title: Amniotic fluid_E13 mice

description:
AF13
Experimental animals were commercially-available C57BL/6 mice (SLAC, Shanghai, China).

source_name: Amniotic fluid, E13


title: PBMC from Healthy Volunteer  6.1 at T0

status: Public on Feb 09 2017

type: RNA

city: Nantes

first: Daniel

last: BARON

state: Loire-Atlantique (44)

address: 30 Bd Jean Monnet

department: UMR1064 - Centre de Recherche en Transplantation & Immunologie

country: France

institute: Institut national de la santé et de la recherche médicale-INSERM

description: HV, Biological replicate 6 of 8, Technical replicate 1 of 2

hyb_protocol: 1 mg of Cy5-labeled reference aRNA and 1 mg of Cy3-labeled sample aRNA were hybridized on the array for 16 h at 428C in a sealed chamber (Telechem Int., Sunnyval, CA).

scan_protocol: Hybridized slides were scanned by fluorescence confocal microscopy (ScanArray 3000,GSI-Lumonics) using independent laser excitation of the two fluorescent dyes at 532 and 633 nm at a 10 mm/pixel resolution. Fluorescence values and ratios were extracted with the GenePix Pro 5.1 software.

data_processing: The data were normalized using a lowest fit approach independently applied to each log ratio distributions.

molecule: total RNA

organism: Homo sapiens

source_name: Total RNA from PBMC of 169 kidney graft recipients with stable graft function and under standard immunosuppressive treatment

label_protocol: All aRNA samples were fragmented using RNA fragmentation Reagents (Ambion) according to the manufacturer’s protocols. Fragmented aRNA  were labeled with Cyanine 3 (Cy3; Amersham Biosciences, Buckinghamshire, UK). As the reference for the hybridization, aRNA were prepared as described from PBMC of 169 kidney graft recipients with stable graft function and under standard immunosuppressive treatment. This referential aRNA was pooled and labeled with Cyanine 5 (Cy5). Cyanine incorporation and aRNA quantities were confirmed using a Nanodrop ND1000 spectrometer.

extract_protocol: Ten milliliters of peripheral blood were collected in EDTA tubes. Peripheral Blood Mononuclear Cells (PBMC) were separated on a Ficoll layer (Eurobio, Les Ulis, France) and frozen in Trizol1 reagent (Invitrogen, Life Technologies, CA). One microgram of total RNA (tRNA) of each sample was subjected to amplification using the Amino Allyl MessageAmp TM II aRNA Amplification Kit (Ambion, Austin, TX) according to the manufacturer’s protocols. Quality and quantity of tRNA and amplified RNA (aRNA) was tested by an Agilent 2100 Bioanalyser.

tag: sample type

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), HV006.1

tag: tissue

value: PBMC from HV006

tag: individual replicate

value: HV 6 of 8

tag: techical replicate

value: Replicate 1 of 2

tag: time point


title: 5-FU intestine-2

city: Taichung

first: Chien-Yun

last: Hsiang

address: 91 Hsueh-Shih Road

country: Taiwan

institute: China Medical University

hyb_protocol: Fluorescent targets were hybridized to the Mouse Whole Genome OneArrayTM (Phalanx Biotech Group, Hsinchu, Taiwan).

scan_protocol: Arrays were scanned by an Axon 4000 scanner (Molecular Devices, Sunnyvale, CA, USA).

data_processing: The Cy5 fluorescent intensity of each spot was analyzed by GenePix 4.1 software (Molecular Devices, Sunnyvale, CA, USA). The signal intensity of each spot was corrected by subtracting background signals in the surroundings. We filtered out spots whose signal-to-noise ratio was less than 1 or control probes. Spots that passed these criteria were normalized by the R program (Smyth, 2005).

organism: Mus musculus

source_name: 5-FU intestine

label_protocol: Fluorescent-labeled RNA targets were prepared from 5 μg of total RNA using the MessageAmpTM aRNA kit (Ambion, Austin, TX, USA) and Cy5 dye (Amersham Pharmacia, Piscataway, NJ, USA).

extract_protocol: Total RNA was extracted from intestine using the RNeasy Mini kit (Qiagen, Valencia, CA, USA).

treatment_protocol: Male mice were injected intraperitoneally with 5-FU (100 mg/kg). Two days later, intestines were collected for RNA extraction.

tag: strain

value: FVB (transgenic mice)

tag: gender

value: male

value: intestine

tag: treatment


title: 5-FU intestine-1


title: Mock intestine-3

source_name: Mock intestine

value: mock


title: 5-FU intestine-3


title: PBMC from Chronic Rejection 27.2 at T0

description: CR, Biological replicate  31 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR027.2

value: PBMC from CR027

value: CR 31 of 31

value: Replicate 2 of 2


title: PBMC from Chronic Rejection 27.1 at T0

description: CR, Biological replicate  31 of 31, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR027.1


title: roots-monalbo-inoc-rep2

city: Verona

first: Alberto

last: Ferrarini

state: Veneto

address: Strada le Grazie, 15

department: Scientific and Technological Department

country: Italy

institute: University of Verona

hyb_protocol: Four micrograms of labelled aRNA was hybridized to the array according to the manufacturer’s recommendations (http://www.combimatrix.com/support_docs.htm). Prehybridization was performed by incubating the arrays with prehybridization solution (6X SSPE, 1% SDS, 0.2% BSA) for 60 minutes at 37 °C. Hybridization was performed at 37°C for 16 hours in hybridization solution (6X SSPE, 0.8% BSA, 12% DI Formamide, 2.5% SDS) using 4 μg of labelled aRNA. Hybridization washings were performed as following: wash with 6X SSPET wash solution (6X SSPE, 0.05% Tween-20), wash with 3X SSPET wash solution (3X SSPE, 0.05% Tween-20), 2 washes with 0.5X SSPET wash solution (0.5X SSPE, 0.05% Tween-20).

scan_protocol: The array was scanned with an Axon GenePix 4400A scanner and GenePix Pro 7 software (MDS Analytical Technologies). Laser was set at 33. PMT gain was set at 500.

data_processing: Raw data was extracted using GenePix Pro 7 software (MDS Analytical Technologies). The data were investigated for quality assessment, preprocessed and normalized using a suitable subset of control probes available in the Combimatix array and a quantile normalization technique.The significance of the differential expression was assessed taking into account the multiple testing setting and controlling the False Discovery Rate (FDR) at level FDR=0.01 and the emprical Bayes moderated t-statistics available in the limma package.

organism: Solanum lycopersicum

source_name: monalbo genotype, roots, inoculated with Fusarium oxysporum f.sp. radicis-lycopersici

label_protocol: Total RNA (1 µg) was amplified and labelled using the RNA ampULSe kit (Kreatech).

growth_protocol: Solanum lycopersicum Monalbo and Momor varieties seedlings were grown in sterile peat until the third-leaf stage, then removed from pots containing peat and roots were gently washed in order to remove peat debris. After infection plantlets were transferred in pot containing sterile sand and placed in growth chamber (22°C/14 h light, 16°C/10 h dark). A volume of 5 ml of Hoagland solution (Hoagland and Arnon, 1950) was supplied daily to the plantlets during the trials.

extract_protocol: RNA was isolated from the samples using a RNeasy Plant Kit (Qiagen) according to the instructions manual.

treatment_protocol: For-l F55NA fresh conidia were collected from sporulating colonies grown for 14 days on PDA at 24°C. Petri dishes were flooded with 5 ml of sterile distilled water (SDW) and conidia were scraped using sterile spatulas and transferred in sterile 50 ml tubes. The conidia suspensions of For-l F55NA were then adjusted to a final concentration of 1 ×106conidia/mL by counting with a haemocytometer under a light microscope. Plantlets were then inoculated with For-l F55NA by dipping roots in conidia suspension for 30 min. Plants dipped for 30 min in distilled water were used as controls.

value: Roots


title: Mock intestine-2


title: PBMC from Chronic Rejection 26.1 at T0

description: CR, Biological replicate  30 of 31, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR026.1

value: PBMC from CR026

value: CR 30 of 31


title: PBMC from Healthy Volunteer  1.1 at T0

description: HV, Biological replicate 1 of 8, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), HV001.1

value: PBMC from HV001

value: HV 1 of 8


title: PBMC from Chronic Rejection 26.2 at T0

description: CR, Biological replicate  30 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR026.2


title: roots-monalbo-rep2

source_name: monalbo genotype, roots


title: roots-monalbo-inoc-rep1


title: roots-monalbo-rep1


title: roots-momor-inoc-rep2

source_name: momor genotype, roots, inoculated with Fusarium oxysporum f.sp. radicis-lycopersici


title: PBMC from Chronic Rejection 25.2 at T0

description: CR, Biological replicate  29 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR025.2

value: PBMC from CR025

value: CR 29 of 31


title: Mock intestine-1


title: roots-momor-rep2

source_name: momor genotype, roots


title: roots-momor-inoc-rep1


title: PBMC from Chronic Rejection 25.1 at T0

description: CR, Biological replicate  29 of 31, Technical replicate 1 of 2

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR025.1


title: larvae at 4h pinching, biological rep3

city: Kanazawa

first: Takayuki

last: Kuraishi

address: Shizenken, Kakuma-machi

country: Japan

institute: Kanazawa University

description: Gene expression data from larvae after pinching

hyb_protocol: Following fragmentation, aRNA were hybridized for 16 hr at 45C on GeneChip Drosophila Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station.

scan_protocol: GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000.

data_processing: The data were analyzed with R software.

label: biotin

organism: Drosophila melanogaster

source_name: yw larvae at 4 h subjected to pinching with forceps

label_protocol: label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol.

growth_protocol: 3rd instar larvae of yw flies were used.

