title: Ecoli_Recovery in 10mM Na-P + 0.2 % glucose T7

description:
Recovery in 10mM Na-P + 0.2 % glucose,90 min

Recovery from stationary phase of Escherichia coli MG1655 cells 10 mM Na-P + 0.2 % glucose (pH 7.5) vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, Bonner-Vogel OD~0.5

source_name: Escherichia coli MG1655, 90 min recovery in 10mM Na-P + 0.2 % glucose

tag: Escherichia coli MG1655, 90 min recovery in 10 mM Na-P + 0.2 % glucose (pH 7.5) at OD 0.4


title: Ecoli_Recovery in 10mM Na-P + 0.2 % glucose T6

status: Public on Mar 08 2006

type: RNA

city: Princeton

first: Dipen

last: Sangurdekar

state: NJ

address: 132 Carl Icahn laboratory, Princeton University

department: Lewis-Sigler Institute for Integrative Genomics

country: USA

institute: Princeton University

description:
Recovery in 10mM Na-P + 0.2 % glucose, 75 min

Recovery from stationary phase of Escherichia coli MG1655 cells 10 mM Na-P + 0.2 % glucose (pH 7.5) vs Bogel-Vonner OD 0.5

data_processing: Normalized log (2) ratio of Cy5/Cy3, normalized using lowess

molecule: total RNA

organism: Escherichia coli

tag: Escherichia coli MG1655, Bonner-Vogel OD~0.5

source_name: Escherichia coli MG1655, 75 min recovery in 10mM Na-P + 0.2 % glucose

tag: Escherichia coli MG1655, 75 min recovery in 10 mM Na-P + 0.2 % glucose (pH 7.5) at OD 0.4


title: Ecoli_Recovery in 10mM Na-P T6

description:
Recovery in 10mM Na-P, 75 min

Recovery from stationary phase of Escherichia coli MG1655 cells 10 mM Na-P (pH 7.5) vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 75 min recovery in 10mM Na-P

tag: Escherichia coli MG1655, 75 min recovery in 10 mM Na-P (pH 7.5)


title: Ecoli_Novobiocin treatment (5 ug/ml)

description: Novobiocin (5 ug/ml) in LB, 5 min timepoint vs 0 min

source_name: Escherichia coli LE234 acrD-, LB, 0 min before treatment

tag: Escherichia coli LE234 acrD-, 0 min before treatment in LB

source_name: Escherichia coli LE234 acrD-, 5 min after Novobiocin (5 ug/ml) addition in LB


title: Ecoli_Recovery in 10mM Na-P T7

description:
Recovery in 10mM Na-P,90 min

Recovery from stationary phase of Escherichia coli MG1655 cells 10 mM Na-P (pH 7.5) vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 90 min recovery in 10mM Na-P

tag: Escherichia coli MG1655, 90 min recovery in 10 mM Na-P (pH 7.5)


title: Ecoli_Recovery in 10mM Na-P + 0.2 % glucose T4

description:
Recovery in 10mM Na-P + 0.2 % glucose, 45 min

Recovery from stationary phase of Escherichia coli MG1655 cells 10 mM Na-P + 0.2 % glucose (pH 7.5) vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 45min recovery in 10mM Na-P + 0.2 % glucose

tag: Escherichia coli MG1655, 45min recovery in 10 mM Na-P + 0.2 % glucose (pH 7.5) at OD 0.4


title: Ecoli_Recovery in 10mM Na-P T2

description:
Recovery in 10mM Na-P, 15 min

Recovery from stationary phase of Escherichia coli MG1655 cells 10 mM Na-P (pH 7.5) vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 15 min recovery in 10mM Na-P

tag: Escherichia coli MG1655, 15 min recovery in 10 mM Na-P (pH 7.5)


title: Ecoli_Sodium Azide treatment T3

description: 30 min 0.01 M Sodium Azide treatment vs 0 min before treatment in Bonner-Vogel medium

source_name: Escherichia coli W3110, 0 min before treatment in Bonner-Vogel + 50 ug/ml Tryptophan

tag: Escherichia coli W3110, 0  min before treatment, Bonner-Vogel + 50 ug/ml Tryptophan

source_name: Escherichia coli W3110,5 min 0.01 M Sodium Azide treatment vs 0 min before treatment in Bonner-Vogel + 50 ug/ml Tryptophan


title: Ecoli_Recovery in 10mM Na-P + 0.2 % glucose T2

description:
Recovery in 10mM Na-P + 0.2 % glucose, 15 min

Recovery from stationary phase of Escherichia coli MG1655 cells 10 mM Na-P + 0.2 % glucose (pH 7.5) vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 15 min recovery in 10mM Na-P + 0.2 % glucose

tag: Escherichia coli MG1655, 15 min recovery in 10 mM Na-P + 0.2 % glucose (pH 7.5) at OD 0.4


title: Ecoli_Sodium Azide treatment T4

description: 60 min 0.01 M Sodium Azide treatment vs 0 min before treatment in Bonner-Vogel medium

tag: Escherichia coli W3110,5 min 0.01 M Sodium Azide treatment vs 0 min before treatment in Bonner-Vogel + 50 ug/ml Tryptophan


title: Ecoli_Recovery in 10mM Na-P T1

description:
Recovery in 10mM Na-P, 0 min

Recovery from stationary phase of Escherichia coli MG1655 cells 10 mM Na-P (pH 7.5) vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 0 min recovery in 10mM Na-P

tag: Escherichia coli MG1655, 0 min recovery in 10 mM Na-P (pH 7.5)


title: Ecoli_Sodium Azide treatment T1

description: 5 min 0.01 M Sodium Azide treatment vs 0 min before treatment in Bonner-Vogel medium


title: Ecoli_Recovery in 10mM Na-P T4

description:
Recovery in 10mM Na-P, 45 min

Recovery from stationary phase of Escherichia coli MG1655 cells 10 mM Na-P (pH 7.5) vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 45min recovery in 10mM Na-P

tag: Escherichia coli MG1655, 45min recovery in 10 mM Na-P (pH 7.5)


title: Ecoli_gyrArparCr_Norfloxacin (50 ug/ml) treatment T4

description: Ecoli_gyrArparCr_Norfloxacin (50 ug/ml) in LB, 20 min timepoint vs 0 min

source_name: Escherichia coli C600 (gyrArparCr), LB, 0 min before treatment

tag: Escherichia coli C600 (gyrArparCr), LB

source_name: Escherichia coli C600 (gyrArparCr), 20min after Norfloxacin (50 ug/ml) addition in LB


title: Ecoli_Recovery in 10mM Na-P + 0.2 % glucose T5

description:
Recovery in 10mM Na-P + 0.2 % glucose, 60 min

Recovery from stationary phase of Escherichia coli MG1655 cells 10 mM Na-P + 0.2 % glucose (pH 7.5) vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 60 min recovery in 10mM Na-P + 0.2 % glucose

tag: Escherichia coli MG1655, 60 min recovery in 10 mM Na-P + 0.2 % glucose (pH 7.5) at OD 0.4


title: Ecoli_Recovery in 10mM Na-P T3

description:
Recovery in 10mM Na-P, 30 min

Recovery from stationary phase of Escherichia coli MG1655 cells 10 mM Na-P (pH 7.5) vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, Bonner-Vogel OD~0.5

source_name: Escherichia coli MG1655, 30 min recovery in 10mM Na-P

tag: Escherichia coli MG1655, 30 min recovery in 10 mM Na-P (pH 7.5)


title: Ecoli_Recovery in 10mM Na-P + 0.2 % glucose T3

description:
Recovery in 10mM Na-P + 0.2 % glucose, 30 min

Recovery from stationary phase of Escherichia coli MG1655 cells 10 mM Na-P + 0.2 % glucose (pH 7.5) vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 30 min recovery in 10mM Na-P + 0.2 % glucose

tag: Escherichia coli MG1655, 30 min recovery in 10 mM Na-P + 0.2 % glucose (pH 7.5) at OD 0.4


title: Ecoli_Recovery in 10mM Na-P + 0.2 % glucose T1

description:
Recovery in 10mM Na-P + 0.2 % glucose, 0 min

Recovery from stationary phase of Escherichia coli MG1655 cells 10 mM Na-P + 0.2 % glucose (pH 7.5) vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 0 min recovery in 10mM Na-P + 0.2 % glucose

tag: Escherichia coli MG1655, 0 min recovery in 10 mM Na-P + 0.2 % glucose (pH 7.5) at OD 0.4


title: Ecoli_Recovery in 10mM Na-P T5

description:
Recovery in 10mM Na-P, 60 min

Recovery from stationary phase of Escherichia coli MG1655 cells 10 mM Na-P (pH 7.5) vs Bogel-Vonner OD 0.5

tag: Escherichia coli MG1655, Bonner-Vogel OD~0.5

source_name: Escherichia coli MG1655, 60 min recovery in 10mM Na-P

tag: Escherichia coli MG1655, 60 min recovery in 10 mM Na-P (pH 7.5)


title: Ecoli_gyrArparCr_Norfloxacin (50 ug/ml) treatment T5

description: Ecoli_gyrArparCr_Norfloxacin (50 ug/ml) in LB, 30 min timepoint vs 0 min

