title: E0217025

status: Public on Jun 30 2016

type: RNA

city: Washington

first: Matthew

middle: David

last: Barberio

state: District of Columbia

address: 111 Michigan Avenue

department: Exercise and Nutrition Sciences

country: USA

institute: George Washington University

hyb_protocol: Standard Illumina hybridization protocol

scan_protocol: Standard Illumina scan protocol

data_processing: Quality control was performed using the Illumina GenomeStudio tools. Initial quality control was done using Illumina’s recommended guidelines. Data were transformed and normalized using bioconductor (www.bioconductor.org) lumi package in R statistical environment. Data was transformed using a combination of four different normalization methods – quantile normalization, robust spline normalization, rank invariant and simple scaling normalization, and two different transformation methods: log2 and variance stabilization transformation. Unsupervised clustering and principal component analysis were performed to choose the normalization method that produced the least background noise. Based on the biological and technical replicate grouping, technical outliers were removed and variance stabilized.

label: biotin

molecule: total RNA

organism: Homo sapiens

source_name: vastus lateralis_Post Training_Subject 41

label_protocol: Illumina Total Prep RNA amplification kit

extract_protocol: Standard Trizol Extraction Protocol

treatment_protocol: 8 months of aerobic exercise

tag: subject

value: subject 41

tag: gender

value: Female

tag: race

value: White

tag: age

tag: timepoint

tag: tissue

value: vastus lateralis


title: E0216986

source_name: vastus lateralis_Post Training_Subject 42

value: subject 42

value: Male

value: Black


title: E0216997

source_name: vastus lateralis_Pre Training_Subject 40

value: subject 40


title: E0217043

source_name: vastus lateralis_Pre Training_Subject 38

value: subject 38


title: E0216996

source_name: vastus lateralis_Post Training_Subject 40


title: E0217069

source_name: vastus lateralis_Post Training_Subject 39

value: subject 39


title: E0217020

source_name: vastus lateralis_Pre Training_Subject 41


title: E0216988

source_name: vastus lateralis_Pre Training_Subject 42


title: E0217061

source_name: vastus lateralis_Pre Training_Subject 36

value: subject 36


title: E0217076

source_name: vastus lateralis_Post Training_Subject 37

value: subject 37


title: E0217048

source_name: vastus lateralis_Post Training_Subject 38


title: E0217062

source_name: vastus lateralis_Pre Training_Subject 39


title: E0217091

source_name: vastus lateralis_Pre Training_Subject 34

value: subject 34


title: E0217006

source_name: vastus lateralis_Pre Training_Subject 35

value: subject 35


title: E0217057

source_name: vastus lateralis_Post Training_Subject 36


title: E0217097

source_name: vastus lateralis_Post Training_Subject 34


title: E0217080

source_name: vastus lateralis_Pre Training_Subject 33

value: subject 33


title: E0217088

source_name: vastus lateralis_Pre Training_Subject 32

value: subject 32


title: E0217079

source_name: vastus lateralis_Post Training_Subject 33


title: E0217005

source_name: vastus lateralis_Post Training_Subject 35


title: E0217122

source_name: vastus lateralis_Post Training_Subject 31

value: subject 31


title: E0217081

source_name: vastus lateralis_Post Training_Subject 32


title: E0217053

source_name: vastus lateralis_Post Training_Subject 27

value: subject 27


title: E0217054

source_name: vastus lateralis_Pre Training_Subject 27

value: Female


title: E0217071

source_name: vastus lateralis_Pre Training_Subject 37

value: White


title: E0217120

source_name: vastus lateralis_Pre Training_Subject 31

value: vastus lateralis


title: E0217008

source_name: vastus lateralis_Post Training_Subject 29

value: subject 29


title: E0217009

source_name: vastus lateralis_Post Training_Subject 30

value: subject 30


title: E0217244

source_name: vastus lateralis_Post Training_Subject 28

value: subject 28


title: E0217010

source_name: vastus lateralis_Pre Training_Subject 30

value: Black


title: E0217014

source_name: vastus lateralis_Pre Training_Subject 29


title: E0217205

source_name: vastus lateralis_Post Training_Subject 26

value: subject 26


title: E0217210

source_name: vastus lateralis_Pre Training_Subject 26

value: subect 26


title: E0217249

source_name: vastus lateralis_Pre Training_Subject 25

value: subject 25

value: Male


title: E0217154

source_name: vastus lateralis_Post Training_Subject 25


title: E0217220

source_name: vastus lateralis_Pre Training_Subject 23

value: subject 23


title: E0217240

source_name: vastus lateralis_Post Training_Subject 24

value: subject 24


title: E0216987

source_name: vastus lateralis_Pre Training_Subject 28


title: E0217137

source_name: vastus lateralis_Post Training_Subject 20

value: subject 20


title: E0217239

source_name: vastus lateralis_Pre Training_Subject 24


title: T-REx-293 A-series A3B-eGFP Grand-daugther #3

type: genomic

city: London

first: Anita

last: Grigoriadis

address: Great Maze Pond

country: United Kingdom

institute: King's College London

hyb_protocol: Followed standard Illumina protocol

scan_protocol: Followed standard Illumina protocol

data_processing: All values were obtained from Illumina GenomeStudio (Genotyping Module)

label: Biotin (C, G), DNP (A,T)

molecule: genomic DNA

source_name: T-REx-293 cells expressing A3B-eGFP

label_protocol: Followed standard Illumina protocol

growth_protocol: T-REx-293 cells were cultured in high glucose DMEM supplemented with 10% FBS and 0.5% Pen/Strep

extract_protocol: Genomic DNA was prepared using the Gentra PureGene kit (Qiagen, Valencia, CA)

