title: S1.2

description: 14 days follow up sample 19


title: S9.2

status: Public on Aug 03 2017

type: protein

city: Worcester

first: Dr Yvonne

last: Edwards

state: MA

address: 373 Plantation Street

department: Program in Molecular Medicine

country: USA

institute: University of Massachusetts Medical School

description: 14 days follow up sample 24

hyb_protocol: As described elsewhere http://www.tandfonline.com/doi/abs/10.1586/erm.10.89

scan_protocol: Proteomic assessments were performed as described elsewhere [Gold L et al. N Biotechnol. 2012 Jun 15;29(5):543-9.].

data_processing: Normalization and interrun calibration were performed as described elsewhere http://www.tandfonline.com/doi/abs/10.1586/erm.10.89

molecule: protein

organism: Homo sapiens

source_name: serum

extract_protocol: Non-fasting venous blood was drawn into SST tubes, spun, and frozen at -80°C. Samples were thawed, aliquoted into 0.5 ml screw top tubes in 96 well plates (Thermo Scientific), and shipped to an outside laboratory on dry ice where assays were performed using SOMAscan reagents according to the manufacturer’s protocol [ http://www.tandfonline.com/doi/abs/10.1586/erm.10.89; Hathout Y et al 2015. Proc Natl Acad Sci U S A. 2015;112:7153-8]

treatment_protocol: non fasting serum collected in SST tubes

tag: gender

value: F

tag: age

tag: group

value: Follow Up SCM

tag: day

tag: peak troponin i (ng/ml)


title: S6.2

description: 14 days follow up sample 23

label_protocol: As described elsewhere http://www.tandfonline.com/doi/abs/10.1586/erm.10.89


title: S14.2

description: 14 days follow up sample 25


title: S2.2

description: 14 days follow up sample 20


title: S18.2

description: 14 days follow up sample 29


title: S3.2

description: 14 days follow up sample 21


title: Plasma_pat24_melanoma_before_treatment_targeted_therapy

type: RNA

city: Stockholm

first: Fernanda

last: Costa Svedman

address: Solnavägen 1

country: Sweden

institute: Karolinska Institute

description:
Other (exosomal microRNA)
This study has 28 patients. Samples before treatment are identified as the patient number only (ie 8) and the samples during trreatment are labeled with an additional T for treatment (ie 008T).

hyb_protocol: Not aplicable

scan_protocol: Not aplicable

data_processing: Raw Cq values and melting points detected by the Lightcycler software were exported. Reactions with several melting points or with melting points that were not within the assay specification were flagged and removed from the data set. An evaluation of the negative control was performed by removing the reactions giving Cq values that were within 5 Cq values of the negative control reaction. For assays that did not yield any signal on the negative control, the upper limit of detection was set to Cq = 37. Hemolysis assessment was performed by the detection of miR-451, a miRNA highly expressed in red blood cells and miR-23a which is unaffected by hemolysis. The data was considered as affected by hemolysis if delta Cq between these 2 miRNAs was more than 8. Normalization was performed based on the average of the assays detected in all samples as this is shown to be the best normalization for qPCR studies involving numerous assays (Mestdagh, P. et.al. 2009). For the present study, this included 24 assays. The stability of the average of 24 microRNAs is higher than any single microRNA in the data set as measured by the NormFinder software (Andersen, C. et al). The formula used to calculate the normalized Cq values are: Normalized Cq = average Cq (n=52) – assay Cq (sample) A higher value thus indicates that the microRNA is more abundant in the particular sample.

label: SYBR green

molecule: total RNA

source_name: Plasma from patients with BRAF mutated metastatic melanoma before treatment with MAPKi

label_protocol: MiRNA expression profiling was performed using miRCURY LNA Universal RT miRNA PCR Human panel I (Exiqon, Denmark) covering 372 human miRNAs.  All miRNAs were polyadenylated and reverse transcribed in cDNA in a single reaction step. RNA isolation cDNA synthesis efficiency was examined by the detection of spike-in UniSp2, UniSp4 and UniSp6 to ensure that the quality of the input RNA was sufficiently high for effective amplification. cDNA and Exilent SYBR Green master mix (Exiqon, Denmark) were transferred to qPCR panels preloaded with primers. Amplification was performed in a Lightcycler 480 (Roche). We normalized miRNA expression to a set of miRNAs found to be most stable across conditions defined by the normfinder algorithm

growth_protocol: Plasma samples were store in -80 degrees Celsius until the extraction

extract_protocol: MiRCURY Exosome Isolation Kit-Serum and Plasma (Exiqon, Denmark) was used for isolation of plasmatic EVs. Briefly, 600 μl of plasma was treated with thrombin for 5 minutes at room temperature to remove clotting factors. The supernatant was mixed with 200 μl of precipitation buffer and incubated at 4°C for overnight and centrifuged (10,000 g for 30 min at room temperature). The pellet was vortexed for 5-15 minutes in 270 μl resuspension buffer until completely re-suspended. The EV miRNA was extracted using miRCURY RNA isolation kit-biofluids (Exiqon, Denmark) according to the manufacturer´s instruction. RNA spike-in template mixture (Exiqon, Denmark) was added as a quality control of the downstream PCR analysis.

treatment_protocol: Plasma samples were centrifugated and stored in -80 Celsius degree.

tag: Sex

value: male

tag: age years old

tag: metastatic stage

tag: response

value: Non-responder

tag: progression free survival

value: 29 days


title: A6.2

description: 14 days follow up sample 11

value: Follow Up AMI


title: Plasma_pat20_melanoma_before_treatment_targeted_therapy

value: female

value: Responder

value: 328 days


title: A1.2

description: 14 days follow up sample 7


title: Plasma_pat8_melanoma_before_treatment_targeted_therapy

value: 148 days


title: A3.2

description: 14 days follow up sample 9


title: S26

description: Apical SCM

value: Acute SCM


title: S17

description: Apical SCM


title: S18

description: Apical SCM


title: S25

description: Apical SCM


title: S23

description: Apical SCM


title: A15.2

description: 14 days follow up sample 17


title: BRC-196-T P27

city: Montreal

first: Matthew

middle: G

last: Annis

state: Quebec

address: 1160 Av des Pin O Rm508

department: Rosalind and Morris Goodman Cancer Research Centre

country: Canada

institute: McGill University

hyb_protocol: A measure of 15 mg of cRNA was hybridized to an Affymetrix HuGeneFL microarray. Following hybridization, the arrays were washed and stained with streptavidin-phycoerythrin.

scan_protocol: Microarrays were scanned with a Hewlett Packard Gene Array scanner.

data_processing: RMA pre-processing of the data, Experiment normalization : Data transformation set data lower than 0.01 to 0.01, Per CHIP Normalize to the 50th percentile, Per Gene Normalize to the median

label: Biotin

source_name: HUMAN BREAST TUMOR EXPLANT

label_protocol: Reverse Transcription was performed on 1 µg of total RNA with the SuperScriptTM First-Strand Synthesis System (Invitrogen Canada Inc., Burlington, Ontario, Canada) and random hexamers, according to the procedure recommended by the manufacturer. c-DNA samples were diluted at 1/3 or 1/6 in water prior to q-RT-PCR. Three Âµl of this dilution were used for each experiment. An in vitro transcription was performed on this cDNA and the resulting cRNA was biotinylated via incorporation of biotinylated dUTP and dCTP. DNA from samples was fragmented in 40mM Tris acetate, 100mM potassium acetate, and 30mM MgCl2 (pH 8.1) at 951C in order to reduce secondary structure.

growth_protocol: DMEM-F12 medium supplemented with 2.5% FBS, glutamine (2 mM), penicillin (100 IU/mL), streptomycin (100 μg/mL), estradiol (10 nM), insuline (4 mg/mL), hydrocortisone (0.4 μg/mL) and hereguline EGF domain (5.5 ng/mL)

extract_protocol: Total RNA was extracted using TRIzol reagent (Gibco/BRL, Life Technologies, Inc, Grand Island, NY) according to the manufacturer's protocol.

tag: er

tag: pr

tag: her

tag: grade

tag: metastases

tag: diagnosis

value: Infiltrating ductal carcinoma with a portion (<25%) of solid or comedo portion with area of cribriform. grade 3/3.


title: BRC-36-T P22

tag: Stage

value: II/III

value: YES

tag: size (mm)

value: In situ ductal carcinoma of high grade (comedo) clearly predominant. Rare foci of invasion. Associated non proliferative fibrocyst


title: S6

description: Apical SCM

tag: gender

tag: age


title: S2

description: Apical SCM

tag: group

tag: day


title: A16

description: STEMI

value: Acute MI

tag: peak troponin i (ng/ml)


title: S5

description: Apical SCM


title: S3

description: Apical SCM


title: S16

description: Apical SCM


title: A7

description: NSTEMI


title: S9

description: Apical SCM


title: BRC-32-T P21

value: NO

value: Infiltrating lobular carcinoma. Usual micro-calcification and of  Monckeberg type


title: A15

description: STEMI

value: F


title: A8

description: NSTEMI


title: A11

description: STEMI


title: S24

description: Apical SCM


title: S1

description: Apical SCM


title: BRC-31-T P17

value: I/III

value: Infiltrating  ductal carcinoma of low grade. Presence of micro-calcification and Monckeberg calcification. Associated non proliferative fibrocyst


title: BRC-17-T P23

value: Infiltrating lobular carcinoma of low grade (solid type)


title: A9

description: STEMI


title: S15

description: Apical SCM


title: A6

description: NSTEMI


title: A14

description: STEMI


title: N13

description: Normal ambulatory control without diabetes, hypertension, known CHD, or cancer.  Taking no medications.

