

tag: ageaccelerationresidual

tag: ageaccelerationvscaucasianuniversal

tag: ieaa

tag: eeaa


title: OldTsimane: genomic DNA from whole blood of subject Sample310

description: genomic DNA from Blood

value: Tsimane


title: OldTsimane: genomic DNA from whole blood of subject Sample308

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample306

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample307

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample304

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample303

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample301

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample302

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample305

description: genomic DNA from Blood


title: human mucoepidermoid carcinoma cell line, NCI-H292

type: RNA

city: Tokushima

first: Yasusei

last: Kudo

address: 3-18-15 Kuramoto

department: Institute of Biomedical Sciences

country: Japan

institute: Tokushima University Graduate School

description: Gene expression data from NCI-H292 cells

hyb_protocol: Samples were hybridized using Affymetrix hybridization kit materials • Heat the hybridization cocktails at 99 °C for 5 minutes, then 45 °C for 5 minutes • Transfer 130 μl of cocktail to Human Gene 2.0ST Array (Affymetrix). • Hybridize 17 hours at 45° at 60 rpm.

scan_protocol: GeneChips were washed and stained immediately after completion of hybridization. Fluidics Script Protocol is FS450_0002. GeneChips were scanned using the Scanner 3000 7G (Affymetrix), and CEL files were generated.

data_processing: The scanned images were analyzed with GeneSpring GX 13.0 ( Agilent Technologies).

label: biotin

molecule: total RNA

label_protocol: cRNA was synthesized from 400 ng of total RNA using the WT Expression Kit (Ambion) according to the manufacturer’s instruction. By second cycle reactions, first strand cDNA was synthesized from 10 ug of cRNA. 5.5 ug of cDNA was fragmented and labeled using the WT Terminal Labeling Kit (Affymetrix, Santa Clara, CA). cRNA and cDNA yield were checked with the NanoDrop ND-1000 Spectrophotometer.

growth_protocol: Cells were cultured in Dulbecco's Modified Eagle Medium (DMEM, Sigma-Aldrich, St. Louis, MO USA) with 10% fetal bovine serum (FBS, Gibco BRL, Grand Island, NY) and 100 U/ml penicillin-streptomycin (Gibco BRL) under conditions of 5% CO2 in air at 37 ˚C.

extract_protocol: Total RNA from cells was isolated using an RNeasy Mini kit (Qiagen), according to the manufacturer’s instructions. RNA was quantified using a NanoDrop-1000 spectrophotometer and quality was monitored with the Agilent 2100 Bioanalyzer (G2938C, Agilent Technologies, Santa Clara, CA).

tag: cell line

tag: cell type

value: human mucoepidermoid carcinoma cell


title: OldTsimane: genomic DNA from whole blood of subject Sample299

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample300

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample298

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample296

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample293

description: genomic DNA from Blood


title: PEGforRace: genomic DNA from whole blood of subject Sample6

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample294

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample291

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample292

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample289

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample290

description: genomic DNA from Blood


title: human clear cell odontogenic carcinomal cell line, CCOC-T

description: Gene expression data from CCOC-T cells

source_name: CCOC-T cell

value: CCOC-T


title: OldTsimane: genomic DNA from whole blood of subject Sample288

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample285

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample286

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample287

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample284

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample282

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample283

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample281

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample280

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample276

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample274

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample273

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample277

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample279

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample275

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample278

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample271

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample297

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample272

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample267

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample268

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample265

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample295

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample269

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample262

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample263

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample259

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample260

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample257

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample255

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample253

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample250

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample252

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample270

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample249

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample246

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample244

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample245

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample243

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample247

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample242

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample240

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample266

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample241

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample264

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample239

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample238

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample236

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample261

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample258

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample237

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample256

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample235

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample233

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample232

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample254

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample231

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample248

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample228

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample227

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample229

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample225

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample224

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample223

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample222

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample220

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample226

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample219

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample217

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample216

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample214

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample215

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample212

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample218

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample209

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample208

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample213

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample234

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample205

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample211

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample204

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample230

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample221

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample201

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample202

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample203

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample199

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample198

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample197

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample210

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample193

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample206

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample192

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample187

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample207

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample186

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample195

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample194

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample190

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample183

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample184

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample181

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample188

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample180

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample191

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample196

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample179

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample189

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample182

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample185

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample178

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample200

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample177

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample174

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample176

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample172

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample175

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample173

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample171

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample170

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample166

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample165

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample169

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample163

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample160

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample159

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample168

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample156

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample162

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample158

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample167

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample161

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample154

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample157

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample153

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample155

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample152

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample150

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample149

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample148

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample144

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample145

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample142

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample164

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample141

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample140

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample139

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample133

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample130

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample136

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample135

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample138

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample128

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample134

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample131

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample127

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample126

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample125

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample129

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample124

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample151

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample147

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample123

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample146

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample121

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample143

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample122

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample120

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample118

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample117

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample137

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample132

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample115

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample113

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample111

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample110

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample114

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample108

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample109

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample107

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample112

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample119

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample105

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample106

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample101

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample103

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample104

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample100

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample99

description: genomic DNA from Blood


title: muscle, feed with glucosinolates, fish 14

city: Aas

first: Aleksei

last: Krasnov

address: Osloveien 1

department: Fish Health

country: Norway

institute: Nofima AS

hyb_protocol: Hybridized according to Agilent Two-Color Microarray-Based Gene Expression Analysis protocol for 4x44k microarrays

scan_protocol: Arrays were scanned with GenePix 4100A DNA microarray scanner at a resolution of 5 microns

data_processing: Images were processed using the standard procedures of the Agilent Feature Extraction (FE) Software version 9.5.1 and GenePix Pro 6.0. After removal of flagged spots lowess normalization was performed

organism: Salmo salar

source_name: muscle

label_protocol: Amplified and labeled according to Agilent Two-Color Quick Amp labelling kits (Agilent).

