title: Whole Blood DDC105

source_name: genomic DNA from whole blood DDC105

value: D


title: Whole Blood DDN87

status: Public on Mar 01 2010

type: genomic

city: London

first: Andrew

middle: E

last: Teschendorff

address: 72 Huntley Street

department: UCL Cancer Institute/Institute for Women's Health

country: United Kingdom

institute: University College London

description: whole blood from cases and controls, matched for age and sex, were drawn from two irish cohorts. Three replicates labeled with an r are included.

hyb_protocol: bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation27 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

label: Biotin

molecule: genomic DNA

organism: Homo sapiens

source_name: genomic DNA from whole blood DDN87

label_protocol: Standard Illumina Protocol for Infinium 27k Chip

extract_protocol: DNA was extracted from whole blood of T1D patients using a salting out method

tag: source

value: bi-sulphite converted genomic whole blood DNA from Case

tag: case/control

value: Case

tag: ageatdiagnosis

tag: sex

value: M

tag: cohort

value: Dublin

value: B

tag: bs conversion c1

tag: bs conversion c2


title: Whole Blood DN105

source_name: genomic DNA from whole blood DN105

value: F

value: Belfast

value: L


title: Whole Blood DDN14

source_name: genomic DNA from whole blood DDN14

value: K


title: Whole Blood DDN53

source_name: genomic DNA from whole blood DDN53


title: Whole Blood DDN51

source_name: genomic DNA from whole blood DDN51

value: A


title: Whole Blood DDC40

source_name: genomic DNA from whole blood DDC40

value: bi-sulphite converted genomic whole blood DNA from Control

value: Control


title: Whole Blood DDN85

source_name: genomic DNA from whole blood DDN85

value: E


title: Whole Blood DDC104

source_name: genomic DNA from whole blood DDC104

value: G


title: Whole Blood DDN28

source_name: genomic DNA from whole blood DDN28


title: Whole Blood DDN2

source_name: genomic DNA from whole blood DDN2

value: I


title: Whole Blood DN26

source_name: genomic DNA from whole blood DN26

value: J


title: Whole Blood DDC67

source_name: genomic DNA from whole blood DDC67


title: Whole Blood DDC11

source_name: genomic DNA from whole blood DDC11

value: H


title: Whole Blood DDN39

source_name: genomic DNA from whole blood DDN39

value: bi-sulphite converted genomic whole blood DNA from Case


title: Whole Blood DC72

source_name: genomic DNA from whole blood DC72

value: C


title: Whole Blood DDC38

source_name: genomic DNA from whole blood DDC38

value: M


title: Whole Blood DN25

source_name: genomic DNA from whole blood DN25

value: Case


title: Whole Blood DDN84

source_name: genomic DNA from whole blood DDN84

value: Dublin

value: B


title: Whole Blood DC50

source_name: genomic DNA from whole blood DC50

value: Belfast


title: Whole Blood DN11

source_name: genomic DNA from whole blood DN11


title: Whole Blood DDC1

source_name: genomic DNA from whole blood DDC1

value: F


title: Whole Blood DN2

source_name: genomic DNA from whole blood DN2


title: Whole Blood DN328

source_name: genomic DNA from whole blood DN328

value: K


title: Whole Blood DN168

source_name: genomic DNA from whole blood DN168


title: Whole Blood DN164

source_name: genomic DNA from whole blood DN164


title: Whole Blood DC145

source_name: genomic DNA from whole blood DC145


title: Whole Blood DN146

source_name: genomic DNA from whole blood DN146


title: Whole Blood DC226

source_name: genomic DNA from whole blood DC226


title: Whole Blood DC509

source_name: genomic DNA from whole blood DC509

value: L


title: Whole Blood DDC126

source_name: genomic DNA from whole blood DDC126

value: bi-sulphite converted genomic whole blood DNA from Control


title: Whole Blood DC513

source_name: genomic DNA from whole blood DC513

value: Control

value: D


title: Whole Blood DN128

source_name: genomic DNA from whole blood DN128


title: Whole Blood DC197

source_name: genomic DNA from whole blood DC197


title: Whole Blood DN195

source_name: genomic DNA from whole blood DN195

value: G


title: Whole Blood DC463

source_name: genomic DNA from whole blood DC463


title: Whole Blood DC464

source_name: genomic DNA from whole blood DC464


title: Whole Blood DC458

source_name: genomic DNA from whole blood DC458

value: E


title: Whole Blood DN145

source_name: genomic DNA from whole blood DN145


title: Whole Blood DN326

source_name: genomic DNA from whole blood DN326


title: Whole Blood DN192

source_name: genomic DNA from whole blood DN192


title: Whole Blood DN323

source_name: genomic DNA from whole blood DN323


title: Whole Blood DC223

source_name: genomic DNA from whole blood DC223


title: Whole Blood DDC127

source_name: genomic DNA from whole blood DDC127

value: A


title: Whole Blood DC506

source_name: genomic DNA from whole blood DC506


title: Whole Blood DDC103

source_name: genomic DNA from whole blood DDC103


title: Whole Blood DN321

source_name: genomic DNA from whole blood DN321


title: Whole Blood DN161

source_name: genomic DNA from whole blood DN161


title: Whole Blood DC191

source_name: genomic DNA from whole blood DC191


title: Whole Blood DN191

source_name: genomic DNA from whole blood DN191


title: Whole Blood DC403

source_name: genomic DNA from whole blood DC403


title: Whole Blood DDC124

source_name: genomic DNA from whole blood DDC124

value: I


title: Whole Blood DC125

source_name: genomic DNA from whole blood DC125


title: Whole Blood DC402

source_name: genomic DNA from whole blood DC402

value: J


title: Whole Blood DC486

source_name: genomic DNA from whole blood DC486


title: Whole Blood DN320

source_name: genomic DNA from whole blood DN320

value: bi-sulphite converted genomic whole blood DNA from Case

value: H


title: Whole Blood DN144

source_name: genomic DNA from whole blood DN144

value: Case

value: M


title: Whole Blood DC214

source_name: genomic DNA from whole blood DC214


title: Whole Blood DN126

source_name: genomic DNA from whole blood DN126


title: Whole Blood DC142

source_name: genomic DNA from whole blood DC142


title: Whole Blood DC221

source_name: genomic DNA from whole blood DC221


title: Whole Blood DC219

source_name: genomic DNA from whole blood DC219


title: Whole Blood DC494

source_name: genomic DNA from whole blood DC494


title: Whole Blood DC159

source_name: genomic DNA from whole blood DC159


title: Whole Blood DN157

source_name: genomic DNA from whole blood DN157


title: Whole Blood DC493

source_name: genomic DNA from whole blood DC493


title: Whole Blood DC189

source_name: genomic DNA from whole blood DC189


title: Whole Blood DN154

source_name: genomic DNA from whole blood DN154

value: B


title: Whole Blood DN318

source_name: genomic DNA from whole blood DN318

value: Belfast

value: C


title: Whole Blood DC143

source_name: genomic DNA from whole blood DC143

value: F


title: Whole Blood DC401

source_name: genomic DNA from whole blood DC401


title: Whole Blood DN186

source_name: genomic DNA from whole blood DN186

value: L


title: Whole Blood DC207

source_name: genomic DNA from whole blood DC207

value: bi-sulphite converted genomic whole blood DNA from Control


title: Whole Blood DC382

source_name: genomic DNA from whole blood DC382

value: Control


title: Whole Blood DN153

source_name: genomic DNA from whole blood DN153


title: Whole Blood DN185

source_name: genomic DNA from whole blood DN185


title: Whole Blood DN204

source_name: genomic DNA from whole blood DN204


title: Whole Blood DN135

source_name: genomic DNA from whole blood DN135

value: K


title: Whole Blood DC481

source_name: genomic DNA from whole blood DC481


title: Whole Blood DN139

source_name: genomic DNA from whole blood DN139


title: Whole Blood DN152

source_name: genomic DNA from whole blood DN152


title: Whole Blood DC484

source_name: genomic DNA from whole blood DC484

value: D


title: Whole Blood DC124

source_name: genomic DNA from whole blood DC124


title: Whole Blood DDC123

source_name: genomic DNA from whole blood DDC123

value: Dublin


title: Whole Blood DC390

source_name: genomic DNA from whole blood DC390


title: Whole Blood DC138

source_name: genomic DNA from whole blood DC138


title: Whole Blood DN317

source_name: genomic DNA from whole blood DN317


title: Whole Blood DC241

source_name: genomic DNA from whole blood DC241


title: Whole Blood DDC122

source_name: genomic DNA from whole blood DDC122


title: Whole Blood DC479

source_name: genomic DNA from whole blood DC479

value: G


title: Whole Blood DN200

source_name: genomic DNA from whole blood DN200

value: A


title: Whole Blood DC355

source_name: genomic DNA from whole blood DC355

value: E


title: Whole Blood DN151

source_name: genomic DNA from whole blood DN151

value: bi-sulphite converted genomic whole blood DNA from Case


title: Whole Blood DN199

source_name: genomic DNA from whole blood DN199

value: I


title: Whole Blood DN178

source_name: genomic DNA from whole blood DN178

value: Case


title: Whole Blood DN179

source_name: genomic DNA from whole blood DN179


title: Whole Blood DC478

source_name: genomic DNA from whole blood DC478

value: M


title: Whole Blood DC240

source_name: genomic DNA from whole blood DC240


title: Whole Blood DN150

source_name: genomic DNA from whole blood DN150

value: J


title: Whole Blood DC147

source_name: genomic DNA from whole blood DC147

value: Belfast


title: Peripheral Whole Blood 105223

description: whole blood from cases are from postmenopausal women with ovarian cancer, drawn either before or after treatment

hyb_protocol: bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation27 Beadchip

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

label: as per Illumina Infinium 27k methylation assay protocol

source_name: genomic DNA from whole blood 105223

label_protocol: A single base extension was performed using labelled DNP- and biotin labelled dNTPs. See the Illumina Infinium 27k methylation assay protocol.

