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

Pre-mRNA Processing: RNA Splicing

Pre-mRNA Processing: RNA Splicing

RNA Splicing

RNA Splicing

Splicing is the process by which eukaryotic RNA is edited before its translation into protein. The RNA strand transcribed from eukaryotic DNA is called the primary transcript. The primary transcripts that become mRNAs are called precursor messenger RNAs (pre-mRNAs). Eukaryotic pre-mRNA contains alternating sequences of exons and introns. Exons are nucleotide sequences that code for proteins, whereas introns are the non-coding regions. In RNA splicing, introns are removed and exons are bonded...

Fixing Double-strand Breaks

Fixing Double-strand Breaks

Next-generation Sequencing

Next-generation Sequencing

The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features....

Cis-regulatory Sequences

Cis-regulatory Sequences

Alternative RNA Splicing

Alternative RNA Splicing

You might also read

Related Articles

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

Sort by

Same author

The Rayleigh Quotient and Contrastive Principal Component Analysis II.

bioRxiv : the preprint server for biology·2026

Same author

Hybrid crosses reveal a cell-type-specific landscape of mouse regulatory variation.

bioRxiv : the preprint server for biology·2026

Same author

Uniform pre-processing of bacterial single-cell RNA-seq.

bioRxiv : the preprint server for biology·2026

Same author

Biophysical constraints on mRNA decay rates shape macroevolutionary divergence in steady-state abundances.

bioRxiv : the preprint server for biology·2025

Same author

<i>k</i> -spaces: Mixtures of Gaussian latent variable models.

bioRxiv : the preprint server for biology·2025

Same author

Determining gene specificity from multivariate single-cell RNA sequencing data.

bioRxiv : the preprint server for biology·2025

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: Jun 23, 2025

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models

Published on: December 9, 2016

Flexible parsing, interpretation, and editing of technical sequences with splitcode.

Delaney K Sullivan^1,2, Lior Pachter^2,3

¹UCLA-Caltech Medical Scientist Training Program, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, United States.

Bioinformatics (Oxford, England)

|June 14, 2024

Summary

This summary is machine-generated.

splitcode is a new tool for processing sequencing reads. It efficiently parses, interprets, and edits synthetic constructs like adapters and barcodes in next-generation sequencing data.

More Related Videos

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

Detection of Rare Genomic Variants from Pooled Sequencing Using SPLINTER

Detection of Rare Genomic Variants from Pooled Sequencing Using SPLINTER

Published on: June 23, 2012

Related Experiment Videos

Last Updated: Jun 23, 2025

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models

Published on: December 9, 2016

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

Detection of Rare Genomic Variants from Pooled Sequencing Using SPLINTER

Detection of Rare Genomic Variants from Pooled Sequencing Using SPLINTER

Published on: June 23, 2012

Area of Science:

Genomics and Bioinformatics
Molecular Biology

Background:

Next-generation sequencing (NGS) libraries incorporate synthetic constructs such as adapters, barcodes, and unique molecular identifiers.
These sequences are crucial for accurate interpretation of sequencing assay results.
Processing and analyzing these synthetic sequences is essential when they contain experimental information.

Purpose of the Study:

To introduce a flexible and efficient software tool for parsing, interpreting, and editing sequencing reads.
To provide a versatile solution for the preprocessing of reads from diverse sequencing assays.

Main Methods:

Development of the splitcode software.
Implementation of flexible parsing, interpreting, and editing functionalities for sequencing reads.

Main Results:

splitcode enables efficient and reproducible preprocessing of sequencing reads.
The tool supports libraries from a wide range of single-cell and bulk sequencing assays.

Conclusions:

splitcode offers a valuable resource for researchers working with next-generation sequencing data.
The software facilitates streamlined analysis of synthetic constructs within sequencing reads.