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Platform GPL6681

Query DataSets for GPL6681

Status

Public on Apr 09, 2008

Title

NCSU_Caldicellulosiruptor saccharolyticus_3K array_version 1

Technology type

spotted oligonucleotide

Distribution

non-commercial

Organism

Caldicellulosiruptor saccharolyticus

Manufacturer

NCSU Kelly group

Manufacture protocol

A DNA microarray was designed and constructed based on 2793 protein-coding sequences in the C. saccharolyticus genome obtained from the Department on Energy's Joint Genomes Institute (http://genome.ornl.gov/microbial/csac). OligoArray 2.0 (Rouillard, 2003) was used to generate one 60-mer oligonucleotide probe sequence for each open reading frame. The probes were synthesized (Integrated DNA Technologies, IA), re-suspended in 50% DMSO, and printed onto Ultragap microarray slides (Corning, NY) using a QArrayMini arrayer (Genetix, UK). Each probe was spotted five times onto each array to fortify statistical analysis.

Contributor(s)

VanFossen AL

Submission date

Apr 03, 2008

Last update date

Apr 09, 2008

Contact name

Amy VanFossen

Organization name

NC State Unversity

Department

Chemical and Biomolecular Engineering

Lab

Kelly Group

Street address

840 Main Campus Dr. Rm3305

City

Raleigh

State/province

ZIP/Postal code

27606

Country

USA

Samples (42)

More...

GSM280522, GSM280523, GSM280524, GSM280525, GSM434336, GSM434343

Series (9)

More...

GSE11153	Hydrogenomics of the extremely thermophilic bacterium Caldicellulosiruptor saccharolyticus
GSE17425	Csac growth on monosaccharides found in lignocellulose
GSE17427	Csac growth on model substrates found in lignocellulose

Data table header descriptions
ID
ORF	gene locus
PT_GI
GeneID
SEQUENCE

Data table
ID	ORF	PT_GI	GeneID	SEQUENCE
Csac_0001	Csac_0001	146295086	5086606	AATGTACTTAGCAAGAGAGCTCACAAATGTATCCTTGCCTAAAATAGGGGAAGCCTTTGG
Csac_0002	Csac_0002	146295087	5087120	ATGGAGGAGTAGACATTTACATTACATCACTTACAAGCCCGAGCGTTGTAAAGCAGCAAG
Csac_0003	Csac_0003	146295088	5089342	CAGTTTGAAAAGGATGTTCAGATGGGGTTTACAACCAAAGGTGTTCACAGAGATGATTTT
Csac_0004	Csac_0004	146295089	5087507	ATAATCCTTGAGATTGATGGAAGACTGTATGCTATTGTCTCTCCTGTGTCCTCAACAACA
Csac_0005	Csac_0005	146295090	5087508	TTTGAGAGTTGAACTTGAAGATGCTGTCATGGCAGAGGAGATTTTCACAATTTTGATGGG
Csac_0006	Csac_0006	146295091	5086612	CAAGTTCCTGTTCAGGGAAGAAATACACAGGGTGTTAAACTTATGCGAATTGATAGCGAT
Csac_0007	Csac_0007	146295092	5086827	ATATTGGGGATGTGCTCTACTCAGTTTCAAACTCAATGATAAAAGCAAGCTCTCTTGAAA
Csac_0008	Csac_0008	146295093	5088235	ACCAAGGCTTGTAAAGGAAGACAAAGAAAAGTACGACGAACTTGCACAAAGAGTTGAACA
Csac_0009	Csac_0009	146295094	5088131	TTGGTTACTGGTGGATAAAAGAATATGAACCGAACACTGCAACAATAGTGCCGGCTCATA
Csac_0011	Csac_0011	146295095	5087505	ATGTTGAGGGTGAAAAGAGATTGCCTGTTAGAACAAAAGAACCTATACCAAAAGAATTGC
Csac_0012	Csac_0012	146295096	5087218	GACTCAAGTAAGCTCAAACAAGAAATAATTGAGGAGTGGAAGGAGATTTTGAAGAACTAT
Csac_0013	Csac_0013	146295097	5087219	TTTAGGAAAGGACGTTGTTGTAATATCACCTGAGAGGATAAGGAATGAGATAATTTCAAG
Csac_0014	Csac_0014	146295098	5086611	CTTACTTTGGACTACTTGAGATGAAAACCACCAATGATGTTAGAAAAGGAAGAGAGAATG
Csac_0015	Csac_0015	146295099	5086925	GCAATTGATTTAGAAGTTCACAAAAGCACTCGCAATTATAAGGATTGGCAGAAAGAAGAA
Csac_0019	Csac_0019	146295100	5087986	TTGAAAGGTTCAAATTTGAAATATGACATAAAATCTCCTTCTTTTGTGATTATAGATTAG
Csac_0020	Csac_0020	146295101	5086685	CAGAGGGAATAGAGAACAATAAACAGCTTGAGATTTTAAAAGAGATTGGCTGTGATTTTG
Csac_0021	Csac_0021	146295102	5086682	TTTGCAGAATATAAAAGGGATAAAGATTCAGAATGTCTTTGTTACCAGCAGCGGAGAGAT
Csac_0022	Csac_0022	146295103	5087575	AATTGCTCGTGGTAAGGTTGCTCCAAACGGAATAGACCTTTATGTAATACCTGCATTTGC
Csac_0023	Csac_0023	146295104	5087154	ATGCAGCTTGTATATTTCCACAAACTGCTCAATATTCACGAAAGGTTCAAAGAAAAGTAG
Csac_0024	Csac_0024	146295105	5086585	AGGACATTAGCAAAAGAAGTTTTAGAATACCTTCCGCTAAGAGATATGCTGGAGAAAGAT

Total number of rows: 2679

Table truncated, full table size 258 Kbytes.

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

Supplementary data files not provided