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

treatment_protocol: Larvae were pricked with tungsten needle or pinched by forceps.

value: whole larvae

tag: developmental stage

value: 3rd instar larvae

value: yw


title: larvae at 4h pinching, biological rep2


title: larvae at 4h clean injury, biological rep1

description: Gene expression data from larvae after clean injury

source_name: yw larvae at 4 h subjected to clean injury with tungsten needle


title: larvae at 4h clean injury, biological rep2


title: PBMC from Chronic Rejection 24.1 at T0

description: CR, Biological replicate  28 of 31, Technical replicate 1 of 2

source_name: Total RNA from PBMC of 169 kidney graft recipients with stable graft function and under standard immunosuppressive treatment

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR024.1

value: PBMC from CR024

value: CR 28 of 31

value: Replicate 1 of 2


title: larvae w/o stimulation, biological rep2

description: Gene expression data from larvae

source_name: yw larvae without treatment


title: PBMC from Chronic Rejection 24.2 at T0

description: CR, Biological replicate  28 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR024.2


title: PBMC from Chronic Rejection 23.1 at T0

description: CR, Biological replicate  27 of 31, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR023.1

value: PBMC from CR023

value: CR 27 of 31


title: larvae at 4h clean injury, biological rep3


title: PBMC from Chronic Rejection 22.2 at T0

description: CR, Biological replicate  26 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR022.2

value: PBMC from CR022

value: CR 26 of 31

value: Replicate 2 of 2


title: larvae w/o stimulation, biological rep3

description: Gene expression data from larvae


title: PBMC from Chronic Rejection 23.2 at T0

description: CR, Biological replicate  27 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR023.2


title: 24 hr Dose 10

city: Taipei

first: Chih-Ya

last: Wang

address: No. 1, Sect. 1, Jen-Ai Road

department: Pharmacological Institute

institute: National Taiwan University

hyb_protocol: Fluorescent targets were hybridized to the Human Whole Genome OneArray® with Phalanx hybridization buffer using Phalanx Hybridization System. After 16 hrs hybridization at 50 ℃, non-speciﬁc binding targets were washed away by three different washing steps (WashⅠ 42 ℃ 5 mins；Wash Ⅱ 42 ℃, 5 mins, 25 ℃ 5 mins; Wash Ⅲ rinse 20 times)

scan_protocol: The arrays were scanned by Axon GenePix 4000B scanner (635nm power 100 PMT 500 ; 532nm power 10, PMT 460) and quantify the fluoresence intensity.

data_processing:
The signal intensity of each spot was loaded into Rosetta Resolver System® (Rosetta Biosoftware) to process data analysis. The error model of Rosetta Resolver System® could remove both systematic and random errors form the data. We ﬁltered out spots that the ﬂag is less than 0. Spots that passed the criteria were normalized by 50% median scaling normalization method.Normalize intensities: Median scaling performed on data set without flagged and control data. Merge technical replicate data: Average intensity values calculated on technical replicates.
Calculate average ratios of the hybridization replicates and find significant values for each gene by pairwise comparision (Ranking and hypothesis testing).
GSE56927_clustered_data.txt.gz: a list of the hierarchical clustering genes obtained in the control and upon MPT0G013 treatment can be found on the Series record.

source_name: 24 hr Dose 10-1

label_protocol: 1 µg of total RNA was reverse-transcribed and amplified using Amino Allyl aRNA Amplification Kit (Phalanx Biotech Group, Taiwan) and Cy5 dyes (Amersham Pharmacia, Piscataway, NJ, USA).

growth_protocol: Human umbilical vein endothelial cells (HUVECs) (BCRC, H-UV001) was purchased from Food Industry Research and Development Institute, Hsin Chu, Taiwan and were grown to confluence on 1% collagen, and maintained in endothelial cell medium (ECM) (ScienCell Research Laboratory, Carlsbad, CA) supplemented with 20% FBS, 1:5 Penicillin/Streptomycin (ScienCell Research Laboratory, Carlsbad, CA) and 1:5 endothelial cell growth supplements (ECGs) (ECGs; Upstate Biotechnology Inc., Lake Placid, NY).

extract_protocol: RNA extraction by Trizol. RNA purity was checked by optical density of NanoDrop ND-1000 and agarose electrophoresis with the result of A260/A280≧1.8, no gDNA contamination. RNA integrity was measured by Agilent RNA 6000 Nano Assay (RIN≧8).

treatment_protocol: HUVECs were starved overnight and then treated with or without MPT0G013 (10 mM) for 24 hours in EGM-2 medium.

tag: agent

tag: cell line

value: HUVECs


title: PBMC from Chronic Rejection 22.1 at T0

description: CR, Biological replicate  26 of 31, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR022.1


title: larvae w/o stimulation, biological rep1

description: Gene expression data from larvae


title: roots-momor-rep1

value: Roots


title: larvae at 4h pinching, biological rep1


title: 24 hr CTL

source_name: 24 hr CTL-1


title: Skeletal Muscle Sample 33_vibration, control

city: Iowa City

first: Richard

last: Shields

address: 1-252 Medical Education Building

country: USA

institute: The University of Iowa

hyb_protocol: Biotin-labeled cDNA was mixed with Affymetrix eukaryotic hybridization buffer and placed onto Affymetrix Human Exon 1.0 ST arrays. Hybridizations were performed by the Iowa Institute of Human Genomics (IIHG) at the University of Iowa.

scan_protocol: Arrays were scanned with the Affymetrix Model 3000 scanner with 7G upgrade and data were collected using the GeneChip operating software (GCOS) v1.4.

data_processing: Arrays were normalized using a GC-Robust Multi-array Average (GC-RMA) and transformed into a log2 hybridization signal using Partek Genomic Suites (v6.6 Copyright © 2013 Partek Inc., St. Louis, MO, USA).

label: Biotin

source_name: skeletal muscle, vibration, control

label_protocol: 5μg of this product were fragmented (average fragment size = 85 bases) and biotin labeled using the NuGEN FL-Ovation cDNA Biotin Module, v2 (NuGEN Technologies, Cat. #4200) per the manufacturer’s recommended protocol.

growth_protocol: Not Applicable

extract_protocol: Following harvest, muscle biopsy samples were immediately placed In RNALater (Ambion) and stored at -80 C until further use. Total RNA was extracted using TRIzol solution (Invitrogen) according to the manufacturer’s instructions. 50 ng of RNA was converted to SPIA amplified cDNA using the WT-Ovation Pico RNA Amplification System, v1 (NuGEN Technologies, San Carlos, CA, Cat. #3300) according to the manufacturer’s recommended protocol. The amplified SPIA cDNA product was purified through a QIAGEN MinElute Reaction Cleanup column (QIAGEN Cat #28204) according to modifications from NuGEN. Four μg of SPIA amplified DNA were used to generate ST-cDNA using the WT-Ovation Exon Module v1 (NuGEN Technologies, Cat #2000) and again cleaned up with the Qiagen column as above.

treatment_protocol: Subjects completed a single session of active muscle contractions using neuromuscular electrical stimulation, passive limb-vibration, or systemic heat stress three hours before a muscle biopsy. Each subject's opposite limb was used as a within subject control for gene expression analaysis.

tag: stress

value: vibration

value: soleus muscle

value: male


title: Skeletal Muscle Sample 34_vibration, experimental

source_name: skeletal muscle, vibration, experimental


title: Skeletal Muscle Sample 32_vibration, experimental


title: Skeletal Muscle Sample 29_vibration, control


title: Skeletal Muscle Sample 30_vibration, experimental


title: Skeletal Muscle Sample 31_vibration, control


title: PBMC from Chronic Rejection 21.2 at T0

description: CR, Biological replicate  25 of 31, Technical replicate 2 of 2

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR021.2

value: PBMC from CR021

value: CR 25 of 31


title: PBMC from Chronic Rejection 20.2 at T0

description: CR, Biological replicate  24 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR020.2

value: PBMC from CR020

value: CR 24 of 31


title: PBMC from Chronic Rejection 19.2 at T0

description: CR, Biological replicate  23 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR019.2

value: PBMC from CR019

value: CR 23 of 31


title: PBMC from Chronic Rejection 21.1 at T0

description: CR, Biological replicate  25 of 31, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR021.1

value: Replicate 1 of 2


title: PBMC from Chronic Rejection 19.1 at T0

description: CR, Biological replicate  23 of 31, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR019.1


title: Skeletal Muscle Sample 25_vibration, control


title: Skeletal Muscle Sample 26_vibration, experimental


title: PBMC from Chronic Rejection 20.1 at T0

description: CR, Biological replicate  24 of 31, Technical replicate 1 of 2

source_name: Total RNA from PBMC of 169 kidney graft recipients with stable graft function and under standard immunosuppressive treatment

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR020.1


title: negative control

city: Tokyo

first: Yutaka

last: Nezu

address: Tsukiji 5-1-1, Chuo-ku

department: Molecular and Cellular Medicine

institute: National Cancer Center, Research Institute

hyb_protocol: Agilent one-color gene expression hyb/wash protocol

scan_protocol: Microarray slides were scanned in an Agilent Technologies G2505C Microarray Scanner at 3 micron resolution.

data_processing: The scanned images were analyzed with Feature Extraction Software 10.7.3.1 (Agilent) using default parameters (protocol GE1_107_Sep09 and Grid: 039494_D_F_20140813) to obtain background subtracted and spatially detrended Processed Signal intensities.  Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded.

source_name: cell culture from myxoid liposarcoma cell line

label_protocol: Agilent one-color Low RNA Input Linear Amplification Kit labeling protocol

extract_protocol: Total RNAs were extracted from cell cultures of myxoid liposarcoma cell line using the QIAzol reagent and the miRNeasy Mini Kit (QIAGEN) according to the manufacture’s instructions.

treatment_protocol: We transiently transfected the 2645-94 cell line with miR-135b mimic ( Applied Biosystems) and Allstar Negative Control siRNA (QIAGEN) at 30 nM each using DharmaFECT 1 (Thermo Scientific).

tag: cell type

value: myxoid liposarcoma

tag: transfection

value: negative control


title: PBMC from Chronic Rejection 18.2 at T0

description: CR, Biological replicate  22 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR018.2

value: PBMC from CR018

value: CR 22 of 31


title: miR-135b mimic

value: miR-135b mimic


title: Skeletal Muscle Sample 28_vibration, experimental


title: PBMC from Chronic Rejection 17.2 at T0

description: CR, Biological replicate  21 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR017.2

value: PBMC from CR017

value: CR 21 of 31

value: Replicate 2 of 2


title: Skeletal Muscle Sample 27_vibration, control

value: vibration

value: soleus muscle

value: male


title: PBMC from Chronic Rejection 18.1 at T0

description: CR, Biological replicate  22 of 31, Technical replicate 1 of 2

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR018.1


title: Skeletal Muscle Sample 22_heat, experimental

source_name: skeletal muscle, heat, experimental

value: heat

value: vastus lateralis muscle


title: Skeletal Muscle Sample 24_heat, experimental


title: PC14CDDP-premiR-197

city: chuo-ku

first: Yu

last: Fujita

state: Tokyo

address: 5-1-1 Tsukiji

department: Research of Molecular Functions and Targets

institute: National Cancer Center Research Institute

data_processing: The scanned images were analyzed with Feature Extraction Software 10.7.3.1 (Agilent) using default parameters (protocol GE1_107_Sep09 and Grid: 039494_D_F_20120628) to obtain background subtracted and spatially detrended Processed Signal intensities.  Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded.

source_name: cell line (PC14CDDP)

extract_protocol: Total RNA was extracted from cultured cells using QIAzol and the miRNeasy Mini Kit (Qiagen) according to the manufacturer’s protocol. The purity and concentration of all RNA samples were quantified using NanoDrop ND-1000 (Thermo Scientific).

treatment_protocol: Human lung cancer cell lines A549, PC14, and PC14CDDP were cultured in RPMI 1640 medium with 10% heat-inactivated fetal bovine serum (FBS) and an antibiotic-antimycotic (Invitrogen) at 37°C in 5% CO2. miRNA transfection at 25 nM was carried out with DharmaFECT 1 reagent (Thermo Scientific, San Jose, CA), according to the manufacturer’s protocol.


