Difference between revisions of "FlyBase:Drosophila Material Resources"

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* The '''RPCI-98 Drosophila melanogaster BAC Library''' (17,540 clones in pBACe3.6; average clone size is 160-Kb), which was made from DNA of the same <span class="italic">y<sup>1</sup> ; cn<sup>1</sup> bw<sup>1</sup> sp<sup>1</sup></span> stock as that used for the Berkeley Drosophila Genome Project P1 clones, is available from [https://bacpacresources.org '''BACPAC Resources''']. This BACR library was made for the BDGP by K. Osoegawa, A. Mammoser, and P. de Jong.
 
* The '''RPCI-98 Drosophila melanogaster BAC Library''' (17,540 clones in pBACe3.6; average clone size is 160-Kb), which was made from DNA of the same <span class="italic">y<sup>1</sup> ; cn<sup>1</sup> bw<sup>1</sup> sp<sup>1</sup></span> stock as that used for the Berkeley Drosophila Genome Project P1 clones, is available from [https://bacpacresources.org '''BACPAC Resources''']. This BACR library was made for the BDGP by K. Osoegawa, A. Mammoser, and P. de Jong.
* Clones from two genomic BAC libraries (83 kb and 21 kb average clone size) engineered into the attB-P[acman]-CmR-BW vector, a special adaptation of P[acman], are also available from [http://pacmanfly.org/libraries.html '''P(acman) Resources'''].
+
* Clones from two genomic BAC libraries (83 kb and 21 kb average clone size) engineered into the attB-P[acman]-CmR-BW vector, a special adaptation of P[acman], are also available from [http://flypush.imgen.bcm.tmc.edu/pacmanfly/ '''P(acman) Resources'''].
* For information and resources related to the P[acman] recombineering technique see: [http://www.pacmanfly.org/ '''P(acman) Resources''']
+
* For information and resources related to the P[acman] recombineering technique see: [http://flypush.imgen.bcm.tmc.edu/pacmanfly/'''P(acman) Resources''']
  
 
==Fosmid CDS-GFP-tagged clones==
 
==Fosmid CDS-GFP-tagged clones==
  
* The '''Drosophila TransgeneOme Fosmid Library''' (a genome-scale collection of ~10,000 validated clones covering ~9600 genes (73% of the Drosophila proteome)), is a comprehensive genome-wide library of C-terminally tagged proteins within genomic fosmid constructs. The tagging cassette comprises affinity tags, protease sites and GFP suitable for protein localisation and complex purification studies.  The complete set or chosen subsets are available from [http://www.sourcebioscience.com/products/life-science-research/clones/transgenome-resources/drosophila-transgenome-resource/ '''Source BioScience''']. Transgenic lines have been generated for about 900 of these clones and are available at [http://stockcenter.vdrc.at/control/library_ftrg '''Vienna Drosophila Resource Center (VDRC)'''].
+
* The '''Drosophila TransgeneOme Fosmid Library''' (a genome-scale collection of ~10,000 validated clones covering ~9600 genes (73% of the Drosophila proteome)), is a comprehensive genome-wide library of C-terminally tagged proteins within genomic fosmid constructs. The tagging cassette comprises affinity tags, protease sites and GFP suitable for protein localisation and complex purification studies.  The complete set or chosen subsets are available from [https://www.sourcebioscience.com/life-science-research/clones/transgenome-resources// '''Source BioScience''' TransgenOme Resources]. Transgenic lines have been generated for about 900 of these clones and are available at [http://stockcenter.vdrc.at/control/library_ftrg '''Vienna Drosophila Resource Center (VDRC)'''].
  
 
==YAC Genomic clones==
 
==YAC Genomic clones==
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* '''addgene'''<br />Addgene helps labs archive and share their plasmids that have appeared in publications.<br />[http://www.addgene.org/ '''addgene''']
 
* '''addgene'''<br />Addgene helps labs archive and share their plasmids that have appeared in publications.<br />[http://www.addgene.org/ '''addgene''']
 
* '''Berkeley Drosophila Genome Project'''<br />Information on cDNA availability can also be found here [http://www.fruitfly.org/about/materials/index.html '''BDGP Resources'''].
 