extract_protocol: DNA was extracted at Tepnel (www.tepnel.com) using a chloroform extraction method and 800ng DNA from each sample was bisulphite converted using the EZ DNA Methylation Kit D5008 (Zymo Research, Orange, CA, USA)

tag: sample type

tag: agegroupatsampledraw

tag: ageatrecruitment

tag: ageatdiagnosis:

tag: histology:

tag: stage:

tag: grade:

tag: pre-treatment sample

value: No

tag: post-treatment sample

tag: batch


title: Whole Blood DN181

source_name: genomic DNA from whole blood DN181

tag: source

value: F


title: Whole Blood DC239

source_name: genomic DNA from whole blood DC239

tag: case/control


title: Peripheral Whole Blood 108622

source_name: genomic DNA from whole blood 108622


title: Whole Blood DN331

source_name: genomic DNA from whole blood DN331

tag: ageatdiagnosis

value: B


title: Whole Blood DN201

source_name: genomic DNA from whole blood DN201

tag: sex


title: Whole Blood DC133

source_name: genomic DNA from whole blood DC133

value: bi-sulphite converted genomic whole blood DNA from Control

tag: cohort

value: H


title: Whole Blood DDC117

source_name: genomic DNA from whole blood DDC117

value: Control

tag: bs conversion c1


title: Peripheral Whole Blood 111428

source_name: genomic DNA from whole blood 111428

tag: bs conversion c2


title: Whole Blood DN120

source_name: genomic DNA from whole blood DN120


title: Peripheral Whole Blood 109843

source_name: genomic DNA from whole blood 109843

tag: sample type


title: Whole Blood DDC129

source_name: genomic DNA from whole blood DDC129

value: C


title: Peripheral Whole Blood 114019

source_name: genomic DNA from whole blood 114019

tag: agegroupatsampledraw


title: Peripheral Whole Blood 104306

source_name: genomic DNA from whole blood 104306

value: Over 75

tag: ageatrecruitment


title: Peripheral Whole Blood 114565

source_name: genomic DNA from whole blood 114565

tag: ageatdiagnosis:


title: Peripheral Whole Blood 105055

source_name: genomic DNA from whole blood 105055

tag: histology:


title: Peripheral Whole Blood 111184

source_name: genomic DNA from whole blood 111184

tag: stage:


title: Peripheral Whole Blood 111223

source_name: genomic DNA from whole blood 111223

tag: grade:


