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==Additional Resources==
 
==Additional Resources==
  
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For more resources, please see our comprehensive [[FlyBase:Drosophila_Network_Resources|<em>Drosophila</em> Network Resource]] and [[FlyBase:Drosophila_Material_Resources|<em>Drosophila</em> Material Resources (Reagents)]] pages.
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For additional information, please see our comprehensive lists:
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*'''[[FlyBase:Drosophila_Network_Resources|<em>Drosophila</em> Network Resources]]'''
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*'''[[FlyBase:Drosophila_Material_Resources|<em>Drosophila</em> Material (Reagents) Resources ]]'''

Revision as of 20:25, 7 December 2015

**This page is a work-in-progress concept of reformatting our resource and reagent list.**

Popular Resources

CRISPR RNAi Stock Centers Antibodies Additional Resources

Full Table of Contents

CRISPR

Introduction

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gRNA Design Resources

Resource Description Author/Source
CRISPR Optimal Target Finder Identifies gRNA targets within a provided sequence and additionally searches genome-wide (release 6, current FlyBase release) for potential off-target sites. Includes numerous Drosophila species. Incorporates PAM sequence detection. O'Connor-Giles, Wildonger, and Harrison Labs
University of Wisconsin-Madison
WI, USA
CRISPRscan Searchable and browsable collection of genome-wide (release 6, current FlyBase release) sgRNA target sites. Displays sgRNA sites as tracks on UCSC's genome browser and allows searching via gene or prediction via sequence. Support for numerous species (fly, zebrafish, mouse, human, others). Incorporates PAM sequence detection. Giraldez Lab
Yale University
New Haven, CT, USA
DRSC Find CRISPR Tool A tool for discovering gRNA targets located throughout the fly genome (release 5) using gene IDs, symbols, or chromosome locations. Allows for filtering of off-target sites and control of mis-match stringency. Incorporates PAM sequence detection. DRSC
Harvard Medical School
Boston, MA, USA
E-CRISPR gRNA genome-wide (release 5) target finder, searchable via gene symbol or sequence. Support for numerous species (fly, zebrafish, mouse, human, others). Offers "relaxed, medium and strict" search options. Incorporates PAM sequence detection. DKFZ/Boutros Lab
Heildelberg, Germany
CHOPCHOP Search for gRNA targets (release 5). Flexible inputs (gene name, genomic coordinates or DNA sequence) and detection of off-target sites. Incorporates PAM sequence detection. Schier & Church Labs
Harvard University
Cambridge, MA, USA
CRISPR Design Identification of gRNA sites genome wide (release 5). Offers options for multiple species. Incorporates PAM sequence detection. Zhang Lab
MIT
Boston, MA, USA
CRISPOR A program that helps design, evaluate, and clone guide sequences for the CRISPR/Cas9 system. Allows for searches across multiple species of Drosophila, including melanogaster (release 5). Tefor
France

CRISPR Stocks

Resource Description Author/Source
CRISPR system stocks for site-specific mutagenesis The Bloomington Stock Center's CRISPR/Cas9 page. Includes various stocks to use for the expression of both Cas9 and tracrRNA. Bloomington Stock Center
Indiana University
Indiana, USA
CRISPR Fly Design Stocks available from the CRISPR Fly Design group at the MRC Laboratory of Molecular Biology. MRC Laboratory of Molecular Biology

Cambridge, UK

CRISPR Vectors

Resource Description Author/Source
Addgene CRISPR/Cas9 Plasmids for use in insects A list of available Cas9 & gRNA expression plasmids for use in Drosophila. Addgene
Cambridge, MA, USA
CRISPR Fly Design Plasmids Descriptions and information regarding the plasmids created by the CRISPR Fly Design group (also deposited at Addgene). MRC Laboratory of Molecular Biology

Cambridge, UK

Additional Useful Links

Resource Description Author/Source
CRISPR Fly Design An overview and resource collection for CRISPR gene editing in Drosophila. MRC Laboratory of Molecular Biology

Cambridge, UK

flyCRISPR An overview and resource collection for CRISPR gene editing in Drosophila. O'Connor-Giles, Wildonger, and Harrison Labs
University of Wisconsin-Madison
WI, USA
Insect Genomic Technologies Research Coordination Network Discussion and dissemination of advanced technologies for genome modification of insects through symposia, technical workshops, and training fellowships. Institute for Bioscience and Biotechnology Research
University of Maryland
Rockville, MD, USA
FlyRNAi Blog, CRISPR tags A research blog tracking functional genomics techniques in Drosophila, filtered for keyword: CRISPRs. DRSC
Harvard Medical School
Boston, MA, USA
DRSC Single Cell Cloning Protocol Single-cell cloning method useful for Drosophila cell CRISPR gene editing DRSC
Harvard Medical School
Boston, MA, USA