growth_protocol: Salmon (initial average weight (377 ± 16g) was kep in 500 L tanks with sea water

extract_protocol: RNA was isolated using TRIzol® (Invitrogen), and purified with Qiagen RNeasy mini kits

treatment_protocol: The fish were fed diets enriched in the plant derived phytochemical called Glucosinolates or standard control diet

tag: tissue

value: muscle

source_name: muscle, normalized mixture

tag: sample type

value: reference


title: OldTsimane: genomic DNA from whole blood of subject Sample116

description: genomic DNA from Blood

tag: Sex


title: OldTsimane: genomic DNA from whole blood of subject Sample102

description: genomic DNA from Blood

tag: age


title: muscle, control feed, fish 36


title: muscle, feed with glucosinolates, fish 9


title: muscle, control feed, fish 29


title: muscle, feed with glucosinolates, fish 12


title: muscle, control feed, fish 3


title: OldTsimane: genomic DNA from whole blood of subject Sample98

description: genomic DNA from Blood

tag: ethnicity


title: OldTsimane: genomic DNA from whole blood of subject Sample96

description: genomic DNA from Blood

tag: dnamage


title: muscle, feed with glucosinolates, fish 8


title: muscle, control feed, fish 31


title: OldTsimane: genomic DNA from whole blood of subject Sample95

description: genomic DNA from Blood

tag: plasmablast


title: muscle, feed with glucosinolates, fish 15


title: OldTsimane: genomic DNA from whole blood of subject Sample92

description: genomic DNA from Blood

tag: natural killer cell


title: OldTsimane: genomic DNA from whole blood of subject Sample90

description: genomic DNA from Blood

tag: b cell


title: OldTsimane: genomic DNA from whole blood of subject Sample89

description: genomic DNA from Blood

tag: monocyte


title: OldTsimane: genomic DNA from whole blood of subject Sample91

description: genomic DNA from Blood

tag: granulocyte


title: OldTsimane: genomic DNA from whole blood of subject Sample88

description: genomic DNA from Blood

tag: ageaccelerationresidual


title: muscle, control feed, fish 28


title: liver, feed with glucosinolates, fish 9

source_name: liver

value: liver

source_name: liver, normalized mixture


title: liver, feed with glucosinolates, fish 8


title: liver, feed with glucosinolates, fish 15


title: OldTsimane: genomic DNA from whole blood of subject Sample86

description: genomic DNA from Blood

tag: ageaccelerationvscaucasianuniversal


title: OldTsimane: genomic DNA from whole blood of subject Sample97

description: genomic DNA from Blood

tag: ieaa


title: OldTsimane: genomic DNA from whole blood of subject Sample85

description: genomic DNA from Blood

tag: eeaa


title: liver, feed with glucosinolates, fish 14


title: OldTsimane: genomic DNA from whole blood of subject Sample84

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample82

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample94

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample80

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample79

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample83

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample81

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample77

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample78

description: genomic DNA from Blood


title: liver, feed with glucosinolates, fish 12


title: OldTsimane: genomic DNA from whole blood of subject Sample76

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample74

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample75

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample87

description: genomic DNA from Blood


title: liver, control feed, fish 36


title: liver, control feed, fish 3


title: liver, control feed, fish 29


title: liver, control feed, fish 28


title: OldTsimane: genomic DNA from whole blood of subject Sample71

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample73

description: genomic DNA from Blood


title: liver, control feed, fish 31


title: OldTsimane: genomic DNA from whole blood of subject Sample70

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample69

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample68

description: genomic DNA from Blood


title: distal kidney, feed with glucosinolates, fish 9

source_name: distal kidney

value: distal kidney

source_name: distal kidney, normalized mixture


title: OldTsimane: genomic DNA from whole blood of subject Sample66

description: genomic DNA from Blood


title: distal kidney, feed with glucosinolates, fish 15


title: OldTsimane: genomic DNA from whole blood of subject Sample67

description: genomic DNA from Blood


title: distal kidney, feed with glucosinolates, fish 8


title: OldTsimane: genomic DNA from whole blood of subject Sample65

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample64

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample63

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample62

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample61

description: genomic DNA from Blood


title: distal kidney, feed with glucosinolates, fish 12


title: distal kidney, feed with glucosinolates, fish 14


title: OldTsimane: genomic DNA from whole blood of subject Sample60

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample72

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample58

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample59

description: genomic DNA from Blood


title: distal kidney, control feed, fish 36


title: distal kidney, control feed, fish 31


title: OldTsimane: genomic DNA from whole blood of subject Sample54

description: genomic DNA from Blood


title: distal kidney, control feed, fish 3


title: OldTsimane: genomic DNA from whole blood of subject Sample55

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample57

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample53

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample52

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample51

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample50

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample56

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample48

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample47

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample49

description: genomic DNA from Blood


title: distal kidney, control feed, fish 29


title: OldTsimane: genomic DNA from whole blood of subject Sample46

description: genomic DNA from Blood


title: distal kidney, control feed, fish 28


title: OldTsimane: genomic DNA from whole blood of subject Sample45

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample44

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample43

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample42

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample41

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample40

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample38

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample37

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample35

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample32

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample34

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample39

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample36

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample33

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample31

description: genomic DNA from Blood


title: LIER16_2

city: Carrington Crescent

first: Andrew

middle: H

last: Sims

state: Edinburgh

address: Systems Medicine Building

department: Institute of Genetics and Molecular Medicine

country: United Kingdom

institute: University of Edinburgh

hyb_protocol: Labelled samples were hybridised as per Affymetrix instructions.

