Difference between revisions of "FlyBase:Drosophila Material Resources"

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==BAC Genomic clones and Filters==
 
==BAC Genomic clones and Filters==
  
* One BAC clone library 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 was used for the Berkeley Drosophila Genome Project P1 clones is available. 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.
* BACR clones (18,432 clones in pBACe3.6; average clone size is 160-Kb) are available from BACPAC Resources at: http://bacpac.chori.org/dromel98.htm
+
* 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'''].
* 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 BACPAC Resources see: http://pacmanfly.org/libraries.html
+
* For information and resources related to the P[acman] recombineering technique see: [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
 
  
==P1 Genomic Clones==
+
==Fosmid CDS-GFP-tagged clones==
  
* As the P1 library is largely obsolete, the BDGP is discouraging the use of P1 clones. If there is a compelling scientific reason that a corresponding BAC is not sufficient, requests for P1 clones can be directed to the [http://www.fruitfly.org/about/materials/order.p1.html BDGP].
+
* 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/products/life-sciences-research/clones/transgenome-resources/ '''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)'''].
* For additional information about the Berkeley Drosophila Genome Project see [http://www.fruitfly.org/ http://www.fruitfly.org].
 
 
 
==Cosmid Genomic Clones and Filters==
 
 
 
* EDGP cosmids are available from the Geneservice:<br />http://www.geneservice.co.uk/products/clones/drosophila.jsp.
 
* Cosmids are available either singly or on high-density filters.
 
The members of the European <span class="italic">Drosophila</span> Genome mapping consortium are:
 
:* F.C. Kafatos, C. Louis, C. Savakis, I. Siden-Kiamos.<br />Institute of Molecular Biology and Biotechnology, FORTH, Heraklion, Crete.
 
:* D.M. Glover and R.D.C. Saunders,<br />Department of Biochemistry, University of Dundee, Dundee, Scotland.
 
:* M. Ashburner,<br />Department of Genetics, University of Cambridge, Cambridge, England.
 
:* J. Modolell,<br />Centro de Biologia Molecular, Universidad Autonoma, Madrid, Spain.  Supported by the Stimulation Action Programme of the European Community,<br />with initial funding from the Fondation Schlumberger.
 
Supported by the Stimulation Action Programme of the European Community,
 
with initial funding from the Fondation Schlumberger.
 
  
 
==YAC Genomic clones==
 
==YAC Genomic clones==
A complete set of YAC clones is maintained by Ian Duncan and clones may be requested from him.
+
A complete set of '''YAC clones''' is maintained by Ian Duncan and clones may be requested from him.
  
 
Contact:
 
Contact:
Line 33: Line 19:
 
==Sibling Species Genomic Libraries==
 
==Sibling Species Genomic Libraries==
 
Fosmid Libraries from BACPAC Resources<br />
 
Fosmid Libraries from BACPAC Resources<br />
: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 at: http://bacpac.chori.org/drosofosmid.htm
+
:'''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 [https://bacpacresources.org/library.php?id=59 '''erecta'''], [https://bacpacresources.org/library.php?id=60 '''pseudoobscura'''] ,[https://bacpacresources.org/library.php?id=285 '''virilis'''], and [https://bacpacresources.org/library.php?id=58 '''willistoni'''].
  
=cDNA (EST Clones and Libraries=
+
=cDNA (EST Clones and Libraries)=
* '''Addgene'''<br />Addgene helps labs archive and share their plasmids that have appeared in publications.<br />[http://www.addgene.org/pgvec1?f=c&cmd=browse http://www.addgene.org/pgvec1?f=c&amp;cmd=browse]
+
* '''Drosophila Genomics Resource Center (DGRC)'''<br />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 [https://dgrc.bio.indiana.edu/clones/Catalog# '''DGRC'''].
* '''Berkeley Drosophila Genome Project'''<br />The information is provided by BDGP. If you don't find the information you need here check http://www.fruitfly.org/about/materials/ for possible updates.
+
* '''addgene'''<br />Addgene helps labs archive and share their plasmids that have appeared in publications.<br />[http://www.addgene.org/ '''addgene''']
* '''Brian Oliver Laboratory'''<br />Testis cDNA clones and filters constructed by Justen Andrews in Brian Oliver's laboratory at the NIH are available from the Geneservice in the UK. <br />Ordering information can be found at http://www.geneservice.co.uk/products/cdna/dros_cdna.jsp
+
* '''Berkeley Drosophila Genome Project'''<br />Information on cDNA availability can also be found here [http://www.fruitfly.org/about/materials/index.html '''BDGP Resources'''].
* '''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].
+
* '''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'''].
* '''Clontech'''<br />Clontech (BD Biosciences) offers ''D. melanogaster'' embryo and larva 5'-STRETCH cDNA libraries at http://www.clontech.com/products/cat/HTML/1186.shtml
+
* '''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'''].
* '''Drosophila Gene Collection (DGC)'''<br />Contact [http://bacpac.chori.org/ '''BACPAC Resources'''], [http://www.openbiosystems.com/Genomics/Model Organism Resources/Fly Resources/Drosophila Gene Collection (DG/  '''Open Biosystems'''], [http://www.geneservice.co.uk/products/cdna/DGC.jsp '''Geneservice'''], or the [http://dgrc.cgb.indiana.edu/ '''DGRC''']<br />for clones in [http://www.fruitfly.org/DGC/DGC.txt DGCr1.0] or [http://www.fruitfly.org/DGC/dgc2.txt DGCr2.0].
 
