title: MC0678_PreTx_BM_CD138pos

description: Competitive Oligo CGH assay, MC0678_PreTx_BM_CD138pos versus Promega Female DNA

source_name: MC0678_PreTx_BM_CD138pos DNA

value: CD138 Positive Myeloma Cells

tag: sample order

tag: tc class

value: maf

value: high

value: monoallelic

value: non-hyperdiploid

value: poor

value: Promega Female DNA


title: MC1059_MCA0433_BM_CD138pos

status: Public on Mar 28 2012

type: genomic

city: Phoenix

first: Jonathan

middle: J

last: Keats

state: Arizona

address: 445 N. Fifth Street

department: Integrated Cancer Genomics

country: USA

institute: Translational Genomics Research Institute (TGen)

description: Competitive Oligo CGH assay, MC1059_MCA0433_BM_CD138pos versus Promega Female DNA

hyb_protocol: hybridizations were carried out as suggested in the Agilent Oligonucleotide Array-Based CGH for Genomic DNA Analysis Protocol Version 6.2 (October 2009)

scan_protocol: scans were carried out as suggested in the Agilent Oligonucleotide Array-Based CGH for Genomic DNA Analysis Protocol Version 6.2 (October 2009) with both PMTs at 100%

data_processing: Raw data was extracted from TIFF image files by  Agilent Feature extraction using protocol CGH_107_Sep09 and grid 014693_D_F_20080627

molecule: genomic DNA

organism: Homo sapiens

source_name: MC1059_MCA0433_BM_CD138pos DNA

label_protocol: genomic DNA was digested with DNaseI for 12 minutes, digested DNA was labeled using the Invitrogen BioPrime Labeling kit, Test tumor samples were labeled with Cy5 and control DNA were labeled with Cy3

growth_protocol: Bone marrow aspirates were attained from patients after they signed informed consent documentation

extract_protocol: DNA was extracted from cell lysates stored in TRIzol or using Puregene isolations from Dry Cell Pellets

treatment_protocol: CD138 positive tumor cells were isolated from bone marrow aspirates using magnetic sorting, both Miltenyi and Stemcell Technologies

tag: cell type

tag: cyto risk

value: low

tag: 17p13 deletion

value: no

tag: ploidy

value: hyperdiploid

tag: uams 70gene index

value: good

tag: copy number abnormalities

tag: time since sample1 months

source_name: Promega Female DNA

tag: reference


title: High-grade osteosarcoma pre-chemotherapy biopsy L1085int

city: Oslo

first: Marieke

middle: Lydia

last: Kuijjer

address: Gaustadalléen 21

country: Norway

institute: Centre for Molecular Medicine Norway

description:
High-grade osteosarcoma pre-chemotherapy biopsy
Affymetrix SNP 6.0 arrays were used.

hyb_protocol: Genomic DNA preparation, labeling and hybridization were performed according to Affymetrix's recommended protocols (Affymetrix, Santa Clara, CA, USA).

scan_protocol: Arrays were scanned with GeneChip GSC3000 7G Whole-Genome Association System (Affymetrix).

data_processing: Microarray data pre-processing was performed as described in Pansuriya et al. (PMID: 21235737). Hybridization quality was estimated by the genotype call rate using the Birdseed genotype calling algorithm in Genotyping Console (version 4.0, Affymetrix). We performed copy number analysis in Nexus software version 5 using CNCHP log-ratio files generated by genotyping console using 27 controls as a baseline, which is a subset of the reference set of 29 samples which was used in Pansuriya et al (PMID: 21235737, GEO Series accession number GSE22984), because we rejected 2 samples based on results from the quality control analysis in Genotyping Console. We used the following samples for the reference file (GEO accession numbers): GSM566679, GSM566716, GSM566745, GSM566752, GSM566762, GSM566780, GSM566785, GSM566787, GSM566788, GSM566789, GSM566790, GSM566791, GSM566814, GSM566815, GSM567029, GSM567042, GSM567046, GSM567050, GSM567053, GSM567055, GSM567062, GSM567083, GSM567110, GSM567114, GSM567339, GSM567342, GSM567343. Hidden Markov model (HMM) based SNP-FASST segmentation was used to identify aberrant genomic regions. We used an aberration frequency cut-off of 35%.

label: biotin

extract_protocol: DNA from fresh frozen tissue was isolated using the wizard genomic DNA purification kit (Promega, Madison, WI), according to the manufacturer instructions.

tag: gender

value: M

tag: age

value: 223 months

tag: histological subtype

value: chondroblastic osteosarcoma

tag: tumor location

value: left proximal tibia

tag: huvos grade

tag: matching expression data

value: yes


title: MC1387_MCA0602_BM_CD138pos

description: Competitive Oligo CGH assay, MC1387_MCA0602_BM_CD138pos versus Promega Female DNA

source_name: MC1387_MCA0602_BM_CD138pos DNA


title: MC0506_MCA0457_BM_CD138pos

description: Competitive Oligo CGH assay, MC0506_MCA0457_BM_CD138pos versus Promega Female DNA

source_name: MC0506_MCA0457_BM_CD138pos DNA


title: High-grade osteosarcoma pre-chemotherapy biopsy L2617int

type: RNA

description: Gene expression data were exported from BeadStudio version 3.1.3.0 (Illumina) in GeneSpring probe profile format. Two supplementary/raw data files are present because each array that represents one Sample consists of 2 chips. The supplementary/raw data files represent the bead level data (2 raw .txt files per sample, containing all intensities per bead).

hyb_protocol: As per manufacturer's instructions.

scan_protocol: As per manufacturer's instructions.

data_processing: Data were analyzed using the statistical language R. As Illumina identifiers are not stable and consistent between different chip versions, raw oligonucleotide sequences were converted to nuIDs. Data were transformed using the variance stabilizing transformation (vst) algorithm and subsequently normalized using robust spline normalization. Conversion to nuIDs, variance stabilizing transformation, and normalization of the data were all carried out using the Bioconductor package lumi. Quality control was performed using the Bioconductor package arrayQualityMetrics. Poor quality arrays were removed from further analyses.

molecule: total RNA

label_protocol: As per manufacturer's instructions.

extract_protocol: RNA isolation, cDNA synthesis, cRNA amplification, Illumina Human-6 v2.0 Expression BeadChip hybridization, qPCR validation, and microarray data analysis were performed as previously described (Buddingh EP, Kuijjer ML, Duim RA, Burger H, Agelopoulos K, Myklebost O, et al. Tumor-infiltrating macrophages are associated with metastasis suppression in high-grade osteosarcoma: a rationale for treatment with macrophage-activating agents. Clin Cancer Res 2011 Apr 15;17(8):2110-2119).

tag: type

value: biopsy

value: F

value: 181 months

value: osteoblastic osteosarcoma

value: tibia/fibula

tag: matching copy number data


title: MC0678_PostTx_BM_CD138pos

description: Competitive Oligo CGH assay, MC0678_PostTx_BM_CD138pos versus Promega Female DNA

source_name: MC0678_PostTx_BM_CD138pos DNA

value: CD138 Positive Myeloma Cells

tag: sample order

tag: tc class

value: maf

value: high

value: monoallelic

value: non-hyperdiploid


title: High-grade osteosarcoma pre-chemotherapy biopsy L1372int

label_protocol: Genomic DNA preparation, labeling and hybridization were performed according to Affymetrix's recommended protocols (Affymetrix, Santa Clara, CA, USA).