scan_protocol: Affymetrix HGU133 plus 2 GeneChips were scanned following the manufacturers instructions

data_processing: Data was analysed using R and BioConductor packages; MAS 5.0 values as determined with the affy package

label: Biotin

source_name: Lymphocytes

label_protocol: Total RNA was labelled using the NuGEN method (http://www.nugen.com)

growth_protocol: Breast biopsies were performed under radiographic guidance with the breast immobilised under the compression device. After infiltration of 2% lidocaine a small incision was made in the skin at the biopsy site, through which a 14 gauge biopsy needle was inserted to a depth estimated by the operator. Between 7 and 9 biopsy samples were obtained through the same skin incision and the direction of the needle was similar for each sample. The first biopsies were taken from either the left or right breast side chosen by computer randomisation (independently) and repeat mirror image biopsies on the opposite side to eliminate potential gene expression changes related to the healing process. One  half of two separate breast cores was fixed in 4% formalin and embedded in paraffin blocks; the remaining tissue was immediately snap frozen in liquid nitrogen and stored at -80°C . Two mls of blood from an EDTA tube was carefully layered on top of 5mls of Lymphoprep (AxisShield Ltd) and spun at 800g for 20mins at 4C. The white ring of cells that contained the PMBC was then carefully removed from the middle of the tube using a Pasteur pipette. This was then diluted with 5mls of sterile PBS and spun once more at 1000g for 10mins. The supernatant was then removed and the pellet was lysed in 350ul RLT buffer from the RNAeasy plus extraction kit(Qiagen). The samples were then put through a Qiashredder column before proceeding to extract RNA using the above kit.

extract_protocol: RNA was extracted from breast tissue with Qiazol by grinding breast tissue to a fine powder under liquid nitrogen and then chloroform and RNeasy columns (Qiagen) as described previously [Ong KR et al 2009] and then amplified using the Nugen WT-Ovation™ Pico System RNA amplification kit (Nugen).

treatment_protocol: The IER intervention involved an overall 25% energy restriction below estimated requirements (calculated from estimated resting energy expenditure multiplied by a physical activity level of 1.4 and ranged from 5984 to 7560 kJ/d for the participants. The IER included two consecutive days of  a 65% energy restriction (~2700 kj and 50 g of protein per day) and a Mediterranean-type diet that met their estimated energy requirements for the remaining five days of the week (range ~7290 - 9497 kj/day). Each energy restricted day included four 80 g portions of vegetables and one 80 g portion of fruit, six portions of low fat dairy i.e. 2 pints of semi-skimmed milk or equivalent low fat yoghurt or cottage cheese. On the subsequent five days women were asked to consume a Mediterranean style diet which included 45% of energy from low glycaemic index carbohydrates, 30% from fat (15% monounsaturated fat 7% from saturated fat, 7% from polyunsaturated fat) and 25% energy as protein. Women commenced the diet within 2 days of their baseline assesment and followed the diet for one menstrual cycle (4-5 weeks). Timing of trial assessments was standardised to the day of menstrual cycle. Nineteen women started in the follicular phase of their cycle, and four in the early luteal phase. Diets were not provided to participants, but were self-selected using detailed individualized food portion lists, meal plans and recipes. Participants were asked to keep daily food diaries throughout the study period and were monitored weekly by the study dietitians to maximize compliance. Participants were asked to maintain their sedentary lifestyle.