title: Peripheral Whole Blood 112146

source_name: genomic DNA from whole blood 112146

tag: pre-treatment sample


title: Peripheral Whole Blood 113565

source_name: genomic DNA from whole blood 113565

tag: post-treatment sample


title: Peripheral Whole Blood 113998

source_name: genomic DNA from whole blood 113998

tag: histology

value: Endometrioid

tag: stage

value: IIIc

tag: grade

value: Grade 3

value: Yes

tag: batch


title: Peripheral Whole Blood 112165

source_name: genomic DNA from whole blood 112165


title: Peripheral Whole Blood 112036

source_name: genomic DNA from whole blood 112036

value: bi-sulphite converted genomic whole blood DNA from Case

tag: ageatdiagnosis

value: Serous

value: IIIb

value: Grade 2


title: Peripheral Whole Blood 108710

source_name: genomic DNA from whole blood 108710


title: Peripheral Whole Blood 117668

source_name: genomic DNA from whole blood 117668

value: IIa


title: Peripheral Whole Blood 102277

source_name: genomic DNA from whole blood 102277

value: Ic

value: No


title: Peripheral Whole Blood 107644

source_name: genomic DNA from whole blood 107644


title: Peripheral Whole Blood 114056

source_name: genomic DNA from whole blood 114056


title: Peripheral Whole Blood 112106

source_name: genomic DNA from whole blood 112106


title: Peripheral Whole Blood 104781

source_name: genomic DNA from whole blood 104781


title: Peripheral Whole Blood 114660

source_name: genomic DNA from whole blood 114660


title: Peripheral Whole Blood 102752

source_name: genomic DNA from whole blood 102752


title: Peripheral Whole Blood 114628

source_name: genomic DNA from whole blood 114628


title: Peripheral Whole Blood 114140

source_name: genomic DNA from whole blood 114140


title: Peripheral Whole Blood 114031

source_name: genomic DNA from whole blood 114031


title: Peripheral Whole Blood 114132

source_name: genomic DNA from whole blood 114132


title: Peripheral Whole Blood 104154

source_name: genomic DNA from whole blood 104154


title: Peripheral Whole Blood 111417

source_name: genomic DNA from whole blood 111417


title: Peripheral Whole Blood 114023

source_name: genomic DNA from whole blood 114023


title: Peripheral Whole Blood 114075

source_name: genomic DNA from whole blood 114075


title: Peripheral Whole Blood 104690

source_name: genomic DNA from whole blood 104690


title: Peripheral Whole Blood 114701

source_name: genomic DNA from whole blood 114701


title: Peripheral Whole Blood 114709

source_name: genomic DNA from whole blood 114709


title: Peripheral Whole Blood 109951

source_name: genomic DNA from whole blood 109951


title: Peripheral Whole Blood 107704

source_name: genomic DNA from whole blood 107704


title: Peripheral Whole Blood 114095

source_name: genomic DNA from whole blood 114095


title: Peripheral Whole Blood 109955

source_name: genomic DNA from whole blood 109955


title: Peripheral Whole Blood 104178

source_name: genomic DNA from whole blood 104178


title: Peripheral Whole Blood 112173

source_name: genomic DNA from whole blood 112173


title: Peripheral Whole Blood 104074

source_name: genomic DNA from whole blood 104074


title: Peripheral Whole Blood 112181

source_name: genomic DNA from whole blood 112181


title: Peripheral Whole Blood 112177

source_name: genomic DNA from whole blood 112177


title: Peripheral Whole Blood 114180

source_name: genomic DNA from whole blood 114180


title: Peripheral Whole Blood 114659

source_name: genomic DNA from whole blood 114659


title: Peripheral Whole Blood 114669

source_name: genomic DNA from whole blood 114669


title: Peripheral Whole Blood 114232

source_name: genomic DNA from whole blood 114232


title: Peripheral Whole Blood 112150

source_name: genomic DNA from whole blood 112150


title: Peripheral Whole Blood 114203

source_name: genomic DNA from whole blood 114203


title: Peripheral Whole Blood 104140

source_name: genomic DNA from whole blood 104140


title: Peripheral Whole Blood 104705

source_name: genomic DNA from whole blood 104705


title: Peripheral Whole Blood 114981

source_name: genomic DNA from whole blood 114981


title: Peripheral Whole Blood 104436

source_name: genomic DNA from whole blood 104436


title: Peripheral Whole Blood 104827

source_name: genomic DNA from whole blood 104827


title: Peripheral Whole Blood 114172

source_name: genomic DNA from whole blood 114172


title: Peripheral Whole Blood 114027

source_name: genomic DNA from whole blood 114027


title: Peripheral Whole Blood 114672

source_name: genomic DNA from whole blood 114672


title: Peripheral Whole Blood 104843

source_name: genomic DNA from whole blood 104843


title: Peripheral Whole Blood 109116

source_name: genomic DNA from whole blood 109116


title: Peripheral Whole Blood 111276

source_name: genomic DNA from whole blood 111276


title: Peripheral Whole Blood 109959

source_name: genomic DNA from whole blood 109959


title: Peripheral Whole Blood 114052

source_name: genomic DNA from whole blood 114052


title: Peripheral Whole Blood 106352

source_name: genomic DNA from whole blood 106352


title: Peripheral Whole Blood 109947

source_name: genomic DNA from whole blood 109947


title: Peripheral Whole Blood 106585

source_name: genomic DNA from whole blood 106585


title: Peripheral Whole Blood 109388

source_name: genomic DNA from whole blood 109388


title: Peripheral Whole Blood 111328

source_name: genomic DNA from whole blood 111328


title: Peripheral Whole Blood 114148

source_name: genomic DNA from whole blood 114148


title: Peripheral Whole Blood 111211

source_name: genomic DNA from whole blood 111211


title: Peripheral Whole Blood 111301

source_name: genomic DNA from whole blood 111301


title: Peripheral Whole Blood 100388

source_name: genomic DNA from whole blood 100388


title: Peripheral Whole Blood 114562

source_name: genomic DNA from whole blood 114562


title: Peripheral Whole Blood 114663

source_name: genomic DNA from whole blood 114663


title: Peripheral Whole Blood 114015

source_name: genomic DNA from whole blood 114015


title: Peripheral Whole Blood 112324

source_name: genomic DNA from whole blood 112324


title: Peripheral Whole Blood 111341

source_name: genomic DNA from whole blood 111341


title: Peripheral Whole Blood 100380

source_name: genomic DNA from whole blood 100380


title: Peripheral Whole Blood 112161

source_name: genomic DNA from whole blood 112161


title: Peripheral Whole Blood 104898

source_name: genomic DNA from whole blood 104898


title: Peripheral Whole Blood 109923

source_name: genomic DNA from whole blood 109923


title: Peripheral Whole Blood 114666

source_name: genomic DNA from whole blood 114666


title: Peripheral Whole Blood 109276

source_name: genomic DNA from whole blood 109276


title: Peripheral Whole Blood 113557

source_name: genomic DNA from whole blood 113557


title: Peripheral Whole Blood 109935

source_name: genomic DNA from whole blood 109935


title: Peripheral Whole Blood 114007

source_name: genomic DNA from whole blood 114007


title: Peripheral Whole Blood 114099

source_name: genomic DNA from whole blood 114099


title: Peripheral Whole Blood 112157

source_name: genomic DNA from whole blood 112157


title: Peripheral Whole Blood 114697

source_name: genomic DNA from whole blood 114697


title: Peripheral Whole Blood 114063

source_name: genomic DNA from whole blood 114063


title: Peripheral Whole Blood 114059

source_name: genomic DNA from whole blood 114059


title: Peripheral Whole Blood 113619

source_name: genomic DNA from whole blood 113619


title: Peripheral Whole Blood 114236

source_name: genomic DNA from whole blood 114236


title: Peripheral Whole Blood 114989

source_name: genomic DNA from whole blood 114989


title: Peripheral Whole Blood 114516

source_name: genomic DNA from whole blood 114516


title: Peripheral Whole Blood 114045

source_name: genomic DNA from whole blood 114045


title: Peripheral Whole Blood 114632

source_name: genomic DNA from whole blood 114632


title: Peripheral Whole Blood 114508

source_name: genomic DNA from whole blood 114508


title: Peripheral Whole Blood 112169

source_name: genomic DNA from whole blood 112169


title: Peripheral Whole Blood 111317

source_name: genomic DNA from whole blood 111317


title: Peripheral Whole Blood 114200

source_name: genomic DNA from whole blood 114200


title: Peripheral Whole Blood 114977

source_name: genomic DNA from whole blood 114977


title: Peripheral Whole Blood 109971

source_name: genomic DNA from whole blood 109971


title: Peripheral Whole Blood 114137

source_name: genomic DNA from whole blood 114137


title: Peripheral Whole Blood 109979

source_name: genomic DNA from whole blood 109979


title: Peripheral Whole Blood 114079

source_name: genomic DNA from whole blood 114079


title: Peripheral Whole Blood 114985

source_name: genomic DNA from whole blood 114985


title: Peripheral Whole Blood 114067

source_name: genomic DNA from whole blood 114067


title: Peripheral Whole Blood 114208

source_name: genomic DNA from whole blood 114208


title: Peripheral Whole Blood 111434

source_name: genomic DNA from whole blood 111434


title: Peripheral Whole Blood 114524

source_name: genomic DNA from whole blood 114524


title: Peripheral Whole Blood 114973

source_name: genomic DNA from whole blood 114973


title: Peripheral Whole Blood 114532

source_name: genomic DNA from whole blood 114532


title: Peripheral Whole Blood 104147

source_name: genomic DNA from whole blood 104147


title: Peripheral Whole Blood 114693

source_name: genomic DNA from whole blood 114693


title: Peripheral Whole Blood 109104

source_name: genomic DNA from whole blood 109104


title: Peripheral Whole Blood 100362

source_name: genomic DNA from whole blood 100362


title: Peripheral Whole Blood 109927

source_name: genomic DNA from whole blood 109927


title: Peripheral Whole Blood 102024

source_name: genomic DNA from whole blood 102024

value: Clear cell

value: Ia


title: Peripheral Whole Blood 108760

source_name: genomic DNA from whole blood 108760

value: bi-sulphite converted genomic whole blood DNA from Control


title: Peripheral Whole Blood 111355

source_name: genomic DNA from whole blood 111355


title: Peripheral Whole Blood 101577

source_name: genomic DNA from whole blood 101577

value: Not graded


title: Peripheral Whole Blood 106530

source_name: genomic DNA from whole blood 106530


title: Peripheral Whole Blood 105243

source_name: genomic DNA from whole blood 105243


title: Peripheral Whole Blood 102005

source_name: genomic DNA from whole blood 102005


title: Peripheral Whole Blood 100524

source_name: genomic DNA from whole blood 100524


title: Peripheral Whole Blood 102035

source_name: genomic DNA from whole blood 102035

value: Mucinous

value: Grade 1


title: Peripheral Whole Blood 114512

source_name: genomic DNA from whole blood 114512


title: Peripheral Whole Blood 100975

source_name: genomic DNA from whole blood 100975

value: Over 75


title: Peripheral Whole Blood 100536

source_name: genomic DNA from whole blood 100536

value: Endometrioid


title: Peripheral Whole Blood 102057

source_name: genomic DNA from whole blood 102057


title: Peripheral Whole Blood 114640

source_name: genomic DNA from whole blood 114640


title: Peripheral Whole Blood 104831

source_name: genomic DNA from whole blood 104831

value: IIIc

value: Grade 3


title: Peripheral Whole Blood 100887

source_name: genomic DNA from whole blood 100887

value: bi-sulphite converted genomic whole blood DNA from Case

value: IIc

value: Yes


title: Peripheral Whole Blood 104725

source_name: genomic DNA from whole blood 104725

value: Serous


title: Peripheral Whole Blood 114644

source_name: genomic DNA from whole blood 114644


title: Peripheral Whole Blood 107264

source_name: genomic DNA from whole blood 107264


title: Peripheral Whole Blood 114115

source_name: genomic DNA from whole blood 114115


title: Peripheral Whole Blood 101604

source_name: genomic DNA from whole blood 101604


title: Peripheral Whole Blood 108305

source_name: genomic DNA from whole blood 108305

value: Grade 2


title: Peripheral Whole Blood 114713

source_name: genomic DNA from whole blood 114713


title: Peripheral Whole Blood 100496

source_name: genomic DNA from whole blood 100496

value: IV


title: Peripheral Whole Blood 118207

source_name: genomic DNA from whole blood 118207

value: No


title: Peripheral Whole Blood 100766

source_name: genomic DNA from whole blood 100766


title: Peripheral Whole Blood 104240

source_name: genomic DNA from whole blood 104240


title: Peripheral Whole Blood 100945

source_name: genomic DNA from whole blood 100945

value: Adenocarcinoma NOS

value: IIIb


title: Peripheral Whole Blood 108011

source_name: genomic DNA from whole blood 108011

value: Ia


title: Peripheral Whole Blood 100561

source_name: genomic DNA from whole blood 100561


title: Peripheral Whole Blood 112427

source_name: genomic DNA from whole blood 112427

value: bi-sulphite converted genomic whole blood DNA from Control


title: Peripheral Whole Blood 100235

source_name: genomic DNA from whole blood 100235

value: Ic


title: Peripheral Whole Blood 102032

source_name: genomic DNA from whole blood 102032

value: IIIa


title: Peripheral Whole Blood 104759

source_name: genomic DNA from whole blood 104759


title: Peripheral Whole Blood 109000

source_name: genomic DNA from whole blood 109000


title: Peripheral Whole Blood 107789

source_name: genomic DNA from whole blood 107789


