title: swc2∆

status: Public on Sep 16 2013

city: Bethesda

first: Anand

last: Ranjan

address: 37 convent st, room 6114

department: LBMB

institute: NCI

description: Swr1-TAP IP (Cy5) / Genomic DNA(Cy3)

hyb_protocol: The appropriate pairs of labeled target (reference and test samples) were mixed, dehydrated under vacuum, and dissolved in 50 ul of hybridization solution (5x SSC, 50% formamide [Sigma F-9037], 33 ug yeast tRNA [Sigma R-8508], 41 ug polyA RNA [Sigma P-9403], 0.2% SDS). The samples were subsequently co-hybridized to spotted oligonucleotide microarrays.

scan_protocol: Microarrays were scanned with the Agilent G2565CA scanner at 2-micron resolution. The feature extraction protocol ChIP_105_Jan09 was used.

data_processing: Raw data files for each of the scans have been provided. Sample names shows the WT and mutant yeast strains that were analyzed. File titles indicates the flurophore (Cy5 or Cy3) attached to IP DNA and genomic DNA. Signal from IP DNA divided by signal from genomic DNA, gives the ratio of SWR1 enrichment at each of the probes.

label_protocol: 100 ng of gel purified DNA was amplified by 15 cycles to incorporate amino-allyl dUTP (Sigma, # A-0410) using the following dNTP ratio (0.25 mM dATP, dCTP, dGTP; 0.1 mM dTTP; 0.15 mM aa-dUTP). The PCR amplified DNA was cleaned up by using Qiagen's PCR amplification kit. Fluorescent Cy3 and Cy5-NHS ester dyes (Amersham Pharmecia Biotech PA 23001, PA25001) were chemically coupled to the aa-dUTP incorporated DNA, in 0.05 M Sodium bicarbonate buffer (pH 9.0) at room temperature in the dark for 1 hr. Hydroxylamine was added to a final concentration of 1.33 M to quench the coupling reaction and incubated for  further 15 min in the dark. Each individual reaction was purified with a single column from the QIAquick PCR purification kit (Qiagen) according to the manufacturer's instructions. To minimize the co-purification of unincorporated dye, each reaction was washed four times with buffer PE and the labeled target was eluted twice sequentially with 30 ml of buffer EB.

growth_protocol: Each strain was grown in 200 ml YPD at 25˚ C to A600= 0.8

extract_protocol: Cells were harvested and lysed with glass beads. Finally chromatin was sheared by sonication and immunoprecipitated with IgG-sepharose beads. DNA was purified from immunoprecipitated chromatin and PCR amplified by LM-PCR, as described earlier (Harbison et al., 2004). Amplified LM-PCR fragments were resolved on agarose gel and fragments in the size range of 75-300 bp were gel purified.

tag: genotype

tag: sample type

value: input

value: Swr1-TAP IP


title: htz1∆

type: genomic

state: Maryland

country: USA

description: Swr1-TAP IP (Cy5) / Genomic DNA(Cy3)

molecule: genomic DNA

organism: Saccharomyces cerevisiae


title: swc2∆ dye-swap

description: Swr1-TAP IP (Cy3) / Genomic DNA(Cy5)


title: SCC_N55_expression

status: Public on Sep 17 2013

type: RNA

city: Cambridge

first: Ian

last: Roberts

address: Hills Road

department: Cancer Cell Unit

country: United Kingdom

institute: Hutchison MRC Research Centre

hyb_protocol: Standard Affymetrix hybridisation protocol

scan_protocol: Standard Affymetrix scanning protocol

data_processing: Data analysis was done using Bioconductor R packages. Background correction and normalisation were performed using Robust Microarray Analysis (RMA) provided by the Affy package

label: biotin

molecule: total RNA

organism: Homo sapiens

source_name: Squamous cell carcinoma

label_protocol: Standard Affymetrix labelling protocol

growth_protocol: Cell lines were cultured in 10% FCS + 90% GMEM + antibiotics, according to standard maintenance procedures

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

tag: tissue

value: Squamous cell carcinoma

tag: type

value: SCC


title: swc2∆, htz1∆

description: Swr1-TAP IP (Cy5) / Genomic DNA(Cy3)

source_name: swc2∆, htz1∆

value: swc2∆, htz1∆


title: WT dye-swap

description: Swr1-TAP IP (Cy3) / Genomic DNA(Cy5)

source_name: WT

value: WT


title: MM901 H2-excess(110 mL/min) 0780m rep2

city: Seoul

first: Sung Ho

last: Yoon

address: 120 Neungdong-ro, Gwangjin-gu

department: Department of Bioscience and Biotechnology

country: South Korea

institute: Konkuk University

description: Technical replicate 2 of 2

hyb_protocol: 7.5 µg of labeled sample RNA and 7.5 µg of labeled reference RNA were fragmented in total 250 µl mixture (50 µl of 10X blocking agent, 10 µl of 25X fragmentation buffer, H2O) at 60°C for 30 min, then put it on ice for 1 min. 250 µl of fragmentation mix and 250 µl of GE hybridization buffer HI-RPM were mixed and spinned for 1 min at RT at 13,000 rpm, and put on ice. 490 µl of the hybridization mix was applied to the slide in chamber, and put in a hybridization oven at 65°C for 17 hrs. After hybridization, the slide was washed sequentially in GE wash buffer 1 (twice) and 2.

scan_protocol: The arrays were scanned by Microarray Scanner (Agilent Technologies, Santa Clara, CA).

data_processing: Signal intensities and local backgrounds were determined by Feature Extraction software (Agilent Technologies). Cy3 and Cy5 intensities were normalized by scaling so that the 75th percentile in the Cy3 and Cy5 channels were equal.

organism: Methanococcus maripaludis S2

source_name: ts LowH2 to HighH2 0780m

label_protocol: 1.5 µg of total RNA were directly labeled with 1.5 µl of Kreatech  dye (Cy3 or Cy5) at 95°C for 5 min, then put it on ice. The solutions were purified by KREApure column.

extract_protocol: Total RNAs were extracted using mirVana miRNA isolation kit (Applied Biosystems, Austin, TX) following manufacturer’s instructions.

tag: strain

tag: treatment

value: H2-excess(110 mL/min) 0780m

source_name: bulk from a mid-log phase culture(OD660=0.804)


title: htz1∆ dye-swap

description: Swr1-TAP IP (Cy3) / Genomic DNA(Cy5)


title: MM901 H2-excess(110 mL/min) 0300m rep2

description: Technical replicate 2 of 2

source_name: ts LowH2 to HighH2 0300m

value: H2-excess(110 mL/min) 0300m


title: swc2∆, htz1∆ -Dye Swap

description: Swr1-TAP IP (Cy3) / Genomic DNA(Cy5)

source_name: swc2∆, htz1∆ -Dye Swap


title: MM901 H2-excess(110 mL/min) 0540m rep2

description: Technical replicate 2 of 2

source_name: ts LowH2 to HighH2 0540m

value: H2-excess(110 mL/min) 0540m


title: MM901 H2-excess(110 mL/min) 0720m rep2

description: Technical replicate 2 of 2

source_name: ts LowH2 to HighH2 0720m

value: H2-excess(110 mL/min) 0720m


title: normal_N21_expression

value: normal uterine cervix

value: Normal


title: MM901 H2-excess(110 mL/min) 0540m rep1

description: Technical replicate 1 of 2


title: MM901 H2-excess(110 mL/min) 0660m rep1

description: Technical replicate 1 of 2

source_name: ts LowH2 to HighH2 0660m

value: H2-excess(110 mL/min) 0660m


title: MM901 H2-excess(110 mL/min) 0780m rep1

description: Technical replicate 1 of 2


title: MM901 H2-excess(110 mL/min) 0660m rep2

description: Technical replicate 2 of 2


title: MM901 H2-excess(110 mL/min) 0720m rep1

description: Technical replicate 1 of 2


title: SCC_G31_expression


title: WT

description: Swr1-TAP IP (Cy5) / Genomic DNA(Cy3)


title: MM901 H2-excess(110 mL/min) 0300m rep1

description: Technical replicate 1 of 2


title: MM901 H2-excess(110 mL/min) 0180m rep1

description: Technical replicate 1 of 2

source_name: ts LowH2 to HighH2 0180m

value: H2-excess(110 mL/min) 0180m


title: MM901 H2-excess(110 mL/min) 0120m rep2

description: Technical replicate 2 of 2

source_name: ts LowH2 to HighH2 0120m

value: H2-excess(110 mL/min) 0120m


title: MM901 H2-excess(110 mL/min) 0120m rep1

description: Technical replicate 1 of 2


title: MM901 H2-excess(110 mL/min) 0090m rep2

description: Technical replicate 2 of 2

source_name: ts LowH2 to HighH2 0090m

value: H2-excess(110 mL/min) 0090m


title: MM901 H2-excess(110 mL/min) 0060m rep2

description: Technical replicate 2 of 2

source_name: ts LowH2 to HighH2 0060m

value: H2-excess(110 mL/min) 0060m


title: MM901 H2-excess(110 mL/min) 0090m rep1

description: Technical replicate 1 of 2


title: MM901 H2-excess(110 mL/min) 0020m rep2

description: Technical replicate 2 of 2

source_name: ts LowH2 to HighH2 0020m

value: H2-excess(110 mL/min) 0020m


title: MM901 H2-excess(110 mL/min) 0020m rep1

description: Technical replicate 1 of 2


title: MM901 H2-excess(110 mL/min) 0045m rep1

description: Technical replicate 1 of 2

source_name: ts LowH2 to HighH2 0045m

value: H2-excess(110 mL/min) 0045m


title: MM901 H2-excess(110 mL/min) 0030m rep2

description: Technical replicate 2 of 2

source_name: ts LowH2 to HighH2 0030m

value: H2-excess(110 mL/min) 0030m


title: MM901 H2-excess(110 mL/min) 0010m rep2

description: Technical replicate 2 of 2

source_name: ts LowH2 to HighH2 0010m

value: H2-excess(110 mL/min) 0010m


title: MM901 H2-excess(110 mL/min) 0030m rep1

description: Technical replicate 1 of 2


title: MM901 H2-excess(110 mL/min) 0060m rep1

description: Technical replicate 1 of 2


title: MM901 H2-excess(110 mL/min) 0005m rep1

description: Technical replicate 1 of 2

source_name: ts LowH2 to HighH2 0005m

value: H2-excess(110 mL/min) 0005m


title: MM901 H2-excess(110 mL/min) 0000m rep1

description: Technical replicate 1 of 2

source_name: ts LowH2 to HighH2 0000m

value: H2-excess(110 mL/min) 0000m


title: MM901 H2-excess(110 mL/min) 0005m rep2

description: Technical replicate 2 of 2


title: MM901 H2-excess(110 mL/min) 0010m rep1

description: Technical replicate 1 of 2


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0120m rep2

description: Technical replicate 2 of 2

source_name: ts KO mtd HighH2LowP to LowH2HighP 0120m

value: MM901 delta mtd


title: MM901 H2-excess(110 mL/min) 0000m rep2

description: Technical replicate 2 of 2

source_name: bulk from a mid-log phase culture(OD660=0.804)


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0180m rep2

description: Technical replicate 2 of 2

source_name: ts KO mtd HighH2LowP to LowH2HighP 0180m


title: MM901 H2-limiting(21 mL/min) minus30m rep2

description: Technical replicate 2 of 2

source_name: ts LowH2 to HighH2 minus30m

value: H2-limiting(21 mL/min) minus30m


title: MM901 H2-excess(110 mL/min) 0045m rep2

description: Technical replicate 2 of 2


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0090m rep1

description: Technical replicate 1 of 2

source_name: ts KO mtd HighH2LowP to LowH2HighP 0090m


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0090m rep2

description: Technical replicate 2 of 2


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0030m rep2

description: Technical replicate 2 of 2

source_name: ts KO mtd HighH2LowP to LowH2HighP 0030m


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0045m rep1

description: Technical replicate 1 of 2

source_name: ts KO mtd HighH2LowP to LowH2HighP 0045m


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0060m rep2

description: Technical replicate 2 of 2

source_name: ts KO mtd HighH2LowP to LowH2HighP 0060m


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0180m rep1

description: Technical replicate 1 of 2


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0060m rep1

description: Technical replicate 1 of 2


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0120m rep1

description: Technical replicate 1 of 2


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0020m rep1

description: Technical replicate 1 of 2

source_name: ts KO mtd HighH2LowP to LowH2HighP 0020m


title: MM901 H2-limiting(21 mL/min) minus30m rep1

description: Technical replicate 1 of 2


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0020m rep2

description: Technical replicate 2 of 2


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0010m rep2

description: Technical replicate 2 of 2

source_name: ts KO mtd HighH2LowP to LowH2HighP 0010m


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0005m rep2

description: Technical replicate 2 of 2

source_name: ts KO mtd HighH2LowP to LowH2HighP 0005m


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0010m rep1

description: Technical replicate 1 of 2


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0005m rep1

description: Technical replicate 1 of 2


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0000m rep2

description: Technical replicate 2 of 2

source_name: ts KO mtd HighH2LowP to LowH2HighP 0000m


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0000m rep1

description: Technical replicate 1 of 2


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0180m rep2

description: Technical replicate 2 of 2

source_name: ts KO fru_frc HighH2LowP to LowH2HighP 0180m

value: MM901 delta fru delta frc


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0180m rep1

description: Technical replicate 1 of 2


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0060m rep2

description: Technical replicate 2 of 2

source_name: ts KO fru_frc HighH2LowP to LowH2HighP 0060m


title: MM901:mtd H2-excess(110 mL/min) P-limiting(0.12 mM K2PO4) minus30m rep1

description: Technical replicate 1 of 2

source_name: ts KO mtd HighH2LowP to LowH2HighP minus30m


title: MM901:mtd H2-excess(110 mL/min) P-limiting(0.12 mM K2PO4) minus30m rep2

description: Technical replicate 2 of 2


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0030m rep1

description: Technical replicate 1 of 2


title: MM901:mtd H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0045m rep2

description: Technical replicate 2 of 2


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0060m rep1

description: Technical replicate 1 of 2


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0030m rep2

description: Technical replicate 2 of 2

source_name: ts KO fru_frc HighH2LowP to LowH2HighP 0030m


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0120m rep1

description: Technical replicate 1 of 2

source_name: ts KO fru_frc HighH2LowP to LowH2HighP 0120m


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0090m rep2

description: Technical replicate 2 of 2

source_name: ts KO fru_frc HighH2LowP to LowH2HighP 0090m


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0030m rep1

description: Technical replicate 1 of 2

source_name: bulk from a mid-log phase culture(OD660=0.804)