title: PBMC from Chronic Rejection 17.1 at T0

description: CR, Biological replicate  21 of 31, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR017.1


title: PC14-LNA-miR-197

source_name: cell line (PC14)


title: PC14CDDP-NC

value: AllStar-NC


title: PC14CDDP-LNA-miR-NC

value: LNA-miR-NC


title: PBMC from Chronic Rejection 16.2 at T0

description: CR, Biological replicate  20 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR016.2

value: PBMC from CR016

value: CR 20 of 31


title: A549-LNA-miR-NC

source_name: cell line (A549)


title: PC14-NC


title: PC14-LNA-miR-NC


title: PBMC from Chronic Rejection 15.2 at T0

description: CR, Biological replicate  19 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR015.2

value: PBMC from CR015

value: CR 19 of 31


title: A549-NC


title: A549-LNA-miR-197


title: Skeletal Muscle Sample 21_heat, control

source_name: skeletal muscle, heat, control


title: Skeletal Muscle Sample 19_heat, control


title: PC14-premiR-197


title: PBMC from Chronic Rejection 15.1 at T0

description: CR, Biological replicate  19 of 31, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR015.1

value: Replicate 1 of 2


title: Skeletal Muscle Sample 20_heat, experimental


title: PBMC from Chronic Rejection 16.1 at T0

description: CR, Biological replicate  20 of 31, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR016.1


title: Skeletal Muscle Sample 18_heat, experimental


title: Skeletal Muscle Sample 17_heat, control


title: Skeletal Muscle Sample 23_heat, control


title: PBMC from Chronic Rejection 14.1 at T0

description: CR, Biological replicate  18 of 31, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR014.1

value: PBMC from CR014

value: CR 18 of 31


title: PBMC from Chronic Rejection 13.2 at T0

description: CR, Biological replicate  17 of 31, Technical replicate 2 of 2

source_name: Total RNA from PBMC of 169 kidney graft recipients with stable graft function and under standard immunosuppressive treatment

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR013.2

value: PBMC from CR013

value: CR 17 of 31


title: Skeletal Muscle Sample 16_heat, experimental


title: Skeletal Muscle Sample 15_heat, control


title: PBMC from Chronic Rejection 14.2 at T0

description: CR, Biological replicate  18 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR014.2

value: Replicate 2 of 2


title: PBMC from Chronic Rejection 13.1 at T0

description: CR, Biological replicate  17 of 31, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR013.1


title: FK18BT8+

city: Amsterdam

first: Daoud

last: Sie

address: De Boelelaan 1117

department: Pathology

country: Netherlands

institute: Vrije Universiteit Medical Center

description: HPV18-transfected human foreskin keratinocytes_line B_timepoint 8_DAC treated

hyb_protocol: According to manufacturer's instructions: miRNA Microarray System with miRNA Complete Labeling and Hyb Kit version 2.4 from September 2011

scan_protocol: protocol name: miRNA_107_Sep09. Scanning is done according to manufacturer's instructions: miRNA Microarray System with miRNA Complete Labeling and Hyb Kit version 2.4 from September 2011

data_processing: Probes corresponding to human miRNAs were selected and replicates weakly correlating to all other replicates of the same probe were removed. Data was normalized per treatment group using the robust quantile method (Bolstad et al, Bioinformatics 2003) and transformed using the variance stabilizing transformation (Huber, Bioinformatics 2002). The obtained values were averaged per probe for further analysis.

source_name: primary human foreskin keratinocytes transfected with HPV18

growth_protocol: Establishment and culture of the HPV16 (FK16A and FK16B) and HPV18 (FK18A and FK18B) transformed keratinocyte cell lines was described previously (Steenbergen et al, Oncogene 1996).

extract_protocol: Total RNA was isolated using TRIzol Reagent according to the manufacturer’s instructions (Life Technologies).

treatment_protocol: cells were treated with 5000 nM 5-aza-2’-deoxycytidine (DAC; Sigma-Aldrich, Zwijndrecht, The Netherlands) dissolved in PBS for 5 days. DAC was added to the cells every day.

tag: transformation stage

value: anchorage independent

tag: timepoint

value: timepoint 8

value: 5000 nM 5-aza-2’-deoxycytidine (DAC)


title: FK18BT7+

description: HPV18-transfected human foreskin keratinocytes_line B_timepoint 7_DAC treated

label_protocol: According to manufacturer's instructions: miRNA Microarray System with miRNA Complete Labeling and Hyb Kit version 2.4 from September 2011

value: timepoint 7


title: FK18BT5+

description: HPV18-transfected human foreskin keratinocytes_line B_timepoint 5_DAC treated

value: timepoint 5


title: FK18BT6+

description: HPV18-transfected human foreskin keratinocytes_line B_timepoint 6_DAC treated

value: timepoint 6


title: PBMC from Chronic Rejection 12.1 at T1

description: CR, Biological replicate  16 of 31, Technical replicate 1 of 2

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR012t.1

value: PBMC from CR012

value: CR 16 of 31


title: Skeletal Muscle Sample 14_heat, experimental

source_name: skeletal muscle, heat, experimental

value: heat

value: vastus lateralis muscle

value: male


title: Skeletal Muscle Sample 13_heat, control


title: FK18BT4+

description: HPV18-transfected human foreskin keratinocytes_line B_timepoint 4_DAC treated

value: timepoint 4


title: PBMC from Chronic Rejection 12.2 at T0

description: CR, Biological replicate  15 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR012.2

value: CR 15 of 31


title: Skeletal Muscle Sample 12_contraction, experimental

source_name: skeletal muscle, contraction, experimental

value: contraction

value: soleus muscle


title: FK18BT3+

description: HPV18-transfected human foreskin keratinocytes_line B_timepoint 3_DAC treated

value: timepoint 3


title: PBMC from Chronic Rejection 12.2 at T1

description: CR, Biological replicate  16 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR012t.2

value: Replicate 2 of 2


title: Skeletal Muscle Sample 10_contraction, experimental


title: PC14CDDP-LNA-miR-197

source_name: cell line (PC14CDDP)


title: FK18BT2+

description: HPV18-transfected human foreskin keratinocytes_line B_timepoint 2_DAC treated

value: extended lifespan

value: timepoint 2


title: FK18BT1+

description: HPV18-transfected human foreskin keratinocytes_line B_timepoint 1_DAC treated

value: timepoint 1

value: 5000 nM 5-aza-2’-deoxycytidine (DAC)


title: PBMC from Chronic Rejection 12.1 at T0

description: CR, Biological replicate  15 of 31, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR012.1

value: Replicate 1 of 2


title: PBMC from Chronic Rejection 11.2 at T0

description: CR, Biological replicate  14 of 31, Technical replicate 2 of 2

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR011.2

value: PBMC from CR011

value: CR 14 of 31


title: FK18AT6+

description: HPV18-transfected human foreskin keratinocytes_line A_timepoint 6_DAC treated

value: anchorage independent

value: timepoint 6


title: FK18AT5+

description: HPV18-transfected human foreskin keratinocytes_line A_timepoint 5_DAC treated

value: timepoint 5


title: FK18AT4+

description: HPV18-transfected human foreskin keratinocytes_line A_timepoint 4_DAC treated

value: timepoint 4


title: FK18AT2+

description: HPV18-transfected human foreskin keratinocytes_line A_timepoint 2_DAC treated

value: immortal


title: PBMC from Chronic Rejection 11.1 at T0

description: CR, Biological replicate  14 of 31, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR011.1


title: Skeletal Muscle Sample 9_contraction, control

source_name: skeletal muscle, contraction, control

value: contraction

value: male


title: Skeletal Muscle Sample 11_contraction, control

value: soleus muscle


title: FK18AT3+

description: HPV18-transfected human foreskin keratinocytes_line A_timepoint 3_DAC treated

value: timepoint 3


title: FK18AT1+

description: HPV18-transfected human foreskin keratinocytes_line A_timepoint 1_DAC treated


title: PBMC from Chronic Rejection 10.2 at T0

description: CR, Biological replicate  13 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR010.2

value: PBMC from CR010

value: CR 13 of 31

value: Replicate 2 of 2


title: Skeletal Muscle Sample 8_contraction, experimental


title: FK16BT8+

description: HPV16-transfected human foreskin keratinocytes_line B_timepoint 8_DAC treated

source_name: primary human foreskin keratinocytes transfected with HPV16

value: timepoint 8

value: 5000 nM 5-aza-2’-deoxycytidine (DAC)


title: PBMC from Chronic Rejection 10.1 at T0

description: CR, Biological replicate  13 of 31, Technical replicate 1 of 2

source_name: Total RNA from PBMC of 169 kidney graft recipients with stable graft function and under standard immunosuppressive treatment

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR010.1

value: Replicate 1 of 2


title: Skeletal Muscle Sample 7_contraction, control


title: FK16BT7+

description: HPV16-transfected human foreskin keratinocytes_line B_timepoint 7_DAC treated

value: timepoint 7


title: FK16BT5+

description: HPV16-transfected human foreskin keratinocytes_line B_timepoint 5_DAC treated

value: anchorage independent


title: FK16BT4+

description: HPV16-transfected human foreskin keratinocytes_line B_timepoint 4_DAC treated


title: Skeletal Muscle Sample 6_contraction, experimental


title: FK16BT3+

description: HPV16-transfected human foreskin keratinocytes_line B_timepoint 3_DAC treated


title: FK16BT2+

description: HPV16-transfected human foreskin keratinocytes_line B_timepoint 2_DAC treated

value: timepoint 2


title: FK16BT1+

description: HPV16-transfected human foreskin keratinocytes_line B_timepoint 1_DAC treated

value: timepoint 1


title: PBMC from Chronic Rejection 9.2 at T0

description: CR, Biological replicate  12 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR009.2

value: PBMC from CR009

value: CR 12 of 31


title: Skeletal Muscle Sample 5_contraction, control

value: contraction


title: FK16BT6+

description: HPV16-transfected human foreskin keratinocytes_line B_timepoint 6_DAC treated

value: timepoint 6


title: Skeletal Muscle Sample 4_contraction, experimental

value: soleus muscle

value: male


title: PBMC from Chronic Rejection 8.4 at T0

description: CR, Biological replicate  11 of 31, Technical replicate 4 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR008.4

value: PBMC from CR008

value: CR 11 of 31

value: Replicate 4 of 4


title: PBMC from Chronic Rejection 8.3 at T0

description: CR, Biological replicate  11 of 31, Technical replicate 3 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR008.3

value: Replicate 3 of 4


title: Skeletal Muscle Sample 3_contraction, control


title: Skeletal Muscle Sample 2_contraction, experimental


title: FK16AT6+

description: HPV16-transfected human foreskin keratinocytes_line A_timepoint 6_DAC treated

value: 5000 nM 5-aza-2’-deoxycytidine (DAC)


title: FK16AT7+

description: HPV16-transfected human foreskin keratinocytes_line A_timepoint 7_DAC treated


title: PBMC from Chronic Rejection 8.2 at T0

description: CR, Biological replicate  11 of 31, Technical replicate 2 of 4

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR008.2

value: Replicate 2 of 4


title: FK16AT8+

description: HPV16-transfected human foreskin keratinocytes_line A_timepoint 8_DAC treated

value: timepoint 8


title: FK16AT5+

description: HPV16-transfected human foreskin keratinocytes_line A_timepoint 5_DAC treated