title: Peripheral Whole Blood 100248

source_name: genomic DNA from whole blood 100248


title: Peripheral Whole Blood 104773

source_name: genomic DNA from whole blood 104773


title: Peripheral Whole Blood 100747

source_name: genomic DNA from whole blood 100747

value: Mucinous and Clear cell


title: Peripheral Whole Blood 100243

source_name: genomic DNA from whole blood 100243


title: Peripheral Whole Blood 100951

source_name: genomic DNA from whole blood 100951


title: Peripheral Whole Blood 108170

source_name: genomic DNA from whole blood 108170

value: Over 75


title: Peripheral Whole Blood 102019

source_name: genomic DNA from whole blood 102019

value: IIa


title: Peripheral Whole Blood 113112

source_name: genomic DNA from whole blood 113112

value: Mixed Mullerian tumour

value: IIb

value: Grade 3


title: Peripheral Whole Blood 100440

source_name: genomic DNA from whole blood 100440


title: Peripheral Whole Blood 114520

source_name: genomic DNA from whole blood 114520


title: Peripheral Whole Blood 108298

source_name: genomic DNA from whole blood 108298

value: bi-sulphite converted genomic whole blood DNA from Case

value: Yes


title: Peripheral Whole Blood 100280

source_name: genomic DNA from whole blood 100280

value: Mucinous

value: IIIc

value: Grade 2


title: Peripheral Whole Blood 107993

source_name: genomic DNA from whole blood 107993

value: No


title: Peripheral Whole Blood 111109

source_name: genomic DNA from whole blood 111109

value: Serous

value: Grade 1


title: Peripheral Whole Blood 109344

source_name: genomic DNA from whole blood 109344

value: bi-sulphite converted genomic whole blood DNA from Control

value: Grn 55

value: Grn 73


title: Peripheral Whole Blood 102078

source_name: genomic DNA from whole blood 102078


title: Peripheral Whole Blood 108282

source_name: genomic DNA from whole blood 108282

value: Adenocarcinoma NOS

value: IVc


title: Peripheral Whole Blood 113576

source_name: genomic DNA from whole blood 113576


title: Peripheral Whole Blood 109132

source_name: genomic DNA from whole blood 109132

value: Grade 2-3

value: Grn 0


title: Peripheral Whole Blood 109675

source_name: genomic DNA from whole blood 109675


title: Peripheral Whole Blood 114705

source_name: genomic DNA from whole blood 114705

value: Over 75


title: Peripheral Whole Blood 104793

source_name: genomic DNA from whole blood 104793


title: Peripheral Whole Blood 113165

source_name: genomic DNA from whole blood 113165

value: IIc


title: Peripheral Whole Blood 109483

source_name: genomic DNA from whole blood 109483

value: bi-sulphite converted genomic whole blood DNA from Case

value: Grade 3


title: Peripheral Whole Blood 101459

source_name: genomic DNA from whole blood 101459


title: Peripheral Whole Blood 104538

source_name: genomic DNA from whole blood 104538

value: Yes


title: Peripheral Whole Blood 108739

source_name: genomic DNA from whole blood 108739


title: Peripheral Whole Blood 107628

source_name: genomic DNA from whole blood 107628


title: Peripheral Whole Blood 104429

source_name: genomic DNA from whole blood 104429

value: IV


title: Peripheral Whole Blood 111359

source_name: genomic DNA from whole blood 111359

value: IIIa


title: Peripheral Whole Blood 114156

source_name: genomic DNA from whole blood 114156

value: No


title: Peripheral Whole Blood 102168

source_name: genomic DNA from whole blood 102168

value: Serous

value: Ic


title: Peripheral Whole Blood 104336

source_name: genomic DNA from whole blood 104336

value: bi-sulphite converted genomic whole blood DNA from Control


title: Peripheral Whole Blood 100894

source_name: genomic DNA from whole blood 100894

value: Endometrioid

value: Grade 2


title: Peripheral Whole Blood 100097

source_name: genomic DNA from whole blood 100097

value: Clear cell

value: Ia


title: Peripheral Whole Blood 114503

source_name: genomic DNA from whole blood 114503

value: Mucinous


title: Peripheral Whole Blood 102458

source_name: genomic DNA from whole blood 102458


title: Peripheral Whole Blood 100283

source_name: genomic DNA from whole blood 100283


title: Peripheral Whole Blood 102255

source_name: genomic DNA from whole blood 102255

value: IIIc


title: Peripheral Whole Blood 107745

source_name: genomic DNA from whole blood 107745


title: Peripheral Whole Blood 104671

source_name: genomic DNA from whole blood 104671

value: Grade 1

value: Grn 82

value: Grn 77


title: Peripheral Whole Blood 100466

source_name: genomic DNA from whole blood 100466

value: bi-sulphite converted genomic whole blood DNA from Case


title: Peripheral Whole Blood 108007

source_name: genomic DNA from whole blood 108007

value: Yes


title: Peripheral Whole Blood 107600

source_name: genomic DNA from whole blood 107600


title: Peripheral Whole Blood 106297

source_name: genomic DNA from whole blood 106297


title: Peripheral Whole Blood 104937

source_name: genomic DNA from whole blood 104937

value: Cystadenocarcinoma

value: Grade 3


title: Peripheral Whole Blood 121154

source_name: genomic DNA from whole blood 121154

value: No


title: Peripheral Whole Blood 105156

source_name: genomic DNA from whole blood 105156


title: Peripheral Whole Blood 109731

source_name: genomic DNA from whole blood 109731

value: Mixed Mullerian tumour


title: Peripheral Whole Blood 120155

source_name: genomic DNA from whole blood 120155

value: Serous

value: Ic


title: Peripheral Whole Blood 108860

source_name: genomic DNA from whole blood 108860

value: bi-sulphite converted genomic whole blood DNA from Control


title: Peripheral Whole Blood 112185

source_name: genomic DNA from whole blood 112185

value: Over 75


title: Peripheral Whole Blood 111644

source_name: genomic DNA from whole blood 111644

value: Clear cell

value: IIb


title: Peripheral Whole Blood 109679

source_name: genomic DNA from whole blood 109679


title: Peripheral Whole Blood 109214

source_name: genomic DNA from whole blood 109214


title: Peripheral Whole Blood 103875

source_name: genomic DNA from whole blood 103875

value: Grade 2


title: Peripheral Whole Blood 109514

source_name: genomic DNA from whole blood 109514

value: IIc


title: Peripheral Whole Blood 109331

source_name: genomic DNA from whole blood 109331

value: IIIc


title: Peripheral Whole Blood 118586

source_name: genomic DNA from whole blood 118586

value: Ib


title: Peripheral Whole Blood 107344

source_name: genomic DNA from whole blood 107344


title: Peripheral Whole Blood 118414

source_name: genomic DNA from whole blood 118414

value: IIIa


title: Peripheral Whole Blood 109452

source_name: genomic DNA from whole blood 109452

value: bi-sulphite converted genomic whole blood DNA from Case


title: Peripheral Whole Blood 114579

source_name: genomic DNA from whole blood 114579


title: Peripheral Whole Blood 112214

source_name: genomic DNA from whole blood 112214

value: Endometrioid

value: IIIb

value: Yes


title: Peripheral Whole Blood 102180

source_name: genomic DNA from whole blood 102180

value: Grade 3

value: No


title: Peripheral Whole Blood 116358

source_name: genomic DNA from whole blood 116358

value: IV


title: Peripheral Whole Blood 102193

source_name: genomic DNA from whole blood 102193

value: Mucinous

value: Ic


title: Peripheral Whole Blood 100508

source_name: genomic DNA from whole blood 100508

value: Serous


title: Peripheral Whole Blood 111473

source_name: genomic DNA from whole blood 111473

value: Over 75

value: IIa


title: Peripheral Whole Blood 108790

source_name: genomic DNA from whole blood 108790

value: bi-sulphite converted genomic whole blood DNA from Control


title: Peripheral Whole Blood 102852

source_name: genomic DNA from whole blood 102852


title: Peripheral Whole Blood 111099

source_name: genomic DNA from whole blood 111099


title: Peripheral Whole Blood 104489

source_name: genomic DNA from whole blood 104489


title: Peripheral Whole Blood 106940

source_name: genomic DNA from whole blood 106940


title: Peripheral Whole Blood 111064

source_name: genomic DNA from whole blood 111064

value: Ia

value: Grade 2


title: Peripheral Whole Blood 113571

source_name: genomic DNA from whole blood 113571


title: Peripheral Whole Blood 107408

source_name: genomic DNA from whole blood 107408


title: Peripheral Whole Blood 102196

source_name: genomic DNA from whole blood 102196

value: IIb


title: Peripheral Whole Blood 112198

source_name: genomic DNA from whole blood 112198

value: IIIc


title: Peripheral Whole Blood 113145

source_name: genomic DNA from whole blood 113145

value: bi-sulphite converted genomic whole blood DNA from Case


title: Peripheral Whole Blood 107889

source_name: genomic DNA from whole blood 107889


title: Peripheral Whole Blood 120420

source_name: genomic DNA from whole blood 120420


title: Peripheral Whole Blood 108702

source_name: genomic DNA from whole blood 108702


title: Peripheral Whole Blood 104490

source_name: genomic DNA from whole blood 104490


title: Peripheral Whole Blood 104345

source_name: genomic DNA from whole blood 104345


title: Peripheral Whole Blood 107512

source_name: genomic DNA from whole blood 107512

value: Endometrioid


title: Peripheral Whole Blood 109092

source_name: genomic DNA from whole blood 109092


title: Peripheral Whole Blood 112264

source_name: genomic DNA from whole blood 112264


title: Peripheral Whole Blood 123698

source_name: genomic DNA from whole blood 123698


title: Peripheral Whole Blood 115628

source_name: genomic DNA from whole blood 115628


title: Peripheral Whole Blood 118521

source_name: genomic DNA from whole blood 118521

value: Clear cell


title: Peripheral Whole Blood 114969

source_name: genomic DNA from whole blood 114969


title: Peripheral Whole Blood 104962

source_name: genomic DNA from whole blood 104962

value: Carcinosarcoma

value: Yes


title: Peripheral Whole Blood 116245

source_name: genomic DNA from whole blood 116245

value: Grade 3

value: No


title: Peripheral Whole Blood 107808

source_name: genomic DNA from whole blood 107808


title: Peripheral Whole Blood 112455

source_name: genomic DNA from whole blood 112455


title: Peripheral Whole Blood 109763

source_name: genomic DNA from whole blood 109763


title: Peripheral Whole Blood 116475

source_name: genomic DNA from whole blood 116475


title: Peripheral Whole Blood 111844

source_name: genomic DNA from whole blood 111844

value: IV


title: Peripheral Whole Blood 114144

source_name: genomic DNA from whole blood 114144


title: Peripheral Whole Blood 114967

source_name: genomic DNA from whole blood 114967


title: Peripheral Whole Blood 112349

source_name: genomic DNA from whole blood 112349

value: Ic


title: Peripheral Whole Blood 113199

source_name: genomic DNA from whole blood 113199


title: Peripheral Whole Blood 109887

source_name: genomic DNA from whole blood 109887


title: Peripheral Whole Blood 109539

source_name: genomic DNA from whole blood 109539


title: Peripheral Whole Blood 102156

source_name: genomic DNA from whole blood 102156

value: Serous


title: Peripheral Whole Blood 104278

source_name: genomic DNA from whole blood 104278

value: Mucinous


title: Peripheral Whole Blood 102147

source_name: genomic DNA from whole blood 102147


title: Peripheral Whole Blood 112297

source_name: genomic DNA from whole blood 112297


title: Peripheral Whole Blood 100909

source_name: genomic DNA from whole blood 100909

value: IIIb


title: Peripheral Whole Blood 109583

source_name: genomic DNA from whole blood 109583

value: bi-sulphite converted genomic whole blood DNA from Control


title: Peripheral Whole Blood 113160

source_name: genomic DNA from whole blood 113160


title: Peripheral Whole Blood 107709

source_name: genomic DNA from whole blood 107709


title: Peripheral Whole Blood 112004

source_name: genomic DNA from whole blood 112004


title: Peripheral Whole Blood 109771

source_name: genomic DNA from whole blood 109771


title: Peripheral Whole Blood 116281

source_name: genomic DNA from whole blood 116281


title: Peripheral Whole Blood 104047

source_name: genomic DNA from whole blood 104047


title: Peripheral Whole Blood 112065

source_name: genomic DNA from whole blood 112065


title: Peripheral Whole Blood 104976

source_name: genomic DNA from whole blood 104976

value: IIa


title: Peripheral Whole Blood 109627

source_name: genomic DNA from whole blood 109627


title: Peripheral Whole Blood 118610

source_name: genomic DNA from whole blood 118610

value: Over 75

value: Ia

value: Grade 1


title: Peripheral Whole Blood 104517

source_name: genomic DNA from whole blood 104517

value: bi-sulphite converted genomic whole blood DNA from Case


title: Peripheral Whole Blood 117687

source_name: genomic DNA from whole blood 117687

value: IIIa


title: Peripheral Whole Blood 109084

source_name: genomic DNA from whole blood 109084


title: Peripheral Whole Blood 115699

source_name: genomic DNA from whole blood 115699


title: Peripheral Whole Blood 113216

source_name: genomic DNA from whole blood 113216

value: III


title: Peripheral Whole Blood 112545

source_name: genomic DNA from whole blood 112545

value: Endometrioid

value: IIb


title: Peripheral Whole Blood 111432

source_name: genomic DNA from whole blood 111432

value: Grade 3

value: Yes


title: Peripheral Whole Blood 109811

source_name: genomic DNA from whole blood 109811

value: No


title: Peripheral Whole Blood 112223

source_name: genomic DNA from whole blood 112223