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0020m rep1

description: Technical replicate 1 of 2

source_name: ts KO fru_frc HighH2LowP to LowH2HighP 0020m


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0090m rep1

description: Technical replicate 1 of 2


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0045m rep1

description: Technical replicate 1 of 2

source_name: ts KO fru_frc HighH2LowP to LowH2HighP 0045m


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0020m rep2

description: Technical replicate 2 of 2


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0010m rep1

description: Technical replicate 1 of 2

source_name: ts KO fru_frc HighH2LowP to LowH2HighP 0010m


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0010m rep2

description: Technical replicate 2 of 2


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0005m rep2

description: Technical replicate 2 of 2

source_name: ts KO fru_frc HighH2LowP to LowH2HighP 0005m


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0000m rep1

description: Technical replicate 1 of 2

source_name: ts KO fru_frc HighH2LowP to LowH2HighP 0000m


title: MM901:MMP1447 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0180m rep2

description: Technical replicate 2 of 2

source_name: ts KO MMP1447 HighH2LowP to LowH2HighP 0180m

value: MM901 delta MMP1447 Pnif::eha


title: MM901:fruA-frcA H2-excess(110 mL/min) P-limiting(0.13 mM K2PO4) minus30m rep2

description: Technical replicate 2 of 2

source_name: ts KO fru_frc HighH2LowP to LowH2HighP minus30m


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0045m rep2

description: Technical replicate 2 of 2


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0120m rep2

description: Technical replicate 2 of 2


title: MM901:MMP1447 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0060m rep2

description: Technical replicate 2 of 2

source_name: ts KO MMP1447 HighH2LowP to LowH2HighP 0060m


title: MM901:MMP1447 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0180m rep1

description: Technical replicate 1 of 2


title: MM901:MMP1447 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0090m rep2

description: Technical replicate 2 of 2

source_name: ts KO MMP1447 HighH2LowP to LowH2HighP 0090m


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0000m rep2

description: Technical replicate 2 of 2


title: MM901:fruA-frcA H2-excess(110 mL/min) P-limiting(0.13 mM K2PO4) minus30m rep1

description: Technical replicate 1 of 2


title: MM901:MMP1447 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0020m rep2

description: Technical replicate 2 of 2

source_name: ts KO MMP1447 HighH2LowP to LowH2HighP 0020m


title: MM901:fruA-frcA H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0005m rep1

description: Technical replicate 1 of 2


title: MM901:MMP1447 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0045m rep2

description: Technical replicate 2 of 2

source_name: ts KO MMP1447 HighH2LowP to LowH2HighP 0045m


title: MM901 H2-excess(110 mL/min) 0180m rep2

description: Technical replicate 2 of 2

source_name: ts LowH2 to HighH2 0180m


title: MM901:MMP1447 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0090m rep1

description: Technical replicate 1 of 2


title: MM901:MMP1447 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0120m rep1

description: Technical replicate 1 of 2

source_name: ts KO MMP1447 HighH2LowP to LowH2HighP 0120m


title: MM901:MMP1447 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0120m rep2

description: Technical replicate 2 of 2


title: MM901:MMP1447 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0060m rep1

description: Technical replicate 1 of 2


title: MM901:MMP1447 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0045m rep1

description: Technical replicate 1 of 2


title: MM901:MMP1447 H2-excess(110 mL/min) P-limiting(0.14 mM K2PO4) minus10m rep2

description: Technical replicate 2 of 2

source_name: ts KO MMP1447 HighH2LowP to LowH2HighP minus10m


title: MM901:MMP1447 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0000m rep2

description: Technical replicate 2 of 2

source_name: ts KO MMP1447 HighH2LowP to LowH2HighP 0005m


title: MM901:MMP1447 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0010m rep2

description: Technical replicate 2 of 2

source_name: ts KO MMP1447 HighH2LowP to LowH2HighP 0010m


title: MM901:MMP1447 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0010m rep1

description: Technical replicate 1 of 2

source_name: bulk from a mid-log phase culture(OD660=0.804)


title: MM901:MMP1447 H2-excess(110 mL/min) P-limiting(0.14 mM K2PO4) minus10m rep1

description: Technical replicate 1 of 2


title: MM901:MMP1447 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0000m rep1

description: Technical replicate 1 of 2


title: MM901:MMP1447 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0030m rep2

description: Technical replicate 2 of 2

source_name: ts KO MMP1447 HighH2LowP to LowH2HighP 0030m


title: MM901:MMP1447 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0030m rep1

description: Technical replicate 1 of 2


title: MM901:MMP1100 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0120m rep2

description: Technical replicate 2 of 2

source_name: ts KO MMP1100 HighH2LowP to LowH2HighP 0120m

value: MM901 delta MMP1100


title: MM901:MMP1100 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0090m rep1

description: Technical replicate 1 of 2

source_name: ts KO MMP1100 HighH2LowP to LowH2HighP 0090m


title: MM901:MMP1100 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0120m rep1

description: Technical replicate 1 of 2


title: MM901:MMP1100 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0045m rep2

description: Technical replicate 2 of 2

source_name: ts KO MMP1100 HighH2LowP to LowH2HighP 0045m


title: MM901:MMP1100 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0045m rep1

description: Technical replicate 1 of 2


title: MM901:MMP1100 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0020m rep1

description: Technical replicate 1 of 2

source_name: ts KO MMP1100 HighH2LowP to LowH2HighP 0020m


title: MM901:MMP1100 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0010m rep2

description: Technical replicate 2 of 2

source_name: ts KO MMP1100 HighH2LowP to LowH2HighP 0010m


title: MM901:MMP1447 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0020m rep1

description: Technical replicate 1 of 2


title: MM901:MMP1100 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0030m rep1

description: Technical replicate 1 of 2

source_name: ts KO MMP1100 HighH2LowP to LowH2HighP 0030m


title: MM901:MMP1100 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0060m rep2

description: Technical replicate 2 of 2

source_name: ts KO MMP1100 HighH2LowP to LowH2HighP 0060m


title: MM901:MMP1100 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0010m rep1

description: Technical replicate 1 of 2


title: MM901:MMP1100 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0030m rep2

description: Technical replicate 2 of 2


title: MM901:MMP1100 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0000m rep2

description: Technical replicate 2 of 2

source_name: ts KO MMP1100 HighH2LowP to LowH2HighP 0000m


title: MM901:MMP1100 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0020m rep2

description: Technical replicate 2 of 2


title: MM901:MMP1100 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0000m rep1

description: Technical replicate 1 of 2


title: MM901:MMP1100 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0005m rep2

description: Technical replicate 2 of 2

source_name: ts KO MMP1100 HighH2LowP to LowH2HighP 0005m


title: MM901:MMP1100 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0090m rep2

description: Technical replicate 2 of 2


title: MM901:MMP1100 H2-excess(110 mL/min) P-limiting(0.18 mM K2PO4) minus10m rep1

description: Technical replicate 1 of 2

source_name: ts KO MMP1100 HighH2LowP to LowH2HighP minus10m

value: HighH2LowP to LowH2HighP minus10m


title: MM901:MMP1100 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0005m rep1

description: Technical replicate 1 of 2


title: MM901:MMP0719 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0120m rep1

description: Technical replicate 1 of 2

source_name: ts KO_MMP0719 HighH2LowP to LowH2HighP 0120m

value: MM901 delta MMP0719


title: MM901:MMP0719 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0090m rep2

description: Technical replicate 2 of 2

source_name: ts KO_MMP0719 HighH2LowP to LowH2HighP 0090m


title: MM901:MMP1100 H2-excess(110 mL/min) P-limiting(0.18 mM K2PO4) minus10m rep2

description: Technical replicate 2 of 2


title: MM901:MMP0719 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0060m rep1

description: Technical replicate 1 of 2

source_name: ts KO_MMP0719 HighH2LowP to LowH2HighP 0060m


title: MM901:MMP0719 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0045m rep2

description: Technical replicate 2 of 2

source_name: ts KO_MMP0719 HighH2LowP to LowH2HighP 0045m


title: MM901:MMP0719 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0090m rep1

description: Technical replicate 1 of 2


title: MM901:MMP0719 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0000m rep1

description: Technical replicate 1 of 2

source_name: ts KO_MMP0719 HighH2LowP to LowH2HighP 0000m


title: MM901:MMP0719 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0045m rep1

description: Technical replicate 1 of 2

source_name: bulk from a mid-log phase culture(OD660=0.804)


title: MM901:MMP0719 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0020m rep2

description: Technical replicate 2 of 2

source_name: ts KO_MMP0719 HighH2LowP to LowH2HighP 0020m


title: MM901:MMP0719 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0030m rep2

description: Technical replicate 2 of 2

source_name: ts KO_MMP0719 HighH2LowP to LowH2HighP 0030m


title: MM901:MMP0719 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0020m rep1

description: Technical replicate 1 of 2


title: MM901:MMP0719 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0010m rep1

description: Technical replicate 1 of 2

source_name: ts KO_MMP0719 HighH2LowP to LowH2HighP 0010m


title: MM901:MMP0719 H2-excess(110 mL/min) P-limiting(0.12 mM K2PO4) minus10m rep2

description: Technical replicate 2 of 2

source_name: ts KO_MMP0719 HighH2LowP to LowH2HighP minus10m


title: MGP-M4

city: L'Hospitalet de Llobregat

first: Manel

last: Esteller

state: Barcelona

address: Hospital Duran i Reynals Av. Gran Via s/n km, 2.7

department: PEBC

country: Spain

institute: IDIBELL

description: Brain

hyb_protocol: Standard Illumina Protocol

scan_protocol: Standard Illumina Protocol

data_processing: R packages: lumi, genefilter, mpm

organism: Mus musculus

label_protocol: Standard Illumina Protocol

extract_protocol: genomic DNA was extracted and purified from brain samples using phenol-extraction standard protocol.