value: blood

value: Lymphocytes

tag: participant number

tag: timepoint

value: after

tag: gender

value: Female


title: LIER22_2

tag: tissue

tag: cell type


title: LIER22_1

value: before


title: LIER20_2


title: LIER20_1


title: OldTsimane: genomic DNA from whole blood of subject Sample30

description: genomic DNA from Blood

tag: Sex

tag: age


title: OldTsimane: genomic DNA from whole blood of subject Sample29

description: genomic DNA from Blood

tag: ethnicity

tag: dnamage


title: LIER15_2


title: LIER16_1


title: OldTsimane: genomic DNA from whole blood of subject Sample28

description: genomic DNA from Blood

tag: plasmablast

tag: natural killer cell


title: OldTsimane: genomic DNA from whole blood of subject Sample27

description: genomic DNA from Blood

tag: b cell

tag: monocyte


title: OldTsimane: genomic DNA from whole blood of subject Sample26

description: genomic DNA from Blood

tag: ageaccelerationresidual

tag: granulocyte


title: LIER10_2


title: LIER4_2


title: LIER10_1


title: OldTsimane: genomic DNA from whole blood of subject Sample23

description: genomic DNA from Blood

tag: ageaccelerationvscaucasianuniversal

tag: ieaa


title: OldTsimane: genomic DNA from whole blood of subject Sample25

description: genomic DNA from Blood

tag: eeaa


title: OldTsimane: genomic DNA from whole blood of subject Sample24

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample22

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample20

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample21

description: genomic DNA from Blood


title: LIER3_2

tag: participant number

tag: timepoint


title: OldTsimane: genomic DNA from whole blood of subject Sample19

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample18

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample17

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample14

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample16

description: genomic DNA from Blood


title: LIER15_1

tag: tissue

tag: gender


title: OldTsimane: genomic DNA from whole blood of subject Sample15

description: genomic DNA from Blood

tag: Sex


title: LIER4_1

tag: cell type


title: LIER12_1


title: LIER3_1


title: OldTsimane: genomic DNA from whole blood of subject Sample11

description: genomic DNA from Blood

tag: age

tag: ethnicity


title: OldTsimane: genomic DNA from whole blood of subject Sample12

description: genomic DNA from Blood

tag: dnamage

tag: plasmablast


title: OldTsimane: genomic DNA from whole blood of subject Sample9

description: genomic DNA from Blood

tag: natural killer cell

tag: b cell


title: LIER7_1


title: LIER12_2


title: LIER7_2


title: OldTsimane: genomic DNA from whole blood of subject Sample10

description: genomic DNA from Blood

tag: ageaccelerationresidual

tag: monocyte


title: OldTsimane: genomic DNA from whole blood of subject Sample5

description: genomic DNA from Blood

tag: ageaccelerationvscaucasianuniversal

tag: granulocyte


title: LIER2_2


title: OldTsimane: genomic DNA from whole blood of subject Sample4

description: genomic DNA from Blood

tag: ieaa

tag: eeaa


title: OldTsimane: genomic DNA from whole blood of subject Sample3

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample13

description: genomic DNA from Blood


title: OldTsimane: genomic DNA from whole blood of subject Sample1

description: genomic DNA from Blood


title: LIER6_1

tag: participant number

tag: timepoint


title: LIER2_1

tag: tissue

tag: gender


title: OldTsimane: genomic DNA from whole blood of subject Sample7

description: genomic DNA from Blood

tag: Sex


title: LIER8_2

tag: cell type


title: OldTsimane: genomic DNA from whole blood of subject Sample6

description: genomic DNA from Blood

tag: age

tag: ethnicity


title: OldTsimane: genomic DNA from whole blood of subject Sample8

description: genomic DNA from Blood

tag: dnamage

tag: plasmablast


title: LIER6_2


title: LIER8_1


title: OldTsimane: genomic DNA from whole blood of subject Sample2

description: genomic DNA from Blood

tag: natural killer cell

tag: b cell


title: LIER21_2


title: LIER21_1


title: LIER18_1


title: LIER5_2


title: LIER5_1


title: LIER18_2


title: LIER9_2


title: LIER14_2


title: LIER9_1


title: BIER24_2

value: Breast


title: 7507875106_R02C02

city: Cincinnati

first: Scott

middle: M

last: Langevin

state: OH

address: 160 Panzeca Way, ML0056

department: Department of Environmental Health

institute: University of Cincinnati College of Medicine

description:
Packyrs: smoking pack-years = (average packs per day)*(total years of smoking)
Alcohol_consumption: Alcohol consumption in a typical week. 0 = non-drinker; 1 = >0 and < 14 drinks per day; 2 = > 14 drinks per week

hyb_protocol: bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium HumanMethylation450 Beadchip using standard Illumina protocol

data_processing: BeadStudio software v3.2

label: Cy5 and Cy3

source_name: genomic DNA from oral rinse

extract_protocol: genomic DNA was extracted DNeasy blood and tissue kit according to standard instructions

tag: site

value: Oral Rinse

tag: group

value: Control

tag: age at diagnosis (years)

value: female

tag: packyrs


title: 7507875107_R04C02


title: BIER24_1


title: LIER14_1


title: BIER7_1b


title: OldTsimane: genomic DNA from whole blood of subject Sample251

description: genomic DNA from Blood

value: male

value: Caucasian

tag: ageaccelerationresidual

tag: ageaccelerationvscaucasianuniversal

tag: ieaa

tag: eeaa

tag: monocyte

tag: granulocyte


title: BIER7_2b

tag: tissue

tag: participant number

tag: timepoint

tag: gender


title: 9422493067_R02C01

value: OPSCC Case

tag: Sex


title: 9422491028_R04C02


title: 9422493075_R04C01


title: 9422492148_R04C01


title: 9422493075_R01C02


title: 8942297070_R05C02


title: 9422493075_R03C01


title: 9422493008_R05C01


title: 9422491028_R01C02


title: 9422493067_R03C02


title: 7507875133_R05C01


title: 9422493041_R01C01


title: 9422493008_R06C01


title: 9422493042_R05C01


title: 9422493042_R05C02


title: 9422491125_R03C01


title: 8942297070_R01C02


title: 9422493008_R02C01


title: 9422491125_R03C02


title: 9422492148_R03C02


title: 8942297070_R04C02


title: 7507875107_R06C01


title: 9422491028_R05C02


title: BIER1_2


title: BIER20_2


title: BIER22_2


title: BIER1_1


title: 8942297070_R06C02


title: BIER16_2


title: OldTsimane: genomic DNA from whole blood of subject Sample93

description: genomic DNA from Blood

tag: age

tag: ethnicity

tag: dnamage

tag: plasmablast

tag: natural killer cell


title: BIER15_1


title: 8942297070_R06C01

tag: site

tag: group

tag: age at diagnosis (years)

tag: packyrs


title: BIER16_1


title: BIER20_1


title: BIER22_1


title: BIER15_2


title: 9422493041_R04C01


title: BIER10_1


title: 7507875123_R05C02


title: BIER10_2


title: BIER4_2


title: 9422491125_R02C01


title: 8942297070_R03C02


title: 9422492148_R06C01


title: 9422493075_R05C01


title: BIER3_2


title: BIER4_1


title: 9422492148_R05C02


title: 8942297070_R02C02


title: 7507875086_R03C02


title: 8942297118_R05C02


title: 9422493042_R02C02


title: 9422493067_R06C02


title: BIER3_1


title: 7507875123_R02C01


title: 8942297070_R02C01


title: 8942297118_R06C02


title: 9422491125_R06C02


title: 9422491028_R03C01


title: BIER21_2


title: 9422491028_R01C01


title: 9422493042_R04C01


title: 9422493075_R06C01


title: 7507875106_R02C01


title: 8942297118_R04C02


title: 9422493008_R06C02


title: 9422491125_R04C02


title: BIER12_1


title: BIER21_1


title: 9422493041_R03C01


title: 9422493041_R03C02


title: BIER12_2


title: 9422493067_R02C02


title: 9422493067_R01C01


title: BIER7_2a


title: 7507875107_R06C02


title: 7507875123_R02C02


title: BIER7_1a


title: 8942297070_R05C01


title: 7507875133_R02C01


title: BIER6_1


title: 9422493075_R02C02


title: 9422493075_R02C01


title: BIER2_1


title: BIER2_2


title: 7507875133_R05C02


title: BIER6_2


title: BIER18_2


title: BIER18_1


title: 7507875123_R04C02


title: BIER14_1


title: 7507875122_R04C01


title: 7507875086_R01C01


title: 7507875086_R05C01


title: 7507875115_R03C01


title: 8942297070_R01C01


title: 7507875107_R02C01


title: 7507875115_R04C01


title: 7507875133_R04C02


title: BIER9_2


title: 7507875123_R06C02


title: BIER9_1


title: 7507875073_R05C01


title: 7507875115_R01C02


title: 7507875133_R01C01


title: 9422491125_R01C02


title: 8942297118_R02C02


title: BIER8_2


title: 7507875106_R04C01


title: 7507875115_R04C02


title: BIER8_1


title: 7507875086_R04C02


title: 7507875115_R05C02


title: 8942297118_R03C02


title: 7507875122_R04C02


title: BIER14_2


title: 7507875073_R04C01


title: BIER5_2


title: 7507875115_R06C02


title: BIER5_1


title: AC8232_2

label_protocol: Total RNA (2 μg) from abdominal tissue was processed according to the standard Affymetrix protocol for one-cycle target labeling to produce labeled cRNA. Total RNA (10 ng) isolated from the breast tissue core biopsies was amplified using a poly(A) PCR exponential amplification method.

