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Related Concept Videos

RNA-seq03:21

RNA-seq

RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while microarray-based...
Next-generation Sequencing03:00

Next-generation Sequencing

The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features.
Southern Blot02:57

Southern Blot

Agarose gel electrophoresis is very useful in separating DNA fragments by size. Running a DNA ladder containing fragments of the known length alongside the sample helps determine the approximate length of the sample DNA fragments. However, additional steps are needed to verify the sequence identity of the sample DNA fragments.
Denatured DNA fragments must be transferred onto a carrier membrane from the gel to make it accessible to a probe - a small ssDNA fragment complementary to the target DNA...

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Updated: May 10, 2026

G2-seq: A High Throughput Sequencing-based Technique for Identifying Late Replicating Regions of the Genome
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STRait Razor: a length-based forensic STR allele-calling tool for use with second generation sequencing data.

David H Warshauer1, David Lin, Kumar Hari

  • 1Institute of Applied Genetics, Department of Forensic and Investigative Genetics, University of North Texas Health Science Center, 3500 Camp Bowie Boulevard, Fort Worth, TX 76107, USA.

Forensic Science International. Genetics
|June 18, 2013
PubMed
Summary

STRait Razor is a new software tool that accurately detects forensic short tandem repeat (STR) alleles in next-generation sequencing data. It offers flexibility for various STR loci and sequencing methods, improving forensic analysis.

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Area of Science:

  • Bioinformatics
  • Forensic Genetics
  • Genomics

Background:

  • Second-generation sequencing (SGS) can cover human genome short tandem repeats (STRs).
  • Limited bioinformatic tools exist for detecting STRs in raw sequence data.
  • Existing STR-calling tools may not suit forensic STR loci analysis.

Purpose of the Study:

  • Introduce STRait Razor, a novel Perl-based software for detecting forensically relevant STR alleles.
  • Evaluate STRait Razor's performance with various sequencing data and instruments.

Main Methods:

  • STRait Razor analyzes FASTQ data based on allelic length for STR loci.
  • The software handles simple to complex repeat motifs without extensive allelic data.
  • It processes single-end and paired-end data with intelligent parallel processing and customizable parameters.

Main Results:

  • STRait Razor detected alleles for 44 autosomal and Y-chromosome STR loci.
  • The software demonstrated 100% concordance in detecting STR alleles across different library preparation methods and Illumina instruments.
  • Analysis revealed insights into how preparation chemistries and sequencing parameters impact STR allele detection.

Conclusions:

  • STRait Razor is a robust and accurate tool for bioinformatic detection of forensic STR alleles.
  • The software provides a flexible and efficient solution for analyzing STR loci in SGS data.
  • Findings highlight the importance of preparation and sequencing parameters in STR analysis.