tag: cell line


title: E0217145

source_name: vastus lateralis_Pre Training_Subject 21

value: subject 21


title: E0217144

source_name: vastus lateralis_Post Training_Subject 21


title: E0217129

source_name: vastus lateralis_Pre Training_Subject 22

value: subject 22


title: E0217215

source_name: vastus lateralis_Pre Training_Subject 19

value: subject 19


title: E0217125

source_name: vastus lateralis_Post Training_Subject 22


title: E0217216

source_name: vastus lateralis_Post Training_Subject 23


title: E0217214

source_name: vastus lateralis_Post Training_Subject 19

value: Female


title: E0217189

source_name: vastus lateralis_Pre Training_Subject 18

value: subject 18

value: White


title: E0217187

source_name: vastus lateralis_Post Training_Subject 18

value: vastus lateralis


title: T-REx-293 A-series eGFP Grand-daugther #2

source_name: T-REx-293 cells expressing eGFP


title: T-REx-293 A-series eGFP Grand-daugther #1


title: T-REx-293 C-series eGFP Grand-daugther #1


title: E0217186

source_name: vastus lateralis_Pre Training_Subject 17

value: subject 17


title: E0217177

source_name: vastus lateralis_Post Training_Subject 17


title: T-REx-293 C-series A3B-eGFP Grand-daugther #3


title: T-REx-293 A-series A3B-eGFP Grand-daugther #2


title: T-REx-293 C-series eGFP Grand-daugther #2


title: T-REx-293 C-series A3B-eGFP Grand-daugther #1


title: T-REx-293 A-series eGFP Grand-daugther #3


title: E0217180

source_name: vastus lateralis_Post Training_Subject 16

value: subject 16


title: T-REx-293 C-series A3B-eGFP Grand-daugther #2


title: E0217182

source_name: vastus lateralis_Pre Training_Subject 14

value: subject 14


title: E0217178

source_name: vastus lateralis_Pre Training_Subject 16


title: E0217176

source_name: vastus lateralis_Post Training_Subject 14


title: E0217141

source_name: vastus lateralis_Post Training_Subject 13

value: subject 13


title: E0217167

source_name: vastus lateralis_Post Training_Subject 15

value: subject 15


title: E0217163

source_name: vastus lateralis_Pre Training_Subject 15


title: T-REx-293 A-series A3B-eGFP Grand-daugther #1

source_name: T-REx-293 cells expressing A3B-eGFP


title: E0217135

source_name: vastus lateralis_Pre Training_Subject 13


title: T-REx-293 C-series eGFP Grand-daugther #3


title: T-REx-293 C-series A3B-eGFP Daugther


title: E0217197

source_name: vastus lateralis_Pre Training_Subject 12

value: subject 12


title: E0217134

source_name: vastus lateralis_Pre Training_Subject 11

value: subject 11


title: T-REx-293 A-series eGFP Daugther


title: E0217201

source_name: vastus lateralis_Post Training_Subject 12

value: Male


title: T-REx-293 A-series A3B-eGFP Daugther


title: E0217223

source_name: vastus lateralis_Pre Training_Subject 9

value: subject 9


title: E0217131

source_name: vastus lateralis_Pre Training_Subject 20

value: subject 20


title: T-REx-293 C-series eGFP Daugther

source_name: T-REx-293 cells expressing eGFP


title: E0217222

source_name: vastus lateralis_Post Training_Subject 9


title: E0217138

source_name: vastus lateralis_Post Training_Subject 11


title: E0217132

source_name: vastus lateralis_Post Training_Subject 8

value: subject 8

value: Black


title: E0217142

source_name: vastus lateralis_Pre Training_Subject 8


title: E0217175

source_name: vastus lateralis_Pre Training_Subject 10

value: subject 10


title: E0217212

source_name: vastus lateralis_Pre Training_Subject 7

value: subject 7

value: Female


title: E0217213

source_name: vastus lateralis_Post Training_Subject 7

value: White


title: E0217152

source_name: vastus lateralis_Pre Training_Subject 5

value: subject 5

value: vastus lateralis


title: E0217174

source_name: vastus lateralis_Post Training_Subject 10


title: E0217160

source_name: vastus lateralis_Pre Training_Subject 6

value: subject 6


title: E0217191

source_name: vastus lateralis_Pre Training_Subject 3

value: subject 3


title: ChipNC #17

city: New York

first: Mayte

last: Suarez-Farinas

state: NY

address: 1425 Madison Ave, L2-70C, Box 1077,

institute: Mount SinaiSchool of Medicine

hyb_protocol: RNA was hybridized to hthgu133pluspm  chips to measure relative gene expression.

scan_protocol: Hewlett-Packard GeneArray Scanner

data_processing: RMA (using rma package from R/Bioconductor) and adjusted for batch and gender (see publication)

source_name: human skin biopsy

label_protocol: GeneChip Affymetrix protocol

extract_protocol: Total RNA was extracted using miRNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturer’s protocol with on-column DNase digestion

tag: patient id

tag: disease status

value: Normal

value: Skin


title: E0217202

source_name: vastus lateralis_Pre Training_Subject 4

value: subject 4


title: ChipNC #25


title: E0217200

source_name: vastus lateralis_Pre Training_Subject 1

value: subject 1


title: ChipNC #23


title: ChipNC #21


title: E0217147

source_name: vastus lateralis_Post Training_Subject 5


title: E0217158

source_name: vastus lateralis_Pre Training_Subject 2

value: subject 2

value: Male


title: ChipNC #16


title: E0217155

source_name: vastus lateralis_Post Training_Subject 2


title: E0217193

source_name: vastus lateralis_Post Training_Subject 3


title: E0217153

source_name: vastus lateralis_Post Training_Subject 6


title: ChipNC #22


title: E0217203

source_name: vastus lateralis_Post Training_Subject 4


title: ChipNC #24


title: ChipNC #19


title: ChipNC #18


title: ChipNC #15


title: ChipNC #13


title: ChipNC #11


title: ChipNC #9


title: ChipNC #12


title: ChipNC #10


title: E0217196

source_name: vastus lateralis_Post Training_Subject 1


title: ChipNC #7


title: ChipNC #6


title: ChipNC #5


title: ChipNC #8


title: ChipNC #2


title: PPP-24/Normal Palm

value: PALM


title: ChipNC #3


title: ChipNC #14


title: PPP-23/Normal Palm


title: ChipNC #1


title: CH23_COT_IL1B

city: Liege

first: Fanny

last: Comblain

address: avenue Hippocrate 13, CHU Sart Tilman

country: Belgium

institute: University of Liege

hyb_protocol: We used the Illumina Direct Hybridation Assay protocol, as recommended

scan_protocol: We used the Illumina iScan scanner with Direct Hyb scanning protocols

data_processing: Raw expression data were acquired with GenomeStudio (Illumina) software without normalization process, background has not been removed, missing data were imputed. The non-normalized table was then uploaded in BRB Array tools software (http://linus.nci.nih.gov/BRB-ArrayTools.html). Data were normalized with quantile protocol through the lumi package, included in BRB Array tools.

source_name: cultured chondrocytes from cartilage_COT_IL1B

label_protocol: Illumina TotalPrep™-96 RNA Amplification Kit has been used for labeling of RNAs

growth_protocol: Articular cartilage samples from 12 patients with knee OA were obtained at the time of total knee joint replacement surgery. Full-depth articular cartilage was excised and immersed in Dulbecco’s Modified Eagle Medium (DMEM) (with phenol red and 4.5 g/L glucose) supplemented with N-(2-hydroxyethyl)piperazine-N’-(2-ethanesulfonic acid) (HEPES) 10 mM, penicillin (100 U/ml) and streptomycin (0.1 mg/ml) (all from Lonza, Verviers, Belgium). After three washings, chondrocytes were released from cartilage by sequential enzymatic digestions with 0.5 mg/ml hyaluronidase type IV S (Sigma-Aldrich, Bornem, Belgium) for 30 min at 37 °C, 1 mg/ml pronase E (Merck, Leuven, Belgium) for 1 h at 37 °C and 0.5 mg/ml clostridial collagenase IA (Sigma-Aldrich, Bornem, Belgium) for 16 to 20 h at 37 °C. The enzymatically isolated cells were then filtered through a nylon mesh (70 µm), washed three times, counted and filled to the density of 0.1 x 10e6 cells/ml of DMEM (with phenol red and 4.5 g/L glucose) supplemented with 10 % fetal bovine serum, 10 mM HEPES, 100 U/ml penicillin, 0.1 mg/ml streptomycin, 2 mM glutamine (all from Lonza, Verviers, Belgium), 20 µg/ml proline and 50 µg/ml vitamin C (Sigma-Aldrich, Bornem, Belgium). Cells were seeded in a 6 well plate at the density of 0.2 x 10e6 cells/well and cultured in monolayer for 5 days. Chondrocytes were then cultured in monolayer until confluence (for about 24 hours) in DMEM supplemented with 1 % fetal bovine serum, 10 mM HEPES, 100 U/ml penicillin, 0.1 mg/ml streptomycin, 2 mM glutamine, 20 µg/ml proline and 50 µg/ml vitamin C. Only primary cultures were used to ensure the stability of chondrocyte phenotype.

extract_protocol: Total RNA was extracted using the RNeasy Mini Kit (Qiagen, Venlo, Netherlands) and were reverse transcripted with SuperScript III Reverse Transcriptase (InVitrogen, Merelbeke, Belgium) according to the manufacturer's instructions. The yield of the extracted RNA was determined spectrophotometrically by measuring the optical density at 260nm. The purity and quality of extracted RNA were evaluated using the Experion RNA StdSens Analysis kit (Bio-Rad Laboratories, Hercules, CA). High quality RNA with RNA Quality Indicator (RQI) scores greater than 8 was used for microarray experiments.

treatment_protocol: When OA human chondrocytes achieved confluence, the culture medium was removed and replaced by fresh culture medium with or without the combination of tested compounds (COT : 4 µg/ml curcuminoids extract + 4 µg/ml hydrolyzed collagen + 4 µg/ml green tea extract), and in the absence or in the presence of human IL-1β (10e-11 M) (R&D System, Abingdon, UK). Curcuminoids extract was solubilized in tetrahydrofuran (Merck, Leuven, Belgium). Tetrahydrofuran was added in each condition to obtain final concentration at 0.1 %. Hydrolyzed collagen and green tea extract were dissolved in water and filtered through a sterile mesh (0.20 µm). The effects of compounds were compared to controls consisting in same media without compounds and with or without IL-1β. Chondrocytes were incubated for 24 hours with the compounds and/or IL-1β. After 24 h of incubation, cells were scrapped, and ribonucleic acid (RNA) extraction was performed using RNeasy mini kit (Qiagen, Venlo, Netherlands).