value: Normal Control


title: A2

description: NSTEMI


title: A1

description: STEMI


title: A3

description: STEMI


title: N16

value: M


title: A5

description: STEMI


title: N5


title: N11

value: Normal control


title: N10


title: N8


title: HCT116 PURPL KO rep2

city: Bethesda

first: Yuelin

middle: Jack

last: Zhu

state: MD

address: 9000 Rockville Pike

department: Genetics Branch, Center for Cancer Research

institute: NCI

hyb_protocol: Standard Illumina hybridization protocol

scan_protocol: Standard Illumina scanning protocol

data_processing: The data were normalised using quantile normalisation with IlluminaGUI in R

label: biotin

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

growth_protocol: HCT116 cells were cultured in DMEM with 10% FBS, at 37oC, 5%CO2

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

treatment_protocol: HCT116 cells were genetic knockout the p53 responsive element of PURPL promoter.

tag: cell line

tag: genotype/variation

value: knock out


title: HCT116 PURPL KO rep1


title: HCT116 PURPL WT rep3

value: WT


title: HCT116 PURPL KO rep3


title: HCT116 PURPL WT  rep 1


title: HCT116 PURPL WT rep 2


title: Late pigmentation sample1

status: Public on Aug 02 2017

city: Amsterdam

first: Anna

last: Bennis

address: Meibergdreef 9

department: Clinical Genetics

country: Netherlands

institute: Amsterdam Medical Centre Amsterdam

hyb_protocol: aRNA samples were labeled with a Cy5 fluorescent probe (Cy5 mono-reactive dye pack, GE Healthcare UK, Little Chalfont, Buckinghamshire, UK). In short, aRNA was coupled to Cy5 (dissolved in DMSO) in 0.5 M NaHCO3 (pH 9.0) for one hour. Free dyes were quenched by the addition of 4 M hydroxylamine and removed by filtration over a Chroma Spin-30 column (DEPC-H20 Columns, Clontech Laboratories) with glycogen as a carrier. Cy3-labeled common reference sample.

scan_protocol: Scanned on an Agilent Technologies Scanner G2505A US12302316

data_processing:
Agilent Feature extraction software (V10.4.3) , protocol GE2-V5 _95_Feb07 and grid template US12302316.
R LIMMA normalization on Common reference (Cy3)

source_name: embryonic stem cell differentiated RPE

growth_protocol: hESCs were differentiated towards RPE cells according to the protocol we describe in the paper

extract_protocol: Total RNA was isolated using RNeasy Micro Kit (Qiagen Benelux, Venlo, The Netherlands). Subsequently, the mRNA component was amplified with Amino Allyl MessageAmp II aRNA Amplification kit (#1753, Ambion Applied Biosystems Europe B.V.).

treatment_protocol: we collected the cells from inserts with Cell Recovery Solution, and dissociated the cells mechanically.

tag: isolation day

value: Days in differentiation 59

tag: tissue

value: embryonic stem cell differentiated retinal pigmented epithelium (RPE)

source_name: choroid/RPE mix of 8 donor eyes

value: 42-78 years

value: 4 female, 4 male

value: retinal pigmented epithelium (RPE)


title: Late pigmentation sample6

label_protocol: aRNA samples were labeled with a Cy5 fluorescent probe (Cy5 mono-reactive dye pack, GE Healthcare UK, Little Chalfont, Buckinghamshire, UK). In short, aRNA was coupled to Cy5 (dissolved in DMSO) in 0.5 M NaHCO3 (pH 9.0) for one hour. Free dyes were quenched by the addition of 4 M hydroxylamine and removed by filtration over a Chroma Spin-30 column (DEPC-H20 Columns, Clontech Laboratories) with glycogen as a carrier. Cy3-labeled common reference sample.

value: Days in differentiation 64


title: Late pigmentation sample2

value: Days in differentiation 78


title: start pigmentation sample4

value: Days in differentiation 23


title: start pigmentation sample3

value: Days in differentiation 30


title: Late pigmentation sample5

value: Days in differentiation 62


title: start pigmentation sample5


title: start pigmentation sample1

value: Days in differentiation 25


title: Human Retinal Pigment Epithelium sample 4

hyb_protocol: Labeled RNA of interest (IE or RPE) and labeled common reference sample together were hybridized according to the protocol provided by Agilent (hybridization protocol is described in ”Two-color microarray based gene expression analysis (low input quick amp labeling) protocol”.

scan_protocol: Scanned on an Agilent Technologies Scanner G2505A US12302316.

data_processing: Agilent Feature Extraction Software (v 9.5.3.1) was used for background subtraction and linear lowess dye normalization. This resulted amongst others in normalized log ratios (test/reference) data that can be find in the Agilent Feature Extraction files. Further data processing was done in R (version 2.14.0 for Windows, R Development Core Team, 2009), with package Limma. We read in the raw data (RG <-read.maimage). Next we normalized within arrays (method 'loess', resulating in MA) and subsequently we normalized the red signals between arrays to make it possible to compare the red channels (method q, resulting in MA.s). In the matrix table, we listed these normalized red channels of each IE and RPE sample (log2).

source_name: RPE laser dissected from region 1 of the retina

growth_protocol: Eyes were snap frozen within 24hrs post-mortem and stored in -80C untill further use.

treatment_protocol: IE was collected by cutting it from the anterior segment of the eye while frozen. RPE was collected by laser dissection from region 1 (containing the macula) of the retina.

tag: age (years)

value: female


title: Late pigmentation sample3

value: Days in differentiation 70


title: Human Retinal Pigment Epithelium sample 1


title: Plasma_pat52_melanoma_before_treatment_targeted_therapy

tag: Sex

tag: age years old

tag: metastatic stage

tag: response

value: Responder

tag: progression free survival

value: 159 days


title: Human Retinal Pigment Epithelium sample 2

value: male


title: Human Retinal Pigment Epithelium sample 5


title: start pigmentation sample2

value: Days in differentiation 46


title: start pigmentation sample6

value: Days in differentiation 38


title: Late pigmentation sample4

value: Days in differentiation 42

value: embryonic stem cell differentiated retinal pigmented epithelium (RPE)


title: Human Iris Epithelium sample 5

source_name: IE cut from the anterior segment

value: 42-78 years

value: 4 female, 4 male


title: Western_Samoa22

type: genomic

city: Tucson

first: Tatiana

middle: M.

last: Karafet

state: AZ

address: BSW #246, 1041 E Lowell Str.

department: ARL

institute: University of Arizona

description: Genomic DNA extracted from blood was genotyped using Affymetrix platform Axiom_GW_Hu_SNP

hyb_protocol: Standard Affymetrix procedures

scan_protocol: Standard Affymetrix procedures

data_processing:
Affymetrix Power Tools (APT) Software Package (version 1.12.0) has been used for data analysis. Application 'apt-probeset-genotype' has been used for making genotype calls.
Processed data is provided for each sample. Processed data include genotype data for each rs number. Dataset is also converted into PLINK format (http://pngu.mgh.harvard.edu/~purcell/plink/) . Files GSE80534_INDONESIA_AUG2016.bed GSE80534_INDONESIA_AUG2016.bim GSE80534_INDONESIA_AUG2016.fam are provided.

molecule: genomic DNA

source_name: blood

label_protocol: Standard Affymetrix procedures

extract_protocol: Extraction of genomic DNA from blood was performed using standard extraction protocols.

value: blood

tag: population

value: Western Samoa

tag: island

tag: country

tag: region

value: Oceania

value: Male


title: Western_Samoa24

tag: gender


title: Human Iris Epithelium sample 4

tag: age


title: Human Retinal Pigment Epithelium sample 3


title: Western_Samoa21


title: Western_Samoa19


title: 4 Hif-p4h-1_KO_H

city: Oulu

first: Valerio

last: Izzi

state: Select a State or Province

address: Aapistie 7A

country: Finland

institute: University of Oulu

description: Gene expression data from mouse embryonic fibroblasts, KO for Hif-p4h-1, in hypoxia

hyb_protocol: cRNA was hybridized on Affymetrix GeneChip MG-430.2 array plates according to manufacturer's instructions.

scan_protocol: GeneChips were scanned on Affymetrix GeneChip Scanner 3000

data_processing: Data were normalized using RMA algorithm with variance stabilization in Chipster software.

organism: Mus musculus

source_name: E14.5 embryonic fibroblasts

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).

growth_protocol: C57B6/J-Hif-p4h-1+/+ and C57B6/J-Hif-p4h-1-/- lines were maintained in 12-h light/12-h dark cycle and fed ad libitum with standard chow. Appearence of the vaginal plug after mating was counted as E0.5 (0.5 d.p.c.), and appropriate embryonic staging was confirmed during embryos isolation. All embryos in this study were confirmed to be E14.5 at sacrifice.

extract_protocol: Total RNA was extracted with E.Z.N.A.® Total RNA Kit I (Omega bio-tek) according to the manufacturer's instructions.

tag: cell type

value: E14.5 embryonic fibroblasts

tag: genotype

value: KO for Hif-p4h-1

tag: strain

tag: condition

value: hypoxia


title: Human Iris Epithelium sample 2


title: Western_Samoa18

tag: tissue


title: Human Iris Epithelium sample 3

tag: age (years)


title: Hif-p4h-1-KO-H-2nd


title: Human Iris Epithelium sample 1

value: female


title: Vanuatu165

value: Vanuatu

value: Republic of Vanuatu


title: Western_Samoa10


title: Western_Samoa01


title: Hif-p4h-1-WT-H-2nd

description: Gene expression data from mouse embryonic fibroblasts, WT for Hif-p4h-1, in hypoxia

value: WT for Hif-p4h-1


title: Western_Samoa12


title: Vanuatu151


title: Vanuatu136


title: 3 Hif-p4h-1_WT_H


title: Hif-p4h-1-KO-N-2nd

description: Gene expression data from mouse embryonic fibroblasts, KO for Hif-p4h-1, in normoxia

value: normoxia


title: Hif-p4h-1-WT-N-2nd

description: Gene expression data from mouse embryonic fibroblasts, WT for Hif-p4h-1, in normoxia


title: 2 Hif-p4h-1_KO_N


title: 1 Hif-p4h-1_WT_N


title: S14

description: Apical SCM

value: F

tag: group

value: Acute SCM

tag: day

tag: peak troponin i (ng/ml)


title: Nr.1

city: Wuerzburg

first: Susanne

middle: Elma

last: Kneitz

address: Biozentrum, Am Hubland

department: Physiologigcal Chemistry

country: Germany

institute: University of Wuerzburg

hyb_protocol: 130µl hybridization mix prepared from labeled ssDNA was hybridized for 17h at 45°C to GeneChip® Human Gene 2.0 ST arrays. Microarrays were washed and stained in the Affymetrix Fluidics Station 450 using script FS450_002

scan_protocol: Microarrays were scanned using a GeneChip Scanner 3000 7G (Affymetrix).

