title: 80k,  patient 55, HCC tissues


title: 1360, Kpatient 71, HCC tissues

status: Public on Dec 31 2008

type: RNA

city: Shanghai

first: JIANREN

last: GU

address: No.25/Ln.2200, Xietu Road,

department: State Key Laboratory of Oncogenes and Related Genes

country: China

institute: Shanghai Cancer Institute, Shanghai Jiao Tong University

description: MicroRNAs expression profile in human hepatocellular carcinoma

hyb_protocol: Labeled RNA was precipitated with 0.3 M sodium acetate and 2.5 volumes ethanol, then resuspended in 15 μl of hybridization buffer containing 3×SSC, 0.2% SDS and 15% formamide. All hybridizations were performed in duplicate.The hybridization was performed at 42°C overnight and then washed with two consecutive washing solutions (0.2% SDS, 2×SSC at 42°C for 5 min, and 0.2% SSC for 5 min at room temperature).

scan_protocol: Images were scanned with a confocal LuxScanTM scanner and quantified with LuxScan TM software (CapitalBio Corp, Beijing, China).

data_processing: Raw data preprocessing included: local background subtraction, quantile normalization across multiple slides,14 the natural log transformation of expression levels, average of within-slide replicates and technical across-slide replicates. This was performed in R package (version 2.5.0).

molecule: total RNA

organism: Homo sapiens

source_name: primary liver cancer

label_protocol: Four μg of low molecular weight RNA was labeled with 500 ng 5'-phosphate-cytidyl- uridyl-cy3-3' (Dharmacon, Chicago, IL) with 2 units T4 RNA ligase (NEB, Ipswich, MD), and 4 μg of the negative control was added to each miRNA sample. The labeling reaction was performed at 4 for 2 h.

extract_protocol: Small RNA with a miRNA-rich fraction was prepared from tissue samples using miRNA Isolation Kit (Ambion, Austin, TX) according to the manufacturer’s instructions.

tag: Survival Period

value: more than 53

tag: Pathological stage

value: HCC-II

tag: Metastasis

value: no

tag: HBV infection

value: yes

tag: Alcohol abuse


title: 51K, patient 49, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270370/suppl/GSM270370_060718 HK51K cy3 108-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270370/suppl/GSM270370_060718 HK51K cy3 108-2.gpr.gz

tag: Survival Period:13.5

value: HCC


title: 41K, patient 46, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270367/suppl/GSM270367_060630 41K cy3 051-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270367/suppl/GSM270367_060630 41K cy3 051-2.gpr.gz

value: more than 48

tag: Cirrhosis


title: 71K, patient 54, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270375/suppl/GSM270375_060719 HK71K cy3 088-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270375/suppl/GSM270375_060719 HK71K cy3 088-2.gpr.gz


title: 54K, patient 50, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270371/suppl/GSM270371_060718 HK54K cy3 110-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270371/suppl/GSM270371_060718 HK54K cy3 110-2.gpr.gz

value: HCC II-III


title: 56K, patient 51, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270372/suppl/GSM270372_060718 HK56K cy3 099-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270372/suppl/GSM270372_060718 HK56K cy3 099-2.gpr.gz


title: 39K, patient 45, HCC tissues

value: more than 45


title: 9K, patient 57, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270378/suppl/GSM270378_060406 9K cy3 009-2.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270378/suppl/GSM270378_060407 9K cy3 071-2.gpr.gz


title: 60K, patient 52, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270373/suppl/GSM270373_060718 HK60K cy3 105-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270373/suppl/GSM270373_060718 HK60K cy3 105-2.gpr.gz


title: 347K, patient 42, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270363/suppl/GSM270363_060310 347K Cy3 207-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270363/suppl/GSM270363_060310 347K Cy3 207-2.gpr.gz

value: more than 20

value: HCC-III


title: 345K, patient 40, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270361/suppl/GSM270361_060704 345K Cy3 048-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270361/suppl/GSM270361_060704 345K Cy3 048-2.gpr.gz


title: 35K, patient 43, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270364/suppl/GSM270364_061115 35K CY3 1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270364/suppl/GSM270364_061115 35K CY3 2.gpr.gz


title: 346K, patient 41, HCC tissues


title: 43K, patient 48, HCC tissues

tag: Survival Period:9


title: 341K, patient 37, HCC tissues


title: 340K, patient 36, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270357/suppl/GSM270357_060308 340K Cy3 199-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270357/suppl/GSM270357_060308 340K Cy3 199-2.gpr.gz


title: 343K, patient 38, HCC tissues


title: 339K, patient 35, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270356/suppl/GSM270356_060307 339K Cy3 190-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270356/suppl/GSM270356_060307 339K Cy3 190-2.gpr.gz

tag: AGE

value: more than 23


title: 42K, patient 47, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270368/suppl/GSM270368_060629 42K cy3 065-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270368/suppl/GSM270368_060629 42K cy3 065-2.gpr.gz

value: more than 49


title: 338K, patient 34, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270355/suppl/GSM270355_060307 338K Cy3 183-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270355/suppl/GSM270355_060307 338K Cy3 183-2.gpr.gz


title: 318K, patient 27, HCC tissues


title: 38K, patient 44, HCC tissues


title: 315K, patient 24, HCC tissues


title: 313K, patient 22, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270343/suppl/GSM270343_060120 313K cy3 7015-2 95 950-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270343/suppl/GSM270343_060120 313Kcy3 7015-2 95 950-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270343/suppl/GSM270343_060123 313K 7001-2 cy3 75 700.gpr.gz


title: 323K, patient 30, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270351/suppl/GSM270351_060301 323K Cy3 166-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270351/suppl/GSM270351_060301 323K Cy3 166-2.gpr.gz

value: more than 26


title: 17K, patient 19, HCC tissues

tag: Survival Period:17.5


title: 157K, patient 18, HCC tissues


title: 26K, patient 21, HCC tissues


title: 154K, patient 15, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270336/suppl/GSM270336_060921 154K CY3 OP-3042-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270336/suppl/GSM270336_060921 154K CY3 OP-3042-2.gpr.gz

tag: Survival Period:2.5


title: 155K, patient 16, HCC tissues


title: 31K, patient 28, HCC tissues


title: 152K , patient 13, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270334/suppl/GSM270334_060920 152K CY3 OP-9071-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270334/suppl/GSM270334_060920 152K CY3 OP-9071-2.gpr.gz


title: 153K, patient 14, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270335/suppl/GSM270335_060921 153K CY3 OP-3039-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270335/suppl/GSM270335_060921 153K CY3 OP-3039-2.gpr.gz


title: 337K, patient 33, HCC tissues


title: 344K, patient 39, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270360/suppl/GSM270360_060310 344k Cy3 204-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270360/suppl/GSM270360_060310 344k Cy3 204-2.gpr.gz


title: 32K, patient 31, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270352/suppl/GSM270352_060629 32K cy3 055-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270352/suppl/GSM270352_060629 32K cy3 055-2.gpr.gz


title: 137K, patient 10, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270331/suppl/GSM270331_060901 137K CY3 063-2.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270331/suppl/GSM270331_060901 137K CY3 064-2.gpr.gz


title: 136K, patient 9, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270330/suppl/GSM270330_061114 136K CY3 1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270330/suppl/GSM270330_061114 136K CY3 2.gpr.gz

value: more than54


title: 18K, patient 20, HCC tissues


title: 314K, patient 23, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270344/suppl/GSM270344_060120 314K cy3 7013-2 95 950-2.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270344/suppl/GSM270344_060123 314K 7006-2 cy3 75 700.gpr.gz

value: more than 30


title: 134K, patient 7, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270328/suppl/GSM270328_060922 134K CY3 OP-9109-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270328/suppl/GSM270328_060922 134K CY3 OP-9109-2.gpr.gz

tag: SEX

value: male


title: 135K, patient 8, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270329/suppl/GSM270329_060922 135K CY3 OP-9119-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270329/suppl/GSM270329_060922 135K CY3 OP-9119-2.gpr.gz


title: 317K, patient 26, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270347/suppl/GSM270347_061115 317K CY3 1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270347/suppl/GSM270347_061115 317K CY3 2.gpr.gz


title: 336K, patient 32, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270353/suppl/GSM270353_060301 336K Cy3 173-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270353/suppl/GSM270353_060301 336K Cy3 173-2.gpr.gz


title: 321K, patient 29, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270350/suppl/GSM270350_060704 321K Cy3 016-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270350/suppl/GSM270350_060704 321K Cy3 016-2.gpr.gz

value: more than 27


title: 131K,  patient4 , HCC tissues

value: more than 57


title: 316K, patient 25, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270346/suppl/GSM270346_060120 316K cy3 7196-2 95 950.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270346/suppl/GSM270346_060123 316K 7044-2 cy3 75 700.gpr.gz


title: 14K, patient 12, HCC tissues

value: HCC-II


title: 133K,patient 6 , HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270327/suppl/GSM270327_060907 133K CY3 7083-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270327/suppl/GSM270327_060907 133K CY3 7083-2.gpr.gz

value: more than 56


title: 138K, patient 11, HCC tissues

value: no

value: yes


title: 156K, patient 17, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270338/suppl/GSM270338_060920 156K CY3 OP-9112-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270338/suppl/GSM270338_060920 156K CY3 OP-9112-2.gpr.gz


title: 127K, patient 1, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270322/suppl/GSM270322_060914 127K CY3  OP-3048-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270322/suppl/GSM270322_060914 127K CY3  OP-3048-2.gpr.gz


title: 130K, patient 3, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270324/suppl/GSM270324_060915 130K CY3 op-3037-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270324/suppl/GSM270324_060915 130K CY3 op-3037-2.gpr.gz


title: 132K,patient 5, HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270326/suppl/GSM270326_061109 132K CY3 1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270326/suppl/GSM270326_061109 132K CY3 2.gpr.gz

value: more than 58


title: 128K, patient2 , HCC tissues

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270323/suppl/GSM270323_060919 128K CY3 OP-4034-1.gpr.gz

supplemental_files: ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270323/suppl/GSM270323_060919 128K CY3 OP-4034-2.gpr.gz


title: Mutant Histone H3 K4,9,14,18,23,27,36,79G replicate 2

city: Pullman

first: John

middle: J.