tag: disease state

value: osteoarthritis

value: female

value: 56 years old

value: cartilage

tag: cell type

value: primary chondrocytes

tag: incubated with

value: human IL-1β (10e-11M) and COT


title: PPP-20/Normal Palm


title: PPP-16/Normal Palm


title: PPP-15/Normal Palm


title: PPP-11/Normal Palm


title: C0743T12/163/2016-025/W0

value: PS


title: CH22_COT_IL1B

value: 76 years old


title: CH21_COT_IL1B

value: male

value: 54 years old


title: PPP-13/Normal Palm

value: Normal


title: ChipNC #4

value: Skin


title: CH19_COT_IL1B

value: 74 years old


title: CH17_COT_IL1B

value: 55 years old


title: C0743T12/135/2016-006/W0


title: C0743T12/347/2012-042/W0


title: CH16_COT_IL1B

value: 75 years old


title: C0743T12/218/1022-009/W0


title: C0743T12/242/1022-016/W0


title: CH13_COT_IL1B

value: 68 years old


title: C0743T12/41/1019-015/W0


title: C0743T12/215/1022-008/W0


title: CH12_COT_IL1B

value: 65 years old


title: CH10_COT_IL1B

value: osteoarthritis


title: C0743T12/305/1022-024/W0


title: CH11_COT_IL1B

value: female

value: 70 years old


title: C0743T12/73/1016-014/W0


title: PPP-6/08-06-A/pre

value: PPPP

value: SOLE


title: CH19_ctrl_IL1B

source_name: cultured chondrocytes from cartilage_ctrl_IL1B

value: cartilage

value: primary chondrocytes

value: human IL-1β (10e-11M)


title: CH22_ctrl_IL1B

value: 76 years old


title: CH21_ctrl_IL1B

value: male

value: 54 years old


title: CH18_COT_IL1B

value: human IL-1β (10e-11M) and COT


title: CH20_ctrl_IL1B

value: 71 years old


title: C0743T12/107/1012-007/W0

value: PS

value: Skin


title: PPP-7/08-07-A/pre

value: PALM


title: CH17_ctrl_IL1B

value: 55 years old


title: CH18_ctrl_IL1B

value: osteoarthritis


title: PPP-4/08-01-A/pre


title: PPP-21/08-04-B/pre

value: PPP


title: PPP-14/01-05-B/pre


title: CH16_ctrl_IL1B

value: 75 years old


title: CH23_ctrl_IL1B

value: female

value: 56 years old


title: CH13_ctrl_IL1B

value: 68 years old

value: cartilage


title: CH12_ctrl_IL1B

value: 65 years old

value: primary chondrocytes

value: human IL-1β (10e-11M)


title: ESCC normal sample_108

city: HOUSTON

first: Hyun-Sung

last: Lee

state: TX

address: One Baylor Plaza

department: Surgery

institute: BAYLOR COLLEGE OF MEDICINE

description:
NCC_LHS_108N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.

hyb_protocol: Then labeled small non-coding RNA was hybridized to the array and incubated as described in the protocol (Affymetrix). Then, the chips were washed and stained with GeneChip® Fluidics Station 450 (Affymetrix).

scan_protocol: Arrays were scanned using GeneChip® scanner 3000 7G (Affymetrix). Feature extraction was performed using Affymetrix Command Console software.

data_processing: We analyzed all data of microarray using the Robust Multichip Averaging method and implemented quantile normalization with log2 transformation of gene expression intensities with BRB-Array Tools version 4.3.0 (Biometric Research Branch, National Cancer Institute, Bethesda, MD, USA) and the R-script from the Bioconductor project (www.bioconductor.org).

label: Biotin

source_name: surgically resected esophagus preserved in tumor bank

label_protocol: 1 μg of total RNA was labeled using the Genisphere® FlashTag® Biotin HSR RNA Labeling Kit (Genisphere LLC, Hatfield, PA, USA) following the manufacturer’s recommendation.

extract_protocol: Total RNA from fresh frozen tissues was extracted using TRIzol® (Invitrogen, Carlsbad, CA, USA) according to the manufacturer's procedures. RNA quality was assessed by Agilent 2100 bioanalyser using the RNA 6000 Nano Chip (Agilent Technologies, Santa Clara, CA), and quantity was determined by ND-1000 Spectrophotometer (NanoDrop Technologies, DE, USA).

tag: sample id

value: ESCC normal


title: CH11_ctrl_IL1B

value: 70 years old


title: CH10_ctrl_IL1B


title: PPP-5/01-02-A/pre

value: PPPP

value: SOLE


title: CH22_COT

source_name: cultured chondrocytes from cartilage_COT

value: 76 years old

value: mixture of curcuminoids extract, hydrolyzed collagen and green tea extract (COT)


title: PPP-10/01-06-A/pre


title: ESCC tumor sample_108

description:
NCC_LHS_108T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.

value: ESCC tumor


title: PPP-18/08-05-A/pre


title: CH20_COT

value: osteoarthritis

value: 71 years old


title: ESCC normal sample_107

description:
NCC_LHS_107N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_106

description:
NCC_LHS_106T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_106

description:
NCC_LHS_106N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: CH21_COT

value: male

value: 54 years old


title: CH23_COT

value: female

value: 56 years old


title: CH19_COT

value: 74 years old

value: cartilage


title: ESCC normal sample_105

description:
NCC_LHS_105N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_107

description:
NCC_LHS_107T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: CH17_COT

value: 55 years old

value: primary chondrocytes


title: ESCC tumor sample_105

description:
NCC_LHS_105T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_104

description:
NCC_LHS_104N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.

value: ESCC normal


title: ESCC tumor sample_104

description:
NCC_LHS_104T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: CH16_COT

value: 75 years old


title: CH18_COT


title: ESCC tumor sample_103

description:
NCC_LHS_103T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: CH13_COT

value: 68 years old


title: PPP-17/01-04-B/pre

value: PPP

value: SOLE


title: CH10_COT

value: mixture of curcuminoids extract, hydrolyzed collagen and green tea extract (COT)


title: CH23_ctrl

source_name: cultured chondrocytes from cartilage_control

value: none (control)


title: ESCC tumor sample_102

description:
NCC_LHS_102T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.

value: ESCC tumor


title: ESCC normal sample_102

description:
NCC_LHS_102N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: CH22_ctrl

value: osteoarthritis

value: 76 years old


title: CH20_COT_IL1B

value: 71 years old

value: human IL-1β (10e-11M) and COT


title: CH11_COT

value: female

value: 70 years old


title: ESCC normal sample_101

description:
NCC_LHS_101N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_100

description:
NCC_LHS_100T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: CH18_ctrl

value: cartilage


title: ESCC tumor sample_101

description:
NCC_LHS_101T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: CH20_ctrl


title: CH21_ctrl

value: male

value: 54 years old


title: CH12_COT

value: 65 years old

value: primary chondrocytes


title: CH19_ctrl

value: 74 years old


title: CH17_ctrl

value: 55 years old


title: ESCC normal sample_100

description:
NCC_LHS_100N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.

value: ESCC normal


title: ESCC normal sample_103

description:
NCC_LHS_103N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_098

description:
NCC_LHS_098T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_099

description:
NCC_LHS_099T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_099

description:
NCC_LHS_099N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: CH13_ctrl

value: 68 years old


title: CH11_ctrl

value: none (control)


title: CH16_ctrl

value: 75 years old


title: ESCC normal sample_098

description:
NCC_LHS_098N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_097

description:
NCC_LHS_097N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: CH12_ctrl

value: osteoarthritis


title: ESCC tumor sample_097

description:
NCC_LHS_097T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.

value: ESCC tumor


title: ESCC tumor sample_096

description:
NCC_LHS_096T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: CH10_ctrl


title: ESCC tumor sample_108 [clinical study, Illumina]

description:
NCC_LHS_108T
To export to gene expression data based on unique gene, we used BRB arrayTools.

hyb_protocol: Labeled, amplified material (750 ng per array) was hybridized to the Illumina HumanHT-12 V4.0 Expression BeadChip according to the manufacturer's instructions (Illumina, Inc., San Diego, CA).

scan_protocol: Arrays were scanned with an Illumina BeadArray Reader confocal scanner (BeadStation 500GXDW; Illumina, Inc., San Diego, CA) according to the manufacturer's instructions.

data_processing: Array data processing were performed on Illumina BeadStudio software. We normalized gene expression data using Quantile normalization and log2 transformation. To export to a data matrix, Sample Gene Profile option of this software was used.

label_protocol: Biotin-labeled cRNA samples for hybridization were prepared according to Illumina's recommended sample labeling procedure: 500 ng of total RNA was used for cDNA synthesis, followed by an amplification/labeling step (in vitro transcription) to synthesize biotin-labeled cRNA using the Illumina TotalPrep RNA Amplification kit (Ambion, Inc., Austin, TX). cRNA concentrations using spectrophotometer (NanoDrop, ND-1000).

extract_protocol: Total RNA was isolated from tissues with mirVana RNA Isolation labeling kit (Ambion, Inc.) according to the manufacturer protocol. RNA quality and integrity were confirmed by ExperionTM Automated Electrophoresis System (BIO-RAD).

