FusionMap statistics

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Citations per year

Number of citations per year for the bioinformatics software tool FusionMap

Tool usage distribution map

This map represents all the scientific publications referring to FusionMap per scientific context
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Associated diseases

This word cloud represents FusionMap usage per disease context

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FusionMap specifications


Unique identifier OMICS_00316
Name FusionMap
Software type Package/Module
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux, Windows
Programming languages C#
Computer skills Advanced
Stability Stable
Maintained Yes


No version available

Publication for FusionMap

FusionMap citations


Importance of Comprehensive Molecular Profiling for Clinical Outcome in Children With Recurrent Cancer

PMCID: 5920151
PMID: 29732366
DOI: 10.3389/fped.2018.00114

[…] genuity Variant Analysis. RNA sequencing was performed using Illumina's TruSeq Stranded Total RNA Library Prep Kit and paired-end sequencing was performed to gain an average output of 50–100 M reads. FusionMap was used for the screening of fusion transcripts [], and if positive, validation was carried out by Sanger sequencing. Sequencing data can be found in ENA under accession number PRJEB23819. […]


Genomic profiling of dedifferentiated liposarcoma compared to matched well differentiated liposarcoma reveals higher genomic complexity and a common origin

PMCID: 5880260
PMID: 29610390
DOI: 10.1101/mcs.a002386

[…] To reduce false positives (), we applied an integrative analysis of multiple fusion detection methods. We first applied four tools—TopHat-Fusion (), MapSplice (), FusionMap (), and PRADA ()—to detect putative fusions in our nine pairs of frozen WD/DD samples. Then, fusions with at least one junction read and at least two supporting mate pair reads that mapped t […]


Integrated Molecular Characterization of Gastrointestinal Stromal Tumors (GIST) Harboring the Rare D842V Mutation in PDGFRA Gene

Int J Mol Sci
PMCID: 5877593
PMID: 29510530
DOI: 10.3390/ijms19030732

[…] ine for the presence of any chromosomal rearrangements leading to gene fusions. For this purpose, four different tools were adopted: TopHat-Fusion v.2.0.9 [], Defuse v0.6.2 [], ChimeraScan v0.4.5 [], FusionMap v2015 []. In order to increase the specificity, a predicted gene fusion was considered for further investigation if it was detected at least by two of four predictors. Gene expression profil […]


Unforeseen clonal evolution of tumor cell population in recurrent and metastatic dermatofibrosarcoma protuberans

PLoS One
PMCID: 5627939
PMID: 28977029
DOI: 10.1371/journal.pone.0185826
call_split See protocol

[…] wiki/Bam_read_count) was used to count unique reads (MAPQ ≥ 20) at a gene level and the gene expression levels were normalized by reads per kilobase per million (RPKM). Fusion events were detected by FusionMap (http://www.arrayserver.com/wiki/index.php?title=FusionMap) []. […]


Involvement of DPP9 in gene fusions in serous ovarian carcinoma

BMC Cancer
PMCID: 5594496
PMID: 28893231
DOI: 10.1186/s12885-017-3625-6

[…] h were sequenced. The RNA-seq files gave on average 32 million read pairs per sample (range: 24–42 million). The FASTQC software was used for quality control of the raw sequence data []. The software FusionMap [] (release date 2012–04-16; paired-end utility using default parameters) and the associated pre-built Human B37 and RefGene from the FusionMap website were used for discovery of fusion tran […]


Investigating the mechanisms of papillary thyroid carcinoma using transcriptome analysis

PMCID: 5865774
PMID: 28849102
DOI: 10.3892/mmr.2017.7346

[…] The potential gene fusion events were predicted using FusionMap software (http://www.omicsoft.com/fusionmap/) (), and then visualized using Circos software (http://www.circos.ca/) (). The Gene Ontology (GO; www.geneontology.org/) database describes cellu […]

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FusionMap institution(s)
Research and Development Informatics, Amgen Inc; One Amgen Center Drive, Thousand Oaks, CA, USA

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