value: 200 months

value: telangiectatic osteosarcoma

value: right distal femur


title: MC0474_MCA0491_BM_CD138pos

description: Competitive Oligo CGH assay, MC0474_MCA0491_BM_CD138pos versus Promega Female DNA

source_name: MC0474_MCA0491_BM_CD138pos DNA

tag: cell type

tag: cyto risk

value: low

value: no

value: hyperdiploid

value: good

value: Promega Female DNA


title: MC0391_MCA0375_BM_CD138pos

description: Competitive Oligo CGH assay, MC0391_MCA0375_BM_CD138pos versus Promega Female DNA

source_name: MC0391_MCA0375_BM_CD138pos DNA

tag: 17p13 deletion

tag: ploidy


title: High-grade osteosarcoma pre-chemotherapy biopsy L2178int

value: biopsy

value: F

value: 165 months

value: femur

value: unknown


title: MC0391_MCA0479_BM_CD138pos

description: Competitive Oligo CGH assay, MC0391_MCA0479_BM_CD138pos versus Promega Female DNA

source_name: MC0391_MCA0479_BM_CD138pos DNA

value: CD138 Positive Myeloma Cells

tag: uams 70gene index

tag: copy number abnormalities


title: MC0474_MCA0142_BM_CD138pos

description: Competitive Oligo CGH assay, MC0474_MCA0142_BM_CD138pos versus Promega Female DNA

source_name: MC0474_MCA0142_BM_CD138pos DNA

tag: time since sample1 months

tag: reference


title: MC0506_MCA0147_BM_CD138pos

description: Competitive Oligo CGH assay, MC0506_MCA0147_BM_CD138pos versus Promega Female DNA

source_name: MC0506_MCA0147_BM_CD138pos DNA

value: maf

value: high


title: High-grade osteosarcoma pre-chemotherapy biopsy L2068int

tag: gender

value: M

tag: age

value: 150 months

value: osteoblastic osteosarcoma


title: High-grade osteosarcoma pre-chemotherapy biopsy L1378int

value: 197 months

tag: histological subtype

value: fibroblastic MFH-like osteosarcoma

tag: tumor location


title: High-grade osteosarcoma pre-chemotherapy biopsy L2613int

value: 181 months

value: tibia/fibula

tag: huvos grade

value: yes


title: MC0007_MCRxxx4_BM_CD138pos

description: Competitive Oligo CGH assay, MC0007_MCRxxx4_BM_CD138pos versus Promega Female DNA

source_name: MC0007_MCRxxx4_BM_CD138pos DNA

value: low

value: no

value: non-hyperdiploid

value: good

value: Promega Female DNA


title: 13688509 - ctrl 22 degree Celsius 2h vs ctrl 4 degree Celsius 2h

city: evry

first: Soubigou-Taconnat

last: Ludivine

address: 2 rue gaston crémieux

department: URGV

country: France

institute: INRA

description: The cold choc response seems to be partly triggered by Sphingolipid species. To date no gene response as been associated to sphingolipid signaling pathway in plant. Our aim is to identify among the cold induced genes the ones regulated by sphingolipids and to try to define a sphingolipid pathway specific group of genes.

hyb_protocol: ctrl 4degre Celsius 2h Cy5 / ctrl 22degre Celsius 2h Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.

scan_protocol: GenePix Pro 6.0, Cy3:pmt voltage 532nm,500V,laser power 30%, Cy5:635nm,pmt voltage 500V,laser power 30%

data_processing: The raw data comprised the logarithm of median feature pixel intensity at wavelength 635 nm (red) and 532 nm (green). No background was subtracted. An array-by-array normalization was performed to remove systematic biases. First, we excluded spots that were considered badly formed features by the experimenter (Flags=-100). Then we performed a global intensity-dependent normalization using the loess procedure (see Yang et al., 2002) to correct the dye bias. Finally, on each block, the log-ratio median is subtracted from each value of the log-ratio of the block to correct a print-tip effect on each metablock.

organism: Arabidopsis thaliana

source_name: ctrl 4 degree Celsius 2h

label_protocol: labelling Cy3 and Cy5 direct, amplification=yes, aRNA 5 ug. (Labelling_protocol.txt) Labelling protocol: 5 µg of aRNA (8µl) mixed with 2 µl of random nonamers 1µg/µl and 0.5 µl of RNAse Out 40 U/µl, denatured 10 min at 70 °C and chilled on ice. The followig components were added to the sample 4 µl of first strand buffer 5 X, 1 µl of 10 mM dNTP/2mM dCTP, 2 µl of 0.1 M DTT, 1.5 µl of Cy3-dCTP or Cy5-dCTP (Amersham Pharmacia Biotech, 25nmol tube, PA5502), 1 µl of SuperScript II RT 200U/µl. Then it was incubated at 42°C for 2.5 hours and chilled on ice. The sample was denaturated by adding 2 µl of NaOH 2.5M and incubated at 37 °C for exactly 15 min, then was added 10 µl of 2M MOPS and put on ice. The dyes were purified with the QIAquick PCR Purification Kit (QIAGEN).

growth_protocol: cell culture/primary cell - Media=2-4D liquid medium  hygrometry=non relevant  Temperature=22°c  Light=40 mmole photon s-1 m-2

extract_protocol: Pool of extract, ctrl 4degre Celsius 2h set1:0.33ug, ctrl 4degre Celsius 2h set2:0.33ug, ctrl 4degre Celsius 2h set3:0.33ug. (RS07-05_Sphingolipids-cold_Extraction-protocol.doc)

treatment_protocol: Name:DMSO 4degre Celsius 2h - compound based treatment - temperature,dmso:time 2hour . DMSO was added 2 hours before cold choc. A t T0, cells were transfered at 00c for 30 min and directly harvested and N2 frozen before RNA extraction.

tag: ecotype

value: columbia

tag: harvest date

tag: treatment

value: DMSO 4 degree Celsius 2h

source_name: ctrl 22 degree Celsius 2h

extract_protocol: Pool of extract, ctrl 22degre Celsius 2h set1:0.33ug, ctrl 22degre Celsius 2h set2:0.33ug, ctrl 22degre Celsius 2h set3:0.33ug. (RS07-05_Sphingolipids-cold_Extraction-protocol.doc)

treatment_protocol: Name:DMSO 22degre Celsius 2h - compound based treatment - temperature,dmso:time 2hour . DMSO was added 2 hours. A t T0, cells were transfered at 00c for 30 min and directly harvested and N2 frozen before RNA extraction.

value: DMSO 22 degree Celsius 2h


title: MC0134_MCRxxx5_BM_CD138pos

description: Competitive Oligo CGH assay, MC0134_MCRxxx5_BM_CD138pos versus Promega Female DNA

source_name: MC0134_MCRxxx5_BM_CD138pos DNA

value: CD138 Positive Myeloma Cells

tag: sample order

tag: tc class

value: hyperdiploid


title: MC0134_MCR1312_BM_CD138pos

description: Competitive Oligo CGH assay, MC0134_MCR1312_BM_CD138pos versus Promega Female DNA

source_name: MC0134_MCR1312_BM_CD138pos DNA

tag: cell type

tag: cyto risk


title: MC0005_MCRxxx3_BM_CD138pos

description: Competitive Oligo CGH assay, MC0005_MCRxxx3_BM_CD138pos versus Promega Female DNA

source_name: MC0005_MCRxxx3_BM_CD138pos DNA

value: high

tag: 17p13 deletion

tag: ploidy


title: 13688511 - ctrl 4 degree Celsius 2h vs ctrl 22 degree Celsius 2h

hyb_protocol: ctrl 22degre Celsius 2h Cy5 / ctrl 4degre Celsius 2h Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.


title: 13688506 - ctrl 4 degree Celsius 30min vs ctrl 22 degree Celsius 30min

hyb_protocol: ctrl 22degre Celsius 30min Cy5 / ctrl 4degre Celsius 30min Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.

source_name: ctrl 22 degree Celsius 30min

extract_protocol: Pool of extract, ctrl 22degre Celsius 30min set1:0.33ug, ctrl 22degre Celsius 30min set2:0.33ug, ctrl 22degre Celsius 30min set3:0.33ug. (RS07-05_Sphingolipids-cold_Extraction-protocol.doc)

treatment_protocol: Name:DMSO 22degre Celsius 30min - compound based treatment - temperature,dmso:time 30min . DMSO was added 30 min. A t T0, cells were transfered at 00c for 30 min and directly harvested and N2 frozen before RNA extraction.

value: DMSO 22 degree Celsius 30min

source_name: ctrl 4 degree Celsius 30min

extract_protocol: Pool of extract, ctrl 4degre Celsius 30min set1:0.33ug, ctrl 4degre Celsius 30min set2:0.33ug, ctrl 4degre Celsius 30min set3:0.33ug. (RS07-05_Sphingolipids-cold_Extraction-protocol.doc)

treatment_protocol: Name:DMSO 4degre Celsius 30min - compound based treatment - temperature,dmso:time 30min . DMSO was added 30 min before cold choc. A t T0, cells were transfered at 00c for 30 min and directly harvested and N2 frozen before RNA extraction.

value: DMSO 4 degree Celsius 30min


title: 13688503 - ctrl 22 degree Celsius 30min vs ctrl 4 degree Celsius 30min

hyb_protocol: ctrl 4degre Celsius 30min Cy5 / ctrl 22degre Celsius 30min Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.


title: 13688502 - TSP 4 degree Celsius 30min vs ctrl 4 degree Celsius 30min

hyb_protocol: ctrl 4degre Celsius 30min Cy5 / TSP 4degre Celsius 30min Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.