growth_protocol: Human breast tissue was biopsied from women with a dense glandular breast pattern under radiographic guidance (n = 7). A single-coned craniocaudal mammogram of the breast was obtained at the time of biopsy and done with the breast immobilized under the compression device. In women with a diffusely fatty breast pattern (n = 12), biopsies were done without radiological guidance. After infiltration of 2% lidocaine, a small incision was made in the skin at the biopsy site through which a 14-gauge biopsy needle was inserted to a depth estimated by the operator. Between seven and nine biopsy samples were  obtained through the same skin incision, although the direction of the needle was altered for each sample.  Three to five milliliters of subcutaneous abdominal adipose tissue were obtained by suction biopsy under local anesthesia from the anterior abdominal wall, midway between the anterior superior iliac spine and the umbilicus. The first biopsies were taken from either the left or right breast/abdominal side chosen by computer randomization (independently) and repeat biopsies on the opposite side to eliminate gene expression changes due to the healing process. One  half of two separate breast cores were fixed in 4% formalin and embedded in paraffin blocks; the remaining tissue was immediately snap frozen in liquid nitrogen and stored at −80°C.

extract_protocol: 20 to 50 mg of breast tissue were ground to a fine powder under liquid nitrogen; RNA was isolated with 600 μL of Qiazol reagent (Qiagen Ltd.), which  was passed through a commercially available RNA shearing device (QiaShredder, Qiagen); and 200 μL chloroform was added, incubated at room temperature for 5 min, and centrifuged at 12,000 rpm for 15 min. The aqueous phase was removed to a clean tube and 350 μL of 70% ethanol were added. The mixture was placed in an RNeasy Micro column (Qiagen) and the protocol for the RNeasy Micro kit was followed to completion. Abdominal adipose tissue total RNA was isolated using Trizol reagent (Invitrogen). RNA samples were purified using RNeasy Mini columns (Qiagen) according to the manufacturer's protocols.

treatment_protocol: Participants were randomly allocated to dietary energy restriction [liquid diet, 3,656 kJ/d (864 kcal/d); n = 10] or asked to continue their normal eating patterns (n = 9) for one menstrual cycle.

value: adipose

tag: diet


title: 7507875107_R02C02


title: ACER8539_2

value: DER


title: AC8232_1


title: 7507875073_R01C01


title: 7507875106_R06C01


title: AC6843_1


title: 7507875115_R01C01


title: AC6843_2


title: 7507875086_R02C01


title: 7507875106_R01C01


title: 9422491028_R06C02


title: ACER8539_1


title: U1 transfected 3

city: Tianjin

first: Shan

last: Gao

address: No 94, weijin road

country: China

institute: Nankai University

description:
Rat OneArray Plus contains 20,715 DNA probes with the length of 60 bp.
T1_003

hyb_protocol: After purification, six samples were hybridized to six chips of Rat OneArray Plus separately.

scan_protocol: Six chips were scanned into images in TIF format using an Agilent G2505C Microarray Scanner System (Agilent Technology, USA). Images were read into gene expression data (numerical values) in GPR format using the software GenePix Pro v4.1.1.44 (Axon Instruments, CA).

data_processing: These gene expression data were normalized and further analyzed to determine the significantly differentially expressed (DE) genes between the treatment group and the control group using the software Rosetta Resolver System v7.2 (Rosetta Biosoftware, USA). DNA probes were annotated by the software Annotation ROA2 r1.0 (Phalanx Biotech, China) with two databases NCBI RefSeq r65 and Ensembl r76 cDNA sequences Rnor_5.0 annotations.

organism: Rattus norvegicus

source_name: PC-12 cells, U1 transfected

label_protocol: Afterwards, the cDNA product was used as template for in vitro transcription with T7 RNA polymerase and the incorporation of the modified nucleotide, 5-(3-aminoallyl)-UTP (aa-UTP), into antisense RNA (aRNA) to form amino allyl-aRNA (aa-aRNA). The aa-aRNA finally was readily labeled with amine-reactive N-hydroxysuccinimide (NHS) ester of fluorescent dyes (Cy5-NHS).

growth_protocol: PC-12 cells, derived from a pheochromocytoma of the rat adrenal medulla, were cultured in RPMI-1640 medium containing 10% fetal bovine serum in our lab. The medium was changed every two days and passaged every four days.

extract_protocol: After total RNA extraction, mRNA of six RNA samples were used for cDNA synthesis and amplification using Amino Allyl MessageAmp II aRNA Amplification Kit (Ambion, USA).

treatment_protocol: PC-12 cells were sampled for six times (about 2x10^6 cells per sample), then trypsinized, washed once with PBS and resuspended in 100 μL Nucleofector Solution (Lonza-Amaxa, German). Three samples were transfected with 4 μg pRIREN-RetroQ vectors (Clontech, USA) containing 168 bp U1 sequence (GenBank: V01266.1) with the native U1 promoter. The other three samples were transfected with 4 μg empty pRIREN-RetroQ vectors as control. The transfections were performed by electroporation using a Lonza-Amaxa Nucleofector Pulser at program U-029. Finally, six samples were cultured for 8 h in 6-well plates with 2.5 ml RPMI-1640 medium.