title: Peripheral Whole Blood 109591

source_name: genomic DNA from whole blood 109591


title: Peripheral Whole Blood 104637

source_name: genomic DNA from whole blood 104637


title: Peripheral Whole Blood 109499

source_name: genomic DNA from whole blood 109499


title: Peripheral Whole Blood 111268

source_name: genomic DNA from whole blood 111268

value: IIIc


title: Peripheral Whole Blood 104721

source_name: genomic DNA from whole blood 104721

value: Ic


title: Peripheral Whole Blood 100781

source_name: genomic DNA from whole blood 100781

value: Serous and Endometrioid

value: Grade 2


title: Peripheral Whole Blood 111393

source_name: genomic DNA from whole blood 111393

value: Serous


title: Peripheral Whole Blood 109819

source_name: genomic DNA from whole blood 109819

value: bi-sulphite converted genomic whole blood DNA from Control


title: Peripheral Whole Blood 109519

source_name: genomic DNA from whole blood 109519


title: Peripheral Whole Blood 107548

source_name: genomic DNA from whole blood 107548


title: Peripheral Whole Blood 114344

source_name: genomic DNA from whole blood 114344


title: Peripheral Whole Blood 109871

source_name: genomic DNA from whole blood 109871


title: Peripheral Whole Blood 109024

source_name: genomic DNA from whole blood 109024


title: Peripheral Whole Blood 114587

source_name: genomic DNA from whole blood 114587


title: Peripheral Whole Blood 104711

source_name: genomic DNA from whole blood 104711


title: Peripheral Whole Blood 104392

source_name: genomic DNA from whole blood 104392


title: Peripheral Whole Blood 109767

source_name: genomic DNA from whole blood 109767


title: Peripheral Whole Blood 111920

source_name: genomic DNA from whole blood 111920

value: Adenocarcinoma NOS


title: Peripheral Whole Blood 109671

source_name: genomic DNA from whole blood 109671


title: Peripheral Whole Blood 104080

source_name: genomic DNA from whole blood 104080

value: Ia


title: Peripheral Whole Blood 109879

source_name: genomic DNA from whole blood 109879

value: Mucinous

value: Grade 1


title: Peripheral Whole Blood 104408

source_name: genomic DNA from whole blood 104408


title: Peripheral Whole Blood 118444

source_name: genomic DNA from whole blood 118444

value: bi-sulphite converted genomic whole blood DNA from Case


title: Peripheral Whole Blood 100927

source_name: genomic DNA from whole blood 100927

value: Over 75

value: IIIb


title: Peripheral Whole Blood 111141

source_name: genomic DNA from whole blood 111141


title: Peripheral Whole Blood 115952

source_name: genomic DNA from whole blood 115952

value: Endometrioid


title: Peripheral Whole Blood 104158

source_name: genomic DNA from whole blood 104158


title: Peripheral Whole Blood 108015

source_name: genomic DNA from whole blood 108015

value: Grade 3


title: Peripheral Whole Blood 109639

source_name: genomic DNA from whole blood 109639


title: Peripheral Whole Blood 108273

source_name: genomic DNA from whole blood 108273

value: Yes


title: Peripheral Whole Blood 113028

source_name: genomic DNA from whole blood 113028

value: No


title: Peripheral Whole Blood 108201

source_name: genomic DNA from whole blood 108201


title: Peripheral Whole Blood 117957

source_name: genomic DNA from whole blood 117957

value: IIIc


title: Peripheral Whole Blood 104283

source_name: genomic DNA from whole blood 104283

value: Clear cell


title: Peripheral Whole Blood 109743

source_name: genomic DNA from whole blood 109743


title: Peripheral Whole Blood 113392

source_name: genomic DNA from whole blood 113392


title: Peripheral Whole Blood 112129

source_name: genomic DNA from whole blood 112129


title: Peripheral Whole Blood 115965

source_name: genomic DNA from whole blood 115965


title: Peripheral Whole Blood 109579

source_name: genomic DNA from whole blood 109579


title: Peripheral Whole Blood 103560

source_name: genomic DNA from whole blood 103560

value: Grn 0

value: Grn 49


title: Peripheral Whole Blood 113334

source_name: genomic DNA from whole blood 113334

value: Serous

value: Ic


title: Peripheral Whole Blood 118319

source_name: genomic DNA from whole blood 118319


title: Peripheral Whole Blood 100699

source_name: genomic DNA from whole blood 100699

value: Grade 2


title: Peripheral Whole Blood 102199

source_name: genomic DNA from whole blood 102199

value: IIc


title: Peripheral Whole Blood 118125

source_name: genomic DNA from whole blood 118125


title: Peripheral Whole Blood 109176

source_name: genomic DNA from whole blood 109176

value: bi-sulphite converted genomic whole blood DNA from Control


title: Peripheral Whole Blood 104613

source_name: genomic DNA from whole blood 104613

value: Mucinous

value: Ia

value: Grade 1


title: Peripheral Whole Blood 106764

source_name: genomic DNA from whole blood 106764

value: bi-sulphite converted genomic whole blood DNA from Case

value: Ib


title: Peripheral Whole Blood 109284

source_name: genomic DNA from whole blood 109284

value: Over 75


title: Peripheral Whole Blood 100374

source_name: genomic DNA from whole blood 100374

value: Yes


title: Peripheral Whole Blood 113010

source_name: genomic DNA from whole blood 113010

value: Grade 3

value: No


title: Peripheral Whole Blood 104916

source_name: genomic DNA from whole blood 104916


title: Peripheral Whole Blood 100412

source_name: genomic DNA from whole blood 100412


title: Peripheral Whole Blood 100400

source_name: genomic DNA from whole blood 100400


title: Peripheral Whole Blood 109559

source_name: genomic DNA from whole blood 109559


title: Peripheral Whole Blood 104968

source_name: genomic DNA from whole blood 104968

value: Endometrioid


title: Peripheral Whole Blood 115800

source_name: genomic DNA from whole blood 115800


title: Peripheral Whole Blood 114320

source_name: genomic DNA from whole blood 114320


title: Peripheral Whole Blood 111091

source_name: genomic DNA from whole blood 111091


title: Peripheral Whole Blood 112443

source_name: genomic DNA from whole blood 112443


title: Peripheral Whole Blood 112053

source_name: genomic DNA from whole blood 112053


title: Peripheral Whole Blood 115871

source_name: genomic DNA from whole blood 115871


title: Peripheral Whole Blood 102173

source_name: genomic DNA from whole blood 102173


title: Peripheral Whole Blood 109140

source_name: genomic DNA from whole blood 109140

value: IIIc


title: Peripheral Whole Blood 112248

source_name: genomic DNA from whole blood 112248


title: Peripheral Whole Blood 115514

source_name: genomic DNA from whole blood 115514


title: Peripheral Whole Blood 104218

source_name: genomic DNA from whole blood 104218


title: Peripheral Whole Blood 114553

source_name: genomic DNA from whole blood 114553


title: Peripheral Whole Blood 104295

source_name: genomic DNA from whole blood 104295

value: III


title: Peripheral Whole Blood 112480

source_name: genomic DNA from whole blood 112480

value: Clear cell


title: Peripheral Whole Blood 112111

source_name: genomic DNA from whole blood 112111


title: Peripheral Whole Blood 102356

source_name: genomic DNA from whole blood 102356

value: Serous

value: Ic


title: Peripheral Whole Blood 109795

source_name: genomic DNA from whole blood 109795


title: Peripheral Whole Blood 111257

source_name: genomic DNA from whole blood 111257


title: Peripheral Whole Blood 109248

source_name: genomic DNA from whole blood 109248

value: Grn 933

value: Grn 435


title: Peripheral Whole Blood 107091

source_name: genomic DNA from whole blood 107091

value: Not graded


title: Peripheral Whole Blood 104553

source_name: genomic DNA from whole blood 104553

value: Mucinous

value: Ia


title: Peripheral Whole Blood 100377

source_name: genomic DNA from whole blood 100377

value: bi-sulphite converted genomic whole blood DNA from Case

value: Grade 1


title: Peripheral Whole Blood 103569

source_name: genomic DNA from whole blood 103569

value: bi-sulphite converted genomic whole blood DNA from Control


title: Peripheral Whole Blood 104878

source_name: genomic DNA from whole blood 104878

value: IIb

value: Grade 2

value: Yes


title: Peripheral Whole Blood 109867

source_name: genomic DNA from whole blood 109867

value: No


title: Peripheral Whole Blood 120689

source_name: genomic DNA from whole blood 120689

value: IIIc

value: Grade 3


title: Peripheral Whole Blood 111785

source_name: genomic DNA from whole blood 111785

value: Carcinosarcoma

value: IV


title: Peripheral Whole Blood 111612

source_name: genomic DNA from whole blood 111612

value: Serous


title: Peripheral Whole Blood 116382

source_name: genomic DNA from whole blood 116382


title: Peripheral Whole Blood 108770

source_name: genomic DNA from whole blood 108770


title: Peripheral Whole Blood 120247

source_name: genomic DNA from whole blood 120247


title: Peripheral Whole Blood 104264

source_name: genomic DNA from whole blood 104264


title: Peripheral Whole Blood 114636

source_name: genomic DNA from whole blood 114636


title: Peripheral Whole Blood 118345

source_name: genomic DNA from whole blood 118345

value: Over 75


title: Peripheral Whole Blood 114152

source_name: genomic DNA from whole blood 114152


title: Peripheral Whole Blood 112553

source_name: genomic DNA from whole blood 112553

value: Clear cell


title: Peripheral Whole Blood 114675

source_name: genomic DNA from whole blood 114675


title: Peripheral Whole Blood 112193

source_name: genomic DNA from whole blood 112193

value: Ib


title: Peripheral Whole Blood 102259

source_name: genomic DNA from whole blood 102259

value: Mucinous

value: IIa


title: Peripheral Whole Blood 116020

source_name: genomic DNA from whole blood 116020


title: Peripheral Whole Blood 100983

source_name: genomic DNA from whole blood 100983

value: bi-sulphite converted genomic whole blood DNA from Case


title: Peripheral Whole Blood 123202

source_name: genomic DNA from whole blood 123202

value: IIIb


title: Peripheral Whole Blood 116048

source_name: genomic DNA from whole blood 116048

value: bi-sulphite converted genomic whole blood DNA from Control


title: Peripheral Whole Blood 112268

source_name: genomic DNA from whole blood 112268


title: Peripheral Whole Blood 112435

source_name: genomic DNA from whole blood 112435


title: Peripheral Whole Blood 111628

source_name: genomic DNA from whole blood 111628

value: Adenocarcinoma NOS


title: Peripheral Whole Blood 121193

source_name: genomic DNA from whole blood 121193

value: Endometrioid and Clear cell

value: Ic


title: Peripheral Whole Blood 107951

source_name: genomic DNA from whole blood 107951

value: Grade 2

value: No

value: Yes


title: Peripheral Whole Blood 117833

source_name: genomic DNA from whole blood 117833

value: IIIc


title: Peripheral Whole Blood 111201

source_name: genomic DNA from whole blood 111201


title: Peripheral Whole Blood 109791

source_name: genomic DNA from whole blood 109791


title: Peripheral Whole Blood 112471

source_name: genomic DNA from whole blood 112471


title: Peripheral Whole Blood 113968

source_name: genomic DNA from whole blood 113968


title: Peripheral Whole Blood 111072

source_name: genomic DNA from whole blood 111072


title: Peripheral Whole Blood 120083

source_name: genomic DNA from whole blood 120083

value: Grade 3


title: Peripheral Whole Blood 100799

source_name: genomic DNA from whole blood 100799

value: Serous


title: Peripheral Whole Blood 111180

source_name: genomic DNA from whole blood 111180


title: Peripheral Whole Blood 114559

source_name: genomic DNA from whole blood 114559


title: Peripheral Whole Blood 114224

source_name: genomic DNA from whole blood 114224

value: Grade 1


title: Peripheral Whole Blood 116016

source_name: genomic DNA from whole blood 116016


title: Peripheral Whole Blood 118437

source_name: genomic DNA from whole blood 118437


title: Peripheral Whole Blood 101554

source_name: genomic DNA from whole blood 101554


title: Peripheral Whole Blood 111464

source_name: genomic DNA from whole blood 111464


title: Peripheral Whole Blood 112102

source_name: genomic DNA from whole blood 112102


title: Peripheral Whole Blood 115680

source_name: genomic DNA from whole blood 115680


title: Peripheral Whole Blood 114752

source_name: genomic DNA from whole blood 114752


title: Peripheral Whole Blood 111370

source_name: genomic DNA from whole blood 111370

value: Over 75

value: Endometrioid


title: Peripheral Whole Blood 120347

source_name: genomic DNA from whole blood 120347


title: Peripheral Whole Blood 114071

source_name: genomic DNA from whole blood 114071


title: Peripheral Whole Blood 118623

source_name: genomic DNA from whole blood 118623

value: Ia


title: Peripheral Whole Blood 111919

source_name: genomic DNA from whole blood 111919

value: Serous - FT

value: IV


title: Peripheral Whole Blood 120648

source_name: genomic DNA from whole blood 120648

value: bi-sulphite converted genomic whole blood DNA from Case

value: Clear cell

value: Ib


title: Peripheral Whole Blood 101559

source_name: genomic DNA from whole blood 101559

value: bi-sulphite converted genomic whole blood DNA from Control


title: Peripheral Whole Blood 113606

source_name: genomic DNA from whole blood 113606


title: Peripheral Whole Blood 109599

source_name: genomic DNA from whole blood 109599

value: Mucinous


title: Peripheral Whole Blood 101838

source_name: genomic DNA from whole blood 101838

value: Ic

value: Grade 2


title: Peripheral Whole Blood 112132