data_processing: The data were analyzed with Bioconductor packages (under R) and rma followed by quantile-quantile as normalization method

source_name: UACC62_control siRNA

label_protocol: 100ng of total RNA were amplified with the WT Expression Kit (Ambion), followed by ssDNA labeling with the WT Terminal Labeling Kit (Affymetrix); all steps were performed according to the manufacturers' protocols.

growth_protocol: UACC62 melanoma cells were grown in DMEM with 10% FCS

extract_protocol: Rneasy Mini Kit, according to the manufacturers protocol

treatment_protocol: Cells were transfected with non-targeting siRNA or FOSL1 specific siRNA for three days, then harvested.

tag: cell line

value: melanoma cells

tag: treated with

value: non-targeting siRNA for 3 days


title: Nr.2

source_name: UACC62_FOSL1 siRNA

value: FOSL1-specific siRNA for 3days


title: Western_Samoa15

value: blood

tag: population


title: Vanuatu126

tag: island


title: Vanuatu128

tag: country


title: Western_Samoa13

value: Western Samoa

tag: region


title: Vanuatu081

value: Oceania

tag: gender


title: Vanuatu111

value: Male


title: Vanuatu073


title: Vanuatu069


title: Vanuatu040


title: Vanuatu034


title: Vanuatu025


title: Vanuatu022


title: Tonga15

value: Tonga

value: Kingdom of Tonga


title: Tonga21


title: Tonga08


title: Vanuatu002


title: Tonga12


title: Tonga10


title: Tonga18


title: Tonga33


title: Tahiti35-192

value: Tahiti

value: French Polynesia


title: Tahiti35-184


title: Tonga04


title: Tahiti35-179


title: Tahiti35-108


title: Tahiti35-152


title: Tahiti35-116


title: Vietnamese024

value: Vietnamese

value: Vietnam

value: Southeast Asia


title: Vietnamese030


title: Tonga34


title: Vietnamese053


title: Vietnamese10


title: Vietnamese047


title: Vietnamese052


title: Vietnamese5451


title: Vietnamese6308


title: Vietnamese12236


title: UmanenLawalu46

value: Umanen Lawalu

value: Timor

value: Indonesia


title: UmanenLawalu49


title: UmanenLawalu42


title: UmanenLawalu36


title: Vietnamese039


title: UmanenLawalu41


title: UmanenLawalu22


title: Umaklaran24

value: Umaklaran


title: UmanenLawalu15


title: UmanenLawalu25


title: UmanenLawalu10


title: UmanenLawalu37


title: UmanenLawalu44


title: UmanenLawalu08


title: UmanenLawalu09


title: UmanenLawalu35


title: UmanenLawalu20


title: Kamanasa65

value: Kamanasa

value: Female


title: Kamanasa62

value: blood


title: UmanenLawalu07


title: Kamanasa47


title: Kamanasa45


title: Kamanasa35


title: Kamanasa28


title: Kamanasa25


title: Kamanasa32


title: Kamanasa11


title: Kamanasa19


title: Kamanasa06


title: Taiwan_Aboriginal29

value: Taiwanese aborigines

value: Taiwan

value: East Asia


title: Taiwan_Aboriginal28

value: Male


title: Kamanasa22


title: Kamanasa02


title: Taiwan_Aboriginal22


title: Taiwan_Aboriginal24


title: Taiwan_Aboriginal27


title: Taiwan_Aboriginal13


title: Taiwan_Aboriginal20


title: Taiwan_Aboriginal10


title: Taiwan_Aboriginal37


title: Taiwan_Aboriginal15


title: Taiwan_Aboriginal04


title: Taiwan_Aboriginal06


title: Taiwan_Aboriginal03


title: Kamanasa34


title: Wunga42

value: Wunga

value: Sumba


title: Wunga39


title: Wunga38


title: Kamanasa23


title: Wunga33


title: Wunga36


title: Kamanasa10


title: Wunga29


title: Kamanasa09


title: Taiwan_Aboriginal30


title: Wunga20


title: Taiwan_Aboriginal21


title: Wunga25


title: Wunga15


title: Wunga35


title: Wunga27


title: Wunga26


title: Wunga19


title: Wunga06


title: Wunga12


title: Wunga37


title: Wunga07


title: Wunga04


title: Wunga01


title: Wunga02


title: Rindi93

value: Rindi


title: Sumatra31

value: Sumatra


title: Sumatra29


title: Sumatra32


title: Sumatra30


title: Sumatra27


title: Rindi92


title: Sumatra25


title: Rindi54


title: Wunga30


title: Sumatra24


title: Wunga21


title: Wunga23


title: Sumatra22


title: Sumatra20


title: Sumatra19


title: Sumatra21


title: Wunga08


title: Wunga03


title: Sumatra17


title: Sumatra18


title: Sumatra16


title: Wunga24


title: Sumatra15


title: Sumatra14


title: Sumatra13


title: Sumatra12


title: Sumatra10


title: Sumatra26


title: Sumatra23


title: Sumatra07


title: Sumatra09


title: Sumatra05


title: Sumatra06


title: Sumatra08


title: Sumatra04


title: Sumatra03


title: Anakalang27

value: Anakalang


title: Sumatra02

value: Southeast Asia


title: Sumatra01


title: Anakalang34


title: Anakalang37


title: Anakalang24


title: Anakalang17


title: Anakalang35


title: Anakalang30


title: Anakalang32


title: Anakalang15


title: Anakalang13


title: Anakalang19


title: Anakalang11


title: Anakalang12


title: Anakalang04


title: Anakalang10


title: Anakalang08


title: Anakalang09


title: Anakalang06


title: Anakalang43


title: Anakalang21


title: Anakalang44


title: Anakalang05


title: Anakalang18


title: Anakalang20


title: Anakalang26


title: Anakalang01


title: Anakalang14


title: Sulawesi23

value: Sulawesi


title: Sulawesi38


title: Sulawesi28


title: Sulawesi30


title: Sulawesi36


title: Sulawesi46


title: Sulawesi33


title: Anakalang16


title: Sulawesi35


title: Sulawesi40


title: Sulawesi17


title: Sulawesi12


title: Sulawesi07


title: Sulawesi06


title: Sulawesi05


title: Sulawesi08


title: PNG_Nasioi31

value: Nasioi

value: Bougainville

value: Papua New Guinea

value: Oceania


title: PNG_Highland10

value: Papuan-Highland

value: New Guinea

value: Female


title: PNG_Nasioi23

value: blood


title: PNG_Highland56


title: PNG_Highland15


title: Sulawesi34

value: Indonesia


title: Sulawesi16

value: Male


title: PNG_Highland09


title: PNG_Highland06


title: Sulawesi09


title: PNG_Nasioi961


title: PNG_Coastal88

value: Papuan-Coastal


title: PNG_Coastal89


title: PNG_Nasioi22


title: PNG_Highland04


title: PNG_Highland64


title: PNG_Highland11


title: PNG_Highland27


title: PNG_Highland61


title: Sulawesi10


title: PNG_Highland03


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title: Filipino045

value: Filipino

value: Philippines


title: Filipino067

value: Southeast Asia


title: Filipino066


title: Filipino046


title: Filipino044


title: PNG_Baining350


title: Sulawesi02

value: Sulawesi


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title: PNG_Baining287B


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value: Mentawai


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value: Malay

value: Malaysia


title: Mentawai020


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title: Mentawai007


title: Mentawai022


title: Malay074


title: Malay072


title: Malay11A


title: Malay071


title: Lembata032

value: Lembata


title: Malay070


title: Mentawai064

value: Female


title: Lembata028

value: blood


title: Malay26A


title: Lembata027

value: Indonesia


title: Lembata026

value: Male


title: Lembata030


title: Mentawai058


title: Lembata037


title: Lembata035


title: Lembata034


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title: Lembata025


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title: Lembata012


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title: Lembata008


title: Lembata006


title: Lembata007


title: Lembata004


title: Lembata005


title: Lembata002


title: Java17

value: Java


title: Mentawai046


title: Java13


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title: Bena08


title: Bena05


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title: Bama120

value: Bama


title: Bama118

value: Southeast Asia


title: Bama113


title: Bama116


title: Bena32


title: Bama117


title: Bena17


title: Bena14


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title: Bama141


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value: Bali


title: Bali454


title: Bali465


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title: Bali442


title: Bama104


title: Bali428


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value: Alor


title: Bali419


title: Bali405


title: Bali411


title: Bali441


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title: Bali011


title: Alor22


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title: Alor15


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title: Alor19


title: Alor23


title: Alor14


title: Alor12


title: Alor13


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title: Alor03


title: 4511 early stage CRC patient's tumor

city: Singapore

first: Steve

last: Rozen

address: 8 College Road

country: Singapore

institute: Duke-NUS

description: miRNA expression data

hyb_protocol: 100ng of total RNA was hybridized onto the Agilent Human miRNA microarray release 21.0 8 x 63K according to the manufacturer's protocol.

scan_protocol: Scanning was done using an Agilent DNA Microarray Scanner G2505C with SureScan.

data_processing: Quantile normalization, log2 transformation, removing probes with missing values in more than 50% of the samples, combination of batches with ComBat.

source_name: tumor collected and archived within 30mins after surgery

label_protocol: Labeling was done with Cyanine 3-pCp and incubation at 16°C for 2hrs.

extract_protocol: Total RNA was extracted using the mirVana® miRNA isolation kit.

