Discover Community Create You

Loading publication...

Noodle always counts identifier-free feature events for service operation. With your permission, Google Analytics can also estimate audience and engagement. Search text, publication identifiers, cookies, IP addresses and browser fingerprints are never included in Noodle's first-party event counters.

Privacy details

Article

Barnacle: detecting and characterizing tandem duplications and fusions in transcriptome assemblies

14 Aug 2013

Abstract excerpt

BACKGROUND: Chimeric transcripts, including partial and internal tandem duplications (PTDs, ITDs) and gene fusions, are important in the detection, prognosis, and treatment of human cancers. RESULTS: We describe Barnacle, a production-grade analysis tool that detects such chimeras in de novo assemblies of RNA-seq data, and supports prioritizing them for review and validation by reporting the relative coverage of...

Read the complete abstract on PubMed

Topics

Share this publication in a Topic to start or enrich a Post.

Share to Acute Myeloid Leukemia Research
Share to Genomic variations and chromosomal abnormalities
Share to Single-cell and spatial transcriptomics

Methodology Data sources Editorial policy Privacy About Contact Helena Bioinformatics

Source

Identifiers

PMID: 23941359
DOI: 10.1186/1471-2164-14-550

Provenance

PubMed metadata and Literature Corpus relationships. Corpus snapshot updated 8 Sept 2026.

Related research

Semantic proximity does not establish scientific evidence.

Research trail→

Click a neighbor to travelStep 1 · 12 closest

Barnacle: detecting and characterizing tandem duplications and fusions in transcriptome assembliesPMID 23941359Read ↗

ChimPipe: Accurate detection of fusion genes and transcription-induced chimeras from RNA-seq dataSemantic proximity Read ↗

Targeted <i>in silico</i> characterization of fusion transcripts in tumor and normal tissues via FusionInspectorSemantic proximity Read ↗

FuseFISH: Robust Detection of Transcribed Gene Fusions in Single CellsSemantic proximity Read ↗

TAP: a targeted clinical genomics pipeline for detecting transcript variants using RNA-seq data.Semantic proximity Read ↗

A comprehensive benchmark of transcriptome-wide fusion detection using long-read RNA sequencingSemantic proximity Read ↗

JAFFAL: Detecting fusion genes with long read transcriptome sequencingSemantic proximity Read ↗

Whole transcriptome sequencing detects a large number of novel fusion transcripts in patients with AML and MDS.Semantic proximity Read ↗

annoFuse: an R Package to annotate, prioritize, and interactively explore putative oncogenic RNA fusionsSemantic proximity Read ↗

deFuse: an algorithm for gene fusion discovery in tumor RNA-Seq data.Semantic proximity Read ↗

Fusion detection and quantification by pseudoalignmentSemantic proximity Read ↗

MINTIE: identifying novel structural and splice variants in transcriptomes using RNA-seq dataSemantic proximity Read ↗

Discovery of clinically relevant fusions in pediatric cancerSemantic proximity Read ↗

⌁Select a neighboring publication to make it the new centre.