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Retracted: Tumor Protein D52-Like 2 Contributes to Proliferation of Breast Cancer Cells

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Identification of novel fusion genes in lung cancer using breakpoint assembly of transcriptome sequencing data

(2015) Lynnette Fernandez-Cuesta et al.   GENOME BIOLOGY

Gene Fusions Associated with Recurrent Amplicons Represent a Class of Passenger Aberrations in Breast Cancer

(2015) Shanker Kalyana-Sundaram et al.   NEOPLASIA

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ABCA Transporter Gene Expression and Poor Outcome in Epithelial Ovarian Cancer

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(2014) Markus Schueler et al.   GENOME BIOLOGY

SOAPfusion: a robust and effective computational fusion discovery tool for RNA-seq reads

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FusionQ: a novel approach for gene fusion detection and quantification from paired-end RNA-Seq

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Characterization of the human ESC transcriptome by hybrid sequencing

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SOAPfuse: an algorithm for identifying fusion transcripts from paired-end RNA-Seq data

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BreakFusion: targeted assembly-based identification of gene fusions in whole transcriptome paired-end sequencing data

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The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression

(2012) T. Derrien et al.   GENOME RESEARCH

Hybrid error correction and de novo assembly of single-molecule sequencing reads

(2012) Sergey Koren et al.   NATURE BIOTECHNOLOGY

FusionFinder: A Software Tool to Identify Expressed Gene Fusion Candidates from RNA-Seq Data

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Mind the Gap: Upgrading Genomes with Pacific Biosciences RS Long-Read Sequencing Technology

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Improving PacBio Long Read Accuracy by Short Read Alignment

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RNA-Seq Mapping and Detection of Gene Fusions with a Suffix Array Algorithm

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FusionMap: detecting fusion genes from next-generation sequencing data at base-pair resolution

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ChimeraScan: a tool for identifying chimeric transcription in sequencing data

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Transcriptional consequences of genomic structural aberrations in breast cancer

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Functionally recurrent rearrangements of the MAST kinase and Notch gene families in breast cancer

(2011) Dan R Robinson et al.   NATURE MEDICINE

Repetitive DNA and next-generation sequencing: computational challenges and solutions

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NCBI Reference Sequences (RefSeq): current status, new features and genome annotation policy

(2011) K. D. Pruitt et al.   NUCLEIC ACIDS RESEARCH

Ensembl 2012

(2011) P. Flicek et al.   NUCLEIC ACIDS RESEARCH

Long-range massively parallel mate pair sequencing detects distinct mutations and similar patterns of structural mutability in two breast cancer cell lines

(2011) Oliver A. Hampton et al.   Cancer Genetics

deFuse: An Algorithm for Gene Fusion Discovery in Tumor RNA-Seq Data

(2011) Andrew McPherson et al.   PLoS Computational Biology

Identification of fusion genes in breast cancer by paired-end RNA-sequencing

(2011) Henrik Edgren et al.   GENOME BIOLOGY

TopHat-Fusion: an algorithm for discovery of novel fusion transcripts

(2011) Daehwan Kim et al.   GENOME BIOLOGY

Regulators of G-Protein signaling RGS10 and RGS17 regulate chemoresistance in ovarian cancer cells

(2010) Shelley B Hooks et al.   Molecular Cancer

Detection of splice junctions from paired-end RNA-seq data by SpliceMap

(2010) K. F. Au et al.   NUCLEIC ACIDS RESEARCH

FusionSeq: a modular framework for finding gene fusions by analyzing Paired-End RNA-Sequencing data

(2010) Andrea Sboner et al.   GENOME BIOLOGY

Statistical inferences for isoform expression in RNA-Seq

(2009) Hui Jiang et al.   BIOINFORMATICS

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

Identification of Novel Gene Amplifications in Breast Cancer and Coexistence of Gene Amplification with an Activating Mutation of PIK3CA

(2009) M. Kadota et al.   CANCER RESEARCH

Complex landscapes of somatic rearrangement in human breast cancer genomes

(2009) Philip J. Stephens et al.   NATURE

A sequence-level map of chromosomal breakpoints in the MCF-7 breast cancer cell line yields insights into the evolution of a cancer genome

(2008) O. A. Hampton et al.   GENOME RESEARCH

Genome-wide detection and analysis of hippocampus core promoters using DeepCAGE

(2008) E. Valen et al.   GENOME RESEARCH

Role of AIB1 for Tamoxifen Resistance in Estrogen Receptor-Positive Breast Cancer Cells

(2008) Qingbo Su et al.   ONCOLOGY