value: esophageal squamous cell carcinoma (ESCC) tumor


title: ESCC tumor sample_107 [clinical study, Illumina]

description:
NCC_LHS_107T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_096

description:
NCC_LHS_096N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_103 [clinical study, Illumina]

description:
NCC_LHS_103T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_102 [clinical study, Illumina]

description:
NCC_LHS_102T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_094

description:
NCC_LHS_094T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_091

description:
NCC_LHS_091T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_105 [clinical study, Illumina]

description:
NCC_LHS_105T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_093

description:
NCC_LHS_093T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_095

description:
NCC_LHS_095T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_095

description:
NCC_LHS_095N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_106 [clinical study, Illumina]

description:
NCC_LHS_106T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_093

description:
NCC_LHS_093N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_092

description:
NCC_LHS_092N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_100 [clinical study, Illumina]

description:
NCC_LHS_100T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_092

description:
NCC_LHS_092T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_094

description:
NCC_LHS_094N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_101 [clinical study, Illumina]

description:
NCC_LHS_101T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_091

description:
NCC_LHS_091N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_099 [clinical study, Illumina]

description:
NCC_LHS_099T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_090

description:
NCC_LHS_090N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_104 [clinical study, Illumina]

description:
NCC_LHS_104T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_098 [clinical study, Illumina]

description:
NCC_LHS_098T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_097 [clinical study, Illumina]

description:
NCC_LHS_097T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_089

description:
NCC_LHS_089T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_095 [clinical study, Illumina]

description:
NCC_LHS_095T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_096 [clinical study, Illumina]

description:
NCC_LHS_096T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_089

description:
NCC_LHS_089N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_090

description:
NCC_LHS_090T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_094 [clinical study, Illumina]

description:
NCC_LHS_094T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_088

description:
NCC_LHS_088N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_088

description:
NCC_LHS_088T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_087 [clinical study, Illumina]

description:
NCC_LHS_087T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_091 [clinical study, Illumina]

description:
NCC_LHS_091T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_086

description:
NCC_LHS_086T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_088 [clinical study, Illumina]

description:
NCC_LHS_088T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_085

description:
NCC_LHS_085T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_090 [clinical study, Illumina]

description:
NCC_LHS_090T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_087

description:
NCC_LHS_087N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_089 [clinical study, Illumina]

description:
NCC_LHS_089T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_084

description:
NCC_LHS_084T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_084 [clinical study, Illumina]

description:
NCC_LHS_084T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_086 [clinical study, Illumina]

description:
NCC_LHS_086T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_085 [clinical study, Illumina]

description:
NCC_LHS_085T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_082 [clinical study, Illumina]

description:
NCC_LHS_082T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_080 [clinical study, Illumina]

description:
NCC_LHS_080T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_083

description:
NCC_LHS_083N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_083 [clinical study, Illumina]

description:
NCC_LHS_083T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_084

description:
NCC_LHS_084N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_081 [clinical study, Illumina]

description:
NCC_LHS_081T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_083

description:
NCC_LHS_083T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_087

description:
NCC_LHS_087T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_086

description:
NCC_LHS_086N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_082

description:
NCC_LHS_082T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_085

description:
NCC_LHS_085N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_081

description:
NCC_LHS_081T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_093 [clinical study, Illumina]

description:
NCC_LHS_093T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_082

description:
NCC_LHS_082N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_081

description:
NCC_LHS_081N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_080

description:
NCC_LHS_080T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_076 [clinical study, Illumina]

description:
NCC_LHS_076T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_078 [clinical study, Illumina]

description:
NCC_LHS_078T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_079

description:
NCC_LHS_079N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_077 [clinical study, Illumina]

description:
NCC_LHS_077T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_079 [clinical study, Illumina]

description:
NCC_LHS_079T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_078

description:
NCC_LHS_078T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_080

description:
NCC_LHS_080N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_076

description:
NCC_LHS_076N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_067 [clinical study, Illumina]

description:
NCC_LHS_067T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_073 [clinical study, Illumina]

description:
NCC_LHS_073T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_075

description:
NCC_LHS_075T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_069 [clinical study, Illumina]

description:
NCC_LHS_069T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_079

description:
NCC_LHS_079T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_076

description:
NCC_LHS_076T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_066 [clinical study, Illumina]

description:
NCC_LHS_066T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_078

description:
NCC_LHS_078N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_075 [clinical study, Illumina]

description:
NCC_LHS_075T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_072 [clinical study, Illumina]

description:
NCC_LHS_072T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_070 [clinical study, Illumina]

description:
NCC_LHS_070T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_074

description:
NCC_LHS_074T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_077

description:
NCC_LHS_077T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_068 [clinical study, Illumina]

description:
NCC_LHS_068T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_074 [clinical study, Illumina]

description:
NCC_LHS_074T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_077

description:
NCC_LHS_077N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_071 [clinical study, Illumina]

description:
NCC_LHS_071T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_065 [clinical study, Illumina]

description:
NCC_LHS_065T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_074

description:
NCC_LHS_074N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_075

description:
NCC_LHS_075N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_073

description:
NCC_LHS_073T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_064 [clinical study, Illumina]

description:
NCC_LHS_064T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_071

description:
NCC_LHS_071T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_072

description:
NCC_LHS_072T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_073

description:
NCC_LHS_073N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_059 [clinical study, Illumina]

description:
NCC_LHS_059T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_062 [clinical study, Illumina]

description:
NCC_LHS_062T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_061 [clinical study, Illumina]

description:
NCC_LHS_061T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_055 [clinical study, Illumina]

description:
NCC_LHS_055T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_072

description:
NCC_LHS_072N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_058 [clinical study, Illumina]

description:
NCC_LHS_058T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_071

description:
NCC_LHS_071N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_063 [clinical study, Illumina]

description:
NCC_LHS_063T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_056 [clinical study, Illumina]

description:
NCC_LHS_056T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_054 [clinical study, Illumina]

description:
NCC_LHS_054T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_070

description:
NCC_LHS_070T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_070

description:
NCC_LHS_070N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_068

description:
NCC_LHS_068T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_053 [clinical study, Illumina]

description:
NCC_LHS_053T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_057 [clinical study, Illumina]

description:
NCC_LHS_057T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_060 [clinical study, Illumina]

description:
NCC_LHS_060T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_069

description:
NCC_LHS_069T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_092 [clinical study, Illumina]

description:
NCC_LHS_092T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_069

description:
NCC_LHS_069N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_066

description:
NCC_LHS_066T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_052 [clinical study, Illumina]

description:
NCC_LHS_052T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_051 [clinical study, Illumina]

description:
NCC_LHS_051T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_067

description:
NCC_LHS_067T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_050 [clinical study, Illumina]

description:
NCC_LHS_050T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_068

description:
NCC_LHS_068N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_067

description:
NCC_LHS_067N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_049 [clinical study, Illumina]

description:
NCC_LHS_049T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_048 [clinical study, Illumina]

description:
NCC_LHS_048T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_064

description:
NCC_LHS_064N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_064

description:
NCC_LHS_064T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_066

description:
NCC_LHS_066N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_045 [clinical study, Illumina]

description:
NCC_LHS_045T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_065

description:
NCC_LHS_065N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_046 [clinical study, Illumina]

description:
NCC_LHS_046T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_065

description:
NCC_LHS_065T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_063

description:
NCC_LHS_063T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_042 [clinical study, Illumina]

description:
NCC_LHS_042T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_043 [clinical study, Illumina]

description:
NCC_LHS_043T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_044 [clinical study, Illumina]

description:
NCC_LHS_044T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_040 [clinical study, Illumina]

description:
NCC_LHS_040T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_041 [clinical study, Illumina]

description:
NCC_LHS_041T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_062

description:
NCC_LHS_062N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_062

description:
NCC_LHS_062T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_063

description:
NCC_LHS_063N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_061

description:
NCC_LHS_061T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_038 [clinical study, Illumina]

description:
NCC_LHS_038T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_059

description:
NCC_LHS_059N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_037 [clinical study, Illumina]

description:
NCC_LHS_037T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_035 [clinical study, Illumina]

description:
NCC_LHS_035T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_058

description:
NCC_LHS_058T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_036 [clinical study, Illumina]

description:
NCC_LHS_036T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_034 [clinical study, Illumina]

description:
NCC_LHS_034T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_032 [clinical study, Illumina]

description:
NCC_LHS_032T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_060

description:
NCC_LHS_060N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_061

description:
NCC_LHS_061N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_033 [clinical study, Illumina]

description:
NCC_LHS_033T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_058

description:
NCC_LHS_058N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_060

description:
NCC_LHS_060T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_057

description:
NCC_LHS_057T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_057

description:
NCC_LHS_057N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_056

description:
NCC_LHS_056N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_056

description:
NCC_LHS_056T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_029 [clinical study, Illumina]

