Journal article
Parallel creation of non-redundant gene indices from partial mRNA transcripts
Future Generation Computer Systems, Vol.18(6), pp.863-870
2002
DOI: 10.1016/S0167-739X(02)00059-6
Abstract
This paper describes the UIcluster software tool, which partitions expressed sequence tag (EST) sequences and other genetic sequences into “clusters” based on sequence similarity. Ideally, each cluster will contain sequences that all represent the same gene. UIcluster has been developed over the course of 4 years to solve this problem efficiently and accurately for large data sets consisting of tens or hundreds of thousands of EST sequences. The latest version of the application has been parallelized using the MPI standard. Both the computation and memory requirements of the program can be distributed among multiple (possibly distributed) UNIX processes.
Details
- Title: Subtitle
- Parallel creation of non-redundant gene indices from partial mRNA transcripts
- Creators
- Nishank TrivediJared BischofSteve DavisKevin PedrettiTodd E ScheetzTerry A BraunChad A RobertsNatalie L RobinsonVal C SheffieldM.Bento SoaresThomas L Casavant
- Resource Type
- Journal article
- Publication Details
- Future Generation Computer Systems, Vol.18(6), pp.863-870
- DOI
- 10.1016/S0167-739X(02)00059-6
- ISSN
- 0167-739X
- eISSN
- 1872-7115
- Publisher
- Elsevier B.V
- Language
- English
- Date published
- 2002
- Academic Unit
- Roy J. Carver Department of Biomedical Engineering; Electrical and Computer Engineering; Stead Family Department of Pediatrics; Iowa Neuroscience Institute; Medical Genetics and Genomics; Ophthalmology and Visual Sciences
- Record Identifier
- 9983980388602771
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