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

Related Concept Videos

Multi-species Conserved Sequences

Multi-species Conserved Sequences

Next-generation sequencing technologies have created large genomic databases of a variety of animals and plants. Ever since the human genome project was completed, scientists studied the genome of primates, mammals, and other phylogenetically distant living beings. Such large-scale studies have provided new insights into the evolutionary relationship between organisms.
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved...

Compacting Factor test

Compacting Factor test

The compacting factor test is a method used to assess the workability of concrete. It is especially suitable for concrete mixes containing aggregates up to one and a half inches in size. This test involves specialized equipment consisting of two truncated cone-shaped hoppers and a cylinder, all with polished interior surfaces to minimize friction.
The procedure begins by placing concrete into the upper hopper without any compaction. Once filled, the bottom door of this hopper is opened,...

Sanger Sequencing

Sanger Sequencing

DNA sequencing is a fundamental technique that is routinely used in the biological sciences. This method can be applied to a range of questions at different scales - from the sequencing of a cloned DNA fragment or the study of a mutation in a gene up to whole-genome sequencing. However, despite the widespread use of sequencing today, it was not until 1977 that Fredrick Sanger and his collaborators developed the chain-termination method to decode DNA sequences. It relies on the separation of a...

Conservation of Protein Domains Over Different Proteins

Conservation of Protein Domains Over Different Proteins

Protein domains are small structurally independent units that are part of a single amino acid chain. Although these domains are often structurally independent, they may rely on synergistic effects to perform their functions as part of a larger protein. Protein domains may be conserved within the same organism, as well as across different organisms.
A limited set of protein domains often duplicate and recombine during evolution. These domains can be organized in different combinations to...

Conservation of Protein Domains

Conservation of Protein Domains

You might also read

Related Articles

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

Sort by

Same author

Additive-driven microwave crystallization of tyramine polymorphs and salts: a quantum crystallography perspective. Corrigendum.

IUCrJ·2026

Same author

MBGC2: Boosting compression via efficient encoding of approximate matches in genome collections.

GigaScience·2026

Same author

The whole is greater than the sum of its parts: binary and ternary 5-fluorouracil co-crystals with enhanced selectivity towards metastatic cancer cells.

Chemical communications (Cambridge, England)·2025

Same author

Additive-driven microwave crystallization of tyramine polymorphs and salts: a quantum crystallography perspective.

IUCrJ·2025

Same author

PgRC2: engineering the compression of sequencing reads.

Bioinformatics (Oxford, England)·2025

Same author

copMEM2: robust and scalable maximum exact match finding.

Bioinformatics (Oxford, England)·2023

Same journal

conMItion: an R package adjusting confounding factors for associations in multi-omics.

Bioinformatics (Oxford, England)·2026

Same journal

SpaMFG: a Spatial Multi-omics Integration Method based on Feature Grouping.

Bioinformatics (Oxford, England)·2026

Same journal

CSCN: Inference of Cell-Specific Causal Networks Using Single-Cell RNA-Seq Data.

Bioinformatics (Oxford, England)·2026

Same journal

Sparse CCA-Based Mediation Analysis with High-Dimensional Exposures and Mediators.

Bioinformatics (Oxford, England)·2026

Same journal

Enhancing Cross-Context Generalization in Drug Perturbation Prediction with a Multimodal Conditional Diffusion Framework.

Bioinformatics (Oxford, England)·2026

Same journal

Primer Design through Submodular Function Estimation.

Bioinformatics (Oxford, England)·2026

See all related articles

Search research articles

Related Experiment Video

Updated: Mar 25, 2026

Author Spotlight: Investigating the Role of Repetitive DNA Misregulation in Cancer Initiation and Immunotherapy Resistance

Author Spotlight: Investigating the Role of Repetitive DNA Misregulation in Cancer Initiation and Immunotherapy Resistance

Published on: December 13, 2024

FFC: a scalable FASTA compressor.

Szymon Grabowski¹, Tomasz M Kowalski¹, Robert Susik¹

¹Institute of Applied Computer Science, Lodz University of Technology, Łódź, 90-537, Poland.

Bioinformatics (Oxford, England)

|March 23, 2026

Summary

This summary is machine-generated.

FFC significantly accelerates FASTA file compression and decompression, outperforming existing methods like zstd and NAF. This new tool enhances practical performance for large biological sequence datasets.

More Related Videos

In Vitro Selection of Aptamers to Differentiate Infectious from Non-Infectious Viruses

In Vitro Selection of Aptamers to Differentiate Infectious from Non-Infectious Viruses

Published on: September 7, 2022

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies

Published on: August 20, 2021

Related Experiment Videos

Last Updated: Mar 25, 2026

Author Spotlight: Investigating the Role of Repetitive DNA Misregulation in Cancer Initiation and Immunotherapy Resistance

Author Spotlight: Investigating the Role of Repetitive DNA Misregulation in Cancer Initiation and Immunotherapy Resistance

Published on: December 13, 2024

In Vitro Selection of Aptamers to Differentiate Infectious from Non-Infectious Viruses

In Vitro Selection of Aptamers to Differentiate Infectious from Non-Infectious Viruses

Published on: September 7, 2022

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies

Published on: August 20, 2021

Area of Science:

Bioinformatics
Computational Biology
Data Compression

Background:

FASTA format is standard for biological sequences.
Existing compressors prioritize compression ratio over speed.
Need for faster compression tools for large genomic datasets.

Purpose of the Study:

Introduce FFC, a novel FASTA compressor.
Evaluate FFC's compression and decompression speeds.
Compare FFC against high-performance compressors (zstd, NAF).

Main Methods:

Developed FFC, a scalable FASTA compressor.
Benchmarked FFC on seven single genomes.
Utilized a 14-core workstation and RAM-disk for experiments.

Main Results:

FFC achieved 4.7x and 11.4x higher compression speeds than zstd and NAF.
FFC delivered 3.5x and 2.7x faster decompression speeds than zstd and NAF.
Parallel zstd (pzstd) matched speed but had a 23% worse compression ratio.

Conclusions:

FFC offers superior practical performance for FASTA compression.
FFC provides significant speed improvements for handling large sequence data.
FFC is a valuable tool for bioinformatics and computational biology workflows.