SEQNEXT FOR THE ANALYSIS OF YOUR
NEXT GENERATION SEQUENCING DATA

SEQNEXT

SEQNEXT is a powerful and user-friendly application for mapping, alignment and variant detection of Next Generation Sequencing data. SEQNEXT can analyse data from all common sequencing platforms and kits (PCR-based, enrichment, sequence capture). Visualisation of all detected variants like deletions, insertions and indels of any length, SNPs, repeat regions as well as CNVs and gene fusions is clear and intuitive.

SEQNEXT offers access to public SNP-databases like dbSNP, 1000 Genomes, COSMIC, ClinVar, ClinVitae, ExAC and gnomAD for classification and filtering. All result data can be exchanged with our variant database for Shared Experience And Knowledge - varSEAK, transferred to laboratory internal LIM Systems and / or issued as personalised patient reports.

  • HIGHLIGHTS

    • NEW Whole Exome Sequencing (WES) analysis
    • Compatible with data from all common Next Generation Sequencing platforms and kits
    • Easy set up of individual target regions (ROIs) via import of bed- or manifest-files based on hg19 and / or hg38
    • Import of gene lists for filtering and analysis of WES data
    • Analysis of fastq-, fastq.gz- or bam-files
    • Efficient standards for mapping, alignment, quality and variant calling (used algorithms: BWA and Smith-Waterman, adapted by JSI)
    • Personalized settings for analysis and variant calling (≥ 0.1 %)
    • High sensitivity and specificity for detection of deletions, insertions and indels of any length, SNPs, repeat regions as well as CNVs and gene fusions
    • Adjustable settings such as whole genome mapping to filter pseudogene and homologous background
    • Easy change of transcript in the analysis view
    • Analysis of FFPE samples and molecular tagged sequences (e.g. smMIPs, UMIs)

     

    • Patient identification and genotyping via SNP IDs
    • All results for one patient shown in one screen incl. found variants, amino acid changes, HGVS nomenclatures etc.
    • Public SNP-databases dbSNP, 1000 Genomes, COSMIC, ClinVar, ClinVitae, ExAC and gnomAD are available for individual display and filter functions
    • Result export in vcf-file format (automatic with our TALKMASTER module)
    • Warnings for low quality, low coverage, no base calling and dropouts
    • Detailed summary of coverages and quality as well as information about "unused reads"
    • Internal mutation database keeping track of mutation detection history from SEQNEXT and SEQPATIENT
    • Detailed sequencing report for individual patients / orders
    • Data import (LISTENMASTER) / export (TALKMASTER) from / to any LIM System; connection to AlamutTM
    • Manual or automatic transfer of all detected variants to varSEAK for further filtering, interpretation and reporting

     

  • COSTUMER REVIEW

     

    Guy Froyen, PhD

    Jessa Hospital, Hasselt, Belgium

     

     

    "SEQNEXT was able to unequivocally detect and annotate all SNVs and indels including crucial deletions up to 52 bp (inCALR) and insertions of 51 bp (inFLT3). The number of analysis settings are multitude and once the different parameters have been set in consultancy with the helpful and friendly JSI specialists, the analysis can easily be performed by non-bioinformaticians, which is very important for hospitals where such highly specialized persons are absent. Customized data reporting is included and can be integrated in LIMS. A one time license fee with acceptable yearly maintenance costs makes the software affordable to all laboratories."
    read more...

     


  • PRODUCT BROCHURE

    JSI Product Brochure

    Download our product brochure and
    find out more about our products!

    SEQUENCE PILOT Brochure


  • NEW Whole Exome Sequencing (WES) analysis
  • Compatible with data from all common Next Generation Sequencing platforms and kits
  • Easy set up of individual target regions (ROIs) via import of bed- or manifest-files based on hg19 and / or hg38
  • Import of gene lists for filtering and analysis of WES data
  • Analysis of fastq-, fastq.gz- or bam-files
  • Efficient standards for mapping, alignment, quality and variant calling (used algorithms: BWA and Smith-Waterman, adapted by JSI)
  • Personalized settings for analysis and variant calling (≥ 0.1 %)
  • High sensitivity and specificity for detection of deletions, insertions and indels of any length, SNPs, repeat regions as well as CNVs and gene fusions
  • Adjustable settings such as whole genome mapping to filter pseudogene and homologous background
  • Easy change of transcript in the analysis view
  • Analysis of FFPE samples and molecular tagged sequences (e.g. smMIPs, UMIs)
  • Patient identification and genotyping via SNP IDs
  • All results for one patient shown in one screen incl. found variants, amino acid changes, HGVS nomenclatures etc.
  • Public SNP-databases dbSNP, 1000 Genomes, COSMIC, ClinVar, ClinVitae, ExAC and gnomAD are available for individual display and filter functions
  • Result export in vcf-file format (automatic with our TALKMASTER module)
  • Warnings for low quality, low coverage, no base calling and dropouts
  • Detailed summary of coverages and quality as well as information about "unused reads"
  • Internal mutation database keeping track of mutation detection history from SEQNEXT and SEQPATIENT
  • Detailed sequencing report for individual patients / orders
  • Data import (LISTENMASTER) / export (TALKMASTER) from / to any LIM System; connection to AlamutTM
  • Manual or automatic transfer of all detected variants to varSEAK for further filtering, interpretation and reporting

Guy Froyen, PhD

Jessa Hospital, Hasselt, Belgium

"SEQNEXT was able to unequivocally detect and annotate all SNVs and indels including crucial deletions up to 52 bp (inCALR) and insertions of 51 bp (inFLT3). The number of analysis settings are multitude and once the different parameters have been set in consultancy with the helpful and friendly JSI specialists, the analysis can easily be performed by non-bioinformaticians, which is very important for hospitals where such highly specialized persons are absent. Customized data reporting is included and can be integrated in LIMS. A one time license fee with acceptable yearly maintenance costs makes the software affordable to all laboratories."
read more...


JSI Product Brochure

Download our product brochure and
find out more about our products!

SEQUENCE PILOT Brochure