title: RH_Th4_negB

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD44-CD25-CD4-CD8-
Replicate number: 4   (Note: all samples with identical replicate numbers are derived from the same vial of cells).
Background Avg: 1597.19, Stdev: 372.30, Max: 1953.1, Min: 1052.5
Corner+ Avg:795, Count:32
Corner- Avg:15554, Count:32
BF= SDT=175.0(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=43.76 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=175.0 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 NF=1.000000 SF=1.000000


title: RH_Th4_48SA

status: Public on Jan 29 2003

type: RNA

city: Munich

first: Reinhard

last: Hoffmann

address: Trogerstr. 30

country: Germany

institute: Institute for medical microbiology

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD44-CD25-CD4+CD8+small
Replicate number: 4   (Note: all samples with identical replicate numbers are derived from the same vial of cells).
Background Avg: 1211.35, Stdev: 56.97, Max: 1308.0, Min: 1143.7
Corner+ Avg:1113, Count:32
Corner- Avg:43227, Count:32
BF= SDT=145.4(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=36.34 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=145.4 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 NF=1.000000 SF=1.000000

molecule: total RNA

organism: Mus musculus

source_name: Thymic T cell precursors


title: RH_Th4_4B

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD25-CD44-CD4+CD8-
Replicate number: 4   (Note: all samples with identical replicate numbers are derived from the same vial of cells).
Background Avg: 2351.66, Stdev: 83.89, Max: 2462.8, Min: 2172.8
Corner+ Avg:967, Count:32
Corner- Avg:39645, Count:32
BF= SDT=221.7(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=55.42 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=221.7 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 NF=1.000000 SF=1.000000


title: RH_Th4_44B

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD44+CD25-CD4-CD8-
Replicate number: 4   (Note: all samples with identical replicate numbers are derived from the same vial of cells).
Background Avg: 3344.96, Stdev: 178.34, Max: 3685.8, Min: 3090.2
Corner+ Avg:4299, Count:32
Corner- Avg:43068, Count:32
BF= SDT=244.3(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=61.06 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=244.3 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 NF=1.000000 SF=1.000000


title: RH_Th4_4A

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD25-CD44-CD4+CD8-
Replicate number: 4   (Note: all samples with identical replicate numbers are derived from the same vial of cells).
Background Avg: 1167.88, Stdev: 69.04, Max: 1272.1, Min: 1041.1
Corner+ Avg:1178, Count:32
Corner- Avg:41438, Count:32
BF= SDT=138.5(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=34.62 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=138.5 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 NF=1.000000 SF=1.000000


title: RH_Th4_44A

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD44+CD25-CD4-CD8-
Replicate number: 4   (Note: all samples with identical replicate numbers are derived from the same vial of cells).
Background Avg: 1139.56, Stdev: 40.81, Max: 1208.2, Min: 1059.4
Corner+ Avg:1652, Count:32
Corner- Avg:45057, Count:32
BF= SDT=141.0(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=35.25 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=141.0 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 NF=1.000000 SF=1.000000


title: RH_Th4_8A

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD25-CD44-CD4-CD8+
Replicate number: 4   (Note: all samples with identical replicate numbers are derived from the same vial of cells).
Background Avg: 1616.36, Stdev: 42.93, Max: 1688.8, Min: 1549.3
Corner+ Avg:1814, Count:32
Corner- Avg:43172, Count:32
BF= SDT=171.8(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=42.95 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=171.8 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 NF=1.000000 SF=1.000000


title: RH_TH2_2544B

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD44+CD25+CD4-CD8-
Replicate number: 2   (Note: all samples with identical replicate numbers are derived from the same vial of cells).


title: RH_Th4_48LA

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD44-CD25-CD4+CD8+large
Replicate number: 4   (Note: all samples with identical replicate numbers are derived from the same vial of cells).
Background Avg: 981.68, Stdev: 46.28, Max: 1079.0, Min: 898.8
Corner+ Avg:1688, Count:32
Corner- Avg:44969, Count:32
BF= SDT=117.3(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=29.34 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=117.3 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 NF=1.000000 SF=1.000000


title: RH_Th5_25B2

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD44-CD25+CD4-CD8-
Replicate number: 5   (Note: all samples with identical replicate numbers are derived from the same vial of cells).
Background Avg: 2653.25, Stdev: 676.61, Max: 3888.6, Min: 1456.2
Corner+ Avg:8961, Count:32
Corner- Avg:43057, Count:32
BF= SDT=213.5(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=53.37 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=213.5 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 NF=1.000000 SF=1.000000


title: RH_Th10_44B

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD44+CD25-CD4-CD8-
Replicate number: 10   (Note: all samples with identical replicate numbers are derived from the same vial of cells).
Background Avg: 3439.00, Stdev: 141.29, Max: 3727.0, Min: 3238.6
Corner+ Avg:9415, Count:32
Corner- Avg:42843, Count:32
BF= SDT=258.2(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=64.55 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=258.2 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 NF=1.000000 SF=1.000000


title: RH_Th4_25B

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD44-CD25+CD4-CD8-
Replicate number: 4   (Note: all samples with identical replicate numbers are derived from the same vial of cells).
Background Avg: 5127.65, Stdev: 246.59, Max: 5535.3, Min: 4735.0
Corner+ Avg:2896, Count:32
Corner- Avg:41062, Count:32
BF= SDT=307.9(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=76.97 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=307.9 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 NF=1.000000 SF=1.000000


title: RH_Th4_48LB

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD44-CD25-CD4+CD8+large
Replicate number: 4   (Note: all samples with identical replicate numbers are derived from the same vial of cells).
Background Avg: 2539.54, Stdev: 88.34, Max: 2669.1, Min: 2383.2
Corner+ Avg:1711, Count:32
Corner- Avg:43503, Count:32
BF= SDT=197.9(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=49.47 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=197.9 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 NF=1.000000 SF=1.000000


title: RH_Th4_25A

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD44-CD25+CD4-CD8-
Replicate number: 4   (Note: all samples with identical replicate numbers are derived from the same vial of cells).
Background Avg: 1329.04, Stdev: 33.92, Max: 1382.6, Min: 1266.1
Corner+ Avg:1237, Count:32
Corner- Avg:43513, Count:32
BF= SDT=156.3(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=39.07 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=156.3 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 NF=1.000000 SF=1.000000


title: RH_Th10_2544A

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD44+CD25-CD4-CD8-
Replicate number: 10   (Note: all samples with identical replicate numbers are derived from the same vial of cells).
Background Avg: 4247.77, Stdev: 357.06, Max: 4853.4, Min: 3714.6
Corner+ Avg:6086, Count:32
Corner- Avg:41351, Count:32
BF= SDT=297.9(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=74.47 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=297.9 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 NF=1.000000 SF=1.000000


title: RH_Th4_8B

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD25-CD44-CD4-CD8+
Replicate number: 4   (Note: all samples with identical replicate numbers are derived from the same vial of cells).
Background Avg: 4883.75, Stdev: 441.52, Max: 5451.9, Min: 3935.0
Corner+ Avg:3775, Count:32
Corner- Avg:42261, Count:32
BF= SDT=320.9(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=80.24 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=320.9 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 NF=1.000000 SF=1.000000


title: RH_Th4_48SB

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD44-CD25-CD4+CD8+small
Replicate number: 4   (Note: all samples with identical replicate numbers are derived from the same vial of cells).
Background Avg: 3623.69, Stdev: 333.61, Max: 4067.8, Min: 3058.5
Corner+ Avg:1526, Count:32
Corner- Avg:37096, Count:32
BF= SDT=270.0(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=67.51 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=270.0 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 NF=1.000000 SF=1.000000


title: RH_TH2_2544A


title: RH_Th10_2544B

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD44+CD25-CD4-CD8-
Replicate number: 10   (Note: all samples with identical replicate numbers are derived from the same vial of cells).
Background Avg: 4781.68, Stdev: 174.60, Max: 5076.3, Min: 4488.5
Corner+ Avg:7902, Count:32
Corner- Avg:41320, Count:32
BF= SDT=285.9(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=71.49 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=285.9 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 NF=1.000000 SF=1.000000


title: RH_Th10_44A

description:
Flow cytometrically purified T cell precursors of C57BL/6 mice. RNA was labeled by double round in vitro transcription-based RNA amplification. Images were analyzed with Affymetrix MAS 4.0. Files contain unnormalized AvgDiff values.
Surface marker phenotype: CD44+CD25-CD4-CD8-
Replicate number: 10   (Note: all samples with identical replicate numbers are derived from the same vial of cells).
Background Avg: 4054.31, Stdev: 189.65, Max: 4536.5, Min: 3774.8
Corner+ Avg:7031, Count:32
Corner- Avg:42226, Count:32
BF= SDT=288.9(4.00Q) SRT=1.50 ABS={{3.0,4.0},{0.33,0.43},{0.90,1.30}} RawQ=72.23 QMult=2.80 RL=10.0 HZ=4 VZ=4 BG=2 CT=288.9 PCT=80 DD={{3.0,4.0},{0.33,0.43},{0.20,0.30},{0.90,1.30}} AvgNCT=200 FCMin=1.00 FCMax=1.00 STP=3.0 NF=1.000000 SF=1.000000


title: Inflammatory myopathy specimen GEIM9

status: Public on Jan 21 2003

city: Boston

first: Steven

middle: Alan

last: Greenberg

state: MA

address: 75 Francis Street

department: Neurology

country: USA

institute: Brigham and Women's Hospital

description: RNA from muscle biopsy specimen

organism: Homo sapiens

source_name: Muscle


title: Inflammatory myopathy specimen GEIM30

description: RNA from muscle biopsy specimen


title: Inflammatory myopathy specimen GEIM7

description: RNA from muscle biopsy specimen


title: Inflammatory myopathy specimen GEIM3

description: RNA from muscle biopsy specimen


title: S36_EC_JYK

status: Public on Dec 10 2002

city: Palo Alto

first: Jennifer

last: King

state: CA

department: Cardiovascular Medicine

institute: Stanford University

description: Sample: normal human astrocytes

source_name: NHA

source_name: HUVEC


title: GAPEXP3

status: Public on Jan 15 2003

city: Raleigh

first: Ahmad

last: Fakhoury

state: NC

department: Plant Pathology

institute: North Carolina State University

description:
RNA was isolated from lyophilized cultures of Aspergillus parasiticus (SUI)using Trizol (Life Technologies, Rockville, MD) according to the manufacturers instructions. cDNA synthesis, labeling, and hybridization were performed using the 3DNA detection system from Genisphere (Hatfield, PA) as recommended by the manufacturer.
Keywords = Aspergillus
Keywords = aflatoxin

organism: Aspergillus parasiticus

source_name: Aspergillus parasiticus (aflatoxin produced)

source_name: Aspergillus parasiticus (no aflatoxin production)


title: Inflammatory myopathy specimen GEIM1

description: RNA from muscle biopsy specimen


title: Inflammatory myopathy specimen GEIM27

description: RNA from muscle biopsy specimen


title: Inflammatory myopathy specimen GEIM12

description: RNA from muscle biopsy specimen


title: GAPEXP4

description: RNA was isolated from lyophilized cultures of Aspergillus parasiticus (SUI)using Trizol (Life Technologies, Rockville, MD) according to the manufacturers instructions. cDNA synthesis, labeling, and hybridization were performed using the 3DNA detection system from Genisphere (Hatfield, PA) as recommended by the manufacturer.


title: GAPEXP2


title: Inflammatory myopathy specimen GEIM21

description: RNA from muscle biopsy specimen


title: Inflammatory myopathy specimen GEIM20

description: RNA from muscle biopsy specimen


title: Inflammatory myopathy specimen GEIM17

description: RNA from muscle biopsy specimen


title: B/OVX/P4/6h/UTX 129/SvImJ WT

first: Richard

middle: L.

last: Maas

address: 20 Shattuck St, Room 1019A

department: Medicine/Division of Genetics

institute: Brigham and Women's Hospital/Harvard Medical School

description:
Female mice used were 129/SvImJ wildtype (Jackson Lab), 10-16 weeks
of age.  14 days after ovariectomy, mice were injected
subcutaneously with progesterone dissolved in sesame oil (Sigma;
0.2mg/0.1mL/mouse), followed by sacrifice and removal of uterine
horns at 6 hour after injection.  8 uterine horns from 4 mice were
pooled to form one sample.  Total RNA preparation, cRNA labeling and
hybridization were performed according to recommendations by
Affymetrix.

source_name: murine total uterus


title: Inflammatory myopathy specimen GEIM16

description: RNA from muscle biopsy specimen


title: B/OVX/P4/12h/UTX 129/SvImJ WT

description:
Female mice used were 129/SvImJ wildtype (Jackson Lab), 10-16 weeks
of age.  14 days after ovariectomy, mice were injected
subcutaneously with progesterone dissolved in sesame oil (Sigma;
0.2mg/0.1mL/mouse), followed by sacrifice and removal of uterine
horns at 12 hours after injection.  8 uterine horns from 4 mice were
pooled to form one sample.  Total RNA preparation, cRNA labeling and
hybridization were performed according to recommendations by
Affymetrix.