value: F

tag: age

tag: metastasis status

value: metastasis positive


title: 4397 early stage CRC patient's tumor

description: miRNA expression data

value: metastasis negative


title: 4588 early stage CRC patient's tumor

description: miRNA expression data


title: 4383 early stage CRC patient's tumor

description: miRNA expression data

value: M


title: 4524 early stage CRC patient's tumor

description: miRNA expression data


title: 4463 early stage CRC patient's tumor

description: miRNA expression data


title: 4565 early stage CRC patient's tumor

description: miRNA expression data


title: 4442 early stage CRC patient's tumor

description: miRNA expression data


title: 5463 early stage CRC patient's tumor

description: miRNA expression data


title: 5661 early stage CRC patient's tumor

description: miRNA expression data


title: 5799 early stage CRC patient's tumor

description: miRNA expression data


title: 5620 early stage CRC patient's tumor

description: miRNA expression data


title: 5352 early stage CRC patient's tumor

description: miRNA expression data


title: 5419 early stage CRC patient's tumor

description: miRNA expression data


title: 5052 early stage CRC patient's tumor

description: miRNA expression data


title: 4859 early stage CRC patient's tumor

description: miRNA expression data


title: 5351 early stage CRC patient's tumor

description: miRNA expression data


title: 4895 early stage CRC patient's tumor

description: miRNA expression data


title: 5128 early stage CRC patient's tumor

description: miRNA expression data


title: 4667 early stage CRC patient's tumor

description: miRNA expression data


title: 4361 early stage CRC patient's tumor

description: miRNA expression data


title: 4373 early stage CRC patient's tumor

description: miRNA expression data


title: 4381 early stage CRC patient's tumor

description: miRNA expression data


title: 4599 early stage CRC patient's tumor

description: miRNA expression data


title: 4639 early stage CRC patient's tumor

description: miRNA expression data


title: 4317 early stage CRC patient's tumor

description: miRNA expression data


title: 4280 early stage CRC patient's tumor

description: miRNA expression data


title: 4281 early stage CRC patient's tumor

description: miRNA expression data


title: 4334 early stage CRC patient's tumor

description: miRNA expression data


title: 4249 early stage CRC patient's tumor

description: miRNA expression data


title: 4267 early stage CRC patient's tumor

description: miRNA expression data


title: 4237 early stage CRC patient's tumor

description: miRNA expression data


title: 4202 early stage CRC patient's tumor

description: miRNA expression data


title: 4235 early stage CRC patient's tumor

description: miRNA expression data


title: 4168 early stage CRC patient's tumor

description: miRNA expression data


title: 4273 early stage CRC patient's tumor

description: miRNA expression data


title: 4200 early stage CRC patient's tumor

description: miRNA expression data


title: 4192 early stage CRC patient's tumor

description: miRNA expression data


title: 4201 early stage CRC patient's tumor

description: miRNA expression data


title: 4238 early stage CRC patient's tumor

description: miRNA expression data


title: 4250 early stage CRC patient's tumor

description: miRNA expression data


title: 4146 early stage CRC patient's tumor

description: miRNA expression data


title: 4144 early stage CRC patient's tumor

description: miRNA expression data


title: 4134 early stage CRC patient's tumor

description: miRNA expression data


title: 4341 early stage CRC patient's tumor

description: miRNA expression data


title: 4185 early stage CRC patient's tumor

description: miRNA expression data


title: 4248 early stage CRC patient's tumor

description: miRNA expression data


title: 4148 early stage CRC patient's tumor

description: miRNA expression data


title: 4129 early stage CRC patient's tumor

description: miRNA expression data


title: 4073 early stage CRC patient's tumor

description: miRNA expression data


title: 4114 early stage CRC patient's tumor

description: miRNA expression data


title: 4106 early stage CRC patient's tumor

description: miRNA expression data


title: 4127 early stage CRC patient's tumor

description: miRNA expression data


title: 4275 early stage CRC patient's tumor

description: miRNA expression data


title: 4093 early stage CRC patient's tumor

description: miRNA expression data


title: 4061 early stage CRC patient's tumor

description: miRNA expression data


title: 4049 early stage CRC patient's tumor

description: miRNA expression data


title: 4037 early stage CRC patient's tumor

description: miRNA expression data


title: 4040 early stage CRC patient's tumor

description: miRNA expression data


title: 4039 early stage CRC patient's tumor

description: miRNA expression data


title: 4041 early stage CRC patient's tumor

description: miRNA expression data


title: 4038 early stage CRC patient's tumor

description: miRNA expression data


title: 4030 early stage CRC patient's tumor

description: miRNA expression data


title: 4045 early stage CRC patient's tumor

description: miRNA expression data


title: 4027 early stage CRC patient's tumor

description: miRNA expression data


title: 4017 early stage CRC patient's tumor

description: miRNA expression data


title: 4015 early stage CRC patient's tumor

description: miRNA expression data


title: 4009 early stage CRC patient's tumor

description: miRNA expression data


title: 3995 early stage CRC patient's tumor

description: miRNA expression data


title: 3987 early stage CRC patient's tumor

description: miRNA expression data


title: 3963 early stage CRC patient's tumor

description: miRNA expression data


title: 3972 early stage CRC patient's tumor

description: miRNA expression data


title: 3986 early stage CRC patient's tumor

description: miRNA expression data


title: 4050 early stage CRC patient's tumor

description: miRNA expression data


title: 3952 early stage CRC patient's tumor

description: miRNA expression data


title: 3931 early stage CRC patient's tumor

description: miRNA expression data


title: 3928 early stage CRC patient's tumor

description: miRNA expression data


title: 3895 early stage CRC patient's tumor

description: miRNA expression data


title: 3886 early stage CRC patient's tumor

description: miRNA expression data


title: 3876 early stage CRC patient's tumor

description: miRNA expression data


title: 3872 early stage CRC patient's tumor

description: miRNA expression data


title: 4003 early stage CRC patient's tumor

description: miRNA expression data


title: 3978 early stage CRC patient's tumor

description: miRNA expression data


title: 3967 early stage CRC patient's tumor

description: miRNA expression data


title: 3959 early stage CRC patient's tumor

description: miRNA expression data


title: 3860 early stage CRC patient's tumor

description: miRNA expression data


title: 3834 early stage CRC patient's tumor

description: miRNA expression data


title: 3842 early stage CRC patient's tumor

description: miRNA expression data


title: 3737 early stage CRC patient's tumor

description: miRNA expression data


title: 3804 early stage CRC patient's tumor

description: miRNA expression data


title: 3823 early stage CRC patient's tumor

description: miRNA expression data


title: 3782 early stage CRC patient's tumor

description: miRNA expression data


title: 3821 early stage CRC patient's tumor

description: miRNA expression data


title: 3826 early stage CRC patient's tumor

description: miRNA expression data


title: 3717 early stage CRC patient's tumor

description: miRNA expression data


title: 3685 early stage CRC patient's tumor

description: miRNA expression data


title: 3679 early stage CRC patient's tumor

description: miRNA expression data


title: 3684 early stage CRC patient's tumor

description: miRNA expression data


title: 3682 early stage CRC patient's tumor

description: miRNA expression data


title: 3775 early stage CRC patient's tumor

description: miRNA expression data


title: 3671 early stage CRC patient's tumor

description: miRNA expression data


title: 3865 early stage CRC patient's tumor

description: miRNA expression data


title: 3731 early stage CRC patient's tumor

description: miRNA expression data


title: 3757 early stage CRC patient's tumor

description: miRNA expression data


title: 3667 early stage CRC patient's tumor

description: miRNA expression data


title: 3634 early stage CRC patient's tumor

description: miRNA expression data


title: 3661 early stage CRC patient's tumor

description: miRNA expression data


title: 3644 early stage CRC patient's tumor

description: miRNA expression data


title: 3750 early stage CRC patient's tumor

description: miRNA expression data


title: 3624 early stage CRC patient's tumor

description: miRNA expression data


title: 3765 early stage CRC patient's tumor

description: miRNA expression data


title: 3604 early stage CRC patient's tumor

description: miRNA expression data


title: 3602 early stage CRC patient's tumor

description: miRNA expression data


title: 3626 early stage CRC patient's tumor

description: miRNA expression data


title: 3616 early stage CRC patient's tumor

description: miRNA expression data


title: 3599 early stage CRC patient's tumor

description: miRNA expression data


title: 3577 early stage CRC patient's tumor

description: miRNA expression data


title: 3567 early stage CRC patient's tumor

description: miRNA expression data


title: 3557 early stage CRC patient's tumor

description: miRNA expression data


title: 3562 early stage CRC patient's tumor

description: miRNA expression data


title: 3592 early stage CRC patient's tumor

description: miRNA expression data


title: 3515 early stage CRC patient's tumor

description: miRNA expression data


title: 3530 early stage CRC patient's tumor

description: miRNA expression data


title: 3490 early stage CRC patient's tumor

description: miRNA expression data


title: 3441 early stage CRC patient's tumor

description: miRNA expression data


title: 3501 early stage CRC patient's tumor

description: miRNA expression data


title: 3459 early stage CRC patient's tumor

description: miRNA expression data


title: 3514 early stage CRC patient's tumor

description: miRNA expression data


title: 3477 early stage CRC patient's tumor

description: miRNA expression data


title: 3423 early stage CRC patient's tumor

description: miRNA expression data


title: 3438 early stage CRC patient's tumor

description: miRNA expression data


title: 3431 early stage CRC patient's tumor

description: miRNA expression data


title: 3373 early stage CRC patient's tumor

description: miRNA expression data


title: 3395 early stage CRC patient's tumor

description: miRNA expression data


title: 3229 early stage CRC patient's tumor

description: miRNA expression data


title: 3357 early stage CRC patient's tumor

description: miRNA expression data


title: 3223 early stage CRC patient's tumor

description: miRNA expression data


title: 3151 early stage CRC patient's tumor

description: miRNA expression data


title: 3103 early stage CRC patient's tumor

description: miRNA expression data


title: 3094 early stage CRC patient's tumor

description: miRNA expression data


title: 3079 early stage CRC patient's tumor

description: miRNA expression data


title: 3209 early stage CRC patient's tumor

description: miRNA expression data


title: 3135 early stage CRC patient's tumor

description: miRNA expression data


title: 3132 early stage CRC patient's tumor

description: miRNA expression data


title: 3125 early stage CRC patient's tumor

description: miRNA expression data


title: 3382 early stage CRC patient's tumor

description: miRNA expression data


title: 134 early stage CRC patient's tumor

description: Gene expression data

hyb_protocol: 200ng of total RNA was hybridized with the NanoString CodeSets.