value: anchorage independent

value: timepoint 5


title: Skeletal Muscle Sample 1_contraction, control


title: FK16AT4+

description: HPV16-transfected human foreskin keratinocytes_line A_timepoint 4_DAC treated

value: immortal

value: timepoint 4


title: A549-premiR-197

source_name: cell line (A549)


title: FK16AT3+

description: HPV16-transfected human foreskin keratinocytes_line A_timepoint 3_DAC treated

value: timepoint 3


title: PBMC from Chronic Rejection 9.1 at T0

description: CR, Biological replicate  12 of 31, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR009.1

value: PBMC from CR009

value: CR 12 of 31

value: Replicate 1 of 2


title: FK18BT6-

description: HPV18-transfected human foreskin keratinocytes_line B_timepoint 6_untreated

source_name: primary human foreskin keratinocytes transfected with HPV18

value: timepoint 6

value: no treatment


title: PBMC from Chronic Rejection 7.2 at T1

description: CR, Biological replicate  10 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR007t.2

value: PBMC from CR007

value: CR 10 of 31

value: Replicate 2 of 2


title: FK18BT5-

description: HPV18-transfected human foreskin keratinocytes_line B_timepoint 5_untreated


title: FK16AT1+

description: HPV16-transfected human foreskin keratinocytes_line A_timepoint 1_DAC treated

value: timepoint 1

value: 5000 nM 5-aza-2’-deoxycytidine (DAC)


title: FK16AT2+

description: HPV16-transfected human foreskin keratinocytes_line A_timepoint 2_DAC treated

value: timepoint 2


title: PBMC from Chronic Rejection 8.1 at T0

description: CR, Biological replicate  11 of 31, Technical replicate 1 of 4

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR008.1

value: PBMC from CR008

value: CR 11 of 31

value: Replicate 1 of 4


title: FK18BT8-

description: HPV18-transfected human foreskin keratinocytes_line B_timepoint 8_untreated

value: anchorage independent

value: timepoint 8


title: PBMC from Chronic Rejection 7.1 at T1

description: CR, Biological replicate  10 of 31, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR007t.1


title: FK18BT2-

description: HPV18-transfected human foreskin keratinocytes_line B_timepoint 2_untreated

value: extended lifespan


title: FK18BT3-

description: HPV18-transfected human foreskin keratinocytes_line B_timepoint 3_untreated

value: timepoint 3


title: PBMC from Chronic Rejection 7.4 at T0

description: CR, Biological replicate  9 of 31, Technical replicate 4 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR007.4

value: CR 9 of 31

value: Replicate 4 of 4


title: PBMC from Chronic Rejection 7.3 at T0

description: CR, Biological replicate  9 of 31, Technical replicate 3 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR007.3

value: Replicate 3 of 4


title: PBMC from Chronic Rejection 7.2 at T0

description: CR, Biological replicate  9 of 31, Technical replicate 2 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR007.2

value: PBMC from CR007

value: Replicate 2 of 4


title: FK18AT6-

description: HPV18-transfected human foreskin keratinocytes_line A_timepoint 6_untreated

value: timepoint 6

value: no treatment


title: osteosarcoma 17

last: Volckmann

state: Noord-Holland

address: van der Boechorststraat 6a

department: Laboratory of Experimental Oncology and Radiobiology

institute: msterdam UMC and University of Amsterdam

description: Total RNA was isolated and analyzed on Affymetrix U133 Plus 2.0 to generate expression profile

hyb_protocol: 10 µg of labeled cRNA was hybridized to Affymetrix Human genome U133 Plus 2.0 arrays according to manufacturer’s protocol (Affymetrix).

scan_protocol: Arrays were scanned with a GeneChip Scanner 3000 (Affymetrix) according to manufacturer’s protoco

data_processing: Expression data (cel files) were normalized with the MAS5.0 algorithm (target signal = 100) using GCOS software (Affymetrix)

source_name: Osteosarcoma tumor

label_protocol: RNA sample integrity was checked on an Agilent 2100 Bioanalyzer (Agilent Technologies). 4 µg of total RNA was used for cRNA synthesis and fragmented. Labeling was performed with One-Cycle cDNA synthesis Kit (Affymetrix) according to manufacturer’s protocol. Sample quality was checked on a Bioanalyzer prior and after fragmentation.

growth_protocol: not applicable

extract_protocol: Total RNA was isolated using Trizol (Invitrogen) and purified with RNeasy (Qiagen) according to manufacturer’s protocol,

treatment_protocol: not applicable

tag: sample id

value: primary osteosarcoma tumor

tag: age

tag: histologic grade (1 to 4)

tag: tumor location

value: TIBIA

tag: histotype

value: OSTEOBLASTIC

tag: response to preoperative chemotherapy

value: GOOD

tag: tumor necrosis after preoperative chemotherapy (huvos grade)

value: Huvos grade  3


title: PBMC from Chronic Rejection 7.1 at T0

description: CR, Biological replicate  9 of 31, Technical replicate 1 of 4

tag: sample type

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR007.1

tag: tissue

tag: individual replicate

tag: techical replicate

value: Replicate 1 of 4

tag: time point


title: osteosarcoma 21

value: FEMUR

value: POOR

value: Huvos grade  2


title: FK18BT7-

description: HPV18-transfected human foreskin keratinocytes_line B_timepoint 7_untreated

value: anchorage independent

value: timepoint 7

tag: treatment


title: FK18BT4-

description: HPV18-transfected human foreskin keratinocytes_line B_timepoint 4_untreated

tag: cell type

value: timepoint 4


title: osteosarcoma 18


title: osteosarcoma 19


title: PBMC from Chronic Rejection 6.4 at T0

description: CR, Biological replicate  8 of 31, Technical replicate 4 of 4

source_name: Total RNA from PBMC of 169 kidney graft recipients with stable graft function and under standard immunosuppressive treatment

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR006.4

value: PBMC from CR006

value: CR 8 of 31

value: Replicate 4 of 4


title: osteosarcoma 20

value: HUMERUS

value: TELANGIECTATIC

value: Huvos grade  1


title: osteosarcoma 16

value: primary osteosarcoma tumor

value: FIBULA


title: osteosarcoma 15

value: FIBROBLASTIC

value: GOOD

value: Huvos grade  3


title: PBMC from Chronic Rejection 6.3 at T0

description: CR, Biological replicate  8 of 31, Technical replicate 3 of 4

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR006.3

value: Replicate 3 of 4


title: FK18AT1-

description: HPV18-transfected human foreskin keratinocytes_line A_timepoint 1_untreated

value: immortal

value: timepoint 1

value: no treatment


title: FK18AT2-

description: HPV18-transfected human foreskin keratinocytes_line A_timepoint 2_untreated

value: timepoint 2


title: FK16BT7-

description: HPV16-transfected human foreskin keratinocytes_line B_timepoint 7_untreated

source_name: primary human foreskin keratinocytes transfected with HPV16

value: anchorage independent

value: timepoint 7


title: FK18AT4-

description: HPV18-transfected human foreskin keratinocytes_line A_timepoint 4_untreated

value: timepoint 4


title: FK18BT1-

description: HPV18-transfected human foreskin keratinocytes_line B_timepoint 1_untreated

value: extended lifespan


title: FK18AT3-

description: HPV18-transfected human foreskin keratinocytes_line A_timepoint 3_untreated

value: timepoint 3


title: FK18AT5-

description: HPV18-transfected human foreskin keratinocytes_line A_timepoint 5_untreated

value: timepoint 5


title: FK16BT8-

description: HPV16-transfected human foreskin keratinocytes_line B_timepoint 8_untreated

value: timepoint 8


title: FK16BT5-

description: HPV16-transfected human foreskin keratinocytes_line B_timepoint 5_untreated


title: FK16BT4-

description: HPV16-transfected human foreskin keratinocytes_line B_timepoint 4_untreated


title: PBMC from Chronic Rejection 6.1 at T0

description: CR, Biological replicate  8 of 31, Technical replicate 1 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR006.1

value: PBMC from CR006

value: CR 8 of 31

value: Replicate 1 of 4


title: FK16BT6-

description: HPV16-transfected human foreskin keratinocytes_line B_timepoint 6_untreated

value: timepoint 6


title: osteosarcoma 14

description: Total RNA was isolated and analyzed on Affymetrix U133 Plus 2.0 to generate expression profile

value: primary osteosarcoma tumor

value: FEMUR

value: OSTEOBLASTIC

value: POOR

value: Huvos grade  1


title: osteosarcoma 13

value: GOOD

value: Huvos grade  3


title: FK16BT3-

description: HPV16-transfected human foreskin keratinocytes_line B_timepoint 3_untreated

value: anchorage independent

value: no treatment


title: FK16BT2-

description: HPV16-transfected human foreskin keratinocytes_line B_timepoint 2_untreated

value: immortal

value: timepoint 2


title: PBMC from Chronic Rejection 5.2 at T1

description: CR, Biological replicate  7 of 31, Technical replicate 2 of 2

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR005t.2

value: PBMC from CR005

value: CR 7 of 31

value: Replicate 2 of 2


title: PBMC from Chronic Rejection 6.2 at T0

description: CR, Biological replicate  8 of 31, Technical replicate 2 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR006.2

value: PBMC from CR006

value: CR 8 of 31

value: Replicate 2 of 4


title: osteosarcoma 11

value: primary osteosarcoma tumor

value: FEMUR


title: osteosarcoma 12

value: OSTEOBLASTIC

value: Huvos grade  4


title: PBMC from Chronic Rejection 5.1 at T1

description: CR, Biological replicate  7 of 31, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR005t.1

value: Replicate 1 of 2


title: PBMC from Chronic Rejection 5.4 at T0

description: CR, Biological replicate  6 of 31, Technical replicate 4 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR005.4

value: CR 6 of 31

value: Replicate 4 of 4


title: osteosarcoma 10

value: POOR

value: Huvos grade  1


title: osteosarcoma 9

value: GOOD

value: Huvos grade  3


title: FK16AT8-

description: HPV16-transfected human foreskin keratinocytes_line A_timepoint 8_untreated

value: anchorage independent

value: timepoint 8

value: no treatment


title: osteosarcoma 8


title: FK16AT4-

description: HPV16-transfected human foreskin keratinocytes_line A_timepoint 4_untreated

value: immortal

value: timepoint 4


title: FK16AT5-

description: HPV16-transfected human foreskin keratinocytes_line A_timepoint 5_untreated

value: timepoint 5


title: FK16AT7-

description: HPV16-transfected human foreskin keratinocytes_line A_timepoint 7_untreated

value: timepoint 7


title: FK16BT1-

description: HPV16-transfected human foreskin keratinocytes_line B_timepoint 1_untreated

value: timepoint 1


title: FK16AT3-

description: HPV16-transfected human foreskin keratinocytes_line A_timepoint 3_untreated

value: timepoint 3


title: FK16AT2-

description: HPV16-transfected human foreskin keratinocytes_line A_timepoint 2_untreated

value: timepoint 2


title: PBMC from Chronic Rejection 5.3 at T0

description: CR, Biological replicate  6 of 31, Technical replicate 3 of 4

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR005.3

value: PBMC from CR005

value: Replicate 3 of 4


title: FK16AT1-

description: HPV16-transfected human foreskin keratinocytes_line A_timepoint 1_untreated


