Advancing FDSTools by integrating STRNaming 1.1


      • STRNaming 1.1 was integrated in FDSTools 2.0.
      • STRNaming auto-assigns informative names to MPS STR alleles, simplifying assay configuration in FDSTools.
      • FDSTools is provided with additional allele calling options facilitating automated high-throughput analysis of reference samples.
      • FDSTools analysis settings for automated analysis of a large part of the ForenSeq DNA Signature Prep kit were determined.


      The introduction of massively parallel sequencing in forensic analysis has been facilitated with typing kits, analysis software and allele naming tools such as the ForenSeq DNA Signature Prep (DSP) kit, FDSTools and STRNaming respectively. Here we describe how FDSTools 2.0 with integrated and refined STRNaming nomenclature was validated for implementation under ISO 17025 accreditation for the ForenSeq DSP kit. Newly-added options result in efficient automatic allele calling for the majority of markers while specific settings are applied for ‘novel’ sequence variants to avoid the calling of remaining variable noise observed in samples sequenced with the ForenSeq DSP kit that seem to arise in the PCR. Genome-wide built-in reference data allows for greatly simplified configuration of allele naming for human targets.



      STR (Short Tandem Repeat), MPS (Massively Parallel Sequencing)
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        • Hoogenboom J.
        • Sijen T.
        • van der Gaag K.J.
        STRNaming: generating simple, informative names for sequenced STR alleles in a standardised and automated manner.
        Forensic Sci. Int. Genet. 2021; 52102473
        • Hoogenboom J.
        • van der Gaag K.J.
        • et al.
        FDSTools: a software package for analysis of massively parallel sequencing data with the ability to recognise and correct STR stutter and other PCR or sequencing noise.
        Forensic Sci. Int. Genet. 2017; 27: 27-40
        • Jäger A.C.
        • et al.
        Developmental validation of the MiSeq FGx forensic genomics system for targeted next generation sequencing in forensic DNA casework and database laboratories.
        Forensic Sci. Int. Genet. 2017; 28: 52-70
        • Theophilus A.
        • et al.
        A novel exoplanetary habitability score via particle swarm optimization of CES production functions.
        IEEE Symp. Ser. Comput. Intell. 2018; : 2139-2147
        • Yates A.
        • et al.
        The Ensembl REST API: Ensembl data for any language.
        Bioinformatics. 2014; 31: 143-145
        • Westen A.
        • et al.
        Comparing six commercial autosomal STR kits in a large Dutch population sample.
        Forensic Sci. Int. Genet. 2014; 10: 55-63
        • Kraaijenbrink T.
        • et al.
        A linguistically informed autosomal STR survey of human populations residing in the greater himalayan region.
        PLoS One. 2014; 9e91534
      1. P. de Knijff, J. Pijpe, Population Genetics of African Pygmies, 2015. Unpublished work.

        • Martin M.
        Cutadapt removes adapter sequences from high-throughput sequencing reads.
        EMBnet J. 2011; 17: 10-12
        • Magoč T.
        • Salzberg S.L.
        FLASH: fast length adjustment of short reads to improve genome assemblies.
        Bioinformatics. 2011; 27: 2957-2963
        • Gettings K.B.
        • et al.
        STRSeq: a catalog of sequence diversity at human identification Short Tandem Repeat loci.
        Forensic Sci. Int. Genet. 2017; 31: 111-117
        • Guo Y.
        • et al.
        Improvements and impacts of GRCh38 human reference on high throughput sequencing data analysis.
        Genomics. 2017; 109: 83-90
        • Ralf A.
        • et al.
        Identification and characterization of novel rapidly mutating Y-chromosomal short tandem repeat markers.
        Hum. Mutat. 2020; 41: 1680-1696
        • Parson W.
        • et al.
        Commission of the International Society for Forensic Genetics: revised and extended guidelines for mitochondrial DNA typing.
        Forensic Sci. Int. Genet. 2014; 13: 134-142
        • de Leeuw R.H.
        • et al.
        Diagnostics of short tandem repeat expansion variants using massively parallel sequencing and componential tools.
        Eur. J. Hum. Genet. 2019; 27: 400-407
        • Lepais O.
        • et al.
        Fast sequence-based microsatellite genotyping development workflow.
        PeerJ. 2020; 8e9085
        • Sharma V.
        • et al.
        Analyzing degraded DNA and challenging samples using the ForenSeq™ DNA Signature Prep kit.
        Sci. Justice. 2020; 60: 243-252
        • Hall C.L.
        • et al.
        Accurate profiling of forensic autosomal STRs using the Oxford Nanopore Technologies MinION device.
        Forensic Sci. Int. Genet. 2022; 56102629
        • Tytgat O.
        • et al.
        Nanopore sequencing of a forensic combined STR and SNP multiplex.
        Forensic Sci. Int. Genet. 2022; 56102621
        • Xie M.
        • et al.
        Development and validation of a novel 26-plex system for prenatal diagnosis with forensic markers.
        Int. J. Leg. Med. 2022; 136: 527-537