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

Search research articles

Related Experiment Video

Updated: Mar 25, 2026

Informatic Analysis of Sequence Data from Batch Yeast 2-Hybrid Screens

Informatic Analysis of Sequence Data from Batch Yeast 2-Hybrid Screens

Published on: June 28, 2018

An interactive web-based application for Comprehensive Analysis of RNAi-screen Data.

Bhaskar Dutta¹, Alaleh Azhir¹, Louis-Henri Merino¹

¹Laboratory of Systems Biology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland 20892, USA.

Nature Communications

|February 24, 2016

Summary

Related Concept Videos

You might also read

Related Articles

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

Sort by

Same author

Macrophage Proteomic Profiling Reveals Divergent TLR4-Dependent and -Independent Responses to Kdo<sub>2</sub>-Lipid A and Lipid IVa.

Life (Basel, Switzerland)·2026

Same author

Long COVID Persistence and Surveillance Gaps Across 58 US Hospitals.

JAMA network open·2026

Same author

CLIN-SUMM: Incremental Longitudinal Summarization of Clinical Notes Enables Scalable Representation and Early Disease Prediction.

medRxiv : the preprint server for health sciences·2026

Same author

Paxlovid shows organ-specific and age-specific impacts on risk of developing post-acute sequelae of COVID-19.

Communications medicine·2026

Same author

Temporal Learning with Dynamic Range (TLDR) for modeling recurrent exposure and treatment outcomes.

Scientific reports·2026

Same author

The age paradox in post-infectious sequelae: physiological reserve outweighs chronological age in Long COVID susceptibility.

medRxiv : the preprint server for health sciences·2026

Same journal

Large-scale discovery and annotation of substructure patterns in mass spectrometry profiles.

Nature communications·2026

Same journal

Salmonella SopB suppresses post-transcriptionally regulated cytokine release to reduce early tissue inflammation and delay disease progression.

Nature communications·2026

Same journal

A human-specific microRNA controls the timing of excitatory synaptogenesis.

Nature communications·2026

Same journal

An HMA-like integrated domain in the wheat tandem kinase WTK4 recognises an RNase-like pathogen effector.

Nature communications·2026

Same journal

Learning regularities in noise engages both neural predictive activity and representational changes.

Nature communications·2026

Same journal

The H3K4 methyltransferase KMT2D is an essential cofactor for GATA1 at erythroid gene enhancers.

Nature communications·2026

See all related articles

This summary is machine-generated.

RNA interference (RNAi) screens identify gene function but have biases. A new platform, CARD, computationally corrects these biases for more accurate functional genomics analysis.

Area of Science:

Functional genomics
Computational biology
Bioinformatics

Background:

RNAi screens are essential tools in functional genomics for identifying gene functions.
Experimental biases in RNAi screen data can lead to inaccurate results and false positives/negatives.
Computational analysis is crucial for correcting these biases and improving data reliability.

Purpose of the Study:

To develop a web-based platform, CARD (Comprehensive Analysis of RNAi Data), for integrated analysis and visualization of RNAi screen data.
To provide a rigorous data analysis workflow for RNAi screens, including normalization, off-target analysis, and hit selection.
To enhance the accuracy and interpretability of RNAi screening results through computational methods.

Main Methods:

Development of a web-based platform (CARD) for comprehensive RNAi data analysis.

More Related Videos

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

Published on: July 16, 2017

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 25, 2026

Informatic Analysis of Sequence Data from Batch Yeast 2-Hybrid Screens

Informatic Analysis of Sequence Data from Batch Yeast 2-Hybrid Screens

Published on: June 28, 2018

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

Published on: July 16, 2017

Analyzing Multifactorial RNA-Seq Experiments with DiCoExpress

Analyzing Multifactorial RNA-Seq Experiments with DiCoExpress

Published on: July 29, 2022

Implementation of a sequential data analysis workflow: normalization, off-target analysis, gene expression integration, hit selection, and network/pathway analysis.

Evaluation of CARD using three genome-scale siRNA screens.

Main Results:

CARD significantly improved the selection of validated hits and reduced false positives in RNAi screens.
Analysis using CARD demonstrated increased overlap of hits from independent screens targeting the same biological processes.
The platform provided insights into microRNA (miRNA) activity through siRNA seed enrichment analysis.

Conclusions:

CARD offers a robust computational solution for integrated analysis and visualization of RNAi screen data.
The platform enhances the reliability and biological relevance of findings from functional genomics screens.
CARD facilitates deeper biological insights, including miRNA activity, from RNAi screening experiments.