title: 41S

description:
Strain N2 (wild type) 41 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: N2
Sample_time: 41


title: Normal Thymus

status: Public on Apr 03 2005

type: RNA

city: Evanston

first: Xijin

last: Ge

state: IL

address: 1001 University Place

department: Center for Functional Genomics

country: USA

institute: ENH Research Institute

description:
Normal human tissue:Normal Thymus
Keywords = Human, Normal Tissue, Normal Thymus

molecule: total RNA

organism: Homo sapiens

source_name: Normal Thymus , Commercial mRNA for normal human tissue


title: 101R

status: Public on Apr 01 2005

city: Cambridge

first: Andrew

last: Hill

state: MA

address: 300 Technology Square

department: Research Business Technology

institute: Pfizer

description:
Strain N2 (wild type) 101 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: N2
Sample_time: 101

organism: Caenorhabditis elegans

source_name: Staged C. elegans embryos


title: 122-4

description:
Strain N2 (wild type) 122 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: N2
Sample_time: 122


title: NC10-B

status: Public on Apr 04 2005

city: Boston

first: Paola

last: Sebastiani

institute: Boston University

description: Cells Incubated with Normal Patient Plasma

source_name: HPAEC


title: 66-5

description:
Strain N2 (wild type) 66 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: N2
Sample_time: 66


title: 66I


title: 83-3

description:
Strain N2 (wild type) 83 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: N2
Sample_time: 83


title: 143M

description:
Strain N2 (wild type) 143 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: N2
Sample_time: 143


title: 83-2


title: 66-4


title: 83-1


title: 41E


title: 53-2

description:
Strain N2 (wild type) 53 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: N2
Sample_time: 53


title: 53-3


title: 53-4


title: 23-3

description:
Strain N2 (wild type) 23 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: N2
Sample_time: 23


title: 23-4


title: Col-0 BA 0 #2

city: Berlin

first: Wolfram

last: Brenner

address: Albrecht-Thaer-Weg 6

department: Applied Genetics

country: Germany

institute: Institute of Biology

description: Arabdopsis thaliana Col-0 seedlings grown in liquid MS were treated for 2 hours with the solvent used for dissolving Benzyl adenin in the induction experiments.

organism: Arabidopsis thaliana

source_name: Seedlings treated with control solution


title: 23-1


title: 41D


title: 00B

description:
Strain N2 (wild type) 0 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: N2
Sample_time: 0


title: 23-2


title: 00P


title: 66O


title: 101G


title: ms143-2

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 143 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 143


title: ms101-2

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 101 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 101


title: ms23-2

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 23 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 23


title: ms0-1

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 0 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 0


title: Delta ChrR

city: Madison

first: Timothy

middle: J

last: Donohue

state: WI

address: 1552 University Avenue

department: Bacteriology

institute: University of Wisconsin - Madison

description:
RNA prepped from logrithmically growing cultures.  Aerobic growth (bubbled with 30% oxygen).  R. sphaeroides 2.4.1 containing trimethoprim cassette disrupting chrR ( SigE anti-sigma factor)
Keywords = ChrR
Keywords = SigmaE
Keywords = Oxygen stress

organism: Cereibacter sphaeroides

source_name: Rhodobacter sphaeroides


title: ms122-1

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 122 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 122


title: ms41-1

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 41 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 41


title: CT01-A2

description:
R. sphaeroides CT01 culture grown semi-aerobically in 3%O2 + 96%N2 + 1%CO2 (dark) to 2-3X10^8 CFU/ml;
CT01 contains an omega Spr/Smr cassette inserted into RSP4157
Keywords = Rhodobacter sphaeroides
Keywords = photosynthesis
Keywords = purple bacteria


title: CT01-B1

description:
R. sphaeroides CT01 culture grown semi-aerobically in 3%O2 + 96%N2 + 1%CO2 (dark) to 2-3X10^8 CFU/ml; CT01 contains an omega Spr/Smr insertion in RSP4157
Keywords = Rhodobacter sphaeroides
Keywords = photosynthesis
Keywords = purple bacteria


title: 2.4.1-B2

description:
R. sphaeroides 2.4.1 culture grown semi-aerobically in 3%O2 + 96%N2 + 1%CO2 (dark) to 2-3X10^8 CFU/ml
Keywords = Rhodobacter sphaeroides
Keywords = photosynthesis
Keywords = purple bacteria


title: 2.4.1-A1


title: CT01-C1

description: R. sphaeroides CT01 culture grown semi-aerobically at 3% O2 (dark).  CT01 contains an omega Spr/Smr insertion in RSP4157.


title: pp186-2

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 186 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 186


title: pp122-2

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 122 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 122


title: pp83-2

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 83 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 83


title: ms122-2


title: pp66-2

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 66 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 66


title: pp101-2

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 101 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 101


title: 2.4.1 A

description:
R. sphaeroides 2.4.1 cultures grown aerobically in Sistrom's minimal medium, bubbled with 30% O2 + 69% N2 + 1% CO2 (dark); at 2-3x10^8 CFU/ml
Keywords = Rhodobacter sphaeroides
Keywords = photosynthesis
Keywords = purple bacteria


title: pp122-5


title: 2.4.1 B


title: pp0-2

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 0 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 0


title: pp23-2

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 23 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 23


title: pp41-2

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 41 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 41


title: pp143-1

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 143 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 143


title: wt1


title: pp186-1


title: 00C

description:
Strain N2 (wild type) 0 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: N2
Sample_time: 0


title: pp101-1


title: ms23-1

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 23 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 23


title: pp122-1


title: 2.4.1-3

description:
R. sphaeroides 2.4.1 cultures grown photosynthetically 10W/m2 light in Sistrom's minimal medium, bubbled with 95% N2 + 5% CO2; at 2-3x10^8 CFU/ml
Keywords = Rhodobacter sphaeroides
Keywords = photosynthesis
Keywords = purple bacteria


title: P5-2


title: SHR kidney 43

city: Houston

first: Peter

middle: A

last: Doris

state: TX

institute: University of Texas HSC Houston

description: Young Wistar-derived rat kidney

organism: Rattus norvegicus

source_name: kidney


title: SHR kidney 55

description: Mature Wistar-derived rat kidney


title: ms41-2

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 41 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 41


title: pp83-1


title: SHR kidney 54

description: Mature Wistar-derived rat kidney


title: pp41-1


title: SHR kidney 51

description: Mature Wistar-derived rat kidney


title: SHR kidney 52

description: Mature Wistar-derived rat kidney


title: pp66-1


title: SHR kidney 50

description: Mature Wistar-derived rat kidney


title: SHR kidney 53

description: Mature Wistar-derived rat kidney


title: SHR kidney 48

description: Mature Wistar-derived rat kidney


title: pp23-1


title: p186-4

description:
Mutant genotype pie-1(zu154) 186 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pi
Sample_time: 186


title: 2.4.1-1


title: SHR kidney 49

description: Mature Wistar-derived rat kidney


title: SHR kidney 47

description: Mature Wistar-derived rat kidney


title: p122-4

description:
Mutant genotype pie-1(zu154) 122 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pi
Sample_time: 122


title: p101-4

description:
Mutant genotype pie-1(zu154) 101 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pi
Sample_time: 101


title: p143-4

description:
Mutant genotype pie-1(zu154) 143 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pi
Sample_time: 143


title: p83-4

description:
Mutant genotype pie-1(zu154) 83 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pi
Sample_time: 83


title: SHR kidney 46

description: Mature Wistar-derived rat kidney


title: SHR kidney 44

description: Mature Wistar-derived rat kidney


title: p41-4

description:
Mutant genotype pie-1(zu154) 41 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pi
Sample_time: 41


title: SHR kidney 45

description: Mature Wistar-derived rat kidney


title: p23-4

description:
Mutant genotype pie-1(zu154) 23 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pi
Sample_time: 23


title: SHR kidney 42

description: Mature Wistar-derived rat kidney


title: p0-4

description:
Mutant genotype pie-1(zu154) 0 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pi
Sample_time: 0


title: SHR kidney 41

description: Mature Wistar-derived rat kidney


title: pp0-1


title: SHR kidney 40

description: Wistar-derived rat kidney


title: SHR kidney 39

description: Wistar-derived rat kidney


title: p143-3


title: p122-3


title: p186-3


title: p101-3


title: SHR kidney 38

description: Wistar-derived rat kidney


title: p66-3

description:
Mutant genotype pie-1(zu154) 66 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pi
Sample_time: 66


title: p41-3


title: SHR kidney 37

description: Wistar-derived rat kidney


title: pp53-1

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 53 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 53


title: SHR kidney 35

description: Wistar-derived rat kidney


title: SHR kidney 32

description: Wistar-derived rat kidney


title: SHR kidney 33

description: Wistar-derived rat kidney


title: SHR kidney 34

description: Wistar-derived rat kidney


title: SHR kidney 29

description: Wistar-derived rat kidney


title: SHR kidney 30

description: Young Wistar-derived rat kidney


title: p23-3


title: p0-3


title: SHR kidney 31

description: Wistar-derived rat kidney


title: SHR kidney 25

description: Young Wistar-derived rat kidney


title: SHR kidney 28

description: Wistar-derived rat kidney


title: p23-2


title: p83-2


title: p53-3

description:
Mutant genotype pie-1(zu154) 53 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pi
Sample_time: 53


title: SHR kidney 36

description: Wistar-derived rat kidney


title: SHR kidney 24

description: Young Wistar-derived rat kidney


title: p53-2


title: p66-2


title: p122-2


title: p186-2


title: SHR kidney 23

description: Young Wistar-derived rat kidney


title: p101-2


title: SHR kidney 27

description: Wistar-derived rat kidney


title: SHR kidney 22

description: Young Wistar-derived rat kidney


title: p41-2


title: ms186-8

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 186 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 186


title: ms83-8

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 83 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 83