description:
NCC_LHS_029T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_028 [clinical study, Illumina]

description:
NCC_LHS_028T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_055

description:
NCC_LHS_055T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_031 [clinical study, Illumina]

description:
NCC_LHS_031T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_030 [clinical study, Illumina]

description:
NCC_LHS_030T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_027 [clinical study, Illumina]

description:
NCC_LHS_027T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_039 [clinical study, Illumina]

description:
NCC_LHS_039T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_055

description:
NCC_LHS_055N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_054

description:
NCC_LHS_054T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_026 [clinical study, Illumina]

description:
NCC_LHS_026T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_059

description:
NCC_LHS_059T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_024 [clinical study, Illumina]

description:
NCC_LHS_024T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_053

description:
NCC_LHS_053T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_021 [clinical study, Illumina]

description:
NCC_LHS_021T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_052

description:
NCC_LHS_052N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_054

description:
NCC_LHS_054N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_023 [clinical study, Illumina]

description:
NCC_LHS_023T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_052

description:
NCC_LHS_052T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_020 [clinical study, Illumina]

description:
NCC_LHS_020T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_025 [clinical study, Illumina]

description:
NCC_LHS_025T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_019 [clinical study, Illumina]

description:
NCC_LHS_019T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_050

description:
NCC_LHS_050N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_051

description:
NCC_LHS_051N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_017 [clinical study, Illumina]

description:
NCC_LHS_017T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_018 [clinical study, Illumina]

description:
NCC_LHS_018T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_016 [clinical study, Illumina]

description:
NCC_LHS_016T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_013 [clinical study, Illumina]

description:
NCC_LHS_013T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_012 [clinical study, Illumina]

description:
NCC_LHS_012T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_050

description:
NCC_LHS_050T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_015 [clinical study, Illumina]

description:
NCC_LHS_015T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_049

description:
NCC_LHS_049N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_022 [clinical study, Illumina]

description:
NCC_LHS_022T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_048

description:
NCC_LHS_048T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_051

description:
NCC_LHS_051T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_053

description:
NCC_LHS_053N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_049

description:
NCC_LHS_049T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_014 [clinical study, Illumina]

description:
NCC_LHS_014T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_047

description:
NCC_LHS_047N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_048

description:
NCC_LHS_048N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_009 [clinical study, Illumina]

description:
NCC_LHS_009T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_008 [clinical study, Illumina]

description:
NCC_LHS_008T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_045

description:
NCC_LHS_045T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_044

description:
NCC_LHS_044T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_046

description:
NCC_LHS_046T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_046

description:
NCC_LHS_046N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_006 [clinical study, Illumina]

description:
NCC_LHS_006T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_047

description:
NCC_LHS_047T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_043

description:
NCC_LHS_043T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_010 [clinical study, Illumina]

description:
NCC_LHS_010T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_045

description:
NCC_LHS_045N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_043

description:
NCC_LHS_043N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_042

description:
NCC_LHS_042T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_003 [clinical study, Illumina]

description:
NCC_LHS_003T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_011 [clinical study, Illumina]

description:
NCC_LHS_011T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_047 [clinical study, Illumina]

description:
NCC_LHS_047T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_002 [clinical study, Illumina]

description:
NCC_LHS_002T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_004 [clinical study, Illumina]

description:
NCC_LHS_004T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC normal sample_044

description:
NCC_LHS_044N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_041

description:
NCC_LHS_041T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_042

description:
NCC_LHS_042N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_001 [clinical study, Illumina]

description:
NCC_LHS_001T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_005 [clinical study, Illumina]

description:
NCC_LHS_005T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: ESCC tumor sample_007 [clinical study, Illumina]

description:
NCC_LHS_007T
To export to gene expression data based on unique gene, we used BRB arrayTools.


title: D6 - Mono

city: Singapore

first: Kaibo

last: Duan

address: 8A Biomedical Grove, Immunos Building, Level 4

country: Singapore

institute: Singapore Immunology Network

description:
Peripheral blood human monocytes
M1410-11

hyb_protocol: Labelled cRNAs were hybridized on Illumina Human HT12v4 BeadChips following standard method recommended by Illumina

scan_protocol: Hybridized arrays were washed and stained base on Illumina Wash Protocol and then scanned using BeadArray Scanner 500GX following scanning standard method recommended by Illumina

data_processing: Expression data was exported from Illlumina GenomeStudio software with background subtraction and was then quantile normalized and log (base 2) transformed in R using Bioconductor lumi package

source_name: Primary human myeloid cells

label_protocol: Biotinylated cRNA was prepared according to the Epicentre TargetAmp Nano-g Biotin-aRNA Labelling kit for Illumina system

growth_protocol: Peripheral blood human monocytes are either freshly isolated or stimulated for 7 days using different treatment protocols

extract_protocol: Total RNA was isolated from the generated APCs using QiagenRNeasy micro kit (Qiagen, Hilden, Germany)

treatment_protocol: To generate CD137L-DCs, monocytes were seeded onto polystyrene dishes (Becton Dickinson, Franklin Lakes, NJ, USA) pre-coated with 10 µg/ml of recombinant human CD137-Fc protein, in RPMI-1640 supplemented with 10 % FBS, 50 µg/ml streptomycin and 50 IU/ml penicillin (R10 PS media) for 7 days. Maturation was induced during the last 18 h in the presence of R848 (1 µg/ml) + IFN- (50 µg/ml). To generate Fc-monocyte controls, monocytes were cultured on Fc-coated plates. Classical DCs were generated by culturing monocytes in R10 PS media in the presence of GM-CSF (80 ng/ml) and IL-4 (100 ng/ml) for 7 days with fresh medium added on day 3. Cells were then matured with LPS (1 µg/ml) + IFN-γ (50 µg/ml). Macrophages were generated by culturing monocytes in R10 PS media in the presence of M-CSF (100 ng/ml) for 7 days

tag: donor

tag: treatment

tag: cell subtype

value: Mono

tag: batch


title: D3 - CD137L-DC

description:
Monocytes stimulated for 7 days with immobilized CD137-Fc protein
M1198-11

value: CD137-Fc protein


title: ESCC normal sample_039

description:
NCC_LHS_039N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: D6 - MQ

description:
Monocytes stimulated for 7 days with M-CSF
M1411-11

value: M-CSF

value: MQ


title: ESCC tumor sample_038

description:
NCC_LHS_038T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_041

description:
NCC_LHS_041N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: D3 - Fc-Mono

description:
Monocytes stimulated for 7 days with immobilized Fc protein
M1197-11

value: Fc protein

value: Fc-Mono


title: ESCC normal sample_038

description:
NCC_LHS_038N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_037

description:
NCC_LHS_037N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: D7 - matDC

description:
Monocytes stimulated for 7 days with GM-CSF + IL-4, and matured with LPS + IFNg during the last 24 h
M1419-11

value: GM-CSF + IL-4; matured with LPS + IFNg

value: matDC


title: D6 - CD137L-DC

description:
Monocytes stimulated for 7 days with immobilized CD137-Fc protein
M1415-11


title: ESCC tumor sample_035

description:
NCC_LHS_035T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: D3 - matDC

description:
Monocytes stimulated for 7 days with GM-CSF + IL-4, and matured with LPS + IFNg during the last 24 h
M1196-11


title: D7 - CD137L-DC

description:
Monocytes stimulated for 7 days with immobilized CD137-Fc protein
M1421-11


title: D6 - immDC

description:
Monocytes stimulated for 7 days with GM-CSF + IL-4
M1412-11

value: GM-CSF + IL-4

value: immDC


title: ESCC tumor sample_036

description:
NCC_LHS_036T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_036

description:
NCC_LHS_036N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.