scan_protocol: Scanning was done using the nCounter GEN2 Digital Analyzer at High data resolution of 280 Field of Views (FOV)

data_processing: The data was normalized against positive control and the housekeeping genes count and log2 transformed for further analysis.

source_name: formalin-fixed and paraffin embedded early stage CRC tumor

label_protocol: Each gene was targeted with its specific capture and reporter CodeSet.

extract_protocol: 10µm thick section of each formalin-fixed and paraffin embedded sample was deparaffinized with xylene and total RNA was extracted using the Roche® High Pure FFPET RNA Isolation kit version 3 according to the manufacturer's instructions.


title: 135 early stage CRC patient's tumor

description: Gene expression data


title: 127 early stage CRC patient's tumor

description: Gene expression data


title: 130 early stage CRC patient's tumor

description: Gene expression data


title: 132 early stage CRC patient's tumor

description: Gene expression data


title: 128 early stage CRC patient's tumor

description: Gene expression data


title: 131 early stage CRC patient's tumor

description: Gene expression data


title: 133 early stage CRC patient's tumor

description: Gene expression data


title: 126 early stage CRC patient's tumor

description: Gene expression data


title: 125 early stage CRC patient's tumor

description: Gene expression data


title: 123 early stage CRC patient's tumor

description: Gene expression data


title: 122 early stage CRC patient's tumor

description: Gene expression data


title: 124 early stage CRC patient's tumor

description: Gene expression data


title: 119 early stage CRC patient's tumor

description: Gene expression data


title: 136 early stage CRC patient's tumor

description: Gene expression data


title: 117 early stage CRC patient's tumor

description: Gene expression data


title: 121 early stage CRC patient's tumor

description: Gene expression data


title: 3068 early stage CRC patient's tumor

description: miRNA expression data


title: 3058 early stage CRC patient's tumor

description: miRNA expression data


title: 120 early stage CRC patient's tumor

description: Gene expression data


title: 116 early stage CRC patient's tumor

description: Gene expression data


title: 114 early stage CRC patient's tumor

description: Gene expression data


title: 115 early stage CRC patient's tumor

description: Gene expression data


title: 112 early stage CRC patient's tumor

description: Gene expression data


title: 113 early stage CRC patient's tumor

description: Gene expression data


title: 111 early stage CRC patient's tumor

description: Gene expression data


title: 110 early stage CRC patient's tumor

description: Gene expression data


title: 109 early stage CRC patient's tumor

description: Gene expression data


title: 108 early stage CRC patient's tumor

description: Gene expression data


title: 100 early stage CRC patient's tumor

description: Gene expression data


title: 105 early stage CRC patient's tumor

description: Gene expression data


title: 102 early stage CRC patient's tumor

description: Gene expression data


title: 97 early stage CRC patient's tumor

description: Gene expression data


title: 103 early stage CRC patient's tumor

description: Gene expression data


title: 99 early stage CRC patient's tumor

description: Gene expression data


title: 98 early stage CRC patient's tumor

description: Gene expression data


title: 95 early stage CRC patient's tumor

description: Gene expression data


title: 96 early stage CRC patient's tumor

description: Gene expression data


title: 93 early stage CRC patient's tumor

description: Gene expression data


title: 91 early stage CRC patient's tumor

description: Gene expression data


title: 104 early stage CRC patient's tumor

description: Gene expression data


title: 107 early stage CRC patient's tumor

description: Gene expression data


title: 94 early stage CRC patient's tumor

description: Gene expression data


title: 92 early stage CRC patient's tumor

description: Gene expression data


title: 89 early stage CRC patient's tumor

description: Gene expression data


title: 87 early stage CRC patient's tumor

description: Gene expression data


title: 88 early stage CRC patient's tumor

description: Gene expression data


title: 129 early stage CRC patient's tumor

description: Gene expression data


title: 86 early stage CRC patient's tumor

description: Gene expression data


title: 85 early stage CRC patient's tumor

description: Gene expression data


title: 106 early stage CRC patient's tumor

description: Gene expression data


title: 84 early stage CRC patient's tumor

description: Gene expression data


title: 83 early stage CRC patient's tumor

description: Gene expression data


title: 78 early stage CRC patient's tumor

description: Gene expression data


title: 79 early stage CRC patient's tumor

description: Gene expression data


title: 101 early stage CRC patient's tumor

description: Gene expression data


title: 82 early stage CRC patient's tumor

description: Gene expression data


title: 80 early stage CRC patient's tumor

description: Gene expression data


title: 81 early stage CRC patient's tumor

description: Gene expression data


title: 64 early stage CRC patient's tumor

description: Gene expression data


title: 65 early stage CRC patient's tumor

description: Gene expression data


title: 66 early stage CRC patient's tumor

description: Gene expression data


title: 70 early stage CRC patient's tumor

description: Gene expression data


title: 76 early stage CRC patient's tumor

description: Gene expression data


title: 77 early stage CRC patient's tumor

description: Gene expression data


title: 67 early stage CRC patient's tumor

description: Gene expression data


title: 63 early stage CRC patient's tumor

description: Gene expression data


title: 74 early stage CRC patient's tumor

description: Gene expression data


title: 90 early stage CRC patient's tumor

description: Gene expression data


title: 62 early stage CRC patient's tumor

description: Gene expression data


title: 73 early stage CRC patient's tumor

description: Gene expression data


title: 61 early stage CRC patient's tumor

description: Gene expression data


title: 71 early stage CRC patient's tumor

description: Gene expression data


title: 60 early stage CRC patient's tumor

description: Gene expression data


title: Control biological rep3

city: HANGZHOU

first: XIUWEN

last: TANG

address: YUHANGTONG ROAD

department: BIOCHEMISTRY AND GENETICS

country: China

institute: ZHEJIANG UNIVERSITY SCHOOL OF MEDICINE

description: Gene expression data from A549 cells with siRNA-GFP

scan_protocol: GeneChips were scanned using GeneChip Scanner 3000

data_processing: Agilent GeneSpring GX software (Version 11.0) was used for normalization of rawdata, follwed by genes were filtered with p-value <0.05 calculated following t-test (Fold change cut off >1.5).

source_name: Human lung adenocarcinoma A549 cell line with transfected siGFP

growth_protocol: A549 cells were maintained in a growth medium containing Dulbecco's MEM with Glutamax supplemented with 10% fetal bovine serum (FBS) and antibiotics.

extract_protocol: TRIZOL reagent was used to isolate total RNA according to the manufacturer's instructions. Qiagen RNeasy Kit used for RNA purification followed by the quantification of RNA by NanoDrop-2000 spectrophotometer and qualitative analysis by Bioanalyzer (Agilent).

treatment_protocol: Lipofectamine 2000 (Invitrogen, San Diego, CA, USA) was used for transfection of plasmids or siRNA.

tag: genotype/variation

value: Control


title: NRF2 siRNA knockdown biological rep2

description: Gene expression data from A549 cells with NRF2 knockdown

source_name: Human lung adenocarcinoma A549 cell line with transfected NRF2 siRNA

value: NRF2 KD


title: 68 early stage CRC patient's tumor

description: Gene expression data


title: 69 early stage CRC patient's tumor

description: Gene expression data


title: NRF2 siRNA knockdown biological rep3


title: 53 early stage CRC patient's tumor

description: Gene expression data


title: 50 early stage CRC patient's tumor

description: Gene expression data


title: 47 early stage CRC patient's tumor

description: Gene expression data


title: 45 early stage CRC patient's tumor

description: Gene expression data


title: Control biological rep2


title: 72 early stage CRC patient's tumor

description: Gene expression data


title: Control biological rep1


title: Prostate_tumour_CPCG0381_rep2

city: Toronto

first: Yu-Jia

last: Shiah

state: Ontario

address: MaRS Centre 661 University Avenue Suite 510

department: Informatics and Bio-computing

institute: Ontario Institute for Cancer Research

hyb_protocol: Bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450k Beadchip using standard Illumina protocol

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

data_processing:
Raw data were processed through Dasen
matrix processed value definition: Average Beta
matrix signal intensities value definition: Unmethylated and methylated signal intensities

label: Cy5 and Cy3

label_protocol: Standard Illumina Protocol

extract_protocol: Illumina Infinium HumanMethylation 450k BeadChip kits were used to assess global methylation, using 500 ng of input genomic DNA at the McGill University and Genome Quebec Innovation Centre (Montreal, QC)


title: Prostate_tumour_CPCG0362_rep2


title: 57 early stage CRC patient's tumor

description: Gene expression data


title: 56 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0411_rep2


title: NRF2 siRNA knockdown biological rep1


title: 55 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0375_rep2


title: 49 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0374_rep2


title: 48 early stage CRC patient's tumor

description: Gene expression data


title: 59 early stage CRC patient's tumor

description: Gene expression data


title: 43 early stage CRC patient's tumor

description: Gene expression data


title: KEAP1 overexpression biological rep2

description: Gene expression data from A549 cells with KEAP1 overexpression

source_name: Human lung adenocarcinoma A549 cell line transfected with mKeap1-GFP

value: KEAP1 overexpression


title: 44 early stage CRC patient's tumor

description: Gene expression data


title: KEAP1 overexpression biological rep3


title: KEAP1 overexpression biological rep1


title: 37 early stage CRC patient's tumor

description: Gene expression data


title: 54 early stage CRC patient's tumor

description: Gene expression data


title: 52 early stage CRC patient's tumor

description: Gene expression data


title: 42 early stage CRC patient's tumor

description: Gene expression data


title: 51 early stage CRC patient's tumor

description: Gene expression data


title: 36 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0346_rep3


title: Prostate_tumour_CPCG0344_rep2


title: Prostate_tumour_CPCG0391_rep2


title: 46 early stage CRC patient's tumor

description: Gene expression data


title: 40 early stage CRC patient's tumor

description: Gene expression data


title: 39 early stage CRC patient's tumor

description: Gene expression data


title: 5799 early stage CRC patient's tumor

description: Gene expression data

hyb_protocol: 12.5µg of fragmented aRNA from each sample was hybridized onto HG U133 Plus 2 arrays in 250µl of hybridization buffer for 16hrs at 45°C.

scan_protocol: GeneChips were scanned using Affymetrix scanner 3000 7G system.

data_processing: The data was processed with robust multi-chip average (RMA) and ComBat.

