title: Adipose Tissue - Low post-mortem interval - SM-2XV4P

value: Adipose Tissue

value: Adipose - Subcutaneous


title: Lung - Low post-mortem interval - SM-2AXUN

status: Public on Apr 09 2013

type: RNA

city: Cambridge

first: Kristin

last: Ardlie

state: MA

address: 7 Cambridge Center

country: USA

institute: The Broad Institute of MIT and Harvard

hyb_protocol: Affymetrix protocol

scan_protocol: Affymetrix protocol

data_processing:
Probe level data were summarized using custom probeset definitions provided by the BrainArrray resource (http://brainarray.mbni.med.umich.edu/Brainarray/Database/CustomCDF/genomic_curated_CDF.asp). RMA normalization was using Ensembl gene definitions.
probe group file: HuGene11stv1_Hs_ENSG.cdf

label: biotin

molecule: total RNA

organism: Homo sapiens

source_name: Lung - Low post-mortem interval

label_protocol: Affymetrix protocol

extract_protocol: Affymetrix protocol

tag: gender

value: Male

tag: age

value: 50-59 years

tag: rin

tag: tissue

value: Lung

value: 0-3 hours


title: Adipose Tissue - Low post-mortem interval - SM-2AXUJ

source_name: Adipose - Subcutaneous - Low post-mortem interval


title: Heart - Low post-mortem interval - SM-2AXUF

source_name: Heart - Left Ventricle - Low post-mortem interval

value: Heart

value: Heart - Left Ventricle


title: Thyroid - Low post-mortem interval - SM-2D44X

source_name: Thyroid - Low post-mortem interval

value: Thyroid


title: Patient KQ 206

type: genomic

city: shenyang

first: lu

last: yongping

address: huanggu strict puhe street

country: China

institute: key lab of liaoning province family planning research institution

description:
Patient kq_206
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

hyb_protocol: To prepare Cy3 labeled single strand products, 10μL allele-specific extension products were added 10μL mix containing 1.33×SSC, 0.067% SSC, 0.033mg/ml salmon sperm DNA, and 50nM Cy3-labeled com-tag. The mix was denatured at 94°C for 10 min and cooled 5 min on ice. Hybridization was then performed using this hybridization solution in a hybridization chamber at 60°C for 2 hours. Hybridization was followed by two washes in 2×SSC/0.1%SDS (preheated to 50°C) for 5min, proceeded by washing in 0.2×SSC/0.1%SDS for 1 min, then rinsed in dH2O and dried by centrifugation 3 min at 500 r.p.m.

scan_protocol: Microarrays were scanned at 100-μm resolution, using GenePix 4000B scanner (Axon instruments, USA), the TIFF images were imported into GenePix 6.0 software (Axon Instruments, USA).

data_processing:
The sample data table contains the mean single value of the spot subtracted the mean single of background as the spot's single (F532 Mean - B532), used for AF (allele B/allele A + allele B) calculation.
For example, for mother kq_001,  The single of allele T= (27709+27469)/2=27589, The single of allele C= (22835+32770)/2=27802.5, thus, the AF of rs3771494=27589/27859+27802.5=0.498, which is between 0.4 and 0.6, so the genotype was heterozygote.For mother kq_002, the single of allele T=(27709+32380)/2=30044.5, the single of allele C=(305+545)/2=425. The AF of rs3771494=30044.5/30044.5+425=0.985, which was >0.6, so the genotype was T homozygote.

molecule: genomic DNA

label_protocol: Multiplex PCR was amplified with the Multiplex PCR Assay Kit (Takara) in 20μL [Multiplex PCR mix2 10μL, Multiplex PCR mix1 0.2μL, 0.2μM primers, 50ng DNA]. Thermocycling was performed with an initial 60 second denaturation at 94°C followed by 35 cycles of: 30 seconds at 94°C, 90 seconds at 57°C and 90 seconds at 72°C, and final extension at 72°C for 10 minutes. The PCR product was used as a template for Multiplex allele-specific primer extension. In order to remove excess dNTPs and primers, a mix was added into 10μL PCR product, containing 2 units of shrimp alkaline phosphatase (Takara) and 4 units EXO I(Takara) with incubation at 37°C for 30 min followed by 96°C for 10 min. 10μL of treated PCR products was added to 5μL ASPE mix containing 1×Thermopol reaction buffer, 80μM of each dATP, dGTP, dTTP (Takara), 40μM Cy3-dCTP (GE), 0.2 unit of a vent exo- DNA polymerase(New England Biolabs), 25nM allele-specific primers. The extension conditions were as follows: an initial 3min at 94°C, 35 cycles of 94°C for 30 second, 60°C for 30 second 72°C for 1 min, and final extension at 72°C for 5minutes.

