title: EB1: Human stem cells with differentiation into embryoid bodies, replicate 1.

source_name: Human embryonic stem cells with differentiation into embryoid bodies

value: embryonic stem cells

tag: developmental stage

value: Differentiation into embryoid bodies


title: Cult. IP-Ast. P7 biological replicate 2

status: Public on Sep 06 2011

type: RNA

city: Stanford

first: Lynette

last: Foo

state: CA

address: 299 Campus Drive

department: Neurobiology

country: USA

institute: Stanford University

description: astrocytes isolated by immunopanning with ITGB5 and cultured for 7 days before isolation, Foo et al

hyb_protocol: 3' IVT Express Kit from Affymetrix

scan_protocol: Affymetrix GeneChip Scanner 3000 7G

data_processing: DNASTAR ArrayStar Software with RMA normalization

label: biotin

molecule: total RNA

organism: Rattus norvegicus

source_name: rat forebrain p7

label_protocol: 3' IVT Express Kit from Affymetrix

extract_protocol: QIAGEN RNeasy minikit

tag: tissue

value: forebrain

tag: cell type

value: astrocytes

tag: acute/cultured

value: cultured p1 in HBEGF 5ng/ml


title: Cult. IP-Astrocytes P7 Serum biological replicate 3

description: astrocytes isolated by immunopanning with ITGB5 and cultured for 7 days in serum before isolation, Foo et al

value: cultured P7 in 10% foetal calf serum 7 days


title: Cult. IP-Ast. P1 biological replicate 3

source_name: rat forebrain p1


title: B6NW-4: Non-wounded dendritic epidermal T-cells (DETC), replicate #4.

city: La Jolla

first: Steven

last: Head

address: 10550 N Torrey Pines Rd

institute: The Scripps Research Institute

hyb_protocol: Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on the v4 GeneChip Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.

scan_protocol: GeneChips were scanned using the Affymetrix GeneArray Scanner 3000 7G.

data_processing: The data were analyzed with RMA Express using the default settings (Background Adjust - Yes, Normalization - Quantile, Summarization Method - Median Polish, Store Residuals - unchecked).

organism: Mus musculus

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 0.5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).

extract_protocol: Trizol extraction of total RNA was performed according to the manufacturer's instructions.

value: dendritic epidermal T-cells (DETC)

tag: wounded

value: Non-wounded

tag: time measured post wounding


title: G3KO-K2-6HR: Galectin-3 knockout 6 hours post infection with parasites, Leishmania major, replicate #1.

source_name: Lymph node Galectin-3 knockout 6 hours post infection with parasites, Leishmania major.

tag: background strain

tag: genotype

value: Galectin-3 knockout

value: leukocyte

tag: time after infection

value: 6 hours

tag: disease state

value: Leishmania major


title: G3KO-K3-6HR:Galectin-3 knockout 6 hours post infection with parasites, Leishmania major, replicate #2.


title: C57-WT5-6HR: C57 wildtype 6 hours post infection with parasites, Leishmania Major, replicate #3.

source_name: Lymph node C57 wildtype 6 hours post infection with parasites, Leishmania Major.

value: WT


title: Cult. IP-Ast. P1 biological replicate 1


title: Cult. IP-Ast. P1 biological replicate 2


title: G3KO-K6-6HR: Galectin-3 knockout 6 hours post infection with parasites, Leishmania major, replicate #3.


title: H1703-1: Sulf-2 negative non-small cell lung cancer (NSCLC) line H1703, replicate #1.

organism: Homo sapiens

tag: cell line

tag: sulf-2 expressing

value: No

value: Non-small lung cancer


title: C57-WT2-24HR: C57 wildtype 24 hours post infection with parasites, Leishmania Major, replicate #1.

source_name: Lymph node C57 wildtype 24 hours post infection with parasites, Leishmania Major.

value: 24 hours


title: MD-Astrocytes biological replicate 3

description: astrocytes prepared by McCarthy and de Vellis' method (1980)

value: cultured p1 in 10% foetal calf serum


title: C57-WT4-24HR: C57 wildtype 24 hours post infection with parasites, Leishmania Major, replicate #3.


title: C57-WT3-8DY: C57 wildtype 8 days post infection with parasites, Leishmania Major, replicate #1.

source_name: Lymph node C57 wildtype 8 days post infection with parasites, Leishmania Major.

value: 8 days


title: G3KO-K5-24HR: Galectin-3 knockout 24 hours post infection with parasites, Leishmania major, replicate #2.

source_name: Lymph node Galectin-3 knockout 24 hours post infection with parasites, Leishmania major.


title: G3KO-K4-24HR: Galectin-3 knockout 24 hours post infection with parasites, Leishmania major, replicate #1.


title: EB3: Human embryonic stem cells with differentiation into embryoid bodies, replicate 3.

value: embryonic stem cells

value: Differentiation into embryoid bodies


title: hESCs1: Human embryonic stem cells undifferentiated, replicate 1.

source_name: Human embryonic stem cell, undifferentiated

value: Undifferentiated


title: Pc-2: Normal bronchial epithelial cell population P-C, replicate #2.

value: P-C


title: Pc-3: Normal bronchial epithelial cell population P-C, replicate #3.


title: C57-WT4-8DY: C57 wildtype 8 days post infection with parasites, Leishmania Major, replicate #2.


title: G3KO-K1-8DY: Galectin-3 knockout 8 days post infection with parasites, Leishmania major, replicate #1.

source_name: Lymph node Galectin-3 knockout 8 days post infection with parasites, Leishmania major.


title: hESCs3: Human embryonic stem cells undifferentiated, replicate 3.


title: NS1: Human embryonic stem cells with differentiation into neural spheres, replicate 1.

value: Differentiation into neural spheres


title: G3KO-K2-8DY: Galectin-3 knockout 8 days post infection with parasites, Leishmania major, replicate #2.


title: G3KO-K3-8DY: Galectin-3 knockout 8 days post infection with parasites, Leishmania major, replicate #3.


title: NS2: Human embryonic stem cells with differentiation into neural spheres, replicate 2.


title: 4-2WT: Control Male 5 HT7 receptor wildtype RNA from pooled sufficient number (2-3) of mice, replicate#1.

source_name: Brain hippocampus Control Male 5 HT7 receptor wildtype mice.

value: hippocampus

tag: Sex

value: male

value: Wild Type


title: C57-W3-24HR: C57 wildtype 24 hours post infection with parasites, Leishmania Major, replicate #2.

value: leukocyte


title: G3KO-K6-24HR: Galectin-3 knockout 24 hours post infection with parasites, Leishmania major, replicate #3.

value: Galectin-3 knockout


title: hESCs2: Human embryonic stem cells undifferentiated, replicate 2.


title: NS3: Human embryonic stem cells with differentiation into neural spheres, replicate 3.


title: IP-Astrocytes P7 biological replicate 2

description: astrocytes isolated by immunopanning with ITGB5, Foo et al

value: forebrain

value: astrocytes

value: acute p7


title: 2-2KO: Male 5 HT7 receptor knockout RNA from pooled sufficient number (2-3) of mice, replicate#2.

source_name: Brain hippocampus Male 5 HT7 receptor knockout mice.

value: Knockout


title: MD-Astrocytes biological replicate 1


title: IP-Astrocytes P7 biological replicate 3


title: 3-2KO: Male 5 HT7 receptor knockout RNA from pooled sufficient number (2-3) of mice, replicate#3.


title: IP-Astrocytes P7 biological replicate 1


title: 5-2WT: Control Male 5 HT7 receptor wildtype RNA from pooled sufficient number (2-3) of mice, replicate#2.


title: C57-WT5-8DY: C57 wildtype 8 days post infection with parasites, Leishmania Major, replicate #3.

value: WT

value: Leishmania major


title: 6-2WT: Control Male 5 HT7 receptor wildtype RNA from pooled sufficient number (2-3) of mice, replicate#3.


title: 1-2KO: Male 5 HT7 receptor knockout RNA from pooled sufficient number (2-3) of mice, replicate#1.


title: IP-Astrocytes P1 biological replicate 2

value: acute p1


title: IP-Astrocytes P1 biological replicate 3


title: 2KOG3: Gal3 -/- mice injected with Tm1G3, replicate #1.

source_name: Melanoma cell line Gal3 -/- mice injected with Tm1G3 (Gal3 silenced melanoma cell line)

value: Tm1G3 (Gal3 Silenced)


title: 23KON3: Gal3 -/- mice injected with Tm1N3, replicate #3.

source_name: Gal3 -/- mice injected with Tm1N3 (Gal3 expressing melanoma cell line)

value: Tm1N3 (Gal3 Expressing)


title: 31WTG3: Wild type mice injected with Tm1G3, replicate #1.

source_name: Wild type mice injected with Tm1G3 (Gal3 silenced melanoma cell line)


title: 11KON3: Gal3 -/- mice injected with Tm1N3, replicate #2.


title: 7KON3: Gal3 -/- mice injected with Tm1N3, replicate #1.


title: 18KOG3: Gal3 -/- mice injected with Tm1G3, replicate #3.


title: MD-Astrocytes biological replicate 2

value: cultured p1 in 10% foetal calf serum


title: 35WTG3: Wild type mice injected with Tm1G3, replicate #2.


title: 37WTN3: Wild type mice injected with Tm1N3, replicate #1.

source_name: Wild type mice injected with Tm1N3 (Gal3 expressing melanoma cell line)


title: 5KOG3: Gal3 -/- mice injected with Tm1G3, replicate #2.


title: IP-Astrocytes P1 biological replicate 1


title: 74NL(A)

city: Dallas

first: Luc

last: Girard

state: TX

address: 5323 Harry Hines Blvd

department: Hamon Center for Therapeutic Oncology Research

institute: UT Southwestern Medical Center

hyb_protocol: Following fragmentation, 20 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station

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

data_processing: Quantile normalization and RMA were done with RMAExpress (http://rmaexpress.bmbolstad.com/)

source_name: Normal lung

label_protocol: Biotinylated cRNA was prepared according to standard Affymetrix protocol from 5 microgram total RNA

extract_protocol: Trizol

tag: egfr status

value: Wild-type

value: F

tag: smoking

value: Current


title: 82NL(A)

value: Former


title: 40WTN3: Wild type mice injected with Tm1N3, replicate #2.


title: 47WTG3: Wild type mice injected with Tm1G3, replicate #3.


title: 83NL(B)

tag: age

tag: race

value: WNH

value: Never


title: 82NL(B)


title: 78NL(A)


title: 49NL(B)


title: 66NL(A)


title: 78NL(B)


title: 83NL(A)


title: P51112

description: P51112: The splendic CD4+CD25-T cell fraction of four to six week old, naïve female C57BL/6 mice flow sorted into CD45RBhigh (naïve) populations (CD4+CD25-CD45RBhigh), replicate #1.

scan_protocol: GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000.

source_name: Naïve female C57BL/6 mice flow sorted into CD45RBhigh (naïve) populations (CD4+CD25-CD45RBhigh)

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 0.5 ug total RNA using MessageAmp™ II aRNA Kit from Ambion

value: female


title: P51312

description: P51312: The splendic CD4+CD25-T cell fraction of four to six week old, naïve female C57BL/6 mice flow sorted into CD45RBhigh (naïve) populations (CD4+CD25-CD45RBhigh), replicate #2.


title: 74NL(B)


title: 48NL(B)


title: P5325

description: P5325: The splendic CD4+CD25-T cell fraction of four to six week old, naïve female C57BL/6 mice flow sorted into CD45RBhigh (naïve) populations (CD4+CD25-CD45RBhigh), replicate #3.


title: 66NL(B)


title: 48NL(A)


title: 44NL(B)


title: 49NL(A)


title: P541

description: P541: The splendic CD4+CD25-T cell fraction of four to six week old, naïve female C57BL/6 mice flow sorted into CD45RBhigh (naïve) populations (CD4+CD25-CD45RBhigh), replicate #4.


title: 44NL(A)


title: 42NL(B)

value: M


title: 42NL(A)


title: 52WTN3: Wild type mice injected with Tm1N3, replicate #3.


title: P61112

description: P61112: The splendic CD4+CD25-T cell fraction of four to six week old, naïve female C57BL/6 mice flow sorted into CD45RBlow (activated/memory) populations (CD4+CD25-CD45RBlow), replicate #1.

source_name: Naïve female C57BL/6 mice flow sorted into CD45RBlow (activated/memory) populations (CD4+CD25-CD45RBlow)


title: P6325

description: P6325: The splendic CD4+CD25-T cell fraction of four to six week old, naïve female C57BL/6 mice flow sorted into CD45RBlow (activated/memory) populations (CD4+CD25-CD45RBlow), replicate #3.


