TY - JOUR
T1 - Arrogant
T2 - An application to manipulate large gene collections
AU - Kulkarni, Amit V.
AU - Williams, Noelle Sevilir
AU - Lian, Yun
AU - Wren, Jonathan D.
AU - Mittelman, David
AU - Pertsemlidis, Alexander
AU - Garner, Harold R.
N1 - Funding Information:
This work was funded by NIH/NCI (5R33CA8165603), NIH/NCI SPORE (50CA70907) and NIH/NHLBI PGA (5U01HL6688002) and the P.O’B. Montgomery distinguished chair. We wish to thank John Fondon III, Dr Helen Hobbs and Dr Jonathan Cohen for important feedback. We would like to thank Affymetrix, Inc for providing accession numbers for the sequences on their microarrays.
PY - 2002/11/1
Y1 - 2002/11/1
N2 - Summary: ARROGANT (ARRay OrGANizing Tool) is a software tool developed to facilitate the identification, annotation and comparison of large collections of genes or clones. The objective is to enable users to compile gene/clone collections from different databases, allowing them to design experiments and analyze the collections as well as associated experimental data efficiently. ARROGANT can relate different sequence identifiers to their common reference sequence using the UniGene database, allowing for the comparison of data from two different microarray experiments. ARROGANT has been successfully used to analyze microarray expression data for colon cancer, to compile genes potentially related to cardiac diseases for subsequent resequencing (to identify single nucleotide polymorphisms, SNPs), to design a new comprehensive human cDNA microarray for cancer, to combine and compare expression data generated by different microarrays and to provide annotation for genes on custom and Affymetrix chips.
AB - Summary: ARROGANT (ARRay OrGANizing Tool) is a software tool developed to facilitate the identification, annotation and comparison of large collections of genes or clones. The objective is to enable users to compile gene/clone collections from different databases, allowing them to design experiments and analyze the collections as well as associated experimental data efficiently. ARROGANT can relate different sequence identifiers to their common reference sequence using the UniGene database, allowing for the comparison of data from two different microarray experiments. ARROGANT has been successfully used to analyze microarray expression data for colon cancer, to compile genes potentially related to cardiac diseases for subsequent resequencing (to identify single nucleotide polymorphisms, SNPs), to design a new comprehensive human cDNA microarray for cancer, to combine and compare expression data generated by different microarrays and to provide annotation for genes on custom and Affymetrix chips.
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U2 - 10.1093/bioinformatics/18.11.1410
DO - 10.1093/bioinformatics/18.11.1410
M3 - Article
C2 - 12424110
AN - SCOPUS:0036855401
SN - 1367-4803
VL - 18
SP - 1410
EP - 1417
JO - Bioinformatics
JF - Bioinformatics
IS - 11
ER -