value: Globus Pallidus

tag: disease state

value: healthy


title: MGP-M3

description: Brain


title: MM901:MMP0719 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0000m rep2

description: Technical replicate 2 of 2


title: MM901:MMP0719 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0010m rep2

description: Technical replicate 2 of 2


title: MM901:MMP0719 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0007m rep2

description: Technical replicate 2 of 2

source_name: ts KO_MMP0719 HighH2LowP to LowH2HighP 0007m


title: MM901:MMP0719 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0030m rep1

description: Technical replicate 1 of 2


title: MM901:MMP0719 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0007m rep1

description: Technical replicate 1 of 2


title: MGP-F1

description: Brain


title: MM901:MMP0719 H2-excess(110 mL/min) P-limiting(0.12 mM K2PO4) minus10m rep1

description: Technical replicate 1 of 2


title: MFP-F4

description: Brain


title: MGP-F2

description: Brain


title: MM901 H2-limiting(21 mL/min) 0960m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2 to LowH2 0960m

value: H2-limiting(21 mL/min) 0960m


title: MM901 H2-limiting(21 mL/min) 1620m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2 to LowH2 1620m

value: H2-limiting(21 mL/min) 1620m


title: MM901:MMP0719 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0120m rep2

description: Technical replicate 2 of 2


title: HYP-F4

description: Brain

value: Hypothalamus


title: HYP-F2

description: Brain


title: HYP-M1

description: Brain


title: GCL-M4

description: Brain

value: Granular Cell Layer


title: MM901 H2-limiting(21 mL/min) 3120m rep1

description: Technical replicate 1 of 2

source_name: ts HighH2 to LowH2 3120m

value: H2-limiting(21 mL/min) 3120m


title: MM901 H2-limiting(21 mL/min) 0960m rep1

description: Technical replicate 1 of 2


title: MM901 H2-limiting(21 mL/min) 3120m rep2

description: Technical replicate 2 of 2


title: MM901 H2-limiting(21 mL/min) 1620m rep1

description: Technical replicate 1 of 2


title: GCL.M3

description: Brain


title: GCL-M1

description: Brain


title: MM901 H2-limiting(21 mL/min) 0540m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2 to LowH2 0540m

value: H2-limiting(21 mL/min) 0540m


title: HYP-M3

description: Brain


title: MM901 H2-limiting(21 mL/min) 0540m rep1

description: Technical replicate 1 of 2


title: MM901 H2-limiting(21 mL/min) 0300m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2 to LowH2 0300m

value: H2-limiting(21 mL/min) 0300m


title: MM901 H2-limiting(21 mL/min) 0120m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2 to LowH2 0120m

value: H2-limiting(21 mL/min) 0120m


title: GCL-F4

description: Brain


title: MM901 H2-limiting(21 mL/min) 0300m rep1

description: Technical replicate 1 of 2


title: MM901 H2-limiting(21 mL/min) 0180m rep1

description: Technical replicate 1 of 2

source_name: ts HighH2 to LowH2 0180m

value: H2-limiting(21 mL/min) 0180m


title: GCL.F1

description: Brain


title: MM901:MMP0719 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0060m rep2

description: Technical replicate 2 of 2


title: HYP-F1

description: Brain


title: MM901 H2-limiting(21 mL/min) 0120m rep1

description: Technical replicate 1 of 2


title: CPU-M4_b

description: Brain

value: Caudate-Putamen


title: MM901 H2-limiting(21 mL/min) 0180m rep2

description: Technical replicate 2 of 2


title: CPU-M4_a

description: Brain


title: GCL-F2

description: Brain


title: CPU-M3

description: Brain


title: CPU-M1

description: Brain


title: MM901 H2-limiting(21 mL/min) 0090m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2 to LowH2 0090m

value: H2-limiting(21 mL/min) 0090m


title: MM901 H2-limiting(21 mL/min) 0045m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2 to LowH2 0045m

value: H2-limiting(21 mL/min) 0045m


title: MM901 H2-limiting(21 mL/min) 0090m rep1

description: Technical replicate 1 of 2


title: MM901 H2-limiting(21 mL/min) 0045m rep1

description: Technical replicate 1 of 2


title: MM901 H2-limiting(21 mL/min) 0060m rep1

description: Technical replicate 1 of 2

source_name: ts HighH2 to LowH2 0060m

value: H2-limiting(21 mL/min) 0060m


title: MM901 H2-limiting(21 mL/min) 0060m rep2

description: Technical replicate 2 of 2


title: PC-F4

description: Brain

value: Purkinje Cells


title: CPU-F2

description: Brain


title: CPU-F4

description: Brain


title: PC-M3

description: Brain


title: PC-F2

description: Brain


title: CPU-F1

description: Brain


title: PC-F1

description: Brain


title: MM901 H2-limiting(21 mL/min) 0030m rep1

description: Technical replicate 1 of 2

source_name: ts HighH2 to LowH2 0030m

value: H2-limiting(21 mL/min) 0030m


title: MM901 H2-limiting(21 mL/min) 0030m rep2

description: Technical replicate 2 of 2

source_name: bulk from a mid-log phase culture(OD660=0.804)


title: MM901 H2-limiting(21 mL/min) 0020m rep1

description: Technical replicate 1 of 2

source_name: ts HighH2 to LowH2 0020m

value: H2-limiting(21 mL/min) 0020m


title: MM901 H2-limiting(21 mL/min) 0010m rep1

description: Technical replicate 1 of 2

source_name: ts HighH2 to LowH2 0010m

value: H2-limiting(21 mL/min) 0010m


title: TH-F2

description: Brain

value: Thalamus

value: healthy


title: MM901 H2-limiting(21 mL/min) 0020m rep2

description: Technical replicate 2 of 2


title: MM901 H2-limiting(21 mL/min) 0010m rep2

description: Technical replicate 2 of 2


title: SN-M4

description: Brain

value: Substantia Nigra


title: TH-F4

description: Brain


title: MM901 H2-limiting(21 mL/min) 0000m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2 to LowH2 0000m

value: H2-limiting(21 mL/min) 0000m


title: TH-M1

description: Brain


title: TH-M3

description: Brain


title: TH-M4

description: Brain


title: MM901:MMP1100 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0060m rep1

description: Technical replicate 1 of 2

source_name: ts KO MMP1100 HighH2LowP to LowH2HighP 0060m

value: MM901 delta MMP1100


title: MM901 H2-limiting(21 mL/min) 0005m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2 to LowH2 0005m

value: H2-limiting(21 mL/min) 0005m


title: SN-F4

description: Brain


title: SN-M3

description: Brain


title: MM901 H2-limiting(21 mL/min) 0005m rep1

description: Technical replicate 1 of 2


title: MM901 H2-excess(110 mL/min) minus30m rep1

description: Technical replicate 1 of 2

source_name: ts HighH2 to LowH2 minus30m

value: H2-excess(110 mL/min) minus30m


title: MM901 H2-limiting(21 mL/min) 0000m rep1

description: Technical replicate 1 of 2


title: MM901 H2-excess(110 mL/min) minus30m rep2

description: Technical replicate 2 of 2


title: SN-M1

description: Brain


title: SN-F2

description: Brain


title: SN-F1

description: Brain


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4)_5940m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowP to LowH2HighP_5940m


title: BLA-M3

description: Brain

value: basolateral amygdala


title: BLA-M1

description: Brain


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4)_5940m rep1

description: Technical replicate 1 of 2


title: BLA-F4

description: Brain


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 1980m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowP to LowH2HighP 1980m


title: WT-DG_3

description: Brain

value: Dentatus Gyrus


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0540m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowP to LowH2HighP 0540m


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 1980m rep1

description: Technical replicate 1 of 2


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 1260m rep1

description: Technical replicate 1 of 2

source_name: ts HighH2LowP to LowH2HighP 1260m


title: BLA-F1

description: Brain


title: WT-DG_2

description: Brain


title: WT-DG_1

description: Brain


title: DG-M2

description: Brain


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0540m rep1

description: Technical replicate 1 of 2


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0300m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowP to LowH2HighP 0300m


title: DG-F3

description: Brain


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 1260m rep2

description: Technical replicate 2 of 2


title: CA3-M4

description: Brain


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0180m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowP to LowH2HighP 0180m


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0180m rep1

description: Technical replicate 1 of 2


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0090m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowP to LowH2HighP 0090m


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0090m rep1

description: Technical replicate 1 of 2


title: CA3-M1

description: Brain


title: CA3-F4

description: Brain


title: CA3-F3

description: Brain


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0060m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowP to LowH2HighP 0060m


title: WT-CxFold_4

data_processing: R packages: lumi, genefilter, mpm, etc.

value: Frontal Cortex

value: WT

tag: genetic background


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0045m rep1

description: Technical replicate 1 of 2

source_name: ts HighH2LowP to LowH2HighP 0045m


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0045m rep2

description: Technical replicate 2 of 2


title: WT-CxF_3/2


title: WT-CxFold_2


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0120m rep1

description: Technical replicate 1 of 2

source_name: ts HighH2LowP to LowH2HighP 0120m


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0060m rep1

description: Technical replicate 1 of 2

source_name: bulk from a mid-log phase culture(OD660=0.804)


title: WT-CxF_1_b


title: WT-CxF_1_a


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0300m rep1

description: Technical replicate 1 of 2


title: APP-PS1-CxF_3


title: APP-PS1-CxF_2


title: APP-PS1-CxF_1


title: APP-CxFold_2


title: APP-CxFold_1


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0030m rep1

description: Technical replicate 1 of 2

source_name: ts HighH2LowP to LowH2HighP 0030m


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0120m rep2

description: Technical replicate 2 of 2


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0010m rep1

description: Technical replicate 1 of 2

source_name: ts HighH2LowP to LowH2HighP 0010m


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0020m rep1

description: Technical replicate 1 of 2

source_name: ts HighH2LowP to LowH2HighP 0020m


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0030m rep2

description: Technical replicate 2 of 2


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0005m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowP to LowH2HighP 0005m


title: Cx.F12


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0005m rep1

description: Technical replicate 1 of 2


title: 3TG-C-CxF_2_b


title: 3TG-C-CxF_2_a


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0010m rep2

description: Technical replicate 2 of 2


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0020m rep2

description: Technical replicate 2 of 2


title: MM901 H2-excess(110 mL/min) P-limiting(0.12 mM K2PO4) minus30m rep1

description: Technical replicate 1 of 2

source_name: ts HighH2LowP to LowH2HighP minus30m


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0000m rep1

description: Technical replicate 1 of 2

source_name: ts HighH2LowP to LowH2HighP 0000m


title: MM901 H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) 0000m rep2

description: Technical replicate 2 of 2


title: Cx.F10


title: MM901 H2-excess(110 mL/min) P-limiting(0.12 mM K2PO4) minus30m rep2

description: Technical replicate 2 of 2


title: CA1.F2


title: 3TG-A-CxF_3


title: 3TG-A-CxF_2


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 1740m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowN to LowH2HighN 1740m


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 11790m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowN to LowH2HighN 11790m


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 11790m rep1

description: Technical replicate 1 of 2


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 3360m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowN to LowH2HighN 3360m


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 3360m rep1

description: Technical replicate 1 of 2


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0180m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowN to LowH2HighN 0180m


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 1740m rep1

description: Technical replicate 1 of 2


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0300m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowN to LowH2HighN 0300m


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0540m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowN to LowH2HighN 0540m


title: NOA_SCOS_3

city: Bergen

first: Tomasz

last: Stokowy

address: Nygardsgaten 5

department: IT Division

country: Norway

institute: University of Bergen

description: Biomarkers project

hyb_protocol: Array hybridization, washing, and scanning were performed according to manufacturer’s recommendations by using GeneChip® Hybridization, Wash and Stain Kit (Affymetrix, Santa Clara, CA).

scan_protocol: Microarrays scanned using Affymetrix 3000 Scanner according to the instructions of the manufacturer

data_processing: Raw data were normalized with RMA method using Affymetrix software delivered to the scanner.

source_name: testicular biopsy with nonobstructive azoospermia

label_protocol: The sense-strand cDNA was fragmentized and labeled using the Affymetrix GeneChip® WT Terminal Labeling Kit (Affymetrix, Santa Clara, CA).

growth_protocol: Not applicable, total RNA extracted from testicular biopsy cells

extract_protocol: Tri-Reagent (Sigma-Aldrich, St. Louis, USA)  and post-purification using RNeasy Plus Mini Kit (Qiagen, Hilden, Germany)

treatment_protocol: Not applicable, samples extracted from untreated patients with various stages of azoospermia

tag: Sex

value: male

tag: condition

value: NOA

value: testis

tag: testis region

value: right

tag: age (yrs)

tag: histopatological description

value: Sertoli Cell Only-Syndrome


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0300m rep1

description: Technical replicate 1 of 2


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0540m rep1

description: Technical replicate 1 of 2


title: NOA_SCOS_2

description: Biomarkers project

value: left


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0090m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowN to LowH2HighN 0090m