title: P61312

description: P61312: The splendic CD4+CD25-T cell fraction of four to six week old, naïve female C57BL/6 mice flow sorted into CD45RBlow (activated/memory) populations (CD4+CD25-CD45RBlow), replicate #2.


title: 38NL(A)


title: P81112

description: P81112: CD4+CD25+(CD45RBlow) Treg population, replicate #1.

source_name: CD4+CD25+(CD45RBlow) Treg population

value: CD4+CD25+(CD45RBlow) Treg population


title: P641

description: P641: The splendic CD4+CD25-T cell fraction of four to six week old, naïve female C57BL/6 mice flow sorted into CD45RBlow (activated/memory) populations (CD4+CD25-CD45RBlow), replicate #4.


title: 35NL(B)


title: 38NL(B)


title: 35NL(A)


title: P841

description: P841: CD4+CD25+(CD45RBlow) Treg population, replicate #4.


title: 29NL(B)


title: 27NL(B)


title: 29NL(A)


title: P81312

description: P81312: CD4+CD25+(CD45RBlow) Treg population, replicate #2.


title: 22NL(A)


title: 27NL(A)


title: 21NL(A)


title: 20NL(B)


title: 10NL(B)


title: 16NL(B)


title: 20NL(A)


title: IMM007 Anaerobic sucrose limited chemostat culture at 0.1h rep2

city: Delft

first: Jean-Marc

last: Daran

address: Julianalaan 67

department: Department of Biotechnology

country: Netherlands

institute: Delft University of Technology

description: Anaerobic sucrose limited chemostat culture at 0.1h-1 steady state sample (idnSUC2 )

hyb_protocol: Labelled cRNA was purified using the GeneChip Sample Cleanup Module prior to fragmentation and hybridization of 15 μg biotinylated cRNA  (De Nicola R, et. al. (2007)  Appl Environ Microbiol.;73:7680-92).

scan_protocol: Scanning of the Affymetrix Genechip® microarrays was performed with The Affymetrix scanner 3000 following Affymetrix instructions

data_processing: Acquisition and quantification of array images and data filtering were performed with the Affymetrix  GeneChip® Operating Software version 1.2 (GCOS 1.2) using Affymetrix default analysis settings and global scaling as normalization method. Hybridization intensity scaled to 150 with GCOS 1.2. The Significance Analysis of Microarrays (SAM) (version 2.23A) (Tusher et al, 2001) add-in to Microsoft Excel was used for comparison of replicate array experiments of IMI056 and IMM007 under sucrose limitation conditions.

label: Biotin-Streptavidin

organism: Saccharomyces cerevisiae

source_name: IMM007_anaerobic sucrose limited chemostat culture at 0.1h

label_protocol: Double-stranded cDNA synthesis was carried out using 15 μg total RNA and the components of the One Cycle cDNA Synthesis Kit (Affymetrix, Santa Clara, USA). Double-stranded cDNA was purified using the GeneChip Sample Cleanup Module (Qiagen, Hilden, Germany) before in vitro transcription and labeling with the GeneChip IVT Labelling Kit (Affymetrix, Santa Clara, USA).

growth_protocol: Anaerobic chemostat fermentations were run in 2 l laboratory bioreactors (Applikon, Schiedam, The Netherlands) at 800 rpm and 30C. The working volume was kept at 1 l using an effluent pump which was controlled by an electric level sensor. The exact working volume was measured at the end of each experiment. The pH was kept at 5.0 via automatic addition of 2 M KOH. Cultures were sparged with 500 ml min-1 nitrogen (<10 ppm oxygen). To minimize oxygen diffusion into the system, bioreactors were equipped with Norprene tubing and Viton O-rings and the medium vessels were flushed with nitrogen gas. Chemostat cultivations were preceded by batch cultivations under the same conditions. After sucrose exhaustion, which was indicated by a rapid decrease in CO2 production, the cultivations were switched to continuous mode at a dilution rate of 0.10 h-1. Precultures for chemostat experiments were grown until the mid-exponential growth phase at 30C in 500 ml shake flasks containing 100 ml synthetic medium (Verduyn et al., 1990) with 20 g l-1 sucrose in an Innova incubator shaker (New Brunswick Scientific, Edison, USA). A synthetic medium with 25 g l-1 sucrose was used for all chemostat experiments (Verduyn et al., 1990). Sucrose was filter-sterilized as a 50 % (w/v) solution before being transferred to the medium. The medium was supplemented with the anaerobic growth factors ergosterol (10 mg l-1) and Tween80 (420 mg l-1) dissolved in ethanol. Antifoam Emulsion C (Sigma, St. Louis, USA) was autoclaved separately (120C) as a 20% (w/v) solution and added to a final concentration of 0.2 g l-1. [Verduyn, C., Postma, E., Scheffers, W. A., van Dijken, J. P., 1990. Physiology of Saccharomyces cerevisiae in anaerobic glucose-limited chemostat cultures. Microbiology 136, 395-403.]

extract_protocol: Total RNA was extracted by hot phenol extraction method followed by freeze-thawing and acid phenol separations as described previously [Piper et al.,J Biol Chem. 2002 Oct 4;277(40):37001-8.].

tag: strain

tag: genotype/variation

value: modified SUC2  (delocalization of Suc2)


title: 8NL(B)


title: 16NL(A)


title: 21NL(B)


title: 10NL(A)


title: 22NL(B)


title: 7NL(A)


title: SM8_week55postSIV_ColorectalTissue

city: Atlanta

first: RAVI

last: DYAVAR SHETTY

state: Georgia

address: 954 Gatewood RD NE

department: Microbiology and Immunology

institute: emory university

description: [Rhesus] Affymetrix Rhesus Macaque Genome Array

hyb_protocol: Hybridization and post-hybridization processing were performed following the Affymetrix GeneChip Expression Analysis standard protocols (Affymetrix inc.)

scan_protocol: The gene chips were scanned on Affymetrix scanner 3000

data_processing:
The data from gene chips was processed with GeneChip Operating Software (GCOS) 1.4
.CEL files were loaded in to Genespring GX10 software, data was preprocessed with RMA (Robost Multichip Analaysis) and per gene normaization was performed by setting measurements to median.Only those transcripts that were called present or marginal in at least one of the same condition were taken into account. Genes with statistically significant differences between the SIV infected versus SIV negative group of Rhesus macaques and Sooty mangabeys were classified(Student T test, p-value cutoff 0.05) with minimum of 1.5 fold change difference.

label: Biotin

organism: Cercocebus atys

source_name: SIV infected Sooty mangabey Colorectal tissue

label_protocol: Biotinylated complementary RNAs (cRNAs) were synthesized in the presence of T7 RNA Polymerase and a biotinylated nucleotide analog/ribonucleotide mix by in vitro transcription (IVT) reaction.

extract_protocol: RNA was extracted with Rneasy mini kit (Qiagen)

treatment_protocol: Rhesus macaques were infected intravenously with 200 TCID50 of SIVmac251 strain. In case of Sooty mangabeys,SIVsm is endemic in this population. None of the animals used in the study were experimentally infected. The SIV-negative animals used here were sacrificed due to neurological and mental problems but were checked to ensure no history of bowel problems.

tag: tissue

value: colorectal tissue

tag: infection status

value: Week55 post SIV infected


title: SM7_week55postSIV_ColorectalTissue


title: IMI056 Anaerobic sucrose limited chemostat culture at 0.1h rep 2

description: Anaerobic sucrose limited chemostat culture at 0.1h-1 steady state sample (iSUC2)

source_name: IMI056_anaerobic sucrose limited chemostat culture at 0.1h


title: EB2: Human embryonic stem cells, differentiated into embryoid bodies, replicate #2.

source_name: Human embryonic stem cells with differentiation into embryoid bodies

tag: cell type

value: embryonic stem cells

tag: developmental stage

value: Differentiation into embryoid bodies


title: 104L(B)

source_name: Lung adenocarcinoma

tag: who histologic subtype

value: ACI

tag: who grade

value: MD

tag: mskcc histology

value: ACA

tag: pack yrs

tag: tumorsite

value: LungTumor

tag: pt

tag: pn

tag: pm

tag: grpstage

value: A

tag: status

value: NED

tag: last f/u

tag: intstat


title: IMM007 Anaerobic sucrose limited chemostat culture at 0.1h rep1

tag: strain

tag: genotype/variation


title: 104L(A)

tag: egfr status

value: Wild-type

tag: age

tag: race

tag: Sex

tag: smoking


title: 8NL(A)

value: WNH

value: F

value: Former


title: 94L(A)

value: Mutant

value: Never

tag: who histologic subtype

value: ACI, BAC

tag: who grade

tag: mskcc histology

value: AWBF

value: Brain ® temporal lobe

value: D

tag: deathdte

value: DOD


title: 83L(B)

value: ACI

tag: pack yrs

tag: tumorsite

value: LtLungTumor

tag: ct

tag: pt

tag: pn

value: Pleura

value: AWD


title: CEN.PK113-7D Anaerobic sucrose limited chemostat culture at 0.1h rep2

description: Anaerobic sucrose limited chemostat culture at 0.1h-1 steady state sample (CEN-PK113-7D)

source_name: CEN.PK113-7D_anaerobic sucrose limited chemostat culture at 0.1h

value: wild type


title: SM6_week55postSIV_ColorectalTissue

tag: tissue

value: colorectal tissue

tag: infection status

value: Week55 post SIV infected


title: SM5_week55postSIV_ColorectalTissue


title: 94L(B)

value: WNH

value: MD

value: LungTumor

tag: pm

tag: grpstage

tag: status

tag: last f/u

tag: intstat


title: 7NL(B)

tag: egfr status

value: Wild-type

tag: Sex

value: F

tag: smoking


title: 83L(A)

value: Mutant

tag: age

tag: race

value: Never

tag: who histologic subtype

tag: who grade

tag: mskcc histology

value: ACA

value: A


title: IMI056 Anaerobic sucrose limited chemostat culture at 0.1h rep 3

tag: strain

tag: genotype/variation

value: modified SUC2  (delocalization of Suc2)


title: IMI056 Anaerobic sucrose limited chemostat culture at 0.1h rep 1


title: 81L(B)

value: BAC, ACI

value: WD

value: BWFI

tag: pack yrs

tag: other

value: 2nd hand smoke exposure

tag: tumorsite

value: RtLungTumor

tag: pt

tag: pn

value: NED


title: CEN.PK113-7D Anaerobic sucrose limited chemostat culture at 0.1h rep1

value: wild type


title: SM4_SIVnegative_ColorectalTissue

source_name: SIV negative Sooty mangabey Colorectal tissue

tag: tissue

value: colorectal tissue

tag: infection status

value: SIV negative


title: SM3_SIVnegative_ColorectalTissue


title: SM2_SIVnegative_ColorectalTissue


title: 80L(B)

tag: egfr status

value: WNH

value: UNK

value: ACI, BAC

value: MD

value: AWBF

value: Not available

value: (L) Upper Lobe

tag: pm

tag: grpstage

value: Bone-rib

value: D

tag: deathdte

tag: status

value: DOD

tag: last f/u

tag: intstat


title: 81L(A)

value: Mutant

tag: age

tag: race

tag: Sex

value: F

tag: smoking

value: Never

tag: who histologic subtype

value: BAC, ACI

tag: who grade

value: WD

tag: mskcc histology

value: BWFI

value: A


title: SM1_SIVnegative_ColorectalTissue

value: colorectal tissue

value: SIV negative


title: 71L(B)

value: WNH

value: Former

value: ACI, BAC

tag: pack yrs

tag: time quit (@ initial consult)

tag: tumorsite

value: LtLungTumor

tag: pt

tag: pn

value: Brain


title: 68L(B)

tag: egfr status

value: M

value: MD

value: AWBF

value: LungTumor

tag: pm

tag: grpstage

value: Lung-RLL

value: NED


title: 73L(A)

value: Mutant

value: BNH

value: F

value: ACI

value: ACA

tag: ct

value: TX

value: Left Suprahilar region

tag: status

tag: last f/u


title: 77L(B)

value: Wild-type

tag: age

tag: race

value: WNH

value: Former

value: LungTumor,LtUpper

value: A

tag: deathdte

value: DOC


title: 71L(A)

tag: Sex

tag: smoking

tag: who histologic subtype

value: ACI, BAC

value: MD

value: AWBF

value: LtLungTumor

value: Brain

value: D

value: DOD

tag: intstat


title: 70L(B)

value: F

value: Current

value: SOL

tag: who grade

value: PD

tag: mskcc histology

tag: pack yrs

tag: time quit (@ initial consult)