source_name: genomic DNA from whole blood 112132

value: No


title: Peripheral Whole Blood 120652

source_name: genomic DNA from whole blood 120652

value: Not recorded

value: Yes


title: Peripheral Whole Blood 101891

source_name: genomic DNA from whole blood 101891


title: Peripheral Whole Blood 120408

source_name: genomic DNA from whole blood 120408

value: Serous

value: IIIc

value: Grade 3


title: Peripheral Whole Blood 116040

source_name: genomic DNA from whole blood 116040


title: Peripheral Whole Blood 111956

source_name: genomic DNA from whole blood 111956

value: IIIb


title: Peripheral Whole Blood 114728

source_name: genomic DNA from whole blood 114728


title: Peripheral Whole Blood 111972

source_name: genomic DNA from whole blood 111972


title: Peripheral Whole Blood 113032

source_name: genomic DNA from whole blood 113032

value: Ia


title: Peripheral Whole Blood 108509

source_name: genomic DNA from whole blood 108509

value: Endometrioid


title: Peripheral Whole Blood 102342

source_name: genomic DNA from whole blood 102342

value: IIa


title: Peripheral Whole Blood 120371

source_name: genomic DNA from whole blood 120371

value: bi-sulphite converted genomic whole blood DNA from Case


title: Peripheral Whole Blood 116036

source_name: genomic DNA from whole blood 116036


title: Peripheral Whole Blood 112140

source_name: genomic DNA from whole blood 112140


title: Peripheral Whole Blood 120673

source_name: genomic DNA from whole blood 120673


title: Peripheral Whole Blood 115573

source_name: genomic DNA from whole blood 115573


title: Peripheral Whole Blood 113940

source_name: genomic DNA from whole blood 113940


title: Peripheral Whole Blood 116422

source_name: genomic DNA from whole blood 116422

value: IV


title: Peripheral Whole Blood 113017

source_name: genomic DNA from whole blood 113017

value: Not graded


title: Peripheral Whole Blood 102382

source_name: genomic DNA from whole blood 102382


title: Peripheral Whole Blood 113943

source_name: genomic DNA from whole blood 113943

value: bi-sulphite converted genomic whole blood DNA from Control


title: Peripheral Whole Blood 112189

source_name: genomic DNA from whole blood 112189


title: Peripheral Whole Blood 113980

source_name: genomic DNA from whole blood 113980


title: Peripheral Whole Blood 115918

source_name: genomic DNA from whole blood 115918

value: IIc


title: Peripheral Whole Blood 111987

source_name: genomic DNA from whole blood 111987


title: Peripheral Whole Blood 102412

source_name: genomic DNA from whole blood 102412

value: Over 75

value: Mixed Mullerian tumour


title: Peripheral Whole Blood 111239

source_name: genomic DNA from whole blood 111239

value: No


title: Peripheral Whole Blood 117949

source_name: genomic DNA from whole blood 117949

value: Mucinous

value: Ic

value: Grade 1


title: Peripheral Whole Blood 116024

source_name: genomic DNA from whole blood 116024


title: Peripheral Whole Blood 112274

source_name: genomic DNA from whole blood 112274


title: Peripheral Whole Blood 108503

source_name: genomic DNA from whole blood 108503

value: Serous

value: IIb

value: Yes


title: Peripheral Whole Blood 104838

source_name: genomic DNA from whole blood 104838


title: Peripheral Whole Blood 120191

source_name: genomic DNA from whole blood 120191

value: Clear cell

value: Ia

value: Grade 3


title: Peripheral Whole Blood 109847

source_name: genomic DNA from whole blood 109847


title: Peripheral Whole Blood 109635

source_name: genomic DNA from whole blood 109635


title: Peripheral Whole Blood 109563

source_name: genomic DNA from whole blood 109563


title: Peripheral Whole Blood 114528

source_name: genomic DNA from whole blood 114528


title: Peripheral Whole Blood 111754

source_name: genomic DNA from whole blood 111754

value: bi-sulphite converted genomic whole blood DNA from Case

value: Endometrioid

value: Grade 2


title: Peripheral Whole Blood 107797

source_name: genomic DNA from whole blood 107797


title: Peripheral Whole Blood 114716

source_name: genomic DNA from whole blood 114716

value: bi-sulphite converted genomic whole blood DNA from Control


title: Peripheral Whole Blood 101530

source_name: genomic DNA from whole blood 101530


title: Peripheral Whole Blood 111883

source_name: genomic DNA from whole blood 111883

value: Serous - FT

value: IIIc


title: Peripheral Whole Blood 111796

source_name: genomic DNA from whole blood 111796


title: Peripheral Whole Blood 114724

source_name: genomic DNA from whole blood 114724


title: Peripheral Whole Blood 114720

source_name: genomic DNA from whole blood 114720


title: Peripheral Whole Blood 118515

source_name: genomic DNA from whole blood 118515


title: Peripheral Whole Blood 116028

source_name: genomic DNA from whole blood 116028


title: Peripheral Whole Blood 111698

source_name: genomic DNA from whole blood 111698

value: Over 75

value: Serous and Endometrioid


title: Peripheral Whole Blood 104770

source_name: genomic DNA from whole blood 104770

value: Mucinous

value: No


title: Peripheral Whole Blood 104835

source_name: genomic DNA from whole blood 104835


title: Peripheral Whole Blood 109262

source_name: genomic DNA from whole blood 109262


title: Peripheral Whole Blood 117988

source_name: genomic DNA from whole blood 117988

value: IIIa

value: Grade 1


title: Peripheral Whole Blood 116032

source_name: genomic DNA from whole blood 116032


title: Peripheral Whole Blood 112313

source_name: genomic DNA from whole blood 112313


title: Peripheral Whole Blood 116986

source_name: genomic DNA from whole blood 116986

value: Serous

value: IV


title: Peripheral Whole Blood 116012

source_name: genomic DNA from whole blood 116012


title: Peripheral Whole Blood 113955

source_name: genomic DNA from whole blood 113955


title: Peripheral Whole Blood 111851

source_name: genomic DNA from whole blood 111851

value: Yes


title: Peripheral Whole Blood 114736

source_name: genomic DNA from whole blood 114736


title: Peripheral Whole Blood 100356

source_name: genomic DNA from whole blood 100356

value: Ia


title: Peripheral Whole Blood 109320

source_name: genomic DNA from whole blood 109320

value: III

value: Grade 3


title: Peripheral Whole Blood 113287

source_name: genomic DNA from whole blood 113287

value: bi-sulphite converted genomic whole blood DNA from Case


title: Peripheral Whole Blood 109552

source_name: genomic DNA from whole blood 109552


title: Peripheral Whole Blood 109899

source_name: genomic DNA from whole blood 109899

value: Grade 2


title: Peripheral Whole Blood 120063

source_name: genomic DNA from whole blood 120063

value: Ovarian cancer - no type


title: Peripheral Whole Blood 108499

source_name: genomic DNA from whole blood 108499


title: Peripheral Whole Blood 114613

source_name: genomic DNA from whole blood 114613


title: Peripheral Whole Blood 108309

source_name: genomic DNA from whole blood 108309


title: Peripheral Whole Blood 109687

source_name: genomic DNA from whole blood 109687

value: bi-sulphite converted genomic whole blood DNA from Control


title: Peripheral Whole Blood 111230

source_name: genomic DNA from whole blood 111230


title: Peripheral Whole Blood 111146

source_name: genomic DNA from whole blood 111146

value: IIIc


title: Peripheral Whole Blood 112245

source_name: genomic DNA from whole blood 112245


title: Peripheral Whole Blood 114651

source_name: genomic DNA from whole blood 114651


title: Peripheral Whole Blood 114380

source_name: genomic DNA from whole blood 114380

value: Over 75

value: Mixed Mullerian tumour


title: Peripheral Whole Blood 101998

source_name: genomic DNA from whole blood 101998


title: Peripheral Whole Blood 100432

source_name: genomic DNA from whole blood 100432


title: Peripheral Whole Blood 114590

source_name: genomic DNA from whole blood 114590


title: Peripheral Whole Blood 112496

source_name: genomic DNA from whole blood 112496

value: Endometrioid


title: Peripheral Whole Blood 102466

source_name: genomic DNA from whole blood 102466

value: No


title: Peripheral Whole Blood 108031

source_name: genomic DNA from whole blood 108031

value: Clear cell


title: Peripheral Whole Blood 109587

source_name: genomic DNA from whole blood 109587


title: Peripheral Whole Blood 111121

source_name: genomic DNA from whole blood 111121


title: Peripheral Whole Blood 114188

source_name: genomic DNA from whole blood 114188

value: Ic


title: Peripheral Whole Blood 111115

source_name: genomic DNA from whole blood 111115

value: Mucinous


title: Peripheral Whole Blood 109875

source_name: genomic DNA from whole blood 109875


title: Peripheral Whole Blood 104941

source_name: genomic DNA from whole blood 104941

value: Serous


title: Peripheral Whole Blood 120139

source_name: genomic DNA from whole blood 120139

value: Yes


title: Peripheral Whole Blood 120203

source_name: genomic DNA from whole blood 120203

value: II

value: Grade 1


title: Peripheral Whole Blood 109911

source_name: genomic DNA from whole blood 109911


title: Peripheral Whole Blood 111131

source_name: genomic DNA from whole blood 111131

value: Grade 3


title: Peripheral Whole Blood 109902

source_name: genomic DNA from whole blood 109902


title: Peripheral Whole Blood 111986

source_name: genomic DNA from whole blood 111986

value: bi-sulphite converted genomic whole blood DNA from Case


title: Peripheral Whole Blood 104502

source_name: genomic DNA from whole blood 104502


title: Peripheral Whole Blood 109352

source_name: genomic DNA from whole blood 109352


title: Peripheral Whole Blood 109643

source_name: genomic DNA from whole blood 109643


title: Peripheral Whole Blood 109683

source_name: genomic DNA from whole blood 109683


title: Peripheral Whole Blood 111811

source_name: genomic DNA from whole blood 111811


title: Peripheral Whole Blood 108495

source_name: genomic DNA from whole blood 108495

value: Adenocarcinoma NOS

value: IV


title: Peripheral Whole Blood 111373

source_name: genomic DNA from whole blood 111373

value: Ia


title: Peripheral Whole Blood 118566

source_name: genomic DNA from whole blood 118566

value: Carcinosarcoma

value: IIIb


title: Peripheral Whole Blood 111996

source_name: genomic DNA from whole blood 111996

value: IIIc


title: Peripheral Whole Blood 111572

source_name: genomic DNA from whole blood 111572

value: Mixed Mullerian tumour


title: Peripheral Whole Blood 113049

source_name: genomic DNA from whole blood 113049

value: Endometrioid

value: IIb

value: Grade 2

value: No


title: Peripheral Whole Blood 114766

source_name: genomic DNA from whole blood 114766

value: Serous and Clear cell


title: Peripheral Whole Blood 113005

source_name: genomic DNA from whole blood 113005

value: Serous

value: IIIa

value: No information

value: Yes


title: Peripheral Whole Blood 112136

source_name: genomic DNA from whole blood 112136

value: bi-sulphite converted genomic whole blood DNA from Control


title: Peripheral Whole Blood 104583

source_name: genomic DNA from whole blood 104583

value: bi-sulphite converted genomic whole blood DNA from Case

value: Clear cell

value: IIc


title: Peripheral Whole Blood 111164

source_name: genomic DNA from whole blood 111164

value: Over 75


title: Peripheral Whole Blood 111540

source_name: genomic DNA from whole blood 111540

value: IV

value: Grade 3


title: Peripheral Whole Blood 100793

source_name: genomic DNA from whole blood 100793

value: Mucinous

value: Ia

value: Grade 1


title: Peripheral Whole Blood 109645

source_name: genomic DNA from whole blood 109645


title: Peripheral Whole Blood 111221

source_name: genomic DNA from whole blood 111221


title: Peripheral Whole Blood 111133

source_name: genomic DNA from whole blood 111133


title: Peripheral Whole Blood 115541

source_name: genomic DNA from whole blood 115541

value: IIb


title: Peripheral Whole Blood 116007

source_name: genomic DNA from whole blood 116007

value: IIIb

value: No


title: Peripheral Whole Blood 118275

source_name: genomic DNA from whole blood 118275

value: Carcinosarcoma


title: Peripheral Whole Blood 119821

source_name: genomic DNA from whole blood 119821

value: Serous

value: IIIc


title: Peripheral Whole Blood 113964

source_name: genomic DNA from whole blood 113964


title: Peripheral Whole Blood 109164

source_name: genomic DNA from whole blood 109164

value: Endometrioid

value: Ic

value: Grade 2

value: Yes


title: Peripheral Whole Blood 109691

source_name: genomic DNA from whole blood 109691

value: bi-sulphite converted genomic whole blood DNA from Control


title: Peripheral Whole Blood 111871

source_name: genomic DNA from whole blood 111871

value: bi-sulphite converted genomic whole blood DNA from Case

value: Over 75


title: Peripheral Whole Blood 109567

source_name: genomic DNA from whole blood 109567


title: EBFS-EBF/Col-0-EBF; rep4

type: RNA

city: Ithaca

first: Georg

last: Jander

state: NY

address: 1 Tower Rd

country: USA

institute: Boyce Thompson Institute for Plant Research

description: 35S:EBFS reared_M. persicae_noEBF_ VS_Col-0 reared M. persicae_noEBF

hyb_protocol: Purified aRNA was fragmented at 60°C for 30 min and terminated by addition of 2x GEx Hybridization Buffer HI-RPM as described in the Agilent's two-color microarray-based gene expression analysis protocol. Hybridization, wash, and scan of microarrays were performed according to the Agilent Two-Color Microarray-Based Gene Expression Analysis.