title: osteosarcoma 7

value: primary osteosarcoma tumor

value: FEMUR

value: OSTEOBLASTIC


title: osteosarcoma 6

value: GOOD

value: Huvos grade  3


title: FK16AT6-

description: HPV16-transfected human foreskin keratinocytes_line A_timepoint 6_untreated

value: anchorage independent

value: timepoint 6


title: PBMC from Chronic Rejection 4.2 at T1

description: CR, Biological replicate  5 of 31, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR004t.2

value: PBMC from CR004

value: CR 5 of 31

value: Replicate 2 of 2


title: PBMC from Chronic Rejection 4.1 at T1

description: CR, Biological replicate  5 of 31, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR004t.1

value: Replicate 1 of 2


title: PBMC from Chronic Rejection 5.1 at T0

description: CR, Biological replicate  6 of 31, Technical replicate 1 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR005.1

value: CR 6 of 31

value: Replicate 1 of 4


title: PBMC from Chronic Rejection 4.4 at T0

description: CR, Biological replicate  4 of 31, Technical replicate 4 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR004.4

value: CR 4 of 31

value: Replicate 4 of 4


title: osteosarcoma 5

description: Total RNA was isolated and analyzed on Affymetrix U133 Plus 2.0 to generate expression profile


title: osteosarcoma 4

value: TIBIA

value: POOR

value: Huvos grade  1


title: PBMC from Chronic Rejection 5.2 at T0

description: CR, Biological replicate  6 of 31, Technical replicate 2 of 4

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR005.2

value: PBMC from CR005

value: Replicate 2 of 4


title: osteosarcoma 2

source_name: Osteosarcoma tumor

value: primary osteosarcoma tumor

value: FEMUR

value: OSTEOBLASTIC

value: Huvos grade  2


title: PBMC from Chronic Rejection 3.3 at T0

description: CR, Biological replicate  3 of 31, Technical replicate 3 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR003.3

value: PBMC from CR003

value: CR 3 of 31

value: Replicate 3 of 4


title: osteosarcoma 1


title: MCF12A 5-AZA-R1

city: Ankara

first: Isik

middle: G

last: Yulug

state: Bilkent

address: Bilkent University

department: Molecular Biology and Genetics

country: Turkey

institute: Bilkent University

hyb_protocol: standard Affymetrix procedures.

scan_protocol: standard Affymetrix procedures.

data_processing: justRMA usin BRB-ArrayTools (log2 transformed)

source_name: MCF12A 5-AZA

label_protocol: Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.

extract_protocol: Total RNA isolation using MN nucleospin RNA kit, as described in the user protocol.

treatment_protocol: Cells were treated with 5µM AZA, or equivalent amount of DMSO. Mock cells were untreated.

tag: cell line

value: non-tumorigenic breast cell line

tag: treated with

value: 5µM of 5-aza-2'-deoxycytidine for 4 days


title: PBMC from Chronic Rejection 3.2 at T0

description: CR, Biological replicate  3 of 31, Technical replicate 2 of 4

source_name: Total RNA from PBMC of 169 kidney graft recipients with stable graft function and under standard immunosuppressive treatment

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR003.2


title: PBMC from Chronic Rejection 3.1 at T0

description: CR, Biological replicate  3 of 31, Technical replicate 1 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR003.1

value: Replicate 1 of 4


title: MCF7 5-AZA-R2

source_name: MCF7 5-AZA

value: breast cancer cell line


title: PBMC from Chronic Rejection 2.4 at T0

description: CR, Biological replicate  2 of 31, Technical replicate 4 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR002.4

value: PBMC from CR002

value: CR 2 of 31

value: Replicate 4 of 4


title: PBMC from Chronic Rejection 4.2 at T0

description: CR, Biological replicate  4 of 31, Technical replicate 2 of 4

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR004.2

value: PBMC from CR004

value: CR 4 of 31


title: PBMC from Chronic Rejection 4.1 at T0

description: CR, Biological replicate  4 of 31, Technical replicate 1 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR004.1


title: PBMC from Chronic Rejection 3.4 at T0

description: CR, Biological replicate  3 of 31, Technical replicate 4 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR003.4


title: PBMC from Chronic Rejection 4.3 at T0

description: CR, Biological replicate  4 of 31, Technical replicate 3 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR004.3


title: MDA-MB-231 5-AZA-R1

source_name: MDA-MB-231 5-AZA


title: MDA-MB-231 5-AZA-R2


title: MCF12A 5-AZA-R2


title: Round cell No.8

description: miRNA expression in rounc cell component of myxoid liposarcoma

hyb_protocol: Labeled RNA was hybridized to the mouse miRNA microarray, Release 16.0 (G4872A#31181 Agilent Technologies) with the miRNA Complete Labeling Reagent and Hybridization kit (Agilent Technologies) according to the manufacturer’s instructions.

data_processing: Images were quantified using Agilent Feature Extraction software version 10.7.3.1 (Agilent) using default parameters (protocol:miRNA_107_Sep09 and Grid:031181_D_F_20110707) to obtain background subtracted and spatially detrended Processed Signal intensities. Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded.

source_name: FFPE, Round cell component of myxoid liposarcoma patient No.8

label_protocol: Each RNA sample was labeled with the miRNA Complete Labeling Reagent and Hybridization kit (Agilent Technologies) according to the manufacturer’s instructions.

extract_protocol: Total RNAs were extracted using the RecoverAll Total Nucleic Acid Isolation (ambion) following the manufacture’s protocols.

treatment_protocol: After deparaffinization and haematoxylin-eosin staining, formalin-fixed paraffin-embedded sections (10 μm) of myxoid liposarcoma patients were dissected by laser captured microdissection.

tag: individual

value: patient No.8

tag: gender

value: male

tag: origin

value: primary


title: Round cell No.6

source_name: FFPE, Round cell component of myxoid liposarcoma patient No.6

value: patient No.6

tag: age

value: recurrent


title: osteosarcoma 3

tag: sample id

value: primary osteosarcoma tumor

tag: histologic grade (1 to 4)

tag: tumor location

value: FEMUR

value: OSTEOBLASTIC

value: POOR

value: Huvos grade  2


title: Round cell No.3

source_name: FFPE, Round cell component of myxoid liposarcoma patient No.3

value: patient No.3

value: female


title: Round cell No.7

source_name: FFPE, Round cell component of myxoid liposarcoma patient No.7

value: patient No.7


title: Round cell No.4

source_name: FFPE, Round cell component of myxoid liposarcoma patient No.4

value: patient No.4


title: Round cell No.2

source_name: FFPE, Round cell component of myxoid liposarcoma patient No.2

value: patient No.2


title: MCF7 5-AZA-R1

value: breast cancer cell line

value: 5µM of 5-aza-2'-deoxycytidine for 4 days


title: Myxoid No.8

description: miRNA expression in myxoid component of myxoid liposarcoma

source_name: FFPE, Myxoid component of myxoid liposarcoma patient No.8

value: patient No.8


title: PBMC from Chronic Rejection 2.2 at T0

description: CR, Biological replicate  2 of 31, Technical replicate 2 of 4

source_name: Total RNA from PBMC of 169 kidney graft recipients with stable graft function and under standard immunosuppressive treatment

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR002.2

value: PBMC from CR002

value: CR 2 of 31

value: Replicate 2 of 4


title: MCF12A DMSO-R1

source_name: MCF12A DMSO

value: non-tumorigenic breast cell line

value: DMSO for 4days


title: PBMC from Chronic Rejection 2.3 at T0

description: CR, Biological replicate  2 of 31, Technical replicate 3 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR002.3

value: Replicate 3 of 4


title: PBMC from Chronic Rejection 2.1 at T0

description: CR, Biological replicate  2 of 31, Technical replicate 1 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR002.1

value: Replicate 1 of 4


title: Myxoid No.7

source_name: FFPE, Myxoid component of myxoid liposarcoma patient No.7

value: male

value: primary


title: MCF12A DMSO-R2


title: drg::dam cells t replicate 4

city: Warsaw

first: Monika

middle: Julita

last: Adamczyk-Poplawska

address: Miecznikowa 1

country: Poland

institute: University of Warsaw

description: total RNA from not pooled samples

hyb_protocol: Equal amounts of Cy5- and Cy3-labeled cRNAs were hybridized onto the microarray for 17 h at 65°C and hybridized microarrays were washed according to the Agilent protocol. Gene Expression Hybridization Kit and Gene Expression Wash Buffer Kit were used respectively to hybridize and wash the hybridized microarray.

scan_protocol: Microarray slides were scanned using the Agilent G2565CA Microarray Scanner System.

data_processing:
GeneSpring version 12.5 (Agilent Technologies) was used for data analysis. Normalized data from all samples were filtered on genes flagged as present or marginal with the resulting gene list used for further gene expression analysis and clustering (Student’s t-test against zero, asymptotic P value computation and Benjamini Hochberg FDR multiple testing correction).
Arbitrary fold change (FC) cut-offs of >1.5 tested/reference

organism: Neisseria gonorrhoeae

source_name: drg::dam cells replicate 4

label_protocol: The Low Input Quick Amp Labeling WT (LIQA WT) Kit (Agilent Technologies) was used to amplify and label whole transcripts. Additionally, the RNA Spike In Kit for Two color v4.0 (Agilent Technologies) was used according to manufacturer`s instructions. (i) cDNA synthesis using total RNA (50 ng) as template; (ii) cRNA synthesis and labeling using cDNA as template, T7 RNA polymerase, NTPs and fluorescent dye. Simultaneously two mixtures were prepared, one reaction with Cy3 as fluorescent dye, the second one with Cy5; (iii) purification of labeled cRNA and measurement of the efficiency of incorporation of the Cy5 or Cy3 dye. The Cy3 dye was used to label the cRNA wt strain, and the Cy5 dye to label the cRNA N. gonorrhoeae mutant strain.

growth_protocol: Cells were grown overnight on GCB agar plate with hemoglobin and Kellog supplement at 37C and 5 % CO2

extract_protocol: Cells were then harvested from one plate and total RNA was isolated using the High Pure RNA Isolation Kit (Roche), according to the manufacturer’s recommendations.