title: ms186-7


title: SHR kidney 26

description: Wistar-derived rat kidney


title: SHR kidney 21

description: Young Wistar-derived rat kidney


title: WT-1B

city: Kyoto

first: Eisuke

last: Nishida

address: Kitashirakawa, Sakyo-ku

department: Department of Cell and Developmental Biology

country: Japan

institute: Graduate School of Biostudies, Kyoto University

description: Total RNA from mouse blastocyst were subjected to "GeneChip Eukaryotic Small Sample Target Labeling Assay Version II" by Affymetrix and hybridized to GeneChip Mouse Expression Array 430B

organism: Mus musculus

source_name: preimplantation mouse embryo


title: 122-1

description:
Strain N2 (wild type) 122 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: N2
Sample_time: 122


title: SHR kidney 20

description: Young Wistar-derived rat kidney


title: ms83-6


title: V0438

city: Vienna

first: Stratowa

last: Christian

address: Dr. Boehringergasse 5-11

department: Dept NCE Lead Discovery

country: Austria

institute: Boehringer Ingelheim Austria

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is F
Chromosomal aberrations is 6q
IgV mutation status is unmutated

source_name: Peripheral blood lymphocytes


title: SHR kidney 18

description: Young Wistar-derived rat kidney


title: ms186-6


title: V0436

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is F
Chromosomal aberrations is none
IgV mutation status is unmutated


title: V0437

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is M
Chromosomal aberrations is 12q,6q
IgV mutation status is mutated


title: SHR kidney 19

description: Young Wistar-derived rat kidney


title: V0373

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is M
Chromosomal aberrations is 13q
IgV mutation status is unmutated


title: SHR kidney 17

description: Young Wistar-derived rat kidney


title: V0435

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is M
Chromosomal aberrations is 12q
IgV mutation status is unmutated


title: V0429

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is M
Chromosomal aberrations is 13q
IgV mutation status is mutated


title: ms83-7


title: ms53-6

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 53 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 53


title: V0427


title: V0430

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is M
Chromosomal aberrations is 12q
IgV mutation status is mutated


title: V0409

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is F
Chromosomal aberrations is 13q,11q,6q
IgV mutation status is unmutated


title: SHR kidney 14

description: Young Wistar-derived rat kidney


title: V0421

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is F
Chromosomal aberrations is 11q,12q,17p
IgV mutation status is unmutated


title: V0426

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is M
Chromosomal aberrations is 11q,6q
IgV mutation status is unmutated


title: ms186-5


title: SHR kidney 16

description: Young Wistar-derived rat kidney


title: ms0-6

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 0 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 0


title: V0428

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is M
Chromosomal aberrations is 14t18
IgV mutation status is mutated


title: V0371


title: SHR kidney 15

description: Young Wistar-derived rat kidney


title: SHR kidney 13

description: Wistar-derived immature rat kidney


title: ms143-5

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 143 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 143


title: ms83-5

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 83 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 83


title: P3

description:
R. sphaeroides 2.4.1 cultures grown photosynthetically 10W/m2 light in Sistrom's minimal medium, bubbled with 95% N2 + 5% CO2; at 2-3x10^8 CFU/ml
Keywords = Rhodobacter sphaeroides
Keywords = photosynthesis
Keywords = purple bacteria


title: V0369

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is M
Chromosomal aberrations is 11q,12q
IgV mutation status is unmutated


title: V0356

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is M
Chromosomal aberrations is none
IgV mutation status is unmutated


title: V0368


title: ms122-5

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 122 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 122


title: SHR kidney 12

description: Wistar-derived immature rat kidney


title: SHR kidney 11

description: Wistar-derived immature rat kidney


title: V0342


title: V0339

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is F
Chromosomal aberrations is 13q
IgV mutation status is mutated


title: ms66-5

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 66 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 66


title: ms101-4

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 101 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 101


title: V0338

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is M
Chromosomal aberrations is 6q
IgV mutation status is unmutated


title: V0336

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is M
Chromosomal aberrations is 13q
IgV mutation status is mutated


title: p143-2

description:
Mutant genotype pie-1(zu154) 143 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pi
Sample_time: 143


title: SHR kidney 10

description: Wistar-derived immature rat kidney


title: V0276

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is F
Chromosomal aberrations is none
IgV mutation status is unmutated


title: SHR kidney 9

description: Wistar-derived immature rat kidney


title: ms0-5


title: V0337

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is F
Chromosomal aberrations is none
IgV mutation status is mutated


title: V0340


title: V0334

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is M
Chromosomal aberrations is 6q,17p
IgV mutation status is unmutated


title: V0335

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is M
Chromosomal aberrations is 12q
IgV mutation status is mutated


title: ms122-3


title: SHR kidney 6

description: Wistar-derived immature rat kidney


title: V0355

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is M
Chromosomal aberrations is 13q,12q
IgV mutation status is mutated


title: SHR kidney 8

description: Wistar-derived immature rat kidney


title: ms41-3

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 41 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 41


title: ms66-3


title: pp186-4

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 186 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 186


title: V0275


title: SHR kidney 7

description: Wistar-derived immature rat kidney


title: WT-1A

description: Total RNA from mouse blastocyst were subjected to "GeneChip Eukaryotic Small Sample Target Labeling Assay Version II" by Affymetrix and hybridized to GeneChip Mouse Expression Array 430A


title: ms53-4

description:
Mutant genotype mex-3(zu155); skn-1(RNAi) 53 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: ms
Sample_time: 53


title: V0277

description:
Mononuclear cells were isolated using Ficoll gradient. RNA was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 5ug of total RNA. The MAS5 algorithm as implemented in the Bioconductor package simpleaffy_2.10 was used to convert raw data to expression values and detection calls.
Chip type is HG-U95A
Sample type is B-CLL sample
Gender is M
Chromosomal aberrations is 13q
IgV mutation status is unmutated


title: SHR kidney 4

description: Wistar-derived immature rat kidney


title: SHR kidney 5

description: Wistar-derived immature rat kidney


title: pp66-4

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 66 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 66


title: pp53-4

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 53 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 53


title: pp143-4

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 143 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 143


title: pp41-4

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 41 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 41


title: SHR kidney 2

description: Wistar-derived immature rat kidney


title: pp0-4

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 0 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 0


title: SHR kidney

description: Wistar-derived immature rat kidney


title: pp143-3


title: WT-3

description: Total RNA from mouse blastocyst were subjected to "Two-Cycle Target Labeling Assays" by Affymetrix and hybridized to GeneChip Mouse Genome 430 2.0 Array


title: pp23-4

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 23 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 23


title: X120

city: Copenhagen

first: Jorgen

last: Olsen

address: Blegdamsvej 3

department: Department of Cellular and Molecular Medicine

country: Denmark

institute: University of Copenhagen

description: Biopsy obtained during colonoscopy from a region with macroscopically normal appearing mucosa. The sample is taken from a female subject without chronic intestinal disease (diagnosed with irritable bowel syndrome).

source_name: Colonic mucosa biopsy from a female control subject


title: X119


title: X170

description: Biopsy obtained during colonoscopy from a region with macroscopically normal appearing mucosa. The sample is taken from a female patient diagnosed with ulcerative colitis.

source_name: Colonic mucosa biopsy from a female UC patient


title: WT-2


title: pp83-3

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 83 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 83


title: pp53-3


title: pp186-3


title: pp122-3

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 122 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 122


title: X117


title: nl177

city: Memphis

first: William

middle: E

last: Evans

state: TN

address: 332 N. Lauderdale St.

department: Pharmaceutical Sciences

institute: St.Jude Children's Research Hospital

description:
Sample Type: human total RNA
Sample User: jmorris
Description: ALL-pre patient study
Comments:
Experiment User: jmorris
Algorithm: Statistical
Corner+ Avg:99, Count:32
Corner- Avg:5968, Count:32
BF= Alpha1=0.05 Alpha2=0.065 Tau=0.015 Gamma1H=0.0045 Gamma1L=0.0045 Gamma2H=0.006 Gamma2L=0.006 Perturbation=1.1 TGT=500 NF=1.000000 SF=22.315964 SFGene=All
Background=Avg:42.59,Stdev:1.17,Max:45.6,Min:40.0
Noise=Avg:1.58,Stdev:0.08,Max:1.9,Min:1.4
RawQ=1.89
Keywords = ALL

source_name: Primary Acute Lymphoblastic Leukemia Cells


title: pp0-3


title: JO88

description: Biopsy obtained during colonoscopy from a region with macroscopically normal appearing mucosa. The sample is taken from a patient without chronic intestinal disease (diagnosed with irritable bowel syndrome).

source_name: Colonic Mucosal biopsy from a male control subject


title: X113

description: Biopsy obtained during colonoscopy from a region with macroscopically normal appearing mucosa. Taken from a male patient with diagnosed ulcerative colitis.