* '''Berkeley Drosophila Genome Project'''<br />Information on cDNA availability can also be found here [http://www.fruitfly.org/about/materials/index.html '''BDGP Resources'''].
* '''Brian Oliver Laboratory'''<br />Testis cDNA clones and/or filters constructed in Brian Oliver's laboratory at the NIH are available at [http://www.sourcebioscience.com/products/life-science-research/clones/cdna-clones/est-collections/drosophila-melanogaster-testes-cdna-nih/ '''Source BioScience'''] in the UK or at the [https://dgrc.bio.indiana.edu/clones/Catalog# '''DGRC'''] in the U.S.
+
* '''Brian Oliver Laboratory'''<br />Testis cDNA clones and/or filters constructed in Brian Oliver's laboratory at the NIH are available at the [https://dgrc.bio.indiana.edu/clones/Catalog# '''DGRC'''].
 
* '''cDNA library aliquots'''<br />Aliquots from a number of the BDGP cDNA libraries are available from the labs on this [http://www.fruitfly.org/about/materials/cDNA-list.html '''list'''].
 
* '''cDNA library aliquots'''<br />Aliquots from a number of the BDGP cDNA libraries are available from the labs on this [http://www.fruitfly.org/about/materials/cDNA-list.html '''list'''].
 +
 +
=Additional DNA Reagents and Resources=
 +
* <b>DGRC DNA Clones Catalog</b>:<br />[https://dgrc.bio.indiana.edu/clones/Catalog Drosophila Genomics Resource Center, Indiana University, Bloomington, IN, USA]
 +
* <b>DGRC DNA Clone Collections</b>:<br />[https://dgrc.bio.indiana.edu/clones/BulkCollections  Drosophila Genomics Resource Center, Indiana University, Bloomington, IN, USA]
 +
* <b>DGRC DNA Clone FAQ Page</b>:<br />[https://dgrc.bio.indiana.edu/FAQs?tab=clones Drosophila Genomics Resource Center, Indiana University, Bloomington, IN, USA]
 +
* <b>DGRC DNA Clone Protocols</b>:<br />[https://dgrc.bio.indiana.edu/Protocols?tab=clones Drosophila Genomics Resource Center, Indiana University, Bloomington, IN, USA]
 +
* <b>DGRC DNA Vectors Catalog</b>:<br />[https://dgrc.bio.indiana.edu/vectors/Catalog Drosophila Genomics Resource Center, Indiana University, Bloomington, IN, USA]
 +
* <b>DGRC DNA Vectors FAQs Page</b>:<br />[https://dgrc.bio.indiana.edu/FAQs?tab=vectors Drosophila Genomics Resource Center, Indiana University, Bloomington, IN, USA]
 +
* <b>DGRC DNA Vectors Protocols</b>:<br />[https://dgrc.bio.indiana.edu/Protocols?tab=vectors Drosophila Genomics Resource Center, Indiana University, Bloomington, IN, USA]
 +
* <b>TRiP: VALIUM and WALIUM plasmid vector sets</b>:<br />[https://fgr.hms.harvard.edu/trip-plasmid-vector-sets TRiP, Harvard Medical School, Boston, MA, USA]
 +
* <b>TRiP: Plasmid cloning protocols</b>:<br />[https://fgr.hms.harvard.edu/cloning-and-sequencing TRiP, Harvard Medical School, Boston, MA, USA]
 +
* <b>TRiP: Overview of sgRNA vectors</b>:<br />[https://fgr.hms.harvard.edu/sgrna-vectors TRiP, Harvard Medical School, Boston, MA, USA]
  
 
=Arrays and Primers=
 
=Arrays and Primers=
* '''Affymetrix'''<br />The Affymetrix GeneChip Drosophila Genome 2.0 Array for gene expression analysis based on Release 3.1 annotations can be obtained at [https://www.thermofisher.com/order/catalog/product/900531?ICID=search-product '''Genome 2.0 Array'''].<br />The Affymetrix GeneChip Drosophila Tiling 2.0R Array based on FlyBase Release 5 with comprehensive genome coverage at 38bp resolution can be obtained at [https://www.thermofisher.com/order/catalog/product/901021?ICID=search-product '''Tiling 2.0R Array'''].
+
* '''Affymetrix'''<br />The Affymetrix GeneChip Drosophila Genome 2.0 Array for gene expression analysis based on Release 3.1 annotations can be obtained at [https://www.thermofisher.com/order/catalog/product/900531?ICID=search-product '''Genome 2.0 Array'''].<br />  
 
* '''Drosophila Genomics Resource Center (DGRC)'''<br />No longer produces and distributes DNA microarray slides but maintains a microarray support archive. See [https://dgrc.bio.indiana.edu/microarrays/Overview '''DGRC'''].
 