tag: other

value: Quit by OR

value: NED


title: 73L(B)

tag: egfr status

value: Mutant

value: BNH

value: Former

value: ACI

value: ACA

tag: tumorsite

value: TX

tag: pt

tag: pn

tag: pm

value: Left Suprahilar region


title: 70L(A)

value: Wild-type

tag: age

value: WNH

value: LtLungTumor

tag: grpstage

value: A

tag: status

tag: last f/u


title: 80L(A)

tag: race

tag: Sex

value: F

tag: smoking

value: UNK

value: ACI, BAC

value: MD

value: AWBF

value: Not available

value: (L) Upper Lobe

value: Bone-rib

value: D

tag: deathdte

value: DOD


title: 77L(A)

value: Former

tag: who histologic subtype

value: ACI

tag: who grade

tag: mskcc histology

value: ACA

value: LungTumor,LtUpper

value: DOC


title: RM7_Week12postSIV_ColorectalTissue

organism: Macaca mulatta

source_name: SIV infected Rhesus macaque Colorectal tissue

tag: tissue

value: colorectal tissue

tag: infection status

value: Week12 post SIV infected


title: RM5_Week12postSIV_ColorectalTissue


title: 68L(A)

tag: egfr status

value: Mutant

value: WNH

value: M

tag: pack yrs

tag: time quit (@ initial consult)

tag: tumorsite

value: LungTumor

value: Lung-RLL

value: A

value: NED

tag: intstat


title: RM6_Week12postSIV_ColorectalTissue


title: 67L(A)

value: Wild-type

tag: age

value: F

value: SOL

value: PD

value: RtLungTumor

tag: pt

tag: pn

tag: pm

tag: grpstage

value: Peripancreatic


title: 67L(B)

tag: race

tag: Sex

tag: smoking

value: Former

value: ACA

value: D

tag: status

value: DOD

tag: last f/u


title: RM8_Week12postSIV_ColorectalTissue

tag: tissue

value: colorectal tissue

value: Week12 post SIV infected


title: RM4_SIVnegative_ColorectalTissue

source_name: SIV negative Rhesus macaque Colorectal tissue

tag: infection status

value: SIV negative


title: AP59_rep_3

city: Yongin

first: Jin

middle: Seo

last: Jeong

state: Gyeonggido

address: San 38-2 Namdong, Cheoin-gu

country: South Korea

institute: Myongji University

description:
AP59_3
This sample is total RNAs of AP59 plant Leaf

hyb_protocol: Hybridization was performed by NimbleGen Systems Inc., Madison, WI, USA following their standard operating protocol. See www.nimblegen.com.

scan_protocol: Scanning was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.

data_processing: The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249), quantile normalization (Bolstad et al. Bioinformatics 19(2):185), and background correction as implemented in the NimbleScan software package, version 2.4.27 (Roche NimbleGen, Inc.).

organism: Oryza sativa

source_name: AP59 plant_Leaf

label_protocol: Labeling was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.

growth_protocol: Transgenic and non-transgenic (NT) rice (Oryza sativa cv Nakdong) seeds were germinated in half-strength MS solid medium in a growth chamber in the dark at 28C for 4 d, transplanted into soil and then grown in a greenhouse (16-h-light/8-h-dark cycles) at 28-30C for two weeks.

extract_protocol: Total RNA was extracted using the RNeasy Mini kit (Qiagen Inc., Valencia, CA, USA) and the RNAprotect reagent (Qiagen) and DNA was removed by on-column DNase digestion with the RNase-Free DNase set (Qiagen).

tag: cultivar

value: Nakdong

tag: genotype/variation

value: OsCc1:AP59 Transgenic

tag: tissue source

value: 14d-old seedlings

tag: phenotype

value: normal

tag: accession


title: 57L(B)

tag: egfr status

value: Wild-type

tag: age

value: WNH

tag: who histologic subtype

tag: who grade

tag: mskcc histology

tag: pack yrs

value: UNK

tag: time quit (@ initial consult)

tag: other

value: UNK if quit by OR, Pipe

tag: tumorsite

value: LungTumor

value: A

value: NED

tag: intstat


title: RM2_SIVnegative_ColorectalTissue

tag: tissue


title: 65L(B)

value: Mutant

tag: race

tag: Sex

value: F

tag: smoking

value: Never

value: BAC, ACI

value: WD

value: BWFI

value: 2nd hand smoke exposure

value: RtLungTumor

tag: pt

tag: pn

tag: pm

tag: grpstage

tag: status

tag: last f/u


title: RM3_SIVnegative_ColorectalTissue

value: colorectal tissue

tag: infection status

value: SIV negative


title: 57L(A)

tag: egfr status

value: Wild-type

tag: age

value: Former

tag: who histologic subtype

value: SOL

tag: who grade

value: PD

tag: mskcc histology

value: ACA


title: 56L(B)

value: WNH

value: ACI

value: MD

tag: pack yrs

tag: time quit (@ initial consult)

tag: tumorsite

value: LtLungTumor

value: ® Posterior chest wall

value: A

value: DOD

tag: intstat


title: 54L(A)

tag: race

tag: Sex

value: M

tag: smoking

value: Never

value: BAC,ACI

value: WD

value: BWFI

value: NED


title: AP59_rep_2

description:
AP59_2
This sample is total RNAs of AP59 plant Leaf

tag: cultivar

value: Nakdong

tag: genotype/variation

value: OsCc1:AP59 Transgenic

tag: tissue source

value: 14d-old seedlings

tag: phenotype

value: normal

tag: accession


title: 52L(A)

tag: egfr status

value: Wild-type

value: WNH

value: F

value: Former

value: ACA

value: RtLungTumor

tag: pt

tag: pn

tag: pm

tag: grpstage

tag: status

tag: last f/u


title: 56L(A)

value: Mutant

tag: age

tag: who histologic subtype

value: ACI

tag: who grade

value: MD

tag: mskcc histology

tag: pack yrs

tag: time quit (@ initial consult)

tag: tumorsite

value: LtLungTumor

value: ® Posterior chest wall

value: A

value: DOD


title: AP59_rep_1

description:
AP59_1
This sample is total RNAs of AP59 plant Leaf

tag: cultivar

value: Nakdong

tag: genotype/variation

tag: tissue source


title: RM1_SIVnegative_ColorectalTissue

tag: tissue

value: colorectal tissue

tag: infection status

value: SIV negative


title: DB94

extract_protocol: Single isolates of tumor samples were homogenized in the presence of Trizol reagent and total cellular RNA was purified according to manufacturer’s procedures. RNA samples were further purified using RNeasy spin columns

tag: egfr status

value: Wild-Type

tag: gender

value: Female

tag: Sex


title: 52L(B)

value: Wild-type

tag: race

value: WNH

tag: smoking

tag: pt

tag: pn

tag: pm

tag: grpstage

tag: status

value: NED

tag: intstat


title: 48L(B)

tag: age

value: F

value: Never

tag: who histologic subtype

value: BAC, ACI

tag: who grade

value: WD

tag: mskcc histology

value: BWFI

tag: pack yrs

tag: tumorsite

value: LtLungTumo

tag: last f/u


title: 54L(B)

tag: egfr status

value: M

value: BAC,ACI

value: RtLungTumor


title: AP37_rep_2

description:
AP37_2
This sample is total RNAs of AP37 plant Leaf

source_name: AP37 plant_Leaf

tag: cultivar

value: Nakdong

tag: genotype/variation

value: OsCc1:AP37 Transgenic

tag: tissue source

value: 14d-old seedlings

tag: phenotype

value: normal

tag: accession


title: DB82

value: Mutant

tag: gender

value: Female

tag: race

value: Not Reported

tag: adjuvant chemo

value: Yes

tag: adjuvant rx

tag: vital status

value: Dead

tag: first progression or relapse

tag: months to first progression

tag: months to last clinical assessment

tag: months to last contact or death

tag: smoking history

value: Never smoked

tag: surgical margins

value: ALL MARGINS PATHOLOGICALLY NEGATIVE

tag: pathologic n stage

value: N0, ACCORDING TO AJCC CRITERIA

tag: pathologic t stage

value: T1, ACCORDING TO AJCC CRITERIA

tag: laboratory batch

tag: histologic grade

value: Moderate Differentiation


title: AP37_rep_3

description:
AP37_3
This sample is total RNAs of AP37 plant Leaf

tag: cultivar

tag: genotype/variation

tag: tissue source

tag: phenotype


title: NT_rep2

description:
NT_2
This sample is total RNAs of Nontransgenic plant Leaf

source_name: Nontransgenic plant (NT)_Leaf

value: Nontransgenic


title: DB84

tag: egfr status

tag: gender

tag: race

value: White

tag: adjuvant chemo

value: No

value: Alive

value: Smoked in the past


title: 48L(A)

tag: age

value: WNH

tag: Sex

value: F

tag: smoking

value: Never

tag: who histologic subtype

value: BAC, ACI

tag: who grade

value: WD

tag: mskcc histology

value: BWFI

tag: pack yrs

tag: tumorsite

value: LtLungTumo

tag: pt

tag: pn

tag: pm

tag: grpstage

value: A

tag: status

value: NED

tag: last f/u

tag: intstat


title: AP37_rep_1

description:
AP37_1
This sample is total RNAs of AP37 plant Leaf

tag: cultivar

value: Nakdong

tag: genotype/variation

value: OsCc1:AP37 Transgenic

tag: tissue source

value: 14d-old seedlings

tag: phenotype

value: normal

tag: accession


title: 41L(B)

tag: egfr status

value: Mutant

tag: age

tag: race

tag: Sex

tag: smoking

value: Former

tag: who histologic subtype

tag: time quit (@ initial consult)

value: UNK

value: RtLungTumor


title: NT_rep3

description:
NT_3
This sample is total RNAs of Nontransgenic plant Leaf

value: Nontransgenic


title: DB80

tag: gender

value: Female

value: Not Reported

tag: adjuvant chemo

value: Yes

tag: adjuvant rx

tag: vital status

value: Alive

tag: first progression or relapse

value: No

tag: months to last clinical assessment

tag: months to last contact or death

tag: smoking history

value: Never smoked

tag: surgical margins

value: ALL MARGINS PATHOLOGICALLY NEGATIVE

tag: pathologic n stage

value: N1, ACCORDING TO AJCC CRITERIA

tag: pathologic t stage

value: T2, ACCORDING TO AJCC CRITERIA

tag: laboratory batch

tag: histologic grade

value: Moderate Differentiation


title: 40L(B)

tag: egfr status

tag: age

tag: race

value: WNH

tag: Sex

value: M

value: Never

value: BAC,ACI

tag: who grade

value: MD

tag: mskcc histology

value: BWFI

tag: pack yrs

tag: other

value: Cigar

tag: tumorsite

tag: pt

tag: pn

tag: pm

tag: grpstage

value: Pleura

value: D

tag: deathdte

tag: status

value: DOD

tag: last f/u

tag: intstat


title: 44L(B)

tag: egfr status

value: Mutant

value: F

tag: smoking

tag: who histologic subtype

value: LungTumor,LtUpper

value: A

value: NED


title: 44L(A)

tag: age

tag: race

tag: Sex


title: 40L(A)

tag: who grade

tag: mskcc histology

tag: pack yrs

value: RtLungTumor


title: 41L(A)

value: Former

value: BAC, ACI

value: WD

tag: time quit (@ initial consult)

value: UNK

tag: tumorsite

tag: pt


title: 33L(B)

value: Wild-type

value: WNH

value: M

value: ACI

value: ACA

tag: other

value: Asbestos exposure

value: LtLungTumor

tag: pn

tag: pm

tag: grpstage

value: Mediastinum


title: DB68

value: Wild-Type

tag: gender

value: Male

value: White

tag: adjuvant chemo

value: No

tag: adjuvant rx

tag: vital status

value: Alive

tag: first progression or relapse

tag: months to last clinical assessment

tag: months to last contact or death

tag: smoking history

value: Smoked in the past

tag: surgical margins

value: ALL MARGINS PATHOLOGICALLY NEGATIVE

tag: pathologic n stage

value: N0, ACCORDING TO AJCC CRITERIA

tag: pathologic t stage

value: T2, ACCORDING TO AJCC CRITERIA

tag: laboratory batch

tag: histologic grade

value: Moderate Differentiation


title: DB56

tag: egfr status

value: Female

tag: race

value: T1, ACCORDING TO AJCC CRITERIA

value: WELL DIFFERENTIATED


title: 33L(A)