title: GAPEXP1


title: B/OVX/no inj/0h/UTX 129/SvImJ WT

description:
Female mice used were 129/SvImJ wildtype (Jackson Lab), 10-16 weeks
of age.  14 days after ovariectomy, the mice were sacrifice and
uterine horns were removed.  8 uterine horns from 4 mice were pooled
to form one sample.  Total RNA preparation, cRNA labeling and
hybridization were performed according to recommendations by
Affymetrix.


title: A/OVX/P4/6h/UTX 129/SvImJ WT

description:
Female mice used were 129/SvImJ wildtype (Jackson Lab), 10-16 weeks
of age.  14 days after ovariectomy, mice were injected
subcutaneously with progesterone dissolved in sesame oil (Sigma;
0.2mg/0.1mL/mouse), followed by sacrifice and removal of uterine
horns at 6 hours after injection.  8 uterine horns from 4 mice were
pooled to form one sample.  Total RNA preparation, cRNA labeling and
hybridization were performed according to recommendations by
Affymetrix.


title: B/OVX/P4/15h/UTX 129/SvImJ WT

description:
Female mice used were 129/SvImJ wildtype (Jackson Lab), 10-16 weeks
of age.  14 days after ovariectomy, mice were injected
subcutaneously with progesterone dissolved in sesame oil (Sigma;
0.2mg/0.1mL/mouse), followed by sacrifice and removal of uterine
horns at 15 hours after injection.  8 uterine horns from 4 mice were
pooled to form one sample.  Total RNA preparation, cRNA labeling and
hybridization were performed according to recommendations by
Affymetrix.


title: A/OVX/P4/1h/UTX 129/SvImJ WT

description:
Female mice used were 129/SvImJ wildtype (Jackson Lab), 10-16 weeks
of age.  14 days after ovariectomy, mice were injected
subcutaneously with progesterone dissolved in sesame oil (Sigma;
0.2mg/0.1mL/mouse), followed by sacrifice and removal of uterine
horns at 1 hour after injection.  8 uterine horns from 4 mice were
pooled to form one sample.  Total RNA preparation, cRNA labeling and
hybridization were performed according to recommendations by
Affymetrix.


title: B/OVX/P4/18h/UTX 129/SvImJ WT

description:
Female mice used were 129/SvImJ wildtype (Jackson Lab), 10-16 weeks
of age.  14 days after ovariectomy, mice were injected
subcutaneously with progesterone dissolved in sesame oil (Sigma;
0.2mg/0.1mL/mouse), followed by sacrifice and removal of uterine
horns at 18 hours after injection.  8 uterine horns from 4 mice were
pooled to form one sample.  Total RNA preparation, cRNA labeling and
hybridization were performed according to recommendations by
Affymetrix.


title: A/OVX/P4/9h/UTX 129/SvImJ WT

description:
Female mice used were 129/SvImJ wildtype (Jackson Lab), 10-16 weeks
of age.  14 days after ovariectomy, mice were injected
subcutaneously with progesterone dissolved in sesame oil (Sigma;
0.2mg/0.1mL/mouse), followed by sacrifice and removal of uterine
horns at 9 hours after injection.  8 uterine horns from 4 mice were
pooled to form one sample.  Total RNA preparation, cRNA labeling and
hybridization were performed according to recommendations by
Affymetrix.


title: 36/OVX/oil/6h/UTX 129 Hoxa-10-/-

description:
Female mice used were SvJ/129, 10-16 weeks of age, with both copies
of the Hoxa-10 gene (GenBank # NM_008263) disrupted.  These mice
were littermates of Hoxa-10+/+ mice used in parallel experiments.
14 days after ovariectomy, mice were injected with sesame oil
(Sigma; 0.1mL/mouse), followed by sacrifice and removal of uterine
horns at 6 hours after injection.  8 uterine horns from 4 mice were
pooled to form one sample.  Total RNA preparation, cRNA labeling and
hybridization were performed according to recommendations by
Affymetrix.


title: B/OVX/P4/24h/UTX 129/SvImJ WT

description:
Female mice used were 129/SvImJ wildtype (Jackson Lab), 10-16 weeks
of age.  14 days after ovariectomy, mice were injected
subcutaneously with progesterone dissolved in sesame oil (Sigma;
0.2mg/0.1mL/mouse), followed by sacrifice and removal of uterine
horns at 24 hours after injection.  8 uterine horns from 4 mice were
pooled to form one sample.  Total RNA preparation, cRNA labeling and
hybridization were performed according to recommendations by
Affymetrix.


title: body wall 1

status: Public on Jan 11 2003

city: Columbus

first: Amanda

last: Simcox

state: OH

address: 484 W 12th Ave

department: Molecular Genetics

institute: Ohio State University

description:
Wild type third instar imaginal wing discs were dissected to produce body wall and wing/hinge fragments.  RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 8ug of total RNA.  3 body wall and 3 wing hinge biological replicates were analyzed.  This sample is also known as NOTUM 2.
Keywords = Drosophila, imaginal wing disc, molecular screen for spatially restricted transcripts

organism: Drosophila melanogaster

source_name: imaginal wing disc


title: 32/OVX/oil/6h/UTX 129 Hoxa-10-/-


title: A/OVX/no inj/0h/UTX 129/SvImJ WT


title: A/OVX/P4/3h/UTX 129/SvImJ WT

description:
Female mice used were 129/SvImJ wildtype (Jackson Lab), 10-16 weeks
of age.  14 days after ovariectomy, mice were injected
subcutaneously with progesterone dissolved in sesame oil (Sigma;
0.2mg/0.1mL/mouse), followed by sacrifice and removal of uterine
horns at 3 hours after injection.  8 uterine horns from 4 mice were
pooled to form one sample.  Total RNA preparation, cRNA labeling and
hybridization were performed according to recommendations by
Affymetrix.


title: 34/OVX/oil/6h/UTX 129 Hoxa-10-/-


title: 28/OVX/P4/6h/UTX 129 Hoxa-10-/-

description:
Female mice used were SvJ/129, 10-16 weeks of age, with both copies
of the Hoxa-10 gene (GenBank # NM_008263) disrupted.  These mice
were littermates of Hoxa-10+/+ mice used in parallel experiments.
14 days after ovariectomy, mice were injected subcutaneously with
progesterone dissolved in sesame oil (Sigma; 0.2mg/0.1mL/mouse),
followed by sacrifice and removal of uterine horns at 6 hours after
injection.  8 uterine horns from 4 mice were pooled to form one
sample.  Total RNA preparation, cRNA labeling and hybridization were
performed according to recommendations by Affymetrix.


title: 33/OVX/oil/6h/UTX 129 Hoxa-10+/+

description:
Female mice used were SvJ/129, 10-16 weeks of age, with both copies
of the Hoxa-10 gene (GenBank # NM_008263) present (wildtype).  These
mice were littermates of Hoxa-10-/- mice used in parallel
experiments.  14 days after ovariectomy, mice were injected
subcutaneously with sesame oil (Sigma; 0.1mL/mouse), followed by
sacrifice and removal of uterine horns at 6 hours after injection.
8 uterine horns from 4 mice were pooled to form one sample.  Total
RNA preparation, cRNA labeling and hybridization were performed
according to recommendations by Affymetrix.


title: 41/OVX/P4/6h/UTX 129 Hoxa-10+/+

description:
Female mice used were SvJ/129, 10-16 weeks of age, with both copies
of the Hoxa-10 gene (GenBank # NM_008263) present (wildtype).  These
mice were littermates of Hoxa-10-/- mice used in parallel
experiments.  14 days after ovariectomy, mice were injected
subcutaneously with progesterone dissolved in sesame oil (Sigma;
0.2mg/0.1mL/mouse), followed by sacrifice and removal of uterine
horns at 6 hours after injection.  8 uterine horns from 4 mice were
pooled to form one sample.  Total RNA preparation, cRNA labeling and
hybridization were performed according to recommendations by
Affymetrix.


title: Bladder sample 1257-1

status: Public on Dec 08 2002

city: Aarhus N

first: Lars

last: Dyrskjot

address: Brendstrupgaardsvej

department: Department of Molecular Medicine

country: Denmark

institute: Aarhus University Hospital, Skejby

description: T1 gr3 tumour

source_name: tumour


title: 38/OVX/P4/6h/UTX 129 Hoxa-10-/-


title: 29/OVX/P4/6h/UTX 129 Hoxa-10+/+


title: 40/OVX/P4/6h/UTX 129 Hoxa-10-/-


title: 37/OVX/oil/6h/UTX 129 Hoxa-10+/+


title: 35/OVX/oil/6h/UTX 129 Hoxa-10+/+


title: Bladder sample 1178-1

description: T2+ gr3 tumour


title: 39/OVX/P4/6h/UTX 129 Hoxa-10+/+


title: Bladder sample 320-7

description: Ta gr3 tumour


title: Bladder sample 1065-1

description: T1 gr3 tumour


title: Bladder sample 861-1

description: Ta gr2 tumour


title: Bladder sample 709_1

description: Ta gr2 tumour


title: Bladder sample 625-1

description: T1 gr3 tumour


title: Bladder sample 692-1

description: Ta gr2 tumour


title: Bladder sample 815-2

description: Ta gr2 tumour


title: Bladder sample 925-1

description: Ta gr2 tumour


title: Bladder sample 942-1

description: Ta gr2 tumour


title: Bladder sample 810-1

description: Ta gr2 tumour


title: Bladder sample 1032-1

description: T2+ gr ? tumour


title: Bladder sample 1133-1

description: T2+ gr 3 tumour


title: Bladder sample 455-1

description: Ta gr2 tumour


title: Bladder sample 441-1

description: Ta gr2 tumour


title: Bladder sample 780-1

description: Ta gr2 tumour


title: Bladder sample 679-1

description: Ta gr2 tumour


title: Bladder sample 1379-1

description: Ta gr2 tumour


title: Bladder sample 1352-1

description: Ta gr2 tumour


title: Bladder sample 1006-1

description: Ta gr2 tumour


title: Bladder sample 1086-1

description: Ta gr2 tumour


title: Bladder sample 1105-1

description: Ta gr2 tumour


title: Bladder sample 1161-1

description: Ta gr2 tumour


title: Bladder sample 1146-1

description: Ta gr2 tumour


title: Bladder sample 1255-1

description: Ta gr2 tumour


title: Bladder tumour 934-1

description: Ta gr2 tumour


title: Bladder sample 968-1

description: Ta gr2 tumour


title: Bladder sample 829-1

description: Ta gr2 tumour


title: Bladder sample 930-1

description: Ta gr2 tumour


title: Bladder sample 709-1

description: Ta gr2 tumour


title: Bladder sample 1008-1

description: Ta gr2 tumour


title: Bladder sample 1145-1

description: Ta gr2 tumour


title: Bladder sample 1327-1

description: Ta gr2 tumour


title: H9LMS99102620

status: Public on Dec 06 2002

city: San Diego

first: John

middle: R

last: Walker

address: 10675 John Jay Hopkins

institute: Genomics Institute of the Novartis Research Foundation

description:
Large-scale analysis of the human transcriptome.
Ovary, epithelium-enriched
Source: CHTN, see PMID 11158614
Analyzed using the Affymetrix MAS4 algorithm.
Background: Avg: 123.18  Stdv: 5.07  Min: 112.63  Max: 131.14


title: H9RGV00102612

description:
Large-scale analysis of the human transcriptome.
Fetal brain
Source: Clontech, http://www.clontech.com/archive/OCT01UPD/pdf/PremiumRNA.pdf
Analyzed using the Affymetrix MAS4 algorithm.
Background: Avg: 138.01  Stdv: 3.97  Min: 130.94  Max: 146.00

source_name: fetal brain


title: H9LMS99102622

description:
Large-scale analysis of the human transcriptome.
Ovary pool
Source: CHTN, see PMID 11158614
Analyzed using the Affymetrix MAS4 algorithm.
Background: Avg: 118.89  Stdv: 4.44  Min: 109.86  Max: 124.97

source_name: ovary pool


title: H9RGV00112206

description:
Large-scale analysis of the human transcriptome.
Pituitary gland
Source: Clontech, http://www.clontech.com/archive/OCT01UPD/pdf/PremiumRNA.pdf
Analyzed using the Affymetrix MAS4 algorithm.
Background: Avg: 146.65  Stdv: 6.35  Min: 132.29  Max: 154.26

source_name: pituitary gland


title: H9RGV00102605

description:
Large-scale analysis of the human transcriptome.
Leukemia chronic myelogenous K-562
Source: Clontech, http://www.clontech.com/archive/OCT01UPD/pdf/PremiumRNA.pdf
Analyzed using the Affymetrix MAS4 algorithm.
Background: Avg: 238.14  Stdv: 9.12  Min: 217.66  Max: 256.18

