title: d.hansenii_control_30min_rep1

status: Public on Mar 15 2008

city: San Juan

first: Sandra

last: Pena de Ortiz

state: PR

address: Gandara Ave., JGD Bldg. Rooms 108, 204

department: Department of Biology

country: Puerto Rico

institute: University of Puerto Rico

description: We verified the uniformity and reproducibility of the arrays, and the correlation curves of the “spike ins” and confirmed that no problems arose during the microarray procedures.  Then, the median intensity values were used for further analysis.

hyb_protocol: The hybridization and washing protocol were done as recommended by the manufacturer (Two-Color Microarray-Based Gene Expression Analysis Protocol, Version 5.5, February 2007, from Agilent Technologies).  Briefly, 300 ng of Cy-3 and Cy5-labeled cRNAs were combined with 10 X Blocking Agent, and 25 X Fragmentation Buffer at 60˚C for 30 min.  The reaction was stopped with 2 X GEx Hybridization Buffer HI-RPM and hybridized to the oligo microarray for 17 hrs at 60˚C with continuing rotation (10 rpm). The reagents used for this step were from the Gene Expression Hybridization Kit. After hybridization, slides were washed during 1 min at RT using the GE Wash Solution 1, and 1 min at 37˚C with GE Wash Solution 2.  Next, slides were washed for 1 min with acetonitrile (Sigma).  A final washing was done using a Stabilization and Drying Solution for 30 sec.

scan_protocol: Data images were obtained by laser-based scanning using the Microarray Scanner and the Feature Extraction Software (v8.1) both from Agilent.  Scanning parameters were as recommended by the manufacturer.  Briefly, the resolution settings for scanning were 5 micrometers using minimum (10%) and maximum (100%) Photo Multiplier Tube detection sensitivities.  An initial assessment of the array was performed using the information from the Quality Report extracted from the Feature Extraction Software (v8.1).

data_processing:
The analysis of the microarray data consisted of the following steps: 1) within-array and between-array normalization; 2) fitting the data to a linear model; and 3) computing differential gene expression. Normalization of the data was as previously described (Smyth and Speed 2003).  Briefly, in the “within-array normalization” analyses the M-values were normalized for each array separately using a global loess method without background correction, whereas in the “between-array normalization” analyses log-ratios were normalized to be comparable across arrays using the Aquantile method.  Normalization success was determined using MA plot graphical representations. These MA-plots depict the log-ratio of Red versus Green (the M value in the y axis) against the overall intensity of each spot (the A value in the x axis). The log-ratio is represented by the M-value, M = log2(R) − log2(G), and the overall intensity by the A-value, A = (log2(R) +log2(G))/2. Then, the data was fitted to a linear model generating design and contrast matrices to estimate the M values.  RNA sources and main comparisons performed in the array were specified in the design and contrast matrices, respectively. In this experiment, RNA sources from different time points after salt exposure were included (at 0, 30 min, 3 hrs, and 6 hrs).  Dye swapping was done to correct for differences in the incorporation of the dyes.  The main comparisons were done for each time point against the control sample (defined at 0 hrs after salt exposure). Then, the linear model computed a coefficient of expression corresponding to the log2 ratios of the various comparisons.
Finally, to find genes with significant changes in expression among the groups, an Empirical Bayes (eBayes) moderated statistic was applied to the data as previously described (Smith et al 2006).  Multiple test correction was applied to the p-values computed by eBayes statistical analysis for adjustment of the false discovery rate to p < 0.05, using Benjamini and Hochberg’s as well as nested F statistics. Significant genes were ranked according to the log odds factor (Bayes Factor).   The computed factor gives information related to the probability of a gene of being differentially expressed.  All the procedures specified above were performed using the limma software from Bioconductor (Smyth, 2005).  Gene annotation for each of the significant genes was obtained from GenBank.  Cluster analysis graphs were created to identify patterns of gene expression of the significant genes using the coefficient expression values obtained from the eBayes statistical analysis and exported to GraphPAD software (version 4).

organism: Debaryomyces hansenii

source_name: Debaryomyces hansenii control

label_protocol: Total RNA from control or experimental samples was linearly amplified and labeled using two different fluorescent dyes: cyanine 3-CTP (Cy-3), and cyanine 5-CTP (Cy-5, Amersham Biosciences) as described in the Agilent Low RNA Input Linear Amplification Kit.  Briefly, in a first step, double stranded cDNA (dscDNA) was generated using the Moloney Murine Leukaemia virus reverse transcriptase (MMLV-RT).  In the first reaction, 1 μg of total RNA was mixed with T7 promoter primers and the diluted Spike-in Mix (A or B), incubated at 65˚C during 10 min and placed on ice for 5 min.  The denatured primers and total RNA were mixed with the following reagents: 5 X First Strand Buffer, 0.1 M DTT, 10 mM dNTP mix, MMLV-RT, and RNaseOUT. This reaction mix was incubated at 40˚C for 2 hrs, then at 65˚C for 15 min, and finally placed on ice for 5 min. Next, synthesis and labeling of cRNA was performed simultaneously mixing the prepared reaction (containing the dscDNA) with a transcription Master Mix: (4 X Transcription Buffer, 0.1 M DTT, NTP mix, 50% PEG, RNAseOUT, inorganic pyrophosphatase, T7 RNA polymerase, and Cy-3 or Cy-5 (10 mM, each). The reaction was incubated at 40˚C for 2 hrs. Amplified fluorescent cRNA probes were purified using the Qiagen's RNeasy-mini spin columns. Finally, fluorescently labeled cRNA samples were analyzed for yield and dye incorporation using the ND-1000 Spectrophotometer (NanoDrop Technologies, Rockland, DE). Only samples that presented a concentration of more than 8 pmol/mg (a measure representing efficient dye incorporation) were used for hybridization as recommended by the manufacturer.