value: Wild-type

tag: age

value: WNH

tag: Sex

value: M

tag: smoking

value: Former

tag: who histologic subtype

value: ACI

tag: who grade

value: MD

tag: mskcc histology

value: ACA

tag: pack yrs

tag: time quit (@ initial consult)

tag: other

tag: tumorsite

tag: pt

tag: pn

tag: pm

value: D

tag: deathdte

tag: status

value: DOD

tag: last f/u

tag: intstat


title: NT_rep1

description:
NT_1
This sample is total RNAs of Nontransgenic plant Leaf

tag: cultivar

value: Nakdong

tag: genotype/variation

value: Nontransgenic

tag: tissue source

value: 14d-old seedlings

tag: phenotype

value: normal


title: 32L(B)

tag: egfr status

tag: age

tag: race

tag: Sex

value: F

tag: smoking

tag: who histologic subtype

tag: who grade

value: PD

value: LtLungTumor

tag: grpstage

value: DOC


title: DB49

value: Mutant

tag: gender

value: Male

value: Unknown

tag: adjuvant chemo

value: No

tag: adjuvant rx

tag: vital status

value: Alive

tag: first progression or relapse

value: Yes

tag: months to first progression

tag: months to last clinical assessment

tag: months to last contact or death

tag: smoking history

value: Smoked in the past

tag: surgical margins

value: ALL MARGINS PATHOLOGICALLY NEGATIVE

tag: pathologic n stage

value: N0, ACCORDING TO AJCC CRITERIA

tag: pathologic t stage

value: T2, ACCORDING TO AJCC CRITERIA

tag: laboratory batch

tag: histologic grade

value: Moderate Differentiation


title: GOS2_NAC10_Root_rep_1

description:
G_NAC10_R_1
This sample is total RNAs of GOS2:OsNAC10 plant Root

source_name: GOS2OsNAC10 plant_Root

growth_protocol: Transgenic and non-transgenic (NT) rice (Oryza sativa cv Nipponbare) seeds were germinated in half-strength MS solid medium in a growth chamber in the dark at 28C for 4 d, transplanted into soil and then grown in a greenhouse (16-h-light/8-h-dark cycles) at 28-30C for two weeks.

tag: cultivar

value: Nipponbare

tag: genotype/variation

value: GOS2:OsNAC10 transgenic

tag: tissue source

value: 14d-old seedlings

tag: tissue

value: root

tag: phenotype

tag: accession


title: DB48

tag: egfr status

tag: gender

value: Female

tag: race

value: White

tag: adjuvant chemo

tag: adjuvant rx

tag: vital status

value: T1, ACCORDING TO AJCC CRITERIA

value: WELL DIFFERENTIATED


title: GOS2_NAC10_Root_rep_2

description:
G_NAC10_R_2
This sample is total RNAs of GOS2:OsNAC10 plant Root

value: normal


title: 32L(A)

value: Wild-type

tag: age

value: WNH

tag: Sex

value: F

tag: smoking

value: Former

tag: who histologic subtype

value: ACI

tag: who grade

value: PD

tag: mskcc histology

value: ACA

tag: pack yrs

tag: time quit (@ initial consult)

tag: tumorsite

value: LtLungTumor

tag: pt

tag: pn

tag: pm

tag: grpstage

value: D

tag: deathdte

tag: status

value: DOC

tag: last f/u

tag: intstat


title: 65L(A)

tag: egfr status

value: Mutant

tag: age

tag: race

value: Never

value: BAC, ACI

value: WD

value: BWFI

tag: other

value: 2nd hand smoke exposure

value: RtLungTumor

value: A

value: NED


title: RCc3_NAC10_Root_rep_3

description:
R_NAC10_R_3
This sample is total RNAs of RCc3:OsNAC10 plant Root

source_name: RCc3OsNAC10 plant_Root

tag: cultivar

value: Nipponbare

tag: genotype/variation

value: RCc3:OsNAC10 transgenic

tag: tissue source

value: 14d-old seedlings

tag: tissue

value: root

tag: phenotype

value: normal

tag: accession


title: GOS2_NAC10_Root_rep_3

description:
G_NAC10_R_3
This sample is total RNAs of GOS2:OsNAC10 plant Root

value: GOS2:OsNAC10 transgenic


title: 27L(B)

value: WNH

tag: Sex

value: M

tag: smoking

value: Former

tag: who histologic subtype

value: BAC,ACI

tag: who grade

tag: mskcc histology

tag: pack yrs

tag: time quit (@ initial consult)

value: Cigar

tag: tumorsite

tag: pt

tag: pn

value: Pleura-Rt. Parietal

value: AWD


title: RCc3_NAC10_Root_rep_2

description:
R_NAC10_R_2
This sample is total RNAs of RCc3:OsNAC10 plant Root


title: 25L(A)

tag: egfr status

value: Wild-type

tag: age

tag: race

value: F

value: Current

value: ACI, BAC

value: MD

value: AWBF

tag: other

value: Quit by OR

tag: pm

tag: grpstage

tag: status

tag: last f/u

tag: intstat


title: 22L(B)

tag: Sex

tag: smoking

tag: who histologic subtype

value: BAC, ACI

value: BWFI

value: RtLungTumor

value: A

value: NED


title: 27L(A)

value: Mutant

value: WNH

value: M

value: Former

tag: who grade

value: WD

tag: mskcc histology

tag: pack yrs


title: 25L(B)

value: Wild-type

tag: time quit (@ initial consult)

tag: tumorsite

tag: pt


title: 15L(B)

tag: egfr status

tag: age

value: F

value: UNK

value: PAP, BAC

value: Not available

value: ® Upper Lobe

tag: pn

value: ® Pleura, ® Hemidiaphragm

value: D

tag: deathdte

value: DOD


title: 18L(A)

tag: race

value: BAC, ACI

value: MD

value: BWFI

value: RtLungTumor

tag: pm

tag: grpstage

value: Lt. Adrenal

value: AWD


title: 21L(A)

value: WNH

value: Current

value: ACI, SOL

value: MD, PD

value: ACA

tag: other

value: Quit by OR

value: LtLungTumor

value: Adrenal

tag: status

tag: last f/u

tag: intstat


title: 18L(B)

value: Wild-type

tag: Sex

value: M

tag: smoking

value: Former

tag: who histologic subtype

tag: who grade

value: A


title: 21L(B)

value: F

tag: mskcc histology

tag: pack yrs

tag: time quit (@ initial consult)

tag: tumorsite

value: D

value: DOD


title: 22L(A)

tag: egfr status

tag: age

value: BAC, ACI

value: MD

value: BWFI

value: RtLungTumor

tag: pt

tag: pn

value: NED


title: 15L(A)

value: Mutant

tag: race

value: WNH

value: UNK

value: PAP, BAC

value: AWBF

value: Not available

value: ® Upper Lobe

tag: pm

tag: grpstage

value: ® Pleura, ® Hemidiaphragm

tag: deathdte


title: DB8

value: Wild-Type

tag: gender

value: Female

value: White

tag: adjuvant chemo

value: No

tag: adjuvant rx

tag: vital status

value: Alive

tag: first progression or relapse

value: Yes

tag: months to first progression

tag: months to last clinical assessment

tag: months to last contact or death

tag: smoking history

value: Smoked in the past

tag: surgical margins

value: ALL MARGINS PATHOLOGICALLY NEGATIVE

tag: pathologic n stage

value: N0, ACCORDING TO AJCC CRITERIA

tag: pathologic t stage

value: T1, ACCORDING TO AJCC CRITERIA

tag: laboratory batch

tag: histologic grade

value: WELL DIFFERENTIATED


title: DB45

tag: egfr status

value: Mutant

tag: race


title: NT_Root_rep1_3

description:
NT_R_1
This sample is total RNAs of Nontransgenic plant Root

source_name: Nontransgenic plant (NT)_Root

tag: cultivar

value: Nipponbare

tag: genotype/variation

value: Nontransgenic

tag: tissue source

value: 14d-old seedlings

tag: tissue

value: root

tag: phenotype

value: normal


title: DB17

tag: gender

value: Asian

tag: adjuvant chemo

tag: adjuvant rx

tag: vital status

tag: first progression or relapse

value: Never smoked

value: T2, ACCORDING TO AJCC CRITERIA

value: Moderate Differentiation


title: DB7

value: Wild-Type

value: Female

value: White

value: No

value: Alive

tag: months to first progression

tag: months to last clinical assessment

tag: months to last contact or death

tag: smoking history

tag: surgical margins


title: DB10

tag: egfr status

value: Yes

value: Smoked in the past

value: ALL MARGINS PATHOLOGICALLY NEGATIVE

tag: pathologic n stage

value: N0, ACCORDING TO AJCC CRITERIA

tag: pathologic t stage

value: T1, ACCORDING TO AJCC CRITERIA

tag: laboratory batch

tag: histologic grade


title: DB22

value: Mutant

tag: race

value: Dead


title: 8L(B)

value: Wild-type

tag: age

value: WNH

tag: Sex

value: F

tag: smoking

value: Former

tag: who histologic subtype

value: BAC, ACI

tag: who grade

value: WD

tag: mskcc histology

value: BWFI

tag: pack yrs

tag: time quit (@ initial consult)

tag: tumorsite

value: RtLungTumor

tag: pt

tag: pn

tag: pm

tag: grpstage

value: A

tag: status

value: NED

tag: last f/u

tag: intstat


title: NT_Root_rep3_3

description:
NT_R_3
This sample is total RNAs of Nontransgenic plant Root

tag: cultivar

value: Nipponbare

tag: genotype/variation

value: Nontransgenic

tag: tissue source

value: 14d-old seedlings

tag: tissue

value: root

tag: phenotype

value: normal


title: RCc3_NAC10_Root_rep_1

description:
R_NAC10_R_1
This sample is total RNAs of RCc3:OsNAC10 plant Root

value: RCc3:OsNAC10 transgenic

tag: accession


title: 8L(A)

tag: egfr status

tag: age

tag: race

tag: Sex

tag: smoking

tag: who histologic subtype

tag: who grade

tag: mskcc histology


title: DB5

value: Wild-Type

tag: gender

value: Female

value: Unknown

tag: adjuvant chemo

value: No

tag: adjuvant rx

tag: vital status

value: Alive

tag: first progression or relapse

tag: months to last clinical assessment

tag: months to last contact or death

tag: smoking history

value: Never smoked

tag: surgical margins

value: ALL MARGINS PATHOLOGICALLY NEGATIVE

tag: pathologic n stage

value: N0, ACCORDING TO AJCC CRITERIA

tag: pathologic t stage

value: T1, ACCORDING TO AJCC CRITERIA

tag: laboratory batch

tag: histologic grade

value: WELL DIFFERENTIATED


title: GOS2_NAC10_Leaf_rep_2

description:
G_NAC10_L_2
This sample is total RNAs of GOS2:OsNAC10 plant Leaf

source_name: GOS2OsNAC10 plant_Leaf

tag: cultivar

tag: genotype/variation

value: GOS2:OsNAC10 transgenic

tag: tissue source

tag: tissue

value: leaf

tag: phenotype

tag: accession


title: NT_Root_rep2_3

description:
NT_R_2
This sample is total RNAs of Nontransgenic plant Root

value: Nipponbare

value: Nontransgenic


title: GOS2_NAC10_Leaf_rep_3

description:
G_NAC10_L_3
This sample is total RNAs of GOS2:OsNAC10 plant Leaf

value: 14d-old seedlings


title: GOS2_NAC10_Leaf_rep_1

description:
G_NAC10_L_1
This sample is total RNAs of GOS2:OsNAC10 plant Leaf

value: normal


title: 3L(A)

tag: egfr status

value: Wild-type

tag: age

tag: race

value: WNH

tag: Sex

value: F

tag: smoking

value: Former

tag: who histologic subtype

value: BAC (M, NM)

tag: who grade

value: WD

tag: mskcc histology

value: PBAC

tag: pack yrs

tag: time quit (@ initial consult)

tag: tumorsite

value: LtLungTumor

tag: pt

tag: pn

tag: pm

tag: grpstage

value: A

tag: status

value: NED

tag: last f/u

tag: intstat


title: RCc3_NAC10_Leaf_rep_3

description:
R_NAC10_L_3
This sample is total RNAs of RCc3:OsNAC10 plant Leaf

source_name: RCc3OsNAC10 plant_Leaf

tag: cultivar

tag: genotype/variation

value: RCc3:OsNAC10 transgenic

tag: tissue source

tag: tissue

tag: phenotype

tag: accession


title: MDA-MB-231 transfected with Eralpha+FOXA1+GATA3, vehicle treatment, day10, rep2

status: Public on Sep 05 2011

city: Singapore

first: Guoliang

last: Li

address: 60 Biopolis Street, #02-01, Genome

department: Computational and Systems Biology

country: Singapore

institute: Genome Institute of Singapore

description: replicate 2

hyb_protocol: Standard Illumina hybridization protocol

scan_protocol: Standard Illumina scanning protocol

data_processing: The expression intensities after E2 treatment were normalized with the expression intensites before E2 treatment at the same probes  from the same replicate. The log ratios of normalized expression intensities were averaged from different repicates. The avareged log ratio of the normalized expression intensities were averages from the multiple probes to generate the final expression level for the same gene. [Average log ratio data of the expression intensities from the same gene before and after E2 treatment is provided as a Series supplementary file]

label_protocol: Biotinylated cRNA were prepared and labeled using the TargetAmpTM Nano-gTM Biotin-aRNA Labeling Kit (Epicentre) before proceeding to Illumina microarray experiment.