source_name: myelogenous k562


title: H9LMS00121802

description:
Large-scale analysis of the human transcriptome.
Spleen
Source: Clontech, http://www.clontech.com/archive/OCT01UPD/pdf/PremiumRNA.pdf
Analyzed using the Affymetrix MAS4 algorithm.
Background: Avg: 109.21  Stdv: 5.08  Min: 99.51  Max: 116.91

source_name: spleen


title: H9RGV00102611

description:
Large-scale analysis of the human transcriptome.
Fetal liver
Source: Clontech, http://www.clontech.com/archive/OCT01UPD/pdf/PremiumRNA.pdf
Analyzed using the Affymetrix MAS4 algorithm.
Background: Avg: 208.95  Stdv: 10.41  Min: 181.39  Max: 225.05

source_name: fetal liver


title: H9RGV00102606

description:
Large-scale analysis of the human transcriptome.
Promyelocytic leukemia
Source: ATCC
Analyzed using the Affymetrix MAS4 algorithm.
Background: Avg: 122.84  Stdv: 2.81  Min: 118.81  Max: 129.03


title: H9LMS99081601

description:
Large-scale analysis of the human transcriptome.
Prostate cancer
Source: University of Virginia, see PMID 11507037
Analyzed using the Affymetrix MAS4 algorithm.
Background: Avg: 185.65  Stdv: 7.90  Min: 171.05  Max: 197.40

source_name: prostate cancer


title: H9RGV00102602

description:
Large-scale analysis of the human transcriptome.
Brain, amygdala
Source: Clontech, http://www.clontech.com/archive/OCT01UPD/pdf/PremiumRNA.pdf
Analyzed using the Affymetrix MAS4 algorithm.
Background: Avg: 257.57  Stdv: 8.51  Min: 243.99  Max: 269.74

source_name: amygdala


title: H9LMS00102604

description:
Large-scale analysis of the human transcriptome.
Adrenal gland
Source: Clontech, http://www.clontech.com/archive/OCT01UPD/pdf/PremiumRNA.pdf
Analyzed using the Affymetrix MAS4 algorithm.
Background: Avg: 171.56  Stdv: 6.73  Min: 156.65  Max: 180.66

source_name: adrenal gland


title: H9LMS00111003

description:
Large-scale analysis of the human transcriptome.
Liver
Source: Clontech, http://www.clontech.com/archive/OCT01UPD/pdf/PremiumRNA.pdf
Analyzed using the Affymetrix MAS4 algorithm.
Background: Avg: 114.49  Stdv: 6.65  Min: 101.77  Max: 127.62

source_name: liver


title: 4016 0b

status: Public on Nov 25 2002

city: Chapel Hill

first: Fred

middle: A

last: Wright

department: Biostatistics

institute: University of North Carolina

description: p53 +/+, 0 hour, replicate b

source_name: human colorectal carcinoma-derived


title: H9LMS00111601

description:
Large-scale analysis of the human transcriptome.
Trachea
Source: Clontech, http://www.clontech.com/archive/OCT01UPD/pdf/PremiumRNA.pdf
Analyzed using the Affymetrix MAS4 algorithm.
Background: Avg: 245.30  Stdv: 7.62  Min: 233.08  Max: 260.83

source_name: trachea


title: pipe vs. Tollrm9/rm10

status: Public on Nov 27 2002

city: Berkeley

first: Angelike

last: Stathopoulos

address: 401 Barker Hall

department: Molecular and Cellular Biology

institute: University of California

description: RNA was isolated from staged 2-4 hour mutant Drosophila embryos.  pipe embryos contain only cytoplasmic Dorsal.  Tollrm9/rm10 embryos contain uniform low levels of nuclear Dorsal.

source_name: pipe


title: pipe vs. 10B Drosophila mutant embryos

description: RNA was isolated from staged 2-4 hour Drosophila mutant embryos.  pipe embryos contain cytoplasmic Dorsal.  Toll10b embryos contain uniformly nuclear Dorsal.


title: Tollrm9/rm10 vs. Toll10b Drosophila mutant embryos

description:
RNA was obtained 2-4 hour staged embryos containing different levels of nuclear Dorsal.
Tollrm9/rm10 contains intermediate levels of nuclear Dorsal. Toll10b contains uniform levels of nuclear Dorsal.


title: zzYra1IP_v_zzMex67IP 050201 slide 2 scan 4

first: Haley

last: Hieronymus

address: 1 Jimmy Fund Way SM922

institute: Harvard Medical School and Dana-Farber Cancer Institute

description:
Comparison of cDNA from RNA co-IPed with zzYra1
to cDNA from RNA co-IPed with zzMex67

organism: Saccharomyces cerevisiae

source_name: zzYra1 co-IPed RNA

source_name: zzMex67 co-IPed RNA


title: H9LMS00110807

description:
Large-scale analysis of the human transcriptome.
CD34+Thy- progenitor cells, GCSF-treated patients
Source: Internal GNF, mail mcooke@gnf.org
Analyzed using the Affymetrix MAS4 algorithm.
Background: Avg: 139.66  Stdv: 6.13  Min: 126.06  Max: 149.25

source_name: THY-


title: H9LMS00102610

description:
Large-scale analysis of the human transcriptome.
Placenta
Source: Clontech, http://www.clontech.com/archive/OCT01UPD/pdf/PremiumRNA.pdf
Analyzed using the Affymetrix MAS4 algorithm.
Background: Avg: 142.34  Stdv: 11.33  Min: 122.09  Max: 156.35

source_name: placenta


title: 4016 0a

description: p53 +/+, 0 hour, replicate a


title: H9DKG00061402

description:
Large-scale analysis of the human transcriptome.
Retinoblastoma
Source: Internal GNF, mail mcooke@gnf.org
Analyzed using the Affymetrix MAS4 algorithm.
Background: Avg: 184.74  Stdv: 7.74  Min: 170.83  Max: 199.47

source_name: retinoblastoma


title: zzYra1IP_v_zzMex67IP 051701 slide 1 scan 4


title: 4016 12b

description: p53 +/+, 12 hour, replicate b


title: zzMex67IP_v_TotalRNA 062101 slide 3b scan 4

description:
Mex67 binding level: Comparison of cDNA from RNA IPed with zzMex67
IP to cDNA from total RNA

source_name: Total RNA


title: zzYra1IP_v_zzMex67IP 042501 slide 2 scan 5


title: 386 12b

description: p53 +/-, 12 hour, replicate b


title: zzYra1IP_v_TotalRNA 050201 slide 1 scan 3

description:
Yra1 binding level: Comparison of cDNA from RNA IPed with zzYra1
IP to cDNA from total RNA


title: 4016 12a

description: p53 +/+, 12 hour, replicate a


title: zzYra1IP_v_zzMex67IP 051701 slide 2 scan 4


title: zzYra1IP_v_TotalRNA 061601 slide 1 scan 5


title: 386 0b

description: p53 +/-, 0 hour, replicate b


title: 386 0a

description: p53 +/-, 0 hour, replicate a


title: 3792 12b

description: p53 -/-, 12 hour, replicate b


title: zzMex67IP_v_TotalRNA 061601 slide 2a scan 1


title: 386 12a

description: p53 +/-, 12 hour, replicate a


title: zzMex67IP_v_TotalRNA 062101 slide 2a scan 3


title: zzYra1IP_v_zzIP 060201 slide 2 scan 3

description:
Comparison of cDNA from RNA IPed with zzYra1
IP to that IPed with the zz tag alone (control IP)

source_name: zz IP

source_name: zzYra1 IP


title: zzYra1IP_v_zzMex67IP 041501 slide 2 scan 4


title: zzMex67IP_v_TotalRNA 061601 slide 2b scan 3


title: 3792 12a

description: p53 -/-, 12 hour, replicate a


title: zzYra1IP_v_TotalRNA 060701 slide 2 scan 2


title: 3792 0a

description:
p53 -/-, 0 hour, replicate a
Keywords = colon cancer, p53, expression


title: zzYra1IP_v_TotalRNA 042501 slide 3 scan 4


title: zzMex67IP_v_zzIP 061601 slide 3 scan 3

description:
Comparison of cDNA from RNA IPed with zzMez67
IP to that IPed with the zz tag alone (control IP)

source_name: zzMex67 IP


title: Mnk_3226-T-3

status: Public on Nov 21 2002

city: Rockville

first: Maryanne

last: Vahey

state: MD

address: 1600 East Gude Drive

institute: Walter Reed Army Institute of Research

description:
Animal #3226
Typical progression group
Three weeks Post-Infection with SIV MAC251

organism: Macaca mulatta

source_name: PBMC from Rhesus Macaque


title: Mnk_3220-S-7

description:
Animal #3220
Slow progression group
Seven weeks post-Infection with SIV MAC251


title: zzYra1IP_v_zzIP 041301 slide 1 scan 3


title: Mnk_3214-S-3

description:
Animal #3214
Slow progression group
Three weeks Post-Infection with SIV MAC251


title: Mnk_3226-T-7

description:
Animal #3226
Typical progression group
Seven weeks Post-Infection with SIV MAC251


title: Mnk_3206-R-B

description:
Animal #3206
Rapid progression group
Baseline Un-Infected sample


title: Mnk_3214-S-B

description:
Animal #3214
Slow progression group
Baseline Un-Infected sample


title: Mnk_3220-S-B

description:
Animal #3220
Slow progression group
Baseline Un-Infected


title: 3792 0b

description: p53 -/-, 0 hour, replicate b


title: Mnk_3226-T-B

description:
Animal #3226
Typical progression group
Baseline Un-Infected


title: zzYra1IP_v_TotalRNA 042501 slide 1 scan 4


title: zzYra1IP_v_zzIP 060201 slide 1 scan 3


title: Mnk_3213-S-7

description:
Animl #3213
Slow progression group
Seven weeks Post-Infection with SIV MAC251


title: zzYra1IP_v_zzIP 040601 (slide 1) scan 5


title: zzMex67IP_v_zzIP 121701 slide 1 scan 1

description: Comparison of cDNA from RNA IPed with zzMez67 IP to that IPed with the zz tag alone (control IP)


title: Mnk_3213-S-B

description:
Animal #3213
Slow progression group
Baseline Un-Infected sample


title: Mnk_3214-S-7

description:
Animal #3214
Slow progression group
Seven weeks Post-Infection with SIV MAC251


title: Mnk_3206-R-7

description:
Animal #3206
Rapid progression group
Seven weeks Post-Infection with SIV MAC251


title: zzYra1IP_v_zzIP 041501 slide 1 scan 5


title: zzMex67IP_v_zzIP 060201 slide 5 scan 3


title: Mnk_3213-S-3

description:
Animal #3213
Slow progression group
Three weeks post -infection with SIV MAC251


title: Mnk_3220-S-3

description:
Animal #3220
Slow progression group
Three weeks Post-Infection with SIV MAC251


title: zzMex67IP_v_zzIP 060701 slide 3 scan 3


title: Mnk_3206-R-3

description:
Animal #3206
Rapid progression group
Three weeks Post-Infection with SIV MAC251


title: Mnk_3204-T-B

description:
Animal #3204
Typical progression group
Baseline Un-Infected sample


title: Mnk_3204-T-7

description:
Animal #3204
Typical progression group
Seven weeks Post-Infection with SIV MAC251


title: Mnk_3204-T-3

description:
Animal #3204
Typical progression group
Three weeks Post-Infection with SIV MAC251


title: Mnk_3201-R-B

description:
Animal #3201
Rapid progression group
Baseline Un-Infected sample


title: Mnk_3176-R-3

description:
Animal #3176
Rapid progression group
Three weeks Post infection with SIV MAC251


title: Mnk_3201-R-7

description:
Animal #3201
Rapid progression group
Seven Weeks Post-Infection with SIV MAC251

source_name: PBMC from Rhesus Macaques


title: Mnk_3176-R-B

description:
Animal #3176
Rapid Progression group
Baseline Un-Infected sample


title: NIEHS_Rat_Tox_2w_D-Mannitol-63-164

status: Public on Nov 20 2002

city: Thousand Oaks

first: Hisham

middle: K

last: Hamadeh

address: One Amgen Center Drive, Mailstop 5-1-A

department: Toxicology

institute: Currently at: Amgen Inc.