last: Wyrick

state: WA

address: Biotechnology Life Sciences 241

department: School of Molecular Biosciences

country: USA

institute: Washington State University

description: Mutant yeast strain Histone H3 K4,9,14,18,23,27,36,79G

hyb_protocol: standard Affymetrix procedures

scan_protocol: standard Affymetrix procedures

data_processing: Affymetrix Microarray Suite version 5.0.

label: biotin

organism: Saccharomyces cerevisiae

source_name: Yeast RNA

label_protocol: Approximately 20 µg of total RNA was processed to produce biotinylated cRNA targets.

extract_protocol: Cells were grown in YPD media until mid-log phase. Cells were harvested at OD600 of 0.5-0.7. Cells were lysed and RNA was extracted by hot acid phenol chloroform and phenol chloroform isoamyl alcohol extraction.


title: Wild-type for H3 K4,36,79G and H3 K4,9,14,18,23,27,36,79G replicate 1

description: Wild-type yeast strain

tag: WY139 (wild-type Histone H3)


title: Wild-type for H3 K4,36,79G and H3 K4,9,14,18,23,27,36,79G replicate 2

description: Wild-type yeast strain


title: Mutant Histone H3 K4,9,14,18,23,27,36,79G replicate 1


title: AtresieMG_41_2271_PFA2

city: Castanet-Tolosan Cedex

first: Agnes

last: Bonnet

address: Chemin de Borde-Rouge  BP 52627

country: France

institute: INRA

description: Small follicle, advanced atresia  RNA internal number 2271  Nylon membrane number 41

hyb_protocol: exposition time of the membrane: 19h

scan_protocol: The imaging plates were scanned thereafter with a phosphor imaging system at a 25 µm resolution (BAS-5000, Fujifilm, Raytest France S.A.R.L., Courbevoie, France).

data_processing:
The images were quantified using Bzscan software and the data were managed with BASE software. Statistical analysis was performed using R software.
Data were acquired with help of a microarray image processing software - AGScan (Cathelin, 2006, http://mulcyber.toulouse.inra.fr/projects/agscan/). Fixed circle segmentation, i.e. a grid process with a fixed spot diameter was applied. The hybridization images were quantified by the extraction of the intensity for each spot. Arrays images and data were stored using BASE software (Saal LH, Troein C, Vallon-Christersson J, Gruvberger S, Borg A, and Peterson C. BioArray Software Environment (BASE): a platform for comprehensive management and analysis of microarray data. Genome Biol 3: SOFTWARE0003, 2002) adapted by Sigenae (http://www.sigenae.org) for analysis and storage of radioactitive microarray data

organism: Sus scrofa

source_name: PF - Small Follicles  A2 - follicular status corresponding beginning atresia

tag: annotation PF/MF/GF

value: PF


title: Mutant Histone H3 K4,36,79G replicate 2

description: Mutant yeast strain Histone H3 K4,36,79G

tag: AMY018 (mutant Histone H3 K4,36,79G)


title: AtresieMG_48_2264_GFA3

description: Large follicle, advanced atresia  RNA internal number 2264  Nylon membrane number 48

source_name: GF - Large Follicles  A3 - follicular status corresponding advanced atresia

value: GF


title: Mutant Histone H3 K4,36,79G replicate 1


title: AtresieMG_55_2267_GFA2

description: Large follicle, beginning atresia  RNA internal number 2267  Nylon membrane number 55

source_name: GF - Large Follicles  A2 - follicular status corresponding beginning atresia


title: AtresieMG_40_2253_GFS1

description: Healthy large follicle  RNA internal number 2253  Nylon membrane number 40

source_name: GF - Large Follicles  S1 - follicular status corresponding healthy follicle


title: AtresieMG_27_2196_GFS1

description: Healthy large follicle  RNA internal number 2196  Nylon membrane number 27


title: AtresieMG_36_2269_PFA3

description: Small follicle, advanced atresia  RNA internal number 2269  Nylon membrane number 36

source_name: PF - Small Follicles   A3 - follicular status corresponding advanced atresia


title: AtresieMG_51_2272_PFA2

description: Small follicle, beginning atresia  RNA internal number 2272  Nylon membrane number 51


title: AtresieMG_50_2244_MFS1

description: Healthy medium follicle  RNA internal number 2244  Nylon membrane number 50

source_name: MF - Medium Follicles  S1 - follicular status corresponding healthy follicle

value: MF


title: AtresieMG_38_2240_GFS1

description: Healthy large follicle  RNA internal number 2240  Nylon membrane number 38


title: AtresieMG_44_2177_MFS1

description: Healthy medium follicle  RNA internal number 2177  Nylon membrane number 44

tag: MF

tag: PF MF GF animaux

value: MF 6

tag: annotation animal

tag: annotation animal PF MF GF

value: 6 MF


title: AtresieMG_24_2268_GFA2

description: Large follicle, beginning atresia  RNA internal number 2268  Nylon membrane number 24


title: AtresieMG_52_2254_MFA2

description: Medium follicle, beginning atresia  RNA internal number 2254  Nylon membrane number 52

source_name: MF - Medium Follicles  A2 - follicular status corresponding beginning atresia


title: AtresieMG_26_2273_PFA2

description: Small follicle, beginning atresia  RNA internal number 2273  Nylon membrane number 26


title: AtresieMG_33_2243_MFS1

description: Healthy medium follicle  RNA internal number 2243  Nylon membrane number 33


title: AtresieMG_32_2270_PFA2

description: Small follicle, beginning atresia  RNA internal number 2270  Nylon membrane number 32


title: AtresieMG_20_2242_PFS1

description: Healthy small follicle  RNA internal number 2242  Nylon membrane number 20

source_name: PF - Small Follicles  S1 - follicular status corresponding healthy follicle


title: AtresieMG_23_2252_MFA2

description: Medium follicle, beginning atresia  RNA internal number 2252  Nylon membrane number 23


title: AtresieMG_35_2259_MFA3

description: Medium follicle, advanced atresia  RNA internal number 2259  Nylon membrane number 35

source_name: MF - Medium Follicles  A3 - follicular status corresponding advanced atresia


title: AtresieMG_43_2256_GFA3

description: Large follicle, advanced atresia  RNA internal number 2256  Nylon membrane number 43


title: AtresieMG_21_2249_GFS1

description: Healthy large follicle  RNA internal number 2249  Nylon membrane number 21


title: AtresieMG_18_1972_MFA3

description: Medium follicle, advanced atresia  RNA internal number 1972  Nylon membrane number 18


title: AtresieMG_09_2157_GFA3

description: Large follicle, advanced atresia  RNA internal number 2157  Nylon membrane number 09


title: AtresieMG_17_2195_PFS1

description: Healthy small follicle  RNA internal number 2195  Nylon membrane number 17


title: AtresieMG_11_2247_MFA3

description: Medium follicle, advanced atresia  RNA internal number 2247  Nylon membrane number 11


title: AtresieMG_13_2263_GFA3

description: Large follicle, advanced atresia  RNA internal number 2263  Nylon membrane number 13


title: AtresieMG_15_2246_PFA3

description: Small follicle, advanced atresia  RNA internal number 2246  Nylon membrane number 15


title: AtresieMG_07_2262_PFA3

description: Small follicle, advanced atresia  RNA internal number 2262  Nylon membrane number 07


title: AtresieMG_10_2156_PFA3

description: Small follicle, advanced atresia  RNA internal number 2156  Nylon membrane number 10


title: AtresieMG_42_2278_MFA2

description: Medium follicle, beginning atresia  RNA internal number 2278  Nylon membrane number 42


title: AtresieMG_04_2250_MFS1

description: Healthy medium follicle  RNA internal number 2250  Nylon membrane number 04


title: AtresieMG_40_2266_GFA2

description: Large follicle, advanced atresia  RNA internal number 2266  Nylon membrane number 40


title: Rat_liver_repeated-dose_corn oil_rep2

status: Public on Dec 25 2008

city: Shinjyuku-ku

first: Sano

last: Yuri

state: Tokyo

address: 35 Shinanomachi

department: Department of Preventive Medicine and Public Health

country: Japan

institute: Keio Univ.

description: SD rat, male, 10 weeks, Liver

hyb_protocol: Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip RG-U34A GeneChips were washed and stained in the Affymetrix Fluidics Station 400.

scan_protocol: GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.

data_processing: The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.

molecule: polyA RNA

organism: Rattus norvegicus

label_protocol: double-stranded cDNA was synthesized from polyA RNA using the SuperScript Choice system (Invitrogen, Carlsbad, CA). After phenol/chloroform/isoamylalcohol extraction and precipitation, cDNA was used for biotin-labeled cRNA synthesis using the BioArray HighYield RNA Transcript Labeling kit (Enzo Diagnostics, Farmingdale, NY). Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug poly-A RNA RNA (Expression Analysis Technical Manual, 2003, Affymetrix).

growth_protocol: Seven-week-old SD rats were fed chow and water ad libitum and maintained for 12-hr periods each of light and darknessfor one week. by oral gavage once daily for 14 consecutive days (repeated-dose).

extract_protocol: Liver RNA were extracted using Trizol reagent according to manufacture's instruction and was further purified using Silica membrane spin columns (Rneasy, Quiagen, Valencia, CA).

treatment_protocol: After one-week acclimation period, similarly to single dosing (single-dose), repeated administration of 1,500 mg/kg TCE diluted in corn oil or corn oil alone was conducted. Following an 18-hr period after the last administration, mice were anesthetized with diethyl ether, followed by liver collection.