value: ESCC normal


title: ESCC normal sample_035

description:
NCC_LHS_035N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: D7 - MQ

description:
Monocytes stimulated for 7 days with M-CSF
M1417-11


title: ESCC normal sample_040

description:
NCC_LHS_040N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_040

description:
NCC_LHS_040T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_037

description:
NCC_LHS_037T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_034

description:
NCC_LHS_034T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: D7 - Fc-Mono

description:
Monocytes stimulated for 7 days with immobilized Fc protein
M1420-11


title: D3 - immDC

description:
Monocytes stimulated for 7 days with GM-CSF + IL-4
M1195-11


title: D6 - matDC

description:
Monocytes stimulated for 7 days with GM-CSF + IL-4, and matured with LPS + IFNg during the last 24 h
M1413-11


title: D7 - Mono

description:
Peripheral blood human monocytes
M1416-11


title: ESCC tumor sample_039

description:
NCC_LHS_039T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: D6 - Fc-Mono

description:
Monocytes stimulated for 7 days with immobilized Fc protein
M1414-11


title: D3 - Mono

description:
Peripheral blood human monocytes
M1193-11


title: D1 - immDC

description:
Monocytes stimulated for 7 days with GM-CSF + IL-4
M1183-10


title: ESCC normal sample_032

description:
NCC_LHS_032N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: D2 - MQ

description:
Monocytes stimulated for 7 days with M-CSF
M1188-10


title: ESCC normal sample_033

description:
NCC_LHS_033N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_033

description:
NCC_LHS_033T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_031

description:
NCC_LHS_031N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: D1 - Fc-Mono

description:
Monocytes stimulated for 7 days with immobilized Fc protein
M1185-10


title: D2 - immDC

description:
Monocytes stimulated for 7 days with GM-CSF + IL-4
M1189-10


title: D7 - immDC

description:
Monocytes stimulated for 7 days with GM-CSF + IL-4
M1418-11


title: ESCC normal sample_030

description:
NCC_LHS_030N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_027

description:
NCC_LHS_027T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_028

description:
NCC_LHS_028N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_031

description:
NCC_LHS_031T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_034

description:
NCC_LHS_034N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: D2 - Mono

description:
Peripheral blodd human monocytes
M1187-10


title: D2 - Fc-Mono

description:
Monocytes stimulated for 7 days with immobilized Fc protein
M1191-10


title: D1 - CD137L-DC

description:
Monocytes stimulated for 7 days with immobilized CD137-Fc protein
M1186-10


title: D1 - matDC

description:
Monocytes stimulated for 7 days with GM-CSF + IL-4, and matured with LPS + IFNg during the last 24 h
M1184-10


title: D2 - CD137L-DC

description:
Monocytes stimulated for 7 days with immobilized CD137-Fc protein
M1192-10


title: ESCC tumor sample_029

description:
NCC_LHS_029T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: D1 - MQ

description:
Monocytes stimulated for 7 days with M-CSF
M1182-10


title: D2 - matDC

description:
Monocytes stimulated for 7 days with GM-CSF + IL-4, and matured with LPS + IFNg during the last 24 h
M1190-10


title: ESCC normal sample_029

description:
NCC_LHS_029N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_030

description:
NCC_LHS_030T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: Breast tumor sample from patient 1038

city: São Paulo

first: Eduardo

middle: Moraes

last: Reis

state: SP

address: Av. Prof. Lineu Prestes, 748

department: Biochemistry

country: Brazil

institute: University of São Paulo

hyb_protocol: Fragmented cRNA from each sample was hybridized to oligoarrays overnight at 37 °C in a shaking incubator at 300 rpm. After post-hybridization washes, hybridized targets were revealed by incubating the arrays with a Cy5-Streptavidin conjugate.

scan_protocol: Signal of the Cy5-dye from hybridized targets were detected with an arrayWoRx Biochip Reader (Applied Precision LLC, Issaquah, WA, USA).

data_processing: CodeLink Expression Analysis software (GE Healthcare) was used to extract background-subtracted spot intensities from oligoarray images.

source_name: ductal breast adenocarcinoma tissue sample, no metastatic progression

label_protocol: RNA samples were treated with RNase-free DNase I prior to labeling. 2 μg of total RNA were reverse transcribed using T7-poly-dT primer. Second-strand cDNA was produced using RNase H and E. coli DNA polymerase I. Double-stranded cDNA was column purified (QIAquick, Qiagen) and biotin-labeled cRNA targets were generated by in vitro transcription using T7 RNA polymerase and biotin-11-UTP.

extract_protocol: Snap-frozen breast tumor tissue samples were macro-dissected (>80% of tumor cells) prior to RNA isolation. Total RNA was extracted using the RNeasy mini Kit.

value: breast tumor

value: invasive ductal breast adenocarcinoma

tag: estrogen/progesterone receptor status

value: negative

tag: her2 status

value: positive

tag: ki67 status

tag: metastatic progression

value: no

tag: prognostic

value: undetermined

tag: population

value: Brazilian


title: ESCC tumor sample_026

description:
NCC_LHS_026T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.

tag: tissue

value: ESCC tumor


title: D3 - MQ

description:
Monocytes stimulated for 7 days with M-CSF
M1194-11

value: M-CSF


title: ESCC tumor sample_025

description:
NCC_LHS_025T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_023

description:
NCC_LHS_023T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: D1 - Mono

description:
Peripheral blood human monocytes
M1181-10

value: Mono


title: ESCC normal sample_025

description:
NCC_LHS_025N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_024

description:
NCC_LHS_024N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_028

description:
NCC_LHS_028T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_023

description:
NCC_LHS_023N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: Breast tumor sample from patient 1024

source_name: ductal breast adenocarcinoma tissue sample, metastatic progression

value: yes

value: poor


title: Breast tumor sample from patient 1010


title: TE-8_knockdown3

description:
TE-8_kd3
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software.

hyb_protocol: Labeled, amplified material (750 ng per array) was hybridized to the Illumina HumanHT-12 V4.0 expression beadchip according to the Manufacturer's instructions (Illumina, Inc., San Diego, CA).

scan_protocol: Arrays were scanned with an Illumina Bead array Reader confocal scanner (BeadStation 500GXDW; Illumina, Inc., San Diego, CA) according to the Manufacturer's instructions

data_processing: Array data processing were performed on Illumina BeadStudio software. We normalized gene expression data using Quantile normalization and log2 transformatoin. To export to a data matrix, Sample Gene Profile option of this software was used.

label_protocol: Biotin-labeled cRNA samples for hybridization were prepared according to Illumina's recommended sample labeling procedure: 500 ng of total RNA was used for cDNA synthesis, followed by an amplification/labeling step (in vitro transcription) to synthesize biotin-labeled cRNA using the Illumina. TotalPrep RNA Amplification kit (Ambion Inc., Austin, TX). cRNA concentrations using spectrophotometer (Nanodrop, ND-1000)

extract_protocol: Total RNA was isolated with mirVana RNA Isolation labeling kit (Ambion Inc) according to the manufacturer protocol. RNA quality and integrity were confirmed by ExperionTM Automated Electrophoresis System (BIO-RAD)

tag: cell line

value: ESCC cell line TE-8

value: nc886 ASO

tag: genotype/variation

value: nc886 knockdown


title: TE-8_knockdown2

description:
TE-8_kd2
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software.


title: ESCC tumor sample_022

description:
NCC_LHS_022T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_027

description:
NCC_LHS_027N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_026

description:
NCC_LHS_026N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_024

description:
NCC_LHS_024T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: Breast tumor sample from patient 998

tag: disease status


title: Breast tumor sample from patient 1000


title: ESCC normal sample_022

description:
NCC_LHS_022N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: TE-8_knockdown1

description:
TE-8_kd1
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software.


title: Breast tumor sample from patient 989


title: ESCC normal sample_021

description:
NCC_LHS_021N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: Breast tumor sample from patient 1007

value: good


title: ESCC tumor sample_021

description:
NCC_LHS_021T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: TE-8_control2

description:
TE-8_con2
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software.

value: VTRNA1-1 ASO

value: control


title: TE-8_control3

description:
TE-8_con3
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software.


title: ESCC tumor sample_020

description:
NCC_LHS_020T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_019

description:
NCC_LHS_019N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.

value: ESCC normal


title: ESCC normal sample_020

description:
NCC_LHS_020N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: TE-8_control1

description:
TE-8_con1
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software.


title: TE-1_knockdown2_72hr

description:
TE-1_kd2.72hr
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software.

value: ESCC cell line TE-1

tag: time


title: ESCC tumor sample_018

description:
NCC_LHS_018T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: Breast tumor sample from patient 988

value: breast tumor

value: invasive ductal breast adenocarcinoma

value: negative


title: TE-1_knockdown3_72hr

description:
TE-1_kd3.72hr
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software.


title: ESCC normal sample_018

description:
NCC_LHS_018N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_019

description:
NCC_LHS_019T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_017

description:
NCC_LHS_017N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_016

description:
NCC_LHS_016T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_015

description:
NCC_LHS_015N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: Breast tumor sample from patient 850

value: positive

value: no

value: undetermined

value: Brazilian


title: TE-1_control3_72hr

description:
TE-1_con3.72hr
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software.


title: Breast tumor sample from patient 849


title: TE-1_knockdown1_72hr

description:
TE-1_kd1.72hr
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software.


title: ESCC tumor sample_017

description:
NCC_LHS_017T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.

