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

Transformations of Functions II01:29

Transformations of Functions II

Transformations in mathematics alter the position or orientation of a function’s graph while preserving its fundamental shape. One important type of transformation is the horizontal shift, which involves modifying the input variable within a function’s equation. This operation affects where outputs occur along the horizontal axis but does not alter the function’s overall structure.A horizontal shift is achieved by replacing the input variable x with either x + c or x - c, where c is a constant.
Point and Frameshift Mutations01:30

Point and Frameshift Mutations

Point mutations are genetic alterations involving the change of a single nucleotide base pair in DNA. Depending on how the alteration affects protein synthesis, they can lead to various consequences.Point mutations fall into the following types:Silent mutations occur when a nucleotide change does not alter the amino acid sequence due to the redundancy of the genetic code. For instance, changing ACC to ACA still encodes threonine, leaving the protein function unaffected. This occurs because...
Initiation of Translation02:33

Initiation of Translation

Initiating translation is complex because it involves multiple molecules. Initiator tRNA, ribosomal subunits, and eukaryotic initiation factors (eIFs) are all required to assemble on the initiation codon of mRNA. This process consists of several steps that are mediated by different eIFs.
First, the initiator tRNA must be selected from the pool of elongator tRNAs by eukaryotic initiation factor 2 (eIF2). The initiator tRNA (Met-tRNAi) has conserved sequence elements including modified bases at...
Initiation of Translation02:33

Initiation of Translation

Initiating translation is complex because it involves multiple molecules. Initiator tRNA, ribosomal subunits, and eukaryotic initiation factors (eIFs) are all required to assemble on the initiation codon of mRNA. This process consists of several steps that are mediated by different eIFs.
First, the initiator tRNA must be selected from the pool of elongator tRNAs by eukaryotic initiation factor 2 (eIF2). The initiator tRNA (Met-tRNAi) has conserved sequence elements including modified bases at...
Termination of Translation01:44

Termination of Translation

The large ribosomal subunit has several important structures essential to translation. These include the peptidyl transferase center (PTC) - which is the site where the peptide bond is formed - and a large, internal, water-filled tube through which the nascent polypeptide moves. This latter structure is called the Peptide Exit Tunnel, and it begins at the PTC and spans the body of the large ribosomal subunit. During translation, as the nascent polypeptide chain is synthesized, it passes through...
Termination of Translation01:44

Termination of Translation

The large ribosomal subunit has several important structures essential to translation. These include the peptidyl transferase center (PTC) - which is the site where the peptide bond is formed - and a large, internal, water-filled tube through which the nascent polypeptide moves. This latter structure is called the Peptide Exit Tunnel, and it begins at the PTC and spans the body of the large ribosomal subunit. During translation, as the nascent polypeptide chain is synthesized, it passes through...

You might also read

Related Articles

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

Sort by
Same author

Morpho-cultural, pathogenic, and molecular diversity, and population structure analysis of <i>Bipolaris sorokiniana</i> causing spot blotch disease in wheat.

Frontiers in microbiology·2026
Same author

Cryoneurolysis for the management of pain secondary to obstetrical brachial plexus injury: a case report.

Canadian journal of anaesthesia = Journal canadien d'anesthesie·2026
Same author

Gender-just reductions in greenhouse gas emissions in maternity care services through the 'baby- friendly hospital initiative': a scoping review.

International breastfeeding journal·2026
Same author

Genetic dissection and stability analysis of grain protein content and thousand-grain weight in emmer wheat (Triticum turgidum subsp. dicoccum) germplasm.

Scientific reports·2026
Same author

A Decade Later: Serial Clinical Examinations for Early Onset Sepsis in Neonates of at Least 35 Weeks' Gestation.

Hospital pediatrics·2026
Same author

Magnetic resonance enterography to predict disabling disease in newly diagnosed Crohn's disease: the METRIC-EF multivariable prediction model, multicentre diagnostic inception cohort study.

Health technology assessment (Winchester, England)·2026

Related Experiment Video

Updated: May 13, 2026

Analysis of Translation Initiation During Stress Conditions by Polysome Profiling
10:59

Analysis of Translation Initiation During Stress Conditions by Polysome Profiling

Published on: May 19, 2014

SHIFT: server for hidden stops analysis in frame-shifted translation.

Arun Gupta1, Tiratha Raj Singh

  • 1School of Computer Science and IT, DAVV, Indore, M.P., India.

BMC Research Notes
|February 26, 2013
PubMed
Summary
This summary is machine-generated.

Frameshift events can cause diseases, but hidden stop codons naturally reduce their impact. This study introduces SHIFT, a tool to analyze these hidden stops across all genetic codes, aiding disease research.

More Related Videos

An In Vitro Single-Molecule Imaging Assay for the Analysis of Cap-Dependent Translation Kinetics
09:52

An In Vitro Single-Molecule Imaging Assay for the Analysis of Cap-Dependent Translation Kinetics

Published on: September 15, 2020

Automated Two-dimensional Spatiotemporal Analysis of Mobile Single-molecule FRET Probes
08:26

Automated Two-dimensional Spatiotemporal Analysis of Mobile Single-molecule FRET Probes

Published on: November 23, 2021

Related Experiment Videos

Last Updated: May 13, 2026

Analysis of Translation Initiation During Stress Conditions by Polysome Profiling
10:59

Analysis of Translation Initiation During Stress Conditions by Polysome Profiling

Published on: May 19, 2014

An In Vitro Single-Molecule Imaging Assay for the Analysis of Cap-Dependent Translation Kinetics
09:52

An In Vitro Single-Molecule Imaging Assay for the Analysis of Cap-Dependent Translation Kinetics

Published on: September 15, 2020

Automated Two-dimensional Spatiotemporal Analysis of Mobile Single-molecule FRET Probes
08:26

Automated Two-dimensional Spatiotemporal Analysis of Mobile Single-molecule FRET Probes

Published on: November 23, 2021

Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Frameshift mutations are a class of recoding events with significant biological consequences, including energy waste and the production of potentially cytotoxic peptides.
  • These frameshift events are linked to various diseases, such as muscular dystrophies, lysosomal storage disorders, and cancer.
  • Hidden stop codons naturally occur in coding sequences, acting to terminate translation prematurely and mitigate the metabolic costs associated with frameshifts.

Purpose of the Study:

  • To address the fragmented information on hidden stop codons and their role in frameshift events.
  • To develop a user-friendly, algorithmic web-based tool for studying hidden stop codons in frameshifted translations across all genetic lineages.

Main Methods:

  • Development of SHIFT, an algorithmic web application for identifying and analyzing hidden stop codons in genomic sequences.
  • Calculation of the correlation between codon usage frequencies and their contribution to hidden stops in an off-frame context.
  • Application of Markovian chains and statistical measures to model and estimate naturally occurring and predicted hidden stops.

Main Results:

  • SHIFT provides a user-friendly interface for exploring hidden stop codons in frameshifted translations across all genetic code systems.
  • The study analyzed the contribution of codon usage frequencies to hidden stops and modeled their evolutionary association using Markovian chains.
  • Statistical measures were implemented to ensure reliable estimates of both naturally occurring and predicted hidden stops.

Conclusions:

  • The SHIFT tool offers a valuable resource for the user-friendly exploration, analysis, and visualization of hidden stop codons in frameshifted translations.
  • This web-based tool is expected to complement existing research by facilitating the analysis of hidden stop codons across diverse genetic code systems.
  • SHIFT is freely accessible for academic and research purposes at http://www.nuccore.org/shift/.