tag: SD rat, male, 10 weeks, Liver


title: Rat_liver_repeated-dose_TCE_rep2

description: SD rat, male, 10 weeks, Liver


title: AtresieMG_08_2241_PFS1

description: Healthy small follicle  RNA internal number 2241  Nylon membrane number 08


title: Rat_liver_repeated-dose_corn oil_rep4

description: SD rat, male, 10 weeks, Liver


title: AtresieMG_05_2275_MFA3

description: Medium follicle, advanced atresia  RNA internal number 2275  Nylon membrane number 05


title: Rat_liver_repeated-dose_TCE_rep3

description: SD rat, male, 10 weeks, Liver


title: Rat_liver_repeated-dose_TCE_rep1

description: SD rat, male, 10 weeks, Liver


title: Rat_liver_single-dose_TCE_rep4

description: SD rat , male, 8 weeks, Liver

tag: SD rat , male, 8 weeks, Liver


title: Rat_liver_repeated-dose_corn oil_rep1

description: SD rat, male, 10 weeks, Liver


title: Rat_liver_repeated-dose_corn oil_rep3

description: SD rat, male, 10 weeks, Liver


title: AtresieMG_28_2265_MFA2

description: Medium follicle, beginning atresia  RNA internal number 2265  Nylon membrane number 28


title: Rat_liver_single-dose_TCE_rep2

description: SD rat , male, 8 weeks, Liver


title: Rat_liver_repeated-dose_TCE_rep4

description: SD rat, male, 10 weeks, Liver


title: Rat_liver_single-dose_TCE_rep3

description: SD rat , male, 8 weeks, Liver


title: Rat_liver_single-dose_corn oil_rep2

description: SD rat , male, 8 weeks, Liver


title: AtresieMG_16_2251_PFS1

description: Healthy small follicle  RNA internal number 2251  Nylon membrane number 16


title: Rat_liver_single-dose_TCE_rep1

description: SD rat , male, 8 weeks, Liver


title: Rat_liver_single-dose_corn oil_rep4

description: SD rat , male, 8 weeks, Liver


title: Mouse_liver_repeated-dose_TCE_rep3

description: B6C3F1 mouse, male, 10 weeks, Liver

hyb_protocol: Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip MG-U74AV2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.

organism: Mus musculus

growth_protocol: Seven-week-old B6C3F1 mice were fed chow and water ad libitum and maintained for 12-hr periods each of light and darknessfor one week. by oral gavage once daily for 14 consecutive days (repeated-dose).

tag: B6C3F1 mouse, male, 10 weeks, Liver


title: Mouse_liver_repeated-dose_TCE_rep4

description: B6C3F1 mouse, male, 10 weeks, Liver


title: Mouse_liver_repeated-dose_TCE_rep2

description: B6C3F1 mouse, male, 10 weeks, Liver


title: Mouse_liver_repeated-dose_corn oil_rep4

description: B6C3F1 mouse, male, 10 weeks, Liver


title: Mouse_liver_single-dose_corn oil_rep1

description: B6C3F1 mouse mouse, male, 8 weeks, Liver


title: Rat_liver_single-dose_corn oil_rep1

description: SD rat , male, 8 weeks, Liver


title: Mouse_liver_single-dose_TCE_rep2

description: B6C3F1 mouse, male, 8 weeks, Liver

tag: B6C3F1 mouse, male, 8 weeks, Liver


title: Mouse_liver_repeated-dose_corn oil_rep2

description: B6C3F1 mouse, male, 10 weeks, Liver


title: Rat_liver_single-dose_corn oil_rep3

description: SD rat , male, 8 weeks, Liver


title: Mouse_liver_repeated-dose_corn oil_rep1

description: B6C3F1 mouse, male, 10 weeks, Liver


title: Mouse_liver_repeated-dose_TCE_rep1

description: B6C3F1 mouse, male, 10 weeks, Liver


title: Mouse_liver_single-dose_corn oil_rep2

description: B6C3F1 mouse, male, 8 weeks, Liver


title: Mouse_liver_repeated-dose_corn oil_rep3

description: B6C3F1 mouse, male, 10 weeks, Liver


title: AtresieMG_12_2255_MFA2

description: Medium follicle, beginning atresia  RNA internal number 2255  Nylon membrane number 12


title: Mouse_liver_single-dose_corn oil_rep4

description: B6C3F1 mouse, male, 8 weeks, Liver


title: 13690685 - MTX_6h_D vs Temoin_6h_D

status: Public on Dec 19 2008

city: Evry Cedex

last: Yu

address: 2 rue Gaston Cremieux CP 5708

department: URGV

description: global analysis of the folate metabolism in Arabidopsis

hyb_protocol: Temoin_6h_D Cy5 / MTX_6h_D Cy3 : 30pmol. 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,500V,laser power 35%, 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

label_protocol: labelling Cy3 and Cy5 indirect, amplification=yes, DNA 5 ug. 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 - media : gamborg temperature : 23°C light : 40 umol photon/m2 sec

treatment_protocol: Name:sans_MTX - compound based treatment - abiotic stress,methotrexate:quantity 0mM time 0hour .

tag: Arabidopsis thaliana (columbia)  - harvest date:13-11-06

treatment_protocol: Name:MTX_6h - compound based treatment - abiotic stress,methotrexate:quantity 0.1mM time 6hour .


title: Mouse_liver_single-dose_TCE_rep1

description: B6C3F1 mouse, male, 8 weeks, Liver


title: Mouse_liver_single-dose_TCE_rep3

description: B6C3F1 mouse, male, 8 weeks, Liver


title: Mouse_liver_single-dose_corn oil_rep3

description: B6C3F1 mouse, male, 8 weeks, Liver


title: Mouse_liver_single-dose_TCE_rep4

description: B6C3F1 mouse, male, 8 weeks, Liver


title: 13690683 - Temoin_6h_D vs MTX_6h_D

hyb_protocol: MTX_6h_D Cy5 / Temoin_6h_D Cy3 : 30pmol. 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: 13561302 - MTX_24h_B vs MTX_6h_B

hyb_protocol: MTX_6h_B Cy5 / MTX_24h_B Cy3 : 30pmol. 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,620V,laser power 100%, Cy5:635nm,pmt voltage 750V,laser power 100%

treatment_protocol: Name:MTX_24h - compound based treatment - abiotic stress,methotrexate:quantity 0.1mM time 24hour .

tag: Arabidopsis thaliana (columbia)  - harvest date:14-11-06


title: 13690682 - MTX_6h_C vs Temoin_6h_C

hyb_protocol: Temoin_6h_C Cy5 / MTX_6h_C Cy3 : 30pmol. 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: 13561297 - Temoin_2h_A vs MTX_2h_A

hyb_protocol: MTX_2h_A Cy5 / Temoin_2h_A Cy3 : 30pmol. 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.

treatment_protocol: Name:MTX_2h - compound based treatment - abiotic stress,methotrexate:quantity 0.1mM time 2hour .


title: 13561301 - MTX_6h_B vs MTX_24h_B

hyb_protocol: MTX_24h_B Cy5 / MTX_6h_B Cy3 : 30pmol. 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: 13690681 - Temoin_6h_C vs MTX_6h_C

hyb_protocol: MTX_6h_C Cy5 / Temoin_6h_C Cy3 : 30pmol. 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: 13561298 - MTX_2h_A vs Temoin_2h_A

hyb_protocol: Temoin_2h_A Cy5 / MTX_2h_A Cy3 : 30pmol. 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: 13561300 - Temoin_2h_B vs MTX_2h_B

hyb_protocol: MTX_2h_B Cy5 / Temoin_2h_B Cy3 : 30pmol. 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: 13557343 - MTX_24h_A vs Temoin_24h_A

hyb_protocol: Temoin_24h_A Cy5 / MTX_24h_A Cy3 : 30pmol. 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: 13557341 - MTX_24h_B vs Temoin_24h_B

hyb_protocol: Temoin_24h_B Cy5 / MTX_24h_B Cy3 : 30pmol. 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: miRNA Replicate 3 for H460 cell line

status: Public on Dec 01 2008

type: other

city: X

first: Alex

middle: T.

last: Adai

state: X

address: X

department: Oncology Diagnostics

institute: Genentech

description: Cell line, RPMI1640, 10 %FBS, 2mM L-glutamine, 10mM HEPES

hyb_protocol: Asuragen Services

scan_protocol: Asuragen Services

data_processing: VSN / Only considered known human miRNAs with duplicate probes/experiments averaged

label: mirVana Kit (Ambion)

molecule: other

source_name: Human cell line

label_protocol: Asuragen Services

extract_protocol: mirVana kit (Ambion)

tag: No treatment. See ATCC/DSMZ for cell line details.


title: 13557355 - MTX_2h_B vs Temoin_2h_B

hyb_protocol: Temoin_2h_B Cy5 / MTX_2h_B Cy3 : 30pmol. 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: miRNA Replicate 1 for MCF7 cell line


title: 13557346 - MTX_6h_B vs MTX_2h_B

hyb_protocol: MTX_2h_B Cy5 / MTX_6h_B Cy3 : 30pmol. 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: miRNA Replicate 2 for H1781 cell line


title: 13557345 - MTX_2h_B vs MTX_6h_B

hyb_protocol: MTX_6h_B Cy5 / MTX_2h_B Cy3 : 30pmol. 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: miRNA Replicate 3 for H1568 cell line


title: miRNA Replicate 2 for H1975 cell line


title: 13557344 - Temoin_24h_B vs MTX_24h_B

hyb_protocol: MTX_24h_B Cy5 / Temoin_24h_B Cy3 : 30pmol. 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: miRNA Replicate 2 for H1770 cell line


title: 13555937 - MTX_2h_A vs MTX_6h_A

hyb_protocol: MTX_6h_A Cy5 / MTX_2h_A Cy3 : 30pmol. 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: miRNA Replicate 2 for H1299 cell line


title: 13557336 - MTX_24h_A vs MTX_6h_A

hyb_protocol: MTX_6h_A Cy5 / MTX_24h_A Cy3 : 30pmol. 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: 13555938 - MTX_6h_A vs MTX_2h_A

hyb_protocol: MTX_2h_A Cy5 / MTX_6h_A Cy3 : 30pmol. 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: 13557337 - MTX_6h_A vs MTX_24h_A

hyb_protocol: MTX_24h_A Cy5 / MTX_6h_A Cy3 : 30pmol. 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: miRNA Replicate 2 for EKVX cell line


title: miRNA Replicate 3 for CALU1 cell line


title: miRNA Replicate 2 for ABC1 cell line


title: miRNA Replicate 1 for H1993 cell line


title: miRNA Replicate 2 for H23 cell line


title: miRNA Replicate 2 for H226 cell line


title: miRNA Replicate 2 for H2126 cell line


title: 13557342 - Temoin_24h_A vs MTX_24h_A

hyb_protocol: MTX_24h_A Cy5 / Temoin_24h_A Cy3 : 30pmol. 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: miRNA Replicate 3 for H1838 cell line


title: miRNA Replicate 2 for A549 cell line


title: miRNA Replicate 2 for VMRCLCD cell line


title: miRNA Replicate 2 for H1793 cell line


title: miRNA Replicate 3 for H661 cell line


title: S_mansoni_adult_worms_mice_immunized_with_Sm29_antigen_left_replicate3

status: Public on Dec 18 2008

city: Campos dos Goytacazes

first: Thiago

middle: Motta

last: Venancio

state: RJ

address: Av Alberto Lamego 2000

country: Brazil

institute: UENF

description: no additional information

scan_protocol: Slides were air dried and scanned using a microarray dual channel laser scanner (GenePix 4000B, Molecular Devices, USA) at 5 Ìm resolution, 100 % laser power and PMT levels were adjusted in order to obtain similar average intensities of red and green signal.