value: ESCC tumor


title: ESCC normal sample_016

description:
NCC_LHS_016N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: Breast tumor sample from patient 986


title: Breast tumor sample from patient 848


title: ESCC tumor sample_014

description:
NCC_LHS_014T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_015

description:
NCC_LHS_015T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: Breast tumor sample from patient 836


title: TE-1_control1_72hr

description:
TE-1_con1.72hr
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software.


title: ESCC normal sample_014

description:
NCC_LHS_014N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: Breast tumor sample from patient 837


title: ESCC tumor sample_032

description:
NCC_LHS_032T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: TE-1_knockdown3_24hr

description:
TE-1_kd3.24hr
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software.


title: TE-1_control2_72hr

description:
TE-1_con2.72hr
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software.


title: ESCC tumor sample_013

description:
NCC_LHS_013T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: TE-1_knockdown2_24hr

description:
TE-1_kd2.24hr
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software.


title: Breast tumor sample from patient 835

value: yes

value: poor


title: ESCC normal sample_012

description:
NCC_LHS_012N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_009

description:
NCC_LHS_009T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: Breast tumor sample from patient 829


title: ESCC normal sample_010

description:
NCC_LHS_010N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: TE-1_control3_24hr

description:
TE-1_con3.24hr
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software.


title: ESCC tumor sample_011

description:
NCC_LHS_011T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_011

description:
NCC_LHS_011N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: TE-1_control2_24hr

description:
TE-1_con2.24hr
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software.


title: ESCC tumor sample_010

description:
NCC_LHS_010T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: Breast tumor sample from patient 832


title: ESCC tumor sample_012

description:
NCC_LHS_012T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: Breast tumor sample from patient 834


title: ESCC normal sample_007

description:
NCC_LHS_007N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_013

description:
NCC_LHS_013N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_009

description:
NCC_LHS_009N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: TE-1_knockdown1_24hr

description:
TE-1_kd1.24hr
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software.

value: nc886 ASO


title: ESCC tumor sample_007

description:
NCC_LHS_007T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_008

description:
NCC_LHS_008N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: Breast tumor sample from patient 830


title: ESCC tumor sample_006

description:
NCC_LHS_006T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_006

description:
NCC_LHS_006N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_008

description:
NCC_LHS_008T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: TE-1_control1_24hr

description:
TE-1_con1.24hr
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software.


title: Breast tumor sample from patient 680


title: ESCC tumor sample_005

description:
NCC_LHS_005T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: Breast tumor sample from patient 678


title: Breast tumor sample from patient 608


title: Breast tumor sample from patient 609


title: ESCC normal sample_005

description:
NCC_LHS_005N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_004

description:
NCC_LHS_004T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_004

description:
NCC_LHS_004N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_003

description:
NCC_LHS_003T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC normal sample_002

description:
NCC_LHS_002N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: ESCC tumor sample_002

description:
NCC_LHS_002T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: Breast tumor sample from patient 594


title: Breast tumor sample from patient 596


title: ESCC tumor sample_001

description:
NCC_LHS_001T
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: Posterior_Rep1

city: Bangalore

first: madavan

last: vasudevan

state: Karnataka

address: Kasturi Nagar

country: India

institute: Theomics International Private Limited

description: SAMPLE 2

hyb_protocol: Standard Illumina hybridization protocol.

data_processing: Data was quantile normalized and baseline transformation to median of all samples was done using GeneSpring Gx 12.0

organism: Mus musculus

source_name: PN7 Cerebellum, posterior

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

growth_protocol: Anterior and posterior lobes of Postnatal (PN) 7 mouse cerebellum were dissected out in RNAse free conditions.

extract_protocol: Individual samples were homogenized and RNA was isolated using Tri Reagent and DNaseI treated.Two replicates of each sample were used for analysis, and the RNA integrity was verified using Agilent Bioanalyzer.

tag: strain

value: Swiss

tag: age

value: posterior cerebellar lobe


title: Breast tumor sample from patient 599


title: MKPOSE-EV AV34

city: Pittsburgh

first: Anda

middle: M

last: Vlad

state: PA

address: 204 Craft Ave

department: Ob-Gyn

institute: University of Pittsburgh

description: time point 2

scan_protocol: Standard Illumina scanning protocol

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

source_name: Mouse ovarian cell line

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

growth_protocol: Cells were cultured in complete DMEM medium until stable lines were obtained

extract_protocol: RNA was extracted with Qiagen DNA/RNA/Protein extraction kit, 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: AV33 and AV34 were infected with control adenoviral vector; AV35 and AV36 were infected with adnovirus encoding for Cre recombinase

value: 129 S4/SvJae

tag: genotype

value: MUC1+/− KrasG12D/+ PtenloxP/loxP

value: Ovarian surface epithelium

value: time point 2 (time point 1 + 3 days in culture)


title: ESCC normal sample_003

description:
NCC_LHS_003N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.

tag: sample id

value: ESCC normal


title: Breast tumor sample from patient 573

value: breast tumor

value: invasive ductal breast adenocarcinoma

value: good


title: Anterior_Rep2

description: SAMPLE 3

scan_protocol: Standard Illumina hybridization protocol.

source_name: PN7 Cerebellum, anterior

value: anterior cerebellar lobe


title: Posterior_Rep2

description: SAMPLE 4


title: MKPOSE-AdCre  AV35

description: time point 1

value: MUC1+/− KrasG12D/+ Pten-/-

value: time point 1


title: ESCC normal sample_001

description:
NCC_LHS_001N
Esophagus
To export to gene expression data based on unique gene, we used BRB array tools.


title: Breast tumor sample from patient 598

value: positive

value: negative

value: no

value: Brazilian


title: Anterior_Rep1

description: SAMPLE 1

value: Swiss


title: MKPOSE-EV AV33

description: time point 1


title: MKPOSE-AdCre  AV36

description: time point 2


title: Breast tumor sample from patient 543


title: Breast tumor sample from patient 572

value: yes

value: poor


title: MKPOSE  AV31

description: time point 1

value: 129 S4/SvJae

value: MUC1+/− KrasG12D/+ PtenloxP/loxP


title: MKPOSE  AV32

description: time point 2

value: Ovarian surface epithelium

value: time point 2 (time point 1 + 3 days in culture)


title: Brain_PN10_Rep4

city: Quebec

first: Claude

last: Robert

state: Quebec

address: Pavillon Comtois

department: Animal Sciences

country: Canada

institute: Laval University

hyb_protocol: 825 ng of labelled aRNA were hybridized on the SurePrint G3 Mouse GE 8x60K Microarray kit (Agilent) in a two-color dye-swap design in a hybridization oven for 17 h at 65°C.

scan_protocol: Microarrays slides were then washed and scanned with the PowerScanner (Tecan, Männedorf, Switzerland).

data_processing:
Data was analysed with the Array-Pro Analyzer software (MediaCybernetics, Bethesda, MD, USA).
Microarray data were pre-processed and analysed using the FlexArray 1.6.1 (http://genomequebec.mcgill.ca/FlexArray). Raw data correction consisted of a Lowess intra-array normalization and Quantile inter-array normalization. Statistically significant variations were detected using Limma (Bioconductor). Multiple hypotheses testing correction was done using the Benjamini-Hochberg procedure. Differences in gene expression were evaluated by calculating the fold of change (FC) of signal intensity in granules preparations versus polyribosomal preparations. FC were considered significant when: i) net signal intensity is significantly over background in all arrays (technical and biological replicates); ii) the cut-off adjusted p-value <0.002 and iii) fold change reaches at least 1 (log2FC>0). Positive signal threshold was determined for each array from the average background value plus two standard deviations.

source_name: RNA from granules

label_protocol: Antisense-RNA (aRNA) samples were labelled with Cy3 or Cy5 using the Universal Linkage System (ULS) kit (Kreatech Diagnostic, Amsterdam, Netherlands).

growth_protocol: C57BL/6J mice were bred in our animal facility and treated following the guidelines of the Canadian Council on Animal Care. The ethics committee of Université Laval has approved all procedures used in this study.   Hippocampal neuron cultures were prepared from neonatal rats as described [86]. Briefly, hippocampi were dissected out of postnatal day 1 rats. After dissociation, cells were washed, centrifuged and plated on poly-D-lysine-coated Aclar coverslips. Growth media consisted of Neurobasal supplemented with B27, penicillin/streptomycin (50 U/ml; 50 μg/ml), and 0.5 mM Glutamax (Thermo Fischer Scientific). Cytosine arabinofuranoside (Ara-C, 5 μM, Sigma) was added 2 days after plating to reduce the number of glial cells. After 4 days invitro, half of the growth medium was replaced with medium without Ara-C. Neurons were cultured between 7 and 13 DIV before use.