source_name: TSP 4 degree Celsius 30min

extract_protocol: Pool of extract, TSP 4degre Celsius 30min set1:0.33ug, TSP 4degre Celsius 30min set2:0.33ug, TSP 4degre Celsius 30min set3:0.33ug. (RS07-05_Sphingolipids-cold_Extraction-protocol.doc)

treatment_protocol: Name:TSP 4degre Celsius 30min - compound based treatment - temperature,tsp:time 30min . Myr was added 30 min before cold choc. A t T0, cells were transfered at 00c for 30 min and directly harvested and N2 frozen before RNA extraction.

value: TSP 4 degree Celsius 30min


title: MC0026_MCRxxx6_BM_CD138pos

description: Competitive Oligo CGH assay, MC0026_MCRxxx6_BM_CD138pos versus Promega Female DNA

source_name: MC0026_MCRxxx6_BM_CD138pos DNA

value: monoallelic

tag: uams 70gene index

tag: copy number abnormalities

source_name: Promega Female DNA


title: MC0005_MCRxxx2_BM_CD138pos

description: Competitive Oligo CGH assay, MC0005_MCRxxx2_BM_CD138pos versus Promega Female DNA

source_name: MC0005_MCRxxx2_BM_CD138pos DNA

value: poor

tag: time since sample1 months

tag: reference


title: MC0004_MCR2845_BM_CD138pos

description: Competitive Oligo CGH assay, MC0004_MCR2845_BM_CD138pos versus Promega Female DNA

source_name: MC0004_MCR2845_BM_CD138pos DNA


title: High-grade osteosarcoma pre-chemotherapy biopsy L1368int

description:
High-grade osteosarcoma pre-chemotherapy biopsy
Affymetrix SNP 6.0 arrays were used.

tag: gender

value: M

tag: age

value: 177 months

value: osteoblastic osteosarcoma

value: left distal femur

tag: matching expression data

value: yes


title: 13688507 - ctrl 4 degree Celsius 30min vs TSP 4 degree Celsius 30min

hyb_protocol: TSP 4degre Celsius 30min Cy5 / ctrl 4degre Celsius 30min Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.


title: MC0003_MCA0350_BM_CD138pos

description: Competitive Oligo CGH assay, MC0003_MCA0350_BM_CD138pos versus Promega Female DNA

source_name: MC0003_MCA0350_BM_CD138pos DNA

value: low

value: no

value: non-hyperdiploid

value: Promega Female DNA


title: MC0007_MCR3642_BM_CD138pos

description: Competitive Oligo CGH assay, MC0007_MCR3642_BM_CD138pos versus Promega Female DNA

source_name: MC0007_MCR3642_BM_CD138pos DNA

value: CD138 Positive Myeloma Cells


title: MC0002_MCA0061_BM_CD138pos

description: Competitive Oligo CGH assay, MC0002_MCA0061_BM_CD138pos versus Promega Female DNA

source_name: MC0002_MCA0061_BM_CD138pos DNA

value: hyperdiploid

value: good


title: 13688508 - ctrl 4 degree Celsius 30min vs DMS 4 degree Celsius 30min

hyb_protocol: DMS 4degre Celsius 30min Cy5 / ctrl 4degre Celsius 30min Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.

source_name: DMS 4 degree Celsius 30min

extract_protocol: Pool of extract, DMS 4degre Celsius 30min set1:0.33ug, DMS 4degre Celsius 30min set2:0.33ug, DMS 4degre Celsius 30min set3:0.33ug. (RS07-05_Sphingolipids-cold_Extraction-protocol.doc)

treatment_protocol: Name:DMS 4degre Celsius 30min - compound based treatment - temperature,dms:time 30min . DMS was added 30 min before cold choc. A t T0, cells were transfered at 00c for 30 min and directly harvested and N2 frozen before RNA extraction.

value: columbia

value: DMS 4 degree Celsius 30min


title: MC0026_MCR0372_BM_CD138pos

description: Competitive Oligo CGH assay, MC0026_MCR0372_BM_CD138pos versus Promega Female DNA

source_name: MC0026_MCR0372_BM_CD138pos DNA

value: high


title: Osteoblast 240-OB

description: Gene expression data were exported from BeadStudio version 3.1.3.0 (Illumina) in GeneSpring probe profile format. Two supplementary/raw data files are present because each array that represents one Sample consists of 2 chips. The supplementary/raw data files represent the bead level data (2 raw .txt files per sample, containing all intensities per bead).

source_name: Osteoblast

tag: type

value: osteoblast

tag: growth protocol

value: We used human osteoblasts derived from osteogenic differentiated bone-marrow-derived mesenchymal stem cells as described previously (Cleton-Jansen AM, Anninga JK, Briaire-de Bruijn IH, Romeo S, Oosting J, Egeler RM, Gelderblom H, et al. Profiling of high-grade central osteosarcoma and its putative progenitor cells identifies tumourigenic pathways. Br J Cancer. 2009 Dec 15;101(12):2064 (PMID:19997114)).


title: MC0391_MCAxxx1_BM_CD138pos

description: Competitive Oligo CGH assay, MC0391_MCAxxx1_BM_CD138pos versus Promega Female DNA

source_name: MC0391_MCAxxx1_BM_CD138pos DNA


title: MC1130_MCA0798_PB_CD138pos

description: Competitive Oligo CGH assay, MC1130_MCA0798_PB_CD138pos versus Promega Female DNA

source_name: MC1130_MCA0798_PB_CD138pos DNA

value: biallelic

value: poor


title: MC0002_MCA0122_BM_CD138pos

description: Competitive Oligo CGH assay, MC0002_MCA0122_BM_CD138pos versus Promega Female DNA

source_name: MC0002_MCA0122_BM_CD138pos DNA


title: High-grade osteosarcoma pre-chemotherapy biopsy L1386int

value: M

value: 101 months

tag: histological subtype

value: osteoblastic osteosarcoma

tag: tumor location

value: left diaphyseal femur

tag: huvos grade


title: 13688505 - Myr 4 degree Celsius 2h vs ctrl 4 degree Celsius 2h

hyb_protocol: ctrl 4degre Celsius 2h Cy5 / Myr 4degre Celsius 2h Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.

source_name: ctrl 4 degree Celsius 2h

tag: ecotype

tag: harvest date

tag: treatment

value: DMSO 4 degree Celsius 2h

source_name: Myr 4 degree Celsius 2h

extract_protocol: Pool of extract, Myr 4degre Celsius 2h set1:0.33ug, Myr 4degre Celsius 2h set2:0.33ug, Myr 4degre Celsius 2h set3:0.33ug. (RS07-05_Sphingolipids-cold_Extraction-protocol.doc)

treatment_protocol: Name:Myr 4degre Celsius 2h - compound based treatment - temperature,fb1:time 2hour . Myr was added 2 hours before cold choc. A t T0, cells were transfered at 00c for 30 min and directly harvested and N2 frozen before RNA extraction.

value: Myr 4 degree Celsius 2h


title: 13688504 - Fb1 4 degree Celsius 2h vs ctrl 4 degree Celsius 2h

hyb_protocol: ctrl 4degre Celsius 2h Cy5 / Fb1 4degre Celsius 2h Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.

source_name: Fb1 4 degree Celsius 2h

extract_protocol: Pool of extract, FB1 4degre Celsius 2h set1:0.33ug, FB1 4degre Celsius 2h set2:0.33ug, FB1 4degre Celsius 2h set3:0.33ug. (RS07-05_Sphingolipids-cold_Extraction-protocol.doc)

treatment_protocol: Name:Fb1 4degre Celsius 2h - compound based treatment - temperature,fb1:time 2hour . Fb1 was added 2 hours before cold choc. A t T0, cells were transfered at 00c for 30 min and directly harvested and N2 frozen before RNA extraction.

value: Fb1 4 degree Celsius 2h


title: 13968872 - SG1 175.4 repet2 vs SG1 175.1 repet2

description: What are the transcriptional consequences of the allelic contrast at SG3, SG1 and EGO3 loci mapped for its effect on shoot growth and identified at the gene level

hyb_protocol: SG1 175.1 repet2 Cy5 / SG1 175.4 repet2 Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.

scan_protocol: GenePix Pro 3.0, Cy3:pmt voltage 532nm,480V,laser power 35%, Cy5:635nm,pmt voltage 480V,laser power 30%

source_name: SG1 175.1 repet2

growth_protocol: aerial - xxx

extract_protocol: SG1 175.1 repet2:4.5ug. (Qiagen_RNeasy.pdf)

treatment_protocol: no treatment

tag: dev.stage (boyes et al. plant cell 2001)

source_name: SG1 175.4 repet2

extract_protocol: SG1 175.4 repet2:4.5ug. (Qiagen_RNeasy.pdf)

value: burren


title: MSC_MH

description:
Gene expression data were exported from BeadStudio version 3.1.3.0 (Illumina) in GeneSpring probe profile format.