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0060m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowN to LowH2HighN 0060m


title: NOA_PRE_2

description: Biomarkers project

value: premeiotic arrest


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0120m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowN to LowH2HighN 0120m


title: NOA_SCOS_6

description: Biomarkers project


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0120m rep1

description: Technical replicate 1 of 2

source_name: bulk from a mid-log phase culture(OD660=0.804)


title: NOA_SCOS_5

description: Biomarkers project


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0180m rep1

description: Technical replicate 1 of 2


title: NOA_SCOS_7

description: Biomarkers project


title: NOA_SCOS_4

description: Biomarkers project


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0030m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowN to LowH2HighN 0030m


title: BLA-M4

description: Brain

value: healthy


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0090m rep1

description: Technical replicate 1 of 2


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0010m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowN to LowH2HighN 0010m


title: NOA_SCOS_1

description: Biomarkers project


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0060m rep1

description: Technical replicate 1 of 2


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0030m rep1

description: Technical replicate 1 of 2


title: NOA_MEI_7

description: Biomarkers project

value: meiotic arrest


title: NOA_MEI_5

description: Biomarkers project


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0045m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowN to LowH2HighN 0045m


title: NOA_PRE_1

description: Biomarkers project


title: NOA_MEI_4

description: Biomarkers project


title: NOA_MEI_3

description: Biomarkers project


title: NOA_MEI_6

description: Biomarkers project


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0000m rep1

description: Technical replicate 1 of 2

source_name: ts HighH2LowN to LowH2HighN 0000m


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0020m rep1

description: Technical replicate 1 of 2

source_name: ts HighH2LowN to LowH2HighN 0020m


title: NOA_POST_7

description: Biomarkers project

value: postmeiotic arrest


title: MM901 H2-excess(110 mL/min) N-limiting(2.8 mM NH4Cl) minus30m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowN to LowH2HighN minus30m


title: NOA_POST_10

description: Biomarkers project


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0020m rep2

description: Technical replicate 2 of 2


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0045m rep1

description: Technical replicate 1 of 2


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0010m rep1

description: Technical replicate 1 of 2


title: NOA_MEI_1

description: Biomarkers project


title: NOA_MEI_2

description: Biomarkers project


title: MM901 H2-excess(110 mL/min) N-limiting(2.8 mM NH4Cl) minus30m rep1

description: Technical replicate 1 of 2


title: NOA_POST_11

description: Biomarkers project

value: pulled-right and left


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0005m rep2

description: Technical replicate 2 of 2

source_name: ts HighH2LowN to LowH2HighN 0005m


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0000m rep2

description: Technical replicate 2 of 2


title: NOA_POST_9

description: Biomarkers project


title: NOA_POST_5

description: Biomarkers project


title: NOA_POST_8

description: Biomarkers project


title: NOA_POST_4

description: Biomarkers project


title: NOA_POST_3

description: Biomarkers project


title: NOA_POST_2

description: Biomarkers project


title: MM901 N-limiting(3 mM NH4Cl) N14 rep2

description: Technical replicate 2 of 2

source_name: ss LowN N14

value: N-limiting(3 mM NH4Cl) N14


title: NOA_POST_6

description: Biomarkers project


title: MM901 N-limiting(3 mM NH4Cl) N14 rep1

description: Technical replicate 1 of 2


title: control_4

description: Biomarkers project

source_name: commercially available total RNA

extract_protocol: commercial available total RNA

value: control

value: full spermatogenesis


title: MM901 N-limiting(3 mM NH4Cl) N15 rep2

description: Technical replicate 2 of 2

source_name: ss LowN N15

value: N-limiting(3 mM NH4Cl) N15


title: NOA_POST_1

description: Biomarkers project


title: MM901 P-limiting(0.12 mM K2PO4) N15 rep2

description: Technical replicate 2 of 2

source_name: ss LowP N15

value: P-limiting(0.12 mM K2PO4) N15


title: MM901 N-limiting(3 mM NH4Cl) N15 rep1

description: Technical replicate 1 of 2


title: MM901 H2-limiting(21 mL/min) N14 rep2

description: Technical replicate 2 of 2

source_name: ss LowH2 N14

value: H2-limiting(21 mL/min) N14


title: MM901 H2-limiting(21 mL/min) N15 rep1

description: Technical replicate 1 of 2

source_name: ss LowH2 N15

value: H2-limiting(21 mL/min) N15


title: MM901 P-limiting(0.12 mM K2PO4) N15 rep1

description: Technical replicate 1 of 2


title: DSS-treated WT

city: Oviedo

first: Alvaro

middle: F

last: Fernandez

state: Asturias

address: C/Fernando Bongera s/n

department: Dpto de Bioquimica y Biol. Mol., IUOPA

institute: Universidad de Oviedo

hyb_protocol: The biotin-labeled cRNA was purified, fragmented, and hybridized to a GeneChip Mouse Gene 1.0 ST Array (Affymetrix). Washing was performed with a Fluidics Station 450.

scan_protocol: Scanning was performed with a GeneChip Scanner 7G (Affymetrix).

data_processing: After scanning, raw data were processed with the RMAExpress program (http://RMAExpress.bmbolstad.com) using default settings.

label: Biotin

source_name: Colon, wild-type, DSS-treated

label_protocol: Double-stranded cDNA synthesis and in vitro transcription to generate cRNA was carried out using a commercial kit of Affymetrix (Sense Target Labeling kit).

growth_protocol: Animals were maintained in the animal facility of the University of Oviedo.

extract_protocol: Total RNA was isolated from intestinal samples using an RNeasy kit (Qiagen).

treatment_protocol: DSS oral treatment during 7 days followed by 3 days with water. Animals were killed after the treatment.

value: wild-type

tag: gender

value: male

tag: age

value: 3 months

value: colon

value: dextran sulfate sodium


title: control_3

description: Biomarkers project

value: testis


title: MM901 P-limiting(0.12 mM K2PO4) N14 rep2

description: Technical replicate 2 of 2

source_name: ss LowP N14

value: P-limiting(0.12 mM K2PO4) N14


title: DSS-treated KO #2

source_name: Colon, Atg4b knock-out, DSS-treated

value: Atg4b knock-out

value: female


title: control_2

description: Biomarkers project


title: DSS-treated KO #1


title: control_1

description: Biomarkers project


title: MM901:mtd H2-excess(110 mL/min) P-limiting(0.12 mM K2PO4) rep2

description: Technical replicate 2 of 2

source_name: ss KO mtd HighH2 LowP

value: MM901 delta mtd

source_name: bulk from a mid-log phase culture(OD660=0.804)


title: MM901 P-limiting(0.12 mM K2PO4) N14 rep1

description: Technical replicate 1 of 2


title: MM901 H2-limiting(21 mL/min) N14 rep1

description: Technical replicate 1 of 2


title: MM901:mtd H2-limiting(20 mL/min) P-excess(0.8 mM K2PO4) rep1

description: Technical replicate 1 of 2

source_name: ss KO mtd LowH2 HighP


title: Colon KO

source_name: Colon, Atg4b knock-out, control

treatment_protocol: Animals were killed after the treatment.


title: Colon WT

source_name: Colon, wild-type, control


title: MM901:mtd H2-limiting(20 mL/min) P-excess(0.8 mM K2PO4) rep2

description: Technical replicate 2 of 2


title: MM901:mtd H2-excess(110 mL/min) P-limiting(0.12 mM K2PO4) rep1

description: Technical replicate 1 of 2


title: MM901:frcA-frcA H2-limiting(22 mL/min) P-excess(0.8 mM K2PO4) rep1

description: Technical replicate 1 of 2

source_name: ss KO fru frc LowH2 HighP

value: MM901 delta fru delta frc


title: MM901:frcA-frcA H2-excess(110 mL/min) P-limiting(0.12 mM K2PO4) rep1

description: Technical replicate 1 of 2

source_name: ss KO fru frc HighH2 LowP


title: MM901:frcA-frcA H2-excess(110 mL/min) P-limiting(0.12 mM K2PO4) rep2

description: Technical replicate 2 of 2


title: MM901:frcA_H2-excess(110 mL/min) P-limiting(0.12 mM K2PO4) NH4Cl(10 mM) rep2

description: Technical replicate 2 of 2

source_name: ss KO frc HighH2 LowP NH4Cl

value: MM901 delta frc Pnifct2ag2::fru


title: A549 cells that were exposed to GD+PMA

city: Pusan

first: Ho Sung

last: Kang

address: 30, Jangjeon-dong

department: Departmemt of Molecular Biology

institute: Pusan National University

description: Gene expression levels were determined by comparing the gene expression of the experimental samples (GD+PMA) with that of the control sample.

hyb_protocol: The labelled cDNAs were resuspended in 22ul of hybridization solution (GenoCheck, Korea), and were placed on the HCO_3K array and covered by a 22x22mm cover slide.

scan_protocol: The arrays were scanned using an Axon GenePix 4000B scanner with associated software (Molecular Devices Corp.)

data_processing: Data analysis was carried out using GeneSpring GX 7.3 (Agilent technologies). The values from each channel were log2 transformed and normalized using the LOWESS algorithm.

source_name: A549, GD and PMA treatment

label_protocol: 50 ug of total RNA was converted to double-stranded cDNAs using an oligo (dT)18-primed polymerization using SuperScript II reverse transcriptase. The reverse transcription mixture included 400 U Superscript RNase H-reverse transcriptase, 0.5mMdATP, dTTP and dGTP, 0.2mMdCTP and 0.1mM Cy3 or Cy5 labeled dCTP.

growth_protocol: Human lung adenocarcinoma cell line A549 was obtained from ATCC and grown in normal growth medium (RPMI 1640 media supplemented with 10% (v/v) heat-inactivated fetal bovine serum and 1% penicillin/streptomycin) in a 37C humidified incubator with 5%CO2.

extract_protocol: Total RNA extracted using Trizol following manufacturer's instructions.

treatment_protocol: A549 cells were pretreated with PMA for 30 min and incubated in GD medium for 12 h.

tag: cell line

tag: cell type

value: lung adenocarcinoma epithelial cells

value: glucose deprivation and PMA

value: experimental

source_name: A549, untreated

value: untreated

value: control


title: MM901:frcA_H2-excess(110 mL/min) P-limiting(0.12 mM K2PO4) alanine(10 mM) rep2

description: Technical replicate 2 of 2

source_name: ss KO frc HighH2 LowP Alanine


title: Ileum WT

source_name: Ileum, wild-type, control

tag: genotype

value: wild-type

value: ileum


title: MM901:frcA_H2-excess(110 mL/min) P-limiting(0.12 mM K2PO4) alanine(10 mM) rep1

description: Technical replicate 1 of 2


title: MM901:frcA-frcA H2-limiting(22 mL/min) P-excess(0.8 mM K2PO4) rep2

description: Technical replicate 2 of 2


title: MM901 formate-excess(380 mM sodium formate) H2-limiting(21 mL/min) rep1

description: Technical replicate 1 of 2

source_name: ss HighFormate LowH2


title: MM901:frcA_H2-excess(110 mL/min) P-limiting(0.12 mM K2PO4) NH4Cl(10 mM) rep1

description: Technical replicate 1 of 2


title: Ileum KO

source_name: Ileum, Atg4b knock-out, control

value: male

value: 3 months


title: A549 cells that were exposed to GD

description: Gene expression levels were determined by comparing the gene expression of the experimental sample (GD) with that of the control sample.

source_name: A549, GD treatment

value: glucose deprivation

tag: sample type


title: MM901 formate-excess(380 mM sodium formate) H2-excess(110 mL/min) rep1

description: Technical replicate 1 of 2

source_name: ss HighFormate HighH2


title: Mutant strain, biological rep 1

city: Rome

first: Emanuela

last: Frangipani

address: Viale G. Marconi 446

department: Department of Sciences

country: Italy

institute: University of Roma Tre

description: Gene expression data from HCN mutant strain PAO6344 grown under cyanogenic conditions

hyb_protocol: Following fragmentation, 10 ug of cDNA were hybridized for 17 hr at 45C on GeneChip P. aeruginosa Genome Array. GeneChips were washed and stained according to the protocol described in Affymetrix GeneChip Expression Analysis manual (Fluidics protocol FS450_0007).

scan_protocol: GeneChips were scanned using the GeneChip Scanner 3000 7G (Affymetrix)

data_processing: Raw data were extracted from the scanned images and analyzed with the Affymetrix Power Tools software package (Affimetrix)

organism: Pseudomonas aeruginosa

source_name: mutant cells at OD600 of ca 1

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).

growth_protocol: P. aeruginosa PAO1 and PAO6344 were inoculated at an OD600 of 0.01 into 30 ml of MMC medium (Castric, 1975) in hermetically closed 125-ml bottles. The cultures where grown at 37°C with gentle shaking (130 rpm) until they reached an OD600 of approximately 1.0

extract_protocol: Total RNA was isolated by the hot phenol method as described elsewhere (Leoni et al., 1996), followed by DNaseI treatment (Roche).

treatment_protocol: Cells were harvested by centrifugation (10 ml of cultures) and RNA protect bacteria (Qiagen) was added according to the manufacturer protocol.

tag: genotype/variation

value: HCN mutant (PAO6344)


title: WT strain, biological rep2

description: Gene expression data from WT strain PAO1 grown under cyanogenic conditions

organism: Pseudomonas aeruginosa PAO1

source_name: WT cells at OD600 of ca 1

value: WT


title: MM901:frcA_H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) NH4Cl(10 mM) rep1

description: Technical replicate 1 of 2

source_name: bulk from a mid-log phase culture(OD660=0.804)

source_name: ss KO frc LowH2 HighP NH4Cl


title: MM901 H2-limiting(21 mL/min) N-excess(10 mM NH4Cl) 0005m rep1

description: Technical replicate 1 of 2

source_name: ts HighH2LowN to LowH2HighN 0005m


title: MM901:frcA_H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) NH4Cl(10 mM) rep2

description: Technical replicate 2 of 2


title: MM901:frcA_H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) alanine(10 mM) rep2

description: Technical replicate 2 of 2

source_name: ss KO frc LowH2 HighP Alanine


title: WT strain, biological rep1


title: Mutant strain, biological rep 2


title: MM901 formate-excess(380 mM sodium formate) H2-limiting(21 mL/min) rep2

description: Technical replicate 2 of 2


title: MM901 formate-excess(380 mM sodium formate) H2-excess(110 mL/min) rep2

description: Technical replicate 2 of 2


title: MM901:frcA_H2-limiting(21 mL/min) P-excess(0.8 mM K2PO4) alanine(10 mM) rep1

description: Technical replicate 1 of 2


title: testis_f0_m_9600

city: Berne

first: Martin

middle: H

last: Braunschweig

state: Berne

address: Bremgartenstrasse 109A

department: Vetsuisse Faculty

country: Switzerland

institute: University of Bern

hyb_protocol: RNA was hybridized to the porcine gene expression microarray from Agilent Technologies according to standard protocol used at the Functional Genomic Center Zürich.