* '''Drosophila Genomics Resource Center (DGRC)'''<br />No longer produces and distributes DNA microarray slides but maintains a microarray support archive. See [https://dgrc.bio.indiana.edu/microarrays/Overview '''DGRC'''].
* '''FlyChip'''<br />FlyChip is a publicly funded project to provide a non-profit microarray resource for the UK Drosophila research community. More information is available at [http://www.flychip.org.uk/ '''FlyChip'''].
 
* '''International Drosophila Array Consortium (INDAC)'''<br />An international consortium to collaborate in the development and aquisition of microarray resources for the benefit of the entire research community. More information is available at [http://www.flychip.org.uk/services/core/FL003/ '''FlyChip_long_oligonucleotide_003 (FL003) - INDAC'''].
 
* '''UK Drosophila Affymetrix Microarray Service'''<br />A publicly funded microarray service for the UK Drosophila research community. More information is available at [http://www.flychip.org.uk/services/affy/ '''FlyChip Affymetrix''']
 
 
* '''FlyPrimerBank'''<br />An online database for ''Drosophila melanogaster'' gene expression analysis and knockdown evaluation of RNAi reagents. More information is available at [http://www.flyrnai.org/flyprimerbank '''DRSC FlyPrimer Bank''']
 
* '''FlyPrimerBank'''<br />An online database for ''Drosophila melanogaster'' gene expression analysis and knockdown evaluation of RNAi reagents. More information is available at [http://www.flyrnai.org/flyprimerbank '''DRSC FlyPrimer Bank''']
  
 
=Stocks=
 
=Stocks=
* Please see our dedicated [[FlyBase:Stocks|Stocks]] resources page.
+
* Please see our dedicated [[FlyBase:Stocks|Stocks]] resource page.
  
 
=CRISPR Vectors=
 
=CRISPR Vectors=
* '''CRISPR/Cas Vectors from Simon Bullock Lab'''<br />A set tools for efficient germline and somatic genome engineering in Drosophila melanogaster, available at the [https://www.addgene.org/Simon_Bullock/ '''addgene plasmid repository'''], Cambridge, MA, USA
+
* Please see our dedicated [[FlyBase:CRISPR|CRISPR]] resource page.
 
 
* '''CRISPR Plasmids - CRISPR fly design cas9 plasmids description '''<br />  [http://www.crisprflydesign.org/plasmids '''CRISPR fly design'''], Simon Bullock, MRC, Cambridge, UK
 
  
 
=Expression Vectors=
 
=Expression Vectors=
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=Cell Lines and Hybridomas=
 