extract_protocol: Total RNA from polyribosomes and granules from wild-type mice (n = 3 biological replicates) were extracted using Trizol LS (Invitrogen) according to the manufacturer's instructions. After DNase I digestion (Qiagen), RNA was further purified using RNeasy Mini kit (Qiagen). Quality and concentration of extracted RNA was measured using the 2100-Bioanalyzer (Agilent Technologies, Palo Alto, CA, USA) with the RNA PicoLab Chip (Agilent Technologies). Only high-quality RNA (RIN over 8) was used for RNA amplification. Thereafter, RNA was subjected to two rounds by T7 amplification using the RiboAmp HSPlus RNA Amplification Kit (Life Science, Foster City, CA, USA), purified and quantified using NanoDrop ND-1000 spectrophotometer (NanoDrop, Wilmington, DE, USA).

treatment_protocol:
Three brains were homogenized in 9 ml of a buffer containing 20 mM Tris-HCl (pH 7.4), 150 mM NaCl, 2.5 mM MgCl2, 1 mM DTT, 10 U/ml RNasine (Pharmacia), protease inhibitors (Mini Complete, Roche) and 50 ug/ml cycloheximide. A post-mitochondrial supernatant was obtained by centrifuging the homogenate at 9 000 g for 15 min. To concentrate polyribosomes, 1% Igepal CA-630 (Sigma Aldrich) was added to the post-mitochondrial supernatant and 8 ml of the solution were layered over a 2 ml pad made of 60% (w/v) sucrose in a 11 ml tube and centrifuged in a Beckman SW41 rotor at 34 000 rpm (avg 146 000g) for 2 hours at 4oC. The pellets were then resuspended in a 20 mM Tris-HCl pH 7.4, 150 mM NaCl, 2.5 mM MgCl2 buffer for isokinetic analyses on sucrose gradients.
Sucrose density gradients: Linear sucrose density gradients were generated using the Gradient Mate (BioComp, Canada) according to the manufacturer’s instructions. Unless specified in the results section, polyribosomes were analysed on 15-60% (w/v) isokinetic sucrose gradients made up in 20 mM Tris-HCl pH 7.4, 150 mM NaCl, 2.5 mM MgCl2. After centrifugation in a Beckman SW41 rotor for 2 hours at 34 000 rpm (avg 146 000g) and 4°C, gradients were fractionated by unloading from the top using the Auto Densi-Flow (Buchler) connected to an ISCO UA-5 flow-through spectrophotometer set at 254 nm. Each fraction was precipitated overnight at –20oC after addition of 2 volumes of ethanol. The precipitated material was collected by centrifugation in a microfuge at 12 000 rpm for 20 min.

value: 10 days old

value: Brain, PN10

source_name: RNA from polysomes


title: Brain_PN10_Rep3


title: Breast tumor sample from patient 542

value: breast tumor

value: invasive ductal breast adenocarcinoma

value: good


title: Brain_PN10_Rep1


title: Brain_PN10_Rep5


title: Brain_PN10_Rep6


title: Breast tumor sample from patient 540

value: undetermined


title: Breast tumor sample from patient 562

value: positive


title: Breast tumor sample from patient 537

value: negative


title: NONc 13w biological rep3 (mRNA)

city: Edogawa-ku

first: Tsuyoshi

last: Hirata

state: Tokyo

address: 1-16-13, Kitakasai

department: Discovery Science and Technology Department

country: Japan

institute: DAIICHI SANKYO RD NOVARE CO., LTD

description: GeneChip Mouse Gene 2.0 ST Array

hyb_protocol: Fragmented and labeled ss-cDNA was hybridyzed for 16 hr at 45°C on GeneChip Mouse Gene 2.0 ST Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.

scan_protocol: All GeneChips were scanned on an Affymetrix GeneChip Scanner 3000.

data_processing: Normalization was performed using the Robust Multiarray Average and differentially expressed genes between two groups were identified by R/Bioconductor using limma package.

source_name: pancreas from 13-week old NONcNZO10/LtJ mouse

label_protocol: Total RNA was labeled using the GeneChip WT PLUS Reagent Kit.

extract_protocol: Preserved pancreases in RNA later were homogenized using TRIzol, and total RNA, including small RNA, was isolated using PureLink RNA Mini (Life Technologies) according to the manufacturer’s protocol. After DNase treatment with RNase-Free DNase Set (QIAGEN), 10 volume of QIAzol to one volume of total RNA solution was added and the total RNA, including small RNA, was cleaned-up using an miRNeasy Mini Kit (QIAGEN).

value: pancreas


title: NONc 22w biological rep1 (mRNA)

description: GeneChip Mouse Gene 2.0 ST Array

source_name: pancreas from 22-week old NONcNZO10/LtJ mouse


title: MKP-Lng AV29

description: time point 1

source_name: Mouse metastatic ovarian cancer tissue

value: MUC1+/− KrasG12D/+ Pten-/-

value: Lung mets

value: time point 1


title: NONc 22w biological rep3 (mRNA)

description: GeneChip Mouse Gene 2.0 ST Array


title: Breast tumor sample from patient 533

value: no

value: Brazilian


title: Breast tumor sample from patient 534


title: NONc 13w biological rep1 (mRNA)

description: GeneChip Mouse Gene 2.0 ST Array


title: NONc 13w biological rep2 (mRNA)

description: GeneChip Mouse Gene 2.0 ST Array


title: MKP-L AV28

description: time point 2

value: 129 S4/SvJae

value: Liver mets


title: NONc 22w biological rep2 (mRNA)

description: GeneChip Mouse Gene 2.0 ST Array


title: MKP-Lng AV30

description: time point 2

value: time point 2 (time point 1 + 3 days in culture)


title: NONc 7w biological rep2 (mRNA)

description: GeneChip Mouse Gene 2.0 ST Array

source_name: pancreas from 7-week old NONcNZO10/LtJ mouse


title: NONc 7w biological rep3 (mRNA)

description: GeneChip Mouse Gene 2.0 ST Array


title: MKP-T  AV26

description: time point 2

source_name: Mouse ovarian cancer tissue

value: MUC1+/− KrasG12D/G12D Pten-/-

value: Primary ovarian tumor


title: MKP-T AV25

description: time point 1


title: MKP-L  AV27

description: time point 1


title: NON 7w biological rep2 (mRNA)

description: GeneChip Mouse Gene 2.0 ST Array

source_name: pancreas from 7-week old NON/ShiLtJ mouse

value: NON/ShiLtJ


title: Breast tumor sample from patient 526

value: breast tumor

value: invasive ductal breast adenocarcinoma


title: NON 7w biological rep1 (mRNA)

description: GeneChip Mouse Gene 2.0 ST Array


title: NON 7w biological rep3 (mRNA)

description: GeneChip Mouse Gene 2.0 ST Array


title: Breast tumor sample from patient 527

value: good


title: NONc 7w biological rep1 (mRNA)

description: GeneChip Mouse Gene 2.0 ST Array


title: Brain_PN10_Rep2

value: 10 days old

value: Brain, PN10


title: IL-33 activated mLN ILC2s at week 2, biological rep 3

city: Vancouver

first: Laura

last: Mathae

state: British Columbia

address: 675 W.10th Ave

institute: British Columbia Cancer Research Centre

description: W2 mLN ILC2s_3

hyb_protocol: cDNA was prepared from total RNA using Nugen Pico WTA kit according to the manufacturer's protocol. Fragmented cDNA was labeled and hybridized to Affymetrix GeneChip Mouse Gene 2.0ST Array. Washing and staining were performed by Affymetrix Fluidics Station 450

scan_protocol: GeneChips were scanned using the Affymetrix GeneChip Scanner 3000

data_processing: Data were analyzed by Expression Console software by Affymetrix. Normalization was performed using RMA algorithm (by FlexArray 1.6.3).

source_name: Mus musculus mLN ILC2s 2 weeks after intranasal IL-33 treatment

label_protocol: Labeling was performed using Nugen Encore biotin kit according to the manufacturer's instructions.

extract_protocol: Trizol extraction of total RNA was performed according to the manufacturer's instructions.

tag: time point

value: week 2

value: mediastinal lymph node (mLN)


title: IL-33 activated mLN ILC2s at day 4, biological rep 2

description: D4 mLN ILC2s_2

source_name: Mus musculus mLN ILC2s 4 days after intranasal IL-33 treatment

value: day 4


title: IL-33 activated mLN ILC2s at week 2, biological rep 1

description: W2 mLN ILC2s_1


title: IL-33 activated mLN ILC2s at day 4, biological rep 3

description: D4 mLN ILC2s_3