GeneAnnot: comprehensive two-way linking between oligonucleotide array probesets and GeneCards genes
| Autor: | Doron Lancet, Orit Shmueli, Tsippi Iny Stein, Vered Chalifa-Caspi, Maxim Shklar, Itai Yanai, Michael Shmoish, Marilyn Safran, Hila Benjamin-Rodrig, Ron Ophir, Naomi Rosen |
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| Rok vydání: | 2004 |
| Předmět: |
Statistics and Probability
Genetics Oligonucleotide High density Chromosome Mapping Documentation Sequence Analysis DNA Biology Biochemistry Computer Science Applications GeneCards Computational Mathematics Computational Theory and Mathematics Mrna level splice Oligonucleotide Arrays Molecular Biology Gene Sequence Alignment Algorithms Software Oligonucleotide Array Sequence Analysis |
| Zdroj: | Bioinformatics (Oxford, England). 20(9) |
| ISSN: | 1367-4803 |
| Popis: | Motivation: High density oligonucleotide arrays are usually annotated in a one-to-one fashion, with each probeset assigned to one gene. However, in reality, subsets of oligonucleotides in a probeset may match sequences within more than one gene, potentially leading to misinterpretations. Moreover, a gene is often represented by more than one probeset, and analyzing probe matches at the mRNA level can help one deduce whether these probesets are derived from the same or different splice variants. Results: The GeneAnnot system comprehensively documents the many-to-many relationship between oligonucleotide array probesets and annotated genes in GeneCards™. It performs pairwise alignments between the probe sequences and gene transcripts, and assigns sensitivity and specificity scores to each probeset/gene pair. Availability: http://genecards.weizmann.ac.il/geneannot/ Supplementary information: Program description and statistics http://genecards.weizmann.ac.il/geneannot/DOC/index.html |
| Databáze: | OpenAIRE |
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