tag: cell line

tag: cell type

value: cell line derived from pheochromocytoma of the adrenal medulla

tag: transfection


title: 7507875073_R06C02


title: 9422492148_R02C01


title: U1 transfected 2

description:
Rat OneArray Plus contains 20,715 DNA probes with the length of 60 bp.
T1_002


title: 7507875106_R05C02


title: ACER132_2

tag: tissue

tag: participant number


title: ACER132_1

tag: timepoint


title: Control 3

description:
Rat OneArray Plus contains 20,715 DNA probes with the length of 60 bp.
C1_003

source_name: PC-12 cells, control

value: vector control


title: 7507875086_R01C02

tag: Sex


title: AC333_1


title: U1 transfected 1

description:
Rat OneArray Plus contains 20,715 DNA probes with the length of 60 bp.
T1_001


title: AC333_2


title: 8942297070_R04C01


title: ACER5766_1


title: 7507875122_R02C02


title: Control 2

description:
Rat OneArray Plus contains 20,715 DNA probes with the length of 60 bp.
C1_002


title: AC2732_2


title: 7507875133_R03C02


title: Control 1

description:
Rat OneArray Plus contains 20,715 DNA probes with the length of 60 bp.
C1_001


title: 9422493042_R01C02


title: 8942297118_R01C02


title: 7507875123_R01C01


title: 7507875123_R06C01


title: 7507875133_R03C01


title: 9422491125_R06C01


title: AP_Stage4_R2

city: Verona

first: Silvia

last: Dal Santo

address: Strada Le Grazie, 15

department: Department of Biotechnology

country: Italy

institute: University of Verona

description: Vitis vinifera cv Garganega, clone 4

hyb_protocol: Hybridization and washing procedures were performed according to the NimbleGen Arrays User’s Guide (V 3.2).

scan_protocol: Each microarray was scanned using a Axon GenePix 4400 A at 532 nm (Cy-3 absorption peak) and GenePix Pro7 software (Molecular Devices, Sunnyvale, CA, USA) according to the manufacturers' instructions.

data_processing: Images were analyzed using NimbleScan v2.5 software (Roche), background correction and standard RMA normalization were selected.

organism: Vitis vinifera

source_name: Stage 4, berries collected from vineyard AP, replicate 2

label_protocol: cDNA synthesis and labeling reactions were performed according to the NimbleGen Arrays User’s Guide (V 3.2).

growth_protocol: Grapevine (Vitis vinifera cv Garganega, clone 4) samples were collected from four vineyards during the 2013 growing season at the same time of day (~10:30 AM). The parral training system rows were north-south oriented, and SO4 was used as the rootstock. The chosen vineyards were located in different areas of the Soave production region (Verona, Italy) featuring diverse growing conditions, such as altitude and soil composition.

extract_protocol: Total RNA was extracted from  ~200 mg of pericarp (berry without seeds) using the Spectrum™ Plant Total RNA kit (Sigma-Aldrich, St. Louis, MO) with some modifications as reported in Fasoli, et al. (2012). RNA quality and quantity were assessed using a Nanodrop 2000 spectrophotometer (Thermo Scientific, Wilmington, DE) and a Bioanalyzer Chip RNA 7500 series II (Agilent, Santa Clara, CA).

tag: cultivar

value: Garganega

tag: clone

value: Berries

tag: vineyard (soil type, location)

value: Alluvional, Plain

tag: sampling time points

value: Stage 4, Harvest (42 days after Veraison)


title: 9422493042_R02C01


title: AC2732_1


title: 7507875086_R03C01


title: ACER2978_1


title: 7507875107_R04C01


title: ACER6268_1


title: ACER6268_2

value: after


title: AP_Stage4_R1

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 4, berries collected from vineyard AP, replicate 1


title: 8942297118_R03C01


title: 9422493008_R04C01


title: 9422493041_R05C02


title: AP_Stage3_R2

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 3, berries collected from vineyard AP, replicate 2

value: Stage 3, 28 days after Veraison


title: AP_Stage3_R3

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 3, berries collected from vineyard AP, replicate 3


title: ACER6858_2


title: 7507875106_R06C02


title: 9422493067_R01C02


title: ACER6858_1

value: before


title: ACER2292_2


title: AP_Stage4_R3

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 4, berries collected from vineyard AP, replicate 3


title: AP_Stage2_R1

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 2, berries collected from vineyard AP, replicate 1

value: Stage 2, 14 days after Veraison


title: 9422493067_R04C02

value: Oral Rinse


title: AP_Stage2_R2

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 2, berries collected from vineyard AP, replicate 2


title: AP_Stage2_R3

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 2, berries collected from vineyard AP, replicate 3


title: ACER2292_1


title: ACER1372_2


title: AP_Stage3_R1

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 3, berries collected from vineyard AP, replicate 1


title: AP_Stage1_R3

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 1, berries collected from vineyard AP, replicate 3

value: Stage 1, Veraison


title: 9422491028_R05C01

value: male


title: 7507875073_R01C02

value: female


title: ACER1372_1


title: AP_Stage1_R2

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 1, berries collected from vineyard AP, replicate 2


title: ACER4416_2


title: AP_Stage1_R1

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 1, berries collected from vineyard AP, replicate 1


title: VP_Stage4_R3

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 4, berries collected from vineyard VP, replicate 3

value: Volcanic, Plain


title: 7507875086_R04C01

value: OPSCC Case


title: ACER4416_1

value: adipose

value: DER


title: ACER5027_2


title: ACER5027_1


title: VP_Stage4_R2

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 4, berries collected from vineyard VP, replicate 2


title: VP_Stage4_R1

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 4, berries collected from vineyard VP, replicate 1


title: 9422493075_R06C02

source_name: genomic DNA from oral rinse


title: VP_Stage3_R2

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 3, berries collected from vineyard VP, replicate 2


title: 7507875122_R05C02


title: VP_Stage3_R3

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 3, berries collected from vineyard VP, replicate 3


title: AC3714_2

value: Control


title: AC3714_1


title: VP_Stage3_R1

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 3, berries collected from vineyard VP, replicate 1

value: Garganega


title: 8942297118_R06C01


title: VP_Stage2_R3

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 2, berries collected from vineyard VP, replicate 3

value: Berries


title: 9422493041_R01C02


title: 8942297118_R01C01


title: AC5030_2


title: VP_Stage2_R2

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 2, berries collected from vineyard VP, replicate 2


