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

RNA-seq03:21

RNA-seq

12.6K
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...
12.6K
Protein Folding Quality Check in the RER01:29

Protein Folding Quality Check in the RER

5.7K
ER is the primary site for the maturation and folding of soluble and transmembrane secretory proteins. The calnexin cycle is a specific chaperone system that folds and assesses the confirmation of N-glycosylated proteins before they can exit the ER lumen. The primary players of this quality check pipeline are the lectins, ER-resident chaperones, and a glucosyl transferase enzyme. In case the calnexin system in the lumen fails to salvage a misfolded protein, it is transported to the cytoplasm...
5.7K
RNA Structure01:23

RNA Structure

81.8K
Overview
The basic structure of RNA consists of a five-carbon sugar and one of four nitrogenous bases. Although most RNA is single-stranded, it can form complex secondary and tertiary structures. Such structures play essential roles in the regulation of transcription and translation.
Different Types of RNA Have the Same Basic Structure
There are three main types of ribonucleic acid (RNA): messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). All three RNA types consist of a...
81.8K
RNA Structure01:19

RNA Structure

8.4K
The basic structure of RNA consists of a string of ribonucleotides attached by phosphodiester bonds. Although most RNA is single-stranded, it can form complex secondary and tertiary structures. Such structures play essential roles in the regulation of transcription and translation.
Different Types of RNA Have the Same Basic Structure
There are three main types of ribonucleic acid (RNA) involved in protein synthesis: messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). All three...
8.4K
RNA Structure01:23

RNA Structure

29.9K
29.9K
Nucleic Acid Structure01:25

Nucleic Acid Structure

10.4K
The pentose sugar in DNA is deoxyribose, while in RNA the pentose sugar is ribose. The difference between the sugars is the presence of the hydroxyl group on the ribose's second carbon and a hydrogen on the deoxyribose's second carbon. The phosphate residue attaches to the hydroxyl group of the 5′ carbon of one sugar and the hydroxyl group of the 3′ carbon of the sugar of the next nucleotide, which forms  a 5′ to 3′ phosphodiester linkage.
DNA Structure
DNA...
10.4K

You might also read

Related Articles

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

Sort by
Same author

Li-ginseng powder alleviates cancer cachexia in mice by regulating the ubiquitin-proteasome pathway and reducing inflammation.

Journal of ginseng research·2026
Same author

Stability Evaluation and Design Optimization of Underground Salt Caverns for CAES Under Static and Long-Term Load Conditions-A Case Study of Anning, China.

Materials (Basel, Switzerland)·2026
Same author

Sea Urchin-Like Platinum-Coated Gold Nanozymes-Based Ultra-Sensitive Colorimetric Detection and Mechanism Differentiation Platform for Dual-Marker Guided Genotoxicity Assessment.

Advanced healthcare materials·2026
Same author

Routing distilled knowledge via mixture of LoRA experts for large language model based bundle generation.

Neural networks : the official journal of the International Neural Network Society·2026
Same author

Author Correction: PCM1 orchestrates centrosomal and flagellar protein transport to promote sperm maturation.

Communications biology·2026
Same author

Linarin Inhibits Mast Cell Degranulation and Ameliorates Allergic Rhinitis in Rats by Suppressing ERK/p38 MAPK Signaling Pathway.

Recent advances in inflammation & allergy drug discovery·2026

Related Experiment Video

Updated: Apr 12, 2026

RNA Secondary Structure Prediction Using High-throughput SHAPE
13:42

RNA Secondary Structure Prediction Using High-throughput SHAPE

Published on: May 31, 2013

32.5K

[IC-kmedoids: a clustering algorithm for RNA secondary structure prediction].

Changwu Wang, Xiaofeng Liu, Baowen Wang

    Sheng Wu Yi Xue Gong Cheng Xue Za Zhi = Journal of Biomedical Engineering = Shengwu Yixue Gongchengxue Zazhi
    |May 23, 2015
    PubMed
    Summary
    This summary is machine-generated.

    This study introduces an improved k-medoids clustering method for RNA secondary structure prediction. The new algorithm enhances accuracy and efficiency in analyzing suboptimal RNA foldings.

    More Related Videos

    The ITS2 Database
    16:17

    The ITS2 Database

    Published on: March 12, 2012

    32.6K
    A Guide to Production, Crystallization, and Structure Determination of Human IKK1/α
    11:27

    A Guide to Production, Crystallization, and Structure Determination of Human IKK1/α

    Published on: November 2, 2018

    9.6K

    Related Experiment Videos

    Last Updated: Apr 12, 2026

    RNA Secondary Structure Prediction Using High-throughput SHAPE
    13:42

    RNA Secondary Structure Prediction Using High-throughput SHAPE

    Published on: May 31, 2013

    32.5K
    The ITS2 Database
    16:17

    The ITS2 Database

    Published on: March 12, 2012

    32.6K
    A Guide to Production, Crystallization, and Structure Determination of Human IKK1/α
    11:27

    A Guide to Production, Crystallization, and Structure Determination of Human IKK1/α

    Published on: November 2, 2018

    9.6K

    Area of Science:

    • Computational Biology
    • Bioinformatics
    • Structural Biology

    Background:

    • Accurate prediction of RNA secondary structure is crucial for understanding gene regulation and function.
    • The minimum free energy model relies on analyzing suboptimal RNA foldings.
    • Clustering techniques can improve prediction accuracy by analyzing sets of suboptimal structures.

    Purpose of the Study:

    • To develop an improved clustering method for enhanced RNA secondary structure prediction.
    • To increase the accuracy and efficiency of analyzing suboptimal RNA foldings.
    • To optimize the prediction of RNA secondary structures using computational approaches.

    Main Methods:

    • An improved k-medoids clustering algorithm was developed.
    • The method incorporates the RBP score and an incremental candidate set of medoids matrix.
    • Initial medoids are optimized by gradually expanding candidate sets.

    Main Results:

    • The proposed algorithm demonstrated improved accuracy in RNA secondary structure prediction.
    • The method achieved a higher Calinski-Harabasz (CH) index, indicating better clustering.
    • A significant reduction in the computational time for clustering RNA folding structures was observed.

    Conclusions:

    • The improved k-medoids clustering method offers a more accurate and efficient approach to RNA secondary structure prediction.
    • This technique effectively leverages suboptimal foldings for enhanced predictive power.
    • The algorithm shows promise for advancing computational RNA structure analysis.