Difference between revisions of "FlyBase:RNAi"
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| − | |style="text-align: center; padding: 15px;"| <big>[[FlyBase:External_Resources|All Resources]]</big> ||style="text-align: center; padding: 20px;"| <big>[[FlyBase:CRISPR|CRISPR]]</big> ||style="text-align: center; padding: 20px;"| <big>[[FlyBase:RNAi|RNAi]]</big> ||style="text-align: center; padding: 20px;"| <big>[[FlyBase: | + | |style="text-align: center; padding: 15px;"| <big>[[FlyBase:External_Resources|All Resources]]</big> ||style="text-align: center; padding: 20px;"| <big>[[FlyBase:CRISPR|CRISPR]]</big> ||style="text-align: center; padding: 20px;"| <big>[[FlyBase:Stocks|Stocks]]</big> ||style="text-align: center; padding: 20px;"| <big>[[FlyBase:RNAi|RNAi]]</big> ||style="text-align: center; padding: 20px;"| <big>[[FlyBase:Model_Organism_Databases|Model Organism<br/> Databases]]</big> |
| + | |- | ||
| + | |style="text-align: center; padding: 20px;"| <big>[[FlyBase:Neuroscience|Neuroscience]]</big> ||style="text-align: center; padding: 20px;"| <big>[[FlyBase: Antibodies|Antibodies]]</big> ||style="text-align: center; padding: 20px;"| <big>[[FlyBase:Images|Images]]</big> ||style="text-align: center; padding: 20px;"| <big>[[FlyBase:Maps|Maps]]</big> ||style="text-align: center; padding: 20px;"| <big>[http://www.flyrnai.org/tools/protocols/web/ Protocols]</big> | ||
|} | |} | ||
| − | __TOC__ | + | __TOC__ |
= RNAi Design/Analysis Tools = | = RNAi Design/Analysis Tools = | ||
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| [http://b110-wiki.dkfz.de/confluence/display/nextrnai/NEXT-RNAi NEXT-RNAi] || Software for the design and evaluation of genome-wide RNAi libraries. It 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<br/> DKFZ<br/> Heidelberg, Germany | | [http://b110-wiki.dkfz.de/confluence/display/nextrnai/NEXT-RNAi NEXT-RNAi] || Software for the design and evaluation of genome-wide RNAi libraries. It 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<br/> DKFZ<br/> Heidelberg, Germany | ||
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| − | |style="background: #efefef;"| [http://www.flyrnai.org/cgi-bin/RNAi_find_primers.pl SnapDragon] ||style="background: #efefef;"| A tool for the design of long dsRNAs for specific cell-based gene knockdown in <em>Drosophila melanogaster</em> via an RNAi approach. ||style="background: #efefef; white-space: nowrap"| | + | |style="background: #efefef;"| [http://www.flyrnai.org/cgi-bin/RNAi_find_primers.pl SnapDragon] ||style="background: #efefef;"| A tool for the design of long dsRNAs for specific cell-based gene knockdown in <em>Drosophila melanogaster</em> via an RNAi approach. ||style="background: #efefef; white-space: nowrap"| DRSC/TRiP Functional Genomics Resources (DRSC/TRiP-FGR)<br/> Harvard Medical School<br/> Boston, MA, USA |
|} | |} | ||
<br/> | <br/> | ||
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!style="background: #efefef;"| Resource !!style="background: #efefef;"| Description !!style="background: #efefef;"| Author/Source | !style="background: #efefef;"| Resource !!style="background: #efefef;"| Description !!style="background: #efefef;"| Author/Source | ||
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| − | | [http://www.flyrnai.org/up-torr/ UP-TORR, Updated Targets of RNAi Reagents] || A lookup tool for searching BDSC, TRiP, VDRC and NIG-FLY <em>in vivo</em> RNAi collections. || | + | | [http://www.flyrnai.org/up-torr/ UP-TORR, Updated Targets of RNAi Reagents] || A lookup tool for searching BDSC, TRiP, VDRC and NIG-FLY <em>in vivo</em> RNAi collections. || DRSC/TRiP Functional Genomics Resources (DRSC/TRiP-FGR)<br/> Harvard Medical School<br/> Boston, MA, USA |
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|style="background: #efefef; white-space:"| [http://flystocks.bio.indiana.edu/Browse/RNAi/RNAihome.htm BDSC RNAi Home Page]||style="background: #efefef; white-space:"| 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. ||style="background: #efefef; white-space:nowrap"| Bloomington Drosophila Stock Center (BDSC)<br/> Indiana University<br/> Bloomington, IN, USA | |style="background: #efefef; white-space:"| [http://flystocks.bio.indiana.edu/Browse/RNAi/RNAihome.htm BDSC RNAi Home Page]||style="background: #efefef; white-space:"| 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. ||style="background: #efefef; white-space:nowrap"| Bloomington Drosophila Stock Center (BDSC)<br/> Indiana University<br/> Bloomington, IN, USA | ||