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 100ng total RNA.

extract_protocol: Extraction of total RNA was performed according to the manufacturer's instrcutions.


title: Prostate_tumour_CPCG0368_rep2


title: Prostate_tumour_CPCG0189_rep3


title: Prostate_tumour_CPCG0365_rep3


title: Prostate_tumour_CPCG0366_rep3


title: Prostate_tumour_CPCG0365_rep4


title: 32 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0189_rep2


title: 5661 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0360_rep2


title: 29 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0184P2_rep3


title: 38 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0388_rep3


title: 35 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0334_rep3


title: 34 early stage CRC patient's tumor

description: Gene expression data


title: 33 early stage CRC patient's tumor

description: Gene expression data


title: 5620 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0184_rep4


title: Prostate_tumour_CPCG0184P2_rep2


title: Prostate_tumour_CPCG0255_rep2


title: 4859 early stage CRC patient's tumor

description: Gene expression data


title: 4895 early stage CRC patient's tumor

description: Gene expression data


title: 5463 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0353_rep2


title: 5352 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0242_rep3


title: 31 early stage CRC patient's tumor

description: Gene expression data


title: 4667 early stage CRC patient's tumor

description: Gene expression data


title: 30 early stage CRC patient's tumor

description: Gene expression data


title: 5351 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0345_rep4


title: 5419 early stage CRC patient's tumor

description: Gene expression data


title: 4599 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0265_rep2


title: Prostate_tumour_CPCG0345_rep3


title: Prostate_tumour_CPCG0392_rep3


title: 5128 early stage CRC patient's tumor

description: Gene expression data


title: 5052 early stage CRC patient's tumor

description: Gene expression data


title: 22 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0258_rep2


title: 27 early stage CRC patient's tumor

description: Gene expression data


title: 28 early stage CRC patient's tumor

description: Gene expression data


title: 4565 early stage CRC patient's tumor

description: Gene expression data


title: 19 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0242_rep2


title: 25 early stage CRC patient's tumor

description: Gene expression data


title: 4588 early stage CRC patient's tumor

description: Gene expression data


title: 24 early stage CRC patient's tumor

description: Gene expression data


title: 4639 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0256_rep3


title: 4511 early stage CRC patient's tumor

description: Gene expression data


title: 18 early stage CRC patient's tumor

description: Gene expression data


title: 16 early stage CRC patient's tumor

description: Gene expression data


title: 17 early stage CRC patient's tumor

description: Gene expression data


title: 23 early stage CRC patient's tumor

description: Gene expression data


title: 21 early stage CRC patient's tumor

description: Gene expression data


title: 20 early stage CRC patient's tumor

description: Gene expression data


title: 13 early stage CRC patient's tumor

description: Gene expression data


title: 4524 early stage CRC patient's tumor

description: Gene expression data


title: 4373 early stage CRC patient's tumor

description: Gene expression data


title: 15 early stage CRC patient's tumor

description: Gene expression data


title: 4463 early stage CRC patient's tumor

description: Gene expression data


title: 4381 early stage CRC patient's tumor

description: Gene expression data


title: 11 early stage CRC patient's tumor

description: Gene expression data


title: 14 early stage CRC patient's tumor

description: Gene expression data


title: 4334 early stage CRC patient's tumor

description: Gene expression data


title: 4383 early stage CRC patient's tumor

description: Gene expression data


title: 4442 early stage CRC patient's tumor

description: Gene expression data


title: 4397 early stage CRC patient's tumor

description: Gene expression data


title: 9 early stage CRC patient's tumor

description: Gene expression data


title: 8 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0450_rep2


title: 12 early stage CRC patient's tumor

description: Gene expression data


title: 10 early stage CRC patient's tumor

description: Gene expression data


title: 6 early stage CRC patient's tumor

description: Gene expression data


title: 4361 early stage CRC patient's tumor

description: Gene expression data


title: 7 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0392_rep2


title: Prostate_tumour_CPCG0404_rep2


title: 5 early stage CRC patient's tumor

description: Gene expression data


title: 4341 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0345_rep2


title: Prostate_tumour_CPCG0388_rep2


title: 4275 early stage CRC patient's tumor

description: Gene expression data


title: 4273 early stage CRC patient's tumor

description: Gene expression data


title: 4281 early stage CRC patient's tumor

description: Gene expression data


title: 4280 early stage CRC patient's tumor

description: Gene expression data


title: 4317 early stage CRC patient's tumor

description: Gene expression data


title: 2 early stage CRC patient's tumor

description: Gene expression data


title: 4267 early stage CRC patient's tumor

description: Gene expression data


title: 3 early stage CRC patient's tumor

description: Gene expression data


title: 4 early stage CRC patient's tumor

description: Gene expression data


title: 5661 early stage CRC patient's tumor

description: Gene expression data


title: 5620 early stage CRC patient's tumor

description: Gene expression data


title: 1 early stage CRC patient's tumor

description: Gene expression data


title: 4249 early stage CRC patient's tumor

description: Gene expression data


title: 4202 early stage CRC patient's tumor

description: Gene expression data


title: 4248 early stage CRC patient's tumor

description: Gene expression data


title: 4235 early stage CRC patient's tumor

description: Gene expression data


title: 5419 early stage CRC patient's tumor

description: Gene expression data


title: 4200 early stage CRC patient's tumor

description: Gene expression data


title: 4237 early stage CRC patient's tumor

description: Gene expression data


title: 5351 early stage CRC patient's tumor

description: Gene expression data


title: 5052 early stage CRC patient's tumor

description: Gene expression data


title: 4238 early stage CRC patient's tumor

description: Gene expression data


title: 4201 early stage CRC patient's tumor

description: Gene expression data


title: 5352 early stage CRC patient's tumor

description: Gene expression data


title: 4859 early stage CRC patient's tumor

description: Gene expression data


title: 5799 early stage CRC patient's tumor

description: Gene expression data


title: 4667 early stage CRC patient's tumor

description: Gene expression data


title: 4168 early stage CRC patient's tumor

description: Gene expression data


title: 4895 early stage CRC patient's tumor

description: Gene expression data


title: 4148 early stage CRC patient's tumor

description: Gene expression data


title: 4185 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0127_rep1


title: 4146 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0256_rep2


title: 5463 early stage CRC patient's tumor

description: Gene expression data


title: 4192 early stage CRC patient's tumor

description: Gene expression data


title: 4524 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0243_rep1


title: 4134 early stage CRC patient's tumor

description: Gene expression data


title: 5128 early stage CRC patient's tumor

description: Gene expression data


title: 4127 early stage CRC patient's tumor

description: Gene expression data


title: 4144 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0556_rep1


title: 4114 early stage CRC patient's tumor

description: Gene expression data


title: 4599 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0558_rep1


title: 4250 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0087_rep1


title: Prostate_tumour_CPCG0078_rep2


title: 4397 early stage CRC patient's tumor

description: Gene expression data


title: 4442 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0073_rep2


title: Prostate_tumour_CPCG0040_rep2


title: 4588 early stage CRC patient's tumor

description: Gene expression data


title: 4565 early stage CRC patient's tumor

description: Gene expression data


title: 4511 early stage CRC patient's tumor

description: Gene expression data


title: 4061 early stage CRC patient's tumor

description: Gene expression data


title: 4050 early stage CRC patient's tumor

description: Gene expression data


title: 4073 early stage CRC patient's tumor

description: Gene expression data


title: 4106 early stage CRC patient's tumor

description: Gene expression data


title: 4463 early stage CRC patient's tumor

description: Gene expression data


title: 4093 early stage CRC patient's tumor

description: Gene expression data


title: 4049 early stage CRC patient's tumor

description: Gene expression data


title: 4334 early stage CRC patient's tumor

description: Gene expression data


title: 4383 early stage CRC patient's tumor

description: Gene expression data


title: 4129 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0117_rep1


title: Prostate_tumour_CPCG0073_rep1


title: Prostate_tumour_CPCG0040_rep1


title: 4373 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0078_rep1


title: 4361 early stage CRC patient's tumor

description: Gene expression data


title: 4039 early stage CRC patient's tumor

description: Gene expression data


title: 4381 early stage CRC patient's tumor

description: Gene expression data


title: 4280 early stage CRC patient's tumor

description: Gene expression data


title: 4281 early stage CRC patient's tumor

description: Gene expression data


title: 4317 early stage CRC patient's tumor

description: Gene expression data


title: 4275 early stage CRC patient's tumor

description: Gene expression data


title: 4038 early stage CRC patient's tumor

description: Gene expression data


title: 4267 early stage CRC patient's tumor

description: Gene expression data


title: 4273 early stage CRC patient's tumor

description: Gene expression data


title: 4037 early stage CRC patient's tumor

description: Gene expression data


title: 4041 early stage CRC patient's tumor

description: Gene expression data


title: 4250 early stage CRC patient's tumor

description: Gene expression data


title: 4045 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0450_rep1


title: 4030 early stage CRC patient's tumor

description: Gene expression data


title: 4249 early stage CRC patient's tumor

description: Gene expression data


title: 4248 early stage CRC patient's tumor

description: Gene expression data


title: 4017 early stage CRC patient's tumor

description: Gene expression data


title: 4235 early stage CRC patient's tumor

description: Gene expression data


title: 4009 early stage CRC patient's tumor

description: Gene expression data


title: 4237 early stage CRC patient's tumor

description: Gene expression data


title: 4040 early stage CRC patient's tumor

description: Gene expression data


title: 4003 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0388_rep1


title: Prostate_tumour_CPCG0404_rep1


title: 3986 early stage CRC patient's tumor

description: Gene expression data


title: 3987 early stage CRC patient's tumor

