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Sample GSM428277 Query DataSets for GSM428277
Status Public on Mar 04, 2010
Title arg2- rep4
Sample type genomic
 
Channel 1
Source name G1-phase cells
Organism Saccharomyces cerevisiae
Characteristics strain: BY4741
Treatment protocol G1- and S- phase cells were sorted by FACS
Growth protocol Cells were grown in YPD (1% yeast extract, 2% peptone, 2% dextrose) at 30º to log phase and fixated.
Extracted molecule genomic DNA
Extraction protocol DNA was extracted using the MasterPure Yeast DNA purification kit (Epicentre)
Label cy3
Label protocol DNA was digested with DpnII and amplified by four ronds of random-octamer-primed Exo-Klenow DNA synthesis (Invitrogen BioPrime ArrayCGH amplification kit) with amino-allyl modified nucleotides and subsequently labeled with Cy dyes
 
Channel 2
Source name S-phase cells
Organism Saccharomyces cerevisiae
Characteristics strain: BY4741
Treatment protocol G1- and S- phase cells were sorted by FACS
Growth protocol Cells were grown in YPD (1% yeast extract, 2% peptone, 2% dextrose) at 30º to log phase and fixated.
Extracted molecule genomic DNA
Extraction protocol DNA was extracted using the MasterPure Yeast DNA purification kit (Epicentre)
Label cy5
Label protocol DNA was digested with DpnII and amplified by four ronds of random-octamer-primed Exo-Klenow DNA synthesis (Invitrogen BioPrime ArrayCGH amplification kit) with amino-allyl modified nucleotides and subsequently labeled with Cy dyes
 
 
Hybridization protocol Agilent
Scan protocol Agilent, 5micron, 100%PMT
Description raw data column: Strains20 (block3)
S vs G1 Replication timing
Data processing Images were analyzed with SpotReader (Niles Scientific). Weak (<2std above control probe mean) and saturated probe reads were removed from further analysis. Data was LOWESS-normalized.
 
Submission date Jul 15, 2009
Last update date Mar 04, 2010
Contact name Amnon Koren
E-mail(s) [email protected]
Organization name Harvard Medical School
Department Genetics
Street address 77 Avenue Louis Pasteur
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
 
Platform ID GPL4131
Series (1)
GSE17120 MRC1-Dependent Scaling of the Budding Yeast DNA Replication Timing Program

Data table header descriptions
ID_REF
VALUE Log2 (S/G1)

Data table
ID_REF VALUE
12
13 -0.012833964
14 -0.019394904
15 -0.6677847
16 0.475538463
17 -0.332936635
18 -0.145505453
19 -0.841133899
20 -1.12681493
21 -0.513048955
22 -0.342316467
23 -0.061306003
24 -0.556358212
25 -0.331692798
26 -0.445978113
27 0.146832592
28 -0.272026288
29 -0.158864454
30 -0.482778929
31 -0.08578431

Total number of rows: 41480

Table truncated, full table size 713 Kbytes.




Supplementary file Size Download File type/resource
GSM428277.srr.gz 25.9 Mb (ftp)(http) SRR
Processed data included within Sample table
Processed data are available on Series record

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