data_processing: Data was extracted from images using the Array Vision 8.0 program. Unreliable spots, having intensities too similar to local background (ie, low intensity) or saturated, were filtered out. Saturated signals [intensity greater than >990 fluorescence units] were also discarded. Normalization was carried out by LOWESS fitting on a M versus A plot

organism: Schistosoma mansoni

source_name: S. mansoni adult worms vaccinated with PBS plus adjuvant.

label_protocol: One microgram of total RNA from each sample was amplified using the T7-RNA polymerase-based linear amplification protocol. Three micrograms of aminoallyl-modified amplified RNA was labeled with Cy3 or Cy5 by indirect labeling (GE Healthcare). The Cy3- and Cy5-labeled samples were then combined, dried and re-suspended in hybridization buffer (50 % formamide, 25 % RNase free water and 25 % Microarray Hybridization buffer 4x from GE Healthcare).

extract_protocol: Total RNA was obtained using Trizol reagent (Invitrogen) according to the manufacturer's instructions. The RNA was quantified using the Nanodrop ND-1000 UV/Vis spectrophotometer and RNA integrity was checked by electrophoresis with an Agilent 2100 Bioanalyzer.

tag: The Schistosoma mansoni adult worms were recovered forty five days after infection of female C57BL/6 mice vaccinated three times with PBS plus adjuvant.

source_name: S. mansoni adult worms recovered from mice vaccinated with Sm29 antigen

tag: The Schistosoma mansoni adult worms were recovered forty five days after infection of female C57BL/6 mice vaccinated three times with 25 µg of rSm29 plus adjuvant (using intervals of fifteen days between the vaccinations).


title: miRNA Replicate 2 for SKMES1 cell line


title: S_mansoni_adult_worms_mice_immunized_with_Sm29_antigen_left_replicate2

description: no additional information

hyb_protocol: The Cy3- and Cy5-labeled samples were then combined, dried and re-suspended in hybridization buffer (50 % formamide, 25 % RNase free water and 25 % Microarray Hybridization buffer 4x from GE Healthcare).