extract_protocol: DNA was obtained from the blood samples using TIANamp Blood DNA kit (TianGen).

tag: sample group

value: unrelated patients

tag: clinical type

value: bilateral cleft lips

value: blood


title: Patient KQ 203

description:
Patient kq_203
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 202

description:
Patient kq_202
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 204

description:
Patient kq_204
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 205

description:
Patient kq_205
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 201

description:
Patient kq_201
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 210

description:
Patient kq_210
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 200

description:
Patient kq_200
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 197

description:
Patient kq_197
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 198

description:
Patient kq_198
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 196

description:
Patient kq_196
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 199

description:
Patient kq_199
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 207

description:
Patient kq_207
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Blood - Pre-mortem blood draw - SM-2AXUD

source_name: Whole Blood - Pre-mortem blood draw

value: Blood

value: Whole Blood


title: Skin - Low post-mortem interval - SM-2D44Z

source_name: Skin - Sun Exposed (Lower leg) - Low post-mortem interval

value: Skin

value: Skin - Sun Exposed (Lower leg)


title: Muscle - Low post-mortem interval - SM-2AXUO

source_name: Muscle - Skeletal - Low post-mortem interval

value: Muscle

value: Muscle - Skeletal

value: 12-15 hours


title: Blood Vessel - Low post-mortem interval - SM-2QU3R

source_name: Artery - Tibial - Low post-mortem interval

value: Male

value: Blood Vessel

value: Artery - Tibial


title: Heart - Low post-mortem interval - SM-2AXUQ

value: 50-59 years


title: Lung - Low post-mortem interval - SM-2AXUH

value: Lung


title: Skin - Low post-mortem interval - SM-2AXUL


title: Patient KQ 193

description:
Patient kq_193
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 194

description:
Patient kq_194
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 191

description:
Patient kq_191
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 192

description:
Patient kq_192
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Blood - Low post-mortem interval - SM-2AXUC

source_name: Whole Blood - Low post-mortem interval

value: 8-11 hours


title: Patient KQ 195

description:
Patient kq_195
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 188

description:
Patient kq_188
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: cleft lip, right


title: Patient KQ 186

description:
Patient kq_186
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: unrelated patients


title: Thyroid - Low post-mortem interval - SM-2AXUG

value: Thyroid


title: Patient KQ 185

description:
Patient kq_185
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: blood


title: Patient KQ 190

description:
Patient kq_190
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: bilateral cleft lips


title: Thyroid - Low post-mortem interval - SM-2AXUK

value: 60-69 years

value: 0-3 hours


title: Patient KQ 189

description:
Patient kq_189
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 182

description:
Patient kq_182
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 183

description:
Patient kq_183
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Blood Vessel - Low post-mortem interval - SM-2AXUP


title: Muscle - Low post-mortem interval - SM-2AXUM


title: Patient KQ 180

description:
Patient kq_180
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 181

description:
Patient kq_181
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 184

description:
Patient kq_184
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Lung - Low post-mortem interval - SM-2QU4O


title: Heart - Low post-mortem interval - SM-2QU3W

value: Heart

value: Heart - Left Ventricle


title: Patient KQ 175

description:
Patient kq_175
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 177

description:
Patient kq_177
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 178

description:
Patient kq_178
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 179

description:
Patient kq_179
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 174

description:
Patient kq_174
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 176

description:
Patient kq_176
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Skin - Low post-mortem interval - SM-2AXUE

value: Skin

value: Skin - Sun Exposed (Lower leg)


title: Patient KQ 187

description:
Patient kq_187
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Adipose Tissue - Low post-mortem interval - SM-2AXUI

value: Male

value: Adipose Tissue

value: Adipose - Subcutaneous


title: Muscle - Low post-mortem interval - SM-2AXWJ

value: Female

value: Muscle

value: Muscle - Skeletal


title: Blood - Pre-mortem blood draw - SM-2AXUB

value: Blood

value: Whole Blood


title: Patient KQ 169

description:
Patient kq_169
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: unrelated patients

value: cleft lip, right


title: Patient KQ 168

description:
Patient kq_168
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: blood


title: Patient KQ 170

description:
Patient kq_170
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 172