extract_protocol: The transfected MDA-MB-231 cells were grown in phenol-red free RPMI with 5% CDFBS before subjecting to 10nM E2 or vehicle treatment. Total RNA was harvested at day 2 and 10 using Trizol reagent (Invitrogen) followed by clean-up and DNase I treatment with QIAGEN RNeasy mini kit in accordance with the prescribed protocol provided with the kit. Quality control was performed with Agilent Bioanalyser.

tag: cell line

tag: cell type

value: breast cancer cells

tag: age


title: MDA-MB-231 transfected with Eralpha+FOXA1+GATA3, E2 treatment,       day10, rep3

description: replicate 3


title: MDA-MB-231 transfected with Eralpha+FOXA1+GATA3, E2 treatment,       day10, rep1

description: replicate 1


title: MDA-MB-231 transfected with ERalpha, vehicle treatment, day10, rep2

description: replicate 2


title: DB3

tag: egfr status

value: Wild-Type

tag: gender

value: Female

tag: race

value: White

tag: adjuvant chemo

value: No

tag: adjuvant rx

tag: vital status

value: Alive

tag: first progression or relapse

tag: months to last clinical assessment

tag: months to last contact or death

tag: smoking history

value: Smoked in the past

tag: surgical margins

value: ALL MARGINS PATHOLOGICALLY NEGATIVE

tag: pathologic n stage

value: N0, ACCORDING TO AJCC CRITERIA

tag: pathologic t stage

value: T1, ACCORDING TO AJCC CRITERIA

tag: laboratory batch

tag: histologic grade

value: WELL DIFFERENTIATED


title: MDA-MB-231 transfected with ERalpha, E2 treatment,       day10, rep3

description: replicate 3

tag: cell line

tag: cell type


title: MDA-MB-231 transfected with ERalpha, E2 treatment,       day10, rep2

description: replicate 2

tag: age


title: MDA-MB-231 transfected with Eralpha+FOXA1+GATA3, vehicle treatment, day10, rep3

description: replicate 3


title: MDA-MB-231 transfected with ERalpha, E2 treatment,       day10, rep1

description: replicate 1


title: MDA-MB-231 transfected with ERalpha, vehicle treatment, day10, rep1

description: replicate 1


title: MDA-MB-231 transfected with ERalpha, vehicle treatment, day10, rep3

description: replicate 3


title: MDA-MB-231 transfected with Eralpha+FOXA1+GATA3, E2 treatment,       day10, rep2

description: replicate 2


title: MDA-MB-231 transfected with vector control, vehicle treatment, day10, rep3

description: replicate 3


title: 3L(B)

tag: egfr status

value: Wild-type

value: WNH

tag: Sex

value: F

tag: smoking

value: Former

tag: who histologic subtype

value: BAC (M, NM)

tag: who grade

value: WD

tag: mskcc histology

tag: pack yrs

tag: time quit (@ initial consult)

tag: tumorsite

tag: pt

tag: pn

tag: pm

tag: grpstage

tag: status

tag: last f/u

tag: intstat


title: MDA-MB-231 transfected with Eralpha+FOXA1+GATA3, vehicle treatment, day10, rep1

description: replicate 1

tag: cell line

tag: cell type

value: breast cancer cells

tag: age


title: MDA-MB-231 transfected with vector control, E2 treatment,       day10, rep3

description: replicate 3


title: RCc3_NAC10_Leaf_rep_1

description:
R_NAC10_L_1
This sample is total RNAs of RCc3:OsNAC10 plant Leaf

tag: cultivar

value: Nipponbare

tag: genotype/variation

value: RCc3:OsNAC10 transgenic

tag: tissue source

value: 14d-old seedlings

tag: tissue

value: leaf

tag: phenotype

value: normal

tag: accession


title: RCc3_NAC10_Leaf_rep_2

description:
R_NAC10_L_2
This sample is total RNAs of RCc3:OsNAC10 plant Leaf


title: NT_Leaf_rep3

description:
NT_L_3
This sample is total RNAs of Nontransgenic plant Leaf

value: Nontransgenic


title: MDA-MB-231 transfected with vector control, vehicle treatment, day10, rep2

description: replicate 2


title: MDA-MB-231 transfected with vector control, E2 treatment,       day10, rep2

description: replicate 2


title: NT_Leaf_rep2

description:
NT_L_2
This sample is total RNAs of Nontransgenic plant Leaf


title: MDA-MB-231 transfected with vector control, vehicle treatment, day10, rep1

description: replicate 1


title: NT_Leaf_rep1

description:
NT_L_1
This sample is total RNAs of Nontransgenic plant Leaf


title: MDA-MB-231 transfected with Eralpha+FOXA1+GATA3, E2 treatment,       day2, rep3

description: replicate 3


title: MDA-MB-231 transfected with Eralpha+FOXA1+GATA3, vehicle treatment, day2, rep3

description: replicate 3


title: MDA-MB-231 transfected with ERalpha, vehicle treatment, day2, rep3

description: replicate 3


title: DB35

tag: egfr status

value: Wild-Type

tag: gender

value: Male

tag: race

value: White

tag: adjuvant chemo

value: No

tag: adjuvant rx

tag: vital status

value: Alive

tag: first progression or relapse

tag: months to last clinical assessment

tag: months to last contact or death

tag: smoking history

value: Smoked in the past

tag: surgical margins

value: ALL MARGINS PATHOLOGICALLY NEGATIVE

tag: pathologic n stage

tag: pathologic t stage

value: T2, ACCORDING TO AJCC CRITERIA

tag: laboratory batch

tag: histologic grade

value: Moderate Differentiation


title: MDA-MB-231 transfected with Eralpha+FOXA1+GATA3, vehicle treatment, day2, rep1

description: replicate 1

tag: cell line

tag: cell type

tag: age


title: MDA-MB-231 transfected with Eralpha+FOXA1+GATA3, E2 treatment,       day2, rep2

description: replicate 2


title: MDA-MB-231 transfected with vector control, E2 treatment,       day10, rep1

description: replicate 1


title: MDA-MB-231 transfected with ERalpha, E2 treatment,       day2, rep3

description: replicate 3


title: MDA-MB-231 transfected with ERalpha, E2 treatment,       day2, rep2

description: replicate 2


title: MDA-MB-231 transfected with ERalpha, vehicle treatment, day2, rep2

description: replicate 2


title: MDA-MB-231 transfected with ERalpha, vehicle treatment, day2, rep1

description: replicate 1


title: MDA-MB-231 transfected with vector control, E2 treatment,       day2, rep1

description: replicate 1


title: MDA-MB-231 transfected with vector control, vehicle treatment, day2, rep2

description: replicate 2


title: MDA-MB-231 transfected with vector control, vehicle treatment, day2, rep3

description: replicate 3


title: MDA-MB-231 transfected with vector control, E2 treatment,       day2, rep2

description: replicate 2


title: MDA-MB-231 transfected with vector control, vehicle treatment, day2, rep1

description: replicate 1


title: MDA-MB-231 transfected with vector control, E2 treatment,       day2, rep3

description: replicate 3


title: MDA-MB-231 transfected with ERalpha, E2 treatment,       day2, rep1

description: replicate 1


title: copd sample 453

city: Homburg

first: Andreas

last: Keller

address: Building 60

country: Germany

institute: Saarland University

description: copd

hyb_protocol: according to manufacturers instruction (febit biomed)

scan_protocol: Wizard software on standard Microsoft Windows Workstation PC

data_processing: summarizing of technical replica by median and quantile normalization.

source_name: RNA from blood

label_protocol: MPEA, microfluidic primer extension assay Biotin labeling

extract_protocol: Blood of patients and volunteers without known disease was extracted in PAXgene Blood RNA tubes (BD, Franklin Lakes, New Jersey USA). For each blood donor, 5 ml of peripheral blood were obtained. The content of blood sampling tubes of each patient and healthy donor was centrifuged at 5000 g for 10 min at room temperature. The supernatant was discarded while the pellet was resuspended in 10 ml RNase free water by vortex. The suspension is again centrifuged at 5000 g for 10 min at RT. Subsequently, the total RNA including the miRNA was isolated using the miRNeasy kit (Qiagen GmbH, Hilden). Therefore the pellet was resuspended in 700 μl QIAzol lysis reagent and incubated for 5 min at RT. Then, 140 μl chloroform were added, vortexed for 15 sec, and incubated for 2-3 min at RT. This was followed by a centrifugation at 14000 rpm and 4°C for 15 min. The upper, watery phase was removed and 1,5 times of its volume added in 100% ethanol (ca. 900 μl). Each 700 μl of this mixture were placed on a column and centrifuged at 13000 rpm at RT for 15 sec. After the mixture had completely passed the column, 700 μl of Buffer RWT were added to each column, and again centrifuged at 13000 rpm at RT for 15 sec. Following this, 500 μl Buffer RPL were added to the column and centrifuged at 13000 rpm at RT for 15 sec. After this, another 500 μl Buffer RPL were added to the column and centrifuged at 13000 rpm at RT for 2 min. The column was then centrifuged at 13000 rpm and RT for 1 min to dry it. The following was the elution step with 40 μl RNase free water, centrifuging at 13000 rpm at RT for 1 min. The eluted RNA was stored at -70°C.

treatment_protocol: stored at -20 degree

tag: disease state

value: copd

tag: tissue

value: blood


title: copd sample 454

description: copd


title: pancreatic cancer ductal sample 450

description: pancreatic cancer ductal

value: pancreatic cancer ductal


title: copd sample 451

description: copd


title: pancreatitis sample 449

description: pankreatitis

value: pankreatitis


title: other pancreatic tumors and diseases sample 448

description: other pancreatic tumors and diseases

value: other pancreatic tumors and diseases


title: pancreatitis sample 446

description: pankreatitis


title: pancreatic cancer ductal sample 447

description: pancreatic cancer ductal


title: control sample 444

description: control

value: control


title: copd sample 452

description: copd


title: control sample 438

description: control


title: control sample 441

description: control


title: control sample 440

description: control


title: pancreatic cancer ductal sample 436

description: pancreatic cancer ductal


title: control sample 443

description: control


title: pancreatitis sample 437

description: pankreatitis


title: control sample 442

description: control


title: MDA-MB-231 transfected with Eralpha+FOXA1+GATA3, E2 treatment,       day2, rep1

description: replicate 1

value: breast cancer cells


title: other pancreatic tumors and diseases sample 435

description: other pancreatic tumors and diseases


title: other pancreatic tumors and diseases sample 434

description: other pancreatic tumors and diseases


title: pancreatitis sample 430

description: pankreatitis


title: pancreatic cancer ductal sample 432

description: pancreatic cancer ductal


title: pancreatitis sample 429

description: pankreatitis


title: pancreatitis sample 445

description: pankreatitis


title: lung cancer sample 428

description: lung cancer

value: lung cancer


title: other pancreatic tumors and diseases sample 424

description: other pancreatic tumors and diseases


title: copd sample 427

description: copd


title: pancreatic cancer ductal sample 425

description: pancreatic cancer ductal


title: copd sample 419

description: copd


title: pancreatic cancer ductal sample 422

description: pancreatic cancer ductal


title: other pancreatic tumors and diseases sample 423

description: other pancreatic tumors and diseases


title: control sample 439

description: control


title: copd sample 420

description: copd


title: pancreatitis sample 431

description: pankreatitis


title: copd sample 417

description: copd


title: MDA-MB-231 transfected with Eralpha+FOXA1+GATA3, vehicle treatment, day2, rep2