description:
Male Sprague-Dawley VAF+ albino rats (CRL:CD(SD) BR; Charles River, Kingston, NY) approximately 57 weeks old were maintained on certified rodent chow (PMI Feeds, Inc., Brentwood, MO) ad libitum in individual stainless steel wire bottom cages suspended on racks. The animals were kept under controlled lighting (12-h light-dark cycle), temperature (720 1 50F), and humidity (50 1 20%) and were acclimated to this environment for 47 days prior to the start of the study. Healthy rats were randomly assigned to dose groups (3 rats/group) by a computerized method. For the 2-week studies, a 1-week pretest involved dosing of all animals via oral gavage with 10 ml/kg vehicle. The 24-h studies did not have any pretest period. Clofibrate (CAS # 637070), gemfibrozil (CAS # 25812300), and phenobarbital (CAS # 57307) were obtained from Sigma (St. Louis, MO); Wyeth 14,643 (CAS # 50892234) was obtained from ChemSyn Laboratories (Lenexa, KS). Dosing suspensions of all compounds were prepared using a high speed homogenizer, and all dose suspensions were continuously stirred until completion of dosing. The peroxisome proliferators (clofibrate, gemfibrozil, and Wyeth 14,643) were prepared using 1% carboxymethylcellulose/0.2% Tween 80 as vehicle and phenobarbital was prepared using water as vehicle. Drug concentration and identity were verified via HPLC, as per United States Pharmacopeia (USP) methods for clofibrate, gemfibrozil, and phenobarbital. For Wyeth 14,643, a Waters 600E HPLC was equipped with a variable wavelength detector set at 235 nm, and a Symmetry Cs 4.6 x 250 mm column. Equal portions (approximately 10 ml) of standard and test solutions were injected separately into the column. Parameters of the run were as follows: mobile phase, 0.0738 M sodium acetate:acetonitrile (55:45 v/v); flow rate, 1 ml/min; column temperature, ambient; and run time, 6 min. The HPLC retention time of Wyeth 14,643 under these parameters was 3.4 1 0.1 min. Body weights and food consumption were measured weekly. Based on the most recently recorded body weights, the volume of drug administered was adjusted. Animals were observed 23 times daily for signs of overt toxicity. Experiments were performed according to the guidelines established in the NIH Guide for the Care and Use of Laboratory Animals. At the end of the drug phase of the study, each animal was fasted overnight before necropsy. Animals were taken to a deep plain of anesthesia with CO2, sacrificed by axillary vessel incision; exsanguination and necropsy immediately followed. A cross section of the left lateral lobe of the liver was collected in 10% neutral buffered formalin for histopathology. The remaining portions of liver were collected in RNase-free tubes and snap frozen in liquid nitrogen. Frozen tissues were stored at 700C until processed for RNA extraction. A control sample was generated by pooling livers of 9 vehicle-treated rats.
The liver tissues collected in formalin at necropsy were processed, embedded in paraffin, sectioned at 5 microns, and stained with hematoxylin and eosin (H&E). Histopathologic examinations of the liver sections were conducted by a pathologist and peer-reviewed.
Total RNA was isolated using QIAGEN (Qiagen, Valencia, CA) RNeasy kits. Liver sections of 130250 mg were used for midipreps and liver sections of approximately 800 mg were used for maxipreps. Homogenization buffer was added to frozen liver sections, and the tissue was immediately homogenized on ice (tissue did not thaw prior to homogenization) using a Cyclone homogenizer equipped with a rotor/stator shaft (VirTis Company, Gardiner, NY). Homogenates were processed as per the standard QIAGEN 3/99 protocol. Final product yielded 260 nm/280 nm ratios of 1.62.0, purity was confirmed via gels, and concentration was determined based on 260 nm absorbances.
For microarray hybridizations, each total RNA sample (3575 5g) was labeled with Cyanine 3 (Cy3)-or Cyanine 5 (Cy5)-conjugated dUTP (Amersham, Piscataway, NJ) by a reverse transcription reaction using reverse transcriptase, SuperScript (Invitrogen, Carlsbad, California), and the primer, Oligo dT (Amersham, Piscataway, NJ). Control samples were labeled with Cy3 while samples derived from chemically exposed animals were labeled with Cy5. The fluorescently labeled cDNAs were mixed and hybridized simultaneously to the cDNA microarray chip. Each RNA pair was labeled and hybridized independently in triplicate to a total of 3 arrays. The cDNA chips were scanned with an Axon Scanner (Axon Instruments, Foster City CA) using independent laser excitation of the 2 fluors at 532 and 635 nm wavelengths for the Cy3 and Cy5 labels, respectively.
The raw pixel intensity images were analyzed using the ArraySuite v1.3 extensions of the IPLab image processing software package (Scanalytics, Fairfax, VA). This program uses methods that were developed and previously described by Chen et al. (1997) to locate targets on the array, measure local background for each target, and subtract it from the target intensity value, and to identify differentially expressed genes using a probability-based method. After pixel intensity determination and background subtraction, the ratio of the intensity of the treated cells to the intensity of the control was calculated. We have previously determined that significant autofluorescence of the gene features on the array, attributed to spotting solution, occurs at high scanning power (Tucker et al., unpublished). We measured the pixel intensity level of "blank" spots comprised of spotting solution. The data was then filtered to provide a cut off at the intensity level just above the blank measurement values in order to remove from further analyses those genes having one or more intensity values in the background range.
--  taken largely verbatim from Hamadeh et al., Toxicological Sciences 67, 219-231 (2002)

organism: Rattus norvegicus

source_name: reference

source_name: Liver 2w_D-Mannitol-63-164


title: NIEHS_Rat_Tox_2w_D-Mannitol-63-165

source_name: Liver 2w_D-Mannitol-63-165


title: Mnk_3149-R-7

description:
Animal #3149
Rapid progression group
Seven weeks Post infection with SIV MAC251


title: NIEHS_Rat_Tox_2w_D-Mannitol-63-163

source_name: Liver 2w_D-Mannitol-63-163


title: Mnk_3176-R-7

description:
Animal #3176
Rapid progression group
Seven weeks Post Infection with SIV MAC251


title: Mnk_3142-T-7

description:
Animal #3142
Typical progression group
Seven weeks Post infection with SIV MAC251


title: Mnk_3149-R-B

description:
Animal #3149
Rapid progression group
Baseline Uninfected sample


title: NIEHS_Rat_Tox_2w_D-Mannitol-61-154

source_name: Liver 2w_D-Mannitol-61-154


title: Mnk_3133-S-3

description:
Animal # 3133
Slow progression group
Three weeks post infection with SIV MAC251

source_name: PBMC of Rhesus Macaque


title: Mnk_3133-S-B

description:
Animal #3133
Slow progression group
Baseline uninfected sample


title: NIEHS_Rat_Tox_2w_D-Mannitol-62-155

source_name: Liver 2w_D-Mannitol-62-155


title: NIEHS_Rat_Tox_2w_D-Mannitol-60-153

source_name: Liver 2w_D-Mannitol-60-153


title: Mnk_3133-S-7

description:
Animal # 3133
Slow progression group
7 Weeks post infection with SIV MAC 251

source_name: PBMC of Rhesus Macaque Mnk_3133-S-7


title: Mnk_3137-T-3

description:
Animal # 3137
Typical progression group
Three weeks Post infection with SIV MAC251


title: Mnk_3142-T-3

description:
Animal #3142
Typical progression group
Three weeks Post infection with SIV MAC251


title: Mnk_3137-T-B

description:
Animal #3137
Typical progression group
Baseline uninfected sample


title: Mnk_3201-R-3

description:
Animal #3201
Rapid progression group
Three weeks Post-Infection with SIV MAC251


title: Mnk_3137-T-7

description:
Animal #3137
Typical progression group
Seven weeks Post infection with SIV MAC251


title: NIEHS_Rat_Tox_2w_Phenobarbital-59-179

source_name: Liver 2w_Phenobarbital-59-179


title: NIEHS_Rat_Tox_2w_Phenobarbital-59-152

source_name: Liver 2w_Phenobarbital-59-152


title: Mnk_3149-R-3

description:
Animal #3149
Rapid progression group
Three weeks Post infection with SIV MAC251


title: NIEHS_Rat_Tox_2w_Gemfibrozil-55-148

source_name: Liver 2w_Gemfibrozil-55-148


title: NIEHS_Rat_Tox_2w_Phenobarbital-57-150

source_name: Liver 2w_Phenobarbital-57-150


title: NIEHS_Rat_Tox_2w_Gemfibrozil-56-149

source_name: Liver 2w_Gemfibrozil-56-149


title: NIEHS_Rat_Tox_2w_Gemfibrozil-54-147

source_name: Liver 2w_Gemfibrozil-54-147


title: NIEHS_Rat_Tox_2w_Phenobarbital-58-151

source_name: Liver 2w_Phenobarbital-58-151


title: NIEHS_Rat_Tox_2w_Wyeth-53-146

source_name: Liver 2w_Wyeth-53-146


title: NIEHS_Rat_Tox_2w_Wyeth-52-162

source_name: reference

source_name: Liver 2w_Wyeth-52-162


title: NIEHS_Rat_Tox_2w_Wyeth-52-145

source_name: Liver 2w_Wyeth-52-145


title: Pro-embryo stage of Medicago truncatula callus

type: SAGE

anchor: NlaIII

city: Ardmore

first: Zeji

last: Du

state: OK

address: 2510 Sam Noble Parkway

department: Plant Biology Division

institute: Samuel Roberts Noble Foundation

description: Pro-embryos initiated from leaf-derived callus of Medicago truncatula (A17). Total RNA was isolated using TRIzol reagent. mRNA was isolated using oligo-dT beads.