description:
Patient kq_172
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 167

description:
Patient kq_167
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Brain - Low post-mortem interval - SM-2IZJH

source_name: Brain - Cortex - Low post-mortem interval

value: 60-69 years

value: Brain

value: Brain - Cortex

value: 8-11 hours


title: Brain - Low post-mortem interval - SM-2IZJG

source_name: Brain - Cerebellum - Low post-mortem interval

value: Brain - Cerebellum


title: Brain - Low post-mortem interval - SM-2IZJL

source_name: Brain - Spinal cord (cervical c-1) - Low post-mortem interval

value: Brain - Spinal cord (cervical c-1)

value: Not Available


title: Patient KQ 166

description:
Patient kq_166
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 173

description:
Patient kq_173
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 165

description:
Patient kq_165
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 164

description:
Patient kq_164
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 162

description:
Patient kq_162
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 161

description:
Patient kq_161
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 163

description:
Patient kq_163
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Brain - Low post-mortem interval - SM-2IZJ9

source_name: Brain - Hypothalamus - Low post-mortem interval

value: Brain - Hypothalamus


title: Patient KQ 160

description:
Patient kq_160
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 158

description:
Patient kq_158
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Brain - Low post-mortem interval - SM-2IZJ7

source_name: Brain - Nucleus accumbens (basal ganglia) - Low post-mortem interval


title: Patient KQ 171

description:
Patient kq_171
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 156

description:
Patient kq_156
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 157

description:
Patient kq_157
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Brain - Low post-mortem interval - SM-2IZJ8

source_name: Brain - Putamen (basal ganglia) - Low post-mortem interval

value: Brain - Putamen (basal ganglia)


title: Patient KQ 155

description:
Patient kq_155
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 154

description:
Patient kq_154
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 153

description:
Patient kq_153
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 152

description:
Patient kq_152
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 159

description:
Patient kq_159
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 149

description:
Patient kq_149
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 150

description:
Patient kq_150
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Brain - Low post-mortem interval - SM-2IZJ6

source_name: Brain - Caudate (basal ganglia) - Low post-mortem interval

value: Female

value: Brain - Caudate (basal ganglia)


title: Patient KQ 147

description:
Patient kq_147
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 145

description:
Patient kq_145
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: MJ04025T

city: São Paulo

first: Renato

middle: David

last: Puga

state: São Paulo

address: Dr Ovidio Pires de Campos,785

department: Instituto de Psiquiatria

country: Brazil

institute: Universidade de São Paulo

description: Gene expression

hyb_protocol: 0.5 ug of Cy3-labelled cRNA (specific activity >10.0 pmol Cy3/ug cRNA) was fragmented at 60°C for 30 minutes in a reaction volume of 50 ul containing 1x Agilent fragmentation buffer and 2x Agilent blocking agent following the manufacturers instructions. On completion of the fragmentation reaction, 50 ull of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to Agilent Whole Human Genome Oligo Microarrays (4x44K G4112F) for 17 hours at 65Â°C in a rotating Agilent hybridization oven.  After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37Â°C GE Wash buffer 2 (Agilent), then dried immediately by brief centrifugation.

scan_protocol: Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2565B) using one color scan setting for 4x44k array slides (Scan Area 61x21.6 mm, Scan resolution 5um, Dye channel is set to Green and Green PMT is set to 100%).

data_processing: The scanned images were analyzed with Feature Extraction Software 9.5.3.1 (Agilent) using default parameters (protocol GE1_107_Sep09 and Grid: 014850_D_20070820) to obtain background subtracted and spatially detrended Processed Signal intensities.  Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded. The data were normalized using log2 in gProcessedSignal and normalizeBetweenArray with limma in R.

source_name: Breast Tumor

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

extract_protocol: RNA was obtained from approximately 30mg of frozen tissues that were homogenized by the Precellys 24® equipment (Carlsbad, California, USA). Afterwards, the supernatant was used for purification of total RNA, using RNeasy Mini kit (Qiagen, Venlo, the Netherlands), according to the manufacturer's protocol. RNA was quantified using a NanoDrop-1000 spectrophotometer and quality was monitored with the Agilent 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA).

