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

Types of RNA01:23

Types of RNA

72.7K
Overview
Three main types of RNA are involved in protein synthesis: messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). These RNAs perform diverse functions and can be broadly classified as protein-coding or non-coding RNA. Non-coding RNAs play important roles in the regulation of gene expression in response to developmental and environmental changes. Non-coding RNAs in prokaryotes can be manipulated to develop more effective antibacterial drugs for human or animal use.
RNA...
72.7K
Types of Hormones02:13

Types of Hormones

83.2K
Hormones can be classified into three main types based on their chemical structures: steroids, peptides, and amines. Their actions are mediated by the specific receptors they bind to on target cells.
83.2K
Chromatographic Resolution01:15

Chromatographic Resolution

2.0K
In chromatography, a solute moves through a chromatographic column and tends to spread, forming a Gaussian-shaped band. The longer the solute spends in the column, the broader the band becomes. The broadening can lead to overlaps within the column, affecting separation effectiveness.
The effectiveness of separation can be evaluated by determining the level of separation between two neighboring peaks in a chromatogram, which represents the individual components of a sample.
In chromatography,...
2.0K
Types of Toxins01:36

Types of Toxins

3.2K
Humans continually engage with an environment rich in potentially harmful chemicals. These are introduced to our bodies through inhalation, ingestion, or skin contact. These chemicals exist in various forms, such as air and environmental pollutants, agricultural chemicals, organic solvents, and heavy metals.
Air pollutants, primarily gases, pose significant threats to respiratory health, leading to conditions like hypoxia, lung cancer, and in extreme cases, death.
Environmental pollutants like...
3.2K
Types of Coprecipitation01:10

Types of Coprecipitation

6.1K
Coprecipitation is the contamination of a precipitate by otherwise soluble species and occurs via different processes. In colloidal precipitates, coprecipitation occurs via surface adsorption. For instance, barium sulfate has a primary layer of adsorbed barium ions and a secondary layer of nitrate counterions. This results in contamination of the precipitate by barium nitrate.
Sometimes, ions in a crystal lattice can undergo isomorphous replacement by inclusions of similar charge and size. For...
6.1K
Blood Typing01:10

Blood Typing

2.5K
Understanding an individual's blood group is a critical component of transfusion medicine. It ensures compatibility in blood transfusions, organ transplants, and even during pregnancy. Determining these blood groups involves the ABO and Rh blood typing systems, utilizing specific antigens and corresponding anti-sera to identify an individual's blood type.
Antigens are protein molecules that reside on the surface of red blood cells (RBCs). The ABO and Rh blood typing systems target...
2.5K

You might also read

Related Articles

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

Sort by
Same author

Increased neural activity in the bed nucleus of the stria terminalis of uninfected canaries after observation of infected conspecifics.

Biology letters·2026
Same author

CLADES - Contrastive Learning Augmented DifferEntial Splicing with Orthologous Positive Pairs.

bioRxiv : the preprint server for biology·2026
Same author

Publisher Correction: Deciphering the role of complement system genes in pancreatic cancer susceptibility and prognosis.

Nature communications·2026
Same author

Estimation in Networks with Spatiotemporally Correlated Noise.

IEEE transactions on automatic control·2026
Same author

Data assimilation for estimating time-varying reproduction numbers.

Journal of the Royal Society, Interface·2026
Same author

Reconstructing the early spatial spread of pandemic respiratory viruses in the United States.

Proceedings of the National Academy of Sciences of the United States of America·2026

Related Experiment Video

Updated: Jan 23, 2026

Sample Preparation and Analysis of RNASeq-based Gene Expression Data from Zebrafish
11:42

Sample Preparation and Analysis of RNASeq-based Gene Expression Data from Zebrafish

Published on: October 27, 2017

11.5K

arcasHLA: high-resolution HLA typing from RNAseq.

Rose Orenbuch1,2, Ioan Filip1, Devon Comito3

  • 1Department of Systems Biology, Columbia University, New York, NY 10032, USA.

Bioinformatics (Oxford, England)
|June 8, 2019
PubMed
Summary

We developed arcasHLA, a new computational tool for accurate human leukocyte antigen (HLA) typing from RNA sequencing data. This fast and precise method enhances HLA genotype inference for various research applications.

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

10.6K
HLA-Ig Based Artificial Antigen Presenting Cells for Efficient ex vivo Expansion of Human CTL
07:18

HLA-Ig Based Artificial Antigen Presenting Cells for Efficient ex vivo Expansion of Human CTL

Published on: April 11, 2011

15.8K

Related Experiment Videos

Last Updated: Jan 23, 2026

Sample Preparation and Analysis of RNASeq-based Gene Expression Data from Zebrafish
11:42

Sample Preparation and Analysis of RNASeq-based Gene Expression Data from Zebrafish

Published on: October 27, 2017

11.5K
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

10.6K
HLA-Ig Based Artificial Antigen Presenting Cells for Efficient ex vivo Expansion of Human CTL
07:18

HLA-Ig Based Artificial Antigen Presenting Cells for Efficient ex vivo Expansion of Human CTL

Published on: April 11, 2011

15.8K

Area of Science:

  • Immunogenetics
  • Computational Biology
  • Genomics

Background:

  • The human leukocyte antigen (HLA) locus is crucial for immune response and tissue compatibility.
  • Accurate HLA typing is vital for understanding diseases like cancer and autoimmune disorders.
  • Challenges in HLA typing include high polymorphism, gene homology, and RNA-specific biases.

Purpose of the Study:

  • To introduce arcasHLA, a novel in silico tool for HLA genotype inference from RNA sequencing data.
  • To assess the accuracy and speed of arcasHLA compared to existing methods.
  • To demonstrate the utility of arcasHLA in metatranscriptome studies.

Main Methods:

  • Development of arcasHLA, a computational tool for HLA typing.
  • Performance evaluation using a gold-standard benchmark dataset.
  • Validation on a large dataset of nasopharyngeal RNA samples.

Main Results:

  • arcasHLA achieves 100% accuracy for Class I and over 99.7% for Class II HLA typing at two-field resolution.
  • The tool demonstrates superior speed and accuracy compared to established methods.
  • arcasHLA is applicable to metatranscriptome studies, as shown on nasopharyngeal swab data.

Conclusions:

  • arcasHLA provides a fast and highly accurate solution for HLA typing from RNA-Seq data.
  • The tool overcomes challenges associated with RNA-based HLA genotyping.
  • arcasHLA is a valuable resource for immunogenetic and disease research.