source_name: Escherichia coli C600 (gyrArparCr), 30 min after Norfloxacin (50 ug/ml) addition in LB


title: Ecoli_gyrArparCr_Norfloxacin (50 ug/ml) treatment T2

description: Ecoli_gyrArparCr_Norfloxacin (50 ug/ml) in LB, 5 min timepoint vs 0 min

source_name: Escherichia coli C600 (gyrArparCr), 5 min after Norfloxacin (50 ug/ml) addition in LB


title: Ecoli_gyrArparCr_Norfloxacin (15 ug/ml) treatment T4

description: Ecoli_gyrArparCr_Norfloxacin (15 ug/ml) in LB, 20 min timepoint vs 0 min

source_name: Escherichia coli C600 (gyrArparCr), 20min after Norfloxacin (15 ug/ml) addition in LB


title: Ecoli_gyrArparCr_Norfloxacin (15 ug/ml) treatment T5

description: Ecoli_gyrArparCr_Norfloxacin (15 ug/ml) in LB, 30 min timepoint vs 0 min

source_name: Escherichia coli C600 (gyrArparCr), 30 min after Norfloxacin (15 ug/ml) addition in LB


title: Ecoli_gyrArparCr_Norfloxacin (50 ug/ml) treatment T1

description: Ecoli_gyrArparCr_Norfloxacin (50 ug/ml) in LB, 2 min timepoint vs 0 min

source_name: Escherichia coli C600 (gyrArparCr), 2 min after Norfloxacin (50 ug/ml) addition in LB


title: Ecoli_gyrArparCr_Norfloxacin (15 ug/ml) treatment T3

description: Ecoli_gyrArparCr_Norfloxacin (15 ug/ml) in LB, 10 min timepoint vs 0 min

source_name: Escherichia coli C600 (gyrArparCr), 10 min after Norfloxacin (15 ug/ml) addition in LB


title: Ecoli_Norfloxacin (50 ug/ml) treatment T4

description: Ecoli_Norfloxacin (50 ug/ml) in LB, 20 min timepoint vs 0 min

source_name: Escherichia coli C600 , LB, 0 min before treatment

tag: Escherichia coli C600 , LB

source_name: Escherichia coli C600 , 20min after Norfloxacin (50 ug/ml) addition in LB


title: Ecoli_NOX-_balanced groNOX-h at OD 0.19

description: Balanced growth of Ecoli MG1655/pTrc99a(NOX-) in M9 + salts

source_name: Escherichia coli MG1655/pTrc99a (NOX-), Balanced growth OD 0.1 in M9 + salts

source_name: Escherichia coli MG1655/pTrc99a (NOX-), Balanced growth OD 0.19 in M9 + salts


title: Ecoli_Norfloxacin (50 ug/ml) treatment T5

description: Ecoli_Norfloxacin (50 ug/ml) in LB, 30 min timepoint vs 0 min

source_name: Escherichia coli C600 , 30 min after Norfloxacin (50 ug/ml) addition in LB


title: Ecoli_NOX+_balanced growth at OD 0.13

description: Balanced growth of Ecoli MG1655/pTrc99a(NOX+) in M9 + salts

source_name: Escherichia coli MG1655/pTrc99a (NOX+), Balanced growth OD 0.06 in M9 + salts

source_name: Escherichia coli MG1655/pTrc99a (NOX+), Balanced growth OD 0.13 in M9 + salts


title: Ecoli_NOX+_balanced growth at OD 0.34

tag: Escherichia coli MG1655/pTrc99a (NOX+), Balanced growth OD 0.06 in M9 + salts

source_name: Escherichia coli MG1655/pTrc99a (NOX+), Balanced growth OD 0.34 in M9 + salts


title: Ecoli_gyrArparCr_Norfloxacin (15 ug/ml) treatment T1

description: Ecoli_gyrArparCr_Norfloxacin (15 ug/ml) in LB, 2 min timepoint vs 0 min

source_name: Escherichia coli C600 (gyrArparCr), LB, 0 min before treatment

source_name: Escherichia coli C600 (gyrArparCr), 2 min after Norfloxacin (15 ug/ml) addition in LB


title: Ecoli_NOX+_balanced growth at OD 0.4

source_name: Escherichia coli MG1655/pTrc99a (NOX+), Balanced growth OD 0.4 in M9 + salts


title: Ecoli_Norfloxacin (50 ug/ml) treatment T3

description: Ecoli_Norfloxacin (50 ug/ml) in LB, 10 min timepoint vs 0 min

source_name: Escherichia coli C600 , 10 min after Norfloxacin (50 ug/ml) addition in LB


title: Ecoli_NOX-_balanced groNOX-h at OD 0.3

tag: Escherichia coli MG1655/pTrc99a (NOX-), Balanced growth OD 0.1 in M9 + salts

tag: Escherichia coli MG1655/pTrc99a (NOX-), Balanced growth OD 0.19 in M9 + salts


title: Ecoli_Norfloxacin (50 ug/ml) treatment T2

description: Ecoli_Norfloxacin (50 ug/ml) in LB, 5 min timepoint vs 0 min

source_name: Escherichia coli C600 , 5 min after Norfloxacin (50 ug/ml) addition in LB


title: Ecoli_Late Recovery in LB T3

description:
Recovery in LB + glucose at OD 1.0, 30 min

Recovery from stationary phase of Escherichia coli MG1655 cells LB + glucose at OD 1.0 vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, Bonner-Vogel OD~0.5

source_name: Escherichia coli MG1655, 30 min recovery in LB + glucose at OD 1.0


title: Ecoli_Late Recovery in LB T2

description:
Recovery in LB + glucose at OD 1.0, 15 min

Recovery from stationary phase of Escherichia coli MG1655 cells LB + glucose at OD 1.0 vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 15 min recovery in LB + glucose at OD 1.0


title: Ecoli_Late Recovery in LB T6

description:
Recovery in LB + glucose at OD 1.0, 75 min

Recovery from stationary phase of Escherichia coli MG1655 cells LB + glucose at OD 1.0 vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 75 min recovery in LB + glucose at OD 1.0


title: Ecoli_Late Recovery in LB T7

description:
Recovery in LB + glucose at OD 1.0,90 min

Recovery from stationary phase of Escherichia coli MG1655 cells LB + glucose at OD 1.0 vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 90 min recovery in LB + glucose at OD 1.0


title: Ecoli_Norfloxacin (50 ug/ml) treatment T1

description: Ecoli_Norfloxacin (50 ug/ml) in LB, 2 min timepoint vs 0 min

source_name: Escherichia coli C600 , LB, 0 min before treatment

source_name: Escherichia coli C600 , 2 min after Norfloxacin (50 ug/ml) addition in LB


title: Ecoli_NOX-_balanced groNOX-h at OD 0.6

source_name: Escherichia coli MG1655/pTrc99a (NOX-), Balanced growth OD 0.1 in M9 + salts

source_name: Escherichia coli MG1655/pTrc99a (NOX-), Balanced growth OD 0.19 in M9 + salts


title: Ecoli_LB growth T10

description:
LB growth, WT, 443 min

Recovery from stationary phase of Escherichia coli MG1655 cells in LB+0.2 % glucose vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 443 min recovery in LB+0.2% glc


title: Ecoli_Late Recovery in LB T1

description:
Recovery in LB + glucose at OD 1.0, 0 min

Recovery from stationary phase of Escherichia coli MG1655 cells LB + glucose at OD 1.0 vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 0 min recovery in LB + glucose at OD 1.0


title: Ecoli_LB growth T11

description:
LB growth, WT, 1440 min

Recovery from stationary phase of Escherichia coli MG1655 cells in LB+0.2 % glucose vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 1440 min recovery in LB+0.2% glc


title: Ecoli_NOX+_balanced growth at OD 0.28

source_name: Escherichia coli MG1655/pTrc99a (NOX+), Balanced growth OD 0.06 in M9 + salts

source_name: Escherichia coli MG1655/pTrc99a (NOX+), Balanced growth OD 0.28 in M9 + salts


title: Ecoli_NOX+_balanced growth at OD 0.21

source_name: Escherichia coli MG1655/pTrc99a (NOX+), Balanced growth OD 0.21in M9 + salts


title: Ecoli_Late Recovery in LB T5

description:
Recovery in LB + glucose at OD 1.0, 60 min

Recovery from stationary phase of Escherichia coli MG1655 cells LB + glucose at OD 1.0 vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 60 min recovery in LB + glucose at OD 1.0


title: Ecoli_Sodium Azide treatment T2

description: 15 min 0.01 M Sodium Azide treatment vs 0 min before treatment in Bonner-Vogel medium

source_name: Escherichia coli W3110, 0 min before treatment in Bonner-Vogel + 50 ug/ml Tryptophan

source_name: Escherichia coli W3110,5 min 0.01 M Sodium Azide treatment vs 0 min before treatment in Bonner-Vogel + 50 ug/ml Tryptophan


title: Ecoli_NOX-_balanced groNOX-h at OD 0.49


title: Ecoli_NOX-_balanced groNOX-h at OD 0.41


title: Ecoli_Late Recovery in LB T4

description:
Recovery in LB + glucose at OD 1.0, 45 min

Recovery from stationary phase of Escherichia coli MG1655 cells LB + glucose at OD 1.0 vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, Bonner-Vogel OD~0.5