description: Gene expression data


title: 4202 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0392_rep1


title: Prostate_tumour_CPCG0389_rep2


title: 4027 early stage CRC patient's tumor

description: Gene expression data


title: 3978 early stage CRC patient's tumor

description: Gene expression data


title: 4238 early stage CRC patient's tumor

description: Gene expression data


title: 4015 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0256_rep1


title: 4201 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0379_rep2


title: 4192 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0366_rep2


title: Prostate_tumour_CPCG0365_rep2


title: 3967 early stage CRC patient's tumor

description: Gene expression data


title: 3963 early stage CRC patient's tumor

description: Gene expression data


title: 4200 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0361_rep2


title: 4185 early stage CRC patient's tumor

description: Gene expression data


title: 3959 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0364_rep2


title: Prostate_tumour_CPCG0357_rep2


title: 4168 early stage CRC patient's tumor

description: Gene expression data


title: 3952 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0346_rep2


title: 3931 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0341_rep2


title: Prostate_tumour_CPCG0340_rep2


title: 4146 early stage CRC patient's tumor

description: Gene expression data


title: 4148 early stage CRC patient's tumor

description: Gene expression data


title: 4144 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0324_rep2


title: 3928 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0267_rep2


title: Prostate_tumour_CPCG0266_rep2


title: 3905 early stage CRC patient's tumor

description: Gene expression data


title: 3895 early stage CRC patient's tumor

description: Gene expression data


title: 4134 early stage CRC patient's tumor

description: Gene expression data


title: 4129 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0336_rep2


title: Prostate_tumour_CPCG0334_rep2


title: Prostate_tumour_CPCG0413_rep1


title: 4114 early stage CRC patient's tumor

description: Gene expression data


title: 3886 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0412_rep1


title: 3995 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0411_rep1


title: Prostate_tumour_CPCG0409_rep1


title: 3876 early stage CRC patient's tumor

description: Gene expression data


title: 4093 early stage CRC patient's tumor

description: Gene expression data


title: 3972 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0027_rep1


title: 3865 early stage CRC patient's tumor

description: Gene expression data


title: 3872 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0391_rep1


title: 4106 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0410_rep1


title: Prostate_tumour_CPCG0414_rep1


title: 3842 early stage CRC patient's tumor

description: Gene expression data


title: 4073 early stage CRC patient's tumor

description: Gene expression data


title: 4061 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0389_rep1


title: Prostate_tumour_CPCG0401_rep1


title: 3860 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0390_rep1


title: Prostate_tumour_CPCG0387_rep1


title: 4050 early stage CRC patient's tumor

description: Gene expression data


title: 3826 early stage CRC patient's tumor

description: Gene expression data


title: 3834 early stage CRC patient's tumor

description: Gene expression data


title: 3823 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0407_rep1


title: Prostate_tumour_CPCG0381_rep1


title: Prostate_tumour_CPCG0378_rep1


title: Prostate_tumour_CPCG0380_rep1


title: 4049 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0375_rep1


title: Prostate_tumour_CPCG0379_rep1


title: 4041 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0374_rep1


title: Prostate_tumour_CPCG0372_rep1


title: 3821 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0373_rep1


title: 4039 early stage CRC patient's tumor

description: Gene expression data


title: 4045 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0369_rep1


title: Prostate_tumour_CPCG0371_rep1


title: 4038 early stage CRC patient's tumor

description: Gene expression data


title: 4037 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0368_rep1


title: 3775 early stage CRC patient's tumor

description: Gene expression data


title: 3804 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0366_rep1


title: 4040 early stage CRC patient's tumor

description: Gene expression data


title: 3765 early stage CRC patient's tumor

description: Gene expression data


title: 4030 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0365_rep1


title: Prostate_tumour_CPCG0364_rep1


title: 4027 early stage CRC patient's tumor

description: Gene expression data


title: 3757 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0363_rep1


title: Prostate_tumour_CPCG0362_rep1


title: 4017 early stage CRC patient's tumor

description: Gene expression data


title: 3737 early stage CRC patient's tumor

description: Gene expression data


title: 3782 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0361_rep1


title: Prostate_tumour_CPCG0360_rep1


title: Prostate_tumour_CPCG0358_rep1


title: 4015 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0357_rep1


title: 4009 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0356_rep1


title: 3750 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0353_rep1


title: Prostate_tumour_CPCG0354_rep1


title: 3735 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0355_rep1


title: 3731 early stage CRC patient's tumor

description: Gene expression data


title: 3995 early stage CRC patient's tumor

description: Gene expression data


title: 3987 early stage CRC patient's tumor

description: Gene expression data


title: 3717 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0350_rep1


title: 3986 early stage CRC patient's tumor

description: Gene expression data


title: 3685 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0344_rep1


title: Prostate_tumour_CPCG0346_rep1


title: 3978 early stage CRC patient's tumor

description: Gene expression data


title: 3972 early stage CRC patient's tumor

description: Gene expression data


title: 4003 early stage CRC patient's tumor

description: Gene expression data


title: 3967 early stage CRC patient's tumor

description: Gene expression data


title: 3682 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0342_rep1


title: 3959 early stage CRC patient's tumor

description: Gene expression data


title: 3671 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0348_rep1


title: Prostate_tumour_CPCG0352_rep1


title: Prostate_tumour_CPCG0339_rep1


title: Prostate_tumour_CPCG0336_rep1


title: 3928 early stage CRC patient's tumor

description: Gene expression data


title: 3931 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0345_rep1


title: 3905 early stage CRC patient's tumor

description: Gene expression data


title: 3895 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0341_rep1


title: Prostate_tumour_CPCG0340_rep1


title: 3886 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0331_rep1


title: 3952 early stage CRC patient's tumor

description: Gene expression data


title: 3661 early stage CRC patient's tumor

description: Gene expression data


title: 3876 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0324_rep1


title: 3667 early stage CRC patient's tumor

description: Gene expression data


title: 3634 early stage CRC patient's tumor

description: Gene expression data


title: 3679 early stage CRC patient's tumor

description: Gene expression data


title: 3644 early stage CRC patient's tumor

description: Gene expression data


title: 3624 early stage CRC patient's tumor

description: Gene expression data


title: 3599 early stage CRC patient's tumor

description: Gene expression data


title: 3626 early stage CRC patient's tumor

description: Gene expression data


title: 3684 early stage CRC patient's tumor

description: Gene expression data


title: 3865 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0334_rep1


title: 3616 early stage CRC patient's tumor

description: Gene expression data


title: 3604 early stage CRC patient's tumor

description: Gene expression data


title: 3860 early stage CRC patient's tumor

description: Gene expression data


title: 3602 early stage CRC patient's tumor

description: Gene expression data


title: 3577 early stage CRC patient's tumor

description: Gene expression data


title: 3842 early stage CRC patient's tumor

description: Gene expression data


title: 3834 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0268_rep1


title: Prostate_tumour_CPCG0269_rep1


title: 3567 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0267_rep1


title: 3826 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0266_rep1


title: 3823 early stage CRC patient's tumor

description: Gene expression data


title: 3804 early stage CRC patient's tumor

description: Gene expression data


title: 3592 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0182_rep1


title: 3557 early stage CRC patient's tumor

description: Gene expression data


title: 3530 early stage CRC patient's tumor

description: Gene expression data


title: 3821 early stage CRC patient's tumor

description: Gene expression data


title: 3872 early stage CRC patient's tumor

description: Gene expression data


title: 3514 early stage CRC patient's tumor

description: Gene expression data


title: 3515 early stage CRC patient's tumor

description: Gene expression data


title: 3782 early stage CRC patient's tumor

description: Gene expression data


title: 3562 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0265_rep1


title: 3775 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0258_rep1


title: 3765 early stage CRC patient's tumor

description: Gene expression data


title: 3501 early stage CRC patient's tumor

description: Gene expression data


title: 3477 early stage CRC patient's tumor

description: Gene expression data


title: 3757 early stage CRC patient's tumor

description: Gene expression data


title: 3490 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0255_rep1


title: Prostate_tumour_CPCG0251_rep1


title: Prostate_tumour_CPCG0263_rep1


title: 3441 early stage CRC patient's tumor

description: Gene expression data


title: 3750 early stage CRC patient's tumor

description: Gene expression data


title: 3737 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0249_rep1


title: 3735 early stage CRC patient's tumor

description: Gene expression data


title: 3459 early stage CRC patient's tumor

description: Gene expression data


title: 3438 early stage CRC patient's tumor

description: Gene expression data


title: 3717 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0242_rep1


title: 3685 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0241_rep1


title: Prostate_tumour_CPCG0246_rep1


title: 3731 early stage CRC patient's tumor

description: Gene expression data


title: 3431 early stage CRC patient's tumor

description: Gene expression data


title: 3684 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0236_rep1


title: Prostate_tumour_CPCG0250_rep1


title: 3395 early stage CRC patient's tumor

description: Gene expression data


title: 3382 early stage CRC patient's tumor

description: Gene expression data


title: 3423 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0238_rep1


title: 3682 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0248_rep1


title: 3373 early stage CRC patient's tumor

description: Gene expression data


title: 3671 early stage CRC patient's tumor

description: Gene expression data