source_name: Colonic mucosa sample from a male UC patient


title: pp41-3


title: wt DOT4 Myc-tagged vs wt DOT4 set3

status: Public on Mar 31 2005

city: Seattle

first: Daniel

last: Gottschling

state: WA

address: 1100 Fairview Avenue N., Mailstop A3-025

department: Division of Basic Sciences

institute: Fred Hutchinson Cancer Research Center

description: Cy5/Cy3 comparison of DOT4-6Myc/DOT4 cells grown in YEPD

organism: Saccharomyces cerevisiae

source_name: UCC6408(wt DOT4-6Myc)

source_name: UCC6432(wt DOT4)


title: wt DOT4 Myc-tagged vs wt DOT4 set2


title: nl176

description:
Sample Type: human total RNA
Sample User: jmorris
Description: ALL-pre patient study
Comments:
Experiment User: jmorris
Algorithm: Statistical
Corner+ Avg:116, Count:32
Corner- Avg:7030, Count:32
BF= Alpha1=0.05 Alpha2=0.065 Tau=0.015 Gamma1H=0.0045 Gamma1L=0.0045 Gamma2H=0.006 Gamma2L=0.006 Perturbation=1.1 TGT=500 NF=1.000000 SF=13.561875 SFGene=All
Background=Avg:45.20,Stdev:1.22,Max:47.6,Min:42.2
Noise=Avg:1.81,Stdev:0.09,Max:2.2,Min:1.5
RawQ=2.03
Keywords = ALL


title: wt Myc-tagged vs wt dot4 null set3

description: Cy5/Cy3 comparison of DOT4-6Myc/dot4 cells grown in YEPD

source_name: UCC6435(dot4 null)


title: wt DOT4 Myc-tagged vs wt DOT4 set1


title: X124


title: wt vs wt dot4-5 set3

description: Cy5/Cy3 comparison of DOT4-6Myc/dot4-5-6Myc cells grown in YEPD


title: brain (Random)

city: Tsukuba

first: Shigeru

last: Iwase

department: BioResource center

institute: RIKEN

description: Mouse natural sense-antisense transcripts

source_name: total RNA of mouse brain


title: wt Myc-tagged vs wt dot4 null set2


title: heart (Random)

source_name: total RNA of mouse heart


title: wt vs wt dot4-1 set3

description: Cy5/Cy3 comparison of DOT4-6Myc/dot4-1-6Myc cells grown in YEPD


title: wt vs wt dot4-5 set2


title: testis (Random)

source_name: total RNA of mouse testis


title: wt vs wt dot4-1 set1


title: wt DOT4 vs wt DOT4-6Myc set2

description: Cy5/Cy3 comparison of DOT4/DOT4-6Myc cells grown in YEPD


title: wt Myc-tagged vs wt dot4 null set1


title: wt vs wt dot4-5 set1


title: wt vs wt dot4-1 set2


title: wt DOT4 vs wt DOT4-6Myc set3


title: wt DOT4 vs wt DOT4-6Myc set1


title: SHR kidney 3

description: Wistar-derived immature rat kidney


title: fibroblast (Random)

source_name: Mouse SL10 cells (fibroblast cell line)


title: dot4 null vs wt Myc tagged set2

description: Cy5/Cy3 comparison of dot4/DOT4-6Myc cells grown in YEPD


title: testis (Oligo dT)


title: ES (Random)

source_name: Mouse ES cells


title: heart (Oligo dT)


title: dot4-5 vs wt set1

description: Cy5/Cy3 comparison of dot4-5-6Myc/DOT4-6Myc cells grown in YEPD


title: dot4 null vs wt Myc tagged set1


title: fibroblast (Oligo dT)


title: dot4-1 vs wt set2

description: Cy5/Cy3 comparison of dot4-1-6Myc/DOT4-6Myc cells grown in YEPD


title: dot4-5 vs wt set2


title: dot4-1 vs wt set3


title: dot4-5 vs wt set3


title: brain (Oligo dT)


title: dot4 null vs wt Myc tagged set3


title: X169

description: Biopsy obtained during colonoscopy from a region with macroscopically normal appearing mucosa. The sample is taken from a male patient with diagnosed ulcerative colitis

source_name: Colonic mucosa biopsy from a male UC patient


title: MM-G A 10.5h

status: Public on Mar 30 2005

city: Saint Louis

first: Justin

middle: L.

last: Sonnenburg

state: MO

address: 4444 Forest Park

department: Center for Genome Sciences

institute: Washington University

description:
Cultured B. thetaiotaomicron; Media: Minimal + Glucose; timepoint: 10.5 hours; Vessel: A
Keywords = B. thetaiotaomicron

organism: Bacteroides thetaiotaomicron

source_name: B. thetaiotaomicron


title: MM-G A 12h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Glucose; timepoint: 12 hours; Vessel: A
Keywords = B. thetaiotaomicron


title: MM-G B 14h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Glucose; timepoint: 14 hours; Vessel: B
Keywords = B. thetaiotaomicron


title: MM-G B 15.8h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Glucose; timepoint: 15.8 hours; Vessel: B
Keywords = B. thetaiotaomicron


title: MM-G B 8h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Glucose; timepoint: 8 hours; Vessel: B
Keywords = B. thetaiotaomicron


title: MM-M B 17h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Maltotriose; timepoint: 17 hours; Vessel: B
Keywords = B. thetaiotaomicron


title: MM-G A 14h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Glucose; timepoint: 14 hours; Vessel: A
Keywords = B. thetaiotaomicron


title: MM-G A 15.8h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Glucose; timepoint: 15.8 hours; Vessel: A
Keywords = B. thetaiotaomicron


title: MM-G B 12h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Glucose; timepoint: 12 hours; Vessel: B
Keywords = B. thetaiotaomicron


title: MM-G B 10.5h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Glucose; timepoint: 10.5 hours; Vessel: B
Keywords = B. thetaiotaomicron


title: ES (Oligo dT)

description: Mouse ES cells


title: MM-G A 8h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Glucose; timepoint: 8 hours; Vessel: A
Keywords = B. thetaiotaomicron


title: dot4-1 vs wt set1


title: MM-M B 21.5h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Maltotriose; timepoint: 21.5 hours; Vessel: B
Keywords = B. thetaiotaomicron


title: MM-M B 15h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Maltotriose; timepoint: 15 hours; Vessel: B
Keywords = B. thetaiotaomicron


title: MM-M B 11h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Maltotriose; timepoint: 11 hours; Vessel: B
Keywords = B. thetaiotaomicron


title: MM-M A 19.5h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Maltotriose; timepoint: 19.5 hours; Vessel: A
Keywords = B. thetaiotaomicron


title: MM-M A 17h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Maltotriose; timepoint: 17 hours; Vessel: A
Keywords = B. thetaiotaomicron


title: MM-M A 15h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Maltotriose; timepoint: 15 hours; Vessel: A
Keywords = B. thetaiotaomicron


title: TYG A 6.5h

description:
Cultured B. thetaiotaomicron; Media: Rich (TYG); timepoint: 6.5 hours; Vessel: A
Keywords = B. thetaiotaomicron


title: TYG B 6.5h

description:
Cultured B. thetaiotaomicron; Media: Rich (TYG); timepoint: 6.5 hours; Vessel: B
Keywords = B. thetaiotaomicron


title: MM-M B 19.5h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Maltotriose; timepoint: 19.5 hours; Vessel: B
Keywords = B. thetaiotaomicron


title: MM-M A 11h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Maltotriose; timepoint: 11 hours; Vessel: A
Keywords = B. thetaiotaomicron


title: TYG A 8.8h

description:
Cultured B. thetaiotaomicron; Media: Rich (TYG); timepoint: 8.8 hours; Vessel: A
Keywords = B. thetaiotaomicron


title: MM-M A 21.5h

description:
Cultured B. thetaiotaomicron; Media: Minimal + Maltotriose; timepoint: 21.5 hours; Vessel: A
Keywords = B. thetaiotaomicron


title: TYG A 3.5h

description:
Cultured B. thetaiotaomicron; Media: Rich (TYG); timepoint: 3.5 hours; Vessel: A
Keywords = B. thetaiotaomicron


title: TYG A 5.5h

description:
Cultured B. thetaiotaomicron; Media: Rich (TYG); timepoint: 5.5 hours; Vessel: A
Keywords = B. thetaiotaomicron


title: TYG B 3.5h

description:
Cultured B. thetaiotaomicron; Media: Rich (TYG); timepoint: 3.5 hours; Vessel: B
Keywords = B. thetaiotaomicron


title: TYG A 4.5h

description:
Cultured B. thetaiotaomicron; Media: Rich (TYG); timepoint: 4.5 hours; Vessel: A
Keywords = B. thetaiotaomicron


title: TYG B 5.5h

description:
Cultured B. thetaiotaomicron; Media: Rich (TYG); timepoint: 5.5 hours; Vessel: B
Keywords = B. thetaiotaomicron


title: TYG B 8.8h

description:
Cultured B. thetaiotaomicron; Media: Rich (TYG); timepoint: 8.8 hours; Vessel: B
Keywords = B. thetaiotaomicron


title: Cecum-12

description:
B. thetaiotaomicron from gnotobiotic monoassociated mouse cecum; Expt.#: 2; Sample#: 12; diet: simple sugar (glucose/sucrose); duration of colonization: 10 day; mouse strain: NMRI
Keywords = B. thetaiotaomicron


title: Cecum-3

description:
B. thetaiotaomicron from gnotobiotic monoassociated mouse cecum; Expt.#: 1; Sample#: 3; diet: standard (polysaccharide-rich); duration of colonization: 10 day; mouse strain: NMRI
Keywords = B. thetaiotaomicron


title: Cecum-2

description:
B. thetaiotaomicron from gnotobiotic monoassociated mouse cecum; Expt.#: 1; Sample#: 2; diet: standard (polysaccharide-rich); duration of colonization: 10 day; mouse strain: NMRI
Keywords = B. thetaiotaomicron


title: Cecum-7

description:
B. thetaiotaomicron from gnotobiotic monoassociated mouse cecum; Expt.#: 2; Sample#: 7; diet: standard (polysaccharide-rich); duration of colonization: 10 day; mouse strain: NMRI
Keywords = B. thetaiotaomicron


title: Cecum-6

description:
B. thetaiotaomicron from gnotobiotic monoassociated mouse cecum; Expt.#: 1; Sample#: 6; diet: standard (polysaccharide-rich); duration of colonization: 10 day; mouse strain: NMRI
Keywords = B. thetaiotaomicron


title: Cecum-4

description:
B. thetaiotaomicron from gnotobiotic monoassociated mouse cecum; Expt.#: 1; Sample#: 4; diet: standard (polysaccharide-rich); duration of colonization: 10 day; mouse strain: NMRI
Keywords = B. thetaiotaomicron


title: TYG B 4.5h

description:
Cultured B. thetaiotaomicron; Media: Rich (TYG); timepoint: 4.5 hours; Vessel: B
Keywords = B. thetaiotaomicron


title: Cecum-11

description:
B. thetaiotaomicron from gnotobiotic monoassociated mouse cecum; Expt.#: 2; Sample#: 11; diet: simple sugar (glucose/sucrose); duration of colonization: 10 day; mouse strain: NMRI
Keywords = B. thetaiotaomicron