growth_protocol: Cells were grown as batch cultures in YPD (1% yeast extract, 2% peptone, 2% glucose) to an early log  phase (A600 of 8.0-9.0) at 30˚ C and shaken at 200-250 rpm.

extract_protocol: Total RNA was isolated as described in the RNAeasy Mini Kit protocol from Qiagen (California). RNA concentration and integrity were detected using the Agilent's 2100 Bioanalyzer with an RNA 6000 Nano LabChip® Kit.  Confirmatory readings were performed using the ND-1000 Spectrophotometer (NanoDrop Technologies, Rockland, DE).

treatment_protocol: An aliquot of cells was collected for the time 0 (control) and frozen at -80˚ C until RNA preparation.

tag: The Debaryomyces hansenii strain used in this study was Debaryomyces hansenii var. hansenii (CBS 767) obtained from the Collection de Levures d'Intérêt Biotechnoloque (Thiverval-Grignon, France).

source_name: Debaryomyces hansenii Osmotic stress 30 minutes

treatment_protocol: Osmotic stress was applied by addition of 2M NaCl after which samples were taken at 30 min. Cells were collected by centrifugation for 5 min at 5000 rpm and frozen at   -80˚C.


title: C2C12 HDAC4 cell-1 RNA

status: Public on Mar 25 2008

type: RNA

city: Durham

first: Zachary

middle: Conrad

last: Hartman

state: NC

address: Research Drive MSRB rm 414

department: Surgery

country: USA

institute: Duke University

description: All microarray procedures performed by Duke University Microarray Core Facility.

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

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

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

molecule: total RNA

organism: Mus musculus

source_name: C2C12 C3H mouse myoblast cells RNA, HDAC4

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

growth_protocol: Sample is C2C12 cells stably selected with a HDAC4-Neo encoding retrovirus that were grown to 90% confluence and starved with 2% horse serum for 4 days.

extract_protocol: RNA isolation was accomplished by extracting RNA using TriReagent (Molecular Research Center, Inc.). The RNA (10 µg) was DNase treated using a DNA-free kit (Ambion) and assessed for quality with an Agilent Lab-on-a-Chip 2100 Bioanalyzer (Agilent Technologies, Palo Alto, USA).

source_name: Murine Reference RNA

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

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


title: d.hansenii_control_6h_rep1

source_name: Debaryomyces hansenii Osmotic stress 6 hours

treatment_protocol: Osmotic stress was applied by addition of 2M NaCl after which samples were taken at 6 hours. Cells were collected by centrifugation for 5 min at 5000 rpm and frozen at   -80˚C.


title: d.hansenii_control_6h_swap1


title: d.hansenii_control_3h_swap1

source_name: Debaryomyces hansenii Osmotic stress 3 hours

treatment_protocol: Osmotic stress was applied by addition of 2M NaCl after which samples were taken at 3 hours. Cells were collected by centrifugation for 5 min at 5000 rpm and frozen at   -80˚C.


title: d.hansenii_control_30min_swap1

treatment_protocol: Osmotic stress was applied by addition of 2M NaCl after which samples were taken at 30 minutes. Cells were collected by centrifugation for 5 min at 5000 rpm and frozen at   -80˚C.


title: C2C12 HDAC4 cell-3 RNA

tag: C2C12 C3H mouse myoblast cells RNA, HDAC4


title: d.hansenii_control_3h_rep1


title: C2C12 HDAC4 cell-2 RNA


title: RIP140 knockout 3

status: Public on Mar 31 2008

city: Heidelberg

first: Inka

last: Zschiedrich

address: Im NeuenheimerFeld 280

department: Molecular Metabolic Control

country: Germany

institute: German Cancer Research Center Heidelberg

description: RIP140 knockout  bone marrow macrophages

hyb_protocol: Hybridization was performed according to the manufactures instructions as described in the eukaryotic section of the GeneChip Expression Analysis Technical Manual (Affymetrix, 2007)

scan_protocol: Scanning was performed according to the manufactures instructions as described in the eukaryotic section of the GeneChip Expression Analysis Technical Manual (Affymetrix, 2007)

data_processing: Result files containing all relevant raw data were processed using the statistical Software SAS JMP7 Genomics3 (http://http://www.jmp.com/software/genomics/index.shtml). Raw fluorescence intensity values were normalized applying Mixed Model Normalization (Chu et al., 2002).

label: biotin

source_name: bone marrow macrophages

label_protocol: Labeling was performed according to the manufactures instructions as described in the eukaryotic section of the GeneChip Expression Analysis Technical Manual (Affymetrix, 2007)

extract_protocol: (Qiagen, Venlo, the Netherlands). Contaminating genomic DNA was removed with the RNase-free DNase set (Qiagen, Venlo, the Netherlands) according the manufactures instructions.

tag: RIP140 knockout  bone marrow macrophages


title: C2C12 Neo cell-3 RNA

source_name: C2C12 C3H mouse myoblast cells RNA, control (Neo)

growth_protocol: Sample is C2C12 cells stably selected with a Neo encoding retrovirus that were grown to 90% confluence and starved with 2% horse serum for 4 days.


title: C2C12 Neo cell-2 RNA

tag: C2C12 C3H mouse myoblast cells RNA, control (Neo)


title: primary_ALL_157

city: Memphis

first: William

middle: E

last: Evans

address: 332 N Lauderdale St

institute: St.Jude Children's Research Hospital

hyb_protocol: 15ug of labeled cRNA was fragmented and hybridized overnight at 45C to the selected chip. Hybridized cRNAs were washed and detected via streptavidin/phycoerythrin using the Affymetrix 450 Fluidics Station and recommended protocols.

scan_protocol: Results were visualized by laser scanner (Affymetrix GeneChip Scanner 3000).