tag: genotype

value: inserted dam gene

source_name: N. gonorrhoae wild type

value: wild type


title: PBMC from Chronic Rejection 1.4 at T0

description: CR, Biological replicate  1 of 31, Technical replicate 4 of 4

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR001.4

value: PBMC from CR001

value: CR 1 of 31

value: Replicate 4 of 4


title: drg::dam cells  replicate 3

description: total RNA from not pooled samples

source_name: drg::dam cells replicate 3


title: Myxoid No.2

source_name: FFPE, Myxoid component of myxoid liposarcoma patient No.2

value: patient No.2

tag: tissue


title: Round cell No.1

source_name: FFPE, Round cell component of myxoid liposarcoma patient No.1

value: patient No.1


title: Myxoid No.1

source_name: FFPE, Myxoid component of myxoid liposarcoma patient No.1


title: Myxoid No.3

source_name: FFPE, Myxoid component of myxoid liposarcoma patient No.3

value: patient No.3

value: female

value: recurrent


title: MDA-MB-231 DMSO-R1

source_name: MDA-MB-231 DMSO

value: breast cancer cell line


title: Myxoid No.5

source_name: FFPE, Myxoid component of myxoid liposarcoma patient No.5

value: patient No.5


title: PBMC from Chronic Rejection 1.3 at T0

description: CR, Biological replicate  1 of 31, Technical replicate 3 of 4

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR001.3

tag: individual replicate


title: MDA-MB-231 DMSO-R2

value: DMSO for 4days


title: Myxoid No.4

source_name: FFPE, Myxoid component of myxoid liposarcoma patient No.4

value: patient No.4


title: MCF7 DMSO-R2

source_name: MCF7 DMSO


title: Myxoid No.6

source_name: FFPE, Myxoid component of myxoid liposarcoma patient No.6

value: patient No.6

value: male


title: drg::cm cells replicate 3

description: total RNA from not pooled samples

source_name: N. gonorrhoeae wild type

value: wt

source_name: drg::cm cells replicate 3

value: inactivated drg gene


title: drg::dam cells replicate 2

description: total RNA from not pooled samples

source_name: drg::dam cells replicate 2

value: inserted dam gene

value: wild type


title: drg::dam cells replicate 1

description: total RNA from not pooled samples

source_name: drg::dam cells replicate 1


title: PBMC from Chronic Rejection 1.2 at T0

description: CR, Biological replicate  1 of 31, Technical replicate 2 of 4

source_name: Total RNA from PBMC of 169 kidney graft recipients with stable graft function and under standard immunosuppressive treatment

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR001.2

value: PBMC from CR001

value: CR 1 of 31

tag: techical replicate

value: Replicate 2 of 4


title: drg::cm cells replicate 4

description: total RNA from not pooled samples

source_name: drg::cm cells replicate 4


title: MCF7 DMSO-R1


title: PBMC from Chronic Rejection 1.1 at T0

description: CR, Biological replicate  1 of 31, Technical replicate 1 of 4

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), CR001.1

value: Replicate 1 of 4

tag: time point


title: drg::cm cells replicate 1

description: total RNA from not pooled samples

source_name: drg::cm cells replicate 1


title: drg::cm cells replicate 2

description: total RNA from not pooled samples

source_name: drg::cm cells replicate 2


title: PBMC from Stable  190.2 at T0

description: STA, Biological replicate  190 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA190.2

value: PBMC from STA190

value: Replicate 2 of 2


title: MCF12A Mock-R2

source_name: MCF12A Mock

value: non-tumorigenic breast cell line

value: none (control)


title: PBMC from Stable  188.2 at T0

description: STA, Biological replicate  188 of 190, Technical replicate 2 of 2

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA188.2

value: PBMC from STA188


title: PBMC from Stable  190.1 at T0

description: STA, Biological replicate  190 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA190.1

value: Replicate 1 of 2


title: MDA-MB-231 Mock R1

source_name: MDA-MB-231 Mock

value: breast cancer cell line


title: PBMC from Stable  187.1 at T0

description: STA, Biological replicate  187 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA187.1

value: PBMC from STA187


title: PBMC from Stable  188.1 at T0

description: STA, Biological replicate  188 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA188.1


title: MCF12A Mock-R1


title: PBMC from Stable  187.2 at T0

description: STA, Biological replicate  187 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA187.2


title: MDA-MB-231 Mock R2


title: PBMC from Stable  189.1 at T0

description: STA, Biological replicate  189 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA189.1

value: PBMC from STA189


title: PBMC from Stable  189.2 at T0

description: STA, Biological replicate  189 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA189.2


title: MCF7 Mock R2

source_name: MCF7 Mock R2


title: ESCC_Biopsy_SS13402

city: Chuo-ku

first: Hiroki

last: Sasaki

institute: National Cancer Center Reseach Institute

description: Gene expression data from biopsy of esophageal squamous cell carcinoma

hyb_protocol: Following fragmentation, 10µg of cRNA were hybridized for 16 hr at 45ﾟC on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.

scan_protocol: GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.

data_processing: The data were analyzed with GeneSpring version 12.6 using affymetrix expression analysis settings (Summarization algorithm: MAS5).

source_name: Esophageal squamous cell carcinoma

label_protocol: Biotinylated cRNA were prepared from 100 ng total RNA by GeneChip 3' IVT Express Kit. The procedure was according to the standard Affymetrix protocol.

growth_protocol: All esophageal squamous cell carcionma specimens were provided by the National Cancer Center Hospital and National Cancer Center Hospital East after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.

extract_protocol: Frozen biopsy specimens were placed in the ISOGEN solution and homogenised. Extraction of total RNA was performed according to the manufacturer's instructions.

treatment_protocol: All biopsy specimens were obtained before therapy and immediately frozen at -80 ﾟC until use.

tag: disease state

value: ESCC

value: Biopsy before therapy

tag: therapy

value: Surgery


title: PBMC from Stable  186.2 at T0

description: STA, Biological replicate  186 of 190, Technical replicate 2 of 2

source_name: Total RNA from PBMC of 169 kidney graft recipients with stable graft function and under standard immunosuppressive treatment

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA186.2

value: PBMC from STA186


title: PBMC from Stable  186.1 at T0

description: STA, Biological replicate  186 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA186.1


title: PBMC from Stable  185.2 at T0

description: STA, Biological replicate  185 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA185.2

value: PBMC from STA185


title: ESCC_Biopsy_SS13102


title: PBMC from Stable  185.1 at T0

description: STA, Biological replicate  185 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA185.1


title: ESCC_Biopsy_SS13302


title: MCF7 Mock-R1

source_name: MCF7 Mock

tag: cell line

tag: cell type


title: ESCC_Biopsy_SS10502


title: PBMC from Stable  184.2 at T0

description: STA, Biological replicate  184 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA184.2

value: PBMC from STA184


title: ESCC_Biopsy_SS10402


title: ESCC_Biopsy_SS13002


title: PBMC from Stable  184.1 at T0

description: STA, Biological replicate  184 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA184.1


title: ESCC_Biopsy_SS10302


title: PBMC from Stable  182.2 at T0

description: STA, Biological replicate  182 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA182.2

value: PBMC from STA182


title: ESCC_Biopsy_SS10102


title: PBMC from Stable  182.1 at T0

description: STA, Biological replicate  182 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA182.1


title: PBMC from Stable  183.2 at T0

description: STA, Biological replicate  183 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA183.2

value: PBMC from STA183


title: ESCC_Biopsy_SS09802


title: Round cell No.5

description: miRNA expression in rounc cell component of myxoid liposarcoma

source_name: FFPE, Round cell component of myxoid liposarcoma patient No.5

tag: individual

value: patient No.5

value: male

value: primary


title: PBMC from Stable  183.1 at T0

description: STA, Biological replicate  183 of 190, Technical replicate 1 of 2

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA183.1


title: ESCC_Biopsy_SS08202


title: 145WD2

city: Chicago

first: Yinan

last: Zheng

state: Illinois

address: 680 N Lake Shore Drive, Suite 1400

department: Department of Preventive Medicine

institute: Northwestern University

description: Duplicate of Participant 26 measured at day 2

hyb_protocol: See manufacturer's website: http://www.nanostring.com/

data_processing: The raw data were first quantile normalized (without controls), then log2 transformed.

source_name: Whole blood

extract_protocol: A total of 240 peripheral blood samples from 120 participants on both examination days were collected in PAXgene Blood RNA Tubes.  We collected 24 ml of blood at the end of each study day (between 4-6 p.m.) from each participant at each participant’s workplace.  All samples were frozen at -80ºC and sent to the laboratory.  Total RNA was extracted from whole blood according to the manufacturer’s protocols using the PAXgene Blood RNA Kit Qiagen-763134 (Qiagen, Valencia, California).  RNA samples were quantified and quality controlled using absorbance measurements, following NanoString’s technical guidelines.  The mean RNA concentration was 104.4 µg/ml.  All samples had an optical density (OD) 280/260 ratio of 1.9 or greater and an OD 260/230 ratio of 1.8 or greater.

tag: group

value: Truck Driver

tag: Sex

value: Male

tag: bmi


title: ESCC_Biopsy_SS07902


title: 144WD2

description: Duplicate of Participant 29 measured at day 2

scan_protocol: See manufacturer's website: http://www.nanostring.com/

value: Office Worker

tag: age


title: 145WD1

description: Duplicate of Participant 98 measured at day 1

label_protocol: See manufacturer's website: http://www.nanostring.com/

value: Female


title: 144WD1

description: Duplicate of Participant 92 measured at day 1


title: ESCC_Biopsy_SS08302


title: 143WD2

description: Duplicate of Participant 18 measured at day 2


title: ESCC_Biopsy_SS08602

description: Gene expression data from biopsy of esophageal squamous cell carcinoma


title: ESCC_Biopsy_SS09702


title: ESCC_Biopsy_SS08402


title: PBMC from Stable  180.2 at T0

description: STA, Biological replicate  180 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA180.2

value: PBMC from STA180

value: Replicate 2 of 2


title: ESCC_Biopsy_SS07802

value: ESCC

value: Biopsy before therapy


title: PBMC from Stable  181.2 at T0

description: STA, Biological replicate  181 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA181.2

value: PBMC from STA181


title: PBMC from Stable  179.2 at T0

description: STA, Biological replicate  179 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA179.2

value: PBMC from STA179


title: ESCC_Biopsy_SS07702

source_name: Esophageal squamous cell carcinoma

value: Surgery


title: PBMC from Stable  179.1 at T0

description: STA, Biological replicate  179 of 190, Technical replicate 1 of 2

source_name: Total RNA from PBMC of 169 kidney graft recipients with stable graft function and under standard immunosuppressive treatment

