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Platform GPL10562 Query DataSets for GPL10562
Status Public on Nov 01, 2010
Title BAMC-DCI GAS 12K ver1.0 [condensed version]
Technology type in situ oligonucleotide
Distribution custom-commercial
Organisms Streptococcus pyogenes M1 GAS; Streptococcus pyogenes SSI-1; Streptococcus pyogenes MGAS315; Streptococcus pyogenes MGAS5005; Streptococcus pyogenes MGAS6180; Streptococcus pyogenes MGAS9429; Streptococcus pyogenes MGAS2096; Streptococcus pyogenes MGAS10750
Manufacturer Combimatrix Corporation
Manufacture protocol Probe sets were 30-40mers in length, sense strand and were selected using a Combimatrix probe selection algorithm taking into account gene (>90% BLAST score) and serotype specificity, Tm, hairpins and GC content. Arrays were constructed using the CustomArray Synthesizer at Combimatrix. CustomArray uses a specially modified CMOS semiconductor to direct the molecular assembly of a specific sequence of DNA bases in response to a digital command. Each feature on the array (a microelectrode) is digitally addressed to selectively generate acid, by means of an electrochemical reaction which, in-turn, controls the detritylation reaction during phosphoramidite synthesis. A software program is used to control the microelectrodes, and thus, the detritylation pattern applied on the chip during synthesis. Seventy factory built in negative controls and 327 quality control probes are also included in the microarray.
 
Description The full array layout file provided as a supplementary file.
 
Submission date Jun 18, 2010
Last update date Nov 01, 2010
Contact name Jeffrey Livezey
E-mail(s) jeffrey.livezey@us.army.mil
Organization name Brooke Army Medical Center
Department Clinical Investigation
Street address 3400 Rawley E Chambers Ave
City San Antonio
State/province TX
ZIP/Postal code 78247
Country USA
 
Samples (14) GSM557529, GSM557530, GSM557531, GSM557532, GSM557533, GSM557534 
Series (1)
GSE22436 Group A Streptococcus Gene Expression in Humans with Pharyngitis Using a Microarray

Data table header descriptions
ID
Probe ID ID number for individual probes
ORF Open reading frame Entrez GeneID Number
ORGANISM
GB_ACC GeneBank Genome Accession Number
GB_RANGE GeneBank Accession Range
SPOT_ID

Data table
ID Probe ID ORF ORGANISM GB_ACC GB_RANGE SPOT_ID
1111 1 900369 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[1573602..1574447]
2192 5 900370 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[3480..4595]
1780 11 900373 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[8879..9175]
5459 15 900375 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[9668..10954]
10929 21 900376 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[10951..12237]
2850 26 900378 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[15110..16501]
2532 32 900379 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[30546..31742]
1914 37 900385 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[36174..39947]
5943 42 900389 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[45123..46247]
8268 47 900395 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[52706..53617]
2624 51 900397 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[54979..55416]
4417 55 900398 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[55439..55840]
1437 59 900399 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[55837..57612]
422 63 900401 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[62219..63511]
3070 68 900430 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[85708..85893]
387 71 900435 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[89228..89611]
9162 75 900440 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[101036..101401]
7653 79 900444 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[103705..104133]
3412 83 900445 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[104138..104374]
10664 87 900447 Streptococcus pyogenes M1 GAS NC_002737.1 NC_002737.1[104785..105111]

Total number of rows: 2726

Table truncated, full table size 240 Kbytes.




Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp

Supplementary file Size Download File type/resource
GPL10562_full_array_layout.txt.gz 385.2 Kb (ftp)(http) TXT

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