organism: Homo sapiens

source_name: ALL cells from pediatric diagnostic bone marrow, methotrexate treated

label_protocol: 5-10ug of RNA was reverse transcribed to double-stranded (ds) cDNA using an oligo-dT primer coupled to a T7 promoter.  In vitro transcription from the ds cDNA was carried out using T7 polymerase and incorporating a biotinylated ribonucleotide analog.

extract_protocol: TriReagent (MRC)


title: wildtype 2

tag: wildtype bone marrow macrophages


title: primary_ALL_159


title: primary_ALL_153


title: primary_ALL_151


title: primary_ALL_161


title: primary_ALL_152


title: primary_ALL_150


title: C2C12 Neo cell-1 RNA


title: primary_ALL_156


title: primary_ALL_147


title: primary_ALL_146


title: primary_ALL_158


title: primary_ALL_149


title: primary_ALL_148


title: primary_ALL_154


title: primary_ALL_139


title: primary_ALL_144


title: primary_ALL_140


title: primary_ALL_142


title: primary_ALL_138


title: primary_ALL_137


title: primary_ALL_145


title: primary_ALL_136


title: primary_ALL_143


title: primary_ALL_141


title: primary_ALL_134


title: primary_ALL_135


title: primary_ALL_160


title: primary_ALL_131


title: primary_ALL_130


title: primary_ALL_127


title: primary_ALL_128


title: primary_ALL_126


title: primary_ALL_95


title: primary_ALL_125


title: primary_ALL_93


title: primary_ALL_94


title: primary_ALL_124


title: primary_ALL_91


title: primary_ALL_133


title: primary_ALL_129


title: primary_ALL_90


title: primary_ALL_81


title: primary_ALL_85


title: primary_ALL_82


title: primary_ALL_87


title: primary_ALL_84


title: primary_ALL_73


title: primary_ALL_89


title: primary_ALL_76


title: primary_ALL_72


title: primary_ALL_78


title: primary_ALL_69


title: primary_ALL_111


title: primary_ALL_80


title: primary_ALL_75


title: primary_ALL_77


title: primary_ALL_68


title: primary_ALL_132


title: primary_ALL_66


title: primary_ALL_71


title: primary_ALL_67


title: primary_ALL_63


title: primary_ALL_86


title: primary_ALL_74


title: primary_ALL_62


title: primary_ALL_92


title: primary_ALL_83


title: primary_ALL_65


title: primary_ALL_88


title: primary_ALL_79


title: primary_ALL_58


title: primary_ALL_52


title: primary_ALL_57


title: primary_ALL_54


title: primary_ALL_60


title: primary_ALL_59


title: primary_ALL_51


title: primary_ALL_70


title: primary_ALL_55


title: primary_ALL_61


title: primary_ALL_50


title: primary_ALL_56


title: primary_ALL_47


title: primary_ALL_49


title: primary_ALL_48


title: primary_ALL_53


title: primary_ALL_64


title: primary_ALL_46


title: primary_ALL_42


title: primary_ALL_43


title: primary_ALL_44


title: primary_ALL_38


title: primary_ALL_41


title: primary_ALL_45


title: primary_ALL_36


title: primary_ALL_40


title: primary_ALL_28


title: primary_ALL_34


title: primary_ALL_24


title: primary_ALL_20


title: primary_ALL_37


title: primary_ALL_31


title: primary_ALL_33


title: primary_ALL_22


title: primary_ALL_21


title: primary_ALL_25


title: primary_ALL_32


title: primary_ALL_23


title: primary_ALL_35


title: primary_ALL_29


title: primary_ALL_39


title: primary_ALL_27


title: primary_ALL_17


title: primary_ALL_26


title: primary_ALL_19


title: primary_ALL_13


title: primary_ALL_14


title: primary_ALL_9


title: primary_ALL_8


title: primary_ALL_11


title: primary_ALL_15


title: primary_ALL_16


title: primary_ALL_4


title: primary_ALL_1


title: primary_ALL_2


title: primary_ALL_7


title: tetO-TBF1/tbf1 vs TBF1/tbf1 profiling 5h-tetracycline replicate 2

status: Public on Mar 14 2008

city: Montreal

first: Hugo

last: Lavoie

state: Quebec

address: 6100 Royalmount

department: Genetics

country: Canada

institute: CNRC-IRB

description: Arrays are organized in 48 sub-arrays containing 280 spots each.

hyb_protocol: The microarray slides were pre-hybridized for 2 hours at 42°C with DIGeasy hybridization buffer (Roche) containing 0.5 ug/ul of yeast tRNA (Roche) and 0.5 ug/ul of salmon sperm DNA (Invitrogen) and subsequently washed with 0.1X SSC and air dried. The slides were then hybridized with labeled cDNAs overnight at 42°C in DIGeasy hybridization buffer with yeast tRNA and salmon sperm DNA. The slides were washed twice with SSC-0.2% SDS, once with 0.1X SSC-0.2% SDS and 3 times with 0.1X SSC. A final wash with isopropanol was performed and slides were air-dried.

scan_protocol: Slides were scanned with a ScanArray 5000 scanner (Perkin Elmer) at 10-µm resolution.

data_processing: Signal intensity was quantified with QuantArray software (Perkin Elmer) and final Lowess normalization and inspection of the data was done with the GeneSpring package GX v.7.3 (Agilent Technologies).

organism: Candida albicans

source_name: tetO-TBF1/tbf1 treated with tetracycline (100ug/ml) for 5h

label_protocol: 20 µg of total RNA was reverse transcribed using oligo(dT)21 in the presence of Cy5-dCTP (Perkin-Elmer-Cetus/NEN) and Superscript II reverse transcriptase (Invitrogen). Thereafter, template RNA was degraded by adding 2.5 units of RNase H (USB) and 1 ug of RNase A (Pharmacia) followed by incubation for 15 min at 37°C. The labeled cDNAs were purified with QIAquick PCR Purification Kit (Qiagen).

growth_protocol: YPD medium to OD600 of 1.0.