organism: Medicago truncatula


title: NIEHS_Rat_Tox_2w_Wyeth-51-143

source_name: Liver 2w_Wyeth-51-143


title: NIEHS_Rat_Tox_2w_Wyeth-51-161

source_name: Liver 2w_Wyeth-51-161


title: NIEHS_Rat_Tox_2w_Wyeth-52-144

source_name: Liver 2w_Wyeth-52-144


title: NIEHS_Rat_Tox_2w_Wyeth-51-142

source_name: Liver 2w_Wyeth-51-142


title: NIEHS_Rat_Tox_2w_Clofibrate-50-141

source_name: Liver 2w_Clofibrate-50-141


title: NIEHS_Rat_Tox_2w_Clofibrate-50-160

source_name: Liver 2w_Clofibrate-50-160


title: NIEHS_Rat_Tox_2w_Clofibrate-50-140

source_name: Liver 2w_Clofibrate-50-140


title: NIEHS_Rat_Tox_2w_Clofibrate-49-159

source_name: Liver 2w_Clofibrate-49-159


title: NIEHS_Rat_Tox_2w_D-Mannitol-62-135

source_name: Liver 2w_D-Mannitol-62-135


title: NIEHS_Rat_Tox_2w_D-Mannitol-60-131

source_name: Liver 2w_D-Mannitol-60-131


title: NIEHS_Rat_Tox_2w_Clofibrate-50-178

source_name: Liver 2w_Clofibrate-50-178


title: NIEHS_Rat_Tox_2w_D-Mannitol-61-132

source_name: Liver 2w_D-Mannitol-61-132


title: NIEHS_Rat_Tox_2w_D-Mannitol-61-133

source_name: Liver 2w_D-Mannitol-61-133


title: NIEHS_Rat_Tox_2w_D-Mannitol-62-134

source_name: Liver 2w_D-Mannitol-62-134


title: Mnk_3142-T-B

description:
Animal #3142
Typical progression group
Baseline Uninfected sample

source_name: PBMC from Rhesus Macaque


title: NIEHS_Rat_Tox_2w_Phenobarbital-58-127

source_name: reference

source_name: Liver 2w_Phenobarbital-58-127


title: NIEHS_Rat_Tox_2w_Phenobarbital-58-126

source_name: Liver 2w_Phenobarbital-58-126


title: NIEHS_Rat_Tox_2w_D-Mannitol-60-130

source_name: Liver 2w_D-Mannitol-60-130


title: NIEHS_Rat_Tox_2w_Phenobarbital-59-129

source_name: Liver 2w_Phenobarbital-59-129


title: NIEHS_Rat_Tox_2w_Phenobarbital-57-111

source_name: Liver 2w_Phenobarbital-57-111


title: NIEHS_Rat_Tox_2w_Phenobarbital-57-110

source_name: Liver 2w_Phenobarbital-57-110


title: NIEHS_Rat_Tox_2w_Gemfibrozil-56-109

source_name: Liver 2w_Gemfibrozil-56-109


title: NIEHS_Rat_Tox_2w_Gemfibrozil-55-107

source_name: Liver 2w_Gemfibrozil-55-107


title: NIEHS_Rat_Tox_2w_Gemfibrozil-54-104

source_name: Liver 2w_Gemfibrozil-54-104


title: NIEHS_Rat_Tox_2w_Gemfibrozil-55-106

source_name: Liver 2w_Gemfibrozil-55-106


title: NIEHS_Rat_Tox_2w_Gemfibrozil-54-105

source_name: Liver 2w_Gemfibrozil-54-105


title: NIEHS_Rat_Tox_2w_Clofibrate-49-139

source_name: Liver 2w_Clofibrate-49-139


title: NIEHS_Rat_Tox_2w_Wyeth-53-103

source_name: Liver 2w_Wyeth-53-103


title: NIEHS_Rat_Tox_2w_Gemfibrozil-56-108

source_name: Liver 2w_Gemfibrozil-56-108


title: NIEHS_Rat_Tox_2w_Clofibrate-48-112

source_name: Liver 2w_Clofibrate-48-112


title: NIEHS_Rat_Tox_2w_Clofibrate-48-137

source_name: Liver 2w_Clofibrate-48-137


title: NIEHS_Rat_Tox_2w_Clofibrate-48-113

source_name: reference

source_name: Liver 2w_Clofibrate-48-113


title: NIEHS_Rat_Tox_24_Wyeth-40-89

source_name: Liver 24_Wyeth-40-89


title: NIEHS_Rat_Tox_2w_Wyeth-53-102

source_name: Liver 2w_Wyeth-53-102


title: NIEHS_Rat_Tox_24_Wyeth-39-76

source_name: Liver 24_Wyeth-39-76


title: NIEHS_Rat_Tox_24_Wyeth-40-77

source_name: Liver 24_Wyeth-40-77


title: NIEHS_Rat_Tox_24_Wyeth-39-53

source_name: Liver 24_Wyeth-39-53


title: NIEHS_Rat_Tox_24_Wyeth-39-71

source_name: Liver 24_Wyeth-39-71


title: NIEHS_Rat_Tox_24_Phenobarbital-46-100

source_name: Liver 24_Phenobarbital-46-100


title: NIEHS_Rat_Tox_24_Phenobarbital-37-98

source_name: Liver 24_Phenobarbital-37-98


title: NIEHS_Rat_Tox_24_Phenobarbital-46-62

source_name: Liver 24_Phenobarbital-46-62


title: NIEHS_Rat_Tox_24_Phenobarbital-45-91

source_name: Liver 24_Phenobarbital-45-91


title: NIEHS_Rat_Tox_24_Phenobarbital-46-99

source_name: Liver 24_Phenobarbital-46-99


title: NIEHS_Rat_Tox_24_Phenobarbital-45-82

source_name: Liver 24_Phenobarbital-45-82


title: NIEHS_Rat_Tox_24_Gemfibrozil-44-97

source_name: Liver 24_Gemfibrozil-44-97


title: NIEHS_Rat_Tox_24_Phenobarbital-45-63

source_name: Liver 24_Phenobarbital-45-63


title: NIEHS_Rat_Tox_24_Wyeth-16-70

source_name: Liver 24_Wyeth-16-70


title: NIEHS_Rat_Tox_24_Wyeth-16-75

source_name: reference

source_name: Liver 24_Wyeth-16-75


title: NIEHS_Rat_Tox_24_Gemfibrozil-44-96

source_name: Liver 24_Gemfibrozil-44-96


title: NIEHS_Rat_Tox_24_Gemfibrozil-44-67

source_name: Liver 24_Gemfibrozil-44-67


title: NIEHS_Rat_Tox_24_Wyeth-16-52

source_name: Liver 24_Wyeth-16-52


title: NIEHS_Rat_Tox_24_Phenobarbital-37-90

source_name: Liver 24_Phenobarbital-37-90


title: NIEHS_Rat_Tox_24_Phenobarbital-37-64

source_name: Liver 24_Phenobarbital-37-64


title: NIEHS_Rat_Tox_24_Wyeth-40-54

source_name: Liver 24_Wyeth-40-54


title: NIEHS_Rat_Tox_24_Gemfibrozil-43-66

source_name: Liver 24_Gemfibrozil-43-66


title: NIEHS_Rat_Tox_24_Gemfibrozil-43-95

source_name: Liver 24_Gemfibrozil-43-95


title: NIEHS_Rat_Tox_24_Clofibrate-42-88

source_name: Liver 24_Clofibrate-42-88


title: NIEHS_Rat_Tox_24_Gemfibrozil-36-65

source_name: Liver 24_Gemfibrozil-36-65


title: NIEHS_Rat_Tox_24_Gemfibrozil-43-94

source_name: Liver 24_Gemfibrozil-43-94


title: NIEHS_Rat_Tox_24_Clofibrate-42-51

source_name: Liver 24_Clofibrate-42-51


title: NIEHS_Rat_Tox_24_Clofibrate-41-50

source_name: Liver 24_Clofibrate-41-50


title: NIEHS_Rat_Tox_24_Clofibrate-41-73

source_name: Liver 24_Clofibrate-41-73


title: NIEHS_Rat_Tox_24_Clofibrate-42-74

source_name: Liver 24_Clofibrate-42-74


title: NIEHS_Rat_Tox_24_Gemfibrozil-36-93

source_name: reference

source_name: Liver 24_Gemfibrozil-36-93


title: NIEHS_Rat_Tox_24_Gemfibrozil-36-92

source_name: Liver 24_Gemfibrozil-36-92


title: NIEHS_Rat_Tox_24_Clofibrate-41-69

source_name: Liver 24_Clofibrate-41-69


title: D3_TP-48_I

status: Public on Nov 13 2002

description:
Donor 3  Time point 48 hours
post infection with HIV-1, RF

source_name: Human PBMC


title: NIEHS_Rat_Tox_24_Clofibrate-35-87

description:
Male Sprague-Dawley VAF+ albino rats (CRL:CD(SD) BR; Charles River, Kingston, NY) approximately 57 weeks old were maintained on certified rodent chow (PMI Feeds, Inc., Brentwood, MO) ad libitum in individual stainless steel wire bottom cages suspended on racks. The animals were kept under controlled lighting (12-h light-dark cycle), temperature (720 1 50F), and humidity (50 1 20%) and were acclimated to this environment for 47 days prior to the start of the study. Healthy rats were randomly assigned to dose groups (3 rats/group) by a computerized method. For the 2-week studies, a 1-week pretest involved dosing of all animals via oral gavage with 10 ml/kg vehicle. The 24-h studies did not have any pretest period. Clofibrate (CAS # 637070), gemfibrozil (CAS # 25812300), and phenobarbital (CAS # 57307) were obtained from Sigma (St. Louis, MO); Wyeth 14,643 (CAS # 50892234) was obtained from ChemSyn Laboratories (Lenexa, KS). Dosing suspensions of all compounds were prepared using a high speed homogenizer, and all dose suspensions were continuously stirred until completion of dosing. The peroxisome proliferators (clofibrate, gemfibrozil, and Wyeth 14,643) were prepared using 1% carboxymethylcellulose/0.2% Tween 80 as vehicle and phenobarbital was prepared using water as vehicle. Drug concentration and identity were verified via HPLC, as per United States Pharmacopeia (USP) methods for clofibrate, gemfibrozil, and phenobarbital. For Wyeth 14,643, a Waters 600E HPLC was equipped with a variable wavelength detector set at 235 nm, and a Symmetry Cs 4.6 x 250 mm column. Equal portions (approximately 10 ml) of standard and test solutions were injected separately into the column. Parameters of the run were as follows: mobile phase, 0.0738 M sodium acetate:acetonitrile (55:45 v/v); flow rate, 1 ml/min; column temperature, ambient; and run time, 6 min. The HPLC retention time of Wyeth 14,643 under these parameters was 3.4 1 0.1 min. Body weights and food consumption were measured weekly. Based on the most recently recorded body weights, the volume of drug administered was adjusted. Animals were observed 23 times daily for signs of overt toxicity. Experiments were performed according to the guidelines established in the NIH Guide for the Care and Use of Laboratory Animals. At the end of the drug phase of the study, each animal was fasted overnight before necropsy. Animals were taken to a deep plain of anesthesia with CO2, sacrificed by axillary vessel incision; exsanguination and necropsy immediately followed. A cross section of the left lateral lobe of the liver was collected in 10% neutral buffered formalin for histopathology. The remaining portions of liver were collected in RNase-free tubes and snap frozen in liquid nitrogen. Frozen tissues were stored at 700C until processed for RNA extraction. A control sample was generated by pooling livers of 9 vehicle-treated rats.
The liver tissues collected in formalin at necropsy were processed, embedded in paraffin, sectioned at 5 microns, and stained with hematoxylin and eosin (H&E). Histopathologic examinations of the liver sections were conducted by a pathologist and peer-reviewed.
Total RNA was isolated using QIAGEN (Qiagen, Valencia, CA) RNeasy kits. Liver sections of 130250 mg were used for midipreps and liver sections of approximately 800 mg were used for maxipreps. Homogenization buffer was added to frozen liver sections, and the tissue was immediately homogenized on ice (tissue did not thaw prior to homogenization) using a Cyclone homogenizer equipped with a rotor/stator shaft (VirTis Company, Gardiner, NY). Homogenates were processed as per the standard QIAGEN 3/99 protocol. Final product yielded 260 nm/280 nm ratios of 1.62.0, purity was confirmed via gels, and concentration was determined based on 260 nm absorbances.
For microarray hybridizations, each total RNA sample (3575 5g) was labeled with Cyanine 3 (Cy3)-or Cyanine 5 (Cy5)-conjugated dUTP (Amersham, Piscataway, NJ) by a reverse transcription reaction using reverse transcriptase, SuperScript (Invitrogen, Carlsbad, California), and the primer, Oligo dT (Amersham, Piscataway, NJ). Control samples were labeled with Cy3 while samples derived from chemically exposed animals were labeled with Cy5. The fluorescently labeled cDNAs were mixed and hybridized simultaneously to the cDNA microarray chip. Each RNA pair was labeled and hybridized independently in triplicate to a total of 3 arrays. The cDNA chips were scanned with an Axon Scanner (Axon Instruments, Foster City CA) using independent laser excitation of the 2 fluors at 532 and 635 nm wavelengths for the Cy3 and Cy5 labels, respectively.
The raw pixel intensity images were analyzed using the ArraySuite v1.3 extensions of the IPLab image processing software package (Scanalytics, Fairfax, VA). This program uses methods that were developed and previously described by Chen et al. (1997) to locate targets on the array, measure local background for each target, and subtract it from the target intensity value, and to identify differentially expressed genes using a probability-based method. After pixel intensity determination and background subtraction, the ratio of the intensity of the treated cells to the intensity of the control was calculated. We have previously determined that significant autofluorescence of the gene features on the array, attributed to spotting solution, occurs at high scanning power (Tucker et al., unpublished). We measured the pixel intensity level of "blank" spots comprised of spotting solution. The data was then filtered to provide a cut off at the intensity level just above the blank measurement values in order to remove from further analyses those genes having one or more intensity values in the background range.
--  taken largely verbatim from Hamadeh et al., Toxicological Sciences 67, 219-231 (2002)

source_name: Liver 24_Clofibrate-35-87


title: Globular stage embryos of Medicago truncatula

status: Public on Nov 14 2002

description: Globular stage embryos initiated from leaf-derived callus of Medicago truncatula (A17). Total RNA was isolated using TRIzol reagent. mRNA was isolated using oligo-dT beads.


title: NIEHS_Rat_Tox_24_Clofibrate-35-68

source_name: Liver 24_Clofibrate-35-68


title: NIEHS_Rat_Tox_24_Clofibrate-35-72

source_name: Liver 24_Clofibrate-35-72


title: D3_TP-72_C

description:
Donor 3  Time point 72 hours
Autologous control (uninfected)


title: D3_TP-0_I

description:
Donor 3  Time point 0
infected with HIV-1, RF


title: Non-embryogenic callus of Medicago truncatula

description: Leaf-derived non-embryogenic callus of wild type Medicago truncatula (A17). Total RNA was isolated using TRIzol reagent. mRNA was isolated using oligo-dT beads.