title: miRNA Replicate 2 for H520 cell line


title: miRNA Replicate 3 for HLFA cell line


title: miRNA Replicate 2 for RERFLCOK cell line


title: S_mansoni_adult_worms_mice_immunized_with_Sm29_antigen_left_replicate1

description: no additional information


title: miRNA Replicate 2 for H358 cell line


title: miRNA Replicate 1 for H322T cell line


title: miRNA Replicate 2 for RERFLCMS cell line


title: S_mansoni_adult_worms_mice_immunized_with_Sm29_antigen_left_replicate4

description: no additional information


title: miRNA Replicate 2 for H522 cell line


title: miRNA Replicate 2 for HOP92 cell line


title: miRNA Replicate 1 for H23 cell line


title: miRNA Replicate 3 for H647 cell line


title: miRNA Replicate 2 for H292 cell line


title: miRNA Replicate 1 for H650 cell line


title: miRNA Replicate 2 for H838 cell line


title: miRNA Replicate 1 for H2126 cell line


title: miRNA Replicate 3 for CALU6 cell line


title: miRNA Replicate 1 for MDST8 cell line


title: miRNA Replicate 1 for H596 cell line


title: miRNA Replicate 2 for H2405 cell line


title: miRNA Replicate 2 for SKOV3 cell line


title: miRNA Replicate 2 for OVCAR3 cell line


title: miRNA Replicate 2 for SAOS2 cell line


title: miRNA Replicate 1 for H1435 cell line


title: miRNA Replicate 2 for FUOV1 cell line


title: miRNA Replicate 2 for LXFL529 cell line


title: miRNA Replicate 2 for OV90 cell line


title: miRNA Replicate 3 for H2030 cell line


title: miRNA Replicate 2 for HLFA cell line


title: miRNA Replicate 2 for H647 cell line


title: miRNA Replicate 2 for H1838 cell line


title: miRNA Replicate 2 for COLO678 cell line


title: miRNA Replicate 2 for H1666 cell line


title: miRNA Replicate 1 for H226 cell line


title: miRNA Replicate 2 for H2030 cell line


title: miRNA Replicate 2 for CAOV3 cell line


title: miRNA Replicate 2 for H1568 cell line


title: miRNA Replicate 2 for CALU6 cell line


title: miRNA Replicate 2 for HS294T cell line


title: miRNA Replicate 2 for 624MEL cell line


title: miRNA Replicate 2 for H661 cell line


title: miRNA Replicate 2 for MDAMB435 cell line


title: miRNA Replicate 1 for H1299 cell line


title: miRNA Replicate 1 for SKMES1 cell line


title: miRNA Replicate 1 for H1155 cell line


title: miRNA Replicate 2 for CALU1 cell line


title: miRNA Replicate 1 for EKVX cell line


title: miRNA Replicate 1 for CALU6 cell line


title: miRNA Replicate 1 for H1666 cell line


title: miRNA Replicate 1 for CALU1 cell line


title: miRNA Replicate 1 for H2030 cell line


title: miRNA Replicate 2 for C32 cell line


title: miRNA Replicate 1 for ABC1 cell line


title: miRNA Replicate 1 for H1781 cell line


title: miRNA Replicate 2 for H460 cell line


title: miRNA Replicate 2 for H441 cell line


title: miRNA Replicate 1 for H1975 cell line


title: miRNA Replicate 1 for H1568 cell line


title: miRNA Replicate 1 for H661 cell line


title: miRNA Replicate 1 for H1770 cell line


title: miRNA Replicate 1 for VMRCLCD cell line


title: miRNA Replicate 1 for RERFLCOK cell line


title: miRNA Replicate 2 for H1651 cell line


title: miRNA Replicate 1 for HOP92 cell line


title: miRNA Replicate 1 for HLFA cell line


title: miRNA Replicate 1 for H520 cell line


title: miRNA Replicate 1 for H522 cell line


title: miRNA Replicate 1 for H1838 cell line


title: miRNA Replicate 1 for H1793 cell line


title: miRNA Replicate 1 for H358 cell line


title: miRNA Replicate 1 for H647 cell line


title: miRNA Replicate 1 for RERFLCMS cell line


title: miRNA Replicate 1 for A549 cell line


title: miRNA Replicate 1 for OV90 cell line


title: miRNA Replicate 2 for SUDHL1 cell line


title: miRNA Replicate 1 for FUOV1 cell line


title: miRNA Replicate 2 for EFO21 cell line


title: miRNA Replicate 1 for CAOV3 cell line


title: miRNA Replicate 1 for H838 cell line


title: miRNA Replicate 1 for TOV112D cell line


title: miRNA Replicate 1 for HOP62 cell line


title: miRNA Replicate 2 for KHOSNP cell line


title: miRNA Replicate 2 for COLO704 cell line


title: miRNA Replicate 1 for COLO704 cell line


title: miRNA Replicate 1 for SUDHL1 cell line


title: miRNA Replicate 1 for H292 cell line


title: miRNA Replicate 1 for ES2 cell line


title: miRNA Replicate 1 for HCC1428 cell line


title: miRNA Replicate 1 for SKOV3 cell line


title: miRNA Replicate 1 for OVCAR3 cell line


title: miRNA Replicate 2 for TOV112D cell line


title: miRNA Replicate 1 for U2OS cell line


title: miRNA Replicate 1 for KHOSNP cell line


title: miRNA Replicate 1 for GRANTA519 cell line


title: miRNA Replicate 1 for EFO21 cell line


title: miRNA Replicate 2 for ES2 cell line


title: miRNA Replicate 1 for AU565 cell line


title: miRNA Replicate 1 for MDAMB361 cell line


title: miRNA Replicate 1 for MDAMB453 cell line


title: miRNA Replicate 1 for HT cell line


title: miRNA Replicate 1 for CAL120 cell line


title: miRNA Replicate 1 for SC1 cell line


title: miRNA Replicate 1 for HCC1599 cell line


title: miRNA Replicate 1 for A2058 cell line


title: miRNA Replicate 1 for A375 cell line


title: miRNA Replicate 1 for 624MEL cell line


title: miRNA Replicate 1 for MEWO cell line


title: miRNA Replicate 1 for CAL51 cell line


title: miRNA Replicate 1 for MDAMB435 cell line


title: miRNA Replicate 1 for MALME3M cell line


title: miRNA Replicate 1 for HS294T cell line


title: miRNA Replicate 1 for EBC1 cell line


title: miRNA Replicate 1 for SKBR3 cell line


title: miRNA Replicate 1 for C32 cell line


title: miRNA Replicate 1 for LXFL529 cell line


title: miRNA Replicate 1 for RPMI7951 cell line


title: miRNA Replicate 1 for KNS62 cell line


title: miRNA Replicate 1 for H1650 cell line


title: miRNA Replicate 1 for G361 cell line


title: miRNA Replicate 1 for JIMT1 cell line


title: miRNA Replicate 1 for LOXIMVI cell line


title: miRNA Replicate 1 for RERFLCKJ cell line


title: miRNA Replicate 1 for H2405 cell line


title: miRNA Replicate 1 for HOP18 cell line


title: miRNA Replicate 1 for H441 cell line


title: miRNA Replicate 2 for HCC1954 cell line


title: miRNA Replicate 3 for CAL851 cell line


title: miRNA Replicate 2 for CAL851 cell line


title: miRNA Replicate 1 for CAL851 cell line


title: miRNA Replicate 1 for MDAMB231 cell line


title: miRNA Replicate 1 for RERFLCAD1 cell line


title: miRNA Replicate 2 for EVSAT cell line


title: miRNA Replicate 1 for HCC1419 cell line


title: miRNA Replicate 1 for HCC1937 cell line


title: miRNA Replicate 1 for HCC1954 cell line


title: miRNA Replicate 1 for HCC1143 cell line


title: miRNA Replicate 2 for EFM192A cell line


title: miRNA Replicate 1 for EVSAT cell line


title: miRNA Replicate 2 for HCC1419 cell line


title: miRNA Replicate 1 for EFM192A cell line


title: miRNA Replicate 2 for BT474 cell line


title: miRNA Replicate 1 for WSUDLCL2 cell line


title: miRNA Replicate 1 for H1651 cell line


title: miRNA Replicate 1 for BT474 cell line


title: miRNA Replicate 1 for BT549 cell line


title: miRNA Replicate 1 for KM12 cell line


title: miRNA Replicate 1 for LOVO cell line


title: miRNA Replicate 1 for HT55 cell line


title: miRNA Replicate 2 for HCC1937 cell line


title: miRNA Replicate 1 for KPL1 cell line


title: miRNA Replicate 1 for HCT116 cell line


title: miRNA Replicate 1 for HT29 cell line


title: miRNA Replicate 1 for SW1353 cell line


title: miRNA Replicate 1 for HCT15 cell line


title: miRNA Replicate 1 for SW480 cell line


title: miRNA Replicate 1 for HCT8 cell line


title: miRNA Replicate 1 for SAOS2 cell line


title: miRNA Replicate 1 for HOS cell line


title: miRNA Replicate 1 for RKOAS451 cell line


title: miRNA Replicate 1 for CL40 cell line


title: miRNA Replicate 1 for COLO678 cell line


title: miRNA Replicate 1 for CX1 cell line


title: miRNA Replicate 1 for DLD1 cell line


title: miRNA Replicate 1 for CAL148 cell line


title: miRNA Replicate 1 for H460 cell line


title: miRNA Replicate 1 for HCC2218 cell line


title: miRNA Replicate 1 for DU4475 cell line


title: miRNA Replicate 1 for COLO741 cell line


title: miRNA Replicate 1 for ZR751 cell line


title: miRNA Replicate 1 for SKCO1 cell line


title: miRNA Replicate 1 for ZR7530 cell line


title: miRNA Replicate 1 for CL34 cell line


title: miRNA Replicate 1 for COLO201 cell line


title: miRNA Replicate 1 for LS180 cell line


title: miRNA Replicate 1 for C170 cell line


title: miRNA Replicate 1 for COLO205 cell line


title: miRNA Replicate 1 for RKO cell line


title: miRNA Replicate 1 for COLO206F cell line


title: miRNA Replicate 1 for T47D cell line


title: miRNA Replicate 3 for SKMEL28 cell line


title: miRNA Replicate 3 for HS695T cell line


title: miRNA Replicate 2 for COLO829 cell line


title: miRNA Replicate 3 for MALME3M cell line


title: miRNA Replicate 2 for HS695T cell line


title: miRNA Replicate 2 for SUDHL4 cell line


title: miRNA Replicate 3 for SC1 cell line


title: miRNA Replicate 2 for 537MEL cell line


title: miRNA Replicate 3 for GRANTA519 cell line


title: miRNA Replicate 3 for WSUDLCL2 cell line


title: miRNA Replicate 2 for SKMEL28 cell line


title: miRNA Replicate 1 for DB cell line


title: miRNA Replicate 3 for HT cell line


title: miRNA Replicate 3 for COLO829 cell line


title: miRNA Replicate 3 for RPMI7951 cell line


title: miRNA Replicate 3 for VMRCLCD cell line


title: miRNA Replicate 3 for HOP92 cell line


title: miRNA Replicate 3 for H1651 cell line


title: miRNA Replicate 3 for G361 cell line


title: miRNA Replicate 2 for HOP62 cell line


title: miRNA Replicate 3 for H522 cell line


title: miRNA Replicate 3 for RERFLCMS cell line


title: miRNA Replicate 3 for A427 cell line


title: miRNA Replicate 3 for RERFLCKJ cell line


title: miRNA Replicate 3 for H838 cell line


title: miRNA Replicate 3 for CAL51 cell line


title: miRNA Replicate 2 for MDAMB453 cell line


title: miRNA Replicate 3 for AU565 cell line


title: miRNA Replicate 3 for H441 cell line


title: miRNA Replicate 3 for EBC1 cell line


title: miRNA Replicate 1 for H1703 cell line


title: miRNA Replicate 2 for HCC1187 cell line


title: miRNA Replicate 3 for RERFLCOK cell line


title: miRNA Replicate 2 for U2OS cell line


title: miRNA Replicate 3 for RERFLCAD1 cell line


title: miRNA Replicate 3 for KHOSNP cell line


title: miRNA Replicate 3 for H520 cell line


title: miRNA Replicate 3 for 888MEL cell line


title: miRNA Replicate 2 for MEWO cell line


title: miRNA Replicate 3 for HCC1599 cell line


title: miRNA Replicate 3 for A2058 cell line


title: miRNA Replicate 3 for CAL120 cell line


title: miRNA Replicate 3 for SKBR3 cell line


title: miRNA Replicate 2 for 928MEL cell line


title: miRNA Replicate 3 for A375 cell line


title: miRNA Replicate 3 for HCC1428 cell line


title: Replicate 1 for CL11 cell line

hyb_protocol: Affymetrix standard protocols.  See Clin Cancer Res 2005;11(24) December 15, 2005

data_processing: gcRMA (justGCRMA in R/Bioconductor)

label: Biotin


title: miRNA Replicate 2 for MALME3M cell line


title: miRNA Replicate 3 for SJSA1 cell line


title: miRNA Replicate 1 for SUDHL4 cell line


title: miRNA Replicate 2 for CAL72 cell line


title: miRNA Replicate 3 for KHOS240S cell line


title: miRNA Replicate 3 for KHOS321H cell line


title: miRNA Replicate 3 for MNNGHOSC1 cell line


title: Replicate 2 for CL40 cell line

scan_protocol: Affymetrix standard protocols.  See Clin Cancer Res 2005;11(24) December 15, 2005


title: miRNA Replicate 3 for C32 cell line


title: miRNA Replicate 3 for SW1353 cell line


title: miRNA Replicate 2 for RPMI7951 cell line


title: Replicate 2 for H1155 cell line

label_protocol: Affymetrix standard protocols.  See Clin Cancer Res 2005;11(24) December 15, 2005


title: miRNA Replicate 1 for 537MEL cell line


title: miRNA Replicate 3 for MDAMB435 cell line


title: miRNA Replicate 2 for G361 cell line


title: Replicate 2 for MDA435 breast cell line

extract_protocol: Affymetrix standard protocols.  See Clin Cancer Res 2005;11(24) December 15, 2005