* '''Drosophila Genomics Resource Center (DGRC)'''<br />Collects and distributes DNA clones, including vectors, cDNAs, and ESTs. More information is available at http://dgrc.cgb.indiana.edu/
 
* '''EST Project cDNA Clones'''<br />Contact the [http://dgrc.cgb.indiana.edu/ '''DGRC'''] for cDNA clones from the BDGP EST collection.
 
  
 
=Arrays and Primers=
 
=Arrays and Primers=
* '''Affymetrix'''<br />The Affymetrix GeneChip Drosophila Genome Array for gene expression analysis based on Release 3.1 annotations can be obtained at http://www.affymetrix.com/products/arrays/specific/fly_2.affx<br /><br />The Affymetrix Drosophila Tiling 2.0R Array based on Genome Release 5 with comprehensive genome coverage at 38bp resolution can be obtained here: http://www.affymetrix.com/products/arrays/specific/drosophila_tiling2_0r.affx
+
* '''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'''].
* '''Drosophila Genomics Resource Center (DGRC)'''<br />Produces and distributes DNA microarray slides. More information is available at http://dgrc.cgb.indiana.edu/
+
* '''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/
+
* '''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 www.flyrnai.org/flyprimerbank]
 
* '''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.indac.net/
 
* '''UK Drosophila Affymetrix Microarray Service'''<br />A publicly funded microarray service for the UK Drosophila research community. More information is available at http://www.mblab.gla.ac.uk/igf/
 
  
 
=Stocks=
 
=Stocks=
 +
* Please see our dedicated [[FlyBase:Stocks|Stocks]] resource page.
 +
 +
=CRISPR Vectors=
 +
* Please see our dedicated [[FlyBase:CRISPR|CRISPR]] resource page.
 +
 
=Expression Vectors=
 
=Expression Vectors=
 +
* '''Drosophila Gateway Vectors'''<br />A set of 68 Gateway-based vectors designed to express epitope-tagged proteins in Drosophila culture cells or flies, available at the [https://dgrc.bio.indiana.edu/vectors/Catalog?product_category=3 '''DGRC''']
 +
* '''ExpreS2ion Biotechnologies'''<br />ExpreS2ion Biotechnologies has developed an "improved drosophila S2 insect cell expression system" and are offering services such as protein expression and purification. [http://www.expres2ionbio.com/platform/ '''The ExpreS2 Platform''']
 +
* '''Creative Biogene'''<br />Creative Biogene offers Lentiviral systems for creating stable cell lines. See [http://www.creative-biogene.com/support/custom-lentivirus-service.html '''Custom Lentivirus Service''']
 +
 
=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''']
 +
* '''Drosophila Genomics Resource Center (DGRC)'''<br />Collects and distributes cell lines. More information is available at [https://dgrc.bio.indiana.edu/cells/Catalog '''DGRC''']
 +
* '''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'''].
 +
* '''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'''].
 +
 
=Antibodies=
 
=Antibodies=
 +
* Please see our dedicated [[FlyBase:Antibodies|Antibodies]] resource page.
 +
 +
=Transgenic, Targeted Mutation, and Other Services=
 +
* '''Aktogen behaviour genetic services'''<br />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. [http://www.aktogen.com/ '''Aktogen''']
 +
* '''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'''].
 +
* '''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'''].
 +
* '''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. [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''']
 +
* '''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'''].
 +
* '''Union Biometrica'''<br />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 [http://www.unionbio.com/ '''Union Biometrica'''].
 +
 
=RNA=
 
=RNA=
 +
'''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=
=Transgenic, Targeted Mutation, and Other Services=
+
* Please see our dedicated [[FlyBase:RNAi|RNAi]] resource page.
 +
 
 +
=Suggest a tool or resource=
 +
*Please [http://flybase.org/contact/email contact Flybase] to suggest a tool or resource for the list.
 +
[[Category:DONE]]

Latest revision as of 14:19, 16 August 2019

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. 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.

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.
    The Affymetrix GeneChip Drosophila Tiling 2.0R Array based on FlyBase Release 5 with comprehensive genome coverage at 38bp resolution can be obtained at Tiling 2.0R 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

  • Cellosaurus
    A thesaurus of cell lines which attempts to list all cell lines used in biomedical research. Cellosaurus
  • Drosophila Genomics Resource Center (DGRC)
    Collects and distributes cell lines. More information is available at DGRC
  • Developmental Studies Hybridoma Bank
    The Developmental Studies Hybridoma Bank at the University of Iowa offers hybridomas and antibodies at DSHB.
  • ATCC
    The American Type Culture Collection (ATCC) provides Schneider's L-2 and L-2/M delta 2-3 cell lines and hybridomas at ATCC.

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