Selected recent methods reviews

Selected recent methods reports for tissue culture cells

Selected recent methods reports for in vivo


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RNAi

Introduction

text to be added

RNAi Design/Analysis Tools

Resource Description Author/Source
E-RNAi E-RNAi is a tool for the design and evaluation of RNAi reagents. It can be used to design and evaluate long dsRNAs (including esiRNAs) as well as siRNAs. Boutros lab, DKFZ, Heidelberg, Germany
NEXT-RNAi Software for the design and evaluation of genome-wide RNAi libraries which performs all steps from the prediction of specific and efficient RNAi target sites to the visualization of designed reagents in their genomic context. Boutros lab, DFKZ, Heidelberg, Germany
SnapDragon| Cell-based RNAi reagent design DRSC, Harvard Medical School, Boston, MA, USA
UP-TORR, Updated Targets of RNAi Reagents A lookup tool for searching TRiP, VDRC and NIG in vivo RNAi collections. DRSC, Harvard Medical School, Boston, MA, USA

RNAi Stocks for in vivo studies (fly stocks)

Resource Description Author/Source
NIG_FLY NIG-Fly in Mishima, Japan is part of a consortium with Kyoto-Fly and two other stock centers, and distributes RNAi flies on request. NIG-FLY, Mishima, Japan
BDSC RNAi Home Page Links to lists and sublists of RNAi and miRNA sponge insertions at Bloomington. Most, but not all, of the insertions are under the control of UAS and therefore require GAL4 for expression. BDSC, Bloomington Drosophila Stock Center, Bloomington, IN, USA
TRiP Transgenic RNAi Project The TRiP Stock Collection contains over 9,000 lines, 1,575 of which are for orthologs of human-disease-associated genes. The stocks can be obtained from the BDSC. DRSC, Harvard Medical School, Boston, MA, USA
THFC, Tsinghua Fly Center THFC RNAi Stock Collection for triggering RNAi in soma and germline Tsinghua Fly Center, Beijing, China
VDRC The VDRC at IMP/IMBA in Vienna provides two genome-wide transgenic Drosophila RNAi libraries VDRC, Vienna, Austria

Cell-based RNAi Reagents

Resource Description Author/Source
DRSC Relevant description DRSC, Harvard Medical School, Boston, MA, USA
DRSC Libraries Genome-Wide Libraries for Drosophila RNAi Screening and Validation DRSC, Harvard Medical School, Boston, MA, USA

RNAi Screening Centers

Resource Description Author/Source
DRSC, Drosophila RNAi Screening Center The Drosophila RNAi Screening Center at Harvard Medical School provides high throughput RNAi screens DRSC, Harvard Medical School, Boston, MA, USA
NYU RNAi Screening and Automation Core The NYU RNAi Core Facility at the Langone Medical Center in New York provides high-throughput RNAi screens. Drosophila screens are offered in collaboration with the DRSC NYU RNAi Core, New York, NY, USA
Sheffield RNAi Screening Facility| The SRSF provides a service for whole-genome RNAi screens in Drosophila cells. SRSF, University of Sheffield, Boston, MA, USA
TRiP, Transgenic RNAi Project The TRiP screening facility provides the space and equipment to carry out a complete survey of the current set of TRiP stocks. DRSC, Harvard Medical School, Boston, MA, USA


RNAi Results, Validation and Phenotypes

Resource Description Author/Source
GenomeRNAi GenomeRNAi is a database containing phenotypes from RNA interference (RNAi) screens in Drosophila GenomeRNAi, DKFZ, Heidelberg, Germany
[http://rnaicut.csail.mit.edu/ RNAiCut Automated detection of significant genes from functional genomic screens Berger Lab, MIT, Boston, MA, USA
RSVP| RNAi Stock Validation and Phenotypes DRSC, Harvard Medical School, Boston, MA, USA
Cell-Based Screen Summary A summary of public DRSC screens DRSC, Harvard Medical School, Boston, MA, USA


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Stock Centers

List of Drosophila Stock Centers

Resource Author/Source Additional Information
CRISPR system stocks for site-specific mutagenesis Bloomington Stock Center Lorem ipsum dolor sit amet, consectetur adipiscing elit. Nullam et tincidunt ante. Donec tincidunt gravida velit at iaculis. Lorem ipsum dolor sit amet, consectetur adipiscing elit. Aenean rutrum quam eget luctus condimentum. Cras in venenatis lectus, at laoreet augue.
CRISPR Fly Design MRC - Laboratory of Molecular Biology Lorem ipsum dolor sit amet, consectetur adipiscing elit. Integer id purus metus. Cras et lacus vel diam posuere facilisis. Vestibulum lorem metus, dapibus nec porta non, fringilla sit amet eros.
Example Example Example
Example Example Example


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Antibodies

Additional Resources

For additional information, please see our comprehensive lists:

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