title: Replicate 1 for HT55 cell line


title: Replicate 1 for C170 cell line


title: Replicate 2 for H520 cell line


title: Replicate 1 for CL34 cell line


title: miRNA Replicate 2 for WSUDLCL2 cell line


title: miRNA Replicate 2 for GRANTA519 cell line


title: miRNA Replicate 2 for HT cell line


title: miRNA Replicate 2 for SC1 cell line


title: miRNA Replicate 3 for HS294T cell line


title: Replicate 2 for HOP92 cell line


title: miRNA Replicate 1 for SKMEL28 cell line


title: miRNA Replicate 1 for COLO829 cell line


title: miRNA Replicate 2 for SJSA1 cell line


title: miRNA Replicate 3 for 143B cell line


title: miRNA Replicate 1 for HS695T cell line


title: miRNA Replicate 2 for KHOS321H cell line


title: miRNA Replicate 2 for 888MEL cell line


title: Replicate 2 for H1568 cell line


title: miRNA Replicate 1 for SJSA1 cell line


title: miRNA Replicate 2 for KHOS240S cell line


title: miRNA Replicate 1 for KHOS321H cell line


title: miRNA Replicate 2 for MNNGHOSC1 cell line


title: miRNA Replicate 2 for A427 cell line


title: miRNA Replicate 1 for CAL72 cell line


title: miRNA Replicate 1 for KHOS240S cell line


title: miRNA Replicate 3 for CX1 cell line


title: miRNA Replicate 2 for 143B cell line


title: miRNA Replicate 3 for HT29 cell line


title: miRNA Replicate 2 for SW1353 cell line


title: miRNA Replicate 2 for LS180 cell line


title: Replicate 2 for H1651 cell line


title: miRNA Replicate 3 for LOVO cell line


title: Replicate 2 for H23 cell line


title: miRNA Replicate 3 for HT55 cell line


title: miRNA Replicate 3 for HCT116 cell line


title: Replicate 2 for SW1573 cell line


title: miRNA Replicate 3 for DLD1 cell line


title: Replicate 2 for HOP62 cell line


title: miRNA Replicate 2 for SW480 cell line


title: miRNA Replicate 3 for RKOAS451 cell line


title: miRNA Replicate 3 for RKO cell line


title: miRNA Replicate 3 for DU4475 cell line


title: miRNA Replicate 3 for HCT15 cell line


title: miRNA Replicate 3 for CAL148 cell line


title: miRNA Replicate 3 for HOS cell line


title: miRNA Replicate 1 for MNNGHOSC1 cell line


title: miRNA Replicate 3 for ZR7530 cell line


title: Replicate 2 for H2126 cell line


title: Replicate 2 for H647 cell line


title: miRNA Replicate 2 for HCT8 cell line


title: miRNA Replicate 2 for HCC2218 cell line


title: Replicate 2 for H1666 cell line


title: miRNA Replicate 3 for C170 cell line


title: miRNA Replicate 2 for CL11 cell line


title: miRNA Replicate 3 for ZR751 cell line


title: miRNA Replicate 2 for COLO320HSR cell line


title: miRNA Replicate 3 for T47D cell line


title: miRNA Replicate 1 for COLO320DM cell line


title: miRNA Replicate 3 for COLO206F cell line


title: miRNA Replicate 2 for COLO205 cell line


title: miRNA Replicate 3 for CL40 cell line


title: Replicate 2 for H2009 cell line


title: Replicate 1 for H1793 cell line


title: miRNA Replicate 2 for COLO201 cell line


title: miRNA Replicate 3 for H1770 cell line


title: miRNA Replicate 3 for H1299 cell line


title: miRNA Replicate 3 for H1666 cell line


title: miRNA Replicate 3 for H1781 cell line


title: miRNA Replicate 3 for H358 cell line


title: miRNA Replicate 3 for H1793 cell line


title: miRNA Replicate 3 for ABC1 cell line


title: Replicate 1 for HLFA cell line


title: miRNA Replicate 3 for CL34 cell line


title: Replicate 2 for H2405 cell line


title: miRNA Replicate 2 for H1155 cell line


title: miRNA Replicate 3 for H292 cell line


title: miRNA Replicate 3 for EKVX cell line


title: Replicate 2 for HOP18 cell line


title: miRNA Replicate 3 for H2126 cell line


title: miRNA Replicate 2 for H1993 cell line


title: Replicate 1 for H1435 cell line


title: miRNA Replicate 3 for H23 cell line


title: miRNA Replicate 3 for A549 cell line


title: miRNA Replicate 2 for SW620 cell line


title: miRNA Replicate 3 for H1975 cell line


title: miRNA Replicate 2 for HT29 cell line


title: miRNA Replicate 2 for HT55 cell line


title: Replicate 1 for H1650 cell line


title: miRNA Replicate 2 for DLD1 cell line


title: miRNA Replicate 2 for HCT116 cell line


title: Replicate 1 for H596 cell line


title: miRNA Replicate 2 for HCT15 cell line


title: Replicate 1 for H838 cell line


title: Replicate 1 for H1781 cell line


title: miRNA Replicate 2 for HOS cell line


title: miRNA Replicate 1 for 143B cell line


title: miRNA Replicate 2 for SKCO1 cell line


title: Replicate 1 for LXFL529 cell line


title: miRNA Replicate 2 for RKOAS451 cell line


title: miRNA Replicate 2 for RKO cell line


title: miRNA Replicate 2 for CX1 cell line


title: Replicate 1 for SKMES1 cell line


title: miRNA Replicate 2 for HCC1428 cell line


title: miRNA Replicate 2 for LOVO cell line


title: Replicate 1 for H226 cell line


title: miRNA Replicate 2 for COLO741 cell line


title: Replicate 1 for H650 cell line


title: miRNA Replicate 2 for CAL51 cell line


title: miRNA Replicate 2 for MDAMB361 cell line


title: miRNA Replicate 2 for A375 cell line


title: miRNA Replicate 2 for KM12 cell line


title: miRNA Replicate 2 for AU565 cell line


title: miRNA Replicate 1 for HCC1569 cell line


title: miRNA Replicate 2 for A2058 cell line


title: miRNA Replicate 1 for 888MEL cell line


title: miRNA Replicate 2 for SKBR3 cell line


title: miRNA Replicate 2 for HCC1599 cell line


title: Replicate 1 for KM12 cell line


title: Replicate 1 for HT29 cell line


title: miRNA Replicate 2 for CAL120 cell line


title: miRNA Replicate 2 for JIMT1 cell line


title: miRNA Replicate 2 for C170 cell line


title: miRNA Replicate 2 for DU4475 cell line


title: miRNA Replicate 2 for ZR7530 cell line


title: miRNA Replicate 2 for CAL148 cell line


title: miRNA Replicate 2 for T47D cell line


title: miRNA Replicate 2 for ZR751 cell line


title: miRNA Replicate 3 for MDAMB231 cell line


title: miRNA Replicate 2 for LOXIMVI cell line


title: miRNA Replicate 3 for COLO678 cell line


title: Replicate 1 for EKVX cell line


title: miRNA Replicate 2 for CL40 cell line


title: miRNA Replicate 3 for MCF7 cell line


title: miRNA Replicate 3 for EFO21 cell line


title: miRNA Replicate 1 for HCC1187 cell line


title: Replicate 1 for COLO678 cell line


title: miRNA Replicate 2 for COLO206F cell line


title: miRNA Replicate 3 for TOV112D cell line


title: Replicate 1 for COLO320DM cell line


title: miRNA Replicate 3 for COLO704 cell line


title: miRNA Replicate 3 for ES2 cell line


title: miRNA Replicate 2 for CL34 cell line


title: Replicate 1 for COLO320HSR cell line


title: miRNA Replicate 3 for OVCAR3 cell line


title: miRNA Replicate 3 for SKOV3 cell line


title: miRNA Replicate 3 for CAOV3 cell line


title: Replicate 1 for COLO206F cell line


title: miRNA Replicate 3 for SUDHL1 cell line


title: miRNA Replicate 3 for OV90 cell line


title: miRNA Replicate 1 for 928MEL cell line


title: Replicate 1 for SW620 cell line


title: miRNA Replicate 3 for FUOV1 cell line


title: Replicate 2 for SW480 cell line


title: miRNA Replicate 3 for HCC1419 cell line


title: miRNA Replicate 2 for HCC1143 cell line


title: miRNA Replicate 3 for EVSAT cell line


title: miRNA Replicate 3 for EFM192A cell line


title: miRNA Replicate 2 for MCF7 cell line


title: miRNA Replicate 2 for MDAMB231 cell line


title: miRNA Replicate 3 for BT474 cell line


title: miRNA Replicate 3 for HCC1937 cell line


title: miRNA Replicate 2 for KPL1 cell line


title: miRNA Replicate 1 for CL11 cell line


title: miRNA Replicate 3 for HCC1954 cell line


title: miRNA Replicate 2 for SW403 cell line


title: miRNA Replicate 1 for SW620 cell line


title: miRNA Replicate 3 for MDST8 cell line


title: Replicate 1 for RKOAS451 cell line


title: Replicate 1 for SKCO1 cell line


title: miRNA Replicate 1 for CACO2 cell line


title: miRNA Replicate 3 for SAOS2 cell line


title: Replicate 1 for RKO cell line


title: miRNA Replicate 2 for MDST8 cell line


title: Replicate 1 for HCT15 cell line


title: miRNA Replicate 2 for H1435 cell line


title: miRNA Replicate 3 for CACO2 cell line


title: miRNA Replicate 2 for H650 cell line


title: miRNA Replicate 2 for CACO2 cell line


title: miRNA Replicate 1 for SW403 cell line


title: miRNA Replicate 1 for H2122 cell line


title: miRNA Replicate 2 for H596 cell line


title: miRNA Replicate 1 for COLO320HSR cell line


title: miRNA Replicate 1 for H2009 cell line


title: miRNA Replicate 2 for KNS62 cell line


title: miRNA Replicate 2 for H1650 cell line


title: miRNA Replicate 2 for HOP18 cell line


title: Replicate 1 for CX1 cell line


title: miRNA Replicate 1 for A427 cell line


title: Replicate 2 for A427 cell line


title: miRNA Replicate 2 for RERFLCAD1 cell line


title: miRNA Replicate 2 for RERFLCKJ cell line


title: miRNA Replicate 2 for EBC1 cell line


title: Replicate 1 for H322T cell line


title: miRNA Replicate 3 for H2405 cell line


title: miRNA Replicate 1 for SW1573 cell line


title: Replicate 2 for H2122 cell line


title: Replicate 1 for H522 cell line


title: miRNA Replicate 2 for BT549 cell line


title: Replicate 1 for H1838 cell line


title: Replicate 1 for H2030 cell line


title: Replicate 1 for H1299 cell line


title: Replicate 2 for H661 cell line


title: Replicate 2 for H460 cell line


title: Replicate 1 for H292 cell line


title: Replicate 1 for H441 cell line


title: Replicate 2 for H1703 cell line


title: Replicate 2 for LOVO cell line


title: Replicate 2 for CALU1 cell line


title: Replicate 1 for CACO2 cell line


title: Replicate 2 for DLD1 cell line


title: Replicate 2 for A549 cell line


title: Replicate 1 for HCT116 cell line


title: Replicate 1 for COLO205 cell line


title: Replicate 2 for COLO201 cell line


title: Replicate 2 for HCT8 cell line


title: Replicate 2 for H358 cell line


title: Replicate 1 for JIMT1 cell line


title: Replicate 1 for 928MEL cell line


title: Replicate 1 for 624MEL cell line


title: Replicate 1 for 537MEL cell line


title: Replicate 1 for 888MEL cell line


title: Replicate 1 for LOXIMVI cell line


title: Replicate 1 for RPMI7951 cell line


title: Replicate 2 for JIMT1 cell line


title: Replicate 1 for HS294T cell line


title: Replicate 1 for COLO829 cell line


title: Replicate 1 for HS695T cell line


title: Replicate 1 for G361 cell line


title: Replicate 1 for MEWO cell line


title: Replicate 1 for SKMEL28 cell line


title: Replicate 1 for CAL148 cell line


title: Replicate 1 for HCC1569 cell line


title: Replicate 1 for A375 cell line


title: Replicate 1 for ZR7530 cell line


title: Replicate 1 for HCC2218 cell line


title: Replicate 1 for C32 cell line


title: Replicate 1 for MDAMB453 cell line


title: Replicate 1 for HCC1954 cell line


title: Replicate 2 for BT549 cell line


title: Replicate 1 for AU565 cell line


title: Replicate 2 for CAL120 cell line


title: Replicate 3 for T47D cell line


title: Replicate 1 for HCC1143 cell line


title: Replicate 1 for HCC1419 cell line


title: Replicate 1 for BT474 cell line


title: Replicate 1 for DU4475 cell line


title: Replicate 2 for SKBR3 cell line


title: Replicate 1 for MDAMB231 cell line


title: Replicate 1 for HCC1428 cell line


title: Replicate 1 for MDAMB361 cell line


title: Replicate 1 for T47D cell line


title: Replicate 1 for CAL120 cell line


title: Replicate 1 for ZR751 cell line


title: Replicate 2 for MDAMB435 cell line


title: Replicate 1 for A2058 cell line


title: Replicate 1 for HCC1937 cell line


title: Replicate 1 for EVSAT cell line


title: Replicate 2 for CAL51 cell line


title: Replicate 2 for T47D cell line


title: Replicate 1 for MDAMB435 cell line


title: Replicate 1 for CAL51 cell line


title: Post Irradiation patient_37B

status: Public on Nov 29 2008

city: Durham

first: Holly

middle: Kloos

last: Dressman

state: NC

address: 101 Science Drive

department: Institute for Genome Sciences and Policy

institute: Duke University Medical Center

description: Post Irradiation patient_37B

scan_protocol: scan according to Axon GenePix 4000B recommendations

data_processing: Genespring GX 7.3 (Agilent Technologies) was used to perform initial data filtering in which spots whose signal intensities below 70 in either the Cy3 or Cy5 channel were removed.  For each analysis, only those samples in that analysis were used in the filtering process.  To compare data from previously published results, we only used those probes that mapped to each other across the Human Operon version 3.0 and version 4.0 arrays.  To then account for missing values, PAM software (http://www-stat.stanford.edu/ tibs/PAM/) was used to impute missing values.  k-nearest neighbor was used where missing values were imputed using a k-nearest neighbor average in gene space.  In the analysis approach in which all samples were included, lowess normalization of the data followed by batch effect removal using 2-way mixed model ANOVA (Partek Incorporated) was performed.

source_name: Mononuclear cells, Post Irradiation patient

extract_protocol: Briefly, 5 x 106 MNCs were pelleted and total RNA was isolated using the RNAeasy minispin column