extract_protocol: Total RNA was extracted by the hot phenol extraction method (Carlson and Botstein, 1982) with the difference that glass beads (Sigma) were added to samples. Total RNA was subsequently cleaned up on RNeasy columns (Qiagen).

treatment_protocol: Tetracycline was added at 100ug/ml for 5h.

tag: Strain

source_name: TBF1/tbf1 Heterozygous strain treated with tetracycline (100ug/ml) for 5h

label_protocol: 20 µg of total RNA was reverse transcribed using oligo(dT)21 in the presence of Cy3-dCTP (Perkin-Elmer-Cetus/NEN) and Superscript II reverse transcriptase (Invitrogen). Thereafter, template RNA was degraded by adding 2.5 units of RNase H (USB) and 1 ug of RNase A (Pharmacia) followed by incubation for 15 min at 37°C. The labeled cDNAs were purified with QIAquick PCR Purification Kit (Qiagen).


title: primary_ALL_12


title: primary_ALL_3


title: tetO-TBF1/tbf1 with 1h-tetracycline vs tetO-TBF1/tbf1 untreated

source_name: tetO-TBF1/tbf1 treated with tetracycline (100ug/ml) for 1h

treatment_protocol: Tetracycline was added at 100ug/ml for 1h.

source_name: tetO-TBF1/tbf1 untreated

treatment_protocol: Untreated


title: TBF1/tbf1 with 5h-tetracycline vs TBF1/tbf1 untreated

source_name: TBF1/tbf1 treated with tetracycline (100ug/ml) for 5h

source_name: TBF1/tbf1 untreated


title: primary_ALL_5


title: tetO-TBF1/tbf1 with 5h-tetracycline vs tetO-TBF1/tbf1 untreated replicate 1


title: ChIP-CHIP of Cbf1-HA replicate 2

type: genomic

molecule: genomic DNA

source_name: ChIP of Cbf1-HA expressing cells

label_protocol:
Linkers were added to the extracted genomic DNA by ligation-mediated PCR (LM-PCR) as described elsewhere:
http://www.ircm.qc.ca/microsites/francoisrobert/en/317.html
B. Guillemette, A. R. Bataille, N. Gevry et al., PLoS biology 3 (12), e384 (2005)

extract_protocol:
ChIP with anti-HA (12CA5) adsorbed on Protein-L-agarose beads. The rest of the extraction protocol was as described:
http://www.ircm.qc.ca/microsites/francoisrobert/en/317.html
B. Guillemette, A. R. Bataille, N. Gevry et al., PLoS biology 3 (12), e384 (2005)

value: BWP17 containing the plasmid pCA-EXP-Cbf1-HA at the RPS1 locus.

source_name: ChIP of Mock cells

growth_protocol: Cells were grown in SD-Ura-Cys-Met to an OD600 of 1.0.

value: BWP17 containing the empty plasmid pCA-EXP at the RPS1 locus.


title: tetO-TBF1/tbf1 with 5h-tetracycline vs tetO-TBF1/tbf1 untreated replicate 2


title: tetO-TBF1/tbf1 with 3h-tetracycline vs tetO-TBF1/tbf1 untreated

source_name: tetO-TBF1/tbf1 treated with tetracycline (100ug/ml) for 3h

treatment_protocol: Tetracycline was added at 100ug/ml for 3h.


title: primary_ALL_18


title: primary_ALL_6


title: primary_ALL_10


title: ChIP-CHIP of Cbf1-HA replicate 1

growth_protocol: Cells were grown in SD-Ura-Cys-Met to an OD600 of 1.0


title: tetO-TBF1/tbf1 vs TBF1/tbf1 profiling 1h-tetracycline

source_name: TBF1/tbf1 Heterozygous strain treated with tetracycline (100ug/ml) for 1h


title: ChIP-CHIP of Tbf1-HA replicate 2

source_name: ChIP of Tbf1-HA expressing cells

value: BWP17 containing the plasmid pCA-EXP-Tbf1-HA at the RPS1 locus


title: tetO-TBF1/tbf1 vs TBF1/tbf1 profiling 5h-tetracycline replicate 1


title: ChIP-CHIP of Tbf1-HA replicate 1

value: BWP17 containing the plasmid pCA-EXP-Tbf1-HA at the RPS1 locus.


title: tetO-TBF1/tbf1 vs TBF1/tbf1 profiling 3h-tetracycline replicate 2

source_name: TBF1/tbf1 Heterozygous strain treated with tetracycline (100ug/ml) for 3h


title: tetO-TBF1/tbf1 vs TBF1/tbf1 profiling 0h-tetracycline

source_name: TBF1/tbf1 Heterozygous strain untreated


title: tetO-TBF1/tbf1 untreated vs tetO-TBF1/tbf1 with 3h-tetracycline


title: S. cerevisiae Ptero_Treated_A

status: Public on Mar 05 2008

city: University

first: Ameeta

last: Agarwal

state: MS

address: NCNPR, Room 2049

department: National Center for Natural Products Research

institute: University of Mississippi

description: S. cerevisiae Ptero_Treated_A

hyb_protocol: Affymetrix GeneChip Hybridization protocol, and GeneChip Fluidics Station 450 default protocol

scan_protocol: Affymetrix GeneChip Scanner 3000 default parameters

data_processing: Image analysis, scaling (TGT = 500), and probeset-level data analysis using default parameters in GCOS v1.1

label: Biotin

organism: Saccharomyces cerevisiae

source_name: S. cerevisiae Strain S288C cells treated with pterostilbene (Ptero) at IC50 concentration (70 uM)

label_protocol: Affymetrix One Cycle Target Labeling Kit

extract_protocol: Qiagen RNeasy Midi-kit

tag: S. cerevisiae S288C cells at OD 0.2 were treated with pterostilbene (Ptero) at IC50 concentration (70 uM), allowed to grow to OD 0.5, then harvested and frozen.  Three biological replicate samples were generated.