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| [http://www.shigen.nig.ac.jp/fly/nigfly/index.jsp 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<br/> National Institute of Genetics<br/> Mishima, Japan | | [http://www.shigen.nig.ac.jp/fly/nigfly/index.jsp 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<br/> National Institute of Genetics<br/> Mishima, Japan | ||
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| − | |style="background: #efefef;"| [http://www.flyrnai.org/TRiP-HOME.html TRiP Transgenic RNAi Project] ||style="background: #efefef;"| The TRiP Stock Collection contains over 9,000 lines, 1,575 of which correspond to orthologs of human-disease-associated genes. The stocks can be obtained from the [http://flystocks.bio.indiana.edu/ BDSC]. ||style="background: #efefef;"| | + | |style="background: #efefef;"| [http://www.flyrnai.org/TRiP-HOME.html TRiP Transgenic RNAi Project] ||style="background: #efefef;"| The TRiP Stock Collection contains over 9,000 lines, 1,575 of which correspond to orthologs of human-disease-associated genes. The stocks can be obtained from the [http://flystocks.bio.indiana.edu/ BDSC]. ||style="background: #efefef;"| DRSC/TRiP Functional Genomics Resources (DRSC/TRiP-FGR)<br/> Harvard Medical School<br/> Boston, MA, USA |
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| [http://center.biomed.tsinghua.edu.cn/public/eq-category/modelanimalfacility/ THFC, Tsinghua Fly Center] || THFC RNAi Stock Collection for triggering RNAi in soma and germline || Tsinghua Fly Center<br/> Beijing, China | | [http://center.biomed.tsinghua.edu.cn/public/eq-category/modelanimalfacility/ THFC, Tsinghua Fly Center] || THFC RNAi Stock Collection for triggering RNAi in soma and germline || Tsinghua Fly Center<br/> Beijing, China | ||
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!style="background: #efefef;"| Resource !!style="background: #efefef;"| Description !!style="background: #efefef;"| Author/Source | !style="background: #efefef;"| Resource !!style="background: #efefef;"| Description !!style="background: #efefef;"| Author/Source | ||
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| − | |style="background: #efefef; white-space:"| [http:// | + | |style="background: #efefef; white-space:"| [http://fgr.hms.harvard.edu/drsc-20-genome-wide-screening-library DRSC Libraries]||style="background: #efefef; white-space:"| Genome-wide libraries for cell-based RNAi screening and validation (on-site or shipped). ||style="background: #efefef;"| DRSC/TRiP Functional Genomics Resources (DRSC/TRiP-FGR)<br/> Harvard Medical School<br/> Boston, MA, USA |
|- | |- | ||
| [http://www.dkfz.de/signaling/ Division of Signaling and Functional Genomics] || Genome-wide libraries for cell-based RNAi screening and validation. Includes the resource site [http://www.genomernai.org/ GenomeRNAi]. || Boutros lab<br/> DKFZ<br/> Heidelberg, Germany | | [http://www.dkfz.de/signaling/ Division of Signaling and Functional Genomics] || Genome-wide libraries for cell-based RNAi screening and validation. Includes the resource site [http://www.genomernai.org/ GenomeRNAi]. || Boutros lab<br/> DKFZ<br/> Heidelberg, Germany | ||
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!style="background: #efefef;"| Resource !!style="background: #efefef;"| Description !!style="background: #efefef;"| Author/Source | !style="background: #efefef;"| Resource !!style="background: #efefef;"| Description !!style="background: #efefef;"| Author/Source | ||
|- | |- | ||
| − | |style="background: #efefef; white-space"| [http:// | + | |style="background: #efefef; white-space"| [http://fgr.hms.harvard.edu/fly-cell-based-rnai DRSC/TRiP Functional Genomics Resources (DRSC/TRiP-FGR)]||style="background: #efefef; white-space:"| DRSC/TRiP Functional Genomics Resources at Harvard Medical School provides high throughput RNAi screens. ||style="white-space: nowrap; background: #efefef;"| DRSC/TRiP Functional Genomics Resources (DRSC/TRiP-FGR)<br/> Harvard Medical School<br/> Boston, MA, USA |
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|style="nowrap;"| [http://www.med.nyu.edu/ocs/rnai/ 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<br/> New York, NY, USA | |style="nowrap;"| [http://www.med.nyu.edu/ocs/rnai/ 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<br/> New York, NY, USA | ||
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|style="background: #efefef; white-space"| [http://www.genomernai.org/ GenomeRNAi] ||style="background: #efefef; white-space:"| GenomeRNAi is a database containing phenotypes from cell-based and in vivo RNA interference (RNAi) screens in <em>Drosophila</em>. ||style="background: #efefef;"| GenomeRNAi<br/> DKFZ<br/> Heidelberg, Germany | |style="background: #efefef; white-space"| [http://www.genomernai.org/ GenomeRNAi] ||style="background: #efefef; white-space:"| GenomeRNAi is a database containing phenotypes from cell-based and in vivo RNA interference (RNAi) screens in <em>Drosophila</em>. ||style="background: #efefef;"| GenomeRNAi<br/> DKFZ<br/> Heidelberg, Germany | ||