=Cell Lines and Hybridomas=
* '''Cellosaurus'''<br />A thesaurus of cell lines which attempts to list all cell lines used in biomedical research. [http://web.expasy.org/cellosaurus/ '''Cellosaurus''']
+
* <b>ATCC</b>: The American Type Culture Collection (ATCC) provides Schneider's L-2 and L-2/M delta 2-3 cell lines and hybridomas <br /> [http://www.atcc.org/ ATCC, Manassus, VA, USA].
* '''Drosophila Genomics Resource Center (DGRC)'''<br />Collects and distributes cell lines. More information is available at [https://dgrc.bio.indiana.edu/cells/Catalog '''DGRC''']
+
* <b>Cellosaurus</b>: A thesaurus of cell lines which attempts to list all cell lines used in biomedical research <br /> [http://web.expasy.org/cellosaurus/ Swiss Institute of Bioinformatics, Geneva, Switzerland]
* '''Developmental Studies Hybridoma Bank'''<br />The Developmental Studies Hybridoma Bank at the University of Iowa offers hybridomas and antibodies at [http://dshb.biology.uiowa.edu '''DSHB'''].
+
* <b>Developmental Studies Hybridoma Bank</b>: The Developmental Studies Hybridoma Bank at the University of Iowa offers hybridomas and antibodies <br /> [http://dshb.biology.uiowa.edu DSHB, Univesity of Iowa, Iowa City, IA, USA].
* '''ATCC'''<br />The American Type Culture Collection (ATCC) provides Schneider's L-2 and L-2/M delta 2-3 cell lines and hybridomas at [http://www.atcc.org/ '''ATCC'''].
+
* <b>DGRC: Cell Line Catalog</b>: <br /> [https://dgrc.bio.indiana.edu/ Drosophila Genomics Resource Center, Indiana University, Bloomington, IN, USA]
 +
* <b>DGRC: Cell Culture Protocols</b>: <br />[https://dgrc.bio.indiana.edu/Protocols?tab=cells Drosophila Genomics Resource Center, Indiana University,  Bloomington, IN, USA]
 +
* <b>DGRC: Cell Culture FAQ Page</b>: <br />[https://dgrc.bio.indiana.edu/FAQs?tab=cells Drosophila Genomics Resource Center, Indiana University, Bloomington, IN, USA]
 +
* <b>DGRC: Feeder Cells</b>: <br />[https://dgrc.bio.indiana.edu/cells/FeederCells Drosophila Genomics Resource Center, Indiana University, Bloomington, IN, USA]
 +
* <b>DGRC: Fly Extract</b>:<br />[https://dgrc.bio.indiana.edu/cells/FlyExtract Drosophila Genomics Resource Center, Indiana University, Bloomington, IN, USA]
 +
* <b>Expression Systems S2 Cells</b>:<br />[https://expressionsystems.com/product/insect-cells/ Expression Systems, Davis, CA, USA]
 +
* <b>Thermo Fisher Scientific Cell Line Reagents</b>:<br />[https://www.thermofisher.com/search/results?query=Drosophila%20Cell%20line&focusarea=Search%20All Thermo Fisher,  USA]
  
 
=Antibodies=
 
=Antibodies=
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* '''BestGene Transgenic Service'''<br />The BestGene Drosophila Embryo Injection service provides partial to full service ranging from DNA preparation, embryo microinjection to balancing crosses. More information is available at [http://www.thebestgene.com/ '''BestGene'''].
 
* '''BestGene Transgenic Service'''<br />The BestGene Drosophila Embryo Injection service provides partial to full service ranging from DNA preparation, embryo microinjection to balancing crosses. More information is available at [http://www.thebestgene.com/ '''BestGene'''].
 
* '''C-CAMP Centre for Cellular and Molecular Platforms'''<br />A Bangalore-based fly facility housed in NCBS offering Drosophila services ranging from transgenesis to screening. More information is available at [http://ccamp.res.in/Fly-facility '''C_CAMP'''].
 
* '''C-CAMP Centre for Cellular and Molecular Platforms'''<br />A Bangalore-based fly facility housed in NCBS offering Drosophila services ranging from transgenesis to screening. More information is available at [http://ccamp.res.in/Fly-facility '''C_CAMP'''].
* '''Fly Facility'''<br />Fly Facility located at the Universite d'Auvergne Clermont-Ferrand I, France, provides a transgenesis and dsRNA microinjection service. More information is available at [http://www.fly-facility.com/ '''Fly Facility'''].
+
* '''Fly Facility'''<br />Fly Facility located at the Universite d'Auvergne Clermont-Ferrand I, France, provides a transgenesis and dsRNA microinjection service. More information is available at [https://www.uca.fr/recherche/plateaux-techniques/fly-facility-1 '''Fly Facility'''].
 
* '''GenetiVision Corporation'''<br />GenetiVision offers a wide range of transgenic and molecular biology services, including P-element transgenesis and Phi-C31 mediated site-specific integration, CRISPR design and construct building, RMCE, MiMIC, and more. Please see [http://www.genetivision.com/ '''Genetivision'''] for complete details.
 