title: S. cerevisiae Ptero_Treated_C

description: S. cerevisiae Ptero_Treated_C


title: S. cerevisiae Ptero_Control_A

description: S. cerevisiae Ptero_Control_A

source_name: S. cerevisiae Strain S288C cells treated with solvent (0.25% DMSO)

tag: S. cerevisiae S288C cells at OD 0.2 were treated with solvent (0.25% DMSO), allowed to grow to OD 0.5, then harvested and frozen.  Three biological replicate samples were generated.


title: S. cerevisiae Ptero_Control_B

description: S. cerevisiae Ptero_Control_B


title: S. cerevisiae Ptero_Control_C

description: S. cerevisiae Ptero_Control_C


title: tetO-TBF1/tbf1 vs TBF1/tbf1 profiling 3h-tetracycline replicate 1


title: S. cerevisiae Ptero_Treated_B

description: S. cerevisiae Ptero_Treated_B


title: human skeletal muscle time plus 48 hours replicate 3

status: Public on Mar 02 2008

city: Boston

first: Jason

middle: Blair

last: Warner

state: MA

address: 12 Carriage DrHarvard Medical School New Research Building, Room 466D

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

description: primary human skeletal muscle myoblasts derived from an adult human male Causasian, 39 years old (Cambrex Corporation - CC-2580, lot 2F1345)

data_processing: The median intensity of the local background of each feature was subtracted from the median intensity of the feature. The background subtracted values were arcsinh transformed to generate non-zero values. The  arcsinh values were then normalized by variance stabilization normalization (VSN).

source_name: human universal total RNA

tag: human universal total RNA prepared from 28 different human adult normal and fetal normal major organs.

source_name: human skeletal muscle cells, 48 hours after differentiation

growth_protocol: primary human skeletal muscle cells were grown in proliferating medium (DMEM + 10% FCS) for 48 hours until about 80% confluence. Cells were then switched to differentiation medium (DMEM/F12 + 2% horse serum) for 48 hours.

extract_protocol: TRIzol (Invitrogen) followed by RNAeasy (Qiagen)

tag: primary human skeletal muscle myoblasts, male, Caucasian, 39 years old


title: human skeletal muscle time plus 48 hours replicate 4

hyb_protocol: Harvard Partners Center for Genetics and Genomics

label_protocol: ENZO cDNA labeling kit


title: human skeletal muscle time plus 24 hours replicate 3

source_name: human skeletal muscle cells, 24 hours after differentiation


title: human skeletal muscle time plus 24 hours replicate 2


title: human skeletal muscle time 0 hours replicate 3

source_name: human skeletal muscle cells, 0 hours before differentiation


title: human skeletal muscle time plus 12 hours replicate 2

source_name: human skeletal muscle cells, 12 hours after differentiation


title: human skeletal muscle time plus 48 hours replicate 1


title: human skeletal muscle time 0 hours replicate 1


title: human skeletal muscle time plus 12 hours replicate 1


title: human skeletal muscle time plus 48 hours replicate 2


title: human skeletal muscle time plus 12 hours replicate 3


title: 1year_90/1 (060707_01)

status: Public on Mar 01 2008

city: Cincinnati

first: Bhuvaneswari

last: Sakthivel

state: OH

address: 3333 Burnet Ave

department: Biomedical Informatics

institute: CCHMC

description: Sham control and 90 minutes of ischemia followed by 1 hour reperfusion.

hyb_protocol: Full Protocol Description: Create a hybridization cocktail for a single probe array that contains 0.067 µg/L fragmented cRNA, 50 pM Control Oligonucleotide B2 (Affymetrix), 20X Eukaryotic Hybridization Controls (1.5 pM bioB, 5 pM bioC, 25 pM bioD, 100 pM cre) (Affymetrix), 0.1 mg/mL Herring Sperm DNA (Promega), 0.5 mg/mL Acetylated BSA (Invitrogen), and 1X Hybridization Buffer.  Heat hybridization cocktail to 99°C for 5 minutes, to 45°C for 5 minutes, and spin at maximum speed in a microcentrifuge for 5 minutes. Fill probe array with 200 µL of 1X Hybridization Buffer. Incubate at 45°C for 10 minutes in the GeneChip Hybridization Oven 640 (Affymetrix) rotating at 60 rpm. Remove 1X Hybridization Buffer and fill probe array with 200 µL of the hybridization cocktail. Incubate at 45°C for 16 hrs in the Hybridization Oven rotating at 60 rpm. Fluidics:  Wash and Stain probe arrays using the Fluidics Station 450 (Affymetrix) utilizing the fluidics protocol EukGE-WS2v5_450. Arrays were stained with phycoerythrin-conjugated streptavidin [Molecular Probes, Eugene, OR] and hybridization signals were amplified using antibody amplification with goat IgG [Sigma-Aldrich] and anti-streptavidin biotinylated antibody [Vector Laboratories, Burlingame, CA], as described in the Affymetrix GeneChip® Expression Analysis Manual.

scan_protocol: Images were scanned using a Genechip scanner 3000 [Affymetrix]

data_processing:
Affymetrix murine MOE 430 2.0  gene chips were used.GeneChip CEL  files were subjected to RMA  normalization using  the  GeneSpring GX 7.3.
Standard Affymetrix internal control genes were used to check the quality of the assay quality by the signals of the 3' probe set to the 5' probe set of the internal control genes, GAPDH and B-actin, with acceptable 3' to 5' ratios between1-3. Prokaryotic Spike controls were used to determine whether the hybridization of target RNA to the array occurred properly.
The data were analyzed with GeneSpring version 7.3 (Agilent Technologies, Palo Alto, CA) using RMA normalization with a custom CDF file(Mm430_Mm_REFSEQ_8]), then normalized to the mean of the sham samples of the same age

source_name: liver of 4-5 weeks (young)  and 12-14 month (adult) old mice

label_protocol: 10 µg of total murine liver RNA from the 4 groups (n=3 of young Sham controls, old Sham control, young 90 min. of ischemia/ 1 hour of reperfusion, old 90 min. of ischemia/ 1 hour of reperfusion) was amplified with the Genechip Expression 3’ Amplification One-Cycle Target Labeling and Control Reagents Kit (Affymetrix) to prepare biotin-labeled fragmented cRNA. Specifically, the One-Cycle cDNA Synthesis Kit (Affymetrix) was used to make double-stranded cDNA from total RNA. cRNA was labeled with biotin-UTP and biotin-CTP by an in vitro transcription reaction using the IVT Labeling Kit (Affymetrix).