source_name: Escherichia coli MG1655, 45min recovery in LB + glucose at OD 1.0


title: Ecoli_LB growth T8

description:
LB growth, WT, 261 min

Recovery from stationary phase of Escherichia coli MG1655 cells in LB+0.2 % glucose vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 261 min recovery in LB+0.2% glc


title: Ecoli_LB growth T5

description:
LB growth, WT, 163 min

Recovery from stationary phase of Escherichia coli MG1655 cells in LB+0.2 % glucose vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 163 min recovery in LB+0.2% glc


title: Ecoli_LB growth T6

description:
LB growth, WT, 191 min

Recovery from stationary phase of Escherichia coli MG1655 cells in LB+0.2 % glucose vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 191 min recovery in LB+0.2% glc


title: Ecoli_LB growth T7

description:
LB growth, WT, 218 min

Recovery from stationary phase of Escherichia coli MG1655 cells in LB+0.2 % glucose vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 218 min recovery in LB+0.2% glc


title: Ecoli_Anaerobic growth in M9 + glucose, reference Genomic DNA T1

type: mixed

description: Anaerobic growth in glucose, OD 0.03 vs genomic DNA

molecule: genomic DNA

source_name: Escherichia coli MG1655 genomic DNA

label_protocol: Labeling of DNA using DNA polymerase (Klenow fragment)

tag: Escherichia coli MG1655 genomic DNA

source_name: Escherichia coli MG1655, OD 0.03, anaerobic growth in M9 + glucose


title: Ecoli_Kanamycin treatment T4

description: Kanamycin (100 ug/ml) in M9 + glucose, 30 min timepoint vs 0 min glucose, 45 min

source_name: Escherichia coli MG1655, M9 + glucose, 0 min before treatment

tag: Escherichia coli MG1655, M9 + glucose

source_name: Escherichia coli MG1655, 45min after Kanamycin (100 ug/ml) addition in M9 + glucose

tag: Escherichia coli MG1655, 30 min after Kanamycin (100 ug/ml) addition in M9 + glucose


title: Ecoli_LB growth T2

description:
LB growth, WT, 78 min

Recovery from stationary phase of Escherichia coli MG1655 cells in LB+0.2 % glucose vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 78 min recovery in LB+0.2% glc


title: Ecoli_LB growth T4

description:
LB growth, WT, 133 min

Recovery from stationary phase of Escherichia coli MG1655 cells in LB+0.2 % glucose vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 133 min recovery in LB+0.2% glc


title: Ecoli_LB growth T1

description:
LB growth, WT, 2 min

Recovery from stationary phase of Escherichia coli MG1655 cells in LB+0.2 % glucose vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 0 min recovery in LB+0.2% glc


title: Ecoli_Kanamycin treatment T3

description: Kanamycin (100 ug/ml) in M9 + glucose, 20 min timepoint vs 0 min glucose, 30 min

source_name: Escherichia coli MG1655, 30 min after Kanamycin (100 ug/ml) addition in M9 + glucose

tag: Escherichia coli MG1655, 20 min after Kanamycin (100 ug/ml) addition in M9 + glucose


title: Ecoli_gyrArparCr_Norfloxacin (15 ug/ml) treatment T2

description: Ecoli_gyrArparCr_Norfloxacin (15 ug/ml) in LB, 5 min timepoint vs 0 min

source_name: Escherichia coli C600 (gyrArparCr), LB, 0 min before treatment

source_name: Escherichia coli C600 (gyrArparCr), 5 min after Norfloxacin (15 ug/ml) addition in LB


title: Ecoli_Kanamycin treatment T2

description: Kanamycin (100 ug/ml) in M9 + glucose, 10 min timepoint vs 0 min glucose, 15 min

source_name: Escherichia coli MG1655, 15 min after Kanamycin (100 ug/ml) addition in M9 + glucose

tag: Escherichia coli MG1655, 10 min after Kanamycin (100 ug/ml) addition in M9 + glucose


title: Ecoli_gyrArparCr_Norfloxacin (50 ug/ml) treatment T3

description: Ecoli_gyrArparCr_Norfloxacin (50 ug/ml) in LB, 10 min timepoint vs 0 min

source_name: Escherichia coli C600 (gyrArparCr), 10 min after Norfloxacin (50 ug/ml) addition in LB


title: Ecoli_Indol-acrylate (10 ug/ml) treatment T2

description: Indol-acrylate (10 ug/ml)  in Bonner-Vogel, 15 min timepoint vs 0 min

source_name: Escherichia coli MG1655, Bonner-Vogel, 0 min before treatment

tag: Escherichia coli MG1655, Bonner-Vogel

source_name: Escherichia coli MG1655, 15 min after Indol-acrylate (10 ug/ml)  addition in Bonner-Vogel


title: Ecoli_Indol-acrylate (15 ug/ml) treatment T2

description: Indol-acrylate (15 ug/ml)  in Bonner-Vogel, 15 min timepoint vs 0 min

source_name: Escherichia coli MG1655, 15 min after Indol-acrylate (15 ug/ml)  addition in Bonner-Vogel


title: Ecoli_Kanamycin treatment T5

description: Kanamycin (100 ug/ml) in M9 + glucose, 40 min timepoint vs 0 min glucose, 60 min

source_name: Escherichia coli MG1655, 60 min after Kanamycin (100 ug/ml) addition in M9 + glucose

tag: Escherichia coli MG1655, 40 min after Kanamycin (100 ug/ml) addition in M9 + glucose


title: Ecoli_Indol-acrylate (15 ug/ml) treatment T1

description: Indol-acrylate (15 ug/ml)  in Bonner-Vogel, 5 min timepoint vs 0 min

source_name: Escherichia coli MG1655, 5 min after Indol-acrylate (15 ug/ml)  addition in Bonner-Vogel


title: Ecoli_Indol-acrylate (15 ug/ml) treatment T4

description: Indol-acrylate (15 ug/ml)  in Bonner-Vogel, 60 min timepoint vs 0 min

source_name: Escherichia coli MG1655, 60 min after Indol-acrylate (15 ug/ml)  addition in Bonner-Vogel


title: Ecoli_Kanamycin treatment T6

description:
Kanamycin (100 ug/ml) in M9 + glucose, 50 min timepoint vs 0 min glucose, 75 min

Kanamycin (100 ug/ml) treatment in M9 + glucose

source_name: Escherichia coli MG1655, 75 min after Kanamycin (100 ug/ml) addition in M9 + glucose

tag: Escherichia coli MG1655, 50 min after Kanamycin (100 ug/ml) addition in M9 + glucose


title: Ecoli_Indol-acrylate (10 ug/ml) treatment T1

description: Indol-acrylate (10 ug/ml)  in Bonner-Vogel, 5 min timepoint vs 0 min

source_name: Escherichia coli MG1655, 5 min after Indol-acrylate (10 ug/ml)  addition in Bonner-Vogel


title: Ecoli_Kanamycin treatment T1

description: Kanamycin (100 ug/ml) in M9 + glucose, 5 min timepoint vs 0 min glucose, 0 min

source_name: Escherichia coli MG1655, M9 + glucose, 0 min before treatment

source_name: Escherichia coli MG1655, 0 min after Kanamycin (100 ug/ml) addition in M9 + glucose

tag: Escherichia coli MG1655, 5 min after Kanamycin (100 ug/ml) addition in M9 + glucose


title: Ecoli_Indol-acrylate (10 ug/ml) treatment T4

description: Indol-acrylate (10 ug/ml)  in Bonner-Vogel, 60 min timepoint vs 0 min

source_name: Escherichia coli MG1655, 60 min after Indol-acrylate (10 ug/ml)  addition in Bonner-Vogel


title: Ecoli_Indol-acrylate (15 ug/ml) treatment T3

description: Indol-acrylate (15 ug/ml)  in Bonner-Vogel, 30 min timepoint vs 0 min

source_name: Escherichia coli MG1655, 30 min after Indol-acrylate (15 ug/ml)  addition in Bonner-Vogel


title: Ecoli_Early Recovery in LB T6

description: Recovery from stationary phase of Escherichia coli MG1655 cells LB + glucose at OD 0.4 vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, Bonner-Vogel OD~0.5

source_name: Escherichia coli MG1655, 75 min recovery in LB + glucose at OD 0.4


title: Ecoli_Early Recovery in LB T7

source_name: Escherichia coli MG1655, 90 min recovery in LB + glucose at OD 0.4


title: Ecoli_Indol-acrylate (10 ug/ml) treatment T3

description: Indol-acrylate (10 ug/ml)  in Bonner-Vogel, 30 min timepoint vs 0 min

source_name: Escherichia coli MG1655, 30 min after Indol-acrylate (10 ug/ml)  addition in Bonner-Vogel