scan_protocol: Scanning of the microarrays were performed according to the Agilent Two-Color Microarray-Based Gene Expression Analysis (Agilent Technologies Scanner G2505C US83000170). Agilent scanner settings for 8x15K slide formats were used, and data was extracted using Agilent Feature Extraction Software.

data_processing: Microarray data analysis was carried out using the LIMMA package within R. Within-array normalization was performed by the LOESS method without background subtraction. Linear modeling of arrays was performed with the lmFit function, and statistical analysis was performed using the eBayes function. Log fold-changes (LogFC) were computed and contigs with P-values ≤ 0.05 were considered to be differentially expressed (see Supplementary file on Series record).

molecule: total RNA

organism: Myzus persicae

source_name: 35S:EBFS reared aphids without EBF

label_protocol: The Amino Allyl MessageAmp II aRNA Amplification kit (Ambion) was used to prepare RNA samples for array hybridization. RNA spike-ins (Two-Color RNA Spike-In kit, Agilent) were added to each sample. Reverse transcription was performed using a T7 oligo dT primer. Following second strand synthesis and purification of cDNA, in vitro transcription was carried out with amino-allyl modified UTP. The resulting amplified RNA (aRNA) including amino-allyl modified nucleotides was used in a dye coupling reaction with the dyes Alexa Fluor 555 and 647.

growth_protocol: Myzus persicae were reared on wildtype Arabidopsis thaliana Col-0, or 35S:EBFS plants for at least six months prior to experimentation with a 16 h day (150 mmol m-2 s-1 at 24 °C) and an 8 h night (19 °C) at 50% relative humidity.

extract_protocol: Aphid RNA was extracted using the Ribopure kit (Ambion). Aphids were homogenized in 0.5 mL Tri Reagant (Ambion) by repeatedly drawing the liquid through a 21 guage needle attached to a 1 mL syringe. RNA quantity and quality was assessed using the Nanodrop (Thermo Scientific) and Agilent bioanalyzers, respectively.

treatment_protocol: Fifty aphids treated with 1 µg EBF in hexane or hexane solvent-only control for 30 minutes.

tag: strain

value: red tobacco adapted strain

tag: phenotype

value: habituated for EBF

tag: agent

value: control

source_name: Col-0 reared aphids no EBF

value: WT = not habituated


title: HKI6F

city: Galway

first: Michael

middle: Taylor

last: Cairns

address: University Road

department: MRI

country: Ireland

institute: NUI Galway

description: Head kidney and posterior intestine were rapidly excised, frozen in liquid nitrogen, and stored at -80oC until RNA extraction and analysis.

hyb_protocol: The two cDNA samples per slide (e.g. reference cDNA Cy3 labelled and experimental cDNA Cy5 labelled) were mixed and appropriate blockers were added (sheared salmon sperm genomic DNA, poly dA). The cDNA mixture was concentrated by precipitation with 3M sodium acetate and absolute ethanol at -20oC for 30 min. followed by centrifugation at 12500 x g for 30 min. Following removal of supernatant, the cDNA pellet was resuspended in 70 µl slide hyb buffer #1 (Ambion) and was then denatured at 95oC for 2 min. Slides were placed in Pre-Hyb solution (3xSSC, 0.1 % BSA, 0.1 % SDS) in 50 ml Sarsted tubes pre-warmed @ 42 °C and pre-hybed @ 42 °C for 30 min. Slides were rinsed 3 times in water and spun dry for 3 min @ 1600rpm. The hybridisation mixture was then added to the pre-hybed microarray slide using a coverslip (Erie Scientific). Hybridisation was performed in a Genetix hybidisation chamber (Genetix, UK) at 42 °C for 16 h. Following hybridisation the slides were washed (2 x 5 min. washes using 0.2XSSC/0.1% SDS and 2 x 5 min. washes using 0.2XSSC) using an Advawash automatic washing station (Advalytix).

scan_protocol: Microarray slides were scanned in two channels (543 & 633nm) at 5 microM resolution using a confocal laser scanner (ScanArray Express, Perkin Elmer)

data_processing: TIFF image files were imported into Genepix Pro (version 5.0.1.24) (Axon instruments) for feature finding and alignment using a batch alignment process. Features were flagged as present, absent or bad by this software program and pixel intensities for feature and background were quantified. Output Genepix results (GPR) files were imported into the Genespring GX 7.3 software program (Agilent technologies). To account for dye swap, the signal channel and control channel measurements for appropriate samples were reversed. Values below 0.01 were set to 0.01. A Lowess curve was fit to the log-intensity versus log-ratio plot using 20.0% of the data to calculate the Lowess fit at each point. This curve was used to adjust the control value for each measurement. If the control channel was lower than 10 then 10 was used instead.

organism: Sparus aurata

source_name: head kidney, infected fish

label_protocol: Ten micrograms of total RNA per individual fish (control/experimental) and ten micrograms of reference RNA per slide were indirectly labelled following an "in house" protocol with the red fluorescent dye ester cyanine 5 (Cy5) and green fluorescent dye ester Cyanine 3 (Cy3) both from GE Healthcare (UK). In brief, cDNA was synthesised using Superscript III MMLV reverse transcriptase (Invitrogen) incorporating aminoallyl dUTP (Sigma Aldrich). Synthesis took place at 42 oC for 2 hours. RNA was hydrolysed with 10M NaOH/0.5M EDTA for 15 minutes and the reaction was then neutralised with 1M HEPES. Reverse transcription reactions were purified using Microcon 30 columns (Millipore, UK) according to manufacturer~s instructions. Purified cDNAs were dried using a vacuum concentrator (Eppendorf) and were then resuspended in 0.1M sodium bicarbonate buffer. Cy dyes were resuspended in the same buffer and coupling to the Cy dye ester took place in the dark for 2 hours at room temperature. The removal of unincorporated dye was performed using the Illustra CyScribe GFX purification kit (GE Healthcare). Labelled cDNA samples were tested for successful dye incorporation using a Nanodrop spectrophotometer (Nanodrop technologies).

growth_protocol: Gilthead sea bream were checked for the absence of the parasite and acclimated to the experimental conditions two weeks before the beginning of the experiment. Day length followed natural changes and water was heated in order to keep temperature always above 18oC, the range was 18-23 oC. Water was 5 micrometer-filtered and UV irradiated, and salinity was 37.5~. Water flow was 10L/min and oxygen content of outlet water remained higher than 85%saturation. All fish were fed daily a commercial dry pellet diet at about 1% of body weight.

extract_protocol: Qiagen RNeasy Maxi combination protocol with Qiazol reagent

treatment_protocol: One fish group was exposed to E. leei-contaminated effluent (recipient group = R). R fish (n= 66, average weight = 134 g) were placed in two replicated 200L fibre-glass tanks which were set to receive exclusively the effluent water from another tank containing 24 infected (donors = D; average weight = 127.3 g; prevalence of infection = 54%) gilthead sea bream. The D to R fish ratio was 0.8. Other 66 naïve fish were allocated in two replicated tanks (control group = CTRL) under the same conditions, but without receiving contaminated effluent. Over the course of the study, day length followed natural changes and water was heated in order to keep temperature always above 18 oC, the range was 18-23 oC. Water was 5 micrometer-filtered and UV irradiated, and salinity was 37.5~. Water flow was 10L/min and oxygen content of outlet water remained higher than 85%saturation. All fish were fed daily a commercial dry pellet diet at about 1% of body weight. Disease signs and daily mortalities were recorded throughout the experiments. The parasitic status of dead fish was checked by microscopic examination of fresh intestinal scrapings. Fish were sampled after 113 days post exposure. Feeding was stopped one day prior to the sampling to ensure that the digestive tract was empty. Head kidney and posterior intestine were rapidly excised, frozen in liquid nitrogen, and stored at -80 oC until RNA extraction and analysis.

tag: tissue

value: head kidney

tag: fish

tag: weight

tag: length

tag: tank

tag: pathogen

value: Enteromyxum leei

tag: pathogen exposure

value: infected

source_name: reference pool of all RNA (except hki1, hki2, hki3, hkc7, hkn2, hkn3, hkn4, hkn5, hkn7, intn1, intn5, intn8, hkc7, hkc8, hki1, hki2, hki3, hki6, intc3, intc5, intc6)

tag: sample type

value: reference


title: HKI4F

label_protocol: Ten micrograms of total RNA per individual fish (control/experimental) and ten micrograms of reference RNA per slide were indirectly labelled following an "in house"  protocol with the red fluorescent dye ester cyanine 5 (Cy5) and green fluorescent dye ester Cyanine 3 (Cy3) both from GE Healthcare (UK). In brief, cDNA was synthesised using Superscript III MMLV reverse transcriptase (Invitrogen) incorporating aminoallyl dUTP (Sigma Aldrich). Synthesis took place at 42 oC for 2 hours. RNA was hydrolysed with 10M NaOH/0.5M EDTA for 15 minutes and the reaction was then neutralised with 1M HEPES. Reverse transcription reactions were purified using Microcon 30 columns (Millipore, UK) according to manufacturer~s instructions. Purified cDNAs were dried using a vacuum concentrator (Eppendorf) and were then resuspended in 0.1M sodium bicarbonate buffer. Cy dyes were resuspended in the same buffer and coupling to the Cy dye ester took place in the dark for 2 hours at room temperature. The removal of unincorporated dye was performed using the Illustra CyScribe GFX purification kit (GE Healthcare). Labelled cDNA samples were tested for successful dye incorporation using a Nanodrop spectrophotometer (Nanodrop technologies).


title: Peripheral Whole Blood 101965

source_name: genomic DNA from whole blood 101965

tag: agegroupatsampledraw

tag: ageatrecruitment

value: Serous

value: III

value: Grade 3

tag: pre-treatment sample

tag: post-treatment sample

value: No

tag: bs conversion c1

tag: bs conversion c2


title: HKI5R


title: EBFS-EBF/Col-0-EBF; rep3

tag: strain


title: EBFS-EBF/Col-0-EBF; rep2

tag: phenotype


title: HKC6R

source_name: head kidney, control fish


title: HKC6F


title: HKN8F

source_name: head kidney, exposed non-infected fish

value: exposed non-infected


title: HKI5F


title: HKC5F


title: HKN8R


title: HKC3F


title: HKC4R


title: HKN5R


title: HKC4F


title: HKC5R


title: HKI4R


title: HKN6R


title: EBFS+EBF/EBFS-EBF; rep2

description: 35S:EBFS reared_M. persicae_+EBF_ VS_35S:EBFS reared M. persicae_noEBF

source_name: 35S:EBFS reared aphids with EBF

tag: agent

value: EBF


title: EBFS+EBF/EBFS-EBF; rep4


title: Col-0+EBF/EBFS+EBF; rep4

description: Col-0 reared_M. persicae_+EBF_ VS_35S:EBFS reared M. persicae_withEBF

source_name: Col-0 reared aphids with EBF

source_name: 35S:EBFS-reared aphids with EBF


title: HKC3R

tag: tissue


title: EBFS+EBF/EBFS-EBF; rep1


title: Col-0+EBF/EBFS+EBF; rep2


title: Col-0+EBF/EBFS+EBF; rep3


title: HKN5F

tag: fish


title: HKN2R

tag: weight


title: HKN2F

tag: length


title: HKN1R

tag: tank


title: HKN1F

tag: pathogen


title: HKI8R

tag: pathogen exposure


title: HKI7R

tag: sample type


title: Col-0+EBF/Col-0-EBF; rep4

description: Col-0 reared_M. persicae_+EBF_ VS_Col-0 reared M. persicae_noEBF


title: Col-0+EBF/Col-0-EBF; rep3


title: Col-0+EBF/Col-0-EBF; rep1


title: HKI7F


title: HKI6R


title: HKI8F


title: CL-AG13349-II-86yrs

status: Public on Feb 26 2010

city: Philadelphia

first: Andres

last: Kriete

state: PA

address: 3141 Chestnut St

department: School of Biomedical Engineering

institute: Drexel University

description: Culture Preparation Day 1: Cells were seeded at 9000-12000 cells per cm2. Day 2: Change to starvation medium (EMEM with 0.2% BSA and 1% L-glutamine) and incubation for 24 hours; Day 3: Aspirate the starvation medium and wash the cells with ice cold 1 x PBS. Use Qiagen lysis buffer (RLT) to collect the cell lysates and store at -80 °C.