extract_protocol:
The median and left lobe of the liver were dissected from young (4-5 weeks) and old (12-14month) mice that underwent either ischemia/reperfusion or Sham control operation and immediately submerged in RNAlater [Ambion, Inc., Austin, TX].
Quality control steps: Total RNA was purified using RNeasy columns [Qiagen, Valencia, CA] according to the manufacturer’s directions and quality was assessed using an Agilent 2100 Bioanalyzer [Agilent Technologies, Inc., Palo Alto, CA].

treatment_protocol: 90 minutes of partial hepatic ischemia and 1 hour of reperfusion


title: human skeletal muscle time plus 24 hours replicate 1


title: human skeletal muscle time plus 24 hours replicate 4


title: human skeletal muscle time 0 hours replicate 2


title: human skeletal muscle time minus 24 hours replicate 2

source_name: human skeletal muscle cells, proliferating, 24 hours before differentiation


title: human skeletal muscle time minus 24 hours replicate 4


title: human skeletal muscle time plus 12 hours replicate 4


title: human skeletal muscle time 0 hours replicate 4


title: 1year_90/1 (060706_01)


title: human skeletal muscle time minus 24 hours replicate 3


title: human skeletal muscle time minus 24 hours replicate 1


title: 1year_90/1 (060705_01)


title: human skeletal muscle time minus 48 hours replicate 1

source_name: human skeletal muscle cells, proliferating, 48 hours before differentiation


title: 1month_90/1 (060711_01)


title: 1month_90/1 (060712_01)


title: human skeletal muscle time minus 48 hours replicate 2


title: human skeletal muscle time minus 48 hours replicate 4


title: human skeletal muscle time minus 48 hours replicate 3


title: 1year_90/0 (060707_02)

description: Sham Control and 30, 60 and 90 minutes of ischemia.

hyb_protocol: Full Protocol Description: Create a hybridization cocktail for a single probe array that contains 0.067 µg/µL fragmented cRNA, 50 pM Control Oligonucleotide B2 (Affymetrix), 20X Eukaryotic Hybridization Controls (1.5 pM bioB, 5 pM bioC, 25 pM bioD, 100 pM cre) (Affymetrix), 10% DMSO, and 1X Hybridization Buffer.  Heat hybridization cocktail to 99°C for 5 minutes, to 45°C for 5 minutes, and spin at maximum speed in a microcentrifuge for 5 minutes. Fill probe array with 200 µL of 1X Hybridization Buffer. Incubate at 45°C for 10 minutes in the GeneChip Hybridization Oven 640 (Affymetrix) rotating at 60 rpm. Remove 1X Hybridization Buffer and fill probe array with 200 µL of the hybridization cocktail. Incubate at 45°C for 16 hrs in the Hybridization Oven rotating at 60 rpm. Fluidics:  Wash and Stain probe arrays using the Fluidics Station 450 (Affymetrix) utilizing the fluidics protocol FS450-0001. Arrays were stained with R-Phycoerythrin-conjugated streptavidin [Molecular Probes, Eugene, OR] and hybridization signals were amplified using and anti-streptavidin antibody (goat) biotinylated  [Vector Laboratories, Burlingame, CA], as described in the Affymetrix GeneChip® Expression Analysis Manual.

scan_protocol: Images were scanned using a GeneChip Scanner 3000 [Affymetrix]

source_name: liver of 4-5 weeks (young) and 12-14 month (adult) old mice

label_protocol: 10 µg of total murine liver RNA from the 8 groups (n=3 of young Sham controls, old Sham control, young 30 min. of ischemia, old 30 min. of ischemia, 60 min. of ischemia, old 60 min. of ischemia, young 90 min. of ischemia, old 90 min. of ischemia) was amplified with the Genechip Expression 3’ Amplification One-Cycle Target Labeling and Control Reagents Kit (Affymetrix) to prepare biotin-labeled fragmented cRNA. Specifically, the One-Cycle cDNA Synthesis Kit (Affymetrix) was used to make double-stranded cDNA from total RNA. cRNA was labeled with biotin-UTP and biotin-CTP by an in vitro transcription reaction using the IVT Labeling Kit (Affymetrix).

extract_protocol:
The median and left lobe of the liver were dissected from young (4-5 weeks) and old (12-14month) mice that underwent either ischemia or Sham control operations and immediately submerged in RNAlater [Ambion, Inc., Austin, TX].
Quality control steps: Total RNA was purified using RNeasy columns [Qiagen, Valencia, CA] according to the manufacturer’s directions and quality was assessed using an Agilent 2100 Bioanalyzer [Agilent Technologies, Inc., Palo Alto, CA].

treatment_protocol: Sham treatment; 30, 60 or 90 minutes of partial hepatic ischemia


title: 1year_90/0 (060707_06)


title: 1year_60/0 (060707_04)


title: 1year_30/0 (060706_03)


title: 1year_sham (060705_05)


title: 1year_60/0 (060706_04)


title: 1year_30/0 (060705_03)


title: 1month_90/1 (060713_01)


title: 1year_sham (060706_05)


title: 1month_90/0 (060713_02)


title: 1month_30/0 (060714_03)


title: 1month_60/0 (060713_04)


title: 1year_30/0 (060707_03)


title: 1month_90/0 (060712_02)


title: 1year_sham (060707_05)


title: 1month_60/0 (060711_04)


title: 1month_60/0 (060712_04)


title: 1month_30/0 (060714_02)


title: 1month_90/0 (060711_02)


title: 1month_sham (060712_05)


title: 1month_30/0 (060711_03)


title: 1year_60/0 (060705_04)


title: Placenta 4hPI pool3

city: Belo Horizonte

first: Renato

middle: L.