title: Ecoli_Early Recovery in LB T4

source_name: Escherichia coli MG1655, 45min recovery in LB + glucose at OD 0.4


title: Ecoli_Early Recovery in LB T2

source_name: Escherichia coli MG1655, 15 min recovery in LB + glucose at OD 0.4


title: Ecoli_Early Recovery in LB T1

source_name: Escherichia coli MG1655, 0 min recovery in LB + glucose at OD 0.4


title: Ecoli_CaCl2 wash T6

source_name: Escherichia coli MG1655, OD 0.43 LB

tag: Escherichia coli MG1655, OD 0.43 LB

source_name: Escherichia coli MG1655,Sample washed in 0.1 M CaCl2 + 15 % glycerol vs before washing OD 0.43 in LB, 60 min timepoint


title: Ecoli_LB growth T9

description:
LB growth, WT, 313 min

Recovery from stationary phase of Escherichia coli MG1655 cells in LB+0.2 % glucose vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, 313 min recovery in LB+0.2% glc


title: Ecoli_CaCl2 wash T2

source_name: Escherichia coli MG1655,Sample washed in 0.1 M CaCl2 + 15 % glycerol vs before washing OD 0.43 in LB, 5 min timepoint


title: Ecoli_Early Recovery in LB T3

source_name: Escherichia coli MG1655, 30 min recovery in LB + glucose at OD 0.4


title: Ecoli_CaCl2 wash T4

source_name: Escherichia coli MG1655,Sample washed in 0.1 M CaCl2 + 15 % glycerol vs before washing OD 0.43 in LB, 20 min timepoint


title: Ecoli_CaCl2 wash T5

source_name: Escherichia coli MG1655,Sample washed in 0.1 M CaCl2 + 15 % glycerol vs before washing OD 0.43 in LB, 40 min timepoint


title: Ecoli_Ampicillin treatment T5

description: Ampicillin (100 ug/ml) in M9 + glucose, 40 min timepoint vs 0 min glucose, 60 min

source_name: Escherichia coli MG1655, M9 + glucose, 0 min before treatment

source_name: Escherichia coli MG1655, 60 min after Ampicillin (100 ug/ml) addition in M9 + glucose

tag: Escherichia coli MG1655, 40 min after Ampicillin (100 ug/ml) addition in M9 + glucose


title: Ecoli_CaCl2 wash T1

source_name: Escherichia coli MG1655,Sample washed in 0.1 M CaCl2 + 15 % glycerol vs before washing OD 0.43 in LB, 2 min timepoint


title: Ecoli_Ampicillin treatment T4

description: Ampicillin (100 ug/ml) in M9 + glucose, 30 min timepoint vs 0 min glucose, 45 min

source_name: Escherichia coli MG1655, 45min after Ampicillin (100 ug/ml) addition in M9 + glucose

tag: Escherichia coli MG1655, 30 min after Ampicillin (100 ug/ml) addition in M9 + glucose


title: Ecoli_Ampicillin treatment T2

description: Ampicillin (100 ug/ml) in M9 + glucose, 10 min timepoint vs 0 min glucose, 15 min

source_name: Escherichia coli MG1655, 15 min after Ampicillin (100 ug/ml) addition in M9 + glucose

tag: Escherichia coli MG1655, 10 min after Ampicillin (100 ug/ml) addition in M9 + glucose


title: Ecoli_Ampicillin treatment T6

description: Ampicillin (100 ug/ml) in M9 + glucose, 50 min timepoint vs 0 min glucose, 75 min

source_name: Escherichia coli MG1655, 75 min after Ampicillin (100 ug/ml) addition in M9 + glucose

tag: Escherichia coli MG1655, 50 min after Ampicillin (100 ug/ml) addition in M9 + glucose


title: Ecoli_Ampicillin treatment T3

description: Ampicillin (100 ug/ml) in M9 + glucose, 20 min timepoint vs 0 min glucose, 30 min

source_name: Escherichia coli MG1655, 30 min after Ampicillin (100 ug/ml) addition in M9 + glucose

tag: Escherichia coli MG1655, 20 min after Ampicillin (100 ug/ml) addition in M9 + glucose


title: Ecoli_Ampicillin treatment T1

description: Ampicillin (100 ug/ml) in M9 + glucose, 5 min timepoint vs 0 min glucose, 0 min

source_name: Escherichia coli MG1655, 0 min after Ampicillin (100 ug/ml) addition in M9 + glucose

tag: Escherichia coli MG1655, 5 min after Ampicillin (100 ug/ml) addition in M9 + glucose


title: Ecoli_CaCl2 wash T3

source_name: Escherichia coli MG1655,Sample washed in 0.1 M CaCl2 + 15 % glycerol vs before washing OD 0.43 in LB, 10 min timepoint


title: IGR B190D wt H3K4Me2

status: Public on Mar 06 2006

type: genomic

city: Stockholm

first: Karl

last: Ekwall

address: Alfred Nobels Alle 7

country: Sweden

institute: Karolinska Inst

description: Highly specific antibodies for H3K4me2 developed and titrated for ChIP (Suka et al., 2001) was used for ChIP of chromatin extracts from wt cells. Cell cultures was then grown to mid logarithmic growth phase (5 x106 cells/ml) in rich medium before fixation and ChIP. The resulting ChIP DNA was labeled with Cy5. The wt control ChIP DNA was labeled with Cy3 and simultaneously hybridized with the Cy5 labeled DNA to the IGR+ORF microarrays to produce genome wide histone H3K4 methylation maps.

organism: Schizosaccharomyces pombe

source_name: CHIP IP wt H3K4Me2

tag: wt sample where H3K4Me2 antibody was used

source_name: CHIP IP Wt

tag: Wt sample


title: ORF B190D wt H3K4Me2


title: Tiling H4K12Ac

description: For the GeneChip® S. pombe Tiling Array from Affymetrix the DNA was amplified to obtain 5 micrograms of DNA then fragmented around 100 base pairs using DNAse I, labelled with biotin and hybridized according to Affymetrix recommendations (Lengronne et al., 2004). Antibodies specific for H3K9Ac, H3K14Ac, H4K5Ac,H4K12Ac, H4K16Ac (Suka et al., 2001) and H3cter (Ab1791, Abcam) were used for ChIP.

data_processing: Affymetrix

label: biotin

tag: CHIP IP using H4K12Ac antibody


title: Tiling H3K14Ac

tag: CHIP IP using H3K14Ac antibody


title: Tiling wt H3 cter

tag: CHIP IP using H3 Cter antibody


title: Tiling H4K16Ac

tag: CHIP IP using H4K16Ac antibody


title: CC-Rae_027.CEL

status: Public on Mar 03 2006

city: Houston

first: Chad

last: Creighton

state: TX

address: One Baylor Plaza, Mail Stop: BCM305

department: Biostatistics, Ducan Cancer Center

institute: Baylor College of Medicine

description: BT-474 simulated with E2 (24 hr)

data_processing: RMAExpress version 0.3

organism: Homo sapiens

tag: BT-474 breast cancer cells


title: Ecoli_LB growth T3

description:
LB growth, WT, 105 min

Recovery from stationary phase of Escherichia coli MG1655 cells in LB+0.2 % glucose vs Bogel-Vonner OD 0.5

source_name: Escherichia coli MG1655, Bonner-Vogel OD~0.5

source_name: Escherichia coli MG1655, 105 min recovery in LB+0.2% glc


title: Tiling H3K9Ac

tag: CHIP IP using H3K9Ac antibody


title: Ecoli_Early Recovery in LB T5

tag: Escherichia coli MG1655, Bonner-Vogel OD~0.5

source_name: Escherichia coli MG1655, 60 min recovery in LB + glucose at OD 0.4


title: M6B.CEL

description: MCF-7 simulated with E2 (12 hr)

tag: MCF-7 breast cancer cells


title: Tiling H4K5Ac

description: For the GeneChip S. pombe Tiling Array from Affymetrix the DNA was amplified to obtain 5 micrograms of DNA then fragmented around 100 base pairs using DNAse I, labelled with biotin and hybridized according to Affymetrix recommendations (Lengronne et al., 2004). Antibodies specific for H3K9Ac, H3K14Ac, H4K5Ac,H4K12Ac, H4K16Ac (Suka et al., 2001) and H3cter (Ab1791, Abcam) were used for ChIP.