title: pp66-3

description:
Mutant genotype pie-1(zu154); pal-1(RNAi) 66 minutes after the 4-cell embryonic stage at 22 degrees C
Sample_genotype: pp
Sample_time: 66

source_name: Staged C. elegans embryos


title: Cecum-5

description:
B. thetaiotaomicron from gnotobiotic monoassociated mouse cecum; Expt.#: 1; Sample#: 5; diet: standard (polysaccharide-rich); duration of colonization: 10 day; mouse strain: NMRI
Keywords = B. thetaiotaomicron


title: Cecum-10

description:
B. thetaiotaomicron from gnotobiotic monoassociated mouse cecum; Expt.#: 2; Sample#: 10; diet: simple sugar (glucose/sucrose); duration of colonization: 10 day; mouse strain: NMRI
Keywords = B. thetaiotaomicron


title: Cecum-1

description:
B. thetaiotaomicron from gnotobiotic monoassociated mouse cecum; Expt.#: 1; Sample#: 1; diet: standard (polysaccharide-rich); duration of colonization: 10 day; mouse strain: NMRI
Keywords = B. thetaiotaomicron


title: Cecum-8

description:
B. thetaiotaomicron from gnotobiotic monoassociated mouse cecum; Expt.#: 2; Sample#: 8; diet: standard (polysaccharide-rich); duration of colonization: 10 day; mouse strain: NMRI
Keywords = B. thetaiotaomicron


title: Cecum-9

description:
B. thetaiotaomicron from gnotobiotic monoassociated mouse cecum; Expt.#: 2; Sample#: 9; diet: standard (polysaccharide-rich); duration of colonization: 10 day; mouse strain: NMRI
Keywords = B. thetaiotaomicron


title: Caries 2

city: Birmingham

first: Paul

last: Cooper

state: West Midlands

address: St Chads Queensway

department: School of Dentistry

country: United Kingdom

institute: The University of Birmingham

description: Pooled carious pulpal tissue hybridised to HG_U133A arrays

source_name: Pooled carious pulpal tissue


title: HUVEC, atorvastatin 2

status: Public on Mar 29 2005

city: Little Rock

first: Marjan

last: Boerma

state: AR

address: 4301 West Markham, Slot 725

institute: University of Arkansas for Medical Sciences

description: HUVECs were harvested after 24 hours of treatment with atorvastatin (10 microM).

source_name: HUVEC cell culture


title: Healthy Pulp 1

description: Pooled healthy pulpal tissue hybridised to HG_U133A arrays

source_name: Pooled healthy pulpal tissue


title: HUVEC, untreated

description: Untreated HUVECs were harvested at confluence.


title: HUVEC, mevalonate 2

description: HUVECs were harvested after 24 hours of treatment with mevalonate (500 microM).


title: HUVEC, atorvastatin


title: EA.hy926 cells, atorvastatin

description: EA.hy926 cells were harvested after 24 hours of treatment with atorvastatin (10 microM).

source_name: EA.hy926 cell culture


title: EA.hy926 cells, atorvastatin 2


title: EA.hy926 cells, mevalonate

description: EA.hy926 cells were harvested after 24 hours of treatment with mevalonate (500 microM).


title: B6 Mneg-3

city: Canberra

first: Lina

last: Tze

state: ACT

country: Australia

institute: John Curtin School of Medical Research

description:
Interleukin-7 expanded bone marrow cells from C57BL/6 mice were sorted by FACS for surface B220+ and IgMneg population.  The U74Av2 probe arrays were subjected to U74A mask corrections, and all target hybridization intensities were scaled to 1500 arbitrary units using Microarray Suite 5.0 (Affymetrix). (Tze etal. Public Library of Science Biology, In Press 2005)
Raw data obtained from Affymetrix Suite 5.0 program with all arrays subjected to MG-U74A mask corrections and scaling to taget intensity of '1500'.  Listed are all probe sets excluding masked probe sets and Affymetrix hybridization control probe sets.
Keywords = bone marrow B cells

source_name: Interleukin-7 expanded murine bone marrow cells


title: VSV7day-7dayV4

city: Rochester

first: Chin-Yi

last: Chu

state: NY

address: 75 Elmwood Avenue

department: Environmental Medicine

institute: University of Rochester

description: Infected with VSV

source_name: Human Astrocytes


title: HUVEC, mevalonate


title: HUVEC, atorvastatin+mevalonate 2

description: HUVECs were harvested after 24 hours of treatment with a combination of atorvastatin (10 microM) and mevalonate (500 microM).


title: EA.hy926 cells, atorvastatin+mevalonate 2

description: EA.hy926 cells were harvested 24 hours after treatment with a combination of atorvastatin (10 microM) and mevalonate (500 microM).


title: HUVEC, atorvastatin+mevalonate


title: EA.hy926 cells, mevalonate 2


title: Caries 1


title: VSV7day-7dayV2

description: Infected with VSV


title: VSV7day-7dayC5

description: Uninfected with VSV


title: VSV7day-7dayC7

description: Uninfected with VSV


title: EA.hy926 cells, untreated 2

description: Untreated EA.hy926 cells were harvested at confluence


title: EA.hy926 cells atorvastatin+mevalonate


title: VSV7day-7dayC4

description: Uninfected with VSV


title: VSV7day-7dayC6

description: Uninfected with VSV


title: VSV7day-7dayV3

description: Infected with VSV


title: VSV7day-7dayV1

description: Infected with VSV


title: HUVEC, untreated 2


title: VSV7day-7dayC2

description: Uninfected with VSV


title: Healthy Pulp 2


title: VSV7day-7dayC1

description: Uninfected with VSV


title: HMF3D_33v39C_R3

status: Public on Mar 23 2005

city: Bruce

first: Kristine

last: Hardy

address: University of Canberra

institute: University of Canberra

description:
Cy3HMF3D (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy5 HMF3D (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 8-2_9-16


title: HMF3D_33v39C_R4

description:
Cy5 HMF3D (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy3 HMF3D (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 8-3_9-17


title: Spinal cord of control mice34

status: Public on Mar 26 2005

city: Prairie View

first: Dumitru

middle: Andrei

last: Iacobas

address: Ann Preston St

department: Undergraduate Medical Academy

institute: Prairie View A&M University

description:
We compared RNA samples extracted from spinal cords of control (C) and AT-EAE (E) mice using the "Multiple Yellow" strategy. 4 distinct C-extracts were hybridized with two slides and 4 distinct E-extracts with other two slides, and the green/red normalized signals were compared separately and the E/C ratios averaged.
Keywords = white matter
Keywords = inflammation
Keywords = cDNA microarray
Keywords = experimental autoimmune encephalomyelitis

source_name: pool of spinal cords of two adult SJL/J female mice (control3)

source_name: pool of spinal cords of two adult SJL/J female mice (control4)


title: HMF3D_33v39C_R5

description:
Cy3 HMF3D (2) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy5 HMF3D (2)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 12-9


title: HMF3D_33v39C_R6

description:
Cy5 HMF3D (2) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy3 HMF3D (2)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 12-10


title: Spinal cord of AT-EAE mice(1,2)

source_name: pool of spinal cords of two adult AT-EAE SJL/J female mice (E1)

source_name: pool of spinal cords of two adult AT-EAE SJL/J female mice (E2)


title: HMF3C_33v39C_R8

description:
Cy5 HMF3C (2) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy3 HMF3C (2)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 48-45


title: HMF3C_33v39C_R4

description:
Cy5 HMF3C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy3 HMF3C (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 8-22_9-15


title: HMF3C_33v39C_R3

description:
Cy3 HMF3C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy5 HMF3C (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 8-25_9-14


title: p53_siRNA_4c

city: Tel Aviv

first: Ran

last: Elkon

address: Ramat Aviv

department: Human Genetics

country: Israel

institute: Tel Aviv University

description: p53 siRNA knocked-down cells, 4 hrs after NCS treatment, replicate C

source_name: HEK 293


title: Spinal cord of AT-EAE mice(3,4)

source_name: pool of spinal cords of two adult AT-EAE SJL/J female mice (E3)

source_name: pool of spinal cords of two adult AT-EAE SJL/J female mice (E4)


title: HMF3D_33v39C_R2

description:
Cy5 HMF3D (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy3 HMF3D (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 17_36


title: HMF3C_33v39C_R5

description:
Cy3 HMF3C (2) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy5 HMF3C (2)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 53-6


title: HMF3D_33v39C_R1

description:
Cy3 HMF3D (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy5 HMF3D (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 16_35


title: HMF3C_33v39C_R1

description:
Cy3 HMF3C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy5 HMF3C (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.