last: Santos

state: MG

address: Av. Antonio Carlos, 6627

department: Dept. Clinica e Cirurgia Vet.

country: Brazil

institute: Escola de Vetreinaria da Universidade Federal de Minas Gerais

description: Pool 3 was generated from infected and control explants from 2 independent experiments (2 placentas) performed in 12 replicates each experiment.

hyb_protocol: Labeled cDNAs were hybridized with the spotted oligonucleotides for 48 h in a hybridization station (Perkin Elmer HybArray).

scan_protocol: After washing, the slides were scanned using the ProScanArray Microarray (Perkin Elmer).

data_processing: The images were analyzed using the GenePix Pro (Molecular Devices, USA) and GeneSpring (Agilent Technologies, USA) software. VALUEs are the result of per spot and per chip intensity dependent (Lowess) normalization

label: Alexa Fluor reactive dye 647

organism: Bos taurus

source_name: chorioallantoic membrane (placenta) - 4 hours after inoculation with B. abortus

label_protocol: cDNA from infected and control CAM explants was synthesized and labeled using random hexamers and amino allyl dUTP. cDNAs from infected CAM explants were labeled with Alexa Fluor reactive dye 647 (Molecular Probes/Invitrogen) and cDNAs from control CAM explants were labeled with Alexa Fluor reactive dye 555 (Molecular Probes/Invitrogen).

growth_protocol: Chorioallantoic explants were obtained from bovine placentas and cultured in 6-well plates with DMEM + 10% FCS.

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

treatment_protocol: Explats were inoculated with Brucella abortus at an MOI of approximatelly 1,000. Uninfected controls were inoculated with sterile PBS.

tag: last third of gestation

label: Alexa Fluor reactive dye 555

source_name: chorioallantoic membrane (placenta) - uninfected control


title: 1month_sham (060714_01)


title: Placenta 4hPI pool2

description: Pool 2 was generated from infected and control explants from 2 independent experiments (2 placentas) performed in 12 replicates each experiment.


title: Placenta 4hPI pool1

description: Pool 1 was generated from infected and control explants from 2 independent experiments (2 placentas) performed in 12 replicates each experiment.


title: MyoD-/-,P10, 7d, chip MG_U74Av2

type: other

city: Ottawa

first: Theodore

last: Perkins

state: ON

address: 501 Smyth Rd.

department: Cellular and Molecular Medicine

institute: Ottawa Hospital Research Institute

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S352
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_361
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 7 day
Estimated purity:				100%
RNA concentration:			1545.2 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL

hyb_protocol: Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol  (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix).

scan_protocol: GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner.

data_processing: Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpha2=0.06

molecule: other

source_name: Primary Myoblasts, Skeletal Muscle

label_protocol: Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix)

growth_protocol:
Growth medium:				Ham's F10 Nutrient Mixture
Media supplements:			20% FBS, bFGF 250 ng/ml, 4% Penicillin (5x10E3 U/ml)-Streptomycin (5x10E3 ug/ml), 1% L-Glutamine 200 mM
Culture conditions:			37ºC, 5% CO2, 0.01% Collagen coated petri plate; Change with fresh media at day 3rd.

extract_protocol: Cell purification method:			cultured

tag: Strain:					Balb/c MyoD-/-

tag: Gender:					Male

tag: Karyotype:				normal


title: MyoD-/-, P10, 4d, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S351
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_360
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 4 day
Estimated purity:				100%
RNA concentration:			1130.3 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, P10, 48hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S349
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_358
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 48 hr
Estimated purity:				100%
RNA concentration:			1294.3 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-,1999, 3d, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S350
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_359
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 3 day
Estimated purity:				100%
RNA concentration:			1937.6 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-,P6, 3d, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S350
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_359
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 3 day
Estimated purity:				100%
RNA concentration:			1652.8 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, P10, 36hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S348
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_357
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 36 hr
Estimated purity:				100%
RNA concentration:			1586.8 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, P6, 4d, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S351
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_360
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 4 day
Estimated purity:				100%
RNA concentration:			2485.4 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, 1999, 36hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S348
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_357
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 36 hr
Estimated purity:				100%
RNA concentration:			1709.4 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, P10, 3d, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S350
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_359
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 3 day
Estimated purity:				100%
RNA concentration:			1336.7 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, P10, 24hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S347
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_356
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 24 hr
Estimated purity:				100%
RNA concentration:			2229.8 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-,1999, 7d, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S352
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_361
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 7 day
Estimated purity:				100%
RNA concentration:			1374.0 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, 1999, 48hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S349
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_358
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 48 hr
Estimated purity:				100%
RNA concentration:			1110.6 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, P6, 48hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S349
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_358
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 48 hr
Estimated purity:				100%
RNA concentration:			1086.4 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, 1999, 4d, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S351
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_360
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 4 day
Estimated purity:				100%
RNA concentration:			1815.8 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, P6, 36hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S348
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_357
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 36 hr
Estimated purity:				100%
RNA concentration:			1298.0 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: 1month_sham (060713_05)

description: Sham Control and 30, 60 and 90 minutes of ischemia.


