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List arrays by type - cDNA arrays
Chicken 13K cDNA
The chicken 13K is a cDNA array created from the chicken EST collections generated
by BBSRC, University of Delaware and the Fred Hutchinson Cancer Research Center.
From a total of 363,838 chicken ESTs representing
24 different adult or embryonic tissues, a set of 11,447 non-redundant ESTs were
selected and added to an existing collection of clones (4,162) from immune
tissues and a chicken bursal cell line (DT40).
Quality control analysis indicates there are 13,007 useable features on the
array, including 160 control spots. The array provides broad coverage of mRNAs
expressed in many tissues; in addition, clones with expression unique to various
tissues can be detected.
Ref: Development of a cDNA array for chicken gene expression analysis. Burnside
J, Neiman P, Tang J, Basom R, Talbot R, Aronszajn M, Burt D, Delrow J.
BMC Genomics. 2005 Feb 4;6(1):13.
Chicken 5K Immune cDNA
Name: ARK-Genomics G. gallus Immune Array 5K v3.1
ArrayExpress ID:
A-MEXP-307
Description:
The chicken 5K Immune array is constructed from 2 new immune-related cDNA libraries
and contains 5190 elements (in duplicate). Clones on the array originate from
tissues known to contain high levels of cells related to the immune system,
namely Bursa, Peyers patch, thymus and spleen. Represented on the array are
genes that are known to cluster with existing chicken ESTs as
well as genes that are unique to our libraries. Some of these genes have no
known homologies and represent novel genes in the chicken collection. A series
of reference genes (ie. genes of known immune function) are also present on
the array. Functional annotation data is also provided for as many of the genes
on the array as is possible.
Ref: Development of a chicken 5 K microarray targeted towards immune function.
Smith J, Speed D, Hocking PM, Talbot RT, Degen WG, Schijns VE, Glass EJ, Burt
DW. BMC Genomics. 2006 Mar 13;7:49.
The Chicken Bioceramic is a cDNA array constructed from bane and shell gland subtractive cDNA libraries. The main libraries were prepared using the Clontect subtractive hybridisation kit. The bone libraries were a subtraction of liver from bone. The shell and library was a subtraction of shell gland form liver tissue. The array consists of 5,060 randomly selected clones from these libraries and an additional 1,927 selected EST's from the BBSRC Chicken EST chondrocyte library.
Cattle 20K cDNA
The Bovine 20K cDNA array is a development of our bovine 5K immue
and bovine 15K arrays. The bovine 15 K array is no longer available. The
array contains the bovine immune array supplemented with clones from a range
of other tissue sources. The bulk of the array (9.6K) is taken from the bovine
non redundant library (Bovine Gene set RZPD1). These two sets of sequences
were clustered with the 581,234 EST's available in Dec 2004 and any clusters
not represented on the 15K array where used for the selection of clones from
6 new normalised cDNA libraries. The new libraries were from bovine ovary
(full ovarian cycle), uterus, and 4 libraries from normal and trypanosomiasis
infected cattle (N'Dama and Boran breeds) from Liver, spleen, lymph node
and bone marrow. The arrray also includes 1850 sheep normalised and subtracted
spleen library clones versions. The 20,344 clones on the array are printed
in singlet.
This array has proven that it is suitable for measuring expression in both
cattle and sheep.
The Bovine 15K array has been expanded to include more genes. The new array is available as a 20K single spot array.
Cattle
5K Immune cDNA
ID: A-MEXP-495
The array is constructed from 5,623 cattle EST's isolated from a Bovine
activated macrophage library. Clustering of the EST's with all known cattle
EST's allowed selection of representations of each cluster. The array was
supplemented with other known genes with probable function in the immune
response, that were not found in the sequencing of the library.
Pig 3K Immune cDNA
Name: ARK-Genomics S. scrofa Immune Array 3K v1.0
ID: A-MEXP-494
Description:
The porcine 3K immune microarray is composed of 2880 cDNAs spotted in duplicate,
derived from a number of sources to give a broad selection of clones representing
porcine transcripts. 1500 cDNAs were selected from subtracted cDNA libraries
generated from macrophages which had been treated in vitro under various conditions:
stimulated, unstimulated, infected with ASFV Malawi LIL20/1
isolate and uninfected. 1000 clones were selected from MARC EST libraries by
randomly choosing a single clone representing unique gene clusters. 100 clones
were generated by targeted PCR amplification of specific mRNAs from porcine tissue.
Ref: Macrophage Transcriptional Responses Following In Vitro Infection with a
Highly Virulent African Swine Fever Virus Isolate. F Zhang, Paul Hopwood, C C.
Abrams, A Downing, F Murray, R Talbot, A Archibald, S Lowden, LK. Dixon Journal
of Virology (submitted).