Two supplementary/raw data files are present because each array that represents one Sample consists of 2 chips. The supplementary/raw data files represent the bead level data (2 raw .txt files per sample, containing all intensities per bead).

source_name: Mesenchymal stem cell

growth_protocol: Primary MSCs were cultured as described previously (Mohseny AB, Szuhai K, Romeo S, Buddingh EP, Briaire-de Bruijn I, De Jong D, et al. Osteosarcoma originates from mesenchymal stem cells in consequence of aneuploidization and genomic loss of Cdkn2. J Pathol 2009;219:294-305 (PMID 19718709); Dominici M, Le BK, Mueller I, Slaper-Cortenbach I, Marini F, Krause D, et al. Minimal criteria for defining multipotent mesenchymal stromal cells. The International Society for Cellular Therapy position statement. Cytotherapy 2006;8:315-7 (PMID 16923606)).

tag: cell type

value: mesenchymal stem cell (MSC)


title: Osteoblast 220-OB


title: MSC_HD3


title: MSC_006_OS


title: 13968870 - SG1 175.4 repet1 vs SG1 175.1 repet1

hyb_protocol: SG1 175.1 repet1 Cy5 / SG1 175.4 repet1 Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.

source_name: SG1 175.1 repet1

extract_protocol: SG1 175.1 repet1:4.5ug. (Qiagen_RNeasy.pdf)

source_name: SG1 175.4 repet1

extract_protocol: SG1 175.4 repet1:4.5ug. (Qiagen_RNeasy.pdf)


title: 13968874 - SG1 175.1 repet2 vs SG1 175.4 repet2

hyb_protocol: SG1 175.4 repet2 Cy5 / SG1 175.1 repet2 Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.


title: 13968871 - SG1 175.1 repet1 vs SG1 175.4 repet1

hyb_protocol: SG1 175.4 repet1 Cy5 / SG1 175.1 repet1 Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.


title: 13968864 - SG3 97.4 repet2 vs SG3 97.1 repet2

hyb_protocol: SG3 97.1 repet2 Cy5 / SG3 97.4 repet2 Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.

source_name: SG3 97.1 repet2

extract_protocol: SG3 97.1 repet2:4.5ug. (Qiagen_RNeasy.pdf)

source_name: SG3 97.4 repet2

extract_protocol: SG3 97.4 repet2:4.5ug. (Qiagen_RNeasy.pdf)


title: MSC_009_OS


title: MSC_002_OS


title: MSC_HD5


title: 13968865 - SG3 97.1 repet2 vs SG3 97.4 repet2

hyb_protocol: SG3 97.4 repet2 Cy5 / SG3 97.1 repet2 Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.


title: 13688499 - DMS 4 degree Celsius 30min vs ctrl 4 degree Celsius 30min

description: The cold choc response seems to be partly triggered by Sphingolipid species. To date no gene response as been associated to sphingolipid signaling pathway in plant. Our aim is to identify among the cold induced genes the ones regulated by sphingolipids and to try to define a sphingolipid pathway specific group of genes.

hyb_protocol: ctrl 4degre Celsius 30min Cy5 / DMS 4degre Celsius 30min Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.

source_name: ctrl 4 degree Celsius 30min

value: DMSO 4 degree Celsius 30min


title: Kaat-Msc

hyb_protocol: As per manufacturer's instructions.


title: 13688165 - ctrl 4 degree Celsius 2h vs Fb1 4 degree Celsius 2h

hyb_protocol: Fb1 4degre Celsius 2h Cy5 / ctrl 4degre Celsius 2h Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.

value: columbia


title: MSC_001_OS


title: MSC_003_OS_2


title: 13968862 - SG3 97.4 repet1 vs SG3 97.1 repet1

hyb_protocol: SG3 97.1 repet1 Cy5 / SG3 97.4 repet1 Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.

source_name: SG3 97.1 repet1

extract_protocol: SG3 97.1 repet1:4.5ug. (Qiagen_RNeasy.pdf)

source_name: SG3 97.4 repet1

extract_protocol: SG3 97.4 repet1:4.5ug. (Qiagen_RNeasy.pdf)


title: 220-Msc

extract_protocol: RNA isolation, cDNA synthesis, cRNA amplification, Illumina Human-6 v2.0 Expression BeadChip hybridization, qPCR validation, and microarray data analysis were performed as previously described (Buddingh EP, Kuijjer ML, Duim RA, Burger H, Agelopoulos K, Myklebost O, et al. Tumor-infiltrating macrophages are associated with metastasis suppression in high-grade osteosarcoma: a rationale for treatment with macrophage-activating agents. Clin Cancer Res 2011 Apr 15;17(8):2110-2119).


title: 13688169 - ctrl 4 degree Celsius 2h vs Myr 4 degree Celsius 2h

hyb_protocol: Myr 4degre Celsius 2h Cy5 / ctrl 4degre Celsius 2h Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.

extract_protocol: Pool of extract, ctrl 4degre Celsius 2h set1:0.33ug, ctrl 4degre Celsius 2h set2:0.33ug, ctrl 4degre Celsius 2h set3:0.33ug. (RS07-05_Sphingolipids-cold_Extraction-protocol.doc)


title: 240-Msc


title: 4800ng_CRNA

status: Public on Mar 27 2012

city: Ploen

first: Till

last: Czypionka

address: August-Thienemann-Strasse 2

department: Evolutionary Genetics

country: Germany

institute: MPI for Evolutionary Biology

description: 8 x recommended amount of cRNA

hyb_protocol: The microarray was loaded with calibration pool of labeled cRNA . Hybridization was carried out described in the Agilent protocol for One-Color Microarray-Based Gene Expression Analysis (version 6.5, May 2010), except that the amount of labeled cRNA was changed over a range of concentrations to perform a calibration between the amount of labeled cRNA and the observed signal intensity.

scan_protocol: Microarrays were scanned with an Agilent DNA Microarray Scanner type C with the standard settings for 8 x 15 k Agilent expression arrays.

data_processing: Feature extraction was carried out using the Agilent Feature Extraction software (version 10.7.3.1) and the “gprocessed signal” was taken in the measure for signal intensity.

organism: Cottus

source_name: whole fish

label_protocol: Labeled cRNA was prepared from total RNA using the Agilent Low Input Quick Amp Labeling kit. Labeled cRNA was quantified and a calibtation pool from equimolar amounts of labeled cRNA from C.rhenanus, C.perifretum and the invasive hybrid lineage was prepared.

extract_protocol: Whole fishes were homogenized with a Qiagen Tissue Ruptur  and total RNA was extracted following the Trizol protocol (Invitrogen). Total RNA was quality accessed using an RNA Nano Chip (Agilent) which a was also used for quantification. Quantification was additionally carried out using a NanoDrop-1000 spectrophotometer

tag: sample type

value: calibration pool

tag: species

value: C.rhenanus, C.perifretum, invasive hybrid species

tag: crna amount

value: 8 x recommended amount of cRNA


title: 2400ng_cRNA

description: 4 x recommended amount of cRNA

value: 4 x recommended amount of cRNA


title: 600ng_cRNA

description: recommended amount of cRNA

value: recommended amount of cRNA


title: 75ng_cRNA

description: 1/8 recommended amount of cRNA

value: 1/8 recommended amount of cRNA


title: 1200ng_cRNA

description: 2 x recommended amount of cRNA

value: 2 x recommended amount of cRNA


title: 150ng_cRNA

description: 1/4 x recommended amount of cRNA

value: 1/4 x recommended amount of cRNA


title: MSC_TD_001


title: 13968863 - SG3 97.1 repet1 vs SG3 97.4 repet1

hyb_protocol: SG3 97.4 repet1 Cy5 / SG3 97.1 repet1 Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.


title: MC0003_MCA0650_PB_CD138pos

description: Competitive Oligo CGH assay, MC0003_MCA0650_PB_CD138pos versus Promega Female DNA

hyb_protocol: hybridizations were carried out as suggested in the Agilent Oligonucleotide Array-Based CGH for Genomic DNA Analysis Protocol Version 6.2 (October 2009)

source_name: MC0003_MCA0650_PB_CD138pos DNA

extract_protocol: DNA was extracted from cell lysates stored in TRIzol or using Puregene isolations from Dry Cell Pellets

value: CD138 Positive Myeloma Cells

tag: sample order

tag: tc class

tag: cyto risk

value: low

tag: 17p13 deletion

value: no

tag: ploidy

value: non-hyperdiploid

tag: uams 70gene index

value: poor

tag: copy number abnormalities

tag: time since sample1 months

source_name: Promega Female DNA

tag: reference

value: Promega Female DNA


title: 300ng_cRNA

description: 1/2 x recommended amount of cRNA

value: 1/2 x recommended amount of cRNA


title: MC0004_MCR1470_BM_CD138pos

description: Competitive Oligo CGH assay, MC0004_MCR1470_BM_CD138pos versus Promega Female DNA

source_name: MC0004_MCR1470_BM_CD138pos DNA

value: high

value: monoallelic

value: hyperdiploid


title: 13192270 - Col vs Cul

description: Antisens and mutnats of the SKP2 and CUL4 genes are comprared to the Wt in order to identify the genes controled by those SCF proteins.