tag: CHIP IP using H4K5Ac antibody


title: CC-Rae_023.CEL

description: BT-474 simulated with E2 (8 hr)


title: CC-Rae_021.CEL

description: BT-474 simulated with E2 (4 hr)


title: CC-Rae_025.CEL

description: BT-474 simulated with E2 (12 hr)


title: CC-Rae_019.CEL

description: BT-474 simulated with E2 (2 hr)


title: M6A.CEL

description: MCF-7 simulated with E2 (12 hr)


title: CC-Rae_028.CEL

description: BT-474 simulated with E2 (24 hr)


title: M5B.CEL

description: MCF-7 simulated with E2 (8 hr)


title: M7A.CEL

description: MCF-7 simulated with E2 (24 hr)


title: M7B.CEL

description: MCF-7 simulated with E2 (24 hr)


title: Lippman-Scheys 2.CEL

description: BT-474 simulated with E2 (0 hr)


title: CC-Rae_026.CEL

description: BT-474 simulated with E2 (12 hr)


title: CC-Rae_024.CEL

description: BT-474 simulated with E2 (8 hr)


title: CC-Rae_022.CEL

description: BT-474 simulated with E2 (4 hr)


title: M4B.CEL

description: MCF-7 simulated with E2 (4 hr)


title: Lippman-Scheys 1.CEL

description: BT-474 simulated with E2 (0 hr)


title: M5A.CEL

description: MCF-7 simulated with E2 (8 hr)


title: CC-Rae_012.CEL

description: T47-D simulated with E2 (12 hr)

tag: T47-D breast cancer cells


title: M3B.CEL

description: MCF-7 simulated with E2 (2 hr)


title: CC-Rae_013.CEL

description: T47-D simulated with E2 (24 hr)


title: CC-Rae_014.CEL

description: T47-D simulated with E2 (24 hr)


title: CC-Rae_020.CEL

description: BT-474 simulated with E2 (2 hr)


title: M4A.CEL

description: MCF-7 simulated with E2 (4 hr)


title: CC-Rae_011.CEL

description: T47-D simulated with E2 (12 hr)


title: CC-Rae_010.CEL

description: T47-D simulated with E2 (8 hr)


title: CC-Rae_008.CEL

description: T47-D simulated with E2 (4 hr)


title: CC-Rae_009.CEL

description: T47-D simulated with E2 (8 hr)


title: CC-Rae_007.CEL

description: T47-D simulated with E2 (4 hr)


title: CC-Rae_006.CEL

description: T47-D simulated with E2 (2 hr)


title: M2B.CEL

description: MCF-7 simulated with E2 (1 hr)


title: M1A.CEL

description: MCF-7 simulated with E2 (0 hr)


title: pterygium 28

city: Singapore

first: Yong Wee

last: Wong

state: Singapore

address: 11, Third Hospital ave

department: SERI Lab

country: Singapore

institute: Singapore Eye Research Institute

description:
Gene expression profiling in Pterygium
Keywords = pterygium

source_name: pterygium


title: CC-Rae_004.CEL

description: T47-D simulated with E2 (1 hr)


title: pterygium 16


title: CC-Rae_005.CEL

description: T47-D simulated with E2 (2 hr)


title: CC-Rae_003.CEL

description: T47-D simulated with E2 (1 hr)


title: M1B.CEL

description: MCF-7 simulated with E2 (0 hr)


title: pterygium 27


title: CC-Rae_002.CEL

description: T47-D simulated with E2 (0 hr)


title: M3A.CEL

description: MCF-7 simulated with E2 (2 hr)


title: Lippman-Scheys 2-1L.CEL

description: continued E2 supplementation, profiled Sept 04

tag: MCF-7 xenograft tumor


title: conjunctiva 04

source_name: conjunctiva


title: Cordero 2-2 Right.CEL

description: continued E2 supplementation, profiled Aug 05


title: CC-Rae_001.CEL

description: T47D stimulated with E2 (0 hr)


title: pterygium 12


title: pterygium 06


title: Cordero 2-2 Left.CEL


title: pterygium 15


title: conjunctiva 03


title: Lippman-Scheys 2-1Sm.CEL


title: Lippman-Scheys 1-2Sm.CEL

description: 48 hr post E2-removal, profiled Sept 04


title: Pterygium 03

source_name: Pterygium


title: Lippman-Scheys 1-2L.CEL

description: 48 hr post E2-removal, profiled Sept 04


title: pterygium 04

source_name: pteryigum


title: conjunctiva 02


title: Pooled Patients with Emphysema

status: Public on Mar 02 2006

city: Grosshansdorf

first: Olaf

last: Holz

address: Woehrendamm 80

country: Germany

institute: KH Grosshansdorf

description: Cells were grown at the submitters lab and stored at -80°C. Cells were then transfered to BDBIOSCIENCES for Customarrayinvestigation. RNA Isolation, labbeling, hybridazition and reading was performed by BDBIOSCIENCES

hyb_protocol: Refer to Bd Bioscience protocol

scan_protocol: Refer to Bd Bioscience protocol

data_processing: RAW Data after GLOBAL (sum) normalisation

source_name: Lung fibroblast

label_protocol: Refer to Bd Bioscience protocol

extract_protocol: Refer to Bd Bioscience protocol

treatment_protocol: Standardized cell culture for fibroblast

tag: Cells derived from resected lung specimens, after outgrowth culture in Passage 2-3


title: endomyocardial biopsies_subject8_after-rejection

city: Gothenburg

first: Per-Arne

last: Svensson

department: Department of molecular and clinical medicine

institute: institute of medicine

description: Expression profiles from human endomyocardial biopsies of cardiac allografts after a rejection episode

data_processing: MAS 5, signal algorithm, global scaling (target intensity 100)

label: PE

source_name: Endomyocardial biopsies of cardiac allografts.

tag: Gender

value: Male

tag: Age

value: 60 years


title: HeLa E2F1 ChIP_array64695

city: Calgary

first: Mark

last: Bieda

state: AB

address: 3330 Hospital Dr NW

department: Biochemistry and Molecular Biology

country: Canada

institute: University of Calgary

description: Hela E2F1 ChIP vs matched Total DNA on MinProm Array of ~24,000 promoters.

data_processing: minimal; by NimbleGen

source_name: HeLa E2F1 ChIP

tag: processed by NimbleGen

source_name: Matched Total DNA

tag: Processed in parallel with the ChIP sample


title: endomyocardial biopsies_subject12_during-rejection

description: Expression profiles from human endomyocardial biopsies of cardiac allografts during a rejection episode

value: 59 years


title: endomyocardial biopsies_subject12_after-rejection


title: SpoY866

city: Bethesda

first: Rafael

middle: Dan

last: Camerini-Otero

state: MD

address: 5 Memorial Dr. Rm.205

department: GBB

institute: NIDDK

description: comparison of Spo11 knockout testes and wild type  testes from 12 day mice

data_processing: Primary data were flagged using four default parameters set in the Genepix 3.0 program. For further analysis, the data were imported into Excel (Microsoft) and normalized by the Median Centering Method

organism: Mus musculus

source_name: 12d wild type whole testis

tag: Strain:wild type

source_name: 12d Spo11-/- whole testis


title: endomyocardial biopsies_subject1_during-rejection

value: 58 years


title: endomyocardial biopsies_subject12_before-rejection

description: Expression profiles from human endomyocardial biopsies of cardiac allografts before a rejection episode


title: SpoY1298


title: Cordero 1-1 Right.CEL

description: 24 hr post E2-removal, profiled Aug 05


title: endomyocardial biopsies_subject8_before-rejection


title: endomyocardial biopsies_subject1_before-rejection

description: Expression profiles from human endomyocardial biopsies of cardiac allografts before an rejection episode


title: endomyocardial biopsies_subject8_during-rejection


title: SpoY864


title: SpoY1296


title: conjunctiva01


title: SpoY1299


title: Pooled Controls

hyb_protocol: Refer to Bd Bioscience protocol Atlas cDNA Expression Array Manual PT3140-1 www.BDbiosciences.com

source_name: Primary lung fibroblast

label_protocol:
Refer to Bd Bioscience protocol
Atlas Pure RNA Labeling System
PT3231-1
www.BDbiosciences.com

treatment_protocol:
Standardized cell culture for fibroblast
DMEM/10%FCS

tag: Lung fibroblasts derived from resected lung specimen, after outgrowth culture in Passage 2-3 after primary culture

tag: Fibroblast from 3 patients without COPD were pooled (Controls)


title: HeLa E2F1 ChIP_array59066

description: VALUE is just log2(R/G)

data_processing: minimal

source_name: Cy5 HeLa E2F1 ChIP

tag: HeLa E2F1 ChIP

source_name: Cy3 Total DNA

tag: matched total processed in parallel with the ChIP


title: Cordero 1-1 Left.CEL

description: 24 hr post E2-removal, profiled Aug 05


title: endomyocardial biopsies_subject1_after-rejection


title: MCF10A MYC S2

status: Public on Mar 01 2006

city: Stanford

first: Howard

last: Chang

state: CA

address: CCSR 2142

department: Dermatology

institute: Stanford University

description:
Simple annotation: Cell-line, Gene overexpression
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2005-01/58744.gif; format: GIF

data_processing: log ratio

source_name: Stratagene reference

label_protocol: RNA was reverse transcribed and labeled with Cy3-or Cy5-containing dendrimers using 3DNA Array900 kit (Genisphere).

tag: RNA for the reference was pooled from 11 cell lines - obtained from Stratagene.

source_name: MCF10A cells

growth_protocol:
MCF10A cells (ATCC) were propagated in DMEM/F12 (Invitrogen/ Cambrex), 5% fetal bovine serum (FBS), supplemented with EGF (20 ng/ml), insulin (10 u;g/ml), and hydrocortisone (0.5 ug/ml). Retroviral vectors were transfected into amphotropic Phoenix cells, and virus-containing supernatants were used to transduce MCF10A cells. MCF10A cells were transduced with GFP, MYC, CSN5, or both MYC and CSN5 and selected with G418 for 4 days or puromycin for 3 days depending on the vector plasmid. Expression of stably transduced genes was verified by immunoblotting.
Transduced MCF10A cells were cultured in media containing DMEM/F12, 0.1% fetal bovine serum, supplemented with EGF (20 ng/ml), insulin (10 ug/ml), and hydrocortisone for 48 hours prior to RNA extraction.