Lot batch = 14_33


title: RCL8_33v39C_R4

description:
Cy5 RCL8 33C (2) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy3 RCL8 39C (2)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 85-9


title: HMF3C_33v39C_R6

description:
Cy5 HMF3C (2) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy3 HMF3C (2)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 53-7


title: EA.hy926 cells untreated

description: Untreated EA.hy926 cells were harvested at confluence.


title: Spinal cord of control mice (C1,2)

source_name: pool of spinal cords of two adult SJL/J female mice (control1)

source_name: pool of spinal cords of two adult SJL/J female mice (control2)


title: p53_siRNA_4b

description: p53 siRNA knocked-down cells, 4 hrs after NCS treatment, replicate B


title: VSV7day-7dayC3

description: Uninfected with VSV


title: p53_siRNA_0c

description: p53 siRNA knocked-down cells, without treatment, replicate C


title: p53_siRNA_4a

description: p53 siRNA knocked-down cells, 4 hrs after NCS treatment, replicate A


title: RCL8_33v39C_R3

description:
Cy3 RCL8 33C (2) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy5 RCL8 39C (2)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 81-11


title: HMF3C_33v39C_R7

description:
Cy3 HMF3C (2) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy5 HMF3C (2)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 48-44


title: p53_siRNA_0a

description: p53 siRNA knocked-down cells, without treatment, replicate A


title: p53_siRNA_0b

description: p53 siRNA knocked-down cells, without treatment, replicate B


title: RelA_siRNA_4c

description: RelA (NF-kB subunit) siRNA knocked-down cells, 4 hrs after NCS treatment, replicate C


title: RelA_siRNA_4b

description: RelA (NF-kB subunit) siRNA knocked-down cells, 4 hrs after NCS treatment, replicate B


title: RCL8_33v39C_R1

description:
Cy3 RCL8 33C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy5 RCL8 39C (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 81-10


title: RelA_siRNA_4a

description: RelA (NF-kB subunit) siRNA knocked-down cells, 4 hrs after NCS treatment, replicate A


title: RCL8_33v39C_R2

description:
Cy5 RCL8 33C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy3 RCL8 39C (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 85-8


title: RelA_siRNA_0c

description: RelA (NF-kB subunit) siRNA knocked-down cells, without treatment, replicate C


title: RelA_siRNA_0b

description: RelA (NF-kB subunit) siRNA knocked-down cells, without treatment, replicate B


title: RelA_siRNA_0a

description: RelA (NF-kB subunit) siRNA knocked-down cells, without treatment, replicate A


title: RCL7_33v39C_R2

description:
Cy5 RCL7 33C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy3 RCL7 39C (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 85-13


title: ATM_siRNA_4b

description: ATM siRNA knocked-down cells, 4 hrs after NCS treatment, replicate B


title: ATM_siRNA_4c

description: ATM siRNA knocked-down cells, 4 hrs after NCS treatment, replicate C


title: ATM_siRNA_0b

description: ATM siRNA knocked-down cells, without treatment, replicate B


title: ATM_siRNA_0a

description: ATM siRNA knocked-down cells, without treatment, replicate A


title: MCC22.5_33v39C_R2

description:
Cy5 MRC22.5 33C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy3 MRC22.5 39C (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 90-15


title: ATM_siRNA_4a

description: ATM siRNA knocked-down cells, 4 hrs after NCS treatment, replicate A


title: ATM_siRNA_0c

description: ATM siRNA knocked-down cells, without treatment, replicate C


title: RCL37_33v39C_R4

description:
Cy5 RCL37 33C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy3 RCL37 39C (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 81-15


title: RCL7_33v39C_R1

description:
Cy3 RCL7 33C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy5 RCL7 39C (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 61-53


title: RCL37_33v39C_R1

description:
Cy3 RCL37 33C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy5 RCL37 39C (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 81-21


title: RCL37_33v39C_R2

description:
Cy5 RCL37 33C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy3 RCL37 39C (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 85-11


title: HMF3C_33v39C_R2

description:
Cy5 HMF3C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy3 HMF3C (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 15_34


title: MCC22.5_33v39C_R1

description:
Cy3 MCC22.5 33C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy5 MRC22.5 39C (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 90-11


title: LacZ control_4c

description: LacZ-siRNA control, 4 hrs after NCS treatment, replicate C


title: LacZ control_4b

description: LacZ-siRNA control, 4 hrs after NCS treatment, replicate B


title: MCC22.2_33v39C_R2

description:
Cy5 MCC22.2 33C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy3 MCC22.2 39C (1) HMME7 cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.

Lot batch = 85-7


title: MCC22.4_33v39C_R1

description:
Cy3 MCC22.4 33C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy5 MRC22.4 (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 90-10


title: MCC22.4_33v39C_R2

description:
Cy5 MCC22.4 33C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy3 MRC22.4 39C (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 90-14


title: LacZ control_0b

description: LacZ-siRNA control, without treatment, replicate B


title: MCC22.2_33v39C_R1

description:
Cy3 MCC22.2 33C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy5 MCC22.2 39C (1) HMME7 cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 61-52


title: LacZ control_4a

description: LacZ-siRNA control, 4 hrs after NCS treatment, replicate A


title: LacZ control_0c

description: LacZ-siRNA control, without treatment, replicate C


title: RCL37_33v39C_R3

description:
Cy3 RCL37 33C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence. Cy5 RCL37 39C (1)  cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 56-10


title: Uninfected control_4b

description: Uninfected control, 4 hrs after NCS treatment, replicate B


title: Uninfected control_0c

description: Uninfected control, without treatment, replicate C


title: Uninfected_control_0a

description: Uninfected control, without treatment, replicate A


title: Uninfected control_0b

description: Uninfected control, without treatment, replicate B


title: HMME2_33v37C_R3

description:
Cy3 HMME2 33C (2) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy5 HMME2 37C (2) HMME2 cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 37C. After 7 days at 37C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 120-15


title: Uninfected control_4c

description: Uninfected control, 4 hrs after NCS treatment, replicate C


title: HMME2_33v37C_R2

description:
Cy5 HMME2 33C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy3 HMME2 37C (1) HMME2 cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 37C. After 7 days at 37C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 122-19


title: HMME2_33v37C_R4

description:
Cy5 HMME2 33C (2) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy3 HMME2 37C (1) HMME2 cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 37C. After 7 days at 37C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 120-16


title: HMME7_33v37C_R3

description:
Cy3 HMME7 33C (2) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy5 HMME7 37C (2) HMME7 cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 37C. After 7 days at 37C the cells were lysed.  Media was changed a day before lysis
Lot batch = 124-25


title: HMME7_33v37C_R2

description:
Cy3 HMME7 37C (1) HMME7 cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 37C. After 7 days at 37C the cells were lysed.  Media was changed a day before lysis.
Cy5 HMME7 33C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Lot batch = 119-7


title: Runner chip A (D)

status: Public on Mar 22 2005

city: Gothenburg

first: Per-Arne

last: Svensson

department: Department of molecular and clinical medicine

country: Sweden

institute: institute of medicine

description: Effects of voluntary exercise in rat aorta. Spontaneously hypertensive rats (SHR) performed 5 weeks of voluntary exercise (wheel-cage running). Aortic tissue was collected and samples were pooled (3 aortae/chip). Aortae from running rats were compared to aortae from non-running rats.

source_name: Rat aorta


title: LacZ control_0a

description: LacZ-siRNA control, without treatment, replicate A


title: Runner chip C (F)

source_name: Rat Aorta


title: HMME2_33v37C_R1

description:
Cy3 HMME2 33C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy5 HMME2 37C (1) HMME7 cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 37C. After 7 days at 37C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 122-18


title: HMME7_33v37C_R1

description:
Cy3 HMME7 33C (1) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy5 HMME7 37C (1) HMME7 cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 37C. After 7 days at 37C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 119-6


title: Runner chip B (E)


title: Non-runner chip C


title: Non-runner chip B


title: Non-runner chip A


title: HMME7_33v37C_R4

description:
Cy3 HMME7 37C (1) HMME7 cells were cultured at 33C. Cells were trypsinised and then plated at 50% confluence. The next day they were shifted up to 37C. After 7 days at 37C the cells were lysed.  Media was changed a day before lysis.
Cy5 HMME7 33C (2) cells were cultured at 33C.  Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Lot batch = 124-26


title: Root_control_vs_heat_stress_9h_3

status: Public on Mar 19 2005

city: Rockville

first: Li

last: Zheng

state: MD

address: 9712 Medical Center Dr.

institute: The Institute for Genomic Research

description:
Potato seedlings were subjected to cold, heat and salt stress. Expression profiles were captured at three different time-points, 3h, 9h and 27h from two different tissues, roots and leaves. The experiment was preformed independently three times. Commercially available true potato seeds (Variety Gilroy) were germinated on rafts floating on hydroponic medium in Magenta boxes. Plants were grown for 5 weeks prior to stress application under long day conditions (16h light and 8h dark) at 25C with gentle agitation. To initiate stress the medium was replaced with fresh medium pre-chilled to 4C (cold stress), pre-heated to 35C (heat stress) or supplemented with 100mM NaCl (salt stress). Cold and heat stress were maintained for the duration of the experiment by placing the Magenta boxes on ice or in a water-bath at 35C. For every individual sample two boxes of plants were used pooling a total of 6 plants per sample. For each time-point a single control sample was used by changing the media in a similar way as for the stress induction. A total of six boxes were combined for the pooled reference samples. Plants were harvested at the appropriate time and snap-frozen in liquid nitrogen. Roots and aerial tissue was separated prior to freezing. The tissue was stored at -80C freezer until isolation. Total RNA was isolated using RNeasy isolation kit. The intactness of the RNA was verified on gel and the concentration was adjusted to 3ug/ul by ethanol precipitation and re-suspension.
Keywords = Solanum tuberosum, Roots, Abiotic stress

organism: Solanum tuberosum

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Roots; Treatment: Heat stress, 35C, 9 h; CH2: Cy3

source_name: Reference sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Roots; Treatment: Control, 9 h; CH1: Cy5


title: Root_control_vs_salt_stress_9h_1

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Roots; Treatment: Salt stress, 150mM NaCl, 9 h; CH2: Cy3


title: Root_control_vs_control_stress_3h_3

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Roots; Treatment: No stress, 3 h; CH2: Cy3

source_name: Reference sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Roots; Treatment: Control, 3 h; CH1: Cy5


title: Root_control_vs_salt_stress_9h_2


title: Root_control_vs_salt_stress_27h_3

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Roots; Treatment: Salt stress, 150mM NaCl, 27 h; CH2: Cy3

source_name: Reference sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Roots; Treatment: Control, 27 h; CH1: Cy5


title: Root_control_vs_salt_stress_3h_2

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Roots; Treatment: Salt stress, 150mM NaCl, 3 h; CH2: Cy3


title: Root_control_vs_heat_stress_3h_2

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Roots; Treatment: Heat stress, 35C, 3 h; CH2: Cy3


title: Root_control_vs_salt_stress_27h_2


title: Root_control_vs_heat_stress_9h_1


title: Root_control_vs_heat_stress_3h_3


title: Root_control_vs_heat_stress_27h_2

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Roots; Treatment: Heat stress, 35C, 27 h; CH2: Cy3