hyb_protocol: Cul Cy5 / Col Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.

scan_protocol: GenePix Pro 3.0, Cy3:pmt voltage 532nm,650V,laser power 100%, Cy5:635nm,pmt voltage 620V,laser power 100%

source_name: Cul

growth_protocol: whole plant - Duschefa MS_255 14_Hours 21 °C 10 hours 17 °C dark

extract_protocol: Pool of extract, Cul1:666ng, Cul2:666ng, Cul4:666ng. (Qiagen_RNeasy.pdf)

tag: ecotype

value: columbia

tag: genotype/variation

tag: age

source_name: Col

extract_protocol: Pool of extract, Col1:666ng, Col2:666ng, Col4:666ng. (Qiagen_RNeasy.pdf)

value: wild type


title: 13192200 - As vs Col

hyb_protocol: Col Cy5 / As Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.

tag: treatment

source_name: As

extract_protocol: Pool of extract, As1:666ng, As2:666ng, As4:666ng. (Qiagen_RNeasy.pdf)

value: antisense cul4


title: 13189981 - Col vs Cul


title: 13192069 - As vs Col


title: 13192070 - Col vs As

hyb_protocol: As Cy5 / Col Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.


title: 13192267 - Cul vs Col

hyb_protocol: Col Cy5 / Cul Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.


title: 13192266 - Col vs As


title: 13189980 - Cul vs Col


title: 13697301 - WTEtOH_3 vs WTDex_3

description: Identification of LEC1 target genes

hyb_protocol: WTDex_3 Cy5 / WTEtOH_3 Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.

growth_protocol: whole plant - solid MS, 21°C, long day (16h L, 8hD)before induction then liquid MS, gentle shaking 21°C, long day (16h L, 8hD)during induction

extract_protocol: WTDex_3:10ug. (Qiagen_RNeasy.pdf)

treatment_protocol: Name:Dex - compound based treatment - compound addition,dexamethasone:quantity 30uM time 8hour . 14 days old seedlings were grown on solid MS and then transferred to liquid MS with the corresponding supplements and incubated under gentle shaking for 8 hours until sampling.

tag: dev.stage (boyes et al. plant cell 2001)

value: dexamethasone at 30uM for 8hour

extract_protocol: WTEtOH_3:10ug. (Qiagen_RNeasy.pdf)

treatment_protocol: Name:EtOH - compound based treatment - compound addition,ethanol:quantity 0.1percent time 8hour . 14 days old seedlings were grown on solid MS and then transferred to liquid MS with the corresponding supplements and incubated under gentle shaking for 8 hours until sampling.

value: ethanol at 0.1percent for 8hour


title: Osteoblast Kaat-OB

source_name: Osteoblast

tag: type

value: osteoblast

tag: growth protocol

value: We used human osteoblasts derived from osteogenic differentiated bone-marrow-derived mesenchymal stem cells as described previously (Cleton-Jansen AM, Anninga JK, Briaire-de Bruijn IH, Romeo S, Oosting J, Egeler RM, Gelderblom H, et al. Profiling of high-grade central osteosarcoma and its putative progenitor cells identifies tumourigenic pathways. Br J Cancer. 2009 Dec 15;101(12):2064 (PMID:19997114)).


title: 13689300 - WTEtOH_2 vs WTDex_2

description: Identification of LEC1 target genes

hyb_protocol: WTDex_2 Cy5 / WTEtOH_2 Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.

extract_protocol: WTDex_2:10ug. (Qiagen_RNeasy.pdf)

extract_protocol: WTEtOH_2:10ug. (Qiagen_RNeasy.pdf)


title: ACC Xenograft X5M1

city: Frederick

first: Sudhir

middle: R

last: Chowbina

state: MD

address: Frederick

department: Advanced Biomedical Computing Center

institute: SAIC-Frederick

description:
08-34_ACCX5M1
Gene expression data from human adenoid cystic carcinoma xenograft.

hyb_protocol: Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 using the EukGE-WS2v5 fluidics protocol.

scan_protocol: Affymetrix scanner 3000 using manufacturer settings.

data_processing: The images generated in the scanning were acquired to make the .DAT files, which in turn were converted to probe-intensity coordinated .CEL files, using the GCOS software package (Affymetrix).

source_name: human adenoid cystic carcinoma grown as xenograft in mouse host

label_protocol: Affymetrix p/n 900493 GeneChip® Expression 3' Amplification One-Cycle Target Labeling and Control Reagents.

growth_protocol: Xenograft tumors were grown subcutaneously in nude mice.

extract_protocol: Isolation of total RNA was performed using RNeasy spin columns according to the manufacturer's protocol (Qiagen).

treatment_protocol: None.

tag: tissue

value: adenoid cystic carcinoma grown as xenograft tumor

tag: original tumor status

value: metastasis to lung

tag: organ site at which tumor arose

value: oral cavity

tag: donor sex

value: male


title: 13689507 - WTDex_3 vs WTEtOH_3

description: Identification of LEC1 target genes

hyb_protocol: WTEtOH_3 Cy5 / WTDex_3 Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.


title: TS543_72h_Control_rep3

city: New York

first: Joachim

last: Silber

state: NY

address: 1275 York Ave #20

institute: Memorial Sloan-Kettering Cancer Center

description: standard as recommended by illumina

hyb_protocol: standard as recommended by illumina

scan_protocol: standard as recommended by illumina

data_processing: The microarray dataset was normalized using a variance stable normalization (VSN) procedure in the lumi package from the Bioconductor framework.

source_name: TS543 GBM cells, 72h transfection with control oligonucleotide

label_protocol: standard as recommended by illumina

extract_protocol: Total RNA was extracted using mirVana miRNA isolation kit (Ambion) and then assayed using the Agilent Systems Bioanalyzer 2100 to ensure that high-quality RNA was used for the array experiments.

treatment_protocol: TS543 cells were transfected with 100 nM control oligonucleotides using Hiperfect transfection reagent (Qiagen) for 72h

tag: cell line

value: TS543 proneural GBM

value: 72h post transfection with control oligonucleotide


title: 13689301 - WTDex_2 vs WTEtOH_2

description: Identification of LEC1 target genes

hyb_protocol: WTEtOH_2 Cy5 / WTDex_2 Cy3 : 30pmol. (Hybridization_Protocol.txt) Hybridization Protocol: CATMA slides (Corning Microarray Technology, CORNING) are pretreated in the prehybridisation solution (1 % BSA, 0.1 SDS, 5X SSC ) at 42°C for 60 min. They are dipped a couple of times in distilled water at room temperature, then in isopropanol and dried immediately by compressed nitrogen stream. Slides were placed in Corning hybridization chambers with a 25x60 lifterslip and 10ul of distilled water for each groove. The target was diluted to a final volume of 60 µL as follows 15µl of purified, labeled cDNA, 15 µl of 4X Hybridization Buffer ( 20X SDS, 0.4 % SDS), 30 µL formamide. The target mixture is heated for 3 min at 95°C, put on ice for 30 sec and centrifuged to remove dust for 1 min. The target mixture was put on the chip as quickly as possible. The microarray is sealed in a chamber and submerged in a 42°C water bath for approximately 16 h. The microarray is washed for 4 min in 1xSSC, 0.2% SDS (42°C); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC, 0.2% SDS (RT); 4 min in 0.1x SSC (RT); dipped a few times in distilled water and dried immediately by compressed nitrogen stream.


title: ACC Xenograft X4

description:
08-34_ACCX4
Gene expression data from human adenoid cystic carcinoma xenograft.

value: primary


title: ACC Xenograft X9

description:
08-34_ACCX9
Gene expression data from human adenoid cystic carcinoma xenograft.

