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TLA Comparison

The table below compares the TLA technology with conventional approaches. Comparison tables have been created for 3 applications: oncology, genetic engineering and clinical genetics. You can compare our TLA technology with any of the suggested alternatives by (de)selecting the method(s) of interest. More in-depth explanations can be found by hovering on top of cells that contain an "i” icon.

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  • WGS
  • PCR-based/Capture
  • qPCR/ddPCR
  • Southern blot
  • RNA Sequencing
  • FISH
  • Oncology
  • Genetic Engineering
  • Clinical Genetics
  • Genetic variants
  • Integration sites (TG)
  • Structural variation
  • Co-integrations
  • Transgene Sequence Variants
  • SNVs
  • Indels
  • Rearrangements
  • Concatemers
  • Copy number
  • TLA combined with NGS
  • i
    TLA can provide a copy number estimation based on 3 variables:
    - the number of integration sites
    - the number of transgene-transgene fusions
    - the ratio of the sequencing coverage on the transgene-side and genome-side of the integration site

    TLA only provides information on cells with integrated TG
  • WGS
  • i
    Only based on the identification of breakpoint fusion reads
  • i
    Only at high coverage
  • i
    Only at high coverage
  • i
    Cannot reliably detect structural variations in and around (trans)gene of interest
  • i
    Only at high coverage
  • i
    Assesses copy numbers in population of cells. It enables the assessment of TG sequencing coverage vs. the coverage across the host genome
  • PCR-based/Capture
  • i
    Only confirmation of known integration sites (not novel ones)
  • i
    Only short indels
  • i
    Only confirmation of known TG-TG fusions (not novel ones)
  • i
    Only confirmation of known TG-TG fusions (not novel ones)
  • i
    Known breakpoint marking integration site can be evaluated to determine the frequency of the integration site in a population
  • qPCR/ddPCR
  • i
    Only confirmation of known TG-TG fusions (not novel ones)
  • i
    Only confirmation of known TG-TG fusions (not novel ones)
  • Southern blot
  • i
    Structural variations can be identified/detected, but sequence information will not be generated
  • FISH
  • Genetic variants
  • Complete gene sequencing
  • Single Nucleotide Variants
  • Structural Variants
  • Indels
  • Gene fusions
  • Complex rearrangements
  • Copy number variation (CNV)
  • TLA combined with NGS
  • i
    TLA analyses can be used to quantify the relative abundance of different genomic loci
  • WGS
  • i
    Only at high coverage
  • i
    Only at high coverage
  • i
    Only at high coverage
  • i
    Cannot reliably detect structural variations in and around (trans)gene of interest
  • PCR-based/Capture
  • i
    Limited ability to sequence long genomic sequences.
    Does require a priori knowledge and therefore, will only be able to detect short indels and/or the presence of known mutations only
  • i
    Only in targeted loci
  • i
    Only short indels
  • i
    Only confirmation of known rearrangements (not novel ones)
  • RNA Sequencing
  • i
    Only in coding sequences of expressed genes
  • i
    Only in coding sequences of expressed genes
  • i
    Only in coding sequences of expressed genes
  • FISH
  • Genetic variants
  • Complete gene sequencing
  • Single Nucleotide Variants
  • Structural Variants
  • Indels
  • Gene fusions
  • Complex rearrangements
  • Copy number variation (CNV)
  • Haplotyping
  • TLA combined with NGS
  • i
    TLA can provide a copy number estimation based on 3 variables:
    - the number of integration sites
    - the number of transgene-transgene fusions
    - the ratio of the sequencing coverage on the transgene-side and genome-side of the integration site

    TLA only provides information on cells with integrated TG
  • i
    Because of more sequencing depth, it is possible to determine on which locus the variance of interest is present
  • WGS
  • i
    Only at high coverage
  • i
    Only at high coverage
  • i
    Only at high coverage
  • i
    Cannot reliably detect structural variations in and around (trans)gene of interest
  • i
    Assesses copy numbers in population of cells. It enables the assessment of TG sequencing coverage vs. the coverage across the host genome
  • PCR-based/Capture
  • i
    Limited ability to sequence long genomic sequences.
    Does require a priori knowledge and therefore, will only be able to detect short indels and/or the presence of known mutations only.
  • i
    Only short indels
  • i
    Only confirmation of known rearrangements (not novel ones)
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