title: Root_control_vs_control_stress_3h_1


title: Root_control_vs_control_stress_27h_3

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Roots; Treatment: No stress, 27 h; CH2: Cy3


title: Root_control_vs_salt_stress_9h_3


title: Root_control_vs_heat_stress_27h_3


title: Root_control_vs_salt_stress_27h_1


title: Root_control_vs_control_stress_9h_3

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Roots; Treatment: No stress, 9 h; CH2: Cy3


title: Root_control_vs_heat_stress_9h_2


title: Root_control_vs_salt_stress_3h_3


title: Root_control_vs_heat_stress_3h_1


title: Root_control_vs_control_stress_9h_1


title: Root_control_vs_control_stress_27h_2


title: Root_control_vs_control_stress_9h_2


title: Root_control_vs_salt_stress_3h_1


title: Root_control_vs_control_stress_3h_2


title: Root_control_vs_heat_stress_27h_1


title: Root_control_vs_cold_stress_9h_3

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Roots; Treatment: Cold stress, 4C, 9 h; CH2: Cy3


title: Uninfected control_4a

description: Uninfected control, 4 hrs after NCS treatment, replicate A

source_name: HEK 293


title: Root_control_vs_control_stress_27h_1


title: Root_control_vs_cold_stress_9h_1


title: Root_control_vs_cold_stress_3h_3

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Roots; Treatment: Cold stress, 4C, 3 h; CH2: Cy3


title: Root_control_vs_cold_stress_27h_3

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Roots; Treatment: Cold stress, 4C, 27 h; CH2: Cy3


title: Root_control_vs_cold_stress_27h_1


title: Root_control_vs_cold_stress_3h_2


title: Leaf_control_vs_salt_stress_9h_2

description:
Potato seedlings were subjected to cold, heat and salt stress. Expression profiles were captured at three different time-points, 3h, 9h and 27h from two different tissues, roots and leaves. The experiment was preformed independently three times. Commercially available true potato seeds (Variety Gilroy) were germinated on rafts floating on hydroponic medium in Magenta boxes. Plants were grown for 5 weeks prior to stress application under long day conditions (16h light and 8h dark) at 25C with gentle agitation. To initiate stress the medium was replaced with fresh medium pre-chilled to 4C (cold stress), pre-heated to 35C (heat stress) or supplemented with 100mM NaCl (salt stress). Cold and heat stress were maintained for the duration of the experiment by placing the Magenta boxes on ice or in a water-bath at 35C. For every individual sample two boxes of plants were used pooling a total of 6 plants per sample. For each time-point a single control sample was used by changing the media in a similar way as for the stress induction. A total of six boxes were combined for the pooled reference samples. Plants were harvested at the appropriate time and snap-frozen in liquid nitrogen. Roots and aerial tissue was separated prior to freezing. The tissue was stored at -80C freezer until isolation. Total RNA was isolated using RNeasy isolation kit. The intactness of the RNA was verified on gel and the concentration was adjusted to 3ug/ul by ethanol precipitation and re-suspension.
Keywords = Solanum tuberosum, Leaves, Abiotic stress

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Leaves; Treatment: Salt stress, 150mM NaCl, 9 h; CH2: Cy3

source_name: Reference sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Leaves; Treatment: Control, 9 h; CH1: Cy5


title: Root_control_vs_cold_stress_27h_2


title: Leaf_control_vs_salt_stress_27h_3

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Leaves; Treatment: Salt stress, 150mM NaCl 27 h; CH2: Cy3

source_name: Reference sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Leaves; Treatment: Control, 27 h; CH1: Cy5


title: Leaf_control_vs_salt_stress_9h_1


title: Leaf_control_vs_salt_stress_3h_2

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Leaves; Treatment: Salt stress, 150mM NaCl, 3 h; CH2: Cy3

source_name: Reference sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Leaves; Treatment: Control, 3 h; CH1: Cy5


title: Leaf_control_vs_salt_stress_3h_1


title: Leaf_control_vs_salt_stress_3h_3


title: Leaf_control_vs_heat_stress_9h_2

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Leaves; Treatment: Heat stress, 35C, 9 h; CH2: Cy3


title: Leaf_control_vs_salt_stress_9h_3


title: Leaf_control_vs_salt_stress_27h_1


title: Leaf_control_vs_heat_stress_27h_2

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Leaves; Treatment: Heat stress, 35C, 27 h; CH2: Cy3


title: Leaf_control_vs_heat_stress_9h_3


title: Leaf_control_vs_heat_stress_3h_1

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Leaves; Treatment: Heat stress, 35C, 3 h; CH2: Cy3


title: Leaf_control_vs_heat_stress_27h_1


title: Root_control_vs_cold_stress_3h_1

source_name: Reference sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Roots; Treatment: Control, 3 h; CH1: Cy5


title: Leaf_control_vs_heat_stress_3h_2


title: Leaf_control_vs_heat_stress_3h_3


title: Leaf_control_vs_control_stress_9h_2

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Leaves; Treatment: No stress, 9 h; CH2: Cy3


title: Leaf_control_vs_salt_stress_27h_2


title: Leaf_control_vs_control_stress_9h_3


title: Leaf_control_vs_heat_stress_9h_1


title: Leaf_control_vs_control_stress_9h_1


title: Leaf_control_vs_control_stress_3h_3

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Leaves; Treatment: No stress, 3 h; CH2: Cy3


title: Root_control_vs_cold_stress_9h_2

source_name: Reference sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Roots; Treatment: Control, 9 h; CH1: Cy5


title: Leaf_control_vs_heat_stress_27h_3


title: Leaf_control_vs_control_stress_3h_2


title: Leaf_control_vs_control_stress_3h_1


title: Leaf_control_vs_control_stress_27h_1

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Leaves; Treatment: No stress, 27 h; CH2: Cy3


title: (Re-spot found) Wild type Mouse 1 vs Wild type Mouse 3

status: Public on Mar 18 2005

city: Tucson

first: Kevin

last: Greer

state: AZ

department: Biomedical Engineering

institute: University of Arizona

description:
(Re-spot found) Wild Type Mouse 1 Kidney Inner Medula (Channel 1) aRNA vs Wild Type Mouse 3 Kidney Inner Medula (Channel 2) aRNA. This data has been re-extracted from the original images.
Lot batch = Re-spot found (re-extracted) data

source_name: Wild Type Mouse 1 Kidney Inner Medula aRNA

source_name: Wild Type Mouse 3 Kidney Inner Medula aRNA


title: Leaf_control_vs_cold_stress_27h_3

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Leaves; Treatment: Cold stress, 4C, 27 h; CH2: Cy3


title: Leaf_control_vs_cold_stress_3h_3

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Leaves; Treatment: Cold stress, 4C, 3 h; CH2: Cy3


title: Leaf_control_vs_control_stress_27h_2


title: Leaf_control_vs_cold_stress_9h_1

source_name: Query sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Leaves; Treatment: Cold stress, 4C, 9 h; CH2: Cy3

source_name: Reference sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Leaves; Treatment: Control, 9 h; CH1: Cy5


title: Leaf_control_vs_cold_stress_9h_3


title: Leaf_control_vs_control_stress_27h_3

source_name: Reference sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Leaves; Treatment: Control, 27 h; CH1: Cy5


title: (Re-spot found) Knockout Mouse 2 vs Knockout Mouse 3

description:
(Re-spot found) Knockout Mouse 2 Kidney Inner Medula (Channel 1) aRNA vs Knockout Mouse 3 Kidney Inner Medula (Channel 2) aRNA. This data has been re-extracted from the original images.
Lot batch = Re-spot found (re-extracted) data

source_name: Knockout Mouse 2 Kidney Inner Medula aRNA

source_name: Knockout Mouse 3 Kidney Inner Medula aRNA


title: Leaf_control_vs_cold_stress_9h_2


title: (Re-spot found) Wild type Mouse 3 vs Knockout Mouse 1

description:
(Re-spot found) Wild Type Mouse 3 Kidney Inner Medula (Channel 1) aRNA vs Knockout Mouse 1 Kidney Inner Medula (Channel 2) aRNA. This data has been re-extracted from the original images.
Lot batch = Re-spot found (re-extracted) data

source_name: Knockout Mouse 1 Kidney Inner Medula aRNA


title: Leaf_control_vs_cold_stress_3h_1

source_name: Reference sample; Organism: Solanum tuberosum; Genotype: Gilroy; Tissue: Leaves; Treatment: Control, 3 h; CH1: Cy5


title: Leaf_control_vs_cold_stress_27h_2


title: (Re-spot found) Wild type Mouse 1 vs Wild type Mouse 2

description:
(Re-spot found) Wild Type Mouse 1 Kidney Inner Medula (Channel 1) aRNA vs Wild Type Mouse 2 Kidney Inner Medula (Channel 2) aRNA. This data has been re-extracted from the original images.
Lot batch = Re-spot found (re-extracted) data

source_name: Wild Type Mouse 2 Kidney Inner Medula aRNA


title: Leaf_control_vs_cold_stress_27h_1


title: M2C_30

status: Public on Mar 15 2005

city: Bethesda

first: Alan Lap-Yin

last: Pang

address: 49 Convent Drive, Room 2C08, MSC 4429

department: NICHD/LCG/SDG

institute: National Institutes of Health

description: Cy3 Spcy vs Cy5 Sptd

source_name: Mouse Round Spermatids

source_name: Mouse Pachytene Spermatocytes


title: (Re-spot found) Knockout Mouse 1 vs Knockout Mouse 2

description:
(Re-spot found) Knockout Mouse 1 Kidney Inner Medula (Channel 1) aRNA vs Knockout Mouse 2 Kidney Inner Medula (Channel 2) aRNA. This data has been re-extracted from the original images.
Lot batch = Re-spot found (re-extracted) data