value: parotid salivary gland

value: female


title: TS543_72h_miR34a_rep2

description: standard as recommended by illumina

source_name: TS543 GBM cells, 72h transfection with hsa-miR-34a

treatment_protocol: TS543 cells were transfected with 100 nM hsa-miR-34a using Hiperfect transfection reagent (Qiagen) for 72h

value: 72h post transfection with hsa-miR-34a


title: TS543_72h_Control_rep2

description: standard as recommended by illumina


title: TS543_72h_Control_rep1

description: standard as recommended by illumina


title: ACC Xenograft MAD04-385

description:
08-34_MAD04-385
Gene expression data from human adenoid cystic carcinoma xenograft.


title: ACC Xenograft X2

description:
08-34_ACCX2
Gene expression data from human adenoid cystic carcinoma xenograft.


title: ACC Xenograft X6

description:
08-34_ACCX6
Gene expression data from human adenoid cystic carcinoma xenograft.


title: ACC Xenograft X5

description:
08-34_ACCX5
Gene expression data from human adenoid cystic carcinoma xenograft.


title: ACC Xenograft X16

description:
08-34_ACCX16
Gene expression data from human adenoid cystic carcinoma xenograft.

value: lung bronchus


title: TS543_72h_miR34a_rep3

description: standard as recommended by illumina


title: TS543_72h_miR34a_rep1

description: standard as recommended by illumina


title: ACC Xenograft X12

description:
08-34_ACCX12
Gene expression data from human adenoid cystic carcinoma xenograft.

value: trachea


title: ACC Xenograft X11

description:
08-34_ACCX11
Gene expression data from human adenoid cystic carcinoma xenograft.

value: maxilla


title: Blood, subject 9973279, hours since injury 162.6

city: Boston

first: Wenzhong Xiao

state: MA

address: 55 Fruit Street, GRV 1302

department: Department of Surgery

institute: Massachusetts General Hospital

hyb_protocol: Following fragmentation, 10 ug of cRNA was hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station FS 4500, and used the standard solutions recommended by Affymetrix

scan_protocol: GeneChips were scanned using the Affymetrix Scanner G3000

data_processing: Affymetrix Power Tools version 1.8.6 RMA model

source_name: Subject 9973279, hours since injury 162.6

label_protocol: Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 2 ug RNA (Expression Analysis Technical Manual rev 3, 2002, Affymetrix)

extract_protocol: Total RNA was purified using the Rneasy RNA Isolation kit standard protocol (Qiagen, Valencia, CA)

treatment_protocol: White blood cells were separated using a modified buffy coat isolation and red blood cell lysis method. This protocol recovers the plasma fraction, lyses RBCs, and allows recovery of the white blood cell fraction, eliminating the need to recover the buffy coat interfacial layer.

value: White Blood Cells

tag: Sex

value: F


title: ACC Xenograft X1

description:
08-34_ACCX1
Gene expression data from human adenoid cystic carcinoma xenograft

