Min Xiang Jia
Center for Applied Chemical Biology, Department of Biological Sciences, Youngstown State University, Youngstown, OH 44555, USA.
Int J Bioinform Res Appl. 2013;9(3):221-6. doi: 10.1504/IJBRA.2013.053603.
Expressed Sequence Tags (ESTs) are a rich resource for identifying Alternatively Splicing (AS) genes. The ASFinder webserver is designed to identify AS isoforms from EST-derived sequences. Two approaches are implemented in ASFinder. If no genomic sequences are provided, the server performs a local BLASTN to identify AS isoforms from ESTs having both ends aligned but an internal segment unaligned. Otherwise, ASFinder uses SIM4 to map ESTs to the genome, then the overlapping ESTs that are mapped to the same genomic locus and have internal variable exon/intron boundaries are identified as AS isoforms. The tool is available at http://proteomics.ysu.edu/tools/ASFinder.html.
表达序列标签（ESTs）是用于识别可变剪接（AS）基因的丰富资源。ASFinder网络服务器旨在从EST衍生序列中识别AS异构体。ASFinder中实现了两种方法。如果未提供基因组序列，服务器会执行本地BLASTN以从两端对齐但内部片段未对齐的EST中识别AS异构体。否则，ASFinder使用SIM4将EST映射到基因组，然后将映射到同一基因组位点且具有内部可变外显子/内含子边界的重叠EST识别为AS异构体。该工具可在http://proteomics.ysu.edu/tools/ASFinder.html获取。