description: replicate 2


title: copd sample 426

description: copd


title: other pancreatic tumors and diseases sample 433

description: other pancreatic tumors and diseases


title: pancreatitis sample 421

description: pankreatitis


title: prostate cancer sample 411

description: prostate cancer

value: prostate cancer


title: copd sample 415

description: copd


title: copd sample 416

description: copd


title: prostate cancer sample 408

description: prostate cancer


title: copd sample 414

description: copd


title: prostate cancer sample 412

description: prostate cancer


title: prostate cancer sample 413

description: prostate cancer


title: prostate cancer sample 409

description: prostate cancer


title: lung cancer sample 407

description: lung cancer


title: copd sample 418

description: copd


title: copd sample 406

description: copd


title: copd sample 404

description: copd


title: copd sample 405

description: copd


title: prostate cancer sample 410

description: prostate cancer


title: prostate cancer sample 402

description: prostate cancer


title: copd sample 403

description: copd


title: prostate cancer sample 401

description: prostate cancer


title: ovarian cancer sample 396

description: ovarian cancer

value: ovarian cancer


title: wilms tumor sample 399

description: wilms tumor

value: wilms tumor


title: wilms tumor sample 398

description: wilms tumor


title: wilms tumor sample 400

description: wilms tumor


title: control sample 397

description: control


title: control sample 395

description: control


title: ovarian cancer sample 394

description: ovarian cancer


title: control sample 393

description: control


title: control sample 392

description: control


title: copd sample 389

description: copd


title: ovarian cancer sample 391

description: ovarian cancer


title: ovarian cancer sample 390

description: ovarian cancer


title: control sample 385

description: control


title: control sample 383

description: control


title: prostate cancer sample 388

description: prostate cancer


title: ovarian cancer sample 381

description: ovarian cancer


title: ovarian cancer sample 382

description: ovarian cancer


title: acure myocard infarction sample 387

description: acure myocard infarction

value: acure myocard infarction


title: ovarian cancer sample 380

description: ovarian cancer


title: acure myocard infarction sample 386

description: acure myocard infarction


title: acure myocard infarction sample 378

description: acure myocard infarction


title: acure myocard infarction sample 379

description: acure myocard infarction


title: acure myocard infarction sample 374

description: acure myocard infarction


title: acure myocard infarction sample 377

description: acure myocard infarction


title: acure myocard infarction sample 375

description: acure myocard infarction


title: copd sample 368

description: copd


title: copd sample 372

description: copd


title: copd sample 371

description: copd


title: copd sample 367

description: copd


title: copd sample 369

description: copd


title: control sample 365

description: control


title: control sample 366

description: control


title: other pancreatic tumors and diseases sample 364

description: other pancreatic tumors and diseases


title: pancreatic cancer ductal sample 363

description: pancreatic cancer ductal


title: control sample 384

description: control


title: other pancreatic tumors and diseases sample 362

description: other pancreatic tumors and diseases


title: pancreatitis sample 361

description: pankreatitis


title: acure myocard infarction sample 376

description: acure myocard infarction


title: pancreatitis sample 360

description: pankreatitis


title: other pancreatic tumors and diseases sample 359

description: other pancreatic tumors and diseases


title: acure myocard infarction sample 373

description: acure myocard infarction


title: copd sample 370

description: copd


title: sarcoidosis sample 349

description: sarcoidosis

value: sarcoidosis


title: control sample 352

description: control


title: sarcoidosis sample 350

description: sarcoidosis


title: control sample 351

description: control


title: control sample 356

description: control


title: ovarian cancer sample 354

description: ovarian cancer


title: control sample 353

description: control


title: ovarian cancer sample 355

description: ovarian cancer


title: pancreatic cancer ductal sample 358

description: pancreatic cancer ductal


title: sarcoidosis sample 347

description: sarcoidosis


title: sarcoidosis sample 348

description: sarcoidosis


title: ovarian cancer sample 357

description: ovarian cancer


title: sarcoidosis sample 346

description: sarcoidosis


title: ovarian cancer sample 342

description: ovarian cancer


title: control sample 341

description: control


title: control sample 344

description: control


title: control sample 343

description: control


title: ovarian cancer sample 340

description: ovarian cancer


title: ovarian cancer sample 339

description: ovarian cancer


title: ovarian cancer sample 338

description: ovarian cancer


title: sarcoidosis sample 336

description: sarcoidosis


title: sarcoidosis sample 337

description: sarcoidosis


title: sarcoidosis sample 335

description: sarcoidosis


title: sarcoidosis sample 330

description: sarcoidosis


title: sarcoidosis sample 334

description: sarcoidosis


title: ovarian cancer sample 345

description: ovarian cancer


title: sarcoidosis sample 333

description: sarcoidosis


title: sarcoidosis sample 331

description: sarcoidosis


title: control sample 329

description: control


title: control sample 328

description: control


title: periodontitis sample 321

description: periodontitis

value: periodontitis


title: sarcoidosis sample 332

description: sarcoidosis


title: periodontitis sample 320

description: periodontitis


title: periodontitis sample 324

description: periodontitis


title: control sample 326

description: control


title: control sample 327

description: control


title: periodontitis sample 325

description: periodontitis


title: periodontitis sample 312

description: periodontitis


title: periodontitis sample 316

description: periodontitis


title: periodontitis sample 317

description: periodontitis


title: periodontitis sample 322

description: periodontitis


title: periodontitis sample 318

description: periodontitis


title: periodontitis sample 323

description: periodontitis


title: periodontitis sample 313

description: periodontitis


title: periodontitis sample 311

description: periodontitis


title: periodontitis sample 309

description: periodontitis


title: control sample 307

description: control


title: periodontitis sample 315

description: periodontitis


title: periodontitis sample 319

description: periodontitis


title: control sample 305

description: control


title: control sample 306

description: control


title: control sample 304

description: control


title: periodontitis sample 314

description: periodontitis


title: tumor of stomach sample 299

description: tumor of stomach

value: tumor of stomach


title: tumor of stomach sample 301

description: tumor of stomach


title: tumor of stomach sample 303

description: tumor of stomach


title: tumor of stomach sample 297

description: tumor of stomach


title: periodontitis sample 310

description: periodontitis


title: control sample 302

description: control


title: tumor of stomach sample 300

description: tumor of stomach


title: control sample 294

description: control


title: tumor of stomach sample 295

description: tumor of stomach


title: control sample 293

description: control


title: sarcoidosis sample 286

description: sarcoidosis


title: control sample 292

description: control


title: control sample 291

description: control


title: sarcoidosis sample 287

description: sarcoidosis


title: control sample 290

description: control


title: sarcoidosis sample 284

description: sarcoidosis


title: sarcoidosis sample 288

description: sarcoidosis


title: sarcoidosis sample 283

description: sarcoidosis


title: sarcoidosis sample 285

description: sarcoidosis


title: tumor of stomach sample 298

description: tumor of stomach


title: control sample 280

description: control


title: sarcoidosis sample 282

description: sarcoidosis


title: sarcoidosis sample 281

description: sarcoidosis


title: control sample 279

description: control


title: tumor of stomach sample 296

description: tumor of stomach


title: control sample 278

description: control


title: sarcoidosis sample 274

description: sarcoidosis


title: sarcoidosis sample 277

description: sarcoidosis


title: sarcoidosis sample 276

description: sarcoidosis


title: sarcoidosis sample 275

description: sarcoidosis


title: other pancreatic tumors and diseases sample 272

description: other pancreatic tumors and diseases


title: sarcoidosis sample 273

description: sarcoidosis


title: other pancreatic tumors and diseases sample 271

description: other pancreatic tumors and diseases


title: control sample 289

description: control


title: pancreatic cancer ductal sample 270

description: pancreatic cancer ductal


title: pancreatitis sample 269

description: pankreatitis


title: other pancreatic tumors and diseases sample 267

description: other pancreatic tumors and diseases


title: pancreatic cancer ductal sample 268

description: pancreatic cancer ductal


title: pancreatic cancer ductal sample 266

description: pancreatic cancer ductal


title: melanoma sample 260

description: melanoma

value: melanoma


title: melanoma sample 264

description: melanoma


title: melanoma sample 261

description: melanoma


title: melanoma sample 262

description: melanoma


title: melanoma sample 257

description: melanoma


title: melanoma sample 258

description: melanoma


title: sarcoidosis sample 254

description: sarcoidosis


title: sarcoidosis sample 255

description: sarcoidosis


title: sarcoidosis sample 253

description: sarcoidosis


title: sarcoidosis sample 252

description: sarcoidosis


title: sarcoidosis sample 256

description: sarcoidosis


title: sarcoidosis sample 251

description: sarcoidosis


title: sarcoidosis sample 249

description: sarcoidosis


title: other pancreatic tumors and diseases sample 246

description: other pancreatic tumors and diseases


title: pancreatic cancer ductal sample 247

description: pancreatic cancer ductal


title: other pancreatic tumors and diseases sample 265

description: other pancreatic tumors and diseases


title: melanoma sample 263

description: melanoma


title: pancreatic cancer ductal sample 248

description: pancreatic cancer ductal


title: melanoma sample 259

description: melanoma


title: pancreatitis sample 245

description: pankreatitis


title: pancreatic cancer ductal sample 242

description: pancreatic cancer ductal


title: pancreatitis sample 243

description: pankreatitis


title: pancreatitis sample 241

description: pankreatitis


title: pancreatic cancer ductal sample 239

description: pancreatic cancer ductal


title: other pancreatic tumors and diseases sample 238

description: other pancreatic tumors and diseases


title: pancreatitis sample 244

description: pankreatitis


title: pancreatic cancer ductal sample 240

description: pancreatic cancer ductal


title: sarcoidosis sample 250

description: sarcoidosis


title: acure myocard infarction sample 232

description: acure myocard infarction


title: acure myocard infarction sample 236

description: acure myocard infarction


title: acure myocard infarction sample 237

description: acure myocard infarction


title: acure myocard infarction sample 233

description: acure myocard infarction


title: acure myocard infarction sample 235

description: acure myocard infarction


title: other pancreatic tumors and diseases sample 225

description: other pancreatic tumors and diseases


title: pancreatic cancer ductal sample 227

description: pancreatic cancer ductal


title: pancreatitis sample 229

description: pankreatitis


title: pancreatic cancer ductal sample 228

description: pancreatic cancer ductal


title: pancreatitis sample 226

description: pankreatitis


title: acure myocard infarction sample 230

description: acure myocard infarction


title: other pancreatic tumors and diseases sample 224

description: other pancreatic tumors and diseases


title: acure myocard infarction sample 234

description: acure myocard infarction


title: acure myocard infarction sample 231

description: acure myocard infarction


title: pancreatic cancer ductal sample 222

description: pancreatic cancer ductal


title: other pancreatic tumors and diseases sample 216

description: other pancreatic tumors and diseases


title: pancreatic cancer ductal sample 214

description: pancreatic cancer ductal


title: pancreatic cancer ductal sample 215

description: pancreatic cancer ductal


title: other pancreatic tumors and diseases sample 221

description: other pancreatic tumors and diseases


title: pancreatic cancer ductal sample 219

description: pancreatic cancer ductal


title: pancreatitis sample 211

description: pankreatitis


title: pancreatitis sample 213

description: pankreatitis


title: pancreatic cancer ductal sample 220

description: pancreatic cancer ductal


title: pancreatitis sample 218

description: pankreatitis


title: other pancreatic tumors and diseases sample 212

description: other pancreatic tumors and diseases


title: pancreatic cancer ductal sample 210

description: pancreatic cancer ductal


title: other pancreatic tumors and diseases sample 207

description: other pancreatic tumors and diseases


title: pancreatic cancer ductal sample 209

description: pancreatic cancer ductal


title: other pancreatic tumors and diseases sample 208

description: other pancreatic tumors and diseases