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA179.1

value: Replicate 1 of 2


title: ESCC_Biopsy_SS07602_2


title: ESCC_Biopsy_SS08502


title: PBMC from Stable  181.1 at T0

description: STA, Biological replicate  181 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA181.1


title: PBMC from Stable  180.1 at T0

description: STA, Biological replicate  180 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA180.1


title: 141WD2

description: Duplicate of Participant 1 measured at day 2


title: 142WD2

description: Duplicate of Participant 21 measured at day 2


title: 143WD1

description: Duplicate of Participant 83 measured at day 1


title: PBMC from Stable  178.1 at T0

description: STA, Biological replicate  178 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA178.1

value: PBMC from STA178


title: 125WD2

description: Participant 125 measured at day 2

tag: regular drinker

tag: smoker

tag: cigarettes smoked

tag: temperature

tag: dew point

tag: initial sbp

tag: initial dbp

tag: final sbp

tag: final dbp

tag: fvc

tag: pef


title: 140WD1

description: Duplicate of Participant 77 measured at day 1


title: 140WD2

description: Duplicate of Participant 5 measured at day 2


title: PBMC from Stable  178.2 at T0

description: STA, Biological replicate  178 of 190, Technical replicate 2 of 2

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA178.2

tag: tissue

tag: individual replicate

tag: techical replicate

tag: time point


title: 141WD1

description: Duplicate of Participant 125 measured at day 1

tag: group

tag: Sex

tag: age

tag: bmi


title: 142WD1

description: Duplicate of Participant 82 measured at day 1


title: 123WD2

description: Participant 123 measured at day 2

tag: regular drinker

tag: smoker

tag: cigarettes smoked

tag: temperature


title: PBMC from Stable  177.2 at T0

description: STA, Biological replicate  177 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA177.2

value: PBMC from STA177


title: 122WD2

description: Participant 122 measured at day 2

tag: dew point

tag: initial sbp

tag: initial dbp

tag: final sbp


title: 123WD1

description: Participant 123 measured at day 1

tag: final dbp

tag: fvc

tag: pef


title: 121WD2

description: Participant 121 measured at day 2


title: PBMC from Stable  176.1 at T0

description: STA, Biological replicate  176 of 190, Technical replicate 1 of 2

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA176.1

tag: tissue

value: PBMC from STA176

tag: individual replicate

tag: techical replicate


title: ESCC_Biopsy_SS07102

description: Gene expression data from biopsy of esophageal squamous cell carcinoma

tag: disease state

tag: therapy


title: 121WD1

description: Participant 121 measured at day 1

tag: group

tag: Sex

tag: age

tag: bmi

tag: regular drinker


title: ESCC_Biopsy_SS07402


title: ESCC_Biopsy_SS07502


title: PBMC from Stable  176.2 at T0

description: STA, Biological replicate  176 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA176.2

tag: time point


title: PBMC from Stable  177.1 at T0

description: STA, Biological replicate  177 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA177.1


title: 125WD1

description: Participant 125 measured at day 1

tag: smoker

tag: cigarettes smoked

tag: temperature

tag: dew point

tag: initial sbp

tag: initial dbp


title: PBMC from Stable  175.2 at T0

description: STA, Biological replicate  175 of 190, Technical replicate 2 of 2

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA175.2

tag: tissue

value: PBMC from STA175


title: PBMC from Stable  175.1 at T0

description: STA, Biological replicate  175 of 190, Technical replicate 1 of 2

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA175.1

tag: individual replicate

tag: techical replicate


title: ESCC_Biopsy_SS07002

tag: disease state

tag: therapy


title: ESCC_Biopsy_SS06802


title: ESCC_Biopsy_SS06502


title: 120WD2

description: Participant 120 measured at day 2

source_name: Whole blood

tag: group

tag: Sex

tag: final sbp

tag: final dbp

tag: fvc

tag: pef


title: 122WD1

description: Participant 122 measured at day 1

tag: age

tag: bmi

tag: regular drinker

tag: smoker

tag: cigarettes smoked


title: ESCC_Biopsy_SS06902


title: 120WD1

description: Participant 120 measured at day 1

tag: temperature

tag: dew point

tag: initial sbp

tag: initial dbp


title: 119WD2

description: Participant 119 measured at day 2


title: 118WD2

description: Participant 118 measured at day 2


title: 119WD1

description: Participant 119 measured at day 1


title: 118WD1

description: Participant 118 measured at day 1


title: PBMC from Stable  174.1 at T0

description: STA, Biological replicate  174 of 190, Technical replicate 1 of 2

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA174.1

tag: tissue

value: PBMC from STA174

tag: individual replicate

tag: techical replicate

tag: time point


title: 116WD1

description: Participant 116 measured at day 1

tag: group

tag: Sex

value: Male

tag: final sbp

tag: final dbp


title: ESCC_Biopsy_SS06402

tag: disease state

tag: therapy


title: 116WD2

description: Participant 116 measured at day 2

value: Office Worker

tag: age

tag: bmi

tag: regular drinker

tag: smoker

tag: fvc

tag: pef


title: 117WD1

description: Participant 117 measured at day 1

tag: cigarettes smoked

tag: temperature

tag: dew point

tag: initial sbp

tag: initial dbp


title: 117WD2

description: Participant 117 measured at day 2

tag: group


title: PBMC from Stable  173.2 at T0

description: STA, Biological replicate  173 of 190, Technical replicate 2 of 2

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA173.2

tag: tissue

value: PBMC from STA173

tag: individual replicate

tag: techical replicate

tag: time point


title: ESCC_Biopsy_SS06202

tag: disease state

tag: therapy


title: 115WD2

description: Participant 115 measured at day 2

tag: Sex

tag: age

tag: bmi

tag: regular drinker

tag: final sbp

tag: final dbp


title: PBMC from Stable  172.2 at T0

description: STA, Biological replicate  172 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA172.2

value: PBMC from STA172


title: PBMC from Stable  173.1 at T0

description: STA, Biological replicate  173 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA173.1


title: ESCC_Biopsy_SS06102

source_name: Esophageal squamous cell carcinoma


title: ESCC_Biopsy_SS06302


title: 113WD2

description: Participant 113 measured at day 2

value: Truck Driver

value: Female

tag: smoker

tag: cigarettes smoked

tag: temperature

tag: dew point

tag: fvc

tag: pef


title: 114WD2

description: Participant 114 measured at day 2

tag: group

tag: initial sbp

tag: initial dbp


title: 114WD1

description: Participant 114 measured at day 1


title: 113WD1

description: Participant 113 measured at day 1


title: ESCC_Biopsy_SS05802

tag: disease state

value: ESCC

tag: tissue

value: Biopsy before therapy


title: PBMC from Stable  172.1 at T0

description: STA, Biological replicate  172 of 190, Technical replicate 1 of 2

source_name: Total RNA from PBMC of 169 kidney graft recipients with stable graft function and under standard immunosuppressive treatment

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA172.1

tag: individual replicate

tag: techical replicate

tag: time point


title: 115WD1

description: Participant 115 measured at day 1

tag: Sex

tag: age

tag: bmi

tag: regular drinker

tag: final sbp


title: PBMC from Stable  171.1 at T0

description: STA, Biological replicate  171 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA171.1

value: PBMC from STA171


title: PBMC from Stable  171.2 at T0

description: STA, Biological replicate  171 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA171.2

value: Replicate 2 of 2


title: ESCC_Biopsy_SS06002

tag: therapy

value: Surgery


title: PBMC from Stable  170.2 at T0

description: STA, Biological replicate  170 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA170.2

value: PBMC from STA170


title: ESCC_Biopsy_SS05602


title: ESCC_Biopsy_SS05702


title: 110WD2

description: Participant 110 measured at day 2

tag: smoker

tag: cigarettes smoked

tag: temperature

tag: dew point

tag: final dbp

tag: fvc


title: 110WD1

description: Participant 110 measured at day 1

tag: group

tag: initial sbp

tag: initial dbp

tag: pef


title: 111WD2

description: Participant 111 measured at day 2


title: 109WD2

description: Participant 109 measured at day 2


title: ESCC_Biopsy_SS05502

tag: disease state

tag: tissue


title: 108WD2

description: Participant 108 measured at day 2

tag: Sex

tag: age


title: 107WD1

description: Participant 107 measured at day 1

tag: bmi

tag: regular drinker


title: 108WD1

description: Participant 108 measured at day 1

tag: final sbp


title: 107WD2

description: Participant 107 measured at day 2

tag: smoker


title: 111WD1

description: Participant 111 measured at day 1

tag: cigarettes smoked


title: 106WD1

description: Participant 106 measured at day 1

tag: temperature


title: 106WD2

description: Participant 106 measured at day 2

tag: dew point


title: 105WD2

description: Participant 105 measured at day 2

tag: final dbp


title: PBMC from Stable  170.1 at T0

description: STA, Biological replicate  170 of 190, Technical replicate 1 of 2

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA170.1

tag: individual replicate

tag: techical replicate

value: Replicate 1 of 2

tag: time point


title: PBMC from Stable  169.2 at T0

description: STA, Biological replicate  169 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA169.2

value: PBMC from STA169


title: 109WD1

description: Participant 109 measured at day 1

tag: group

tag: initial sbp

tag: initial dbp

tag: fvc

tag: pef


title: 105WD1

description: Participant 105 measured at day 1

tag: Sex

tag: age

tag: bmi


title: ESCC_Biopsy_SS02802

tag: disease state

tag: tissue

tag: therapy


title: PBMC from Stable  168.2 at T0

description: STA, Biological replicate  168 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA168.2

value: PBMC from STA168


title: ESCC_Biopsy_SS02702


title: ESCC_Biopsy_SS02602


title: ESCC_Biopsy_SS02402


title: ESCC_Biopsy_SS03002


title: 103WD2

description: Participant 103 measured at day 2

tag: regular drinker

tag: smoker

tag: cigarettes smoked

tag: temperature

tag: dew point

tag: final sbp


title: 104WD2

description: Participant 104 measured at day 2

tag: group

tag: final dbp


title: 104WD1

description: Participant 104 measured at day 1

tag: initial sbp

tag: initial dbp


title: PBMC from Stable  169.1 at T0

description: STA, Biological replicate  169 of 190, Technical replicate 1 of 2

tag: sample type

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA169.1

tag: individual replicate

tag: techical replicate

tag: time point


title: ESCC_Biopsy_SS02302

description: Gene expression data from biopsy of esophageal squamous cell carcinoma

tag: disease state


title: 103WD1

description: Participant 103 measured at day 1

tag: Sex

tag: age

tag: bmi

tag: fvc

tag: pef


title: PBMC from Stable  168.1 at T0

description: STA, Biological replicate  168 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA168.1

tag: tissue


title: PBMC from Stable  167.2 at T0

description: STA, Biological replicate  167 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA167.2

value: PBMC from STA167


title: 102WD2

description: Participant 102 measured at day 2

source_name: Whole blood

tag: regular drinker

tag: smoker

tag: cigarettes smoked

tag: temperature

tag: dew point


title: 102WD1

description: Participant 102 measured at day 1

tag: group

tag: initial sbp

tag: initial dbp

tag: final sbp

tag: final dbp


title: 101WD2

description: Participant 101 measured at day 2


title: PBMC from Stable  167.1 at T0

description: STA, Biological replicate  167 of 190, Technical replicate 1 of 2

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA167.1

tag: individual replicate

tag: techical replicate

tag: time point


title: 101WD1

description: Participant 101 measured at day 1

tag: Sex

tag: age

tag: bmi

tag: fvc


title: 100WD2

description: Participant 100 measured at day 2

tag: regular drinker

tag: smoker

tag: pef


title: 100WD1

description: Participant 100 measured at day 1

tag: cigarettes smoked

tag: temperature

tag: dew point


title: ESCC_Biopsy_SS02202

tag: disease state

tag: tissue

tag: therapy


title: PBMC from Stable  166.1 at T0

description: STA, Biological replicate  166 of 190, Technical replicate 1 of 2

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA166.1

value: PBMC from STA166


title: PBMC from Stable  166.2 at T0

description: STA, Biological replicate  166 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA166.2

tag: individual replicate


title: ESCC_Biopsy_SS12902_2

value: Chemoradiotherapy


title: 99WD1

description: Participant 99 measured at day 1

tag: group

tag: initial sbp

tag: initial dbp

tag: final sbp

tag: final dbp


title: 99WD2

description: Participant 99 measured at day 2

tag: Sex

tag: age

tag: bmi

tag: fvc


title: ESCC_Biopsy_SS12002_2


title: 98WD1

description: Participant 98 measured at day 1

tag: regular drinker

tag: smoker

tag: cigarettes smoked

tag: pef


title: 97WD2

description: Participant 97 measured at day 2

value: Office Worker

tag: temperature

tag: dew point


title: 96WD1

description: Participant 96 measured at day 1


title: ESCC_Biopsy_SS10002

tag: disease state

tag: tissue

tag: therapy


title: PBMC from Stable  165.1 at T0

description: STA, Biological replicate  165 of 190, Technical replicate 1 of 2

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA165.1

value: PBMC from STA165

tag: individual replicate

tag: techical replicate

tag: time point


title: PBMC from Stable  164.2 at T0

description: STA, Biological replicate  164 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA164.2

value: PBMC from STA164


title: PBMC from Stable  164.1 at T0

description: STA, Biological replicate  164 of 190, Technical replicate 1 of 2

source_name: Total RNA from PBMC of 169 kidney graft recipients with stable graft function and under standard immunosuppressive treatment