value: Breast Tumor

tag: tumor subclassification

value: LumA

tag: tp53 mutation status

value: NEG

tag: brca1 mutation status

tag: brca2 mutation status

tag: her2 status

tag: pr status

value: POS

tag: er status

tag: mutatio type

value: NonPathogenic

value: female

value: Breast tumour sample


title: MJ04028T

description: Gene expression


title: Brain - Low post-mortem interval - SM-2IZJ3

source_name: Brain - Substantia nigra - Low post-mortem interval

value: 60-69 years

value: Brain

value: Brain - Substantia nigra


title: Patient KQ 151

description:
Patient kq_151
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: unrelated patients

value: cleft lip, right

value: blood


title: Patient KQ 148

description:
Patient kq_148
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Brain - Low post-mortem interval - SM-2IZJB

source_name: Brain - Cerebellar Hemisphere - Low post-mortem interval

value: Brain - Cerebellar Hemisphere

value: Not Available


title: MJ04020T

description: Gene expression


title: Brain - Low post-mortem interval - SM-2M49D

source_name: Brain - Hippocampus - Low post-mortem interval

value: Female

value: Brain - Hippocampus


title: Patient KQ 142

description:
Patient kq_142
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: MJ04027T

description: Gene expression

value: Breast Tumor


title: Brain - Low post-mortem interval - SM-2IZJ4

source_name: Brain - Anterior cingulate cortex (BA24) - Low post-mortem interval


title: Brain - Low post-mortem interval - SM-2IZJ5

source_name: Brain - Amygdala - Low post-mortem interval

value: Brain - Amygdala


title: MJ04019T

description: Gene expression

value: LumA

value: NEG


title: Patient KQ 144

description:
Patient kq_144
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Blood - Low post-mortem interval - SM-2AXVX

value: Blood

value: Whole Blood

value: 4-7 hours


title: Brain - Low post-mortem interval - SM-2IZJA

source_name: Brain - Frontal Cortex (BA9) - Low post-mortem interval

value: 60-69 years

value: Brain - Frontal Cortex (BA9)


title: MJ04013T

description: Gene expression

value: POS

value: NonPathogenic

value: female

value: Breast tumour sample


title: MJ04015T

description: Gene expression


title: Patient KQ 141

description:
Patient kq_141
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: unrelated patients

value: cleft lip, right

value: blood


title: Thyroid - Low post-mortem interval - SM-2AXUV

source_name: Thyroid - Low post-mortem interval

value: Male

value: 50-59 years

value: Thyroid

value: 0-3 hours


title: MJ04011T

description: Gene expression

value: Breast Tumor

value: LumB

value: NEG

value: Unconclusive


title: Blood Vessel - Low post-mortem interval - SM-2QU3Z

source_name: Artery - Tibial - Low post-mortem interval

value: Blood Vessel

value: Artery - Tibial


title: Patient KQ 140

description:
Patient kq_140
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 146

description:
Patient kq_146
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 143

description:
Patient kq_143
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 139

description:
Patient kq_139
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Muscle - Low post-mortem interval - SM-2AXUZ

source_name: Muscle - Skeletal - Low post-mortem interval

value: Muscle

value: Muscle - Skeletal


title: Patient KQ 138

description:
Patient kq_138
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: MJ04012T

description: Gene expression

value: POS

value: female


title: Patient KQ 136

description:
Patient kq_136
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: unrelated patients


title: Patient KQ 134

description:
Patient kq_134
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: cleft lip, right


title: Patient KQ 131

description:
Patient kq_131
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: blood


title: Patient KQ 130

description:
Patient kq_130
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 135

description:
Patient kq_135
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 132

description:
Patient kq_132
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 133

description:
Patient kq_133
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 129

description:
Patient kq_129
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 128

description:
Patient kq_128
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: cleft lip, left


title: MJ04005T

description: Gene expression

value: LumA

value: Breast tumour sample


title: Patient KQ 137

description:
Patient kq_137
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 127

description:
Patient kq_127
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: MJ02048T

description: Gene expression

value: Pathogenic


title: Patient KQ 126

description:
Patient kq_126
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 125

description:
Patient kq_125
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Heart - Low post-mortem interval - SM-2AXUU

source_name: Heart - Left Ventricle - Low post-mortem interval

value: Male

value: 50-59 years

value: Heart

value: Heart - Left Ventricle

value: 0-3 hours


title: Skin - Low post-mortem interval - SM-2QU3F

source_name: Skin - Sun Exposed (Lower leg) - Low post-mortem interval

value: Skin

value: Skin - Sun Exposed (Lower leg)