scan_protocol: Spot Intensities were extracted from the TIFF images using Agilent Feature Extraction Software 9.5.

data_processing:
From the generated TXT files the gMedianSignal of the spots was used as raw expression value and further analyzed using R/Bioconductor.
Expression values were normalized using quantile normalization and differential expression was computed using a t-test on the log2-transformed signals.

organism: Sus scrofa

source_name: F0 testes

label_protocol: Cyanine-3 (Cy3) labeled cRNA was prepared from 600 ng RNA using the One-Color Microarray-Based Gene Expression Analysis (Quich Amp Labeling) with Tecan HS Pro Hybridization according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Hombrechtikon, Switzerland).  Dye incorporation and cRNA yield were inspected with a NanoDrop ND-1000 Spectrophotometer.

extract_protocol: Trizol followed by Qiagen RNeasy cleanup and DNase treatment

treatment_protocol: F0 boars received either a standard diet or a standard diet supplemented with methylating micronutrients from one to ten months of age. The supplemented diet contained additional methionine, choline, betaine, vitamin B6, B12 and folate.

tag: tissue

value: testis


title: testis_f0_m_9502


title: testis_f0_m_9499

value: methylating micronutrients


title: testis_f0_m_9598


title: testis_f0_m_9528


title: 2D culture - M3b

city: Houston

first: Chad

last: Creighton

state: TX

address: One Baylor Plaza, Mail Stop: BCM305

department: Biostatistics, Ducan Cancer Center

institute: Baylor College of Medicine

description:
2D culture - M3b (M3 technical replicate)
M3b - H008-1101002028

hyb_protocol: The cDNA microarray consisted of 30275 gene-specific oligonucleotides, with 1088 experimental control probes in a one-block array format and 29187 human genome probes. For each probe, a 60 mer oligonucleotide was designed in the sense direction. Each sample was processed in triplicate. Ten microgram of dye labeled RNA was further hybridized with OneArray slide in a humidified oven with 2X SSPE buffer at 50C for 14-16 hours.

scan_protocol: The slides were scanned using Axon GenePix 4100 from Molecular Devices at wavelength 635 to 532 nm.

data_processing: The filtered data were log2 transformed and corrected using quantile normalization before their average ratios and significance values were calculated.

source_name: 2D culture - M3b

label_protocol: Target RNA was labeled with Cy5 dye and OneArray slide is pre-hybridized to reduce the background signals and increase the performance of microarray.

growth_protocol: We created the 4D model (previously described as ex vivo 3D model) as previously described.  Briefly, we used decellularized lung matrices from 6-week-old rats using 0.1% SDS and 1% Triton-X100.  The acellular matrices were thoroughly washed with PBS supplemented with antibiotics (100 IU/mL penicillin, 100 ug/mL streptomycin, and 0.25 ug/mL amphotericin; MP Biomedicals, Solon, OH, USA).  Next, we cannulated the trachea and placed 25 million A549 cells diluted in 50 ml of complete media through the trachea of the 4D model (n=3). We collected the cells with media that passively came out of the model into a 500-mL container, we passed the media again through the trachea three times, and incubated it at 37degC for 2 hours to allow for cell attachment. We then counted the cells in the container and determined the percentage of tumor cells that were seeded on the 4D model.  We placed an additional 200 mL of complete media in the bioreactor previously described and allowed the media to go through the pump at 6 ml per minute and then through the oxygenator and the pulmonary artery of the acellular lung matrix.  Media in bioreactor was replaced with fresh media every day for 15 days. After 15 days, we removed the tissue of the 4D lung model.

extract_protocol: According to Human OneArray protocol.

value: human lung cancer cell line

tag: culture type

value: 2D culture - M3b


title: testis_f0_m_9597

tag: treatment


title: 2D culture - M2c

description:
2D culture - M2c (M2 technical replicate)
M2c - H006-1101002022

source_name: 2D culture - M2c

value: 2D culture - M2c


title: 2D culture - M1b

description:
2D culture - M1b (M1 technical replicate)
M1b - H002-1101002012

source_name: 2D culture - M1b

value: 2D culture - M1b


title: 2D culture - M2b

description:
2D culture - M2b (M2 technical replicate)
M2b - H005-1101002020

source_name: 2D culture - M2b

value: 2D culture - M2b


title: testis_f0_m_9527


title: 2D culture - M3a

description:
2D culture - M3a (M3 technical replicate)
M3a - H007-1101002026

source_name: 2D culture - M3a

value: 2D culture - M3a


title: MM901 H2-limiting(21 mL/min) N15 rep2

description: Technical replicate 2 of 2

source_name: ss LowH2 N15

tag: strain

value: H2-limiting(21 mL/min) N15


title: 4D culture - D3c

description:
4D culture - D3c (D3 technical replicate)
D3c - H036-1101002336

source_name: 4D culture - D3c

value: 4D culture - D3c


title: 2D culture - M1a

description:
2D culture - M1a (M1 technical replicate)
M1a - H001-1101002008

source_name: 2D culture - M1a

value: 2D culture - M1a


title: 2D culture - M1c

description:
2D culture - M1c (M1 technical replicate)
M1c - H003-1101002016

source_name: 2D culture - M1c

value: 2D culture - M1c


title: 2D culture - M2a

description:
2D culture - M2a (M2 technical replicate)
M2a - H004-1101002018

source_name: 2D culture - M2a

value: 2D culture - M2a


title: Mycobacterium_marinum_mma20_6dpi_rep3

city: Leiden

first: Annemarie

middle: H.

last: Meijer

address: Einsteinweg 55

department: Animal Sciences and Health

country: Netherlands

institute: Institute of Biology, Leiden University

description:
Biological replicate 3 of 3: Mycobacterium marinum mma20 vs PBS injected control fish at 6dpi
test_252043010007_S01_GE2_105_Jan09_2_4.txt.txt
Sample 10

hyb_protocol: The dual colour hybridization of the microarray chips was performed according to Agilent protocol GE2-v5_95_Feb07 and GE2_105_Jan09 (www.Agilent.com) for two-color microarray-based gene expression analysis except that hybridization and washing was performed at 37 ◦C.

scan_protocol: The arrays were scanned with DNA Microarray Scanner G2505B from Agilent Technologies. The arrays were scanned twice with 10% PMT and 100% PMT laser power.

data_processing:
Please note that different protocols/software versions were used for Feature Extraction, which resulted in different number of columns in the raw data files (Agilent Technologies).
Microarray data was processed from raw data image files with Feature Extraction Software 9.5.1.1 ;
US22502714_SLOT01_S02_GE2-v5_95_Feb07_1_1.txt,
US22502714_SLOT01_S02_GE2-v5_95_Feb07_1_2.txt,
US22502714_SLOT01_S02_GE2-v5_95_Feb07_1_3.txt
with Feature Extraction Software 9.5.3.1;
test_252043010004_S01_GE2-v5_95_Feb07_2_2.txt,
US22502714_SLOT01_S02_GE2-v5_95_Feb07_1_3.txt
with Feature Extraction Software 10.5.1.1;
test_252043010007_S01_GE2_105_Jan09_2_1.txt,
test_252043010007_S01_GE2_105_Jan09_2_2.txt,
test_252043010007_S01_GE2_105_Jan09_2_3.txt,
test_252043010007_S01_GE2_105_Jan09_2_4.txt.
The XDR function was used to extend the dynamic range. Processed data were subsequently imported into Rosetta Resolver 7.1 (Rosetta Biosoftware, Seattle, Washington) and subjected to default ratio error modelling. The Agilent Feature Extraction files contain the final log ratio data. The algorithms that were used to normalize the feature signal and calculate the log ratios are described in the Reference Guide for Agilent Feature Extraction Software v9.5. The standard settings as described for the GE2-v5_95 protocol in the Reference Guide were used. In order to calculate the normalized signal, the Rank Consistency Probes method was used and the Linear&LOWESSDyeNormFactor (= DyeNormalSignal/(BGSubSignal x LinearDyeNormFactor) was calculated as described on page 231 of in the Reference Guide. The dye normalized signal was calculated as follows (page 232): DyeNormSignal = BGSubSignal x DyeNormFactor. The log10 ratio was subsequently calculated as follows (page 232): LogRatio = Log(rProcessedSignal/gProcessedSignal), where rProcessedSignal and gProcessedSignal are signals post dye normalization and post surrogate processing in the red and green channels, respectively. The surrogate values are calculated and used as the lowest limit of detection to replace the dye normalized signal when either the mean feature signal is less than the background signal or not significant when compared to the background signal, or when the mean signal is less than its background standard deviation (page 226).

organism: Danio rerio

label_protocol: RNA labeling was carried out with miRCURY™ LNA microRNA, Hy3™/Hy5™ Power Labeling kit (Exiqon) using 1 microgram of total RNA according to the manufacturer’s instructions.

growth_protocol: Zebrafish were handled in compliance with the local animal welfare regulations and maintained according to standard protocols (http://ZFIN.org). Embryos were grown at 28,5°C in egg water (60µg/ml Instant Ocean sea salts).

extract_protocol: Embryos were snap frozen in liquid nitrogen and kept at -80°C. Adult zebrafish were homogenized in liquid nitrogen and kept in portions of 50-100 μg of powdered tissue at -80°C. Total RNA was isolated from frozen embryos or tissue homogenates using the miRNeasy Mini kit (Qiagen) with an on-column DNA purification with RNase Free DNase set (Qiagen).

treatment_protocol: Embryos at 28 h postfertilization (hpf) were injected with S. typhimurium SL1027 into the caudal vein close to the urogenital opening and pools of 20–40 embryos were collected at 8 hours post infection (hpi). As a control an equal volume of PBS was likewise injected. In adult infection experiments, Mycobacterium marinum strain Mma20 was injected into the intraperitoneal cavity of adult male zebrafish and PBS-injected males were used as a control. RNA samples were collected at 6 days post infection (dpi). The samples from adult fish were from a previous study descibed in van der Sar et al. 2009, Mol Immunol 46: 2317–2332.

value: Adult zebrafish

tag: infected with

value: Mycobacterium marinum strain Mma20

tag: time point

value: 6 days post infection

value: PBS (control)


title: 2D culture - M3c

description:
2D culture - M3c (M3 technical replicate)
M3c - H009-1101002030

source_name: 2D culture - M3c

value: 2D culture - M3c


title: Mycobacterium_marinum_mma20_6dpi_rep2

description:
Biological replicate 2 of 3: Mycobacterium marinum mma20 vs PBS injected control fish at 6dpi
test_252043010004_S01_GE2-v5_95_Feb07_2_3.txt.txt
Sample 9


title: testis_f0_m_9599

value: male

value: methylating micronutrients

value: testis


title: Tu15

city: Heidelberg

first: Dr Efterpi

last: Kostareli

state: Baden-Wurtenberg

address: Im Neuenheimer Feld 280

country: Germany

institute: DKFZ

description:
Group C (HPV DNA+RNA+) tumor sample 5 out of 5,  co-hybridized with the same healthy control
DNA-MCIp enriched genomic DNA

hyb_protocol: Labeled tumor and control samples were co-hybridized to the human CpG island array (Agilent, 244K)

scan_protocol: Scanning with a DNA microarray scanner (Agilent). Scanned tif files were analyzed using Feature Extraction Software 10.5 (Agilent) with the ChIP protocol setting.

data_processing:
Raw data were analyzed using the R stastistical package v. 2.13.1 with background correction and log 2-ratio transformation according to the NormExp method with offset = 50
Variation between co-hybridized samples was reduced by intensity-based LOESS normalization on rank-invariant probes and negative controls  (M values=log2Alexa5/Alexa3).

label: Alexa 5

label_protocol: Highly methylated DNA from fraction E was labeled with Alexa 5 (tumor) or Alexa 3 (healthy control,normal mucosa)

growth_protocol: primary tumor biopsies from OPSCC patients, snap-frozen tissue, HE-staining of adjacent sections indicated a tumor cell content of at least 70%.

extract_protocol: gDNA was isolated following the optimized QIAGEN protocol with cleanup using the QIAquick PCR Purification Kit (Qiagen, Hilden, Germany) and subsequently sonicated with the Bioruptor NextGen (Diagenode, Liege, Belgium) to fragments of 200-800 bp. Highly methylated DNA was enriched by MCIp using the SX-8G IP-Star robot (Diagenode) and 60 μg Methyl-CpG-binding domain (MBD)-Fc protein coupled to 40 μl protein A-coated magnetic beads (Diagenode). DNA eluates with increasing salt concentration (fraction A: 300, B: 400, C: 500, D: 550, E: 1000 mM) and methylation degree were desalted with MinElute columns (Qiagen) and controlled for enrichment of methylated DNA by RT-PCR analyzing the imprinted gene SNRPN. The non-methylated SNRPN allele eluted at low-salt and the methylated allele eluted at high-salt concentration.