title: other pancreatic tumors and diseases sample 202

description: other pancreatic tumors and diseases


title: pancreatic cancer ductal sample 200

description: pancreatic cancer ductal


title: pancreatitis sample 223

description: pankreatitis


title: pancreatitis sample 204

description: pankreatitis


title: other pancreatic tumors and diseases sample 203

description: other pancreatic tumors and diseases


title: other pancreatic tumors and diseases sample 198

description: other pancreatic tumors and diseases


title: other pancreatic tumors and diseases sample 199

description: other pancreatic tumors and diseases


title: pancreatitis sample 201

description: pankreatitis


title: pancreatitis sample 217

description: pankreatitis


title: pancreatic cancer ductal sample 197

description: pancreatic cancer ductal


title: other pancreatic tumors and diseases sample 196

description: other pancreatic tumors and diseases


title: melanoma sample 195

description: melanoma


title: sarcoidosis sample 193

description: sarcoidosis


title: pancreatitis sample 206

description: pankreatitis


title: sarcoidosis sample 188

description: sarcoidosis


title: other pancreatic tumors and diseases sample 205

description: other pancreatic tumors and diseases


title: melanoma sample 194

description: melanoma


title: sarcoidosis sample 191

description: sarcoidosis


title: sarcoidosis sample 190

description: sarcoidosis


title: sarcoidosis sample 192

description: sarcoidosis


title: melanoma sample 183

description: melanoma


title: sarcoidosis sample 189

description: sarcoidosis


title: pancreatic cancer ductal sample 187

description: pancreatic cancer ductal


title: pancreatic cancer ductal sample 186

description: pancreatic cancer ductal


title: other pancreatic tumors and diseases sample 185

description: other pancreatic tumors and diseases


title: melanoma sample 180

description: melanoma


title: pancreatitis sample 184

description: pankreatitis


title: melanoma sample 181

description: melanoma


title: melanoma sample 179

description: melanoma


title: melanoma sample 182

description: melanoma


title: melanoma sample 178

description: melanoma


title: periodontitis sample 308

description: periodontitis


title: acure myocard infarction sample 176

description: acure myocard infarction


title: acure myocard infarction sample 175

description: acure myocard infarction


title: acure myocard infarction sample 177

description: acure myocard infarction


title: pancreatitis sample 174

description: pankreatitis


title: melanoma sample 170

description: melanoma


title: other pancreatic tumors and diseases sample 172

description: other pancreatic tumors and diseases


title: melanoma sample 171

description: melanoma


title: pancreatitis sample 173

description: pankreatitis


title: melanoma sample 169

description: melanoma


title: melanoma sample 168

description: melanoma


title: lung cancer sample 167

description: lung cancer


title: tumor of stomach sample 164

description: tumor of stomach


title: control sample 162

description: control


title: tumor of stomach sample 165

description: tumor of stomach


title: tumor of stomach sample 163

description: tumor of stomach


title: tumor of stomach sample 166

description: tumor of stomach


title: control sample 161

description: control


title: control sample 160

description: control


title: pancreatic cancer ductal sample 152

description: pancreatic cancer ductal


title: pancreatitis sample 153

description: pankreatitis


title: pancreatitis sample 154

description: pankreatitis


title: control sample 159

description: control


title: pancreatitis sample 158

description: pankreatitis


title: prostate cancer sample 150

description: prostate cancer


title: control sample 157

description: control


title: other pancreatic tumors and diseases sample 156

description: other pancreatic tumors and diseases


title: other pancreatic tumors and diseases sample 155

description: other pancreatic tumors and diseases


title: pancreatic cancer ductal sample 151

description: pancreatic cancer ductal


title: prostate cancer sample 146

description: prostate cancer


title: multiple sclerosis sample 142

description: multiple sclerosis

value: multiple sclerosis


title: prostate cancer sample 148

description: prostate cancer


title: prostate cancer sample 144

description: prostate cancer


title: lung cancer sample 141

description: lung cancer


title: prostate cancer sample 145

description: prostate cancer


title: prostate cancer sample 143

description: prostate cancer


title: other pancreatic tumors and diseases sample 137

description: other pancreatic tumors and diseases


title: prostate cancer sample 147

description: prostate cancer


title: other pancreatic tumors and diseases sample 139

description: other pancreatic tumors and diseases


title: other pancreatic tumors and diseases sample 140

description: other pancreatic tumors and diseases


title: prostate cancer sample 149

description: prostate cancer


title: other pancreatic tumors and diseases sample 138

description: other pancreatic tumors and diseases


title: pancreatic cancer ductal sample 136

description: pancreatic cancer ductal


title: Poly/Poly RNA, glucose starved 20', techrep2

type: other

city: Cambridge

first: Joshua

middle: A

last: Arribere

state: MA

address: 31 Ames St

department: Biology

institute: MIT

hyb_protocol: Hybridization was done with the MAUI hybridization system

scan_protocol: Scanned on GenePix 4000B Scanner software was GenePix Pro 6.1

data_processing: Spot ratios normalized, quality control filters applied, and replicate values averaged

molecule: other

organism: Saccharomyces cerevisiae Sigma1278b

label_protocol: cDNA was synthesized with oligodT and random nonamers (1:1) with inclusion of aadUTP. Cy3 or Cy5 label was introduced via the aadU nucleotide.

extract_protocol: RNA was extracted by phenol:chloroform from polysome gradients as described in the text. Further details in [Clarkson et. al. 2010]

tag: strain

tag: molecule

value: polysomal RNA


title: pancreatitis sample 134

description: pankreatitis

value: blood


title: Poly/Poly RNA, glucose starved 120', techrep2


title: Poly/Poly RNA, glucose starved 60', techrep2


title: pancreatic cancer ductal sample 135

description: pancreatic cancer ductal

value: pancreatic cancer ductal


title: Poly/Poly RNA, glucose starved 30', techrep2


title: Poly/Poly RNA, glucose starved 20', techrep1


title: lung cancer sample 132

description: lung cancer


title: Poly/Poly RNA, glucose starved 10', techrep2


title: Poly/Poly RNA, glucose starved 120', techrep1


title: prostate cancer sample 128

description: prostate cancer


title: melanoma sample 131

description: melanoma


title: Poly/Poly RNA, glucose starved 60', techrep1


title: Poly/Poly RNA, glucose starved 10', techrep1


title: melanoma sample 130

description: melanoma


title: prostate cancer sample 127

description: prostate cancer


title: prostate cancer sample 126

description: prostate cancer


title: Poly/Total RNA, glucose starved 120', biorep2, techrep2

type: mixed

value: total RNA


title: Poly/Total RNA, glucose starved 10', biorep2, techrep2


title: Poly/Total RNA, glucose starved 60', biorep2, techrep2


title: Poly/Poly RNA, mock shifted


title: prostate cancer sample 124

description: prostate cancer


title: Poly/Total RNA, glucose starved 30', biorep2, techrep2


title: Poly/Total RNA, glucose starved 120', biorep2, techrep1


title: Poly/Poly RNA, glucose starved 30', techrep1


title: pancreatic cancer ductal sample 133

description: pancreatic cancer ductal


title: melanoma sample 122

description: melanoma


title: melanoma sample 121

description: melanoma


title: prostate cancer sample 129

description: prostate cancer


title: melanoma sample 123

description: melanoma


title: Poly/Total RNA, glucose starved 60', biorep2, techrep1


title: Poly/Total RNA, glucose starved 30', biorep2, techrep1


title: Poly/Total RNA, mock shifted, biorep2, techrep2


title: melanoma sample 120

description: melanoma


title: melanoma sample 119

description: melanoma


title: melanoma sample 118

description: melanoma


title: prostate cancer sample 125

description: prostate cancer


title: melanoma sample 116

description: melanoma


title: Total RNA, glucose starved 120', biorep2, techrep2


title: Poly/Total RNA, glucose starved 20', biorep2, techrep2


title: Poly/Total RNA, mock shifted, biorep2, techrep1


title: wilms tumor sample 115

description: wilms tumor


title: Total RNA, glucose starved 120', biorep1, techrep2


title: wilms tumor sample 114

description: wilms tumor


title: Total RNA, glucose starved 60', biorep2, techrep2


title: lung cancer sample 113

description: lung cancer


title: Poly/Total RNA, glucose starved 120', biorep1, techrep2


title: lung cancer sample 112

description: lung cancer


title: Poly/Total RNA, glucose starved 20', biorep2, techrep1


title: melanoma sample 110

description: melanoma


title: lung cancer sample 111

description: lung cancer


title: melanoma sample 109

description: melanoma


title: Poly/Total RNA, glucose starved 60', biorep1, techrep2


title: Poly/Total RNA, glucose starved 20', biorep1, techrep2


title: Poly/Total RNA, glucose starved 10', biorep2, techrep1


title: melanoma sample 117

description: melanoma


title: Poly/Total RNA, glucose starved 30', biorep1, techrep2


title: melanoma sample 108

description: melanoma


title: Poly/Total RNA, glucose starved 10', biorep1, techrep2


title: Poly/Total RNA, mock shifted, biorep1, techrep2


title: melanoma sample 107

description: melanoma


title: Poly/Total RNA, glucose starved 60', biorep1, techrep1


title: Poly/Total RNA, glucose starved 120', biorep1, techrep1


title: other pancreatic tumors and diseases sample 105

description: other pancreatic tumors and diseases

value: other pancreatic tumors and diseases


title: other pancreatic tumors and diseases sample 104

description: other pancreatic tumors and diseases


title: other pancreatic tumors and diseases sample 103

description: other pancreatic tumors and diseases


title: pancreatic cancer ductal sample 100

description: pancreatic cancer ductal


title: pancreatic cancer ductal sample 99

description: pancreatic cancer ductal


title: other pancreatic tumors and diseases sample 102

description: other pancreatic tumors and diseases


title: Poly/Total RNA, glucose starved 10', biorep1, techrep1


title: Poly/Total RNA, glucose starved 20', biorep1, techrep1


title: Total RNA, glucose starved 10', biorep2, techrep2


title: Total RNA, glucose starved 30', biorep2, techrep2


title: pancreatic cancer ductal sample 97

description: pancreatic cancer ductal


title: Poly/Total RNA, mock shifted, biorep1, techrep1


title: pancreatic cancer ductal sample 96

description: pancreatic cancer ductal


title: melanoma sample 106

description: melanoma


title: Poly/Total RNA, glucose starved 30', biorep1, techrep1


title: Total RNA, glucose starved 20', biorep2, techrep2


title: other pancreatic tumors and diseases sample 95

description: other pancreatic tumors and diseases


title: Total RNA, glucose starved 120', biorep2


title: Total RNA, glucose starved 60', biorep2, techrep1


title: pancreatic cancer ductal sample 94

description: pancreatic cancer ductal


title: pancreatic cancer ductal sample 101

description: pancreatic cancer ductal


title: Total RNA, glucose starved 30', biorep2, techrep1


title: pancreatitis sample 93

description: pankreatitis

value: pankreatitis


title: Total RNA, mock shifted, biorep2


title: Total RNA, glucose starved 20', biorep2, techrep1


title: Total RNA, glucose starved 10', biorep2, techrep1


title: Total RNA, glucose starved 60', biorep1, techrep2


title: pancreatic cancer ductal sample 92

description: pancreatic cancer ductal


title: pancreatic cancer ductal sample 98

description: pancreatic cancer ductal


title: Total RNA, glucose starved 20', biorep1, techrep2


title: Total RNA, glucose starved 30', biorep1, techrep2


title: pancreatic cancer ductal sample 91

description: pancreatic cancer ductal


title: Total RNA, glucose starved 10', biorep1, techrep2


title: lung cancer sample 88

description: lung cancer


title: pancreatitis sample 90

description: pankreatitis


title: lung cancer sample 89

description: lung cancer


title: lung cancer sample 87

description: lung cancer


title: lung cancer sample 86

description: lung cancer


title: lung cancer sample 85

description: lung cancer


title: lung cancer sample 84

description: lung cancer


title: lung cancer sample 83

description: lung cancer


title: Total RNA, glucose starved 30', biorep1, techrep1


title: Total RNA, glucose starved 120', biorep1, techrep1


title: lung cancer sample 81

description: lung cancer


title: lung cancer sample 82

description: lung cancer


title: Total RNA, glucose starved 60', biorep1, techrep1


title: Total RNA, glucose starved 10', biorep1, techrep1


title: Total RNA, glucose starved 20', biorep1, techrep1


title: lung cancer sample 80

description: lung cancer


title: lung cancer sample 79

description: lung cancer


title: Transcription shutoff, glucose starved, then refed cells, non-polysomal RNA bio rep2

hyb_protocol: Performed as described previously in (Clarkson et. al. 2010; PMID 20161741)

scan_protocol: Pixel Size: 5, Scan Date and Time: 4/14/2010 10:18 AM, Scanner Name: Agilent Technologies Scanner G2505B US22502724, Scan Protocol: GE2-v4_91

data_processing: Extraction Software: Agilent Feature Extractor, Datafile type: Agilent result file, Normalization: Default settings of Agilent Feature Extractor

source_name: Sigma 1278b

label_protocol: cDNA synthesis was performed with a 1:1 mixture of oligo dT and random nonamer primers to permit detection of mRNAs with short poly(A) tails.