title: MJ02039T

description: Gene expression

value: Breast Tumor

value: NEG


title: MJ04010T

description: Gene expression

value: TrNeg

value: POS

value: female


title: MJ02037T

description: Gene expression

value: Unconclusive


title: Thyroid - Low post-mortem interval - SM-2AXUT

value: Female

value: 60-69 years

value: Thyroid


title: MJ02036T

description: Gene expression

value: LumB

value: NonPathogenic

value: Breast tumour sample


title: Lung - Low post-mortem interval - SM-2AXUY

source_name: Lung - Low post-mortem interval

value: Male

value: 50-59 years

value: Lung


title: MJ02034T

description: Gene expression

value: Pathogenic


title: Patient KQ 124

description:
Patient kq_124
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: unrelated patients

value: cleft lip, left

value: blood


title: MJ02038T

description: Gene expression

value: Breast Tumor

value: HER

value: NEG


title: Blood - Pre-mortem blood draw - SM-2AXV8

source_name: Whole Blood - Pre-mortem blood draw

value: Blood

value: Whole Blood


title: Blood Vessel - Low post-mortem interval - SM-2QU3B

value: Female

value: 60-69 years

value: Blood Vessel

value: Artery - Tibial

value: 0-3 hours


title: Muscle - Low post-mortem interval - SM-2AXUX

value: Muscle

value: Muscle - Skeletal


title: Lung - Low post-mortem interval - SM-2AXUW

value: Lung


title: Heart - Low post-mortem interval - SM-2AXV1

value: Heart

value: Heart - Left Ventricle


title: Patient KQ 122

description:
Patient kq_122
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: unrelated patients

value: cleft lip, left


title: Patient KQ 121

description:
Patient kq_121
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: blood


title: Patient KQ 123

description:
Patient kq_123
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 119

description:
Patient kq_119
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 118

description:
Patient kq_118
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: MJ02032T

description: Gene expression

value: Breast Tumor

value: LumA

value: POS

value: Pathogenic

value: female

value: Breast tumour sample


title: Patient KQ 116

description:
Patient kq_116
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 115

description:
Patient kq_115
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 114

description:
Patient kq_114
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 117

description:
Patient kq_117
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: MJ02031T

description: Gene expression

value: NEG


title: Skin - Low post-mortem interval - SM-2AXUS

value: Female

value: 60-69 years

value: Skin

value: Skin - Sun Exposed (Lower leg)


title: Patient KQ 112

description:
Patient kq_112
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 109

description:
Patient kq_109
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 110

description:
Patient kq_110
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 111

description:
Patient kq_111
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 113

description:
Patient kq_113
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: MJ02028T

description: Gene expression

value: NonPathogenic


title: MJ02033T

description: Gene expression

value: TrNeg


title: MJ02026T

description: Gene expression


title: MJ02027T

description: Gene expression

value: Unconclusive


title: MJ02024T

description: Gene expression

value: LumB


title: Muscle - Low post-mortem interval - SM-2M47T

value: 50-59 years

value: Muscle

value: Muscle - Skeletal

value: 4-7 hours


title: Patient KQ 108

description:
Patient kq_108
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: unrelated patients

value: cleft lip, left

value: blood


title: Thyroid - Low post-mortem interval - SM-2D457

value: Thyroid

value: 8-11 hours


title: Lung - Low post-mortem interval - SM-2D455

value: Female

value: Lung


title: Heart - Low post-mortem interval - SM-2D456

value: Heart

value: Heart - Left Ventricle


title: Patient KQ 107

description:
Patient kq_107
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Blood Vessel - Low post-mortem interval - SM-2M47R

value: Blood Vessel

value: Artery - Tibial


title: Patient KQ 106

description:
Patient kq_106
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: MJ02025T

description: Gene expression

value: Breast Tumor

value: LumA

value: NEG

value: POS

value: Pathogenic

value: female

value: Breast tumour sample


title: MJ02023T

description: Gene expression

value: HER


title: MJ02021T

description: Gene expression

value: TrNeg


title: Blood - Pre-mortem blood draw - SM-2D45H

value: 50-59 years

value: Blood

value: Whole Blood


title: Muscle - Low post-mortem interval - SM-2D458

value: Male

value: 60-69 years

value: Muscle

value: Muscle - Skeletal

value: 4-7 hours


title: Patient KQ 104

description:
Patient kq_104
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: unrelated patients

value: cleft lip, left

value: blood


title: Patient KQ 103

description:
Patient kq_103
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 102

description:
Patient kq_102
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 105

description:
Patient kq_105
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 100