value: Male

value: oropharyngeal squamous cell carcinoma

tag: clinical entity

tag: tumor status

value: primary tumor

tag: clinical stage

tag: hpv status (hpv16)

value: HPV-driven (DNA+RNA+)

tag: group

value: C

label: Alexa 3

source_name: normal oral mucosa

tag: entity

value: healthy individual

value: oral mucosa

tag: hpv status

value: negative


title: 4D culture - D3b

description:
4D culture - D3b (D3 technical replicate)
D3b - H035-1101002334

source_name: 4D culture - D3b

tag: cell line

tag: cell type

value: human lung cancer cell line

value: 4D culture - D3b


title: Tu14

description:
Group C (HPV DNA+RNA+) tumor sample 4 out of 5,  co-hybridized with the same healthy control
DNA-MCIp enriched genomic DNA

tag: gender

tag: age


title: Tu12

description:
Group C (HPV DNA+RNA+) tumor sample 2 out of 5,  co-hybridized with the same healthy control
DNA-MCIp enriched genomic DNA

tag: tissue


title: Tu13

description:
Group C (HPV DNA+RNA+) tumor sample 3 out of 5,  co-hybridized with the same healthy control
DNA-MCIp enriched genomic DNA


title: Tu9

description:
Group B (HPV DNA+RNA-) tumor sample 4 out of 5,  co-hybridized with the same healthy control
DNA-MCIp enriched genomic DNA

value: non-HPV-driven (DNA+RNA-)

value: B


title: Salmonella_typhimurium_8hpi_rep3b

description:
Technical replicate of 3: Salmonella typhimurium vs PBS injected control embryos at 8hpi
test_252043010007_S01_GE2_105_Jan09_2_3.txt.txt
Sample 6

value: Embryos at 28 h postfertilization (hpf)

value: S. typhimurium SL1027

value: 8 hours post-infection

value: PBS (control)


title: 4D culture - D2c

description:
4D culture - D2c (D2 technical replicate)
D2c - H030-1101002332

source_name: 4D culture - D2c

tag: culture type

value: 4D culture - D2c


title: Tu11

description:
Group C (HPV DNA+RNA+) tumor sample 1 out of 5,  co-hybridized with the same healthy control
DNA-MCIp enriched genomic DNA

value: Male


title: 4D culture - D3a

description:
4D culture - D3a (D3 technical replicate)
D3a - H034-1101002333

source_name: 4D culture - D3a

value: 4D culture - D3a


title: Tu8

description:
Group B (HPV DNA+RNA-) tumor sample 3 out of 5,  co-hybridized with the same healthy control
DNA-MCIp enriched genomic DNA

value: oropharyngeal squamous cell carcinoma

value: primary tumor


title: Salmonella_typhimurium_8hpi_rep3a

description:
Biological replicate 3 of 3: Salmonella typhimurium vs PBS injected control embryos at 8hpi
US22502714_SLOT01_S02_GE2-v5_95_Feb07_1_3.txt.txt
Sample 3


title: Tu10

description:
Group B (HPV DNA+RNA-) tumor sample 5 out of 5,  co-hybridized with the same healthy control
DNA-MCIp enriched genomic DNA


title: 4D culture - D2a

description:
4D culture - D2a (D2 technical replicate)
D2a - H028-1101002330

source_name: 4D culture - D2a

value: 4D culture - D2a


title: Salmonella_typhimurium_8hpi_rep1a

description:
Biological replicate 1 of 3: Salmonella typhimurium vs PBS injected control embryos at 8hpi
US22502714_SLOT01_S02_GE2-v5_95_Feb07_1_1.txt.txt
Sample 1


title: Salmonella_typhimurium_8hpi_rep1b

description:
Technical replicate of 1: Salmonella typhimurium vs PBS injected control embryos at 8hpi
test_252043010007_S01_GE2_105_Jan09_2_1.txt.txt
Sample 4


title: Salmonella_typhimurium_8hpi_rep2a

description:
Biological replicate 2 of 3: Salmonella typhimurium vs PBS injected control embryos at 8hpi
US22502714_SLOT01_S02_GE2-v5_95_Feb07_1_2.txt.txt
Sample 2


title: 4D culture - D2b

description:
4D culture - D2b (D2 technical replicate)
D2b - H029-1101002331

source_name: 4D culture - D2b

value: 4D culture - D2b


title: shRNA 8

status: Public on Sep 15 2013

city: Essen

first: Stefan

last: Heinrichs

address: Virchowstr. 179

department: Institute of Transfusion Medicine

institute: University Hospital Essen

hyb_protocol: The fragmented cDNA was added to a hybridization solution containing several biotinylated control oligonucleotides (for quality control), and hybridized to a microarray chip overnight at 45°C.  The chips were then transferred to a fluidics instrument that performed washes to remove cDNA that has not hybridized to its complementary oligonucleotide probe. The bound cDNA was subsequently fluorescently labeled using phycoerythrin-conjugated streptavidin (SAPE); additional fluors were then added using biotinylated anti-streptavidin antibody and additional SAPE.

scan_protocol: Each cDNA bound at its complementary oligonucleotide was excited using a confocal laser scanner, and the positions and intensities of the fluorescent emissions were captured. These measures provided the raw expression data of subsequent biostatistical analysis.

data_processing: Raw data were processed in Expression Console (Affymetrix) using RMA normalization. Meta probe sets for each gene were annotated by mapping all probe sets to the human genome version hg19 and expression values were obtained. Data complexity was reduced to one canonical transcript per gene, resulting in a single identifier per gene (customized annotation, 17982 individual genes total).

source_name: CD34+ BM cells, MYBL2-specific shRNA

label_protocol: The cDNA was generated according to manufacturer's instructions (Affymetrix). The fragmented cDNA was end-labeled with a biotinylated nucleotide analog.

growth_protocol: short term culture of cryopreserved CD34+ bone marrow cells

extract_protocol: Total RNA was extracted using Trizol (LifeTechnologies) according to the manufacturer's instructions.

value: bone marrow

tag: transduced vector

value: shRNA 1-8


title: 4D culture - D1c

description:
4D culture - D1c (D1 technical replicate)
D1c - H018-1101002050

source_name: 4D culture - D1c

value: human lung cancer cell line

value: 4D culture - D1c


title: shRNA 7


title: shRNA 6


title: 4D culture - D1b

description:
4D culture - D1b (D1 technical replicate)
D1b - H017-1101002049

source_name: 4D culture - D1b

value: 4D culture - D1b


title: shRNA 4


title: shRNA 5


title: 4D culture - D1a

description:
4D culture - D1a (D1 technical replicate)
D1a - H016-1101002048

source_name: 4D culture - D1a

value: 4D culture - D1a


title: Tu4

description:
Group A (HPV negative) tumor sample 4 out of 5, co-hybridized with the same healthy control
DNA-MCIp enriched genomic DNA

value: negative (DNA-RNA-)

value: A

value: healthy individual

value: oral mucosa

value: negative


title: Salmonella_typhimurium_8hpi_rep2b

description:
Technical replicate of 2: Salmonella typhimurium vs PBS injected control embryos at 8hpi
test_252043010007_S01_GE2_105_Jan09_2_2.txt.txt
Sample 5

value: Embryos at 28 h postfertilization (hpf)

value: S. typhimurium SL1027

value: 8 hours post-infection

value: PBS (control)


title: Tu6

description:
Group B (HPV DNA+RNA-) tumor sample 1 out of 5,  co-hybridized with the same healthy control
DNA-MCIp enriched genomic DNA

value: Male

value: oropharyngeal squamous cell carcinoma

value: primary tumor

value: non-HPV-driven (DNA+RNA-)

value: B


title: Tu7


title: CON4

source_name: CD34+ normal

treatment_protocol: freshly isolated bone marrow cells

value: bone marrow

tag: disease state

value: normal


title: CON3


title: shRNA B

source_name: CD34+ BM cells, control shRNA

value: shRNA A-D


title: shRNA C


title: no shRNA

source_name: CD34+ BM cells, untreated


title: shRNA A


title: shRNA 3

value: shRNA 1-8


title: Tu2

description:
Group A (HPV negative) tumor sample 2 out of 5, co-hybridized with the same healthy control
DNA-MCIp enriched genomic DNA

value: negative (DNA-RNA-)

value: A


title: Tu1

description:
Group A (HPV negative) tumor sample 1 out of 5, co-hybridized with one, unique healthy control
DNA-MCIp enriched genomic DNA

value: healthy individual

value: oral mucosa


title: CON2


title: shRNA 2


title: shRNA D


title: shRNA 1


title: MDS25

source_name: CD34+ MDS

value: myelodysplastic syndrome


title: Tu3

description:
Group A (HPV negative) tumor sample 3 out of 5, co-hybridized with the same healthy control
DNA-MCIp enriched genomic DNA

value: negative


title: MDS24


title: MDS20


title: MDS26


title: MDS22


title: MDS23


title: MDS21


title: CON1


title: MDS19


title: MDS17


title: MDS16


title: MDS18


title: MDS15


title: MDS12


title: MDS13


title: MDS7


title: MDS8


title: MDS9


title: MDS2


title: MDS6


title: MDS11


title: MDS4


title: MDS5


title: MDS3


title: MDS10


title: MDS14


title: MDS1


title: Tobacco-CMV-129Q-2

city: Sakai

first: Tomofumi

last: MOCHIZUKI

state: Osaka

address: 1-1, Gakuen-cho, Naka-ku

department: Graduate School of Life and Environmental Sciences

country: Japan

institute: Osaka Prefecture University

hyb_protocol: 1.65 μg Cy3-labeled fragmented cRNA in hybridization buffer was hybridized overnight (17 h, 65˚C) to Agilent Whole Tobacco Genome Oligo Microarrays 4x44K. Finally, the microarrays were washed once with the Agilent Gene Expression Wash Buffer 1 for 1 min at room temperature followed by a second wash with Agilent Gene Expression Wash Buffer 2 for 1 min at 37˚C. The last washing step was performed with acetonitrile.

scan_protocol: Fluorescence signals were detected using Agilent’s Microarray Scanner System (Agilent Technologies).

data_processing: The Agilent Feature Extraction Software (FES) was used to read out and process the microarray image files.

organism: Nicotiana tabacum

source_name: Tobacco Leaf CMV-129Q-inoculation

label_protocol: For the linear T7-based amplification step, 100 ng of each total RNA sample was used. To produce Cy3-labeled cRNA, the RNA samples were amplified and labeled using the Agilent Low Input Quick Amp Labeling Kit (Agilent Technologies) following the manufacturer’s protocol. Yields of cRNA and the dye-incorporation rate were measured with the ND-1000 Spectrophotometer (NanoDrop Technologies).

growth_protocol: The largest leaf of five leaf stages of tobacco (Nicotiana tabacum cv. Samsun) was mechanically inoculated with purified virus (100 μg/ml in phosphate buffer) or phosphate buffer only (mock control). For microarray analysis, four individual tobacco plants were used per each biological replication and three biological replications were prepared. The inoculated plants were grown in a growth chamber with a 16 h light (25 ˚C) / 8 h dark (22 ˚C) cycle.

extract_protocol: Total RNA was extracted from 100 mg leaf sample by RNeasy Plant Mini Kit with DNase I treatment (Qiagen) following the manufacturer's recommendations. RNA concentration and integrity were analyzed with an Agilent 2100 Bioanalyzer (Agilent Technologies).

value: Chlorotic tissue

value: leaf

tag: treatment


title: Tobacco-CMV-pepo-3

source_name: Tobacco Leaf CMV-pepo-inoculation

value: CMV-pepo-inoculation


title: Tobacco-CMV-129Q-3


title: Tobacco-CMV-129A-2

source_name: Tobacco Leaf CMV-129A-inoculation


title: Tobacco-CMV-129A-1


title: Tobacco-CMV-pepo-2


title: Tobacco-CMV-129Q-1


title: Tobacco-mock-2

source_name: Tobacco Leaf mock-inoculation

value: Healthy tissue

value: mock-inoculation


title: Tobacco-mock-1


title: Tobacco-CMV-129A-3


title: GMBI_LCL_883

city: Rochester

first: Stephen

middle: T

last: Turner

state: MN

address: 200 1st St SW

department: Internal Medicine, Nephrology, Hypertension

institute: Mayo Clinic

hyb_protocol: Labeled cRNAs were hybridized onto the Affymetrix Human Exon 1.0 ST Array according to Affymetrix protocol.

scan_protocol: Affymetrix Gene ChIP Scanner 3000 7G

data_processing:
Raw intensity data were processed using the Affymetrix Power Tool software (v.1.14.4). Probe summarization and probe set normalization were performed using Robust Multi-array Analysis (RMA), which included background correction, quantile normalization, log2-transformation, and probe set summarization.
probe group file: HuEx-1_0-st-v2.r2.pgf
meta-probeset file: HuEx-1_0-st-v2.r2.dt1.hg18.core.mps

source_name: Lymphoblastoid cell line

label_protocol: One μg of RNA was labeled using the WT Expression labeling assay

growth_protocol: Cell lines established from peripheral blood samples by Epstein-Barr virus transformation

extract_protocol: Standard RNA extraction protocol using Trizol. RNA quality was assessed using the Agilent 2100 Bioanalyzer (Agilent Technologies Inc., Foster City, CA) and quantified by spectrophotometry using the Nanodrop ND-1000 (Nanodrop Inc., Wilmington, DE). All RNA samples used in the present study yielded both anA260/A280 absorbance ratio greater than 2.0 and a RNA Integrity Number (RIN) ≥ 8.