extract_protocol: Total RNA was extracted with Trizol (Invitrogen).

tag: MCF10A cells


title: Mock infected murine liver-MO30k-(D)-6 hpi

status: Public on Feb 15 2006

city: Durham

first: Zachary

middle: Conrad

last: Hartman

state: NC

address: Research Drive MSRB rm 414

department: Surgery

institute: Duke University

description: Sample is C57/Bl6 murine liver RNA extract after mock infection with 200ul if PBS at 6 hpi.

hyb_protocol: Hybridization of a Cy labeled cDNA probe (mix of Cy3 and Cy5) onto coated slide spotted with oligonucleotides (70mers) was performed as described in detail at http://mgm.duke.edu/genome/dna_micro/core/protocols/SOP_hyb.doc.

scan_protocol: Fluorescent array images were collected for both Cy3 and Cy5 with a Axon GenePix Pro 4000A scanner and image intensity data were extracted and analyzed with Microarray Analysis Suite (MAS) 5.0 software.

data_processing: VALUE column is the log2 ratio of normalized Cy5:Cy3 signal after Intensity-Dependent normalization.

source_name: Cy5 labeled Liver RNA

label_protocol: The RNA from murine liver was directly labeled with Cy dyes using oligo dT primers, for complete details see http://mgm.duke.edu/genome/dna_micro/core/protocols/ for detailed labeling and hybridization protocols.

extract_protocol: RNA isolation was accomplished by homogenizing liver in liquid nitrogen, then extracting RNA using TriReagent (Molecular Research Center, Inc.). The RNA (10 µg) was purified using an RNeasy Kit (Qiagen) and assessed for quality with an Agilent Lab-on-a-Chip 2100 Bioanalyzer (Agilent Technologies, Palo Alto, USA).

treatment_protocol: The RNA (10 µg) was a total RNA mix that was assessed for quality with an Agilent Lab-on-a-Chip 2100 Bioanalyzer (Agilent Technologies, Palo Alto, USA).

tag: C57/BL6 murine Liver RNA- 6 hours post-injection with 200ul PBS (Mock).

source_name: Murine Reference RNA

tag: Murine Universal RNA (Stratagene, La Jolla, CA) which is a mixture of RNA from 10 control cell lines approximating the expression profile of the majority of murine genes was used.


title: Ad infected murine liver-MO30k-(667)-6 hpi

description: Sample is murine liver RNA extract after infected with 1st generation LacZ adenovirus (1.5x10E11 particles per mouse) at 6 hpi.

tag: C57/BL6 murine Liver RNA- 6 hours post-injection with a 1st generation (E1-E3-CMVLacZ) vector.


title: MCF10A MYC S3

description:
Simple annotation: Cell-line, Gene overexpression
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2005-01/58745.gif; format: GIF


title: Mock infected murine liver-MO30k-(C)-6 hpi


title: Mock infected murine liver-MO30k-(788)-6 hpi

tag: C57/BL6 murine Liver RNA- 6 hours post-injection with PBS


title: MCF10A CSN5 S3

description:
Simple annotation: Cell-line, Gene overexpression
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2005-01/58746.gif; format: GIF


title: Mock infected murine liver-MO30k-(B)-6 hpi


title: Ad infected murine liver-MO30k-(6697)-6 hpi


title: Mock infected murine liver-MO30k-(790)-6 hpi

description: Sample is murine liver RNA extract after mock infection with 200ul of PBS at 6 hpi.


title: Mock infected murine liver-MO30k-(A)-6 hpi

tag: C57/BL6 murine Liver RNA- 6 hours post-injection with 200ul PBS (Mock)

tag: Murine Universal RNA (Stratagene, La Jolla, CA) which is a mixture of RNA from 10 control cell lines approximating the expression profile of the majority of murine genes was used


title: MCF10A M+C S2

description:
Simple annotation: Cell-line, Gene overexpression
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2005-01/58747.gif; format: GIF


title: Ad infected murine liver-MO30k-(466)-6 hpi


title: MCF10a GFP A1

description:
Simple annotation: Cell-line, Gene overexpression
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2005-01/58366.gif; format: GIF

growth_protocol:
Transduced MCF10A cells were cultured in media containing DMEM/F12, 5% fetal bovine serum, supplemented with EGF (20 ng/ml), insulin (10 ug/ml), and hydrocortisone for 24 hours prior to RNA extraction.
MCF10A cells (ATCC) were propagated in DMEM/F12 (Invitrogen/ Cambrex), 5% fetal bovine serum (FBS), supplemented with EGF (20 ng/ml), insulin (10 u;g/ml), and hydrocortisone (0.5 ug/ml). Retroviral vectors were transfected into amphotropic Phoenix cells, and virus-containing supernatants were used to transduce MCF10A cells. MCF10A cells were transduced with GFP, MYC, CSN5, or both MYC and CSN5 and selected with G418 for 4 days or puromycin for 3 days depending on the vector plasmid. Expression of stably transduced genes was verified by immunoblotting.


title: MCF10A M+C S3

description:
Simple annotation: Cell-line, Gene overexpression
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2005-01/58748.gif; format: GIF


title: MCF10A CSN5 S2

description:
Simple annotation: Cell-line, Gene overexpression
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2005-01/58807.gif; format: GIF


title: MCF10A GFP S3

description:
Simple annotation: Cell-line, Gene overexpression
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2005-01/58743.gif; format: GIF


title: MCF10a MYC A1

description:
Simple annotation: Cell-line, Gene overexpression
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2005-01/58367.gif; format: GIF


title: E. coli exposed replicate 3

status: Public on Feb 01 2006

city: Plymouth

first: Michael

middle: James

last: Allen

address: Prospect Place

country: United Kingdom

institute: Plymouth Marine Laboratory

description: E. coli growing in exponential phase exposed to 7.5 mg/l PHMB (polyhexamethylene biguanide). test replicate 3.

hyb_protocol: as manual

scan_protocol: BIORAD

source_name: E.coli exposed 3

label_protocol: as manual

growth_protocol: 37oC, LB

extract_protocol: QIAGEN RNA mini prep.

treatment_protocol: PHMB (7.5 mg/l) exposed at d600=0.2

tag: E.COLI W3110


title: Ad infected murine liver-MO30k-(468)-6 hpi


title: Ad infected murine liver-MO30k-(665)-6 hpi


title: MCF10A MYC A2

description:
Simple annotation: Cell-line, Gene overexpression
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2005-02/59319.gif; format: GIF


title: Ad infected murine liver-MO30k-(666)-6 hpi


title: Ad infected murine liver-MO30k-(469)-6 hpi


title: MCF10A GFP S2

description:
Simple annotation: Cell-line, Gene overexpression
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2005-01/58742.gif; format: GIF


title: Ad infected murine liver-MO30k-(465)-6 hpi


title: Ad infected murine liver-MO30k-(464)-6 hpi


title: Ad infected murine liver-MO30k-(340)-6 hpi


title: MCF10a CSN5 A1

description:
Simple annotation: Cell-line, Gene overexpression
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2005-01/58368.gif; format: GIF


title: MCF10A GFP A2

description:
Simple annotation: Cell-line, Gene overexpression
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2005-02/59318.gif; format: GIF


title: E. coli unexposed replicate 3

description: E. coli growing in exponential phase. control culture replicate 3.

source_name: E. coli unexposed 3

treatment_protocol: no treatment

tag: E.coli W3110


title: E. coli exposed replicate 1

description: E. coli growing in exponential phase exposed to 7.5 mg/l PHMB (polyhexamethylene biguanide). test replicate 1.

source_name: E.coli PHMB exposed 1


title: MCF10a M+C A1

description:
Simple annotation: Cell-line, Gene overexpression
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2005-01/58369.gif; format: GIF


title: MCF10A CSN5 A2

description:
Simple annotation: Cell-line, Gene overexpression
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2005-02/59320.gif; format: GIF


title: E. coli unexposed replicate 2

description: E. coli growing in exponential phase. control culture replicate 2.

source_name: E. coli unexposed 2

tag: E.colie W3110


title: E. coli unexposed replicate 1

description: E. coli growing in exponential phase. control culture replicate 1

source_name: E. coli unexposed 1

growth_protocol: 37oC, LB.


title: E. coli exposed replicate 2

description: E.c oli growing in exponential phase exposed to 7.5 mg/l PHMB (polyhexamethylene biguanide). test replicate 2.

source_name: E.coli exposed 2


title: MCF10A M+C A2

description:
Simple annotation: Cell-line, Gene overexpression
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2005-02/59321.gif; format: GIF


title: Ad infected murine liver-MO30k-(467)-6 hpi

description: Sample is murine liver RNA extract after infected with 1st generation LacZ adenovirus (1.5x10E11 particles per mouse) at 6 hpi.