value: nasal cavity


title: Blood, subject 9754329, hours since injury 83.6

source_name: Subject 9754329, hours since injury 83.6


title: Blood, subject 9209587, hours since injury 93.3

source_name: Subject 9209587, hours since injury 93.3


title: Blood, subject 9754329, hours since injury 16.1

source_name: Subject 9754329, hours since injury 16.1


title: Blood, subject 9973279, hours since injury 88.9

source_name: Subject 9973279, hours since injury 88.9


title: Blood, subject 9973279, hours since injury 5.4

source_name: Subject 9973279, hours since injury 5.4


title: Blood, subject 9257165, hours since injury 22.2

source_name: Subject 9257165, hours since injury 22.2

value: M


title: Blood, subject 9619702, hours since injury 1.6

source_name: Subject 9619702, hours since injury 1.6


title: Blood, subject 9754329, hours since injury 131.8

source_name: Subject 9754329, hours since injury 131.8


title: Blood, subject 9619702, hours since injury 169.9

source_name: Subject 9619702, hours since injury 169.9


title: Blood, subject 9619702, hours since injury 23.8

source_name: Subject 9619702, hours since injury 23.8


title: Blood, subject 9257165, hours since injury 505

source_name: Subject 9257165, hours since injury 505


title: Blood, subject 9209587, hours since injury 28.2

source_name: Subject 9209587, hours since injury 28.2


title: Blood, subject 9257165, hours since injury 332

source_name: Subject 9257165, hours since injury 332


title: Blood, subject 9257165, hours since injury 190.1

source_name: Subject 9257165, hours since injury 190.1


title: Blood, subject 9257165, hours since injury 3.5

source_name: Subject 9257165, hours since injury 3.5


title: Blood, subject 9973279, hours since injury 22.7

source_name: Subject 9973279, hours since injury 22.7


title: Blood, subject 9257165, hours since injury 91.4

source_name: Subject 9257165, hours since injury 91.4


title: Blood, subject 8815978, hours since injury 37.5

source_name: Subject 8815978, hours since injury 37.5


title: Blood, subject 8873662, hours since injury 35.5

source_name: Subject 8873662, hours since injury 35.5


title: Blood, subject 9619702, hours since injury 93.9

source_name: Subject 9619702, hours since injury 93.9


title: Blood, subject 9209587, hours since injury 8.6

source_name: Subject 9209587, hours since injury 8.6


title: Blood, subject 9619702, hours since injury 339.8

source_name: Subject 9619702, hours since injury 339.8


title: Blood, subject 9754329, hours since injury 3.3

source_name: Subject 9754329, hours since injury 3.3


title: Blood, subject 8815978, hours since injury 113.3

source_name: Subject 8815978, hours since injury 113.3


title: Blood, subject 8815978, hours since injury 12.1

source_name: Subject 8815978, hours since injury 12.1


title: Blood, subject 8815978, hours since injury 182.9

source_name: Subject 8815978, hours since injury 182.9


title: Blood, subject 8873662, hours since injury 3.7

source_name: Subject 8873662, hours since injury 3.7


title: Blood, subject 8873662, hours since injury 107.4

source_name: Subject 8873662, hours since injury 107.4


title: Blood, subject 8508630, hours since injury 38.8

source_name: Subject 8508630, hours since injury 38.8


title: Blood, subject 8508630, hours since injury 509

source_name: Subject 8508630, hours since injury 509


title: Blood, subject 8508630, hours since injury 366.7

source_name: Subject 8508630, hours since injury 366.7


title: Blood, subject 8815978, hours since injury 345.4

source_name: Subject 8815978, hours since injury 345.4


title: Blood, subject 8348080, hours since injury 687.8

source_name: Subject 8348080, hours since injury 687.8


title: Blood, subject 8508630, hours since injury 139.5

source_name: Subject 8508630, hours since injury 139.5


title: Blood, subject 8508630, hours since injury 166.1

source_name: Subject 8508630, hours since injury 166.1


title: Blood, subject 845580, hours since injury 36.1

source_name: Subject 845580, hours since injury 36.1


title: Blood, subject 845580, hours since injury 199

source_name: Subject 845580, hours since injury 199


title: Blood, subject 8508630, hours since injury 6.8

source_name: Subject 8508630, hours since injury 6.8


title: Blood, subject 8390161, hours since injury 100.3

source_name: Subject 8390161, hours since injury 100.3


title: Blood, subject 8390161, hours since injury 170.5

source_name: Subject 8390161, hours since injury 170.5


title: Blood, subject 8390161, hours since injury 4.8

source_name: Subject 8390161, hours since injury 4.8


title: Blood, subject 845580, hours since injury 102.4

source_name: Subject 845580, hours since injury 102.4


title: Blood, subject 8348080, hours since injury 520.4

source_name: Subject 8348080, hours since injury 520.4


title: Blood, subject 8390161, hours since injury 27.2

source_name: Subject 8390161, hours since injury 27.2


title: Blood, subject 8348080, hours since injury 351.2

source_name: Subject 8348080, hours since injury 351.2


title: Blood, subject 845580, hours since injury 6.9

source_name: Subject 845580, hours since injury 6.9


title: Blood, subject 8348080, hours since injury 112.2

source_name: Subject 8348080, hours since injury 112.2


title: Blood, subject 8028773, hours since injury 32

source_name: Subject 8028773, hours since injury 32


title: Blood, subject 8348080, hours since injury 48.1

source_name: Subject 8348080, hours since injury 48.1


title: Blood, subject 8348080, hours since injury 11.9

source_name: Subject 8348080, hours since injury 11.9


title: Blood, subject 8348080, hours since injury 188.7

source_name: Subject 8348080, hours since injury 188.7


title: Blood, subject 8028773, hours since injury 8.3

source_name: Subject 8028773, hours since injury 8.3


title: Blood, subject 7938695, hours since injury 95.8

source_name: Subject 7938695, hours since injury 95.8


title: Blood, subject 7938695, hours since injury 20.8

source_name: Subject 7938695, hours since injury 20.8


title: Blood, subject 8028773, hours since injury 171.3

source_name: Subject 8028773, hours since injury 171.3


title: Blood, subject 8028773, hours since injury 124.3

source_name: Subject 8028773, hours since injury 124.3


title: Blood, subject 7894880, hours since injury 660

source_name: Subject 7894880, hours since injury 660


title: Blood, subject 7938695, hours since injury 187.3

source_name: Subject 7938695, hours since injury 187.3


title: Blood, subject 7894880, hours since injury 59.3

source_name: Subject 7894880, hours since injury 59.3


title: Blood, subject 7894880, hours since injury 564

source_name: Subject 7894880, hours since injury 564


title: Blood, subject 7894880, hours since injury 396.3

source_name: Subject 7894880, hours since injury 396.3


title: Blood, subject 7799156, hours since injury 701.2

source_name: Subject 7799156, hours since injury 701.2


title: Blood, subject 7894880, hours since injury 108.2

source_name: Subject 7894880, hours since injury 108.2


title: Blood, subject 7938695, hours since injury 8.8

source_name: Subject 7938695, hours since injury 8.8


title: Blood, subject 7342303, hours since injury 87.6

source_name: Subject 7342303, hours since injury 87.6


title: Blood, subject 7799156, hours since injury 365.7

source_name: Subject 7799156, hours since injury 365.7


title: Blood, subject 7894880, hours since injury 228.4

source_name: Subject 7894880, hours since injury 228.4


title: Blood, subject 7799156, hours since injury 29.3

source_name: Subject 7799156, hours since injury 29.3


title: Blood, subject 720789, hours since injury 33

source_name: Subject 720789, hours since injury 33


title: Blood, subject 720789, hours since injury 9.4

source_name: Subject 720789, hours since injury 9.4


title: Blood, subject 7894880, hours since injury 12.9

source_name: Subject 7894880, hours since injury 12.9


title: Blood, subject 7342303, hours since injury 7.1

source_name: Subject 7342303, hours since injury 7.1


title: Blood, subject 7799156, hours since injury 101.5

source_name: Subject 7799156, hours since injury 101.5


title: Blood, subject 7332335, hours since injury 24

source_name: Subject 7332335, hours since injury 24


title: Blood, subject 7799156, hours since injury 196.9

source_name: Subject 7799156, hours since injury 196.9


title: Blood, subject 7799156, hours since injury 533.3

source_name: Subject 7799156, hours since injury 533.3


title: Blood, subject 7799156, hours since injury 12.4

source_name: Subject 7799156, hours since injury 12.4


title: Blood, subject 7342303, hours since injury 18.8

source_name: Subject 7342303, hours since injury 18.8


title: Blood, subject 7332335, hours since injury 3.5

source_name: Subject 7332335, hours since injury 3.5


title: Blood, subject 720789, hours since injury 105.7

source_name: Subject 720789, hours since injury 105.7


title: Blood, subject 7191554, hours since injury 162.7

source_name: Subject 7191554, hours since injury 162.7


title: Blood, subject 6738186, hours since injury 12

source_name: Subject 6738186, hours since injury 12


title: Blood, subject 6706622, hours since injury 555.8

source_name: Subject 6706622, hours since injury 555.8


title: Blood, subject 7191554, hours since injury 18.5

source_name: Subject 7191554, hours since injury 18.5


title: Blood, subject 720789, hours since injury 178.9

source_name: Subject 720789, hours since injury 178.9


title: Blood, subject 6738186, hours since injury 40.6

source_name: Subject 6738186, hours since injury 40.6


title: Blood, subject 7191554, hours since injury 88.8

source_name: Subject 7191554, hours since injury 88.8


title: Blood, subject 6706622, hours since injury 193

source_name: Subject 6706622, hours since injury 193


title: Blood, subject 7191554, hours since injury 1.7

source_name: Subject 7191554, hours since injury 1.7


title: Blood, subject 6706622, hours since injury 6.8

source_name: Subject 6706622, hours since injury 6.8


title: Blood, subject 6738186, hours since injury 185.8

source_name: Subject 6738186, hours since injury 185.8


title: Blood, subject 6706622, hours since injury 696

source_name: Subject 6706622, hours since injury 696


title: Blood, subject 6706622, hours since injury 363.6

source_name: Subject 6706622, hours since injury 363.6


title: Blood, subject 7332335, hours since injury 168.1

source_name: Subject 7332335, hours since injury 168.1


title: Blood, subject 6738186, hours since injury 132

source_name: Subject 6738186, hours since injury 132


title: Blood, subject 6706622, hours since injury 123.3

source_name: Subject 6706622, hours since injury 123.3


title: Blood, subject 623320, hours since injury 29.6

source_name: Subject 623320, hours since injury 29.6


title: Blood, subject 6221614, hours since injury 347.3

source_name: Subject 6221614, hours since injury 347.3


title: Blood, subject 623320, hours since injury 344.5

source_name: Subject 623320, hours since injury 344.5


title: Blood, subject 623320, hours since injury 173.7

source_name: Subject 623320, hours since injury 173.7


title: Blood, subject 5648131, hours since injury 335.6

source_name: Subject 5648131, hours since injury 335.6


title: Blood, subject 5648131, hours since injury 95.2

source_name: Subject 5648131, hours since injury 95.2


title: Blood, subject 5648131, hours since injury 168.7

source_name: Subject 5648131, hours since injury 168.7


title: Blood, subject 6221614, hours since injury 180.5

source_name: Subject 6221614, hours since injury 180.5


title: Blood, subject 5211601, hours since injury 511.5

source_name: Subject 5211601, hours since injury 511.5


title: Blood, subject 5225241, hours since injury 331.3

source_name: Subject 5225241, hours since injury 331.3


title: Blood, subject 5225241, hours since injury 35.7

source_name: Subject 5225241, hours since injury 35.7


title: Blood, subject 623320, hours since injury 78.8

source_name: Subject 623320, hours since injury 78.8


title: Blood, subject 5648131, hours since injury 28

source_name: Subject 5648131, hours since injury 28


title: Blood, subject 623320, hours since injury 5.7

source_name: Subject 623320, hours since injury 5.7


title: Blood, subject 6706622, hours since injury 29.3

source_name: Subject 6706622, hours since injury 29.3


title: Blood, subject 5225241, hours since injury 89.9

source_name: Subject 5225241, hours since injury 89.9


title: Blood, subject 5225241, hours since injury 498.3

source_name: Subject 5225241, hours since injury 498.3


title: Blood, subject 5211601, hours since injury 175.5

source_name: Subject 5211601, hours since injury 175.5


title: Blood, subject 5648131, hours since injury 2

source_name: Subject 5648131, hours since injury 2


title: Blood, subject 5211601, hours since injury 103.1

source_name: Subject 5211601, hours since injury 103.1


title: Blood, subject 6221614, hours since injury 11.4

source_name: Subject 6221614, hours since injury 11.4


title: Blood, subject 5225241, hours since injury 11.3

source_name: Subject 5225241, hours since injury 11.3


title: Blood, subject 5211601, hours since injury 31.1

source_name: Subject 5211601, hours since injury 31.1


title: Blood, subject 501088, hours since injury 351.3

source_name: Subject 501088, hours since injury 351.3


title: Blood, subject 5225241, hours since injury 161.4

source_name: Subject 5225241, hours since injury 161.4


title: Blood, subject 6221614, hours since injury 131.6

source_name: Subject 6221614, hours since injury 131.6


title: Blood, subject 501088, hours since injury 34.5

source_name: Subject 501088, hours since injury 34.5


title: Blood, subject 501088, hours since injury 514.7

source_name: Subject 501088, hours since injury 514.7


title: Blood, subject 5211601, hours since injury 7.9

source_name: Subject 5211601, hours since injury 7.9


title: Blood, subject 501088, hours since injury 272.8

source_name: Subject 501088, hours since injury 272.8


title: Blood, subject 501088, hours since injury 8.9

source_name: Subject 501088, hours since injury 8.9


title: Blood, subject 4501723, hours since injury 86.7

source_name: Subject 4501723, hours since injury 86.7


title: Blood, subject 4308733, hours since injury 477.3

source_name: Subject 4308733, hours since injury 477.3


title: Blood, subject 4501723, hours since injury 16.3

source_name: Subject 4501723, hours since injury 16.3


title: Blood, subject 4246869, hours since injury 171.9

source_name: Subject 4246869, hours since injury 171.9


title: Blood, subject 4308733, hours since injury 116.5

source_name: Subject 4308733, hours since injury 116.5


title: Blood, subject 4246869, hours since injury 339

source_name: Subject 4246869, hours since injury 339


title: Blood, subject 4246869, hours since injury 5.1

source_name: Subject 4246869, hours since injury 5.1


title: Blood, subject 4308733, hours since injury 646

source_name: Subject 4308733, hours since injury 646


title: Blood, subject 4308733, hours since injury 310.6

source_name: Subject 4308733, hours since injury 310.6


title: Blood, subject 4246869, hours since injury 508.3

source_name: Subject 4246869, hours since injury 508.3


title: Blood, subject 4246869, hours since injury 26.7

source_name: Subject 4246869, hours since injury 26.7


title: Blood, subject 4246869, hours since injury 74.6

source_name: Subject 4246869, hours since injury 74.6


title: Blood, subject 501088, hours since injury 104.4

source_name: Subject 501088, hours since injury 104.4


title: Blood, subject 4501723, hours since injury 5.5

source_name: Subject 4501723, hours since injury 5.5


title: Blood, subject 4199255, hours since injury 694.6

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title: Blood, subject 4239521, hours since injury 6.5