tag: age (yrs)

value: female

tag: tissue source

value: peripheral blood


title: GMBI_LCL_878


title: GMBI_LCL_875


title: GMBI_LCL_882

value: male


title: Tobacco-CMV-pepo-1


title: GMBI_LCL_873


title: GMBI_LCL_876


title: Tobacco-mock-3


title: GMBI_LCL_871


title: GMBI_LCL_881


title: GMBI_LCL_872


title: GMBI_LCL_868


title: GMBI_LCL_877


title: GMBI_LCL_880


title: GMBI_LCL_879


title: GMBI_LCL_863


title: GMBI_LCL_870


title: GMBI_LCL_869


title: GMBI_LCL_874


title: GMBI_LCL_861


title: Tu5

description:
Group A (HPV negative) tumor sample 5 out of 5, co-hybridized with the same healthy control
DNA-MCIp enriched genomic DNA

value: Male

value: oropharyngeal squamous cell carcinoma

tag: clinical entity

tag: tumor status

value: primary tumor

source_name: normal oral mucosa


title: Mycobacterium_marinum_mma20_6dpi_rep1

description:
Biological replicate 1 of 3: Mycobacterium marinum mma20 vs PBS injected control fish at 6dpi
test_252043010004_S01_GE2-v5_95_Feb07_2_2.txt.txt
Sample 8

value: Adult zebrafish

tag: infected with

value: Mycobacterium marinum strain Mma20

tag: time point

value: 6 days post infection

value: PBS (control)