title: D3_TP-0_C

description:
Donor 3  Time point 0
Autologous control (uninfected)


title: D2_TP-24_C

description:
Donor 2  Time point 24 hours
Autologous Control (uninfected)


title: D3_TP-12_I

description:
Donor 3 Time point 12 hours
post infection with HIV-1, RF


title: D2_TP-48_C

description:
Donor 2  Time Point 48 hours
Autologous control (uninfected)


title: D3_TP-24_I

description:
Donor 3  Time point 24 hours
post Infection with HIV-1, RF


title: D3_TP-24_C

description:
Donor 3 Time point 24 hours
Autologous control (uninfected)


title: D2_TP-12_I

description:
Donor 2  Time point 12 hours
Post infection with HIV-1, RF

source_name: Himan PBMC


title: D3_TP-72_I

description:
Donor 3  Time point 72 hours
post Infection with HIV-1, RF


title: D2_TP-12_C

description:
Donor 2  Time point 12 hours
Autologous control (uninfected)


title: D2_TP-72_C

description:
Donor 2  Time point 72 hours
Autologous control (uninfected)


title: D1_TP-72_C

description:
Donor 1  Time point 72 hours
Autologous Control (uninfected)


title: D2_TP-48_I

description:
Donor 2  Time point 48 hours
post infection with HIV-1, RF


title: D2_TP-0_I

description:
Donor 2  Time point 0
Infected with HIV-1, RF
Lot batch = 11839152


title: D3_TP-12_C

description:
Donor 3  Time point 12 hours
Autologous control (uninfected)


title: D1_TP-72_I

description:
Donor 1  Time point 72 hours
post infection with HIV-1, RF


title: Rat Sertoli cell FSH treated 8 hr rep2

city: Pullman

first: Derek

middle: J

last: McLean

state: WA

department: School of Molecular Biosciences

institute: Washington State University

description:
Rat Sertoli cells in vitro treated with FSH for 8 hours, replicate 2
Keywords = rat, testis, Sertoli cell, FSH

source_name: Twenty day old rat Sertoli cells FSH treated 8 hr rep2


title: D1_TP-48_I

description:
Donor 1  Time point 48 hours
post infection with HIV-1, RF


title: D2_TP-24_I

description:
Donor 2  Time point 24 hours
Post infection with HIV-1, RF


title: D2_TP-72_I

description:
Donor 2  Time point 72 hours
post infection with HIV-1, RF


title: D2_TP-0_C

description:
Donor 2  Time point 0
Autologous Control (uninfected)
Lot batch = 11839152


title: D1_TP-48_C

description:
Donor 1 Time point 48 hours
Autologous control (uninfected)


title: Rat Sertoli cell FSH treated 4 hr rep2

description:
Rat Sertoli cells in vitro treated with FSH for 4 hr, replicate 2
Keywords = rat, Sertoli cell, testis, FSH

source_name: Twenty day old rat Sertoli cells in vitro FSH 4 hr


title: D1_TP-24_I

description:
Donor 1  Time point 24 hours
post infection with HIV-1, RF


title: D1_TP-12_C

description:
Donor 1 time point 12 hours
Autologous Control (uninfected)


title: D1_TP-24_C

description:
Donor 1 time point 24 hours
Autologous control (uninfected)


title: Rat Sertoli cell FSH treated 8 hr rep1

description:
Rat Sertoli cells treated with FSH for 8 hours, replicate 1
Keywords = rat, Sertoli cell, FSH, testis

source_name: Twenty day old rat Sertoli cells FSH treated 8 hr rep1


title: Rat Sertoli cell FSH treated 4 hr rep1

description:
Rat Sertoli cells in vitro treated with FSH for 4 hours, replicate 1
Keywords = rat, Sertoli cell, testis, FSH

source_name: Twenty day old rat Sertoli cells FSH treated 4 hr


title: D1_TP-12_I

description:
Donor 1 time point 12 hours
Post infection with HIV-1, RF


title: Rat Sertoli cell FSH treated 2 hr rep2

description:
Rat Sertoli cells treated with FSH in vitro for 2 hours, replicate 2
Keywords = rat
Keywords = Sertoli cell
Keywords = testis
Keywords = FSH

source_name: Twenty day old rat Sertoli cell invitro FSH 2hr


title: D1_TP-0_I

description:
Donor 1 time point 0
Infected with HIV-1, RF


title: Rat Sertoli cell time=0 rep 2

description: Rat Sertoli cells in vitro time=0 control, replicate 2

source_name: Twenty day old rat Sertoli cells in vitro


title: Rat Sertoli cell control rep 1

description:
Cultured rat Sertoli cells time=0 control
Keywords = rat, Sertoli cell, testis, FSH


title: Rat Sertoli cell FSH time=2 hr

description:
Rat Sertoli cells in vitro treated with FSH for 2 hours
Keywords = rat, Sertoli cell, testis, FSH

source_name: Twenty day rat Sertoli cell in vitro FSH treated 2 hr


title: Lager beer fermentation 240 hours

status: Public on Sep 03 2002

city: Copenhagen Valby

first: Kjeld

last: Olesen

address: Gamle Carlsberg Vej 10

institute: Carlsberg Research Laboratory

description:
Production scale lager beer fermentation
using lager brewing yeast.
Synonym: Saccharomyces carlsbergensis

organism: Saccharomyces pastorianus

source_name: 240 hours


title: Lager beer fermentation 192 hours

source_name: 192 hours


title: Lager beer fermentation 264 hours

source_name: 264 hours


title: Lager beer fermentation 120 hours

source_name: 120 hours


title: B7hi mTEC B6/129 wt3

status: Public on Sep 19 2002

first: CBDM

last: Lab

address: 77 Avenue Louis Pasteur

department: Microbiology and Immunobiology

institute: Harvard Medical School

description: Mice used were wild type B6/129 F2's of 3-5 weeks of age. Thymi from five of these mice of both sexes were removed and pooled. After collagenase/dispase digestion, density gradient fractionation, and fluorescent antibody staining, cells with the phenotype CD45-, G8.8+, CDR1int and B7.1hi were FACS-sorted and total RNA was made from them. RNA was twice-amplified using a T7 polymerase-based method.

source_name: murine medullary thymic epithelial cells


title: B7hi mTEC B6/129 wt1

description: Mice used were wild type B6/129 F2's of 3-5 weeks of age.  Thymi from five of these mice of both sexes were removed and pooled.  After collagenase/dispase digestion, density gradient fractionation, and fluorescent antibody staining, cells with the phenotype CD45-, G8.8+, CDR1int and B7.1hi were FACS-sorted and total RNA was made from them.  RNA was twice-amplified using a T7 polymerase-based method.


title: B7hi mTEC B6/129 aire-/- 1

description: Mice used were B6/129 F2's, 3-5 weeks of age, with both copies of the autoimmune regulator gene (aire, GenBank #AF079536) disrupted. Thymi from five of these mice of both sexes were removed and pooled. After collagenase/dispase digestion, density gradient fractionation, and fluorescent antibody staining, cells with the phenotype CD45-, G8.8+, CDR1int and B7.1hi were FACS-sorted and total RNA was made from them. RNA was twice-amplified using a T7 polymerase-based method.


title: D3_TP-48_C

description:
Donor 3  Time point 48 hours
Autologous control (uninfected)

source_name: Human PBMC


title: Lager beer fermentation 96 hours

source_name: 96 hours


title: D1_TP-0_C

description:
Donor 1 time point 0
autologous control (uninfected)


title: Lager beer fermentation 144 hours

source_name: 144 hours


title: Lager beer fermentation 168 hours

source_name: 168 hours


title: B7hi mTEC B6/129 aire-/- 3


title: Lager beer fermentation 48 hours

source_name: 48 hours


title: Lager beer fermentation 72 hours

source_name: 72 hours


title: B7hi mTEC B6/129 wt2


title: B7hi mTEC B6/129 aire-/- 2


title: CLP2

status: Public on Aug 27 2002

city: St. Louis

first: Jason

middle: Matthew

last: Laramie

state: MO

address: 660 South Euclid Avenue

department: Surgery

institute: Washington University

description: C57/B6 subjected to cecal ligation and puncture (CLP) and samples taken 24hr after surgery.

source_name: Spleen


title: CLP1


title: Sham1

description: C57/B6 mouse was subjected to sham laparotomy and sample taken 24hr after surgery.

source_name: spleen


title: Lager beer fermentation 1 hours

source_name: 1 hours


title: Sham2


title: Lager beer fermentation 24 hours

source_name: 24 hours


title: Lager beer fermentation 0 hours

source_name: 0 hours


title: insulin sensitive sample pool 4 muscle on Hu35K subA

status: Public on Aug 26 2002

city: Phoenix

first: Paska

last: Permana

state: AZ

department: Phoenix Epidemiology and Clinical Research Branch

institute: NIDDK, NIH

description:
Biopsy location: vastus lateralis
IS4: insulin sensitive sample pool 4

source_name: muscle


title: insulin resistant sample pool 2 muscle on Hu35K subA

description:
Biopsy location: vastus lateralis
IR2: insulin resistant sample pool 2


title: insulin resistant sample pool 4 muscle on Hu35K subA

description:
Biopsy location: vastus lateralis
IR4: insulin resistant sample pool 4


title: insulin sensitive sample pool 2 muscle on Hu35K subA

description:
Biopsy location: vastus lateralis
IS2: insulin sensitive sample pool 2


title: SAGE_cervix_normal_B_1

status: Public on Oct 03 2002

city: Mexico

first: Carlos

last: Perez-Plasencia

address: Cuauhtemoc 300

department: UIMEO

country: Mexico

institute: Mexican Institute for Social Security

description:
Uterine cervix normal SAGE, CGAP non-normalized SAGE library, bulk method , HPV negative
Keywords = uterine cervix

source_name: normal exocervix


title: insulin sensitive sample pool 3 muscle on Hu35K subA

description:
Biopsy location: vastus lateralis
IS3: insulin sensitive sample pool 3


title: insulin resistant sample pool 5 muscle on Hu35K subA

description:
Biopsy location: vastus lateralis
IR5: insulin resistant sample pool 5


title: insulin resistant sample pool 3 muscle on Hu35K subA

description:
Biopsy location: vastus lateralis
IR3: insulin resistant sample pool 3


title: insulin sensitive sample pool 5 muscle on Hu35K subA

description:
Biopsy location: vastus lateralis
IS4: insulin sensitive sample pool 5


title: insulin resistant sample pool 1 muscle on Hu35K subA

description:
Biopsy location: vastus lateralis
IR1: insulin resistant sample pool 1


title: insulin sensitive sample pool 4 muscle on Hu35K subC


title: insulin sensitive sample pool 5 muscle on Hu35K subC

description:
Biopsy location: vastus lateralis
IS5: insulin sensitive sample pool 5


title: insulin sensitive sample pool 3 muscle on Hu35K subC


title: insulin resistant sample pool 2 muscle on Hu35K subC


title: insulin sensitive sample pool 1 muscle on Hu35K subC

description:
Biopsy location: vastus lateralis
IS1: insulin sensitive sample pool 1


title: insulin sensitive sample pool 2 muscle on Hu35K subC


title: insulin sensitive sample pool 5 muscle on Hu35K subB


title: insulin resistant sample pool 5 muscle on Hu35K subC


title: insulin resistant sample pool 3 muscle on Hu35K subC


title: insulin sensitive sample pool 1 muscle on Hu35K subA


title: insulin sensitive sample pool 4 muscle on Hu35K subB


title: insulin sensitive sample pool 3 muscle on Hu35K subB


title: insulin resistant sample pool 1 muscle on Hu35K subC


title: insulin sensitive sample pool 2 muscle on Hu35K subB


title: insulin resistant sample pool 3 muscle on Hu35K subB


title: insulin resistant sample pool 5 muscle on Hu35K subB


title: insulin resistant sample pool 4 muscle on Hu35K subB


title: insulin sensitive sample pool 4 muscle on Hu35K subD


title: insulin sensitive sample pool 1 muscle on HuFL


title: insulin sensitive sample pool 5 muscle on HuFL


title: insulin resistant sample pool 3 muscle on HuFL


title: insulin resistant sample pool 2 muscle on Hu35K subB


title: insulin sensitive sample pool 4 muscle on HuFL


title: insulin sensitive sample pool 3 muscle on HuFL


title: insulin resistant sample pool 5 muscle on HuFL


title: insulin resistant sample pool 4 muscle on Hu35K subD


title: insulin sensitive sample pool 2 muscle on HuFL


title: insulin sensitive sample pool 3 muscle on Hu35K subD


title: CLP3


title: insulin resistant sample pool 4 muscle on HuFL


title: insulin resistant sample pool 5 muscle on Hu35K subD


title: insulin sensitive sample pool 2 muscle on Hu35K subD


title: insulin resistant sample pool 3 muscle on Hu35K subD


title: insulin resistant sample pool 2 muscle on HuFL


title: insulin sensitive sample pool 1 muscle on Hu35K subB


title: insulin resistant sample pool 1 muscle on HuFL


title: insulin resistant sample pool 1 muscle on Hu35K subD


title: insulin resistant sample pool 2 muscle on Hu35K subD


title: PGA-swim_4w1w_s1128

status: Public on Aug 02 2002

city: Cambridge

first: Martina

last: Schinke

address: 7 Divinity Ave

department: Bauer Center for Genomic Research

institute: Harvard University

description:
Mice were sacrificed at 13 weeks of age. They can be used as controls for the 4 week swim 1 week rest mice.
Keywords = exercise induced hypertrophy

source_name: heart ventricle


title: PGA-swim_4w1w_s1126

description:
Mice were sacrificed at 13 weeks of age.  They can be used as controls for the 4 week swim 1 week rest mice.
Keywords = exercise induced hypertrophy


title: insulin resistant sample pool 4 muscle on Hu35K subC


title: PGA-swim_4w1w_s1125

description:
Mice were swum for 4 weeks and then allowed 1 week of rest before they were sacrificed.
Keywords = exercise induced hypertrophy


title: PGA-swim_4w1w_s1124


title: PGA-swim_4w_n901

status: Public on Aug 01 2002

description:
Mice sacrificed at 12 weeks of age. Can be used as a control for the 3 and 4 week swim mice
Keywords = exercise induced hypertrophy


title: insulin sensitive sample pool 1 muscle on Hu35K subD


title: PGA-swim_4w_n539

description:
Mice sacrificed at 12 weeks of age. Can be used as a control for the 3 and 4 week swim mice.
Keywords = exercise induced hypertrophy


title: insulin sensitive sample pool 5 muscle on Hu35K subD


title: PGA-swim_4w_n846

description:
Mice sacrificed at 12 weeks of age.  Can be used as a control for the 3 and 4 week swim mice.
Keywords = exercise induced hypertrophy