source_name: Subject 4239521, hours since injury 6.5


title: Blood, subject 4501723, hours since injury 182.1

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source_name: Subject 4199255, hours since injury 6.3


title: Blood, subject 4199255, hours since injury 358.3

source_name: Subject 4199255, hours since injury 358.3


title: Blood, subject 4308733, hours since injury 141.1

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title: Blood, subject 4199255, hours since injury 96.4

source_name: Subject 4199255, hours since injury 96.4


title: Blood, subject 4246869, hours since injury 675

source_name: Subject 4246869, hours since injury 675


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title: Blood, subject 4308733, hours since injury 3.5

source_name: Subject 4308733, hours since injury 3.5


title: Blood, subject 4199255, hours since injury 192.4

source_name: Subject 4199255, hours since injury 192.4


title: Blood, subject 4199255, hours since injury 528.9

source_name: Subject 4199255, hours since injury 528.9


title: Blood, subject 3827225, hours since injury 95.8

source_name: Subject 3827225, hours since injury 95.8


title: Blood, subject 4199255, hours since injury 23.1

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title: Blood, subject 3827225, hours since injury 5.9

source_name: Subject 3827225, hours since injury 5.9


title: Blood, subject 3827225, hours since injury 27.6

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title: Blood, subject 37134, hours since injury 35.1

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title: Blood, subject 3795267, hours since injury 37.5

source_name: Subject 3795267, hours since injury 37.5


title: Blood, subject 37134, hours since injury 659.2

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title: Blood, subject 37134, hours since injury 83.5

source_name: Subject 37134, hours since injury 83.5


title: Blood, subject 3795267, hours since injury 11.6

source_name: Subject 3795267, hours since injury 11.6


title: Blood, subject 37134, hours since injury 515.8

source_name: Subject 37134, hours since injury 515.8


title: Blood, subject 3513825, hours since injury 340.4

source_name: Subject 3513825, hours since injury 340.4


title: Blood, subject 37134, hours since injury 179.3

source_name: Subject 37134, hours since injury 179.3


title: Blood, subject 3513825, hours since injury 172.3

source_name: Subject 3513825, hours since injury 172.3


title: Blood, subject 37134, hours since injury 347.2

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title: Blood, subject 3513825, hours since injury 28.5

source_name: Subject 3513825, hours since injury 28.5


title: Blood, subject 34797417, hours since injury 168.6

source_name: Subject 34797417, hours since injury 168.6


title: Blood, subject 34797417, hours since injury 27

source_name: Subject 34797417, hours since injury 27


title: Blood, subject 34797417, hours since injury 3.7

source_name: Subject 34797417, hours since injury 3.7


title: Blood, subject 34912227, hours since injury 105.8

source_name: Subject 34912227, hours since injury 105.8


title: Blood, subject 34629304, hours since injury 25.7

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title: Blood, subject 34912227, hours since injury 9.6

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title: Blood, subject 3513825, hours since injury 100.2

source_name: Subject 3513825, hours since injury 100.2


title: Blood, subject 3458476, hours since injury 91.5

source_name: Subject 3458476, hours since injury 91.5


title: Blood, subject 34629304, hours since injury 4.3

source_name: Subject 34629304, hours since injury 4.3


title: Blood, subject 3513825, hours since injury 9.1

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title: Blood, subject 34797417, hours since injury 126

source_name: Subject 34797417, hours since injury 126


title: Blood, subject 34912227, hours since injury 32.9

source_name: Subject 34912227, hours since injury 32.9


title: Blood, subject 34912227, hours since injury 202

source_name: Subject 34912227, hours since injury 202


title: Blood, subject 34912227, hours since injury 345.6

source_name: Subject 34912227, hours since injury 345.6


title: Blood, subject 37134, hours since injury 11.3

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title: Blood, subject 3458476, hours since injury 161.3

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title: Blood, subject 34466944, hours since injury 9.4

source_name: Subject 34466944, hours since injury 9.4


title: Blood, subject 3458476, hours since injury 6.8

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title: Blood, subject 3458476, hours since injury 19.3

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title: Blood, subject 34466944, hours since injury 72.9

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title: Blood, subject 34466944, hours since injury 25.4

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title: Blood, subject 34466944, hours since injury 334.5

source_name: Subject 34466944, hours since injury 334.5


title: Blood, subject 34466944, hours since injury 505.8

source_name: Subject 34466944, hours since injury 505.8


title: Blood, subject 34466944, hours since injury 169.8

source_name: Subject 34466944, hours since injury 169.8


title: Blood, subject 34043374, hours since injury 38.4

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title: Blood, subject 34043374, hours since injury 11.7

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title: Blood, subject 33748654, hours since injury 41.6

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title: Blood, subject 33748654, hours since injury 12

source_name: Subject 33748654, hours since injury 12


title: Blood, subject 33580296, hours since injury 79.3

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title: Blood, subject 33580296, hours since injury 31.6

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title: Blood, subject 33522750, hours since injury 19.3

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title: Blood, subject 33019888, hours since injury 24.4

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title: Blood, subject 32597812, hours since injury 33.5

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title: Blood, subject 33019888, hours since injury 1.3

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title: Blood, subject 32582723, hours since injury 675

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title: Blood, subject 33522750, hours since injury 163.1

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title: Blood, subject 32582723, hours since injury 508

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title: Blood, subject 33019888, hours since injury 168.3

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title: Blood, subject 33522750, hours since injury 2.6

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title: Blood, subject 33019888, hours since injury 95.7

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title: Blood, subject 32597812, hours since injury 8

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title: Blood, subject 32597812, hours since injury 176.8

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title: Blood, subject 32582723, hours since injury 315.8

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title: Blood, subject 33426107, hours since injury 116.8

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title: Blood, subject 32597812, hours since injury 369.1

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title: Blood, subject 33522750, hours since injury 94.2

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title: Blood, subject 32597812, hours since injury 107.2

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title: Blood, subject 32582723, hours since injury 4.7

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title: Blood, subject 33426107, hours since injury 12.1

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title: Blood, subject 32582723, hours since injury 102.1

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title: Blood, subject 33426107, hours since injury 43.8

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title: Blood, subject 32475245, hours since injury 43.2

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title: Blood, subject 32475245, hours since injury 12.5

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title: Blood, subject 32475245, hours since injury 148.2

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title: Blood, subject 32406125, hours since injury 184.7

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title: Blood, subject 32402266, hours since injury 487.8

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title: Blood, subject 32475245, hours since injury 99.8

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title: Blood, subject 32406125, hours since injury 115.3

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title: Blood, subject 32402266, hours since injury 106.3

source_name: Subject 32402266, hours since injury 106.3


title: Blood, subject 32402266, hours since injury 33.1

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title: Blood, subject 32171289, hours since injury 303.4

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title: Blood, subject 32329957, hours since injury 16.7

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title: Blood, subject 32171289, hours since injury 134.8

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title: Blood, subject 31720865, hours since injury 301.7

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title: Blood, subject 31549646, hours since injury 338.5

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title: Blood, subject 32171289, hours since injury 6

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title: Blood, subject 31720865, hours since injury 164.4

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title: Blood, subject 31720865, hours since injury 17.4

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title: Blood, subject 32582723, hours since injury 171.8

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title: Blood, subject 32402266, hours since injury 319.3

source_name: Subject 32402266, hours since injury 319.3


title: Blood, subject 31720865, hours since injury 84.3

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title: Blood, subject 32402266, hours since injury 655

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title: Blood, subject 32171289, hours since injury 26.9

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title: Blood, subject 31549646, hours since injury 122.1

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