Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Labeling DNA Probes03:31

Labeling DNA Probes

9.6K
DNA probes are fragments of DNA labeled with a reporter tag to enable their detection or purification. The resulting labeled DNA probes can then hybridize to target nucleic acid sequences through complementary base-pairing, and may be used to recover or identify these regions.
Radioisotopes, fluorophores, or small molecule binding partners like biotin or digoxigenin, are the most widely used reporter tags for labeling DNA probes. These labels can be attached to the probe DNA molecule via...
9.6K
Southern Blot02:57

Southern Blot

23.4K
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...
23.4K
Modern Molecular Taxonomy01:29

Modern Molecular Taxonomy

770
Advancements in molecular biology have revolutionized the identification and characterization of bacteria, with multiple methods leveraging DNA sequencing for enhanced precision. As sequencing technologies improve and costs decline, these approaches are increasingly used in clinical, environmental, and evolutionary studies.Multilocus Sequence Typing (MLST) examines several housekeeping genes, essential chromosomal genes encoding cellular functions, to distinguish strains. Approximately...
770
RNA-seq03:21

RNA-seq

12.2K
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...
12.2K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Characterisation of the Novel HLA-DRB4*01:229 Allele in a Korean Individual by Next-Generation Sequencing.

HLA·2026
Same author

Characterisation of the Novel HLA-DQA1*04:29 Allele in a Korean Individual by Next-Generation Sequencing.

HLA·2026
Same author

Comparison of flow cytometric osmotic fragility test between kinetic and endpoint assay principle.

Cytometry. Part B, Clinical cytometry·2025
Same author

Comparison of Urinary Red Blood Cell Distribution (URD) and Dysmorphic Red Blood Cells for Detecting Glomerular Hematuria: A Multicenter Study.

Journal of clinical laboratory analysis·2025
Same author

Characterisation of the Novel HLA-C*03:657 Allele in a Korean Individual by Next-Generation Sequencing.

HLA·2025
Same author

Characterization of the novel HLA-DPA1*02:124 allele in a Korean individual by next-generation sequencing.

HLA·2024

Related Experiment Video

Updated: Feb 24, 2026

Split Hybridization Probe Utilizing a DNA Fluorescent Light-up Aptamer as a Signal Reporter for Sequence-Specific Nucleic Acid Analysis
07:10

Split Hybridization Probe Utilizing a DNA Fluorescent Light-up Aptamer as a Signal Reporter for Sequence-Specific Nucleic Acid Analysis

Published on: July 8, 2025

1.1K

A novel analysis strategy for HLA typing using a sequence-specific oligonucleotide probe method.

D I Won1

  • 1Department of Clinical Pathology, Kyungpook National University School of Medicine, Daegu, South Korea.

HLA
|August 11, 2017
PubMed
Summary

A new filtering and scoring (FnS) method significantly speeds up human leukocyte antigen (HLA) typing using reverse sequence-specific oligonucleotide probes (SSOPs). This FnS approach improves efficiency and accuracy compared to traditional exact pattern matching (EPM).

Keywords:
HLA typinganalysis strategysequence-specific oligonucleotide probesoftware program

More Related Videos

Personalized Peptide Arrays for Detection of HLA Alloantibodies in Organ Transplantation
08:07

Personalized Peptide Arrays for Detection of HLA Alloantibodies in Organ Transplantation

Published on: September 6, 2017

10.7K
Multiplex PCR and Reverse Line Blot Hybridization Assay mPCR/RLB
10:15

Multiplex PCR and Reverse Line Blot Hybridization Assay mPCR/RLB

Published on: August 6, 2011

44.4K

Related Experiment Videos

Last Updated: Feb 24, 2026

Split Hybridization Probe Utilizing a DNA Fluorescent Light-up Aptamer as a Signal Reporter for Sequence-Specific Nucleic Acid Analysis
07:10

Split Hybridization Probe Utilizing a DNA Fluorescent Light-up Aptamer as a Signal Reporter for Sequence-Specific Nucleic Acid Analysis

Published on: July 8, 2025

1.1K
Personalized Peptide Arrays for Detection of HLA Alloantibodies in Organ Transplantation
08:07

Personalized Peptide Arrays for Detection of HLA Alloantibodies in Organ Transplantation

Published on: September 6, 2017

10.7K
Multiplex PCR and Reverse Line Blot Hybridization Assay mPCR/RLB
10:15

Multiplex PCR and Reverse Line Blot Hybridization Assay mPCR/RLB

Published on: August 6, 2011

44.4K

Area of Science:

  • Immunogenetics
  • Molecular Biology
  • Bioinformatics

Background:

  • Human Leukocyte Antigen (HLA) typing is crucial for transplantation and disease association studies.
  • Conventional data analysis for HLA typing using reverse sequence-specific oligonucleotide probes (SSOPs), such as exact pattern matching (EPM), can be time-consuming, especially with numerous probe mismatches.
  • There is a need for more efficient and accurate methods for HLA typing data analysis.

Purpose of the Study:

  • To develop and evaluate a novel filtering and scoring (FnS) strategy for human leukocyte antigen (HLA) typing using reverse sequence-specific oligonucleotide probes (SSOPs).
  • To compare the efficiency and accuracy of the FnS method against the conventional exact pattern matching (EPM) method.
  • To assess the potential clinical utility of the FnS method for HLA typing.

Main Methods:

  • A novel filtering and scoring (FnS) method was developed, incorporating subject ethnicity and definite probe reactions for initial filtering.
  • Candidate alleles and pairs were filtered, and complete reaction patterns for all probes (CRPoAPs) were compared to calculate mismatch scores.
  • Analysis times for FnS and EPM methods were measured and compared for intermediate resolution HLA typing (n=507).

Main Results:

  • The FnS method demonstrated significantly shorter analysis times compared to EPM (00:21 vs. 01:04, P < .05).
  • Analysis time with the FnS method remained relatively constant irrespective of the number of mismatched probes.
  • An alternative filtering approach neglecting ethnicity but using definite probes did not compromise accuracy, though analysis time was longer.

Conclusions:

  • The FnS method offers improved accuracy and efficiency for HLA typing compared to EPM.
  • The FnS strategy provides a more consistent analysis time, making it potentially more reliable in clinical settings.
  • This novel analysis strategy holds promise for enhancing HLA typing workflows in clinical diagnostics.