title: 3229 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0233_rep2


title: 3357 early stage CRC patient's tumor

description: Gene expression data


title: 3667 early stage CRC patient's tumor

description: Gene expression data


title: 3223 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0232_rep2


title: Prostate_tumour_CPCG0210_rep2


title: Prostate_tumour_CPCG0217_rep1


title: Prostate_tumour_CPCG0208_rep2


title: 3661 early stage CRC patient's tumor

description: Gene expression data


title: 3644 early stage CRC patient's tumor

description: Gene expression data


title: 3634 early stage CRC patient's tumor

description: Gene expression data


title: 3209 early stage CRC patient's tumor

description: Gene expression data


title: 3679 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0196_rep2


title: 3135 early stage CRC patient's tumor

description: Gene expression data


title: 3626 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0191_rep2


title: 3151 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0190_rep1


title: 3624 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0189_rep1


title: 3604 early stage CRC patient's tumor

description: Gene expression data


title: 3599 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0185_rep1


title: 3592 early stage CRC patient's tumor

description: Gene expression data


title: 3567 early stage CRC patient's tumor

description: Gene expression data


title: 3577 early stage CRC patient's tumor

description: Gene expression data


title: 3562 early stage CRC patient's tumor

description: Gene expression data


title: 3616 early stage CRC patient's tumor

description: Gene expression data


title: 3515 early stage CRC patient's tumor

description: Gene expression data


title: 3530 early stage CRC patient's tumor

description: Gene expression data


title: 3132 early stage CRC patient's tumor

description: Gene expression data


title: 3557 early stage CRC patient's tumor

description: Gene expression data


title: 3079 early stage CRC patient's tumor

description: Gene expression data


title: 3094 early stage CRC patient's tumor

description: Gene expression data


title: 3103 early stage CRC patient's tumor

description: Gene expression data


title: 3058 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0158_rep1


title: Prostate_tumour_CPCG0213_rep1


title: 3501 early stage CRC patient's tumor

description: Gene expression data


title: 3477 early stage CRC patient's tumor

description: Gene expression data


title: 3514 early stage CRC patient's tumor

description: Gene expression data


title: 3490 early stage CRC patient's tumor

description: Gene expression data


title: 3068 early stage CRC patient's tumor

description: Gene expression data


title: 3441 early stage CRC patient's tumor

description: Gene expression data


title: 3125 early stage CRC patient's tumor

description: Gene expression data


title: 3602 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0114_rep1


title: Prostate_tumour_CPCG0154_rep1


title: Prostate_tumour_CPCG0262_rep1


title: 3431 early stage CRC patient's tumor

description: Gene expression data


title: 3423 early stage CRC patient's tumor

description: Gene expression data


title: 3438 early stage CRC patient's tumor

description: Gene expression data


title: 3459 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0083_rep1


title: Prostate_tumour_CPCG0094_rep1


title: 3395 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0260_rep1


title: 3357 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0048_rep1


title: Prostate_tumour_CPCG0259_rep1


title: Prostate_tumour_CPCG0047_rep1


title: Prostate_tumour_CPCG0210_rep1


title: 3223 early stage CRC patient's tumor

description: Gene expression data


title: 3151 early stage CRC patient's tumor

description: Gene expression data


title: 3209 early stage CRC patient's tumor

description: Gene expression data


title: 3132 early stage CRC patient's tumor

description: Gene expression data


title: 3229 early stage CRC patient's tumor

description: Gene expression data


title: 3103 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0232_rep1


title: 3135 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0196_rep1


title: Prostate_tumour_CPCG0191_rep1


title: 3079 early stage CRC patient's tumor

description: Gene expression data


title: 3125 early stage CRC patient's tumor

description: Gene expression data


title: 3094 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0233_rep1


title: Prostate_tumour_CPCG0184P2_rep1


title: Prostate_tumour_CPCG0208_rep1


title: 3058 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0183_rep1


title: Prostate_tumour_CPCG0184_rep1


title: Prostate_tumour_CPCG0099_rep1


title: 3068 early stage CRC patient's tumor

description: Gene expression data


title: Prostate_tumour_CPCG0102_rep1


title: Prostate_tumour_CPCG0057_rep1


title: mouse alveolar macrophage_aged_viralinfection_rep2

status: Public on Aug 01 2017

city: New Haven

first: Koji

last: Sakamoto

state: CT

address: 300 Cedar Street

department: Internal Medicine

institute: Yale University

hyb_protocol: 600 ng of Cy3-labelled cRNA (specific activity >6.0 pmol Cy3/ug cRNA) was fragmented at 60°C for 30 minutes in a reaction volume of 25 ul containing 1x Agilent fragmentation buffer and 2x Agilent blocking agent following the manufacturers instructions. On completion of the fragmentation reaction, 25 ul of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to Agilent SurePrint G3 Mouse Gene Expression v2 8x60k microarray slides (G4852B) for 17 hours at 65°C in a rotating Agilent hybridization oven.  After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37Â°C GE Wash buffer 2 (Agilent).

scan_protocol: Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2505C) using one color scan setting for 8x60k array slides (Scan Area 61x21.6 mm, Scan resolution 3um, Dye channel is set to Green and Green PMT is set to 100%).

data_processing: The scanned images were analyzed with Feature Extraction Software 12.0.0.7 (Agilent) using default parameters (protocol GE1_1200_Jun14 and Grid: 074809_D_F_20150624) to obtain background subtracted and spatially detrended Processed Signal intensities.  Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded.

source_name: alveolar macrophage, from 22-24 month-old, influenza virus

label_protocol: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.25 ug RNA using the One-Color Low RNA Quick Amp labeling 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 isolated using the miRNeasy micro kit (Qiagen, Valencia CA) by utilizing QIAcube (Qiagen, Valencia CA).  RNA was quantified using a NanoDrop-1000 spectrophotometer and quality was monitored with the Agilent Tapestation 2200 Bioanalyzer with High Sensitivity RNA ScreenTape (Agilent Technologies, Santa Clara, CA).

treatment_protocol: C57B/6 mice of either 2-4 months-old or 22-24 months old were obtained from the National Institute of Aging rodent facility. Mice were infected with purified human influenza virus, A/Puerto Rico/8/34 (H1N1) (PR8) (Advanced Biotechnologies Inc.; MD, USA), by instillation of with 50μl PBS containing indicated dose of PR8 virus or 50μl PBS control intranasally. At day 3 post infection, the lungs were harvested and single-cell suspension was obtained by mechanical and enzymatic digestion. . After staining with fluorescent antibodies, Alveolar macrophages were sorted according to their forward- and side-scatter profiles and by their phenotype as follow: CD45+SiglecF+CD11chiF4/80+.

tag: strain

tag: young or aged

value: aged

tag: treatment

value: influenza virus


title: mouse alveolar macrophage_aged_viralinfection_rep4


title: mouse alveolar macrophage_aged_rep2

source_name: alveolar macrophage, from 22-24 month-old, PBS

value: PBS


title: mouse alveolar macrophage_aged_rep5


title: mouse alveolar macrophage_young_viralinfection_rep1

source_name: alveolar macrophage, from 2-4 month-old, influenza virus

value: young


title: mouse alveolar macrophage_aged_rep3


title: mouse alveolar macrophage_aged_viralinfection_rep3


title: mouse alveolar macrophage_aged_viralinfection_rep5


title: mouse alveolar macrophage_young_viralinfection_rep6


title: mouse alveolar macrophage_aged_viralinfection_rep1


title: mouse alveolar macrophage_aged_rep4


title: mouse alveolar macrophage_young_viralinfection_rep3


title: mouse alveolar macrophage_aged_rep6


title: mouse alveolar macrophage_young_viralinfection_rep2


title: mouse alveolar macrophage_young_rep6

source_name: alveolar macrophage, from 2-4 month-old, PBS


title: mouse alveolar macrophage_aged_rep1


title: mouse alveolar macrophage_young_rep2


title: mouse alveolar macrophage_young_viralinfection_rep5


title: Defect2-1 [D2-1]

city: Seoul

first: Jae-Hyung

last: Lee

address: 26 Kyungheedae-ro, Dongdaemun-gu

country: South Korea

institute: Kyung Hee University

description: Gene expression in alveolar bone tissue

hyb_protocol: Affymetrix Whole Transcript Expression Array were hybridized with labeled sense DNA, washed, stained, and scanned according to the protocol described in WT Sense Target Labeling Assay Manual.

scan_protocol: Scanned according to the protocol described in WT Sense Target Labeling Assay Manual.

data_processing: The raw data were normalized with the robust multi-average method, and the median value of probe intensities in the same gene was used to represent the expression level of the gene.

organism: Canis lupus familiaris

source_name: Regenerated tissue in the defect and adjacent alveolar bone

label_protocol: Total RNA were amplified and labeled using the Affymetrix Whole-Transcript (WT) Sense Target Labeling Protocol without rRNA reduction.

extract_protocol: Total RNA was extracted either from the regenerated tissue in the defect and adjacent alveolar bone surrounding the root of the maxillary second premolar (Groups D2, D6, and DT6) or from the sound alveolar bone tissue around the maxillary premolar roots (Group C). The purity and integrity of the extracted RNA was evaluated by spectrophotometry at an optical density (OD) ratio of 260/280 with an Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA, USA). The Affymetrix Whole Transcript Expression Array was used to measure multiplexed mRNA expression according to the manufacturer's protocol (GeneChip Whole Transcript PLUS reagent Kit, Affymetrix Inc., Santa Clara, CA, USA).

treatment_protocol: Time-course changes of defect healing status were observed by serial radiographic images taken at 0, 2, 4, and 6 weeks after surgery (Rextar X, PoskomCo., Ltd, Goyang, Korea). After euthanazia by direct injection of Zoletil 50 (Virbac Laboratories, Carros, France) into the heart at each observation time, tissue blocks were harvested including the regenerative tissue in the defect between the roots.

tag: tissue

value: alveolar bone tissue

tag: tissue subtype


title: Defect6-1 [D6-1]

description: Gene expression in alveolar bone tissue

value: Regenerated tissue in the defect and adjacent alveolar bone


title: mouse alveolar macrophage_young_rep1


title: Defect2-2 [D2-2]

description: Gene expression in alveolar bone tissue


title: Defect-Protracted6-1 [DT6-1]

description: Gene expression in alveolar bone tissue


title: Defect-Protracted6-2 [DT6-2]

description: Gene expression in alveolar bone tissue


title: Defect6-2 [D6-2]

description: Gene expression in alveolar bone tissue


title: mouse alveolar macrophage_young_viralinfection_rep4


title: mouse alveolar macrophage_young_rep5


title: mouse alveolar macrophage_young_rep3


title: Control2 [C-2]

description: Gene expression in alveolar bone tissue

source_name: Sound alveolar bone tissue

value: Sound alveolar bone tissue


title: Control1 [C-1]

description: Gene expression in alveolar bone tissue