description:
Patient kq_100
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: MJ02019T

description: Gene expression

value: Breast Tumor

value: LumB

value: NEG

value: POS

value: NonPathogenic


title: MJ02016T

description: Gene expression

value: LumA

value: female

value: Breast tumour sample


title: Patient KQ 101

description:
Patient kq_101
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 099

description:
Patient kq_099
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 098

description:
Patient kq_098
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: MJ02015T

description: Gene expression

value: Unconclusive


title: Lung - Low post-mortem interval - SM-2D45F

value: Male

value: Lung


title: Patient KQ 097

description:
Patient kq_097
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 095

description:
Patient kq_095
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 096

description:
Patient kq_096
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 093

description:
Patient kq_093
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 094

description:
Patient kq_094
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 092

description:
Patient kq_092
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: MJ02014T

description: Gene expression

value: TrNeg


title: MJ02013T

description: Gene expression


title: Thyroid - Low post-mortem interval - SM-2D45B

value: 60-69 years

value: Thyroid


title: Blood Vessel - Low post-mortem interval - SM-2M47U

value: Blood Vessel

value: Artery - Tibial

value: 4-7 hours


title: MJ02012T

description: Gene expression

value: Breast Tumor


title: Nerve - Low post-mortem interval - SM-2M47S

source_name: Nerve - Tibial - Low post-mortem interval

value: Nerve

value: Nerve - Tibial


title: MJ02008T

description: Gene expression

value: NEG

value: POS


title: Patient KQ 091

description:
Patient kq_091
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: unrelated patients

value: cleft lip, left

value: blood


title: Skin - Low post-mortem interval - SM-2D45E

value: Skin

value: Skin - Sun Exposed (Lower leg)


title: Heart - Low post-mortem interval - SM-2D45G

value: Male

value: Heart

value: Heart - Left Ventricle


title: Patient KQ 090

description:
Patient kq_090
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 088

description:
Patient kq_088
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 087

description:
Patient kq_087
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 086

description:
Patient kq_086
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 085

description:
Patient kq_085
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 082

description:
Patient kq_082
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 083

description:
Patient kq_083
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 079

description:
Patient kq_079
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 078

description:
Patient kq_078
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Blood Vessel - Low post-mortem interval - SM-2M47V

value: 50-59 years

value: 0-3 hours


title: Heart - Low post-mortem interval - SM-2D45D


title: Patient KQ 077

description:
Patient kq_077
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: MJ02004T

description: Gene expression

value: LumA

value: Unconclusive

value: female

value: Breast tumour sample


title: Patient KQ 089

description:
Patient kq_089
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: MJ02005T

description: Gene expression

value: Breast Tumor


title: Blood - Low post-mortem interval - SM-2D459

source_name: Whole Blood - Low post-mortem interval

value: 60-69 years

value: Blood

value: Whole Blood

value: 4-7 hours


title: Skin - Low post-mortem interval - SM-2D45C


title: MJ02007T

description: Gene expression

value: NEG

value: POS


title: Patient KQ 076

description:
Patient kq_076
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: unrelated patients

value: cleft lip, left

value: blood


title: MJ02002T

description: Gene expression

value: LumB

value: NonPathogenic


title: Patient KQ 084

description:
Patient kq_084
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 075

description:
Patient kq_075
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 080

description:
Patient kq_080
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 081

description:
Patient kq_081
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: MJ02003T

description: Gene expression

value: TrNeg


title: Blood - Pre-mortem blood draw - SM-2D45A

value: Male

value: 50-59 years


title: Nerve - Low post-mortem interval - SM-2QU4A

value: Female

value: Nerve

value: Nerve - Tibial


title: Lung - Low post-mortem interval - SM-2M47W

value: Lung

value: 0-3 hours


title: MJ01015T

description: Gene expression

value: Breast Tumor

value: LumA

value: female

value: Breast tumour sample


title: MJ02001T

description: Gene expression

value: NEG

value: POS

value: Unconclusive


title: Patient KQ 074

description:
Patient kq_074
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: unrelated patients

value: cleft lip, left

value: blood


title: Patient KQ 073

description:
Patient kq_073
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Lung - Low post-mortem interval - SM-2M49G

value: 60-69 years

value: 4-7 hours


title: MJ01011T

description: Gene expression


title: Patient KQ 070

description:
Patient kq_070
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 072

description:
Patient kq_072
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 071

description:
Patient kq_071
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: MJ01014T

