Arrogant: An application to manipulate large gene collections

Amit V. Kulkarni, Noelle Sevilir Williams, Yun Lian, Jonathan D. Wren, David Mittelman, Alexander Pertsemlidis, Harold R. Garner

Research output: Contribution to journalArticle

8 Citations (Scopus)

Abstract

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.

Original languageEnglish (US)
Pages (from-to)1410-1417
Number of pages8
JournalBioinformatics
Volume18
Issue number11
StatePublished - Nov 1 2002

Fingerprint

Microarrays
Genes
Microarray
Gene
Clone Cells
Clone
Databases
Molecular Sequence Annotation
Annotation
Cancer
CDNA Microarray
Microarray Analysis
Oligonucleotide Array Sequence Analysis
Colonic Neoplasms
Single Nucleotide Polymorphism
Single nucleotide Polymorphism
Heart Diseases
Software
Nucleotides
Polymorphism

ASJC Scopus subject areas

  • Clinical Biochemistry
  • Computational Theory and Mathematics
  • Computer Science Applications

Cite this

Kulkarni, A. V., Williams, N. S., Lian, Y., Wren, J. D., Mittelman, D., Pertsemlidis, A., & Garner, H. R. (2002). Arrogant: An application to manipulate large gene collections. Bioinformatics, 18(11), 1410-1417.

Arrogant : An application to manipulate large gene collections. / Kulkarni, Amit V.; Williams, Noelle Sevilir; Lian, Yun; Wren, Jonathan D.; Mittelman, David; Pertsemlidis, Alexander; Garner, Harold R.

In: Bioinformatics, Vol. 18, No. 11, 01.11.2002, p. 1410-1417.

Research output: Contribution to journalArticle

Kulkarni, AV, Williams, NS, Lian, Y, Wren, JD, Mittelman, D, Pertsemlidis, A & Garner, HR 2002, 'Arrogant: An application to manipulate large gene collections', Bioinformatics, vol. 18, no. 11, pp. 1410-1417.
Kulkarni AV, Williams NS, Lian Y, Wren JD, Mittelman D, Pertsemlidis A et al. Arrogant: An application to manipulate large gene collections. Bioinformatics. 2002 Nov 1;18(11):1410-1417.
Kulkarni, Amit V. ; Williams, Noelle Sevilir ; Lian, Yun ; Wren, Jonathan D. ; Mittelman, David ; Pertsemlidis, Alexander ; Garner, Harold R. / Arrogant : An application to manipulate large gene collections. In: Bioinformatics. 2002 ; Vol. 18, No. 11. pp. 1410-1417.
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