title: GMBI_LCL_862


title: GMBI_LCL_865


title: GMBI_LCL_864


title: GMBI_LCL_866


title: GMBI_LCL_860


title: GMBI_LCL_858


title: GMBI_LCL_859


title: GMBI_LCL_867


title: GMBI_LCL_856


title: GMBI_LCL_854


title: GMBI_LCL_855


title: GMBI_LCL_847


title: GMBI_LCL_848


title: GMBI_LCL_857


title: GMBI_LCL_850


title: GMBI_LCL_852


title: GMBI_LCL_849


title: GMBI_LCL_851


title: GMBI_LCL_853


title: GMBI_LCL_846


title: GMBI_LCL_845


title: GMBI_LCL_836


title: GMBI_LCL_839


title: GMBI_LCL_844


title: GMBI_LCL_840


title: GMBI_LCL_831


title: GMBI_LCL_833


title: GMBI_LCL_841


title: GMBI_LCL_842


title: GMBI_LCL_838


title: GMBI_LCL_830


title: GMBI_LCL_837


title: GMBI_LCL_834


title: GMBI_LCL_829


title: GMBI_LCL_828


title: GMBI_LCL_843


title: GMBI_LCL_824


title: GMBI_LCL_826


title: GMBI_LCL_822


title: GMBI_LCL_835


title: GMBI_LCL_823


title: GMBI_LCL_821


title: GMBI_LCL_827


title: GMBI_LCL_825


title: GMBI_LCL_819


title: GMBI_LCL_816


title: GMBI_LCL_817


title: GMBI_LCL_813


title: GMBI_LCL_811


title: GMBI_LCL_812


title: GMBI_LCL_809


title: GMBI_LCL_818


title: GMBI_LCL_820


title: GMBI_LCL_815


title: GMBI_LCL_808


title: GMBI_LCL_807


title: GMBI_LCL_810


title: GMBI_LCL_806


title: GMBI_LCL_803


title: GMBI_LCL_804


title: GMBI_LCL_805


title: GMBI_LCL_814


title: GMBI_LCL_802


title: GMBI_LCL_800


title: GMBI_LCL_799


title: GMBI_LCL_796


title: GMBI_LCL_798


title: GMBI_LCL_795


title: GMBI_LCL_794


title: GMBI_LCL_797


title: GMBI_LCL_793


title: GMBI_LCL_791


title: GMBI_LCL_789


title: GMBI_LCL_788


title: GMBI_LCL_787


title: GMBI_LCL_792


title: GMBI_LCL_783


title: GMBI_LCL_801


title: GMBI_LCL_785


title: GMBI_LCL_782


title: GMBI_LCL_784


title: GMBI_LCL_790


title: GMBI_LCL_779


title: GMBI_LCL_775


title: GMBI_LCL_781


title: GMBI_LCL_778


title: GMBI_LCL_777


title: GMBI_LCL_780


title: GMBI_LCL_786


title: GMBI_LCL_774


title: GMBI_LCL_773


title: GMBI_LCL_772


title: GMBI_LCL_776


title: GMBI_LCL_767


title: GMBI_LCL_771


title: GMBI_LCL_768


title: GMBI_LCL_770


title: GMBI_LCL_766


title: GMBI_LCL_769


title: GMBI_LCL_762


title: GMBI_LCL_763


title: GMBI_LCL_760


title: GMBI_LCL_764


title: GMBI_LCL_754


title: GMBI_LCL_752


title: GMBI_LCL_756


title: GMBI_LCL_758


title: GMBI_LCL_747


title: GMBI_LCL_748


title: GMBI_LCL_746


title: GMBI_LCL_761


title: GMBI_LCL_757


title: GMBI_LCL_750


title: GMBI_LCL_753


title: GMBI_LCL_759


title: GMBI_LCL_749


title: GMBI_LCL_751


title: GMBI_LCL_744


title: GMBI_LCL_743


title: GMBI_LCL_739


title: GMBI_LCL_741


title: GMBI_LCL_755


title: GMBI_LCL_738


title: GMBI_LCL_745


title: GMBI_LCL_742


title: GMBI_LCL_765


title: GMBI_LCL_740


title: GMBI_LCL_737


title: GMBI_LCL_729


title: GMBI_LCL_728


title: GMBI_LCL_734


title: GMBI_LCL_733


title: GMBI_LCL_726


title: GMBI_LCL_736


title: GMBI_LCL_725


title: GMBI_LCL_731


title: GMBI_LCL_730


title: GMBI_LCL_735


title: GMBI_LCL_723


title: GMBI_LCL_722


title: GMBI_LCL_727


title: GMBI_LCL_719


title: GMBI_LCL_732


title: GMBI_LCL_714


title: GMBI_LCL_721


title: GMBI_LCL_713


title: GMBI_LCL_712


title: GMBI_LCL_724


title: GMBI_LCL_720


title: GMBI_LCL_711


title: GMBI_LCL_716


title: GMBI_LCL_832


title: GMBI_LCL_717


title: GMBI_LCL_718


title: GMBI_LCL_710


title: GMBI_LCL_709


title: GMBI_LCL_706


title: GMBI_LCL_697


title: GMBI_LCL_698


title: GMBI_LCL_695


title: GMBI_LCL_696


title: GMBI_LCL_701


title: GMBI_LCL_708


title: GMBI_LCL_707


title: GMBI_LCL_690


title: GMBI_LCL_699


title: GMBI_LCL_704


title: GMBI_LCL_692


title: GMBI_LCL_693


title: GMBI_LCL_691


title: GMBI_LCL_702


title: GMBI_LCL_689


title: GMBI_LCL_703


title: GMBI_LCL_694


title: GMBI_LCL_705


title: GMBI_LCL_688


title: GMBI_LCL_684


title: GMBI_LCL_686


title: GMBI_LCL_682


title: GMBI_LCL_687


title: GMBI_LCL_685


title: GMBI_LCL_679


title: GMBI_LCL_674


title: GMBI_LCL_670


title: GMBI_LCL_671


title: GMBI_LCL_678


title: GMBI_LCL_662


title: GMBI_LCL_669


title: GMBI_LCL_663


title: GMBI_LCL_681


title: GMBI_LCL_666


title: GMBI_LCL_715


title: GMBI_LCL_661


title: GMBI_LCL_668


title: GMBI_LCL_677


title: GMBI_LCL_667


title: GMBI_LCL_660


title: GMBI_LCL_673


title: GMBI_LCL_675


title: GMBI_LCL_664


title: GMBI_LCL_672


title: GMBI_LCL_676


title: GMBI_LCL_665


title: GMBI_LCL_659


title: GMBI_LCL_656


title: GMBI_LCL_658


title: GMBI_LCL_657


title: GMBI_LCL_655


title: GMBI_LCL_653


title: GMBI_LCL_654


title: GMBI_LCL_652


title: GMBI_LCL_650


title: GMBI_LCL_648


title: GMBI_LCL_644


title: GMBI_LCL_680


title: GMBI_LCL_637


title: GMBI_LCL_631


title: GMBI_LCL_635


title: GMBI_LCL_642


title: GMBI_LCL_630


title: GMBI_LCL_634


title: GMBI_LCL_643


title: GMBI_LCL_647


title: GMBI_LCL_638


title: GMBI_LCL_629


title: GMBI_LCL_645


title: GMBI_LCL_646


title: GMBI_LCL_641


title: GMBI_LCL_633


title: GMBI_LCL_700


title: GMBI_LCL_651


title: GMBI_LCL_640


title: GMBI_LCL_628


title: GMBI_LCL_639


title: GMBI_LCL_649


title: GMBI_LCL_636


title: GMBI_LCL_632


title: GMBI_LCL_626


title: GMBI_LCL_627


title: GMBI_LCL_625


title: GMBI_LCL_624


title: GMBI_LCL_619


title: GMBI_LCL_620


title: GMBI_LCL_617


title: GMBI_LCL_615


title: GMBI_LCL_616


title: GMBI_LCL_603


title: GMBI_LCL_611


title: GMBI_LCL_602


title: GMBI_LCL_609


title: GMBI_LCL_600


title: GMBI_LCL_618


title: GMBI_LCL_623


title: GMBI_LCL_606


title: GMBI_LCL_612


title: GMBI_LCL_610


title: GMBI_LCL_601


title: GMBI_LCL_621


title: GMBI_LCL_622


title: GMBI_LCL_598


title: GMBI_LCL_614


title: GMBI_LCL_608


title: GMBI_LCL_607


title: GMBI_LCL_605


title: GMBI_LCL_604


title: GMBI_LCL_613


title: GMBI_LCL_597


title: GMBI_LCL_593


title: GMBI_LCL_594


title: GMBI_LCL_595


title: GMBI_LCL_596


title: GMBI_LCL_599


title: GMBI_LCL_592


title: GMBI_LCL_683


title: GMBI_LCL_587


title: GMBI_LCL_591


title: GMBI_LCL_589


title: GMBI_LCL_588


title: GMBI_LCL_583


title: GMBI_LCL_581


title: GMBI_LCL_582


title: GMBI_LCL_584


title: GMBI_LCL_590


title: GMBI_LCL_579


title: GMBI_LCL_580


title: GMBI_LCL_585


title: GMBI_LCL_586


title: GMBI_LCL_575


title: GMBI_LCL_577


title: GMBI_LCL_572


title: GMBI_LCL_578


title: GMBI_LCL_573


title: GMBI_LCL_571


title: GMBI_LCL_569


title: GMBI_LCL_570


title: GMBI_LCL_568


title: GMBI_LCL_566


title: GMBI_LCL_567


title: GMBI_LCL_560


title: GMBI_LCL_559


title: GMBI_LCL_564


title: GMBI_LCL_563


title: GMBI_LCL_561


title: GMBI_LCL_562


title: GMBI_LCL_554


title: GMBI_LCL_565


title: GMBI_LCL_557


title: GMBI_LCL_576


title: GMBI_LCL_574


title: GMBI_LCL_555


title: GMBI_LCL_553


title: GMBI_LCL_558


title: GMBI_LCL_551


title: GMBI_LCL_552


title: GMBI_LCL_550


title: GMBI_LCL_556


title: GMBI_LCL_548


title: GMBI_LCL_547


title: GMBI_LCL_545


title: GMBI_LCL_543


title: GMBI_LCL_541


title: GMBI_LCL_542


title: GMBI_LCL_540


title: GMBI_LCL_531


title: GMBI_LCL_539


title: GMBI_LCL_537


title: GMBI_LCL_530


title: GMBI_LCL_533


title: GMBI_LCL_538


title: GMBI_LCL_529


title: GMBI_LCL_527


title: GMBI_LCL_544


title: GMBI_LCL_535


title: GMBI_LCL_534


title: GMBI_LCL_525


title: GMBI_LCL_546


title: GMBI_LCL_536


title: GMBI_LCL_528


title: GMBI_LCL_518


title: GMBI_LCL_549


title: GMBI_LCL_524


title: GMBI_LCL_532


title: GMBI_LCL_516


title: GMBI_LCL_514


title: GMBI_LCL_523


title: GMBI_LCL_519


title: GMBI_LCL_521


title: GMBI_LCL_515


title: GMBI_LCL_512


title: GMBI_LCL_522


title: GMBI_LCL_513


title: GMBI_LCL_520


title: GMBI_LCL_526


title: GMBI_LCL_511


title: GMBI_LCL_507


title: GMBI_LCL_502


title: GMBI_LCL_517


title: GMBI_LCL_500


title: GMBI_LCL_498


title: GMBI_LCL_508


title: GMBI_LCL_504


title: GMBI_LCL_497


title: GMBI_LCL_510


title: GMBI_LCL_506


title: GMBI_LCL_509


title: GMBI_LCL_501


title: GMBI_LCL_496


title: GMBI_LCL_494


title: GMBI_LCL_503


title: GMBI_LCL_505


title: GMBI_LCL_495


title: GMBI_LCL_493


title: GMBI_LCL_485


title: GMBI_LCL_486


title: GMBI_LCL_492


title: GMBI_LCL_499


title: GMBI_LCL_489


title: GMBI_LCL_482


title: GMBI_LCL_483


title: GMBI_LCL_484


title: GMBI_LCL_488


title: GMBI_LCL_491


title: GMBI_LCL_481


title: GMBI_LCL_478


title: GMBI_LCL_477


title: GMBI_LCL_470


title: GMBI_LCL_487


title: GMBI_LCL_476


title: GMBI_LCL_475


title: GMBI_LCL_479


title: GMBI_LCL_472


title: GMBI_LCL_471


title: GMBI_LCL_473


title: GMBI_LCL_469


title: GMBI_LCL_468


title: GMBI_LCL_467


title: GMBI_LCL_465


title: GMBI_LCL_474


title: GMBI_LCL_466


title: GMBI_LCL_480


title: GMBI_LCL_463


title: GMBI_LCL_459


title: GMBI_LCL_461


title: GMBI_LCL_460


title: GMBI_LCL_462


title: GMBI_LCL_458


title: GMBI_LCL_457


title: GMBI_LCL_456


title: GMBI_LCL_455


title: GMBI_LCL_454


title: GMBI_LCL_453


title: GMBI_LCL_448


title: GMBI_LCL_450


title: GMBI_LCL_444


title: GMBI_LCL_446


title: GMBI_LCL_464


title: GMBI_LCL_452


title: GMBI_LCL_449


title: GMBI_LCL_442


title: GMBI_LCL_440


title: GMBI_LCL_438


title: GMBI_LCL_445


title: GMBI_LCL_447


title: GMBI_LCL_451


title: GMBI_LCL_437


title: GMBI_LCL_441


title: GMBI_LCL_443


title: GMBI_LCL_439


title: GMBI_LCL_433


title: GMBI_LCL_431


title: GMBI_LCL_434


title: GMBI_LCL_428


title: GMBI_LCL_426


title: GMBI_LCL_425


title: GMBI_LCL_423


title: GMBI_LCL_424


title: GMBI_LCL_427


title: GMBI_LCL_435


title: GMBI_LCL_436


title: GMBI_LCL_432


title: GMBI_LCL_411


title: GMBI_LCL_418


title: GMBI_LCL_430


title: GMBI_LCL_421


title: GMBI_LCL_420


title: GMBI_LCL_412


title: GMBI_LCL_414


title: GMBI_LCL_415


title: GMBI_LCL_419


title: GMBI_LCL_413


title: GMBI_LCL_408


title: GMBI_LCL_409


title: GMBI_LCL_401


title: GMBI_LCL_400


title: GMBI_LCL_405


title: GMBI_LCL_399


title: GMBI_LCL_398


title: GMBI_LCL_410


title: GMBI_LCL_403


title: GMBI_LCL_407


title: GMBI_LCL_396


title: GMBI_LCL_397


title: GMBI_LCL_404


title: GMBI_LCL_402


title: GMBI_LCL_387


title: GMBI_LCL_490


title: GMBI_LCL_395


title: GMBI_LCL_388


title: GMBI_LCL_390


title: GMBI_LCL_422


title: GMBI_LCL_389


title: GMBI_LCL_393


title: GMBI_LCL_394


title: GMBI_LCL_386


title: GMBI_LCL_385


title: GMBI_LCL_381


title: GMBI_LCL_376


title: GMBI_LCL_378


title: GMBI_LCL_382


title: GMBI_LCL_380


title: GMBI_LCL_377


title: GMBI_LCL_391


title: GMBI_LCL_374


title: GMBI_LCL_383


title: GMBI_LCL_379


title: GMBI_LCL_368


title: GMBI_LCL_373


title: GMBI_LCL_366


title: GMBI_LCL_370


title: GMBI_LCL_367


title: GMBI_LCL_375


title: GMBI_LCL_371


title: GMBI_LCL_364


title: GMBI_LCL_372


title: GMBI_LCL_363


title: GMBI_LCL_365


title: GMBI_LCL_369


title: GMBI_LCL_358


title: GMBI_LCL_359


title: GMBI_LCL_362


title: GMBI_LCL_361


title: GMBI_LCL_355


title: GMBI_LCL_360


title: GMBI_LCL_356


title: GMBI_LCL_354


title: GMBI_LCL_351


title: GMBI_LCL_353


title: GMBI_LCL_349


title: GMBI_LCL_429


title: GMBI_LCL_347


title: GMBI_LCL_344


title: GMBI_LCL_341


title: GMBI_LCL_339


title: GMBI_LCL_343


title: GMBI_LCL_350


title: GMBI_LCL_345


title: GMBI_LCL_357


title: GMBI_LCL_342


title: GMBI_LCL_346


title: GMBI_LCL_338


title: GMBI_LCL_336


title: GMBI_LCL_334


title: GMBI_LCL_335


title: GMBI_LCL_416


title: GMBI_LCL_406


title: GMBI_LCL_384


title: GMBI_LCL_329


title: GMBI_LCL_326


title: GMBI_LCL_330


title: GMBI_LCL_328


title: GMBI_LCL_320


title: GMBI_LCL_331


title: GMBI_LCL_327


title: GMBI_LCL_332


title: GMBI_LCL_324


title: GMBI_LCL_333


title: GMBI_LCL_352


title: GMBI_LCL_318


title: GMBI_LCL_322


title: GMBI_LCL_325


title: GMBI_LCL_417


title: GMBI_LCL_319


title: GMBI_LCL_317


title: GMBI_LCL_321


title: GMBI_LCL_314


title: GMBI_LCL_323


title: GMBI_LCL_392


title: GMBI_LCL_316


title: GMBI_LCL_348


title: GMBI_LCL_315


title: GMBI_LCL_311


title: GMBI_LCL_304


title: GMBI_LCL_337


title: GMBI_LCL_305


title: GMBI_LCL_299


title: GMBI_LCL_307


title: GMBI_LCL_340


title: GMBI_LCL_306


title: GMBI_LCL_300


title: GMBI_LCL_309


title: GMBI_LCL_298


title: GMBI_LCL_312


title: GMBI_LCL_295


title: GMBI_LCL_303


title: GMBI_LCL_302


title: GMBI_LCL_301


title: GMBI_LCL_308


title: GMBI_LCL_296


title: GMBI_LCL_294


title: GMBI_LCL_292


title: GMBI_LCL_310


title: GMBI_LCL_290


title: GMBI_LCL_293


title: GMBI_LCL_291


title: GMBI_LCL_289


title: GMBI_LCL_313


title: GMBI_LCL_288


title: GMBI_LCL_286


title: GMBI_LCL_287


title: GMBI_LCL_297


title: GMBI_LCL_285


title: GMBI_LCL_284


title: GMBI_LCL_277


title: GMBI_LCL_282


title: GMBI_LCL_280


title: GMBI_LCL_274


title: GMBI_LCL_269


title: GMBI_LCL_273


title: GMBI_LCL_270


title: GMBI_LCL_266


title: GMBI_LCL_278


title: GMBI_LCL_275


title: GMBI_LCL_271


title: GMBI_LCL_272


title: GMBI_LCL_276


title: GMBI_LCL_261


title: GMBI_LCL_260


title: GMBI_LCL_267


title: GMBI_LCL_279


title: GMBI_LCL_265


title: GMBI_LCL_256


title: GMBI_LCL_281


title: GMBI_LCL_259


title: GMBI_LCL_257


title: GMBI_LCL_283


title: GMBI_LCL_262


title: GMBI_LCL_268


title: GMBI_LCL_258


title: GMBI_LCL_264


title: GMBI_LCL_254


title: GMBI_LCL_253


title: GMBI_LCL_263


title: GMBI_LCL_255


title: GMBI_LCL_249


title: GMBI_LCL_250


title: GMBI_LCL_245


title: GMBI_LCL_243


title: GMBI_LCL_242


title: GMBI_LCL_252


title: GMBI_LCL_240


title: GMBI_LCL_235


title: GMBI_LCL_237


title: GMBI_LCL_241


title: GMBI_LCL_246


title: GMBI_LCL_234


title: GMBI_LCL_251


title: GMBI_LCL_236


title: GMBI_LCL_244


title: GMBI_LCL_238


title: GMBI_LCL_247


title: GMBI_LCL_231


title: GMBI_LCL_239


title: GMBI_LCL_230


title: GMBI_LCL_232


title: GMBI_LCL_248


title: GMBI_LCL_225


title: GMBI_LCL_224


title: GMBI_LCL_223


title: GMBI_LCL_226


title: GMBI_LCL_227


title: GMBI_LCL_222


title: GMBI_LCL_220


title: GMBI_LCL_218


title: GMBI_LCL_233


title: GMBI_LCL_219


title: GMBI_LCL_221


title: GMBI_LCL_228


title: GMBI_LCL_229


title: GMBI_LCL_216


title: GMBI_LCL_209


title: GMBI_LCL_208


title: GMBI_LCL_217


title: GMBI_LCL_212


title: GMBI_LCL_201


title: GMBI_LCL_205


title: GMBI_LCL_214


title: GMBI_LCL_204


title: GMBI_LCL_213


title: GMBI_LCL_210


title: GMBI_LCL_206


title: GMBI_LCL_215


title: GMBI_LCL_207


title: GMBI_LCL_211


title: GMBI_LCL_197


title: GMBI_LCL_203


title: GMBI_LCL_202


title: GMBI_LCL_199


title: GMBI_LCL_200


title: GMBI_LCL_198


title: GMBI_LCL_189


title: GMBI_LCL_195


title: GMBI_LCL_194


title: GMBI_LCL_190


title: GMBI_LCL_193


title: GMBI_LCL_196


title: GMBI_LCL_192


title: GMBI_LCL_188


title: GMBI_LCL_186


title: GMBI_LCL_187


title: GMBI_LCL_179


title: GMBI_LCL_181


title: GMBI_LCL_184


title: GMBI_LCL_180


title: GMBI_LCL_173


title: GMBI_LCL_191


title: GMBI_LCL_185


title: GMBI_LCL_178


title: GMBI_LCL_183


title: GMBI_LCL_182


title: GMBI_LCL_175


title: GMBI_LCL_177


title: GMBI_LCL_174


title: GMBI_LCL_172


title: GMBI_LCL_167


title: GMBI_LCL_164


title: GMBI_LCL_176


title: GMBI_LCL_170


title: GMBI_LCL_171


title: GMBI_LCL_168


title: GMBI_LCL_163


title: GMBI_LCL_159


title: GMBI_LCL_160


title: GMBI_LCL_158


title: GMBI_LCL_162


title: GMBI_LCL_169


title: GMBI_LCL_151


title: GMBI_LCL_165


title: GMBI_LCL_157


title: GMBI_LCL_155


title: GMBI_LCL_149


title: GMBI_LCL_156


title: GMBI_LCL_148


title: GMBI_LCL_150


title: GMBI_LCL_161


title: GMBI_LCL_152


title: GMBI_LCL_153


title: GMBI_LCL_154


title: GMBI_LCL_146


title: GMBI_LCL_145


title: GMBI_LCL_142


title: GMBI_LCL_141


title: GMBI_LCL_144


title: GMBI_LCL_166


title: GMBI_LCL_140


title: GMBI_LCL_143


title: GMBI_LCL_138


title: GMBI_LCL_134


title: GMBI_LCL_135


title: GMBI_LCL_136


title: GMBI_LCL_147


title: GMBI_LCL_137


title: GMBI_LCL_125


title: GMBI_LCL_129


title: GMBI_LCL_133


title: GMBI_LCL_131


title: GMBI_LCL_130


title: GMBI_LCL_122


title: GMBI_LCL_120


title: GMBI_LCL_123


title: GMBI_LCL_124


title: GMBI_LCL_117


title: GMBI_LCL_132


title: GMBI_LCL_128


title: GMBI_LCL_121


title: GMBI_LCL_116


title: GMBI_LCL_126


title: GMBI_LCL_112


title: GMBI_LCL_114


title: GMBI_LCL_113


title: GMBI_LCL_119


title: GMBI_LCL_118


title: GMBI_LCL_111


title: GMBI_LCL_110


title: GMBI_LCL_109


title: GMBI_LCL_115


title: GMBI_LCL_108


title: GMBI_LCL_107


title: GMBI_LCL_106


title: GMBI_LCL_105


title: GMBI_LCL_139


title: GMBI_LCL_104


title: GMBI_LCL_100


title: GMBI_LCL_102


title: GMBI_LCL_101


title: GMBI_LCL_103


title: GMBI_LCL_098