* '''GenetiVision Corporation'''<br />GenetiVision offers a wide range of transgenic and molecular biology services, including P-element transgenesis and Phi-C31 mediated site-specific integration, CRISPR design and construct building, RMCE, MiMIC, and more. Please see [http://www.genetivision.com/ '''Genetivision'''] for complete details.
* '''The Genome Engineering Production Group'''<br /> The GEPG at Harvard Medical School currently builds custom CRISPR sgRNA constructs for knock-out, knock-in or other projects. [http://gepg.hms.harvard.edu/ '''GEPB''']
+
* '''The Genome Engineering Production Group'''<br /> The GEPG at Harvard Medical School currently builds custom CRISPR sgRNA constructs for knock-out, knock-in or other projects. [https://genetics.med.harvard.edu/resources/gepg '''GEPB''']
 
* '''GenScript'''<br /> A US based company offering gene construction, mutagenesis and subcloning services, as well as a large array of other products and services. [http://www.genscript.com/ '''GenScript''']
 
* '''GenScript'''<br /> A US based company offering gene construction, mutagenesis and subcloning services, as well as a large array of other products and services. [http://www.genscript.com/ '''GenScript''']
 
* '''Rainbow Transgenic Flies'''<br />Rainbow Transgenic Flies provides professional microinjection services to the fly community. More information is available at [http://www.rainbowgene.com/ '''Rainbow Transgenic Flies'''].
 
* '''Rainbow Transgenic Flies'''<br />Rainbow Transgenic Flies provides professional microinjection services to the fly community. More information is available at [http://www.rainbowgene.com/ '''Rainbow Transgenic Flies'''].
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=RNA=
 
=RNA=
'''Clontech'''<br />Clontech of BD Biosciences offers D. melanogaster embryo and adult Poly A RNA at [http://www.clontech.com/products/detail.asp?product_id=167106&tabno=2 '''Clontech'''].
+
'''Clontech'''<br />Clontech of BD Biosciences offers D. melanogaster adult Poly A RNA at [https://www.takarabio.com/search-results?term=drosophila&catids=%2c20109&types=&filters= '''TaKaRa'''].
  
 
=RNAi=
 
=RNAi=
* Please see our dedicated [[FlyBase:RNAi|RNAi]] resources page.
+
* Please see our dedicated [[FlyBase:RNAi|RNAi]] resource page.
  
 
=Suggest a tool or resource=
 
=Suggest a tool or resource=
*Please [http://flybase.org/cgi-bin/mailto-fbhelp.html contact Flybase] to suggest a tool or resource for the list.
+
*Please [http://flybase.org/contact/email contact Flybase] to suggest a tool or resource for the list.
 
 
 
[[Category:DONE]]
 
[[Category:DONE]]

Latest revision as of 15:58, 10 June 2021

Genomic Clones

BAC Genomic clones and Filters

  • The RPCI-98 Drosophila melanogaster BAC Library (17,540 clones in pBACe3.6; average clone size is 160-Kb), which was made from DNA of the same y1 ; cn1 bw1 sp1 stock as that used for the Berkeley Drosophila Genome Project P1 clones, is available from BACPAC Resources. This BACR library was made for the BDGP by K. Osoegawa, A. Mammoser, and P. de Jong.
  • Clones from two genomic BAC libraries (83 kb and 21 kb average clone size) engineered into the attB-P[acman]-CmR-BW vector, a special adaptation of P[acman], are also available from P(acman) Resources.
  • For information and resources related to the P[acman] recombineering technique see: P(acman) Resources

Fosmid CDS-GFP-tagged clones

  • The Drosophila TransgeneOme Fosmid Library (a genome-scale collection of ~10,000 validated clones covering ~9600 genes (73% of the Drosophila proteome)), is a comprehensive genome-wide library of C-terminally tagged proteins within genomic fosmid constructs. The tagging cassette comprises affinity tags, protease sites and GFP suitable for protein localisation and complex purification studies. The complete set or chosen subsets are available from Source BioScience TransgenOme Resources. Transgenic lines have been generated for about 900 of these clones and are available at Vienna Drosophila Resource Center (VDRC).

YAC Genomic clones

A complete set of YAC clones is maintained by Ian Duncan and clones may be requested from him.

Contact:

Ian W. Duncan,
Department of Biology,
Box 1137,
Washington University,
St. Louis, MO 63130-4899.
Telephone (1)-314-935-6719;
fax(1)-314-935-4432;
e-mail duncan@biology.wustl.edu.