description: Gene expression

value: NonPathogenic


title: Heart - Low post-mortem interval - SM-2AXWH

value: Female

value: Heart

value: Heart - Left Ventricle


title: Blood Vessel - Low post-mortem interval - SM-2QU48

value: Blood Vessel

value: Artery - Tibial


title: Blood - Low post-mortem interval - SM-2AXVG

value: Blood

value: Whole Blood

value: 0-3 hours


title: Patient KQ 067

description:
Patient kq_067
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 068

description:
Patient kq_068
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 069

description:
Patient kq_069
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 066

description:
Patient kq_066
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 120

description:
Patient kq_120
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Brain - Low post-mortem interval - SM-2D43I

source_name: Brain - Cerebellum - Low post-mortem interval

value: Male

value: 40-49 years

value: Brain

value: Brain - Cerebellum


title: Patient KQ 065

description:
Patient kq_065
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: unrelated patients

value: cleft lip, left


title: Patient KQ 064

description:
Patient kq_064
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: blood


title: MJ01008T

description: Gene expression

source_name: Breast Tumor

value: Breast Tumor

value: LumA

value: NEG

value: POS

value: female

value: Breast tumour sample


title: Patient KQ 063

description:
Patient kq_063
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 061

description:
Patient kq_061
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: MJ01006T

description: Gene expression

value: ND

value: Unconclusive


title: Thyroid - Low post-mortem interval - SM-2AXTX

value: Thyroid

value: 4-7 hours


title: MJ01007T

description: Gene expression

value: TrNeg


title: Nerve - Low post-mortem interval - SM-2QU3J

value: Male

value: 40-49 years

value: Nerve

value: Nerve - Tibial


title: Patient KQ 062

description:
Patient kq_062
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: unrelated patients

value: cleft lip, left


title: MJ01001T

description: Gene expression

value: Breast Tumor

value: LumB

value: NonPathogenic


title: Patient KQ 060

description:
Patient kq_060
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: blood


title: Blood Vessel - Low post-mortem interval - SM-2QU3L

value: Blood Vessel

value: Artery - Tibial


title: MJ01004T

description: Gene expression

value: NEG

value: POS

value: female

value: Breast tumour sample


title: MJ01009T

description: Gene expression

value: LumA


title: Patient KQ 059

description:
Patient kq_059
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Muscle - Low post-mortem interval - SM-2AXTZ

value: Male

value: Muscle

value: Muscle - Skeletal

value: 4-7 hours


title: Patient KQ 058

description:
Patient kq_058
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: unrelated patients


title: Patient KQ 057

description:
Patient kq_057
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: cleft lip, left


title: Patient KQ 056

description:
Patient kq_056
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 055

description:
Patient kq_055
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Brain - Low post-mortem interval - SM-2D43H

source_name: Brain - Cortex - Low post-mortem interval

value: 40-49 years

value: Brain

value: Brain - Cortex


title: Patient KQ 053

description:
Patient kq_053
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: blood


title: Patient KQ 054

description:
Patient kq_054
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 052

description:
Patient kq_052
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: GM09579_1.5Gy_C5

city: Morrisville

first: Tong

last: Zhou

state: NC

address: 133 Southcenter Court, Suite 400

department: Clincial Genetics

institute: Gentris Corperation

description: cell lines with same ATM genotype receiving the same treatment (Sham or IR) are biological replicates of one-another

hyb_protocol: The labeled cRNA from human lymphoblastoid cells was hybridized with the labeled global reference cRNA on an Agilent array in a hybridization oven at 60°C for 17 hr.

scan_protocol: Scanned on an Agilent Technologies Scanner G2505B US23502387 Images were quantified using Agilent Feature Extraction Software (version A.7.1.1).

data_processing: Each RNA sample was subjected to microarray analysis twice with C3/C5 dyes swap (C3 labeled test sample / C5 labeled reference, C5 labeled test sample /C3 labeled reference) in both Basal and IR study. The data from each array were normalized using EPIG method, which included array-based systematic variation normalization [Chou, J.W., Paules, R.S., and Bushel, P.R. (2005). Systematic variation normalization in microarray data to get gene expression comparison unbiased. J. Bioinform. Comput.Biol. 3, 225-241], profile-based C3/C5 dye-swap correction, and biological reference state alignment [Chou, J.W., Zhou, T., Kaufmann, W. K., Paules, R.S., and Bushel, P.R. (2007). Extracting gene expression patterns and identifying co-expressed genes from microarray data reveals biologically responsive processes. BMC Bioinformatics 8, 427. doi:10.1186/1471-2105-8-427].