title: (Re-spot found) Wild type Mouse 2 vs Knockout Mouse 1

description:
(Re-spot found) Wild Type Mouse 2 Kidney Inner Medula (Channel 1) aRNA vs Knockout Mouse 1 Kidney Inner Medula (Channel 2) aRNA. This data has been re-extracted from the original images.
Lot batch = Re-spot found (re-extracted) data


title: (Re-spot found) Knockout Mouse 1 vs Knockout Mouse 3

description:
(Re-spot found) Knockout Mouse 1 Kidney Inner Medula (Channel 1) aRNA vs Knockout Mouse 3 Kidney Inner Medula (Channel 2) aRNA. This data has been re-extracted from the original images.
Lot batch = Re-spot found (re-extracted) data


title: M2B_30

description: Cy3 Spcy vs Cy5 Sptd


title: M1C_Long

description: Cy3 Spcy vs Cy5 Sptd


title: (Re-spot found) Wild type Mouse 3 vs Knockout Mouse 2

description:
(Re-spot found) Wild Type Mouse 3 Kidney Inner Medula (Channel 1) aRNA vs Knockout Mouse 2 Kidney Inner Medula (Channel 2) aRNA. This data has been re-extracted from the original images.
Lot batch = Re-spot found (re-extracted) data


title: M2B_31

description: Cy5 Spcy vs Cy3 Sptd


title: M2C_31

description: Cy5 Spcy vs Cy3 Sptd


title: Leaf_control_vs_cold_stress_3h_2


title: (Re-spot found) Knockout Mouse 3 vs Wild type Mouse 1

description:
(Re-spot found) Knockout Mouse 3 Kidney Inner Medula (Channel 1) aRNA vs Wild Type Mouse 1 Kidney Inner Medula (Channel 2) aRNA. This data has been re-extracted from the original images.
Lot batch = Re-spot found (re-extracted) data


title: (Re-spot found) Wild type Mouse 2 vs Wild type Mouse 3

description:
(Re-spot found) Wild Type Mouse 2 Kidney Inner Medula (Channel 1) aRNA vs Wild Type Mouse 3 Kidney Inner Medula (Channel 2) aRNA. This data has been re-extracted from the original images.
Lot batch = Re-spot found (re-extracted) data


title: V vs U1 L20-14

description: Cy3 V sample vs Cy5 U1 sample

source_name: pBK-CMV transfected PC3 cells

source_name: pBK-U94 transfected PC3 cells


title: U2 vs V L20-12

description: Cy3 U2 sample vs Cy5 V sample


title: (Re-spot found) Knockout Mouse 2 vs Wild type Mouse 1

description:
(Re-spot found) Knockout Mouse 2 Kidney Inner Medula (Channel 1) aRNA vs Wild Type Mouse 1 Kidney Inner Medula (Channel 2) aRNA. This data has been re-extracted from the original images.
Lot batch = Re-spot found (re-extracted) data


title: M1B_Long

description: Cy3 Spcy vs Cy5 Sptd


title: M2A_31

description: Cy5 Spcy vs Cy3 Sptd

source_name: Mouse Round Sprmatids


title: Animal 9

status: Public on Mar 12 2005

city: Berlin

first: Timm

last: Westhoff

address: Hindenburgdamm 30

department: Medizinische Klinik IV

institute: Charite, Campus Benjamin Franklin

description: Control

source_name: Kidney


title: Animal 7

description: Case


title: Animal 5

description: Case


title: U1 vs V L20-10

description: Cy3 U1 sample vs Cy5 V sample


title: Animal 3

description: Case


title: Animal 10

description: Control


title: Animal 8

description: Case


title: Animal 4

description: Control


title: M2A_30

description: Cy3 Spcy vs Cy5 Sptd


title: Animal 12

description: Control


title: High Leu, 480 min, second experiment

status: Public on Mar 11 2005

city: Jacksonville

first: Yan

middle: W.

last: Asmann

state: FL

address: 4500 San Pablo Road South

institute: Mayo Clinic

description: Cells in 2.0 mM Leu

source_name: Human Liver Cell Line THLE-3


title: High Leu, 60 min, first experiment

description: Cells in 2.0 mM Leu


title: MRS pH 6.8 -1

city: Raleigh

first: Todd

middle: Robert

last: Klaenhammer

state: NC

department: Department of Food, Bioprocessing, and Nutrition Sciences

institute: North Carolina State University

description: Early log phase cultures wt (NCK1398, control, Cy3) vs. test (mutant, NCK1686, Cy5) were exposed to fresh MRS (pH 6.8) for 30 min.

organism: Lactobacillus acidophilus

source_name: L. acidophilus NCK1398 (NCFM::lacL)

source_name: L. acidophilus NCK1686 (NCFM::1524HPK)


title: High Leu, 480 min, first experiment

description: Cells in 2.0 mM Leu


title: MRS pH 4.5 (lactate)-2 (dye swap)

description: Early log phase cultures wt (NCK1398, control, Cy5) vs. test (mutant, NCK1686, Cy3) were exposed to MRS pH 4.5 (adjusted with lactate) for 30 min.

source_name: L. acidophilus NCK1686 (NCFM::HPK)


title: High Leu, 120 min, first experiment

description: Cells in 2.0 mM Leu


title: Animal 11

description: Control


title: High Leu, 60 min, second experiment

description: Cells in 2.0 mM Leu


title: MRS pH 6.8 -1 (Dye swap)

description: Early log phase cultures wt (NCK1398, control, Cy5) vs. test (mutant, NCK1686, Cy3) were exposed to fresh MRS (pH 6.8) for 30 min.


title: High Leu, 120 min, second experiment

description: Cells in 2.0 mM Leu


title: M1A_Long

description: Cy3 Spcy vs Cy5 Sptd

source_name: Mouse Round Spermatid


title: MRS pH 4.5 (lactate)-1

description: Early log phase cultures wt (NCK1398, control, Cy3) vs. test (mutant, NCK1686, Cy5) were exposed to MRS pH 4.5 (adjusted with lactate) for 30 min.

source_name: L. acidophilus NCK1398 (NCFM::LacL)


title: High Leu, 30 min, first experiment

description: Cells in 2.0 mM Leu


title: High Leu, 0 min, second experiment

description: Cells in 2.0 mM Leu


title: MRS pH 5.5 (lactate)-2 (dye swap)

description: Early log phase cultures wt (NCK1398, control, Cy5) vs. test (mutant, NCK1686, Cy3) were exposed to MRS pH 5.5 (adjusted with lactate) for 30 min.


title: Effects of CRP on monocytes gene expression in women

city: Vandoeuvre

first: Dan

last: Longrois

country: France

institute: INSERM U684

description: Circulating blood monocytes isolated from healthy premenopausal women were stimulated ex vivo with 25 microg/ml purified CRP (Sigma) or vehicle for 12 hours before RNA extraction.

source_name: Vehicle-treated monocytes

source_name: Monocytes treated with 25 microg/ml CRP for 12 hours


title: (Re-spot found) Knockout Mouse 3 vs Wild type Mouse 2

description:
(Re-spot found) Knockout Mouse 3 Kidney Inner Medula (Channel 1) aRNA vs Wild Type Mouse 2 Kidney Inner Medula (Channel 2) aRNA. This data has been re-extracted from the original images.
Lot batch = Re-spot found (re-extracted) data

source_name: Knockout Mouse 3 Kidney Inner Medula aRNA


title: Effects of CRP on monocytes gene expression in men

description: Circulating blood monocytes isolated from healthy men were stimulated ex vivo with 25 microg/ml purified CRP (Sigma) or vehicle for 12 hours before RNA extraction.


title: MRS pH 5.5 (lactate)-1

description: Early log phase cultures wt (NCK1398, control, Cy3) vs. test (mutant, NCK1686, Cy5) were exposed to MRS pH 5.5 (adjusted with lactate) for 30 min.


title: Human Primery Pigmented Nodular Adrenocortical Disease

type: SAGE

anchor: NlaIII

city: Washington

first: Anelia

last: Horvath

state: DC

address: 2300 Eye Street NW

department: Biochemistry and Molecular Medicine

institute: GWU

description:
Human Adrenocortical Hyperplastic Tissue derived from adolescent female affected by Primary Pigmented Nodular Adrenocortical Disease caused by germline mutation in PRKAR1a
Keywords = hyperplasia adrenal cortex human

source_name: Human Adrenal Cortex affected by Primary Pigmented Nodular Adrenocortical Disease


title: Low Leu, 480 min, Second experiment

description: Cells in 0.1 mM Leu


title: Low Leu, 60 min, second experiment

description: Cells in 0.1 mM Leu


title: Low Leu, 480 min, first experiment

description: Cells in 0.1 mM Leu


title: Low Leu, 120 min, first experiment

description: Cells in 0.1 mM Leu


title: Human Normal Adrenal Cortex

description:
Normal Adrenal Cortical Tissue derived from adolescent female
Keywords = normal adrenal cortex human

source_name: Human Normal Adrenal Cortex


title: Low Leu, 30 min, first experiment

description: Cells in 0.1 mM Leu


title: High Leu, 0 min, first experiment

description: Cells in 2.0 mM Leu


title: Low Leu, 60 min, first experiment

description: Cells in 0.1 mM Leu


title: Low Leu, 0 min, first experiment

description: Cells are maintained in 0.1 mM Leu


title: Low Leu, 0 min, Second experiment

description: Cells in 0.1 mM Leu


title: Low Leu, 120 min, Second experiment

description: Cells in 0.1 mM Leu


title: Low Leu, 30 min, Second experiment

description: Cells in 0.1 mM Leu


title: VADS_pool_N

status: Public on Mar 09 2005

city: Illkirch

first: Annaïck

last: Carles

institute: IGBMC

description:
Hypopharyngeal cancer. Pool . N=normal . A full description of the clinical data, including diagnosis and outcome is shown in Table 1 (Cromer 2004). Total RNA were extracted using Qiagen RNeasy kit and treated with DNAse.
Lot batch = batch1


