Drosophila RNAi Screening Center

DRSC >> Online Tools Overview

The DRSC On-Line Tool Box

Reagent Design and Analysis

  • Snapdragon - Design dsRNAs for RNAi (minimal predicted off-targets; view resulting amplicons and primers; user-configurable parameters).
  • Find OTEs - Search for regions in an input sequence that are predicted to have significant off-target effects (OTEs) in D. melanogaster.

Screen Data View & Analysis

  • Heat Map - Analyze and view user-provided plate-based RNAi screen data.
  • RNAi Cut - Use protein-protein interaction datasets to establish appropriate cut-offs for high-confidence hits in screen datasets (collaboration with B. Berger group at MIT).
  • ImCellPhen - Image analysis and viewing software with a focus on analysis of cell morphology (collaboration with P. Hong group at Brandeis).
  • Expression Levels - Search our analysis of modENCODE RNA-seq datasets to find evidence for expression of a gene(s) in Kc167, BG3, Clone8, S2 or S2R+ cells.
 

Search & View Public Data

  • Gene Lookup - Search by gene to find reagents (e.g. dsRNAs, TRiP fly stocks), hits in published screens, ortholog information, gene information, and more.
  • Query Hits - Search by gene(s) to find hits in DRSC screens.

Additional Tools

  • MinoTar - Find predicted miRNA binding sites in open reading frame (ORF) regions (collaboration with B. Berger group at MIT).
  • Fosmid Rescue - Identify genomic regions in non-D. melanogaster species appropriate for RNAi rescue tests (e.g. similar enough at the amino acid level that they might rescue but different enough in nucleotide sequence to evade the D. mel RNAi reagent).

Power User

About Screen Hit Information in the DRSC Database

Getting the most from a DRSC Database Search

Below is an example query for hits (Part One) and an explanation of how you can change what information you view when looking at a screen hits list (Part Two).

Part One: Query for hits using a gene symbol

Part Two: view more detailed information about hits