title: expression array LXR-Mock

status: Public on Jan 27 2006

first: Markus

last: Bredel

institute: Stanford University School of Medicine

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-09/55620.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 30.51; Parameter Scan Time = 22:24:30; Parameter PMT Volts = 530; Parameter Scan Date = 2004-08-31; Parameter Pixel Size = 10; Parameter Laser on time = 4673; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.53; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 30.51; Parameter Scan Time = 22:24:30; Parameter PMT Volts = 650; Parameter Scan Date = 2004-08-31; Parameter Pixel Size = 10; Parameter Laser on time = 177956; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.55; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy3: Universal Human Reference

source_name: Cy5: LXR-Mock


title: expression array MER-Mock

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-09/55621.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 30.72; Parameter Scan Time = 22:49:16; Parameter PMT Volts = 530; Parameter Scan Date = 2004-08-31; Parameter Pixel Size = 10; Parameter Laser on time = 4697; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.53; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 30.72; Parameter Scan Time = 22:49:16; Parameter PMT Volts = 650; Parameter Scan Date = 2004-08-31; Parameter Pixel Size = 10; Parameter Laser on time = 177981; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.54; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: MER-Mock


title: array-CGH DIR-BCNU

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-07/54373.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 33.80; Parameter Scan Time = 14:57:32; Parameter PMT Volts = 590; Parameter Scan Date = 2004-03-04; Parameter Pixel Size = 10; Parameter Laser on time = 77332; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 4.10; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 33.80; Parameter Scan Time = 14:57:32; Parameter PMT Volts = 710; Parameter Scan Date = 2004-03-04; Parameter Pixel Size = 10; Parameter Laser on time = 146833; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.61; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy3: female reference

source_name: Cy5: DIR-BCNU


title: array-CGH DI-BCNU

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-07/54381.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 33.50; Parameter Scan Time = 13:56:30; Parameter PMT Volts = 580; Parameter Scan Date = 2004-03-04; Parameter Pixel Size = 10; Parameter Laser on time = 77273; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 4.07; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 33.50; Parameter Scan Time = 13:56:30; Parameter PMT Volts = 700; Parameter Scan Date = 2004-03-04; Parameter Pixel Size = 10; Parameter Laser on time = 146774; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.60; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy3: male reference

source_name: Cy5: DI-BCNU


title: expression array LX-Mock

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-09/55619.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 29.93; Parameter Scan Time = 21:34:31; Parameter PMT Volts = 530; Parameter Scan Date = 2004-08-31; Parameter Pixel Size = 10; Parameter Laser on time = 4623; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.53; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 29.93; Parameter Scan Time = 21:34:31; Parameter PMT Volts = 650; Parameter Scan Date = 2004-08-31; Parameter Pixel Size = 10; Parameter Laser on time = 177906; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.53; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: LX-Mock


title: array-CGH ME-Mock

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-07/54372.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 32.98; Parameter Scan Time = 14:29:14; Parameter PMT Volts = 580; Parameter Scan Date = 2004-03-02; Parameter Pixel Size = 10; Parameter Laser on time = 76520; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 4.04; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 32.98; Parameter Scan Time = 14:29:14; Parameter PMT Volts = 740; Parameter Scan Date = 2004-03-02; Parameter Pixel Size = 10; Parameter Laser on time = 146022; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.58; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: ME-Mock


title: array-CGH ME-BCNU

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-07/54360.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 33.19; Parameter Scan Time = 15:00:46; Parameter PMT Volts = 590; Parameter Scan Date = 2004-03-02; Parameter Pixel Size = 10; Parameter Laser on time = 76551; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 4.07; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 33.19; Parameter Scan Time = 15:00:46; Parameter PMT Volts = 750; Parameter Scan Date = 2004-03-02; Parameter Pixel Size = 10; Parameter Laser on time = 146053; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.59; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: ME-BCNU


title: expression array MER-TMZ

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-09/55628.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.45; Parameter Scan Time = 00:03:26; Parameter PMT Volts = 530; Parameter Scan Date = 2004-09-01; Parameter Pixel Size = 10; Parameter Laser on time = 4772; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.53; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.45; Parameter Scan Time = 00:03:26; Parameter PMT Volts = 650; Parameter Scan Date = 2004-09-01; Parameter Pixel Size = 10; Parameter Laser on time = 178055; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.55; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: MER-TMZ


title: array-CGH ME-TMZ

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-07/54361.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 33.41; Parameter Scan Time = 15:24:39; Parameter PMT Volts = 590; Parameter Scan Date = 2004-03-02; Parameter Pixel Size = 10; Parameter Laser on time = 76575; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 4.13; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 33.41; Parameter Scan Time = 15:24:39; Parameter PMT Volts = 740; Parameter Scan Date = 2004-03-02; Parameter Pixel Size = 10; Parameter Laser on time = 146076; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.60; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: ME-TMZ


title: array-CGH MER-TMZ

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-07/54370.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 34.11; Parameter Scan Time = 16:29:08; Parameter PMT Volts = 590; Parameter Scan Date = 2004-03-02; Parameter Pixel Size = 10; Parameter Laser on time = 76640; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 4.06; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 34.11; Parameter Scan Time = 16:29:08; Parameter PMT Volts = 750; Parameter Scan Date = 2004-03-02; Parameter Pixel Size = 10; Parameter Laser on time = 146141; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.61; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel


title: expression array ME-TMZ

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-09/55627.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 29.56; Parameter Scan Time = 21:05:25; Parameter PMT Volts = 530; Parameter Scan Date = 2004-08-31; Parameter Pixel Size = 10; Parameter Laser on time = 4591; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.53; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 29.56; Parameter Scan Time = 21:05:25; Parameter PMT Volts = 650; Parameter Scan Date = 2004-08-31; Parameter Pixel Size = 10; Parameter Laser on time = 177874; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.50; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel


title: expression array DIR-TMZ

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-09/55625.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.18; Parameter Scan Time = 23:26:46; Parameter PMT Volts = 530; Parameter Scan Date = 2004-08-31; Parameter Pixel Size = 10; Parameter Laser on time = 4735; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.52; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.18; Parameter Scan Time = 23:26:46; Parameter PMT Volts = 650; Parameter Scan Date = 2004-08-31; Parameter Pixel Size = 10; Parameter Laser on time = 178019; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.55; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: DIR-TMZ


title: expression array - GBM8

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-10/56955
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 30.54; Parameter Scan Time = 20:26:43; Parameter PMT Volts = 570; Parameter Scan Date = 2004-10-12; Parameter Pixel Size = 10; Parameter Laser on time = 13110; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.44; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 30.54; Parameter Scan Time = 20:26:43; Parameter PMT Volts = 670; Parameter Scan Date = 2004-10-12; Parameter Pixel Size = 10; Parameter Laser on time = 186715; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.59; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy3: Human Common Reference

source_name: Cy5: GBM8


title: expression array - GBM10

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-10/56953
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.45; Parameter Scan Time = 22:42:33; Parameter PMT Volts = 570; Parameter Scan Date = 2004-10-12; Parameter Pixel Size = 10; Parameter Laser on time = 13245; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.43; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.45; Parameter Scan Time = 22:42:33; Parameter PMT Volts = 670; Parameter Scan Date = 2004-10-12; Parameter Pixel Size = 10; Parameter Laser on time = 186850; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.57; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: GBM10


title: array-CGH MER-Mock

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-07/54362.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 33.56; Parameter Scan Time = 15:41:06; Parameter PMT Volts = 590; Parameter Scan Date = 2004-03-02; Parameter Pixel Size = 10; Parameter Laser on time = 76592; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 4.11; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 33.56; Parameter Scan Time = 15:41:06; Parameter PMT Volts = 730; Parameter Scan Date = 2004-03-02; Parameter Pixel Size = 10; Parameter Laser on time = 146093; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.60; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel


title: expression array DIR-BCNU

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-09/55618.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 30.08; Parameter Scan Time = 21:46:40; Parameter PMT Volts = 530; Parameter Scan Date = 2004-08-31; Parameter Pixel Size = 10; Parameter Laser on time = 4636; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.53; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 30.08; Parameter Scan Time = 21:46:40; Parameter PMT Volts = 650; Parameter Scan Date = 2004-08-31; Parameter Pixel Size = 10; Parameter Laser on time = 177919; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.53; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel


title: array-CGH LX-TMZ

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-07/54378.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 34.26; Parameter Scan Time = 15:55:56; Parameter PMT Volts = 590; Parameter Scan Date = 2004-03-04; Parameter Pixel Size = 10; Parameter Laser on time = 77390; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 4.07; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 34.26; Parameter Scan Time = 15:55:56; Parameter PMT Volts = 730; Parameter Scan Date = 2004-03-04; Parameter Pixel Size = 10; Parameter Laser on time = 146891; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.61; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: LX-TMZ


title: array-CGH LXR-Mock

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-07/54379.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 34.72; Parameter Scan Time = 16:14:58; Parameter PMT Volts = 600; Parameter Scan Date = 2004-03-04; Parameter Pixel Size = 10; Parameter Laser on time = 77409; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 4.06; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 34.72; Parameter Scan Time = 16:14:58; Parameter PMT Volts = 730; Parameter Scan Date = 2004-03-04; Parameter Pixel Size = 10; Parameter Laser on time = 146910; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.61; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel


title: expression array ME-BCNU

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-09/55626.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 30.90; Parameter Scan Time = 23:02:01; Parameter PMT Volts = 530; Parameter Scan Date = 2004-08-31; Parameter Pixel Size = 10; Parameter Laser on time = 4711; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.53; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 30.90; Parameter Scan Time = 23:02:01; Parameter PMT Volts = 650; Parameter Scan Date = 2004-08-31; Parameter Pixel Size = 10; Parameter Laser on time = 177994; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.52; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy3: Universal Human Reference


title: expression array LXR-TMZ

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-09/55629.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.36; Parameter Scan Time = 23:51:33; Parameter PMT Volts = 530; Parameter Scan Date = 2004-08-31; Parameter Pixel Size = 10; Parameter Laser on time = 4760; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.53; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.36; Parameter Scan Time = 23:51:33; Parameter PMT Volts = 650; Parameter Scan Date = 2004-08-31; Parameter Pixel Size = 10; Parameter Laser on time = 178043; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.54; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: LXR-TMZ


title: expression array MER-BCNU

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-09/55617.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 30.23; Parameter Scan Time = 21:59:06; Parameter PMT Volts = 530; Parameter Scan Date = 2004-08-31; Parameter Pixel Size = 10; Parameter Laser on time = 4648; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.53; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 30.23; Parameter Scan Time = 21:59:06; Parameter PMT Volts = 650; Parameter Scan Date = 2004-08-31; Parameter Pixel Size = 10; Parameter Laser on time = 177931; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.54; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: MER-BCNU


title: expression array - GBM22

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu:8000/MicroArray/gifs/2004-10/56939.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.58; Parameter Scan Time = 20:13:13; Parameter PMT Volts = 560; Parameter Scan Date = 2004-10-08; Parameter Pixel Size = 10; Parameter Laser on time = 12062; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.44; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.58; Parameter Scan Time = 20:13:13; Parameter PMT Volts = 660; Parameter Scan Date = 2004-10-08; Parameter Pixel Size = 10; Parameter Laser on time = 185667; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.55; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: GBM22


title: array-CGH LXR-TMZ

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-07/54380.gif
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 35.15; Parameter Scan Time = 16:31:40; Parameter PMT Volts = 600; Parameter Scan Date = 2004-03-04; Parameter Pixel Size = 10; Parameter Laser on time = 77426; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 4.04; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 35.15; Parameter Scan Time = 16:31:40; Parameter PMT Volts = 720; Parameter Scan Date = 2004-03-04; Parameter Pixel Size = 10; Parameter Laser on time = 146927; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.63; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel


title: expression array - GBM21

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-10/56934
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.24; Parameter Scan Time = 18:54:53; Parameter PMT Volts = 560; Parameter Scan Date = 2004-10-08; Parameter Pixel Size = 10; Parameter Laser on time = 11984; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.44; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.24; Parameter Scan Time = 18:54:53; Parameter PMT Volts = 660; Parameter Scan Date = 2004-10-08; Parameter Pixel Size = 10; Parameter Laser on time = 185588; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.54; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: GBM21


title: expression array - GBM26

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-10/56937
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 30.97; Parameter Scan Time = 18:05:38; Parameter PMT Volts = 560; Parameter Scan Date = 2004-10-08; Parameter Pixel Size = 10; Parameter Laser on time = 11934; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.44; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 30.97; Parameter Scan Time = 18:05:38; Parameter PMT Volts = 670; Parameter Scan Date = 2004-10-08; Parameter Pixel Size = 10; Parameter Laser on time = 185539; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.55; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: GBM26


title: expression array - GNN1

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs//56954
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 30.69; Parameter Scan Time = 20:39:28; Parameter PMT Volts = 570; Parameter Scan Date = 2004-10-12; Parameter Pixel Size = 10; Parameter Laser on time = 13123; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.44; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 30.69; Parameter Scan Time = 20:39:28; Parameter PMT Volts = 670; Parameter Scan Date = 2004-10-12; Parameter Pixel Size = 10; Parameter Laser on time = 186727; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.58; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: GNN1


title: expression array - O1

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-10/56932
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.12; Parameter Scan Time = 18:30:37; Parameter PMT Volts = 560; Parameter Scan Date = 2004-10-08; Parameter Pixel Size = 10; Parameter Laser on time = 11959; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.44; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.12; Parameter Scan Time = 18:30:37; Parameter PMT Volts = 660; Parameter Scan Date = 2004-10-08; Parameter Pixel Size = 10; Parameter Laser on time = 185564; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.55; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: O1


title: expression array - GBM30

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-10/56952
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.48; Parameter Scan Time = 22:54:56; Parameter PMT Volts = 560; Parameter Scan Date = 2004-10-12; Parameter Pixel Size = 10; Parameter Laser on time = 13258; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.43; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.48; Parameter Scan Time = 22:54:56; Parameter PMT Volts = 670; Parameter Scan Date = 2004-10-12; Parameter Pixel Size = 10; Parameter Laser on time = 186863; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.58; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: GBM30


title: expression array - JPA3

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-10/56915
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.42; Parameter Scan Time = 20:28:40; Parameter PMT Volts = 560; Parameter Scan Date = 2004-10-05; Parameter Pixel Size = 10; Parameter Laser on time = 11116; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.44; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.42; Parameter Scan Time = 20:28:40; Parameter PMT Volts = 660; Parameter Scan Date = 2004-10-05; Parameter Pixel Size = 10; Parameter Laser on time = 184721; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.54; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: JPA3


title: expression array - GBM13

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-10/56916
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 30.78; Parameter Scan Time = 18:36:15; Parameter PMT Volts = 560; Parameter Scan Date = 2004-10-05; Parameter Pixel Size = 10; Parameter Laser on time = 11003; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.44; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 30.78; Parameter Scan Time = 18:36:15; Parameter PMT Volts = 660; Parameter Scan Date = 2004-10-05; Parameter Pixel Size = 10; Parameter Laser on time = 184608; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.55; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: GBM13


title: expression array - BRAIN 4

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-10/56950
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.45; Parameter Scan Time = 22:30:27; Parameter PMT Volts = 560; Parameter Scan Date = 2004-10-12; Parameter Pixel Size = 10; Parameter Laser on time = 13233; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.43; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.45; Parameter Scan Time = 22:30:27; Parameter PMT Volts = 670; Parameter Scan Date = 2004-10-12; Parameter Pixel Size = 10; Parameter Laser on time = 186838; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.58; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: BRAIN 4


title: expression array - AOA4

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-10/56938
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.67; Parameter Scan Time = 21:02:55; Parameter PMT Volts = 570; Parameter Scan Date = 2004-10-08; Parameter Pixel Size = 10; Parameter Laser on time = 12111; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.44; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.67; Parameter Scan Time = 21:02:55; Parameter PMT Volts = 660; Parameter Scan Date = 2004-10-08; Parameter Pixel Size = 10; Parameter Laser on time = 185716; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.55; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: AOA4


title: expression array - AOA7

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-10/56951
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.27; Parameter Scan Time = 21:41:32; Parameter PMT Volts = 550; Parameter Scan Date = 2004-10-12; Parameter Pixel Size = 10; Parameter Laser on time = 13184; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.43; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.27; Parameter Scan Time = 21:41:32; Parameter PMT Volts = 770; Parameter Scan Date = 2004-10-12; Parameter Pixel Size = 10; Parameter Laser on time = 186789; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.58; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy3: Human Common Reference

source_name: Cy5: AOA7


title: expression array - GBM16

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-10/56930
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.03; Parameter Scan Time = 18:18:18; Parameter PMT Volts = 570; Parameter Scan Date = 2004-10-08; Parameter Pixel Size = 10; Parameter Laser on time = 11947; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.44; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.03; Parameter Scan Time = 18:18:18; Parameter PMT Volts = 670; Parameter Scan Date = 2004-10-08; Parameter Pixel Size = 10; Parameter Laser on time = 185552; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.55; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: GBM16


title: expression array - GBM11

description:
Simple annotation: tumor, Brain
Image: http://genome-www5.stanford.edu/MicroArray/gifs/2004-10/56913
Sample_scan_protocol: Scanning parameters - Channel 1; Parameters for laser scanning of a hybridized array in channel 1.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.36; Parameter Scan Time = 20:04:09; Parameter PMT Volts = 560; Parameter Scan Date = 2004-10-05; Parameter Pixel Size = 10; Parameter Laser on time = 11091; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.44; Parameter Scan Power = 100; Parameter Scanning software version = 2.0.2.6; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel
Sample_scan_protocol: Scanning parameters - Channel 2; Parameters for laser scanning of a hybridized array in channel 2.; Protocol Type = Scanning parameters; Parameter Scanner Make = Axon Instruments (V1.00); Parameter Scan Temperature = 31.36; Parameter Scan Time = 20:04:09; Parameter PMT Volts = 650; Parameter Scan Date = 2004-10-05; Parameter Pixel Size = 10; Parameter Laser on time = 184696; Parameter Focus Position = 0; Parameter Scanner Model = GenePix 4000B [84947]; Parameter Laser Power = 3.54; Parameter Scanning software version = 2.0.2.6; Parameter Scan Power = 100; Parameter Scanning software = AxImageIO; Performer: Markus,,Bredel

source_name: Cy5: GBM11