title: VADS_856_T_NM

description:
Hypopharyngeal cancer. Patient = 856. NM=No metastasis. A full description of the clinical data, including diagnosis and outcome is shown in Table 1 (Cromer 2004).Total RNA were extracted using Qiagen RNeasy kit and treated with DNAse.
Lot batch = batch1


title: VADS_209_T_M

description:
Hypopharyngeal cancer. Patient = 209. M=metastasis. A full description of the clinical data, including diagnosis and outcome is shown in Table 1 (Cromer 2004).Total RNA were extracted using Qiagen RNeasy kit and treated with DNAse.
Lot batch = batch1


title: VADS_435_T_E

description:
Hypopharyngeal cancer. Patient = 435. E=early. A full description of the clinical data, including diagnosis and outcome is shown in Table 1 (Cromer 2004).Total RNA were extracted using Qiagen RNeasy kit and treated with DNAse.
Lot batch = batch1


title: VADS_Pool_T_M

description:
Hypopharyngeal cancer. Pool. M=metastasis . A full description of the clinical data, including diagnosis and outcome is shown in Table 1 (Cromer 2004). Total RNA were extracted using Qiagen RNeasy kit and treated with DNAse.
Lot batch = batch1


title: VADS_pool_T_E

description:
Hypopharyngeal cancer. Pool. E=Early . A full description of the clinical data, including diagnosis and outcome is shown in Table 1 (Cromer 2004). Total RNA were extracted using Qiagen RNeasy kit and treated with DNAse.
Lot batch = batch1


title: VADS_Pool_T_NM

description:
Hypopharyngeal cancer. Pool. NM=No metastasis . A full description of the clinical data, including diagnosis and outcome is shown in Table 1 (Cromer 2004). Total RNA were extracted using Qiagen RNeasy kit and treated with DNAse.
Lot batch = batch1


title: VADS_834_T_E

description:
Hypopharyngeal cancer. Patient = 834. E=early. A full description of the clinical data, including diagnosis and outcome is shown in Table 1 (Cromer 2004).Total RNA were extracted using Qiagen RNeasy kit and treated with DNAse.
Lot batch = batch1


title: VADS_1107_N

description:
Hypopharyngeal cancer. Patient = 1107. N=Normal. A full description of the clinical data, including diagnosis and outcome is shown in Table 1 (Cromer 2004).Total RNA were extracted using Qiagen RNeasy kit and treated with DNAse.
Lot batch = batch1


title: VADS_1102_N

description:
Hypopharyngeal cancer. Patient = 1102. N=Normal. A full description of the clinical data, including diagnosis and outcome is shown in Table 1 (Cromer 2004).Total RNA were extracted using Qiagen RNeasy kit and treated with DNAse.
Lot batch = batch1


title: VADS_933_T_M

description:
Hypopharyngeal cancer. Patient = 933. M=metastasis. A full description of the clinical data, including diagnosis and outcome is shown in Table 1 (Cromer 2004).Total RNA were extracted using Qiagen RNeasy kit and treated with DNAse.
Lot batch = batch1


title: VADS_0190_T_NM

description:
Hypopharyngeal cancer. Patient = 0190. NM=No metastasis. A full description of the clinical data, including diagnosis and outcome is shown in Table 1 (Cromer 2004).Total RNA were extracted using Qiagen RNeasy kit and treated with DNAse.
Lot batch = batch1


title: VADS_065_T_NM

description:
Hypopharyngeal cancer. Patient = 065. NM= no metastasis. A full description of the clinical data, including diagnosis and outcome is shown in Table 1 (Cromer 2004).Total RNA were extracted using Qiagen RNeasy kit and treated with DNAse.
Lot batch = batch1


title: VADS_0888_T_M

description:
Hypopharyngeal cancer. Patient = 0888. M=Metastasis. A full description of the clinical data, including diagnosis and outcome is shown in Table 1 (Cromer 2004).Total RNA were extracted using Qiagen RNeasy kit and treated with DNAse.
Lot batch = batch1


title: Stomach - 2

status: Public on Mar 08 2005

city: Toronto

first: Tomas

last: Babak

state: ON

address: 112 College St

department: Banting and Best Department of Medical Research

country: Canada

institute: Best Institute

description: see platform

source_name: Stomach - 2


title: VADS_0135_T_M

description:
Patient 0135. M= Metastasis. A full description of the clinical data, including diagnosis and outcome is shown in Table 1 (Cromer 2004).
Total RNA were extracted using Qiagen RNeasy kit and treated with DNAse.
Lot batch = batch1


title: Testis - 2

description: see platform

source_name: Testis - 2


title: VADS_01047_N

description:
patient 1047. Normal tissue. A full description of the clinical data, including diagnosis and outcome is shown in Table 1 (Cromer et al. 2004). Total RNA were extracted using Qiagen RNeasy kit and treated with DNAse.
Lot batch = batch 1


title: VADS_0279_T_NM

description:
Hypopharyngeal cancer. Patient 0279. NM=No metastatic. A full description of the clinical data, including diagnosis and outcome is shown in Table 1 (Cromer 2004).Total RNA were extracted using Qiagen RNeasy kit and treated with DNAse.
Lot batch = batch1


title: Teeth - 2

description: see platform

source_name: Teeth - 2


title: Muscle - 2

description: see platform

source_name: Muscle - 2


title: Mammary Gland - 2

description: see platform

source_name: Mammary Gland - 2


title: Femur - 2

description: see platform

source_name: Femur - 2


title: ES

description: see platform

source_name: ES


title: Brain - 2

description: see platform

source_name: Brain - 2


title: 15 day embryo

description: see platform

source_name: 15 day embryo


title: Heart - 2

description: see platform

source_name: Heart - 2


title: 3D7-8hr-deltaSIR2-13

city: Parkville

first: Ken

last: Simpson

state: Victoria

address: 1G Royal Parade

department: Genetics and Bioinformatics

institute: The Walter and Eliza Hall Institute

description:
SIR2 knockout, replicate 1
Keywords = SIR2
Keywords = epigenetic regulation
Keywords = antigenic variation
Keywords = var
Keywords = Plasmodium falciparum

organism: Plasmodium falciparum

source_name: SIR2 knockout parasites on 3D7 background, ring stage, 8hrs post-invasion


title: 9.5 day placenta

description: see platform

source_name: 9.5 day placenta


title: sir2-13no2-8hr

description:
SIR2 knockout, replicate 2
Keywords = SIR2
Keywords = epigenetic regulation
Keywords = antigenic variation
Keywords = var
Keywords = Plasmodium falciparum


title: 3D7-1-08hr

description:
3D7 wildtype, replicate 1
Keywords = SIR2
Keywords = epigenetic regulation
Keywords = antigenic variation
Keywords = var
Keywords = Plasmodium falciparum

source_name: wildtype 3D7 parasites, ring stage, 8hrs post-invasion


title: Bladder

description: see platform

source_name: Bladder


title: Liver - 2

description: see platform

source_name: Liver - 2


title: Intestine - 2

description: see platform

source_name: Intestine - 2


title: 12.5 day embryo

description: see platform

source_name: 12.5 day embryo


title: CD69hi vs. CD69lo thymocytes rep 2

status: Public on Mar 07 2005

first: Remy

last: Bosselut

institute: NCI, NIH

description:
mAdb experiment ID: 36443
Cy-3 labeled RNA from purified CD69hi wildtype thymocytes vs. Cy-5 labeled RNA from unseparated Zap70-/- thymocytes
Array Print: Mm-FCRF-GEM2-v7p10_090402
cell_type: thymocyte

source_name: B6 CD69hi


title: CD69lo vs. CD69hi thymocytes

description:
mAdb experiment ID: 36610
Cy-5 labeled RNA from purified CD69hi wildtype thymocytes vs. Cy-3 labeled RNA from unseparated Zap70-/- thymocytes
Array Print: Mm-FCRF-GEM2-v7p10_090402
cell_type: thymocyte


title: VADS_01047_T_E

description:
Hypopharyngeal cancer. Patient number = 01047. E=Early. A full description of the clinical data, including diagnosis and outcome is shown in Table 1 (Cromer 2004).Total RNA were extracted using Qiagen RNeasy kit and treated with DNAse.
Lot batch = batch 1


title: CD69hi vs. CD69lo thymocytes rep 1

description:
mAdb experiment ID: 36338
Cy-3 labeled RNA from purified CD69hi wildtype thymocytes vs. Cy-5 labeled RNA from unseparated Zap70-/- thymocytes
Array Print: Mm-FCRF-GEM2-v7p10_090402
cell_type: thymocyte


title: Tillering Shoot 1

status: Public on Mar 05 2005

city: Pasadena

first: Yuling

last: Jiao

state: CA

address: 1200 E California Blvd

department: Biology

institute: California Institute of Technology

description:
Tillering Shoot vs. Cultured Cell (control sample)
Keywords = rice
Keywords = shoot

organism: Oryza sativa

source_name: Shoots from tillering stage (Cy5)

source_name: Cultured Cells (Cy3)


title: Panicle 3

description:
Panicle vs. Cultured Cell (control sample)
Keywords = rice
Keywords = panicle

source_name: Panicles from heading stage (Cy5)


title: Seedling Root 3

description:
Root vs. Cultured Cell (control sample)
Keywords = rice
Keywords = root

source_name: Roots from seeding stage (Cy5)


title: Tillering Shoot 3


title: Tillering Shoot 2


title: Seedling Root 1


title: Seedling Shoot 1

description:
Seedling Shoot vs. Cultured Cell (control sample)
Keywords = rice
Keywords = shoot

source_name: Shoots from seeding stage (Cy5)


title: Parental H4 vs. Mutant H4 K16R (s)

city: Worcester

first: Oliver

last: Rando

state: MA

address: 364 Plantation St.

institute: UMass Medical School

description: Parental H4 vs. Mutant H4 K16R (s)


title: Parental H4 vs. Mutant H4 K5, 8, 12, 16R (2) (biol. repl. 2)


title: Lung - 2

description: see platform

source_name: Lung - 2


title: Seedling Root 2