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Platform GPL10409 Query DataSets for GPL10409
Status Public on May 13, 2010
Title Ocimum Biosolutions S. pneumoniae OciChip
Technology type spotted oligonucleotide
Distribution commercial
Organism Streptococcus pneumoniae R6
Manufacturer Ocimum Biosolutions Ltd
Manufacture protocol Array Design and Printing
S. pneumoniae OcichipTM consists of 2048 spots printed on Corning® epoxy coated glass slides using Omnigrid (Gene Machines). Chip has been printed using 4x4 SMP4 pins on 75.5x 25.5x1.3 mm microarray glass slides with a spot area of 1.8x 1.8cm. The origin offset values were 0 for X direction and 10000 for Y direction. The dot to dot distance is 350 mm for x axis and 350 mm for y axis; distance between subarrays is 150 mm and no of dots per array is 12x12=144. Oligos were printed using spotting buffer A from Ocimum Biosolution at 50% humidity and temperature at 22°C. The time taken by the robotic gridder to print yeast altogether was 5 hrs. Each probe was checked for its performance by standard QC process followed at Ocimum Biosolutions. Printed slides were stored in a light-tight box in a bench-top dessicator, with desiccant and were kept at 4°C until they were used for hybridization.
Support glass
Coating other
 
Description epoxide
 
Contributor(s) Rao G, Sharma R, Pemmasani S, Begum H
Submission date May 12, 2010
Last update date May 13, 2010
Contact name Ocimum Biosolutions
E-mail(s) govind.a@ocimumbio.com, sandhya.p@ocimumbio.com, hazira.b@ocimumbio.com, anwaruddin.m@ocimumbio.com
Organization name Ocimum Biosolutions
Department Bioinformatics
Lab Ocimum
Street address Banjara Hills Road No., 1 VI Floor Reliance Classic
City Hyderabad
State/province Andhra Pradesh
ZIP/Postal code 500039
Country India
 

Data table header descriptions
ID
ORF Locus tag
SEQUENCE Probe Sequence
Gene_Desc Gene Description
Gene_Sym Gene Symbol
SPOT_ID

Data table
ID ORF SEQUENCE Gene_Desc Gene_Sym SPOT_ID
obsspr#1760 spr1760 TGAAGGTAGCCAAGAGCGTGGGGCATATATAGAAGAAGGGAAATTTATCG hypothetical protein spr1760
obsspr#1275 spr1275 GTTAATGGTGTAGAGAGAAAAGGCTATCTTGCGGATCTTATTTATTATGG hypothetical protein spr1275
obsspr#0357 spr0357 CGGGAAATCAATCCATTATTTATCAGATGCTAAATACTATTTTTAACGAA hypothetical protein spr0357
obsspr#0380 spr0380 TAGCTCATGTGGAAGATCAAGCGAGTTTAGTAGCACTTTTAGAAAAATAG acyl-carrier-protein S-malonyltransferase fabD
obsaracontrol#017-01 control
obsspr#1186 spr1186 TTAAGAACTCTTCTATGCCAGTTCAAGATATCCAAACCTTTGTCAGCCTT N-acetylneuraminate lyase subunit, truncation npl-truncation
obsspr#1421 spr1421 TACATTGACCCTGAACAAAAAGTACAACCAAAACACTCTACCAGTTTATA Thioredoxin reductase trxB
obsspr#1299 spr1299 CTCGAAATGGTAGAACAGCTTTTGGATAAGGTGTTGCTCTATGACAATTC Degenerate transposase (orf1) IS1381-truncation
obsspr#0699 spr0699 ACTTGAGAGAAGTTAGCCAAGCGGCAAACTTTAGCTTAACAAGAAAAGAA hypothetical protein spr0699
obsspr#0754 spr0754 AAGGGAAACAGCCAAGACAACGGTATGATGGAATCTTTCTTTGGCATTTT Degenerate transposase (orf2) IS861-truncation
obsspr#0533 spr0533 AGTTTGGTCGCAAGATGGAGCAAGCCAACAAAAAAGCCTATTCACTTTAG ABC transporter membrane-spanning permease - glutamine transport glnP
obsspr#0132 spr0132 TTAAGAGATAGAGATAAGATTATCAACGCACTTAAGCTGCCTTATTCCAA Degenerate transposase (orf2) IS1167-truncation
obsspr#0331 spr0331 ACAAAACTAGCTTATTTTTACCAAAAGATGAAAAATCAAGAGGACTATTT hypothetical protein spr0331
obsspr#1583 spr1583 TAGCTGCTGAACGTGTCAAATGTGTGATTGAAGCAGAACACTTCTGTGTG guanylate kinase gmk
obsspr#1065 spr1065 TCAAGTCTATCTACTACGTCCGTACCTTTACAGATGACGGTGGAGAAGTC ribonucleotide-diphosphate reductase alpha subunit nrdE
obsspr#0941 spr0941 AGATGAAAAATAGTTTTGACATGGCAAAAACACAAATTGAGACGGACTAA hypothetical protein spr0941
obsspr#0976 spr0976 TTCCAACATTTAAGCAAACAATCTTGAAAGGAGCCAAGTTAAGCAAATGA ABC transporter membrane-spanning permease - unknown substrate ABC-MSP
obsspr#1428 spr1428 TTACCAATCTGGTCAATAGTATTCATGCTTTTTACATGACCTTATTTTAG hypothetical protein spr1428
obsspr#0042 spr0042 TTCGTAAGCTCAATGATTTTCACTTTAAACATGATTTTTCGCGTCTTCCT Transposase (orf1) IS1167
obsspr#1291 spr1291 TATAGGCAAGGCTCTATTGAAAAAACACTTTGAAAAAGCAGGCATTGTAT hypothetical protein spr1291

Total number of rows: 2048

Table truncated, full table size 218 Kbytes.




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Supplementary data files not provided
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