tag: glucose

value: depleted 10'-refed 5'

tag: rna fraction

value: non-polysomal RNA

value: replete


title: Total RNA, mock shifted, biorep1, techrep1


title: Transcription shutoff, glucose starved, then refed cells, polysomal RNA bio rep2

extract_protocol: Performed as described previously in (Clarkson et. al. 2010; PMID 20161741)


title: Transcription shutoff, glucose starved cells, polysomal RNA bio rep2

value: depleted 10'


title: sarcoidosis sample 78

description: sarcoidosis


title: Total RNA, mock shifted, biorep1, techrep2


title: sarcoidosis sample 77

description: sarcoidosis


title: sarcoidosis sample 76

description: sarcoidosis


title: Transcription shutoff, glucose starved cells, non-polysomal RNA bio rep2


title: Transcription shutoff, glucose starved, then refed cells, polysomal RNA bio rep1


title: sarcoidosis sample 74

description: sarcoidosis


title: other pancreatic tumors and diseases sample 73

description: other pancreatic tumors and diseases


title: tumor of stomach sample 72

description: tumor of stomach


title: Transcription shutoff, glucose starved, then refed cells, non-polysomal RNA bio rep1


title: lung cancer sample 71

description: lung cancer

value: lung cancer


title: Transcription shutoff, glucose starved cells, non-polysomal RNA bio rep1


title: Transcription shutoff, glucose starved cells, polysomal RNA bio rep1


title: lung cancer sample 69

description: lung cancer


title: lung cancer sample 70

description: lung cancer


title: Untreated (control for Rosuvastatin & LK935) donor 272 [Steroltalk]

city: Ljubljana

first: Peter

last: Juvan

address: Zaloska 4

department: Institute of Biochemistry

country: Slovenia

institute: Faculty of Medicine, University of Ljubljana

description:
Human liver cells, untreated, donor d272.
LK935 is a novel non-statin type cholesterol lowering agent, confidential and owned by LEK Pharmaceuticals d.d., Ljubljana, Slovenia.

hyb_protocol: Channel 1 sample was mixed with channel 2 sample hybridization buffer was added (final concentration was 3xSSC, 0.2% SDS) and samples were denatured. Using LifterSlip cover glasses (Erie Scientific Company, Portsmouth, NH, USA) samples were hybridized for 16h at 65ºC in a water bath using humidified hybridization chambers (HybChambers, GeneMachines, San Carlos, CA, USA). Prior hybridizations Steroltalk v2 slides were pre-hybridized for 1 hour at 42ºC in 5xSSC, 0.1%SDS and 1%BSA, then washed at room temperature for 5 min in 2xSSC and 0.1%SDS, 3 min in 0.2xSSC and 2 min in MilliQ water and dried by centrifugation. After hybridization slides were washed at room temperature for 5 min in 2xSSC and 0.5%SDS, 5 min in 0.5xSSC, 5 min in 0.05xSSC, and then dried using vacuum centrifuge.

scan_protocol: Arrays scanned on an Tecan LS200 scanner; images analyzed using MediaCybernetics Array-Pro Analyzer software.

data_processing:
Raw data deposited to BASE (BioArray Software Environment). Normalization is achieved through expression of selected spike-in controls using OWNormalize widget from Orange (a component based machine learning library for Python developed at Laboratory of Artificial Intelligence, Faculty of Computer and Information Science, University of Ljubljana, Slovenia).
Since Steroltalk arrays are small-scale, containing about 300 genes which were selected from specific pathways, it is expected that their median expression varies across the experimental conditions.

source_name: Untreated cells

label_protocol: To 20 μg of sample total RNA we added spike in RNA: 250 pg of Firefly Luciferase mRNA (Promega, Madison, WI, USA), and 0.5 μL of test spike mix from Lucidea Universal ScoreCard kit. We reverse-transcribed mRNA to amino-allyl cDNA using 2.5 μg of Oligo dT (Invitrogen, Carlsbad, CA, USA), 400U of SuperScriptTM III Reverse Transcriptase (Invitrogen, Carlsbad, CA, USA) and 1μL of 10mM amino-allyl dUTP (Sigma, St Louis, MI, USA) according to the manufacturer’s protocol. Reaction was stopped after 2 hours by adding 10 μL of 0.5 M EDTA and of 1M NaOH and incubation at 65ºC for 15 min. 10 μL of 1 M HCl was added and cDNA was purified using MinElute PCR Purification Kit (Qiagen GmBH, Hilden, D) according to manufacturer’s protocol with exception of using a phosphate buffer (5mM KPO4 pH 8.5 in 80% ethanol) for washing step and MilliQ water for elution. Purified amino-allyl cDNA was dried and resuspended in 4.5 μL of 0.2 M Na2CO3 (pH 9.0) and 4.5 μL of cyanin dye in DMSO (Amersham Biosciences, GE Healthcare UK limited, Little Chalfont, UK). Labeling reaction was incubated at room temperature for two hours. Next we added 35 μL of 0.1 M Na acetate (pH 5.2) and purified reaction using MinElute PCR Purification Kit (Qiagen GmBH, Hilden, D) according to manufacturer’s protocol. Labeled cDNA was eluted in water and 1 μL was used for analyses using ND-1000 spectrophotometer (Nanodrop Technologies, Wilmington, Delaware, USA).

growth_protocol: Human livers from donors 089, 114, 129, 269, 270, 271 and 272 were obtained from kidney transplant donors or  from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).

extract_protocol: Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.

treatment_protocol: After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).

value: Liver

value: hepatocyte

tag: agent

value: Untreated

tag: time

tag: donor

tag: control for

value: Rosuvastatin & LK935

source_name: Mix of untreated cells from all donors and other human liver RNA samples [reference]


title: lung cancer sample 68

description: lung cancer


title: lung cancer sample 67

description: lung cancer


title: Untreated (control for Rosuvastatin & LK935) donor 270 [Steroltalk]

description:
Human liver cells, untreated, donor d270.
LK935 is a novel non-statin type cholesterol lowering agent, confidential and owned by LEK Pharmaceuticals d.d., Ljubljana, Slovenia.


title: Untreated (control for Rosuvastatin & LK935) donor 271 [Steroltalk]

description:
Human liver cells, untreated, donor d271.
LK935 is a novel non-statin type cholesterol lowering agent, confidential and owned by LEK Pharmaceuticals d.d., Ljubljana, Slovenia.


title: lung cancer sample 66

description: lung cancer


title: control sample 64

description: control

value: control


title: sarcoidosis sample 75

description: sarcoidosis

value: sarcoidosis


title: Untreated (control for Rosuvastatin & LK935) donor 129 [Steroltalk]

description:
Human liver cells, untreated, donor d129.
LK935 is a novel non-statin type cholesterol lowering agent, confidential and owned by LEK Pharmaceuticals d.d., Ljubljana, Slovenia.


title: pancreatitis sample 63

description: pankreatitis


title: control sample 65

description: control


title: Untreated (control for Rosuvastatin & LK935) donor 089 labeling 2 [Steroltalk]

description:
Human liver cells, untreated, donor d089.
LK935 is a novel non-statin type cholesterol lowering agent, confidential and owned by LEK Pharmaceuticals d.d., Ljubljana, Slovenia.


title: Untreated (control for Rifampicin) donor 271 [Steroltalk]

description: Human liver cells, untreated, donor d271.

value: Rifampicin


title: pancreatic cancer ductal sample 58

description: pancreatic cancer ductal

value: blood


title: lung cancer sample 62

description: lung cancer


title: Untreated (control for Rosuvastatin & LK935) donor 269 [Steroltalk]

description:
Human liver cells, untreated, donor d269.
LK935 is a novel non-statin type cholesterol lowering agent, confidential and owned by LEK Pharmaceuticals d.d., Ljubljana, Slovenia.


title: Untreated (control for Rifampicin) donor 270 [Steroltalk]

description: Human liver cells, untreated, donor d270.


title: Untreated (control for Rosuvastatin & LK935) donor 114 [Steroltalk]

description:
Human liver cells, untreated, donor d114.
LK935 is a novel non-statin type cholesterol lowering agent, confidential and owned by LEK Pharmaceuticals d.d., Ljubljana, Slovenia.


title: Untreated (control for Rosuvastatin & LK935) donor 089 labeling 1 [Steroltalk]


title: Untreated (control for Rifampicin) donor 129 [Steroltalk]

description: Human liver cells, untreated, donor d129.


title: Untreated (control for Rifampicin) donor 269 [Steroltalk]

description: Human liver cells, untreated, donor d269.


title: Untreated (control for Rifampicin) donor 114 [Steroltalk]

description: Human liver cells, untreated, donor d114.


title: Untreated (control for Rifampicin) donor 272 [Steroltalk]

description: Human liver cells, untreated, donor d272.


title: pancreatitis sample 57

description: pankreatitis


title: lung cancer sample 61

description: lung cancer


title: Untreated (control for Atorvastatin & LK980) donor 272 [Steroltalk]

description:
Human liver cells, untreated, donor d272.
LK980 is a novel non-statin type cholesterol lowering agent, confidential and owned by LEK Pharmaceuticals d.d., Ljubljana, Slovenia.

value: Atorvastatin & LK980


title: Untreated (control for Atorvastatin & LK980) donor 270 [Steroltalk]

description:
Human liver cells, untreated, donor d270.
LK980 is a novel non-statin type cholesterol lowering agent, confidential and owned by LEK Pharmaceuticals d.d., Ljubljana, Slovenia.


title: pancreatitis sample 56

description: pankreatitis


title: control sample 55

description: control


title: Untreated (control for Atorvastatin & LK980) donor 129 [Steroltalk]

description:
Human liver cells, untreated, donor d129.
LK980 is a novel non-statin type cholesterol lowering agent, confidential and owned by LEK Pharmaceuticals d.d., Ljubljana, Slovenia.


title: Untreated (control for Atorvastatin & LK980) donor 114 [Steroltalk]

description:
Human liver cells, untreated, donor d114.
LK980 is a novel non-statin type cholesterol lowering agent, confidential and owned by LEK Pharmaceuticals d.d., Ljubljana, Slovenia.


title: other pancreatic tumors and diseases sample 53

description: other pancreatic tumors and diseases


title: other pancreatic tumors and diseases sample 52

description: other pancreatic tumors and diseases


title: other pancreatic tumors and diseases sample 60

description: other pancreatic tumors and diseases


title: pancreatic cancer ductal sample 51

description: pancreatic cancer ductal

value: pancreatic cancer ductal


title: other pancreatic tumors and diseases sample 59

description: other pancreatic tumors and diseases

value: other pancreatic tumors and diseases


title: Rosuvastatin 48h donor 272 [Steroltalk]

description: Human liver cells treated with rosuvastatin for 48h, donor d272.

source_name: Cells treated with rosuvastatin for 48h

value: Rosuvastatin


title: Untreated (control for Atorvastatin & LK980) donor 089 [Steroltalk]

description:
Human liver cells, untreated, donor d089.
LK980 is a novel non-statin type cholesterol lowering agent, confidential and owned by LEK Pharmaceuticals d.d., Ljubljana, Slovenia.


title: Untreated (control for Rifampicin) donor 089 [Steroltalk]

description: Human liver cells, untreated, donor d089.


title: pancreatitis sample 50

description: pankreatitis

value: pankreatitis


title: Rosuvastatin 48h donor 271 [Steroltalk]

description: Human liver cells treated with rosuvastatin for 48h, donor d271.


title: control sample 46

description: control


title: Rosuvastatin 48h donor 269 [Steroltalk]

description: Human liver cells treated with rosuvastatin for 48h, donor d269.


title: control sample 45

description: control


title: other pancreatic tumors and diseases sample 49

description: other pancreatic tumors and diseases


title: Rosuvastatin 48h donor 270 [Steroltalk]

description: Human liver cells treated with rosuvastatin for 48h, donor d270.


title: other pancreatic tumors and diseases sample 48

description: other pancreatic tumors and diseases


title: control sample 47

description: control


title: control sample 54

description: control


title: Rosuvastatin 48h donor 114 [Steroltalk]

description: Human liver cells treated with rosuvastatin for 48h, donor d114.


title: Rosuvastatin 48h donor 129 [Steroltalk]

description: Human liver cells treated with rosuvastatin for 48h, donor d129.


title: control sample 44

description: control


title: Rosuvastatin 48h donor 089 [Steroltalk]

description: Human liver cells treated with rosuvastatin for 48h, donor d089.


title: Rosuvastatin 24h donor 271 [Steroltalk]

description: Human liver cells treated with rosuvastatin for 24h, donor d271.

source_name: Cells treated with rosuvastatin for 24h


title: control sample 43

description: control


title: Rosuvastatin 24h donor 272 [Steroltalk]

description: Human liver cells treated with rosuvastatin for 24h, donor d272.


title: Rosuvastatin 24h donor 270 [Steroltalk]

description: Human liver cells treated with rosuvastatin for 24h, donor d270.


title: control sample 42

description: control