treatment_protocol: 150-200 cGy of total body irradiation

source_name: Stratagene Universal Human reference

treatment_protocol: no treatment

tag: Stratagene Universal Human reference


title: Replicate 1 for SKBR3 cell line


title: Post Irradiation patient_41B

description: Post Irradiation patient_41B

tag: Mononuclear cells, Post Irradiation patient


title: Replicate 1 for KPL1 cell line


title: Post Irradiation patient_42A

description: Post Irradiation patient_42A


title: Post Irradiation patient_25A

description: Post Irradiation patient_25A


title: Post Irradiation patient_43B

description: Post Irradiation patient_43B


title: Replicate 1 for MCF7 cell line


title: Post Irradiation patient_44B

description: Post Irradiation patient_44B


title: Replicate 1 for BT549 cell line


title: Post Irradiation patient_60B

description: Post Irradiation patient_60B


title: Post Irradiation patient_58B

description: Post Irradiation patient_58B


title: Post Irradiation patient_39B

description: Post Irradiation patient_39B


title: Replicate 1 for EFM192A cell line


title: Replicate 2 for KPL1 cell line


title: Post Irradiation patient_35B

description: Post Irradiation patient_35B


title: Post Irradiation patient_36B

description: Post Irradiation patient_36B


title: Post Irradiation patient_40B

description: Post Irradiation patient_40B


title: Post Irradiation patient_17B

description: Post Irradiation patient_17B


title: Post Irradiation patient_33B

description: Post Irradiation patient_33B


title: Replicate 1 for CAL851 cell line


title: Post Irradiation patient_30B

description: Post Irradiation patient_30B


title: Post Irradiation patient_29B

description: Post Irradiation patient_29B


title: Post Irradiation patient_18B

description: Post Irradiation patient_18B


title: Post Irradiation patient_20B

description: Post Irradiation patient_20B


title: Post Irradiation patient_13B

description: Post Irradiation patient_13B


title: Post Irradiation patient_16B

description: Post Irradiation patient_16B


title: Post Irradiation patient_9B

description: Post Irradiation patient_9B


title: Post Irradiation patient_8B

description: Post Irradiation patient_8B


title: Pre Irradiation patient_33A

description: Pre Irradiation patient_33A

source_name: Mononuclear cells, Pre Irradiation patient

treatment_protocol: no IR treatment


title: Post Irradiation patient_15B

description: Post Irradiation patient_15B


title: Pre Irradiation patient_34A

description: Pre Irradiation patient_34A

tag: Mononuclear cells, Pre Irradiation patient


title: Pre Irradiation patient_4B

description: Pre Irradiation patient_4B


title: Pre Irradiation patient_35A

description: Pre Irradiation patient_35A


title: Pre Irradiation patient_60A

description: Pre Irradiation patient_60A


title: Pre Irradiation patient_44A

description: Pre Irradiation patient_44A


title: Pre Irradiation patient_58A

description: Pre Irradiation patient_58A


title: Pre Irradiation patient_31A

description: Pre Irradiation patient_31A


title: Post Irradiation patient_27B

description: Post Irradiation patient_27B


title: Pre Irradiation patient_59A

description: Pre Irradiation patient_59A


title: Pre Irradiation patient_28A

description: Pre Irradiation patient_28A


title: Pre Irradiation patient_37A

description: Pre Irradiation patient_37A


title: Pre Irradiation patient_29A

description: Pre Irradiation patient_29A


title: Pre Irradiation patient_23A

description: Pre Irradiation patient_23A


title: Pre Irradiation patient_19A

description: Pre Irradiation patient_19A


title: Pre Irradiation patient_14A

description: Pre Irradiation patient_14A


title: Pre Irradiation patient_16A

description: Pre Irradiation patient_16A


title: Pre Irradiation patient_30A

description: Pre Irradiation patient_30A


title: Pre Irradiation patient_12A

description: Pre Irradiation patient_12A


title: Pre Irradiation patient_13A

description: Pre Irradiation patient_13A


title: Pre Irradiation patient_11A

description: Pre Irradiation patient_11A


title: Pre Irradiation patient_36A

description: Pre Irradiation patient_36A


title: Pre Irradiation patient_8A

description: Pre Irradiation patient_8A


title: Pre Irradiation patient_20A

description: Pre Irradiation patient_20A


title: Pre Irradiation patient_10A

description: Pre Irradiation patient_10A


title: Pre Irradiation patient_9A

description: Pre Irradiation patient_9A


title: Pre Irradiation patient_21A

description: Pre Irradiation patient_21A


title: Pre Irradiation patient_5A

description: Pre Irradiation patient_5A


title: Pre Irradiation patient_4A

description: Pre Irradiation patient_4A


title: Healthy donor_55A

description: Healthy donor_55A

source_name: Mononuclear cells, Healthy donor

tag: Mononuclear cells, Healthy donor


title: Pre Irradiation patient_3A

description: Pre Irradiation patient_3A


title: Healthy donor_52A

description: Healthy donor_52A


title: Healthy donor_49A

description: Healthy donor_49A


title: Healthy donor_57A

description: Healthy donor_57A


title: Healthy donor_53A

description: Healthy donor_53A


title: Healthy donor_54A

description: Healthy donor_54A


title: Healthy donor_56A

description: Healthy donor_56A


title: Healthy donor_46A

description: Healthy donor_46A


title: Healthy donor_47A

description: Healthy donor_47A


title: Healthy donor_48A

description: Healthy donor_48A


title: Healthy donor_6A

description: Healthy donor_6A


title: Healthy donor_2A1

description: Healthy donor_2A1


title: Healthy donor_50A

description: Healthy donor_50A


title: Healthy donor_7A

description: Healthy donor_7A


title: Healthy donor_45A

description: Healthy donor_45A


title: Healthy donor_2A

description: Healthy donor_2A


title: Post Chemotherapy patient_66B

description: Post Chemotherapy patient_66B

source_name: Mononuclear cells, Post Chemo patient

treatment_protocol: chemotherapy treatment

tag: Mononuclear cells, Post Chemo patient


title: Post Chemotherapy patient_61B

description: Post Chemotherapy patient_61B


title: Post Chemotherapy patient_67B

description: Post Chemotherapy patient_67B


title: Healthy donor_1A

description: Healthy donor_1A


title: Post Chemotherapy patient_69B

description: Post Chemotherapy patient_69B


title: Post Chemotherapy patient_65B

description: Post Chemotherapy patient_65B


title: Post Chemotherapy patient_63B

description: Post Chemotherapy patient_63B


title: Post Chemotherapy patient_85B

description: Post Chemotherapy patient_85B


title: Post Chemotherapy patient_86B

description: Post Chemotherapy patient_86B


title: Post Chemotherapy patient_89B

description: Post Chemotherapy patient_89B


title: Post Chemotherapy patient_81B

description: Post Chemotherapy patient_81B


title: Post Chemotherapy patient_96B

description: Post Chemotherapy patient_96B


title: Post Chemotherapy patient_82B

description: Post Chemotherapy patient_82B


title: Post Chemotherapy patient_98B

description: Post Chemotherapy patient_98B


title: Post Chemotherapy patient_93B

description: Post Chemotherapy patient_93B


title: Post Chemotherapy patient_87B

description: Post Chemotherapy patient_87B


title: Post Chemotherapy patient_90B

description: Post Chemotherapy patient_90B


title: Post Chemotherapy patient_107B

description: Post Chemotherapy patient_107B


title: Post Chemotherapy patient_84B

description: Post Chemotherapy patient_84B


title: Post Chemotherapy patient_73B

description: Post Chemotherapy patient_73B


title: Healthy donor_51A

description: Healthy donor_51A


title: Post Chemotherapy patient_92B

description: Post Chemotherapy patient_92B


title: Post Chemotherapy patient_106B

description: Post Chemotherapy patient_106B


title: Post Chemotherapy patient_97B

description: Post Chemotherapy patient_97B


title: Post Chemotherapy patient_95B