|- | |- | ||
| − | |style="nowrap;"| [http:// | + | |style="nowrap;"| [http://fgr.hms.harvard.edu/rsvp RSVP] || RNAi Stock Validation and Phenotypes for in vivo RNAi studies. || DRSC/TRiP Functional Genomics Resources (DRSC/TRiP-FGR)<br/> Harvard Medical School<br/> Boston, MA, USA |
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| − | |style="background: #efefef;"| [http://www.flyrnai.org/screensummary Cell-Based RNAi Screen Summary] ||style="background: #efefef;"| A summary of public cell-based DRSC screens. ||style="background: #efefef;"| | + | |style="background: #efefef;"| [http://www.flyrnai.org/screensummary Cell-Based RNAi Screen Summary] ||style="background: #efefef;"| A summary of public cell-based DRSC screens. ||style="background: #efefef;"| DRSC/TRiP Functional Genomics Resources (DRSC/TRiP-FGR)<br/> Harvard Medical School<br/> Boston, MA, USA |
|} | |} | ||
Revision as of 19:44, 1 May 2017
Popular Resource Categories
| All Resources | CRISPR | Stocks | RNAi | Model Organism Databases |
| Neuroscience | Antibodies | Images | Maps | Protocols |
RNAi Design/Analysis Tools
| Resource | Description | Author/Source |
|---|---|---|
| E-RNAi | 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. Support for multiple species including Drosophila (release 5), mouse, human, and others. | Boutros lab DKFZ Heidelberg, Germany |
| NEXT-RNAi | Software for the design and evaluation of genome-wide RNAi libraries. It 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 DKFZ Heidelberg, Germany |
| SnapDragon | A tool for the design of long dsRNAs for specific cell-based gene knockdown in Drosophila melanogaster via an RNAi approach. | DRSC/TRiP Functional Genomics Resources (DRSC/TRiP-FGR) Harvard Medical School Boston, MA, USA |
RNAi Stocks for in vivo studies (fly stocks)
| Resource | Description | Author/Source |
|---|---|---|
| UP-TORR, Updated Targets of RNAi Reagents | A lookup tool for searching BDSC, TRiP, VDRC and NIG-FLY in vivo RNAi collections. | DRSC/TRiP Functional Genomics Resources (DRSC/TRiP-FGR) Harvard Medical School Boston, MA, USA |
| 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. | Bloomington Drosophila Stock Center (BDSC) Indiana University Bloomington, IN, USA |
| 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 National Institute of Genetics Mishima, Japan |
| TRiP Transgenic RNAi Project | The TRiP Stock Collection contains over 9,000 lines, 1,575 of which correspond to orthologs of human-disease-associated genes. The stocks can be obtained from the BDSC. | DRSC/TRiP Functional Genomics Resources (DRSC/TRiP-FGR) 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, Vienna Drosophila Resource Center | The VDRC at IMP/IMBA in Vienna provides two genome-wide transgenic Drosophila RNAi libraries | Vienna Drosophila Resource Center (VDRC) Vienna, Austria |
Cell-based RNAi Reagents
| Resource | Description | Author/Source |
|---|---|---|
| DRSC Libraries | Genome-wide libraries for cell-based RNAi screening and validation (on-site or shipped). | DRSC/TRiP Functional Genomics Resources (DRSC/TRiP-FGR) Harvard Medical School Boston, MA, USA |
| Division of Signaling and Functional Genomics | Genome-wide libraries for cell-based RNAi screening and validation. Includes the resource site GenomeRNAi. | Boutros lab DKFZ Heidelberg, Germany |
RNAi Screening Centers
| Resource | Description | Author/Source |
|---|---|---|
| DRSC/TRiP Functional Genomics Resources (DRSC/TRiP-FGR) | DRSC/TRiP Functional Genomics Resources at Harvard Medical School provides high throughput RNAi screens. | DRSC/TRiP Functional Genomics Resources (DRSC/TRiP-FGR) 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 |
RNAi Results, Validation and Phenotypes
| Resource | Description | Author/Source |
|---|---|---|
| GenomeRNAi | GenomeRNAi is a database containing phenotypes from cell-based and in vivo RNA interference (RNAi) screens in Drosophila. | GenomeRNAi DKFZ Heidelberg, Germany |
| RSVP | RNAi Stock Validation and Phenotypes for in vivo RNAi studies. | DRSC/TRiP Functional Genomics Resources (DRSC/TRiP-FGR) Harvard Medical School Boston, MA, USA |
| Cell-Based RNAi Screen Summary | A summary of public cell-based DRSC screens. | DRSC/TRiP Functional Genomics Resources (DRSC/TRiP-FGR) Harvard Medical School Boston, MA, USA |
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