scan_protocol: Slides were scanned at 5 µm resolution with a ScanArray 4000xl (Perkin Elmer)

data_processing: global median normalization, CodeLink Expression Analysis 4.1.0.4163

source_name: Fibroblast, NIA Repository, Coriell

extract_protocol: RNA was isolated from the cell lysate using Qiagen RNeasy mini kit according to the manufacturer’s description.

tag: gender

value: male, Karyotype:normal


title: CL-AG14251-II-68yrs


title: HKN6F


title: Col-0+EBF/Col-0-EBF; rep2


title: CL-AG13369-I-68yrs


title: CL-AG13349-I-86yrs


title: EBFS-EBF/Col-0-EBF; rep1


title: CL-AG13153-II-30yrs


title: CL-AG04064-I-92yrs


title: CL-AG14251-I-68yrs


title: CL-AG04456-I-49yrs


title: CL-AG13153-I-30yrs


title: CL-AG10803-I-22yrs


title: CL-AG13369-II-68yrs


title: CL-AG10803-II-22yrs


title: CL-AG04456-II-49yrs


title: HKC1R


title: CL-AG04054-II-29yrs


title: Col-0+EBF/EBFS+EBF; rep1


title: CL-AG04064-II-92yrs


title: HKC1F


title: EBFS+EBF/EBFS-EBF; rep3


title: Zebrafish regenerating heart after 7 days post-amputation - replicate 1 (7DPA1)

status: Public on Feb 25 2010

city: Barcelona

first: Stephanie

last: Boue

address: Dr Aiguader 88

country: Spain

institute: CMRB

description: Heart samples from heart-amputated zebrafish 7 days post-amputation.

scan_protocol: Default settings for the Affymetrix GeneChip Scanner (7G upgrade)

data_processing: Data were processed using the affy and gcrma packages of Bioconductor (Gentleman et al. 2004) in R. Briefly, data were imported in R, and normalized using the gcrma normalization. As data were obtained in 3 batches, a batch correction procedure (Johnson, W. E., C. Li, et al. 2007) was applied in order to homogenize the data.

label: biotin

organism: Danio rerio

label_protocol:
The GeneChip microarray processing was performed by the Functional Genomica Core in the Institute for Research in Biomedicine (Barcelona, Spain) according to the manufacturers protocols (Affymetrix, Santa Clara, CA) as descrived previously (Virtaneva et al., 2001).
1 to 2 µg of total RNA was used for biotin-cRNA labeling, fragmentation and hybridization onto the Affymetrix GeneChip® Zebrafish Genome Array (Affymetrix).

extract_protocol: Total RNA was extracted using TRIzol reagent (Invitrogen) after disrupting the tissue with RNAse-free pistons (BioBlock) and further homogenization by passing the suspension through a 25G needle and a 1ml syringe. An additional clean-up protocol including DNAse I digestion was performed using RNeasy Mini Kit (Qiagen).

treatment_protocol:
Wild-type AB line zebrafish were maintained at 28.5ºC by standard methods (Raya et al. 2003) in the animal facilities of the Salk Institute for Biological Studies (La Jolla, San Diego, USA) and the Biomedical Research Park in Barcelona (Spain).
Sham-operated and regenerating hearts at 1, 3, 5 and 7 days post-amputation (dpa) were harvested by pulling from the outflow tract and the sinus venosus and put into PBS. Once in PBS, the outflow tract and the atrium were removed and the ventricles were washed from blood by letting it flow into the buffer and gently pressing the tissue.

tag: protocol

value: amputated

value: heart

tag: time

value: 7 day post-amputation


title: Zebrafish regenerating heart after 5 days post-amputation - replicate 3 (5DPA3)

description: Heart samples from heart-amputated zebrafish 5 days post-amputation.

hyb_protocol: 1 to 2 µg of total RNA was used for biotin-cRNA labeling, fragmentation and hybridization onto the Affymetrix GeneChip® Zebrafish Genome Array (Affymetrix).

value: 5 day post-amputation


title: Zebrafish regenerating heart after 7 days post-amputation - replicate 2 (7DPA2)


title: Zebrafish regenerating heart after 7 days post-amputation - replicate 3 (7DPA3)


title: Zebrafish regenerating heart after 1 day post-amputation - replicate 3 (1DPA3)

description: Heart samples from heart-amputated zebrafish 1 day post amputation.

value: 1 day post-amputation


title: Zebrafish regenerating heart after 3 days post-amputation - replicate 1 (3DPA1)

description: Heart samples from heart-amputated zebrafish 3 days post amputation.

value: 3 day post-amputation


title: Zebrafish regenerating heart after 5 days post-amputation - replicate 2 (5DPA2)


title: CL-AG04054-I-29yrs


title: Zebrafish regenerating heart after 3 days post-amputation - replicate 2 (3DPA2)


title: Control heart - rep 3

description: Heart samples from control zebrafish.

source_name: Heart samples from control (not amputated) zebrafish - replicate 3

value: not amputated

value: control


title: Zebrafish regenerating heart after 5 days post-amputation - replicate 1 (5DPA1)


title: Zebrafish regenerating heart after 1 day post-amputation - replicate 1 (1DPA1)


title: Control heart - rep 2

description: Heart samples from control zebrafish.

source_name: Heart samples from control (not amputated) zebrafish - replicate 2


title: T127 BA9 Pm

status: Public on Feb 04 2010

city: Syracuse

first: Frank

middle: A

last: Middleton

address: 505 Irving Avenue

department: Neuroscience and Physiology

institute: SUNY Upstate Medical Univ

description: One of 29 samples in this series

hyb_protocol: Standard method (Affymetrix Expression Analysis Technical Manual 701021 rev 5)

data_processing: To obtain the most stringent normalization possible on the dataset, we implemented the Robust Multichip Analysis method [Irizarry et al., [2003]] for the complete set of chips derived from each brain area. These robust multi-array analysis (RMA)-normalized data were imported into GeneSpring 7.0 (Silicon Genetics) for significance analysis and pattern analysis (clustering). To obtain the most accurate cross-gene error model for subsequent statistical analyses, the individual transcript data were further normalized within each respective brain area to the mean intensity measurements of the control subject samples for that brain area and transcript.

source_name: Postmortem brain prefrontal cortex

label_protocol: Standard Two-Cycle cRNA IVT method (Affymetrix Expression Analysis Technical Manual 701021 rev 5)

extract_protocol: RNeasy (Qiagen)

tag: disease state

value: Parkinson's disease

value: male

tag: age

tag: brain region

value: Prefrontal cortex area 9


title: Zebrafish regenerating heart after 3 days post-amputation - replicate 3 (3DPA3)


title: T72 BA9 Pm

description: One of 29 samples in this series

scan_protocol: Standard method (Affymetrix Expression Analysis Technical Manual 701021 rev 5)


title: Zebrafish regenerating heart after 1 day post-amputation - replicate 2 (1DPA2)


title: Control heart - rep 1

description: Heart samples from control zebrafish.

source_name: Heart sample from control animals


title: 5498 BA9 Cm

description: One of 29 samples in this series


title: T98 BA9 Cm

description: One of 29 samples in this series


title: T55 BA9 Cm

description: One of 29 samples in this series


title: 5476 BA9 Pm

description: One of 29 samples in this series


title: 5441 BA9 Pf

description: One of 29 samples in this series

value: female


title: 5398 BA9 Cf

description: One of 29 samples in this series


title: 5138 BA9 Pm

description: One of 29 samples in this series


title: 3688 BA9 Cm

description: One of 29 samples in this series


title: 5220 BA9 Cm

description: One of 29 samples in this series


title: 3406 BA9 Cf

description: One of 29 samples in this series


title: 3543 BA9 Cf

description: One of 29 samples in this series


title: 3401 BA9 Cm

description: One of 29 samples in this series


title: 3236 BA9 Cm

description: One of 29 samples in this series


title: 2829 BA9 Cf

description: One of 29 samples in this series


title: 3276 BA9 Cm

description: One of 29 samples in this series


title: 2525 BA9 Pf

description: One of 29 samples in this series


title: 2977 BA9 Pm

description: One of 29 samples in this series


title: 3397 BA9 Cf

description: One of 29 samples in this series


title: 2685 BA9 Pm

description: One of 29 samples in this series


title: 1647 BA9 Pf

description: One of 29 samples in this series


title: 3216 BA9 Cm

description: One of 29 samples in this series


title: 2515 BA9 Pf

description: One of 29 samples in this series


title: 2729 BA9 Pm

description: One of 29 samples in this series


title: 1206 BA9 Cm

description: One of 29 samples in this series


title: 1364 BA9 Pm

description: One of 29 samples in this series


title: 1401 BA9 Pf

description: One of 29 samples in this series


title: 1516 BA9 Pf

description: One of 29 samples in this series


title: Retina wt/wt rep3

status: Public on Jan 24 2010

city: Illkirch/Strasbourg

first: Wolfgang

last: Raffelsberger

address: 1 rue Laurent Fries

department: DBGS

country: France

institute: IGBMC

description: retina free of retinal pigment epithelium (RPE)

hyb_protocol: Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2007, Affymetrix).

scan_protocol: GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner

data_processing: RMA

organism: Mus musculus

source_name: retina at age PN40

label_protocol: Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2007, Affymetrix)

growth_protocol: Animals were grown until post-natal day 40.

extract_protocol: Retinal tissue was dissected free of retinal pigment epithelium (RPE) and placed in guanidine HCL.  The samples  were subsequently disrupted and homogenized using a rotor–stator  (Polytron PT2100).  Total RNA used for microarray studies was purified  from a caesium chloride gradient produced by high-speed  ultra-centrifugation.

treatment_protocol: Animals were housed under a 12 h light/12 h dark cycle and ad-lib access to food and water. Animals were sacrificed by cervical dislocation.

value: wild type

tag: strain

value: BALB/c AJ


title: Retina ko/ko rep2

value: homozygous Nxnl1 null


title: Retina ko/ko rep1


title: Retina ko/wt rep2

value: heterozygous Nxnl1 null