Unknown

Dataset Information

0

FusionSeq: a modular framework for finding gene fusions by analyzing paired-end RNA-sequencing data.

ABSTRACT: We have developed FusionSeq to identify fusion transcripts from paired-end RNA-sequencing. FusionSeq includes filters to remove spurious candidate fusions with artifacts, such as misalignment or random pairing of transcript fragments, and it ranks candidates according to several statistics. It also has a module to identify exact sequences at breakpoint junctions. FusionSeq detected known and novel fusions in a specially sequenced calibration data set, including eight cancers with and without known rearrangements.

SUBMITTER: Sboner A 

PROVIDER: S-EPMC3218660 | biostudies-literature | 2010

REPOSITORIES: biostudies-literature

Json Xml
altmetric image

Publications

We have developed FusionSeq to identify fusion transcripts from paired-end RNA-sequencing. FusionSeq includes filters to remove spurious candidate fusions with artifacts, such as misalignment or random pairing of transcript fragments, and it ranks candidates according to several statistics. It also has a module to identify exact sequences at breakpoint junctions. FusionSeq detected known and novel fusions in a specially sequenced calibration data set, including eight cancers with and without kno  ...[more]

Similar Datasets

Genomics FusionSeq: a modular framework for finding gene fusions by analyzing Paired-End RNA-Sequencing data
| phs000311.v1.p1 | EGA
Genomics FusionSeq: a Modular Framework for Finding Gene Fusions by Analyzing Paired-End RNA Sequencing Data
| PRJNA74881 | ENA
Unknown A probabilistic framework for aligning paired-end RNA-seq data.
| S-EPMC2916723 | biostudies-literature
Unknown QUANTIFYING ALTERNATIVE SPLICING FROM PAIRED-END RNA-SEQUENCING DATA.
| S-EPMC4005600 | biostudies-literature
Unknown An integrative approach to reveal driver gene fusions from paired-end sequencing data in cancer.
| S-EPMC3086882 | biostudies-literature
Unknown BreakFusion: targeted assembly-based identification of gene fusions in whole transcriptome paired-end sequencing data.
| S-EPMC3389765 | biostudies-literature
Genomic FusionSeq: Finding Fusions with Paired-End RNA-Seq
| phs000311 | dbGaP
Unknown Reconstructing cancer genomes from paired-end sequencing data.
| S-EPMC3358655 | biostudies-literature
Unknown The Drosophila melanogaster transcriptome by paired-end RNA sequencing.
| S-EPMC3032934 | biostudies-literature
Unknown Konnector v2.0: pseudo-long reads from paired-end sequencing data.
| S-EPMC4582294 | biostudies-literature