source_name: AT carrier

label_protocol: 1 μg of sample RNA and global reference RNA  were converted to cDNA with reverse transcriptase and then amplified using T7 RNA polymerase while labeling with either cyanine 3 deoxyuridine triphosphate (Cy3-dUTP) or Cy5-dUTP. The quality of each labeled cRNA was evaluated using an Agilent 2100 bioanalyzer before hybridization; 750 ng of Cy3- and Cy5-labeled cRNA were used in the hybridization.

growth_protocol: Cells were cultured in RPMI supplemented with 15% FBS (Life Technologies).  All cell lines obtained from the NIGMS were maintained at 37oC in a humidified atmosphere of 5% CO2 and were routinely tested and shown to be free of mycoplasma contamination using a commercial assay

extract_protocol: Total RNA was isolated using Qiagen RNeasy kit (Qiagen Sciences). The quality of all RNA samples was confirmed using an Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA).

tag: cell line

tag: cell type

value: lymphoblastoid

tag: genotype

value: ATM+/-

source_name: Global reference RNA

tag: source

value: Stratagene


title: Patient KQ 048

description:
Patient kq_048
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 051

description:
Patient kq_051
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 050

description:
Patient kq_050
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 047

description:
Patient kq_047
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Lung - Low post-mortem interval - SM-2D43G

tag: gender

tag: age

value: Lung


title: Patient KQ 046

description:
Patient kq_046
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

tag: tissue


title: Patient KQ 045

description:
Patient kq_045
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

tag: sample group


title: Patient KQ 044

description:
Patient kq_044
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

tag: clinical type


title: GM03334A_1.5Gy_C5


title: Patient KQ 043

description:
Patient kq_043
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: GM03334A_1.5Gy_C3


title: Blood Vessel - Low post-mortem interval - SM-2AXTY

source_name: Artery - Coronary - Low post-mortem interval

tag: rin

value: Blood Vessel

value: Artery - Coronary


title: GM09579_1.5Gy_C3


title: GM09579_sham_C5


title: Skin - Low post-mortem interval - SM-2QU56

value: Skin

value: Skin - Sun Exposed (Lower leg)


title: Brain - Low post-mortem interval - SM-2QU2O

source_name: Brain - Spinal cord (cervical c-1) - Low post-mortem interval

value: Male

value: Brain - Spinal cord (cervical c-1)

value: Not Available


title: Brain - Low post-mortem interval - SM-2AXVK

source_name: Brain - Hypothalamus - Low post-mortem interval

value: Brain - Hypothalamus


title: GM03334A_sham_C3


title: GM09579_sham_C3


title: Brain - Low post-mortem interval - SM-2AXVV

source_name: Brain - Nucleus accumbens (basal ganglia) - Low post-mortem interval


title: Heart - Low post-mortem interval - SM-2AXU1

value: Heart

value: Heart - Left Ventricle

value: 4-7 hours


title: Brain - Low post-mortem interval - SM-2AXVP

source_name: Brain - Putamen (basal ganglia) - Low post-mortem interval

value: 40-49 years

value: Brain

value: Brain - Putamen (basal ganglia)


title: Patient KQ 049

description:
Patient kq_049
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.

value: unrelated patients

value: cleft lip, left

value: blood


title: GM03334A_sham_C5

value: lymphoblastoid

value: ATM+/-

value: Stratagene


title: GM03188A_1.5Gy_C5


title: Patient KQ 041

description:
Patient kq_041
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Brain - Low post-mortem interval - SM-2AXW3

source_name: Brain - Caudate (basal ganglia) - Low post-mortem interval

value: Brain - Caudate (basal ganglia)


title: Patient KQ 042

description:
Patient kq_042
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: GM03188A_1.5Gy_C3


title: Patient KQ 039

description:
Patient kq_039
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 035

description:
Patient kq_035
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 036

description:
Patient kq_036
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 037

description:
Patient kq_037
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.


title: Patient KQ 034

description:
Patient kq_034
In this array, each tag of allele was spotted reduplicate. We take the mean single of the two spots as the single of allele.The AF was calculated by the formula: AF=allele B/allele A + allele B. While the AF values >0.6, genotypes were allele B homozygote; AF values <0.4, genotypes were allele A homozygote; AF values were between 0.4 and 0.6, genotypes were heterozygote.