title: PGA-swim_4w_s909

description:
Mice sacrificed after swimming twice a day for 4 weeks.
Keywords = exercise induced hypertrophy


title: PGA-swim_2w_s1060

description:
Mice sacrificed after swimming twice a day for 2 weeks.
Keywords = exercise induced hypertrophy


title: PGA-swim_4w_s907


title: PGA-swim_3w_s1095

description:
Mice sacrificed after swimming twice a day for 3 weeks.
Keywords = exercise induced hypertrophy


title: PGA-swim_3w_s1096


title: PGA-swim_2.5d_s1002

description:
Mice sacrificed after swimming twice a day for 2.5 days.
Keywords = exercise induced hypertrophy


title: PGA-swim_2w_s1059


title: PGA-swim_1w_s1024

description:
Mice sacrificed after swimming twice a day for 1 week.
Keywords = exercise induced hypertrophy


title: PGA-swim_2.5d_s1003


title: PGA-swim_2w_s1061


title: PGA-swim_3w_s1097


title: PGA-swim_2.5d_s1000

description:
Mice sacrificed after swimming twice a day for 2.5 days.
Keywords = exercised induced hypertrophy


title: PGA-swim_10min_n996

description:
8 week old mice that did NOT undergo swimming.  Used as a control for the 10 minute, 2.5 day, 1 week, and 2 week time points.
Keywords = exercise induced hypertrophy


title: PGA-swim_4w1w_s1123


title: PGA-swim_10min_s992

description:
8 week old mice sacrificed after swimming for 10 minutes
Keywords = exercise induced hypertrophy


title: PGA-swim_10min_n998

description:
8 week old mice that did NOT undergo swimming. Used as a control for the 10 minute, 2.5 day, 1 week, and 2 week time points.
Keywords = exercised induced hypertrophy


title: PGA-swim_10min_n997


title: PGA-swim_10min_s995


title: PGA-FVB_3m_3f-m5

status: Public on Jul 12 2002

description:
FVB benchmark dataset: 3 month old female mouse
Keywords = cardiac development

source_name: Heart ventricle


title: insulin resistant sample pool 1 muscle on Hu35K subB

description:
Biopsy location: vastus lateralis
IR1: insulin resistant sample pool 1


title: PGA-FVB_3m_1f-m5


title: PGA-FVB_1y_544f-m5

description:
FVB benchmark dataset: 1 year old female mouse
Keywords = cardiac development


title: PGA-FVB_1y_529f-m5


title: PGA-FVB_1y_530f-m5


title: PGA-swim_4w_s903


title: PGA-swim_10min_s991


title: PGA-Csx_wt_5b-m4

status: Public on Jul 11 2002

description:
Mouse model of congenital heart disease.
Wild-type embyronic day 9.5 mouse.
Keywords = congenital heart disease, Csx, Nkx2.5

source_name: Middle third of E9.5 mouse


title: PGA-FVB_3m_2f-m5


title: PGA-Csx_wt_1b-m4


title: PGA-Csx_wt_7b-m4


title: PGA-Csx_het_8b-m4

description:
Mouse model of congenital heart disease in Csx/Nkx2.5 mutant embryos.
Heterozygous embyronic day 9.5 mouse.
Keywords = congenital heart disease, Csx, Nkx2.5


title: PGA-Csx_null_6a-m4

description:
Mouse model of congenital heart disease in Csx/Nkx2.5 mutant embryos.
Homozygous mutant mouse at embyronic day 9.5.
Keywords = congenital heart disease, Csx, Nkx2.5


title: PGA-Band_Sham_8w_6-m5

description:
Pressure-overload induced hypertrophy model.
Mouse was sacrificed 8 weeks after sham operation.
Keywords = cardiac hypertrophy

source_name: Left heart ventricle


title: PGA-Csx_het_3b-m4


title: PGA-Band_Sham_1w_7-m5

description:
Pressure-overload induced hypertrophy model.
Mouse was sacrificed 1 week after sham operation.
Keywords = cardiac hypertrophy


title: PGA-Band_Sham_1w_5-m5


title: PGA-Csx_het_8a-m4


title: PGA-Band_Sham_8w_5-m5


title: PGA-Csx_null_8a-m4


title: PGA-Band_Sham_8w_7-m5


title: PGA-Csx_het_4b-m4


title: PGA-Band_Sham_1w_6-m5


title: PGA-Csx_null_2a-m4


title: PGA-Csx_null_2b-m4


title: PGA-Csx_null_6b-m4


title: PGA-Csx_wt_7a-m4


title: PGA-Csx_het_3a-m4


title: PGA-Band_Sham_48h_17-m5

description:
Pressure-overload induced hypertrophy model.
Mouse was sacrificed 48 hours after sham operation.
Keywords = cardiac hypertrophy


title: PGA-Csx_wt_1a-m4

description:
Mouse model of congenital heart disease.  Wild-type embyronic day 9.5 mouse.
Keywords = congenital heart disease, Csx, Nkx2.5


title: PGA-Csx_null_9b-m4


title: PGA-Band_Sham_4h_2-m5

status: Public on Jul 10 2002

description:
Pressure-overload induced hypertrophy model.
Mouse was sacrificed 4 hours after sham operation.
Keywords = cardiac hypertrophy


title: PGA-Band_Sham_24h_13-m5

description:
Pressure-overload induced hypertrophy model.
Mouse was sacrificed 24 hours after sham operation.
Keywords = cardiac hypertrophy


title: PGA-Band_Sham_24h_12-m5


title: PGA-Band_Sham_48h_16-m5


title: PGA-Csx_wt_5a-m4


title: PGA-Band_Sham_4h_1-m5


title: PGA-Band_1w_3-m5

description:
Pressure-overload induced hypertrophy model.
Mouse was sacrificed 1 week after aortic banding.
Keywords = Cardiac hypertrophy


title: PGA-Band_Sham_1h_7-m5

description:
Pressure-overload induced hypertrophy model.
Mouse was sacrificed 1 hour after sham operation.
Keywords = cardiac hypertrophy


title: PGA-Band_8w_2-m5

description:
Pressure-overload induced hypertrophy model.
Mouse was sacrificed 8 weeks after aortic banding.
Keywords = cardiac hypertrophy


title: PGA-Band_1w_5-m5

description:
Pressure-overload induced hypertrophy model.
Mouse was sacrificed 1 week after aortic banding.
Keywords = Cardiac Hypertrophy


title: PGA-Band_Sham_24h_11-m5


title: PGA-Band_Sham_1h_5-m5


title: PGA-Band_8w_1-m5


title: PGA-Band_Sham_1h_6-m5


title: PGA-Band_Sham_4h_3-m5


title: PGA-Band_8w_4-m5


title: PGA-Band_1w_1-m5

description:
Pressure-overload induced hypertrophy model.
Mouse was sacrificed 48 hours after aortic banding.
Keywords = Cardiac hypertrophy


title: PGA-Band_48h_8-m5


title: PGA-Band_48h_10-m5


title: PGA-Band_4h_12-m5

description:
Pressure-overload induced hypertrophy model.
Mouse was sacrificed 4 hours after aortic banding.
Keywords = Cardiac hypertrophy


title: PGA-Band_48h_7-m5


title: PGA-Band_24h_5-m5

description:
Pressure-overload induced hypertrophy model.
Mouse was sacrificed 24 hours after aortic banding.
Keywords = Cardiac hypertrophy


title: PGA-Band_4h_10-m5


title: PGA-Band_24h_4-m5


title: PGA-Band_1h_14-m5

description:
Pressure-overload induced hypertrophy model.
Mouse was sacrificed 1 hour after aortic banding.
Keywords = Cardiac Hypertrophy


title: PGA-Band_1h_15-m5

description:
Pressure-overload induced hypertrophy model.
Mouse was sacrificed 1 hour after aortic banding.
Keywords = Cardiac hypertrophy


title: PGA-swim_4w1w_s1127

description:
Mice were sacrificed at 13 weeks of age. They can be used as controls for the 4 week swim 1 week rest mice.
Keywords = exercise induced hypertrophy


title: PGA-Band_4h_11-m5


title: UBOC1 Exp B Day 4 (b)

status: Public on Jul 09 2002

city: Sheffield

first: Marcelo

middle: Nicolas

last: Rivolta

state: Yorkshire

address: Western Bank

department: Biomedical Science

country: United Kingdom

institute: University of Sheffield

description:
Gene expression profile of the cell line UB/OC-1 grown for 4 days under differentiating conditions (39C). This data set is a replica experiment of sample GSM1537.
Genome Research 12(7):1091-1099, 2002.

source_name: UBOC1 cell line at 39C for 4 days


title: PGA-Band_24h_2-m5


title: UBOC1 Exp B Day 9 (a)

description:
Gene expression profile of the cell line UB/OC-1 grown for 9 days under differentiating conditions (39C). This data set is a replica experiment of sample GSM1526.
Genome Research 12(7):1091-1099, 2002.

source_name: UBOC1 cell line at 39C  for 9 days


title: UBOC1 Exp B Day 4 (a)

description:
Gene expression profile of the cell line UB/OC-1 grown for 4 days under differentiating conditions (39C). This data set is a replica experiment of sample GSM1521.
Genome Research 12(7):1091-1099, 2002.

source_name: UBOC1 cell line at 39C  for 4 days


title: UBOC1 Exp B Day 2 (a)

description:
Gene expression profile of the cell line UB/OC-1 grown for 2 days under differentiating conditions (39C). This data set is a replica experiment of sample GSM1519.
Genome Research 12(7):1091-1099, 2002.

source_name: UBOC1 cell line at 39C  for 2 days


title: PGA-Band_1h_16-m5


title: UBOC1 Exp A Day 14 (a)

description:
Gene expression profile of the cell line UB/OC-1 grown for 14 days under differentiating conditions (39C)
Genome Research 12(7):1091-1099, 2002.

source_name: UBOC1 cell line at 39C  for 14 days


title: UBOC1 Exp B Day 0 (a)

description:
Gene expression profile of the cell line UB/OC-1 grown at 33C (undifferentiated, day 0). This data set is a replica experiment of sample GSM1517.
Genome Research 12(7):1091-1099, 2002.

source_name: UBOC1 cell line at 33C (day 0)


title: UBOC1 Exp B Day 9 (b)

description:
Gene expression profile of the cell line UB/OC-1 grown for 9 days under differentiating conditions (39C). This data set is a replica experiment of sample GSM1542.
Genome Research 12(7):1091-1099, 2002.

source_name: UBOC1 cell line at 39C for 9 days


title: UBOC1 Exp B Day 0 (b)

description:
Gene expression profile of the cell line UB/OC-1 grown at 33C (undifferentiated, day 0). This data set is a replica experiment of sample GSM1533.
Genome Research 12(7):1091-1099, 2002.


title: UBOC1 Exp B Day 2 (b)

description:
Gene expression profile of the cell line UB/OC-1 grown for 2 days under differentiating conditions (39C). This data set is a replica experiment of sample GSM1535.
Genome Research 12(7):1091-1099, 2002.

source_name: UBOC1 cell line at 39C for 2 days


title: UBOC1 Exp A Day 11 (a)

description:
Gene expression profile of the cell line UB/OC-1 grown for 11 days under differentiating conditions (39C)
Genome Research 12(7):1091-1099, 2002.

source_name: UBOC1 cell line at 39C  for 11 days


title: PGA-swim_1w_s1025

description:
Mice sacrificed after swimming twice a day for 1 week.
Keywords = exercise induced hypertrophy


title: UBOC1 Exp A Day 9 (a)

description:
Gene expression profile of the cell line UB/OC-1 grown for 9 days under differentiating conditions (39C)
Genome Research 12(7):1091-1099, 2002.


title: UBOC1 Exp A Day 11 (b)

source_name: UBOC1 cell line at 39C for 11 days


title: UBOC1 Exp A Day 14 (b)

source_name: UBOC1 cell line at 39C for 14 days


title: UBOC1 Exp A Day 7 (a)

description:
Gene expression profile of the cell line UB/OC-1 grown for 7 days under differentiating conditions (39C)
Genome Research 12(7):1091-1099, 2002.

source_name: UBOC1 cell line at 39C  for 7 days


title: UBOC1 Exp A Day 8 (a)

description:
Gene expression profile of the cell line UB/OC-1 grown for 8 days under differentiating conditions (39C)
Genome Research 12(7):1091-1099, 2002.

source_name: UBOC1 cell line at 39C  for 8 days


title: UBOC1 Exp A Day 7 (b)

source_name: UBOC1 cell line at 39C for 7 days


title: UBOC1 Exp A Day 8 (b)

source_name: UBOC1 cell line at 39C for 8 days


title: UBOC1 Exp A Day 6 (b)

description:
Gene expression profile of the cell line UB/OC-1 grown for 6 days under differentiating conditions (39C)
Genome Research 12(7):1091-1099, 2002.