title: MyoD-/-, P6, 24hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S347
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_356
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 24 hr
Estimated purity:				100%
RNA concentration:			1879.2 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, P10, 18hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S346
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_355
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 18 hr
Estimated purity:				100%
RNA concentration:			2226.4 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, 1999, 18hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S346
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_355
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 18 hr
Estimated purity:				100%
RNA concentration:			1419.4 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, P10, 12hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S345
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_354
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 12 hr
Estimated purity:				100%
RNA concentration:			2606.6 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, P10, 6hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S344
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_353
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 6 hr
Estimated purity:				100%
RNA concentration:			2606.6 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, P6, 12hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S345
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_354
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 12 hr
Estimated purity:				100%
RNA concentration:			2205.8 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, P6, 18hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S346
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_355
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 18 hr
Estimated purity:				100%
RNA concentration:			1960.2 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, 1999, 24hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S347
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_356
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 24 hr
Estimated purity:				100%
RNA concentration:			2583.8 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-,P6, 7d, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S352
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_361
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 7 day
Estimated purity:				100%
RNA concentration:			2347.2 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, 1999, 12hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S345
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_354
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 12 hr
Estimated purity:				100%
RNA concentration:			2830.4 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, 1999, 0hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S343
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_352
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 0 hr
Estimated purity:				100%
RNA concentration:			3325.8 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, P6, 6hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S344
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_353
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 6 hr
Estimated purity:				100%
RNA concentration:			2205.8 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, 1999, 6hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S344
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_353
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 6 hr
Estimated purity:				100%
RNA concentration:			2830.4 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, P10, 0hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S343
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_352
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 0 hr
Estimated purity:				100%
RNA concentration:			1468.0 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD-/-, P6, 0hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E234
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=234
SCGP Sample ID:				S343
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=234#SAMPLE_352
Short description:			Myogenic Primary Myoblast Time Course in vitro Differentiation into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 0 hr
Estimated purity:				100%
RNA concentration:			 4327.4 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6
Sample volume:				27µL


title: MyoD, wt841, 7 days, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S342
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_351
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 7 days
Estimated purity:				100%
RNA concentration:			1142.0 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c
Sample volume:				27µL

growth_protocol:
Growth medium:				Ham's F10 Nutrient Mixture
Media supplements:			20% FBS,, bFGF 250 ng/ml, 4% Penicillin (5x10E3 U/ml)-Streptomycin (5x10E3 ug/ml), 1% L-Glutamine 200 mM
Culture conditions:			37ºC, 5% CO2, 0.01% Collagen coated petri plate; Change with fresh media at day 3rd.

extract_protocol:
RNA prep method:				RNeasy (Qiagen)
Cell purification method:			cultured
Contaminating cell type:			none

tag: Strain:					Balb/c MyoD wild Type


title: MyoD, mb1, 7 days, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S342
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_351
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 7 days
Estimated purity:				100%
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c


title: MyoD, wt841, 4 days, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S341
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_350
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 4 days
Estimated purity:				100%
RNA concentration:			2370.8 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c
Sample volume:				27µL


title: MyoD, wtp16, 7 days, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S342
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_351
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 7 days
Estimated purity:				100%
RNA concentration:			1637.2 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c
Sample volume:				27µL


title: MyoD, wt841,  48hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S339
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_348
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 48 hr
Estimated purity:				100%
RNA concentration:			1879.0 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c
Sample volume:				27µL


title: MyoD, mb1, 3 days, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S340
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_349
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 3 days
Estimated purity:				100%
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c


title: MyoD, wt841, 3 days, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S340
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_349
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 3 days
Estimated purity:				100%
RNA concentration:			1467.8 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c
Sample volume:				27µL


title: MyoD, mb1,  48hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S339
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_348
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 48 hr
Estimated purity:				100%
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c


title: MyoD, wtp16, 3 days, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S340
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_349
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 3 days
Estimated purity:				100%
RNA concentration:			1587.6 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c
Sample volume:				27µL


title: MyoD, wtp16,  48hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S339
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_348
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 48 hr
Estimated purity:				100%
RNA concentration:			1724.0 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c
Sample volume:				27µL


title: MyoD, mb1, 4 days, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S341
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_350
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 4 days
Estimated purity:				100%
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c


title: MyoD, wtp16, 36hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S338
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_347
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 36 hr
Estimated purity:				100%
RNA concentration:			2482.4 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c
Sample volume:				27µL


title: MyoD, wt841, 36hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S338
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_347
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 36 hr
Estimated purity:				100%
RNA concentration:			2726.2 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c
Sample volume:				27µL


title: MyoD, mb1, 36hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S338
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_347
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 36 hr
Estimated purity:				100%
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c


title: MyoD, wtp16, 4 days, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S341
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_350
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 4 days
Estimated purity:				100%
RNA concentration:			1166.8 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c
Sample volume:				27µL


title: MyoD, wt841, 18hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S336
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_345
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 18 hr
Estimated purity:				100%
RNA concentration:			1597.2 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c
Sample volume:				27µL


title: MyoD, wtp16, 18hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S336
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_345
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 18 hr
Estimated purity:				100%
RNA concentration:			1593.0 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c
Sample volume:				27µL


title: MyoD, wt841, 24hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S337
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_346
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 24 hr
Estimated purity:				100%
RNA concentration:			1830.8 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c
Sample volume:				27µL


title: MyoD, mb1,  24hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S337
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_346
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 24 hr
Estimated purity:				100%
Num cells for RNA prep:			   More than 2 x 10E+6 Balb/c


title: MyoD, wtp16, 24hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S337
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_346
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 24 hr
Estimated purity:				100%
RNA concentration:			1624.4 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c
Sample volume:				27µL


title: MyoD, mb1, 18hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S336
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_345
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 18 hr
Estimated purity:				100%
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c


title: MyoD, wt841, 12hr, chip MG_U74Av2

description:
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca).  The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID:			E233
Stembase Experiment ID link:		http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID:				S335
SCGP Sample ID link:			http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_344
Short description:			Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time course: 12 hr
Estimated purity:				100%
RNA concentration:			2012.8 ng/µL
Num cells for RNA prep:			More than 2 x 10E+6 Balb/c
Sample volume:				27µL