title: AC5030_1


title: AC7147_2


title: 7507875115_R02C02


title: 8942297118_R05C01


title: VP_Stage2_R1

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 2, berries collected from vineyard VP, replicate 1


title: 7507875107_R05C01


title: AC7147_1


title: AC4412_1


title: VP_Stage1_R3

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 1, berries collected from vineyard VP, replicate 3


title: 7507875122_R05C01


title: AC4412_2


title: ACER5533_2


title: 9422493041_R06C02


title: VH1_Stage4_R2

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 4, berries collected from vineyard VH1, replicate 2

value: Volcanic, Hill - Vineyard 1


title: VH1_Stage4_R3

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 4, berries collected from vineyard VH1, replicate 3

value: Stage 4, Harvest (42 days after Veraison)


title: ACER5766_2

value: after


title: ACER5533_1


title: BC8232_2

value: breast


title: VH1_Stage4_R1

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 4, berries collected from vineyard VH1, replicate 1


title: VP_Stage1_R1

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 1, berries collected from vineyard VP, replicate 1


title: 7507875073_R03C02


title: BC8232_1

value: before


title: 7507875133_R06C01


title: BCER8539_2


title: VH1_Stage3_R3

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 3, berries collected from vineyard VH1, replicate 3

value: Stage 3, 28 days after Veraison


title: ACER2978_2


title: 9422492148_R01C01

value: Oral Rinse


title: 7507875106_R05C01


title: 9422491028_R02C02


title: 9422493008_R02C02


title: 7507875123_R01C02


title: BCER8539_1


title: VH1_Stage3_R2

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 3, berries collected from vineyard VH1, replicate 2


title: VH1_Stage3_R1

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 3, berries collected from vineyard VH1, replicate 1


title: VH1_Stage2_R2

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 2, berries collected from vineyard VH1, replicate 2

value: Stage 2, 14 days after Veraison


title: VP_Stage1_R2

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 1, berries collected from vineyard VP, replicate 2

value: Stage 1, Veraison


title: BC6843_1


title: 8942297118_R02C01

source_name: genomic DNA from oral rinse

value: male


title: BCER132_2


title: VH1_Stage2_R3

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 2, berries collected from vineyard VH1, replicate 3


title: 8942297072_R05C02


title: VH1_Stage2_R1

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 2, berries collected from vineyard VH1, replicate 1


title: 8942297072_R03C02

value: female


title: BCER132_1


title: VH1_Stage1_R2

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 1, berries collected from vineyard VH1, replicate 2


title: 9422493042_R06C01

value: OPSCC Case


title: 9422493008_R05C02


title: VH1_Stage1_R3

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 1, berries collected from vineyard VH1, replicate 3


title: 7507875073_R02C02


title: 9422492148_R06C02


title: BC6843_2


title: 9422492148_R03C01


title: 9422493075_R01C01


title: BC6268_1


title: VH1_Stage1_R1

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 1, berries collected from vineyard VH1, replicate 1


title: BCER2292_2


title: BCER6858_2


title: VH2_Stage4_R3

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 4, berries collected from vineyard VH2, replicate 3

value: Volcanic, Hill - Vineyard 2


title: VH2_Stage4_R2

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 4, berries collected from vineyard VH2, replicate 2


title: VH2_Stage3_R3

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 3, berries collected from vineyard VH2, replicate 3


title: VH2_Stage3_R2

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 3, berries collected from vineyard VH2, replicate 2


title: BCER6858_1

value: DER


title: BCER1372_2


title: VH2_Stage4_R1

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 4, berries collected from vineyard VH2, replicate 1


title: BCER2292_1


title: BCER1372_1


title: VH2_Stage3_R1

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 3, berries collected from vineyard VH2, replicate 1


title: BC3714_2

value: Control


title: 9422493075_R05C02


title: BC3714_1


title: 9422492148_R05C01


title: 9422493067_R03C01


title: 7507875123_R03C01


title: VH2_Stage2_R3

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 2, berries collected from vineyard VH2, replicate 3

value: Garganega


title: VH2_Stage2_R1

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 2, berries collected from vineyard VH2, replicate 1

value: Berries


title: 9422493042_R01C01


title: 9422491125_R05C02


title: 9422491125_R04C01


title: BCER5027_1


title: BC6268_2


title: 8942297072_R05C01


title: BCER5027_2


title: VH2_Stage1_R3

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 1, berries collected from vineyard VH2, replicate 3


title: VH2_Stage1_R2

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 1, berries collected from vineyard VH2, replicate 2


title: 8942297070_R03C01


title: 8942297072_R06C01


title: VH2_Stage1_R1

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 1, berries collected from vineyard VH2, replicate 1


title: 7507875122_R06C02

source_name: genomic DNA from oral rinse


title: BCER4416_1


title: BCER4416_2


title: BC5030_1


title: BC7147_1


title: BC4412_2


title: BC7147_2


title: 9422493041_R04C02


title: BC5030_2


title: 8942297118_R04C01


title: 7507875122_R06C01


title: 7507875107_R01C02


title: BC2732_2


title: BC333_2


title: BC4412_1


title: BCER5533_1


title: BC333_1


title: BCER2978_2


title: 8942297072_R06C02


title: 7507875122_R02C01


title: BC2732_1


title: 7507875123_R03C02


title: BCER5766_2


title: 7507875106_R04C02


title: BCER5533_2


title: 9422491028_R03C02


title: 7507875086_R06C01


title: 7507875107_R05C02


title: 9422493041_R02C02


title: BCER5766_1


title: VH2_Stage2_R2

description: Vitis vinifera cv Garganega, clone 4

source_name: Stage 2, berries collected from vineyard VH2, replicate 2


title: 7507875086_R05C02


title: BCER2978_1


title: 8942297072_R01C02


title: 9422492148_R02C02


title: 7507875107_R01C01


title: 9422493042_R06C02


title: 9422493008_R03C02


title: LPS Monocytes rep3

city: New York

first: Josef

last: Anrather

state: NY

address: 407 East 61st Street

department: BMRI

institute: Weill Cornell Medical College

hyb_protocol: Standard Illumina hybridization protocol

scan_protocol: Standard Illumina scanning protocol

data_processing: The data were normalised using quantile normalisation with Illumina's GenomeStudio gene expression module (v1.9.0)

organism: Mus musculus

source_name: brain monocytes 24 hrs LPS

label_protocol: Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays

extract_protocol: RNA was extracted with Trizol reagent, followed by clean-up and DNase I treatment with QIAGEN RNeasy mini kit in accordance with the prescribed protocol provided with the kit. Quality control was performed with Agilent Bioanalyser.