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA164.1


title: 96WD2

description: Participant 96 measured at day 2

tag: group

value: Truck Driver

tag: Sex

value: Female

tag: initial sbp

tag: initial dbp

tag: final sbp

tag: final dbp


title: ESCC_Biopsy_SS12701_2

source_name: Esophageal squamous cell carcinoma

value: ESCC

value: Biopsy before therapy


title: 98WD2

description: Participant 98 measured at day 2

tag: age

tag: bmi

tag: regular drinker

tag: smoker

tag: cigarettes smoked

tag: fvc


title: 97WD1

description: Participant 97 measured at day 1

tag: temperature

tag: dew point

tag: pef


title: ESCC_Biopsy_SS08702

tag: disease state

tag: tissue

tag: therapy


title: PBMC from Stable  165.2 at T0

description: STA, Biological replicate  165 of 190, Technical replicate 2 of 2

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA165.2

tag: individual replicate

tag: techical replicate

value: Replicate 2 of 2

tag: time point


title: ESCC_Biopsy_SS08102


title: 95WD2

description: Participant 95 measured at day 2

tag: group

tag: Sex

tag: initial sbp

tag: initial dbp

tag: final sbp

tag: final dbp


title: 95WD1

description: Participant 95 measured at day 1

tag: age

tag: bmi

tag: regular drinker

tag: smoker

tag: cigarettes smoked

tag: fvc


title: PBMC from Stable  163.1 at T0

description: STA, Biological replicate  163 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA163.1

tag: tissue

value: PBMC from STA163


title: 93WD2

description: Participant 93 measured at day 2

tag: temperature

tag: dew point

tag: pef


title: 94WD1

description: Participant 94 measured at day 1


title: 94WD2

description: Participant 94 measured at day 2


title: PBMC from Stable  163.2 at T0

description: STA, Biological replicate  163 of 190, Technical replicate 2 of 2

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA163.2

tag: individual replicate

tag: techical replicate

tag: time point


title: PBMC from Stable  162.2 at T0

description: STA, Biological replicate  162 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA162.2

value: PBMC from STA162


title: PBMC from Stable  162.1 at T0

description: STA, Biological replicate  162 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA162.1

value: Replicate 1 of 2


title: ESCC_Biopsy_SS08001_2

tag: disease state

tag: therapy


title: ESCC_Biopsy_SS07202


title: 93WD1

description: Participant 93 measured at day 1

tag: group

tag: Sex

tag: initial sbp

tag: initial dbp

tag: final sbp

tag: final dbp


title: PBMC from Stable  161.2 at T0

description: STA, Biological replicate  161 of 190, Technical replicate 2 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA161.2

value: PBMC from STA161


title: 91WD2

description: Participant 91 measured at day 2

tag: age

tag: bmi

tag: regular drinker

tag: smoker

tag: cigarettes smoked

tag: fvc


title: 92WD1

description: Participant 92 measured at day 1

tag: temperature

tag: dew point

tag: pef


title: 91WD1

description: Participant 91 measured at day 1


title: 90WD1

description: Participant 90 measured at day 1


title: 90WD2

description: Participant 90 measured at day 2


title: ESCC_Biopsy_SS07601

tag: disease state

tag: tissue


title: ESCC_Biopsy_SS04002

tag: therapy


title: 89WD2

description: Participant 89 measured at day 2

tag: group

tag: Sex


title: PBMC from Stable  174.2 at T0

description: STA, Biological replicate  174 of 190, Technical replicate 2 of 2

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA174.2

value: PBMC from STA174

tag: individual replicate

tag: techical replicate

tag: time point


title: PBMC from Stable  160.2 at T0

description: STA, Biological replicate  160 of 190, Technical replicate 2 of 2

value: pool of 169 PBMC samples from Stable patients (STA)

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA160.2

value: PBMC from STA160


title: PBMC from Stable  160.1 at T0

description: STA, Biological replicate  160 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA160.1


title: PBMC from Stable  161.1 at T0

description: STA, Biological replicate  161 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA161.1


title: 88WD2

description: Participant 88 measured at day 2

source_name: Whole blood

tag: age

tag: bmi

tag: initial sbp

tag: initial dbp

tag: final sbp

tag: final dbp


title: 89WD1

description: Participant 89 measured at day 1

tag: regular drinker

tag: smoker

tag: cigarettes smoked

tag: temperature

tag: dew point

tag: fvc


title: ESCC_Biopsy_SS02502

description: Gene expression data from biopsy of esophageal squamous cell carcinoma

tag: disease state

tag: tissue

tag: therapy


title: ESCC_Biopsy_SS02001


title: ESCC_Biopsy_SS01702


title: ESCC_Biopsy_SS02201_2


title: ESCC_Biopsy_SS03802


title: PBMC from Stable  159.2 at T0

description: STA, Biological replicate  159 of 190, Technical replicate 2 of 2

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA159.2

value: PBMC from STA159

tag: individual replicate

tag: techical replicate


title: 87WD1

description: Participant 87 measured at day 1

tag: group

tag: Sex

tag: age

tag: bmi

tag: pef


title: PBMC from Stable  159.1 at T0

description: STA, Biological replicate  159 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA159.1

tag: time point


title: 88WD1

description: Participant 88 measured at day 1

tag: regular drinker

tag: smoker

tag: initial sbp

tag: initial dbp

tag: final sbp

tag: final dbp


title: ESCC_Biopsy_ES06001

tag: disease state

tag: tissue

value: Chemoradiotherapy


title: 87WD2

description: Participant 87 measured at day 2

value: Office Worker

tag: cigarettes smoked

tag: temperature

tag: dew point

tag: fvc


title: 86WD2

description: Participant 86 measured at day 2

tag: group

tag: Sex


title: PBMC from Stable  158.2 at T0

description: STA, Biological replicate  158 of 190, Technical replicate 2 of 2

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA158.2

value: PBMC from STA158

tag: individual replicate

tag: techical replicate


title: 86WD1

description: Participant 86 measured at day 1

tag: age

tag: bmi

tag: regular drinker

tag: pef


title: 85WD1

description: Participant 85 measured at day 1

tag: smoker

tag: initial sbp

tag: initial dbp

tag: final sbp


title: 85WD2

description: Participant 85 measured at day 2

tag: cigarettes smoked

tag: final dbp


title: ESCC_Biopsy_ES05901

tag: disease state

tag: tissue

tag: therapy


title: 84WD2

description: Participant 84 measured at day 2

tag: group

tag: Sex

tag: temperature

tag: dew point

tag: fvc


title: PBMC from Stable  157.2 at T0

description: STA, Biological replicate  157 of 190, Technical replicate 2 of 2

source_name: Total RNA from PBMC of 169 kidney graft recipients with stable graft function and under standard immunosuppressive treatment

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA157.2

value: PBMC from STA157

tag: individual replicate

tag: techical replicate

tag: time point


title: 83WD1

description: Participant 83 measured at day 1

value: Truck Driver

tag: age

tag: bmi

tag: regular drinker

tag: smoker

tag: initial sbp

tag: pef


title: ESCC_Biopsy_ES05501

source_name: Esophageal squamous cell carcinoma

tag: disease state

tag: tissue


title: PBMC from Stable  158.1 at T0

description: STA, Biological replicate  158 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA158.1


title: 83WD2

description: Participant 83 measured at day 2

tag: group

value: Female

tag: cigarettes smoked

tag: initial dbp

tag: final sbp

tag: final dbp


title: 84WD1

description: Participant 84 measured at day 1

tag: Sex

tag: temperature

tag: dew point

tag: fvc


title: 82WD2

description: Participant 82 measured at day 2

tag: age


title: 81WD2

description: Participant 81 measured at day 2

tag: bmi


title: 81WD1

description: Participant 81 measured at day 1

tag: regular drinker


title: 80WD1

description: Participant 80 measured at day 1

tag: smoker


title: ESCC_Biopsy_ES05801

value: ESCC

tag: therapy


title: ESCC_Biopsy_ES05201

value: Biopsy before therapy


title: PBMC from Stable  156.1 at T0

description: STA, Biological replicate  156 of 190, Technical replicate 1 of 2

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA156.1

value: PBMC from STA156

tag: individual replicate

tag: techical replicate

tag: time point


title: 80WD2

description: Participant 80 measured at day 2

tag: group

tag: cigarettes smoked

tag: initial sbp

tag: pef


title: 82WD1

description: Participant 82 measured at day 1

tag: Sex

tag: initial dbp

tag: final sbp

tag: final dbp


title: 79WD1

description: Participant 79 measured at day 1

tag: age

tag: temperature

tag: dew point

tag: fvc


title: 79WD2

description: Participant 79 measured at day 2

tag: bmi

tag: regular drinker

tag: smoker


title: PBMC from Stable  156.2 at T0

description: STA, Biological replicate  156 of 190, Technical replicate 2 of 2

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA156.2

tag: tissue

tag: individual replicate

tag: techical replicate

value: Replicate 2 of 2


title: ESCC_Biopsy_ES02701

tag: disease state

tag: therapy


title: ESCC_Biopsy_ES03701


title: PBMC from Stable  157.1 at T0

description: STA, Biological replicate  157 of 190, Technical replicate 1 of 2

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA157.1

tag: time point


title: 78WD2

description: Participant 78 measured at day 2

tag: group

tag: Sex

tag: cigarettes smoked

tag: initial sbp

tag: initial dbp

tag: pef


title: 77WD2

description: Participant 77 measured at day 2

tag: age

tag: temperature

tag: dew point

tag: final sbp

tag: final dbp

tag: fvc


title: 78WD1

description: Participant 78 measured at day 1

tag: bmi

tag: regular drinker

tag: smoker


title: PBMC from Stable  155.1 at T0

description: STA, Biological replicate  155 of 190, Technical replicate 1 of 2

tag: sample type

source_name: Total RNA from Peripheral Blood Mononuclear Cells (PBMC), STA155.1

tag: tissue

value: PBMC from STA155

tag: individual replicate

tag: techical replicate


title: ESCC_Biopsy_ES02602

tag: disease state

tag: therapy