source_name: UBOC1 cell line at 39C for 6 days


title: UBOC1 Exp A Day 9 (b)


title: UBOC1 Exp A Day 5 (a)

description:
Gene expression profile of the cell line UB/OC-1 grown for 5 days under differentiating conditions (39C)
Genome Research 12(7):1091-1099, 2002.

source_name: UBOC1 cell line at 39C  for 5 days


title: UBOC1 Exp A Day 5 (b)

source_name: UBOC1 cell line at 39C for 5 days


title: UBOC1 Exp A Day 4 (a)

description:
Gene expression profile of the cell line UB/OC-1 grown for 4 days under differentiating conditions (39C)
Genome Research 12(7):1091-1099, 2002.


title: UBOC1 Exp A Day 4 (b)

source_name: UBOC1 cell line at 39C for 4 days


title: UBOC1 Exp A Day 2 (b)

description:
Gene expression profile of the cell line UB/OC-1 grown for 2 days under differentiating conditions (39C)
Genome Research 12(7):1091-1099, 2002.


title: UBOC1 Exp A Day 3 (a)

description:
Gene expression profile of the cell line UB/OC-1 grown for 3 days under differentiating conditions (39C)
Genome Research 12(7):1091-1099, 2002.

source_name: UBOC1 cell line at 39C  for 3 days


title: UBOC1 Exp A Day 3 (b)

source_name: UBOC1 cell line at 39C for 3 days


title: UBOC1 Exp A Day 1 (b)

description:
Gene expression profile of the cell line UB/OC-1 grown for 1 day under differentiating conditions (39C)
Genome Research 12(7):1091-1099, 2002.

source_name: UBOC1 cell line at 39C for 1 day


title: UBOC1 Exp A Day 6 (a)

source_name: UBOC1 cell line at 39C  for 6 days


title: UBOC1 Exp A Day 0 (a)

description:
Gene expression profile of the cell line UB/OC-1 grown at 33C (undifferentiated, day 0)
Genome Research 12(7):1091-1099, 2002.

source_name: UBOC1 cell line at 33C (day 0)


title: UBOC1 Exp A Day 0 (b)


title: UBOC1 Exp A Day 1 (a)

source_name: UBOC1 cell line at 39C  for 1 day


title: UBOC1 Exp A Day 2 (a)

source_name: UBOC1 cell line at 39C  for 2 days


title: High Molecular Weight Polysomes: Polio vs. Mock

status: Public on Jun 27 2002

city: Stanford

last: Stanford Microarray Database

address: 300 Pasteur Drive

department: Stanford University, School of Medicine

institute: Stanford Microarray Database (SMD)

description:
Category: Infection
Subcategory: Polio virus
This experiment was an out file converted from rana. The original files were not provided to load this experiment in Oracle. Category and Subcategories were made by curators.
Scanning Software: unknown
Software version: unknown
Lot batch = nci2790

source_name: Mock Infected HeLa 3 hours HMW Polysomes

source_name: Polio Infected HeLa 3 hours HMW Polysomes


title: Polio polysomes (3 hours) vs. total RNA

description:
Category: Infection
Subcategory: Polio virus
This experiment was an out file converted from rana. The original files were not provided to load this experiment in Oracle. Category and Subcategories were made by curators.
Scanning Software: unknown
Software version: unknown
Lot batch = nc1225

source_name: Polio virus infected HeLa cells 3 hrs total RNA

source_name: Polio virus infected HeLa cells 3 hrs HMW polysomes


title: Ischemia-reperfusion with AEOL 10150 #16

status: Public on Jun 26 2002

city: Denver

first: Russell

middle: P

last: Bowler

state: CO

address: 1400 Jackson Street, K736a

department: Medicine

institute: National Jewish Medical and Research Center

description:
A catalytic antioxidant (AEOL 10150) attenuates expression of inflammatory genes in stroke.

White and grey matter in the distribution of the middle cerebral artery after one hour of ischemia followed by treatment (IV) with the catalytic antioxidant AEOL 10150 and then 6 hours of reperfusion; mRNA from a single brain #16.

source_name: Brain


title: Ischemia-reperfusion with AEOL 10150 #4

description:
A catalytic antioxidant (AEOL 10150) attenuates expression of inflammatory genes in stroke.

White and grey matter in the distribution of the middle cerebral artery after one hour of ischemia followed by treatment (IV) with the catalytic antioxidant AEOL 10150 and then 6 hours of reperfusion; mRNA from a single brain #11.

source_name: brain


title: Ischemia-reperfusion #1

description:
A catalytic antioxidant (AEOL 10150) attenuates expression of inflammatory genes in stroke.

White and grey matter in the distribution of the middle cerebral artery after one hour of ischemia followed by 6 hours of reperfusion; first replicate; pooled mRNA from 6 brains.


title: Ischemia-reperfusion #3

description:
A catalytic antioxidant (AEOL 10150) attenuates expression of inflammatory genes in stroke.

White and grey matter in the distribution of the middle cerebral artery after one hour of ischemia followed by 6 hours of reperfusion; third replicate; pooled mRNA from 6 brains.


title: Ischemia-reperfusion with AEOL 10150 #2

description:
A catalytic antioxidant (AEOL 10150) attenuates expression of inflammatory genes in stroke.

White and grey matter in the distribution of the middle cerebral artery after one hour of ischemia followed by treatment (IV) with the catalytic antioxidant AEOL 10150 and then 6 hours of reperfusion; first replicate; pooled mRNA from 6 brains.


title: Ischemia-reperfusion with AEOL 10150 #13

description:
A catalytic antioxidant (AEOL 10150) attenuates expression of inflammatory genes in stroke.

White and grey matter in the distribution of the middle cerebral artery after one hour of ischemia followed by treatment (IV) with the catalytic antioxidant AEOL 10150 and then 6 hours of reperfusion; mRNA from a single brain #13.


title: Ischemia-reperfusion #2

description:
A catalytic antioxidant (AEOL 10150) attenuates expression of inflammatory genes in stroke.

White and grey matter in the distribution of the middle cerebral artery after one hour of ischemia followed by 6 hours of reperfusion; second replicate; pooled mRNA from 6 brains.


title: Unsynchronized cyc

description:
Category: Serum-response
Subcategory: Fibroblasts
Scanning Software: unknown
Software version: unknown
Lot batch = 321

source_name: Unsynchronized + cycloheximide (2 hours)


title: Ischemia-reperfusion with AEOL 10150 #14

description:
A catalytic antioxidant (AEOL 10150) attenuates expression of inflammatory genes in stroke.

White and grey matter in the distribution of the middle cerebral artery after one hour of ischemia followed by treatment (IV) with the catalytic antioxidant AEOL 10150 and then 6 hours of reperfusion; mRNA from a single brain #14.


title: Ischemia-reperfusion with AEOL 10150 #3

description:
A catalytic antioxidant (AEOL 10150) attenuates expression of inflammatory genes in stroke.

White and grey matter in the distribution of the middle cerebral artery after one hour of ischemia followed by treatment (IV) with the catalytic antioxidant AEOL 10150 and then 6 hours of reperfusion; third replicate; pooled mRNA from 6 brains.


title: AEOL 10150 control #3

description:
A catalytic antioxidant (AEOL 10150) attenuates expression of inflammatory genes in stroke.

White and grey matter in the distribution on the middle cerebral artery 6 hours after administration of the catalytic antioxidant AEOL 10150; third replicate; pooled mRNA from 6 brains.


title: Ischemia-reperfusion with AEOL 10150 #12

description:
A catalytic antioxidant (AEOL 10150) attenuates expression of inflammatory genes in stroke.

White and grey matter in the distribution of the middle cerebral artery after one hour of ischemia followed by treatment (IV) with the catalytic antioxidant AEOL 10150 and then 6 hours of reperfusion; mRNA from a single brain #12.


title: Unsynchronized

description:
Category: Serum-response
Subcategory: Fibroblasts
Scanning Software: unknown
Software version: unknown
Lot batch = 320

source_name: Unsynchronized


title: Control #3

description:
A catalytic antioxidant (AEOL 10150) attenuates expression of inflammatory genes in stroke.

White and grey matter in the distribution on the middle cerebral artery 6 hours after administration of saline (control); third replicate; pooled mRNA from 6 brains.


title: Total RNA Polio vs. Mock

description:
Category: Infection
Subcategory: Polio virus
This experiment was an out file converted from rana. The original files were not provided to load this experiment in Oracle. Category and Subcategories were made by curators.
Scanning Software: unknown
Software version: unknown
Lot batch = nci2791

source_name: Mock Infected HeLa 3 hours Total RNA

source_name: Polio Infected HeLa 3 hours Total RNA


title: AEOL 10150 control #1

description:
A catalytic antioxidant (AEOL 10150) attenuates expression of inflammatory genes in stroke.

White and grey matter in the distribution on the middle cerebral artery 6 hours after administration of saline (control); first replicate; pooled mRNA from 6 brains.


title: Jurkat amplified

description:
Category: Polysomes
Subcategory: membrane-bound polysomes
Jurkat amplified
Scanning Software: unknown
Software version: unknown
Lot batch = sva118

source_name: Free RNA

source_name: Membrane-bound RNA


title: Polio Polysomes

description:
Category: Infection
Subcategory: Polio virus
This experiment was an out file converted from rana. The original files were not provided to load this experiment in Oracle. Category and Subcategories were made by curators.Sample_lot_batch=nci125
Scanning Software: unknown
Software version: unknown

source_name: Mock

source_name: Polio


title: AEOL 10150 control #2

description:
A catalytic antioxidant (AEOL 10150) attenuates expression of inflammatory genes in stroke.

White and grey matter in the distribution on the middle cerebral artery 6 hours after administration of the catalytic antioxidant AEOL 10150; second replicate; pooled mRNA from 6 brains.


title: Ischemia-reperfusion with AEOL 10150 #1

description:
A catalytic antioxidant (AEOL 10150) atenuates expression of inflammatory genes in stroke.

White and grey matter in the distribution of the middle cerebral artery after one hour of ischemia followed by 6 hours of reperfusion; first replicate; pooled mRNA from 6 brains.


title: Control #2

description:
A catalytic antioxidant (AEOL 10150) attenuates expression of inflammatory genes in stroke.

White and grey matter in the distribution on the middle cerebral artery 6 hours after administration of saline (control); second replicate; pooled mRNA from 6 brains.


title: PGA-FVB_NN_9-10-m5

status: Public on Jun 21 2002

description:
FVB benchmark dataset: Neonatal mouse
Keywords = cardiac development

source_name: Heart ventricle


title: PGA-FVB_NN_7-8-m5


title: PGA-FVB_E12.5_7-8-9-m5

description:
FVB benchmark dataset: Embryonic 12.5 day mouse
Keywords = cardiac development


title: PGA-FVB_NN_1-2-m5


title: PGA-FVB_E12.5_1-2-3-m5


title: PGA-FVB_4w_11295-m5

description:
FVB benchmark dataset: 4 week old mouse
Keywords = cardiac development


title: PGA-FVB_5m_732m-m5

description:
FVB benchmark dataset: 5 month old male mouse
Keywords = cardiac development


title: PGA-FVB_4w_11294-m5


title: PGA-FVB_5m_733m-m5


title: PGA-FVB_5m_731m-m5


title: W303_WT_YPA_D

status: Public on Jun 17 2002

city: Montpellier

first: Michel

last: Bellis

country: France

institute: CNRS

description:
A diploid W303 wild type strain was grown in rich medium containing acetate (YPA; generally used to culture cells prior sporulation) to identify the genes expressed in the presence of a nonfermentable carbon source.
Keywords = Yeast, ume6, meiosis

source_name: yeast polyA+ RNA


title: PGA-FVB_1y_5m-m5

description:
FVB benchmark dataset: 1 year old mouse
Keywords = cardiac development


title: PGA-FVB_1w_805-m5

description:
FVB benchmark dataset: 1 week old mouse
Keywords = cardic development


title: SK1_WT_YPA_D

description:
A diploid SK1 wild type strain was grown in rich medium containing acetate (YPA; generally used to culture cells prior sporulation) to identify the genes expressed in the presence of a nonfermentable carbon source.
Keywords = Yeast, ume6, meiosis


title: W303_WT_YPD_D

description:
A diploid W303 wild type strain was grown in rich medium containing glucose (YPD) to identify the genes expressed in the presence of a fermentable carbon source.
Keywords = Yeast, ume6, meiosis


title: PGA-FVB_1w_804-m5

description:
FVB benchmark dataset: 1 week old mouse
Keywords = cardiac development


title: PGA-FVB_E12.5_4-5-6-m5


title: W303_U6_YPD_D

description:
This diploid strain lacks UME6 which codes for a transcription factor essential for meiosis.
It was grown in YPD to identify the mitotic regulon of Ume6 in the presence of a fermentable carbon source.
Keywords = Yeast, ume6, meiosis


title: PGA-FVB_1y_511m-m5


title: PGA-FVB_1w_801-m5

status: Public on Jun 20 2002


title: PGA-FVB_1y_6m-m5