treatment_protocol: 0.5 mg/kg LPS intraperitoneal (experimental) or saline (control) for 24 hours

tag: gender

tag: strain

tag: developmental stage

value: young adult

value: monocytes

tag: treatment

value: 24 hrs LPS


title: LPS Monocytes rep2


title: 7507875086_R02C02

tag: site

tag: group

tag: age at diagnosis (years)

tag: packyrs


title: LPS Monocytes rep1

tag: cell type


title: Sal Monocytes rep2

source_name: brain monocytes 24 hrs saline

value: 24 hrs saline


title: 7507875122_R01C01


title: Sal Monocytes rep1


title: MCL sample

city: Prague 2

first: Vojtěch

last: Kulvait

address: U Nemocnice 5

department: Institute of Pathological Physiology

country: Czech Republic

institute: Charles University in Prague - 1st Faculty of Medicine

hyb_protocol: Standard Illumina protocol

scan_protocol: Standard Illumina protocol

data_processing:
Image data were read by beadarray package (there are no detection p-values). Further data processing was performed using blima Bioconductor package. Averaged foreground values GrnF after background correction were used for non-normalized data.
Normalized data were processed using blima Bioconductor package. Processing pipeline includes background correction, log2 transformation, bead level quantile normalization and finally probe level summarization.

source_name: primary patient cells

label_protocol: Standard Illumina protocol

growth_protocol: primary cells obtained from pt peripheral blood

extract_protocol: RNA extraction using Trizol, as per manufacturer's protocol

treatment_protocol: untreated cells

tag: arrayname

tag: disease state

value: MCL variant Richter syndrome

value: MCL primary cells


title: 9422492148_R04C02

value: Oral Rinse


title: human_neural_stem_cells_rep6

city: San Diego

first: Laurence

middle: M.

last: Brill

address: 10420 Wateridge Circle

institute: Intertek Pharmaceutical Services

data_processing: The data were normalised using quantile normalisation in GenomeStudio (v.2010.2.0.25786).

value: Primordial neural precursors derived from WA-09 cells


title: 7507875073_R02C01


title: CLL sample

value: CLL primary cells


title: 9422493008_R03C01

value: male


title: 7507875106_R03C02


title: 8942297072_R02C02

value: female


title: 7507875122_R03C01

value: OPSCC Case


title: 8942297072_R03C01


title: 8942297072_R02C01


title: 9422493067_R04C01


title: 8942297072_R04C01


title: 7507875133_R02C02


title: 9422493075_R03C02


title: human_neural_stem_cells_rep5


title: human_neural_stem_cells_rep2


title: human_neural_stem_cells_rep4


title: 9422491028_R02C01


title: 9422493008_R01C01


title: 8942297072_R01C01


title: human_embryonic_stem_cells_rep6

value: Pluripotent WA-09 cells


title: 9422491028_R06C01


title: human_embryonic_stem_cells_rep5


title: 8942297072_R04C02


title: 9422491125_R02C02


title: 9422491125_R01C01


title: 9422493041_R02C01


title: 7507875133_R01C02


title: 7507875073_R03C01


title: human_embryonic_stem_cells_rep4


title: 9422493067_R05C01


title: human_embryonic_stem_cells_rep2


title: 7507875107_R03C01


title: human_embryonic_stem_cells_rep1


title: human_neural_stem_cells_rep3


title: 9422493008_R04C02


title: human_neural_stem_cells_rep1


title: 7507875073_R06C01


title: Caco-2 ZG16p rep3

city: Bunkyo-ku

first: Kyoko

last: Kojima-Aikawa

state: Tokyo

address: 2-1-1 Otsuka

department: Faculty of Core Research, Natural Science Division

institute: Ochanomizu University

description: Test

data_processing:
All the data analyses were performed according to the manufacturers' instructions using their web-based software package: http://pcrdataanalysis.sabiosciences.com/pcr/arrayanalysis.php
For the normalization, the average of five housekeeping genes, ACTB, B2M, GAPDH, HPRT1 and RPLP0, was used. Target gene signals were normalized to housekeeping genes; 2^-ΔCt, where ΔCt = (Ct_Target - Ct_HKG).
The web-based software package automatically performed all ΔΔCt based fold-change calculations and statistical analysis from the uploaded raw threshold cycle data. Fold change worksheet reports test/control (i.e., ZG16p/PBS) ratio.

label: SYBR Green

label_protocol: PCR assays were performed using the Human Cell Cycle RT2 Profiler PCR Array (SABiosciences) following the manufacturer's instructions. Reverse transcription was performed from 1 μg total RNA using the RT2 First Strand Kit (SABiosciences). Quantitative real-time PCR were performed (StepOnePlus, Applied Biosystems) with a 10-min heat activation of the enzyme at 95 °C, followed by 40 cycles at 95 °C for 15 seconds and 60 °C for 60 seconds.

growth_protocol: Caco-2 cells were grown in DMEM (high glucose) supplemented with 20% FBS and 1% NEAA in a fully humidified incubator with 5% CO2 at 37 °C.

extract_protocol: Total RNA was isolated from Caco-2 cells using illustra RNAspin Mini RNA Isolation Kit (GE Healthcare) following the manufacturer's instructions.

treatment_protocol: Caco-2 cells (8.0 × 10^5 cells/dish) were cultured in 10 cm dishes for 24 h. After washing with the serum-free medium ASF104 supplemented with penicillin and streptomycin, the cells were cultured in ASF104 containing 70 μg/mL Strep-tagII-ZG16p for 72 h. For the control group, the same volume of PBS was added to the medium instead of Strep-tagII-ZG16p solution.

value: colon adenocarcinoma

tag: cell line

tag: passage