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Status
Public on Oct 23, 2007
Title
Nimblegen Catfish 28K Oligo Microarray
Technology type
in situ oligonucleotide
Distribution
custom-commercial
Organisms
Ictalurus punctatus ; Ictalurus furcatus Manufacturer
NimbleGen Systems Inc.
Manufacture protocol
Nimblegen utilized an in situ maskless array synthesis technology to synthesize 24 base pair (24mer) oligos on the surface of the microarray slides. At least 6 perfect match and 6 mismatch oligos were designed for each provided sequence using Nimblegen proprietary software.
Support
glass
Description
This platform builds upon a previous 19K channel catfish microarray design (GPL2814). Newly sequenced immune and miscellaneous transcripts from channel catfish were added bringing the number of sequences from that species to 21,359. Additionally, 7,159 unique ESTs from the closely-related species blue catfish (Ictalurus furcatus) were added.
Contributor(s)
Peatman E , Baoprasertkul P , Terhune J , Dunham R , Liu Z Submission date
Oct 23, 2006
Last update date
Oct 23, 2007
Contact name
Eric Peatman
E-mail(s)
peatmer@auburn.edu Organization name
Auburn University
Department
Fisheries and Allied Aquacultures
Lab
Fish Molecular Genetics and Biotechnology Laboratory
Street address
203 Swingle Hall
City
Auburn
State/province
AL
ZIP/Postal code
36849
Country
USA
Samples (12)
GSM141604 , GSM141617 , GSM141618 , GSM141622 , GSM141626 , GSM141631
Series (2)
GSE6105 Global assessment of the acute phase response in channel catfish after infection with a Gram negative bacterium
GSE6350 Transcriptomic profiling of the livers of blue catfish (Ictalurus furcatus) after infection with Edwardsiella ictaluri
Data table header descriptions ID CGRU_NO Gene identification number
GB_ACC Accession number of catfish sequence used to design probe
GENE NAME Name assigned by BLAST similarity to entries in nr database
GenBank GenBank accession number of homologous sequence
SPOT_ID TIGR contig id
ORGANISM Species of catfish from which sequence was derived
Data table ID CGRU_NO GB_ACC GENE NAME GenBank SPOT_ID ORGANISM CATF0001S00000001
IpCG00001
CV996651 Wu:fi38g05 protein
BC044194
Ictalurus punctatus
CATF0001S00000002
IpCG00002
CV987396 putative lysosomal glucocerebrosidase precursor
AJ575649
Ictalurus punctatus
CATF0001S00000003
IpCG00004
CV991626 lipoprotein receptor-related protein 5
AF508960
Ictalurus punctatus
CATF0001S00000004
IpCG00005
MGC53823 protein
BC046739
TC6931
Ictalurus punctatus
CATF0001S00000005
IpCG00006
CV996962 40S ribosomal protein S5
AF402813
Ictalurus punctatus
CATF0001S00000006
IpCG00008
CV991638 plectin 10
AY480031
Ictalurus punctatus
CATF0001S00000007
IpCG00009
CV991635 Hypothetical protein MGC65842
BC056593
Ictalurus punctatus
CATF0001S00000008
IpCG00011
CV991444 SEC22 vesicle trafficking protein-like 1
BC009024
Ictalurus punctatus
CATF0001S00000009
IpCG00012
CV991469 SI:bY143E18.1 (novel protein similar to human alpha 2 type V collagen (COL5A2))
AL731564
Ictalurus punctatus
CATF0001S00000010
IpCG00013
CV991680 hypoxia-inducible factor 2 alpha
AF402782
Ictalurus punctatus
CATF0001S00000011
IpCG00014
CV991440 carboxypeptidase A2
AB099300
Ictalurus punctatus
CATF0001S00000012
IpCG00017
CV993509 CG1
AF030690
Ictalurus punctatus
CATF0001S00000013
IpCG00019
CV997091 SI:bY187G17.1 (novel protein similar to zebrafish hemoglobin alpha-adult 1 (hbaa1) )
AL929176
Ictalurus punctatus
CATF0001S00000014
IpCG00020
CV996610 pepsinogen
AB120129
Ictalurus punctatus
CATF0001S00000015
IpCG00021
CV987486 twisted gastrulation precursor
AF255731
Ictalurus punctatus
CATF0001S00000016
IpCG00022
CV991066 alpha actin
AF267496
Ictalurus punctatus
CATF0001S00000017
IpCG00023
CV987493 "Procollagen lysine, 2-oxoglutarate 5-dioxygenase 2"
BC021352
Ictalurus punctatus
CATF0001S00000018
IpCG00024
15 kDa selenoprotein SeP15
AY221263
TC8808
Ictalurus punctatus
CATF0001S00000019
IpCG00026
CV995438 beta-myosin heavy chain
M21665
Ictalurus punctatus
CATF0001S00000020
IpCG00027
CV987504 Acetyl-Coenzyme A acyltransferase 1
BC012400
Ictalurus punctatus
28518 2365 Kbytes .Supplementary data files not provided
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