Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Search research articles

Related Experiment Videos

Using BLAST for performing sequence alignment.

Matthew D Healy¹

¹Bristol Myers Squibb Pharmaceutical Research Institute, Wallingford, Connecticut, USA.

Current Protocols in Human Genetics

|April 23, 2008

Summary

This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

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

Sort by

Same author

Multi-omics data integration identifies novel biomarkers and patient subgroups in inflammatory bowel disease.

Journal of Crohn's & colitis·2025

Same author

Modern drug discovery using ethnobotany: A large-scale cross-cultural analysis of traditional medicine reveals common therapeutic uses.

iScience·2023

Same author

Prediction of virological response and assessment of resistance emergence to the HIV-1 attachment inhibitor BMS-626529 during 8-day monotherapy with its prodrug BMS-663068.

Journal of acquired immune deficiency syndromes (1999)·2013

Same author

Inhibition of influenza virus replication via small molecules that induce the formation of higher-order nucleoprotein oligomers.

Proceedings of the National Academy of Sciences of the United States of America·2011

Same author

Conserved fungal genes as potential targets for broad-spectrum antifungal drug discovery.

Eukaryotic cell·2006

Same author

Structural and functional characterization of CFE88: evidence that a conserved and essential bacterial protein is a methyltransferase.

Protein science : a publication of the Protein Society·2005

Same journal

Resolving Breakpoints of Chromosomal Rearrangements at the Nucleotide Level Using Sanger Sequencing.

Current protocols in human genetics·2020

Same journal

Informed Consent for Genetic and Genomic Research.

Current protocols in human genetics·2020

Same journal

A Guide to Using ClinTAD for Interpretation of DNA Copy Number Variants in the Context of Topologically Associated Domains.

Current protocols in human genetics·2020

Same journal

The AD Knowledge Portal: A Repository for Multi-Omic Data on Alzheimer's Disease and Aging.

Current protocols in human genetics·2020

Same journal

A Practical Guide for Structural Variation Detection in the Human Genome.

Current protocols in human genetics·2020

Same journal

Identification and Genotyping of Transposable Element Insertions From Genome Sequencing Data.

Current protocols in human genetics·2020

See all related articles

This guide details using Basic Local Alignment Search Tool (BLAST) for genetic sequence comparison on NCBI and ENSEMBL servers. Understanding BLAST search parameters and results interpretation is crucial for biological insights.

Area of Science:

Bioinformatics
Computational Biology
Genomics

Background:

The Basic Local Alignment Search Tool (BLAST) is a fundamental bioinformatics program for genetic sequence comparison.
Widely utilized, BLAST is available through various web interfaces, including those at the National Center for Biotechnology Information (NCBI) and ENSEMBL.

Purpose of the Study:

To provide practical protocols for performing general-purpose BLAST searches.
To review key parameters influencing BLAST algorithm performance and offer guidance on their modification.
To describe methods for obtaining genetic sequences from NCBI for analysis.

Main Methods:

Detailed protocols for conducting BLAST searches on NCBI and ENSEMBL web servers.
Explanation of critical BLAST search parameters and strategies for optimization.

Related Experiment Videos

Guidance on sequence retrieval from NCBI in multiple formats.

Main Results:

Successful execution of general-purpose BLAST searches on public web servers.
Understanding of how parameter adjustments impact search outcomes.
Acquisition of necessary genetic sequences for comparative analysis.

Conclusions:

Performing BLAST searches is a rapid process, but interpreting the results requires significant biological expertise.
The protocols facilitate efficient use of BLAST for sequence comparison.
Biological understanding remains paramount for deriving meaningful conclusions from BLAST outputs.