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Platform GPL19900

Query DataSets for GPL19900

Status

Public on Mar 17, 2015

Title

NimbleGen Atlantic Cod Oligonucleotide 135k Array Version 1 [100610_GM_FY_EXP] (gene-level)

Technology type

in situ oligonucleotide

Distribution

custom-commercial

Organism

Gadus morhua

Manufacturer

Roche NimbleGen

Manufacture protocol

High-density DNA array prepared with Maskless Array Synthesizer (MAS) technology. See manufacturer's website at http://www.nimblegen.com/.

Description

NimbleGen design name: 100610_GM_FY_EXP
NimbleGen design ID: 531893
Native array description file: 100610_GM_FY_EXP.ndf
Native array description file: 100610_GM_FY_EXP.ngd
44k cDNAs were used (26k assembled EST contigs and 18 singletons from the cod genome sequencing consortium; see The genome sequence of Atlantic cod reveals a unique immune system Starr et al., 2011; Nature 477:207 [PMID 21832995]). Three 60mer probes were prepared for each cDNA sequence, 125826 cod probes in total. The array contains 137604 features, including 11779 Nimblegen control probes.
The supplementary file 'cDNA_seqs.txt' contains all cDNA sequences used in the design of the probes.

Submission date

Mar 17, 2015

Last update date

Mar 17, 2015

Contact name

Kai Kristoffer Lie

E-mail(s)

kli@hi.no

Organization name

Institute of Marine research

Department

Feed Safety

Street address

Pobox 2029 Nordnes

City

Bergen

State/province

Hordaland

ZIP/Postal code

5817

Country

Norway

Samples (32)

More...

GSM1635103, GSM1635104, GSM1635105, GSM1635106, GSM1635107, GSM1635108

Series (1)

GSE66964

Vitamin A and arachidonic acid altered the skeletal mineralization in Atlantic cod larvae (Gadus morhua) without any interactions on the transcriptional level

Relations

Alternative to

GPL15700

Data table header descriptions
ID	SEQ_ID; unique identifier of the cDNA sequence from which the probe is designed
GB_ACC	GenBank accession number of the sequence from which the probe is designed
SPOT_ID

Data table
ID	GB_ACC	SPOT_ID
BCMO1		BCMO1
CEG1252-2007-08-01.ab1	JW206327
CEG1418-2007-09-18.ab1	JW206328
CEG154-2007-04-30.ab1	JW206329
CEG183-2007-04-30.ab1	JW206330
CEG951-2007-08-02.ab1	JW206331
CEG978-2007-08-02.ab1	JW206332
CGG117-2008-10-28.ab1	JW206367
CGG169-2008-10-28.ab1	JW206368
CGG180-2008-10-28.ab1	JW206369
CGG255-2008-12-22.ab1	JW206370
CGG264-2008-12-22.ab1	JW206371
CGG337-2008-12-22.ab1	JW206372
CGG400-1-2009-01-13.ab1	JW206373
CGG400-67-2009-01-13.ab1	JW206374
CGG400-73-2009-01-13.ab1	JW206375
CGG700-1-2009-01-13.ab1	JW206376
CGG700-24-2009-01-13.ab1	JW206377
CGG800-16-2009-01-29.ab1	JW206378
CGG800-66-2009-01-29.ab1	JW206379

Total number of rows: 41975

Table truncated, full table size 1085 Kbytes.

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

Supplementary file	Size	Download	File type/resource
GPL19900_100610_GM_FY_EXP.ndf.gz	8.0 Mb	(ftp)(http)	NDF
GPL19900_100610_GM_FY_EXP.ngd.gz	362.0 Kb	(ftp)(http)	NGD
GPL19900_cDNA_seqs.txt.gz	9.1 Mb	(ftp)(http)	TXT