description: Post Chemotherapy patient_95B


title: Post Chemotherapy patient_88B

description: Post Chemotherapy patient_88B


title: Post Chemotherapy patient_99B

description: Post Chemotherapy patient_99B


title: 36K_Blk_F_0hr_LPS_9

source_name: 36K, Blk, Female, 0hr, LPS

treatment_protocol: LPS

tag: Array

tag: Strain

value: Blk

tag: Gender

value: Female

tag: Time

tag: Agent

value: LPS

tag: Dosage

source_name: Stratagene Universal Mouse reference

tag: Stratagene Universal Mouse reference


title: 36K_Blk_F_0hr_LPS_7


title: Post Chemotherapy patient_105B

description: Post Chemotherapy patient_105B


title: Post Chemotherapy patient_101B

description: Post Chemotherapy patient_101B


title: Post Chemotherapy patient_104B

description: Post Chemotherapy patient_104B


title: 36K_Blk_F_0hr_LPS_6


title: Post Chemotherapy patient_102B

description: Post Chemotherapy patient_102B


title: 36K_Blk_F_0hr_LPS_4


title: 36K_Blk_F_0hr_LPS_3


title: Post Chemotherapy patient_103B

description: Post Chemotherapy patient_103B


title: Post Chemotherapy patient_108B

description: Post Chemotherapy patient_108B


title: 36K_Blk_F_0hr_LPS_2


title: 36K_Blk_F_0hr_LPS_5


title: Post Chemotherapy patient_94B

description: Post Chemotherapy patient_94B


title: 36K_Blk_F_0hr_LPS_10


title: 36K_Blk_F_0hr_LPS_1


title: Pre Chemotherapy patient_82A

description: Pre Chemotherapy patient_82A

source_name: Mononuclear cells, Pre Chemo patient

tag: Mononuclear cells, Pre Chemo patient


title: Pre Chemotherapy patient_81A

description: Pre Chemotherapy patient_81A


title: 36K_Blk_F_0hr_LPS_8


title: Pre Chemotherapy patient_72A

description: Pre Chemotherapy patient_72A


title: Pre Chemotherapy patient_71A

description: Pre Chemotherapy patient_71A


title: 36K_Blk_F_24hr_1000_3

source_name: 36K, Blk, Female, 24hr, 1000

treatment_protocol: 1000 cGy of total body irradiation

value: Radiation


title: 36K_Blk_F_24hr_1000_4


title: 36K_Blk_F_24hr_1000_1


title: Pre Chemotherapy patient_69A

description: Pre Chemotherapy patient_69A


title: 36K_Blk_M_6hr_1000_3

value: Male


title: 36K_Blk_F_24hr_1000_2


title: 36K_Blk_F_7 day_200_9

description: 36K_Blk_F_7 day_200

source_name: 36K, Blk, Female, 7day, 200

treatment_protocol: 200 cGy of total body irradiation


title: Pre Chemotherapy patient_73A

description: Pre Chemotherapy patient_73A


title: Pre Chemotherapy patient_68A

description: Pre Chemotherapy patient_68A


title: Pre Chemotherapy patient_67A

description: Pre Chemotherapy patient_67A


title: 36K_Blk_M_6hr_1000_1


title: Pre Chemotherapy patient_74A

description: Pre Chemotherapy patient_74A


title: 36K_Blk_F_7 day_200_7

description: 36K_Blk_F_7 day_200


title: Pre Chemotherapy patient_66A

description: Pre Chemotherapy patient_66A


title: 36K_Blk_F_7 day_200_8

description: 36K_Blk_F_7 day_200


title: 36K_Blk_F_7 day_200_5

description: 36K_Blk_F_7 day_200


title: 36K_Blk_F_7 day_200_6

description: 36K_Blk_F_7 day_200


title: Pre Chemotherapy patient_65A

description: Pre Chemotherapy patient_65A


title: 36K_Blk_F_7 day_200_2

description: 36K_Blk_F_7 day_200


title: 34K_Balbc_F_6hr_1000_4

source_name: 34K, Balbc, Female, 6hr, 1000

value: Balbc


title: Pre Chemotherapy patient_61A

description: Pre Chemotherapy patient_61A


title: 34K_Balbc_F_6hr_1000_3


title: Pre Chemotherapy patient_85A

description: Pre Chemotherapy patient_85A


title: 36K_Blk_F_7 day_200_1

description: 36K_Blk_F_7 day_200


title: Pre Chemotherapy patient_90A

description: Pre Chemotherapy patient_90A


title: 36K_Blk_F_7 day_200_10

description: 36K_Blk_F_7 day_200


title: 36K_Blk_F_24hr_200_6

source_name: 36K, Blk, Female, 24hr, 200


title: 34K_Blk_M_24hr_1000_8


title: 34K_Balbc_F_6hr_1000_2


title: Pre Chemotherapy patient_89A

description: Pre Chemotherapy patient_89A


title: 36K_Blk_F_24hr_200_5


title: 34K_Balbc_F_6hr_1000_1


title: 34K_Blk_M_6hr_1000_5


title: 34K_Balbc_F_6hr_1000_6


title: 34K_Blk_M_6hr_1000_4


title: 34K_Blk_M_24hr_1000_7


title: Pre Chemotherapy patient_86A

description: Pre Chemotherapy patient_86A


title: Pre Chemotherapy patient_87A

description: Pre Chemotherapy patient_87A


title: 34K_Balbc_F_6hr_1000_5


title: 34K_Blk_M_6hr_1000_3


title: 34K_Blk_M_6hr_1000_2


title: Pre Chemotherapy patient_84A

description: Pre Chemotherapy patient_84A


title: 34K_Blk_M_24hr_1000_6


title: 34K_Blk_M_6hr_1000_1


title: 34K_Blk_M_24hr_1000_4


title: 34K_Blk_M_24hr_1000_3


title: 36K_Blk_F_24hr_200_2


title: Pre Chemotherapy patient_98A

description: Pre Chemotherapy patient_98A


title: 34K_Blk_M_24hr_1000_5


title: Pre Chemotherapy patient_97A

description: Pre Chemotherapy patient_97A


title: 36K_Blk_M_7day_200_7

source_name: 36K, Blk, Male, 7day, 200


title: Pre Chemotherapy patient_88A

description: Pre Chemotherapy patient_88A


title: Pre Chemotherapy patient_104A

description: Pre Chemotherapy patient_104A


title: 34K_Blk_F_6hr_1000_7

source_name: 34K, Blk, Female, 6hr, 1000


title: 34K_Blk_F_6hr_1000_3


title: 34K_Blk_F_6hr_1000_5


title: 34K_Blk_F_6hr_1000_6


title: 36K_Blk_M_6hr_200_1

source_name: 36K, Blk, Male, 6hr, 200


title: 34K_Blk_F_6hr_1000_4


title: 34K_Blk_F_6hr_1000_2


title: 36K_Blk_M_7day_200_5


title: Pre Chemotherapy patient_96A

description: Pre Chemotherapy patient_96A


title: 34K_Blk_F_6hr_1000_1


title: Pre Chemotherapy patient_106A

description: Pre Chemotherapy patient_106A


title: 36K_Blk_F_7 day_50_9

description: 36K_Blk_F_7 day_50

source_name: 36K, Blk, Female, 7day, 50

treatment_protocol: 50 cGy of total body irradiation


title: 34K_Balbc_F_6hr_200_7

source_name: 34K, Balbc, Female, 6hr, 200


title: Pre Chemotherapy patient_93A

description: Pre Chemotherapy patient_93A


title: 34K_Balbc_F_6hr_200_5


title: 34K_Balbc_F_6hr_200_4


title: 34K_Balbc_F_6hr_200_6


title: 34K_Balbc_F_6hr_200_3


title: 36K_Blk_F_7 day_50_8

description: 36K_Blk_F_7 day_50


title: Pre Chemotherapy patient_107A

description: Pre Chemotherapy patient_107A


title: 34K_Balbc_F_6hr_200_9


title: Pre Chemotherapy patient_99A

description: Pre Chemotherapy patient_99A


title: 36K_Blk_F_7 day_50_7

description: 36K_Blk_F_7 day_50


title: 34K_Balbc_F_6hr_200_2


title: 34K_Balbc_F_6hr_200_1


title: 34K_Blk_M_6hr_200_4

source_name: 34K, Blk, Male, 6hr, 200


title: Pre Chemotherapy patient_105A

description: Pre Chemotherapy patient_105A

source_name: Stratagene Universal Human reference


title: 34K_Balbc_F_6hr_200_8


title: 36K_Blk_F_7 day_50_6

description: 36K_Blk_F_7 day_50


title: Pre Chemotherapy patient_100A

description: Pre Chemotherapy patient_100A


title: 34K_Blk_M_6hr_200_2


title: 34K_Blk_M_6hr_200_3


title: 36K_Blk_F_7 day_50_4

description: 36K_Blk_F_7 day_50


title: 34K_Blk_M_24hr_200_7


title: Pre Chemotherapy patient_102A

description: Pre Chemotherapy patient_102A


title: 36K_Blk_F_7 day_50_5

description: 36K_Blk_F_7 day_50


title: 34K_Blk_M_6hr_200_1


title: 36K_Blk_F_7 day_50_3

description: 36K_Blk_F_7 day_50


title: 34K_Blk_M_24hr_200_5


title: 36K_Blk_F_7 day_50_2

description: 36K_Blk_F_7 day_50


title: 34K_Blk_M_24hr_200_3


title: 36K_Blk_F_7 day_50_1

description: 36K_Blk_F_7 day_50


title: 34K_Blk_M_24hr_200_4


title: 34K_Blk_M_24hr_200_1


title: 34K_Blk_M_24hr_200_6


title: Pre Chemotherapy patient_103A

description: Pre Chemotherapy patient_103A


title: Pre Chemotherapy patient_95A

description: Pre Chemotherapy patient_95A


title: 34K_Blk_F_6hr_200_6

source_name: 34K, Blk, Female, 6hr, 200


title: Pre Chemotherapy patient_101A

description: Pre Chemotherapy patient_101A


title: 34K_Blk_F_6hr_200_5


title: 34K_Blk_F_6hr_200_7


title: 34K_Blk_F_6hr_200_2


title: Pre Chemotherapy patient_108A

description: Pre Chemotherapy patient_108A


title: 36K_Blk_F_24hr_50_7

source_name: 36K, Blk, Female, 24hr, 50


title: 36K_Blk_M_7day_200_4