Sibling Species Genomic Libraries

Fosmid Libraries from BACPAC Resources

Genomic fosmid libraries were constructed for the BDGP by Andreas Gnirke at Exelixis, Inc. (South San Francisco) from Drosophila erecta, D. pseudoobscura, D. virilis, and D. willistoni. The fosmid libraries are available from BACPAC Resources for erecta, pseudoobscura ,virilis, and willistoni.

cDNA (EST Clones and Libraries)

  • Drosophila Genomics Resource Center (DGRC)
    Collects and distributes DNA clones, including vectors, cDNAs, and ESTs. Collections include BDGP Gold, BDGP Tagged ORF, Extracellular Domain, FlyBi ORFeome, BDGP DGC, BDGP EST, BDGP ORF, iPCR(IP), Testis cDNA, CuraGen, and Drosophila Species ESTs/cDNAs. More information is available at DGRC.
  • addgene
    Addgene helps labs archive and share their plasmids that have appeared in publications.
    addgene
  • Berkeley Drosophila Genome Project
    Information on cDNA availability can also be found here BDGP Resources.
  • Brian Oliver Laboratory
    Testis cDNA clones and/or filters constructed in Brian Oliver's laboratory at the NIH are available at the DGRC.
  • cDNA library aliquots
    Aliquots from a number of the BDGP cDNA libraries are available from the labs on this list.

Additional DNA Reagents and Resources

Arrays and Primers

  • Affymetrix
    The Affymetrix GeneChip Drosophila Genome 2.0 Array for gene expression analysis based on Release 3.1 annotations can be obtained at Genome 2.0 Array.
  • Drosophila Genomics Resource Center (DGRC)
    No longer produces and distributes DNA microarray slides but maintains a microarray support archive. See DGRC.
  • FlyPrimerBank
    An online database for Drosophila melanogaster gene expression analysis and knockdown evaluation of RNAi reagents. More information is available at DRSC FlyPrimer Bank

Stocks

  • Please see our dedicated Stocks resource page.

CRISPR Vectors

  • Please see our dedicated CRISPR resource page.

Expression Vectors

  • Drosophila Gateway Vectors
    A set of 68 Gateway-based vectors designed to express epitope-tagged proteins in Drosophila culture cells or flies, available at the DGRC
  • ExpreS2ion Biotechnologies
    ExpreS2ion Biotechnologies has developed an "improved drosophila S2 insect cell expression system" and are offering services such as protein expression and purification. The ExpreS2 Platform
  • Creative Biogene
    Creative Biogene offers Lentiviral systems for creating stable cell lines. See Custom Lentivirus Service

Cell Lines and Hybridomas

Antibodies

  • Please see our dedicated Antibodies resource page.

Transgenic, Targeted Mutation, and Other Services

  • Aktogen behaviour genetic services
    Aktogen at Cambridge University offers a wide range of services to the fruit fly community such as behaviour tests, behaviour and other equipment, custom made genetic constructs and transgenic services. Aktogen
  • BestGene Transgenic Service
    The BestGene Drosophila Embryo Injection service provides partial to full service ranging from DNA preparation, embryo microinjection to balancing crosses. More information is available at BestGene.
  • C-CAMP Centre for Cellular and Molecular Platforms
    A Bangalore-based fly facility housed in NCBS offering Drosophila services ranging from transgenesis to screening. More information is available at C_CAMP.
  • Fly Facility
    Fly Facility located at the Universite d'Auvergne Clermont-Ferrand I, France, provides a transgenesis and dsRNA microinjection service. More information is available at Fly Facility.
  • GenetiVision Corporation
    GenetiVision offers a wide range of transgenic and molecular biology services, including P-element transgenesis and Phi-C31 mediated site-specific integration, CRISPR design and construct building, RMCE, MiMIC, and more. Please see Genetivision for complete details.
  • The Genome Engineering Production Group
    The GEPG at Harvard Medical School currently builds custom CRISPR sgRNA constructs for knock-out, knock-in or other projects. GEPB
  • GenScript
    A US based company offering gene construction, mutagenesis and subcloning services, as well as a large array of other products and services. GenScript
  • Rainbow Transgenic Flies
    Rainbow Transgenic Flies provides professional microinjection services to the fly community. More information is available at Rainbow Transgenic Flies.
  • Union Biometrica
    COPAS Select flow cytometry instruments are able to analyze and dispense Drosophila embryos on the basis of size and fluorescent signals. More information is available at Union Biometrica.

RNA

Clontech
Clontech of BD Biosciences offers D. melanogaster adult Poly A RNA at TaKaRa.

RNAi

  • Please see our dedicated RNAi resource page.

Suggest a tool or resource