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

Ribosome Profiling

Ribosome Profiling

Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...

You might also read

Related Articles

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

Sort by

Same author

A lncRNA fine-tunes salicylic acid biosynthesis to balance plant immunity and growth.

Cell host & microbe·2022

Same author

Global miRNA dosage control of embryonic germ layer specification.

Nature·2021

Same author

Multiscale Visualization of Colloidal Particle Lens Array Mediated Plasma Dynamics for Dielectric Nanoparticle Enhanced Femtosecond Laser-Induced Breakdown Spectroscopy.

Analytical chemistry·2019

Same author

Evolutionary Metabolomics Identifies Substantial Metabolic Divergence between Maize and Its Wild Ancestor, Teosinte.

The Plant cell·2019

Same author

Protective effect of <i>Danhong</i> injection in patients with acute myocardial infarction at a high risk of no-reflow during primary percutaneous coronary intervention.

Journal of geriatric cardiology : JGC·2019

Same author

Exosome-derived uterine microRNAs isolated from cows with endometritis impede blastocyst development.

Reproductive biology·2019

Search research articles

Related Experiment Video

Updated: Mar 8, 2026

Analyzing Tumor Gene Expression Factors with the CorExplorer Web Portal

Analyzing Tumor Gene Expression Factors with the CorExplorer Web Portal

Published on: October 11, 2019

LocExpress: a web server for efficiently estimating expression of novel transcripts.

Mei Hou¹, Feng Tian^1,2, Shuai Jiang¹

¹State Key Laboratory of Protein and Plant Gene Research, College of Life Sciences, Center for Bioinformatics, Peking University, Beijing, 100871, People's Republic of China.

|February 4, 2017

Summary

This summary is machine-generated.

LocExpress is a new web server that efficiently estimates gene expression for novel transcripts across many human and mouse tissues and cell types. This tool provides rapid expression profiling for uncharacterized genes, aiding functional studies.

Keywords:

Expression estimation RNA-Seq Transcriptome Web server

More Related Videos

Identification of Key Factors Regulating Self-renewal and Differentiation in EML Hematopoietic Precursor Cells by RNA-sequencing Analysis

Identification of Key Factors Regulating Self-renewal and Differentiation in EML Hematopoietic Precursor Cells by RNA-sequencing Analysis

Published on: November 11, 2014

Analyzing Multifactorial RNA-Seq Experiments with DiCoExpress

Analyzing Multifactorial RNA-Seq Experiments with DiCoExpress

Published on: July 29, 2022

Related Experiment Videos

Last Updated: Mar 8, 2026

Analyzing Tumor Gene Expression Factors with the CorExplorer Web Portal

Analyzing Tumor Gene Expression Factors with the CorExplorer Web Portal

Published on: October 11, 2019

Identification of Key Factors Regulating Self-renewal and Differentiation in EML Hematopoietic Precursor Cells by RNA-sequencing Analysis

Identification of Key Factors Regulating Self-renewal and Differentiation in EML Hematopoietic Precursor Cells by RNA-sequencing Analysis

Published on: November 11, 2014

Analyzing Multifactorial RNA-Seq Experiments with DiCoExpress

Analyzing Multifactorial RNA-Seq Experiments with DiCoExpress

Published on: July 29, 2022

Area of Science:

Bioinformatics
Computational Biology
Genomics

Background:

Gene expression patterns across tissues and cell types are crucial for understanding gene function.
Existing gene atlases primarily support known gene models, posing challenges for novel transcript expression profiling.
Efficiently obtaining expression profiles for uncharacterized transcripts remains a significant hurdle in functional genomics.

Purpose of the Study:

To develop an efficient web server, LocExpress, for estimating the expression of novel transcripts.
To provide comprehensive expression profiling across a wide range of human and mouse tissues and cell types.
To enable rapid functional annotation of previously uncharacterized genes.

Main Methods:

LocExpress utilizes a novel strategy by wrapping an RNA-Seq quantification algorithm.
It optimizes abundance estimation by focusing on the minimum spanning bundle region of input transcripts.
This approach significantly reduces computational time for expression profiling.

Main Results:

LocExpress enables efficient estimation of novel transcript expression in 20 normal human tissues/cell types and 14 cell lines, and 24 normal mouse tissues/cell types and nine cell lines.
The web server can estimate FPKMs (fragments per kilobase of transcript per million mapped reads) for novel gene models in hundreds of samples within minutes.
The computational efficiency allows for the creation of a publicly accessible online web server.

Conclusions:

LocExpress is the first web server offering near real-time expression estimation for novel transcripts.
It provides a valuable resource for researchers studying gene function and expression patterns.
The server is accessible at http://loc-express.cbi.pku.edu.cn .