Difference between revisions of "FlyBase:New to Flies"

Latest revision as of 15:44, 15 May 2024

FlyBase is a database of genetic and molecular data for D. melanogaster and other Drosophila species, targeted to an audience of research professionals. The resources listed here may be especially useful to those new to flies.

For a quick look at answers to common issues, check out the Frequently Asked Questions page.

Learning how to use Drosophila

Drosophila Workers Unite! A laboratory manual for working with Drosophila.

A basic introduction to Drosophila can be found at these websites:

An introduction to Drosophila melanogaster
Drosophila Workers Unite! A laboratory manual for working with Drosophila
Fly Basics, from the Fly Research Portal
FlyMove: Images and movies describing Drosophila development

Online books:

Experiments with Drosophila for Biology Courses, eds. SC Lakhotia and HA Ranganath, 2nd edition: features 118 protocols commonly used in Drosophila labs, for use by both undergraduate labs and researchers (also hosted by FlyBase here)
Drosophila melanogaster - Model for Recent Advances in Genetics and Therapeutics, ed. FK Perveen: a disease model centered introduction to Drosophila
The Encyclopedia of North American Drosophilids Volume 1: Drosophilids of the Midwest and Northeast, eds. T Werner, T Steenwinkel, and J Jaenike.

The Manchester Fly Facility has a large compendium of Drosophila-related links for the public, educators, and students. These include information on Drosophila as a model system, general fly-related info, Drosophila movies and images, fly-related equipment, tools, and materials, information for teaching Drosophila at schools and universities, and the history of Drosophila research.

On our Twitter @FlyBaseDotOrg, we post Tweetorials: threads that provide a guide to a feature, resource, or tool at FlyBase. You can view the Tweetorial index on the wiki here, or see them directly on Twitter using the hashtag #FlyBaseTweetorial.

Learning Drosophila genetics

Online guides:

How to Design a Genetic Mating Scheme: A Basic Training Package for Drosophila Genetics: a four-part training package available from John Roote and Andreas Prokop, including topics like binary expression systems (UAS GAL4), clone generation methods (MARCM, germline clones), enhancer and protein trap lines, P-elements, deletion mapping, and more.
An Introduction to Balancers: from the BDSC
Descriptions of the core genetic components of balancer stocks at BDSC and balancer stocks at Kyoto Stock Center

Computer-simulated genetic experiments can be performed at the following sites:

External Resources on the FlyBase Wiki

We have an extensive collection of links to external sites, organized by topic on our External Resources page, including things like:

Where to obtain many kinds of genetic reagents: stocks, cell lines, genomic clones, antibodies, and more
Drosophila protocols: categorized at the DRSC Functional Genomics Resources site
Image-based resources: including both databases of Drosophila images (anatomy guides, expression from endogenous genes and reporters), and software for image analysis and processing
Links to technical guides, analysis tools, and reagents for working with CRISPR, single-cell RNA-seq, and RNAi
Drosophila neuroscience: items from the above categories that are specific to neuroscience
Drosophila Online Resources: includes many more types of resources, such as orthology predictions, transcription regulation databases, genomes of other Drosophilids, and many more

How to use FlyBase

FlyBase FAQs (Frequently Asked Questions)

All of FlyBase's publications and presentations are on our wiki, and are a great starting place for learning how to use more of FlyBase's features.

If you have questions, please don't hesitate to contact FlyBase directly.

Social media and online groups

FlySlack

Twitter accounts: see our account at @FlyBaseDotOrg, and check out other accounts that it follows, like the Alliance for Genome Resources @alliancegenome.

The Alliance User Community Forums include fly-specific discussions, as well as job posting, positions wanted, and meeting announcement forums.

Archive of the bionet.drosophila discussion group: for a historical perspective of 26 years of Drosophila discussion online.

@@ Line 1: / Line 1: @@
-'''FlyBase''' is a database of genetic and molecular data for ''D. melanogaster'' and other Drosophila species, targeted to an audience of research professionals. The resources listed here may be more useful to those new to flies.
+'''FlyBase''' is a database of genetic and molecular data for ''D. melanogaster'' and other Drosophila species, targeted to an audience of research professionals. The resources listed here may be especially useful to those new to flies.
-A basic introduction to Drosophila can be found at:
+For a quick look at answers to common issues, check out the '''[https://wiki.flybase.org/wiki/FlyBase:FAQ Frequently Asked Questions]''' page.
-* http://www.ceolas.org/fly/intro.html
-* http://modencode.sciencemag.org/drosophila/introduction
-If you're new to flies and would like to learn how to design a genetic mating scheme, there is a four-part training package available from John Roote and Andreas Prokop, found here:
+==Learning how to use Drosophila==
+[[File:Dwu cover.png|link=https://marksteinlab.org/dwu/|thumb|200 px|Drosophila Workers Unite! A laboratory manual for working with Drosophila.]]
-* http://www.g3journal.org/content/3/2/353.full
+'''A basic introduction to Drosophila''' can be found at these websites:
-Images and movies describing Drosophila development can be viewed at:
+* [https://depts.washington.edu/cberglab/wordpress/outreach/an-introduction-to-fruit-flies/ An introduction to Drosophila melanogaster]
+* [https://marksteinlab.org/dwu/ Drosophila Workers Unite! A laboratory manual for working with Drosophila]
+* [https://drosophilaresearch.org/faq/flybasics Fly Basics], from the [https://drosophilaresearch.org/ Fly Research Portal]
+* [http://flymove.uni-muenster.de/ FlyMove]: Images and movies describing Drosophila development
-* http://flymove.uni-muenster.de/
-Computer-simulated genetic experiments can be performed via Virtual FlyLab at:
+'''Online books:'''
+*[https://www.ias.ac.in/Publications/e-Books/Experiments_with_Drosophila_for_Biology_Courses_2 Experiments with Drosophila for Biology Courses, eds. SC Lakhotia and HA Ranganath, 2nd edition]:  features 118 protocols commonly used in Drosophila labs, for use by both undergraduate labs and researchers (also hosted by FlyBase [https://ftp.flybase.org/flybase/associated_files/Experiments_with_Drosophila_for_Biology_Courses_ed2.pdf here])
+*[https://www.intechopen.com/books/5976 Drosophila melanogaster - Model for Recent Advances in Genetics and Therapeutics, ed. FK Perveen]: a disease model centered introduction to Drosophila
+* [https://digitalcommons.mtu.edu/oabooks/1/ The Encyclopedia of North American Drosophilids Volume 1: Drosophilids of the Midwest and Northeast, eds. T Werner, T Steenwinkel, and J Jaenike.]
-* http://www.biologylab.awlonline.com/
-Links to these and many other Drosophila resources can be found at
+The '''[http://www.flyfacility.ls.manchester.ac.uk/forthepublic/outreachresources Manchester Fly Facility]''' has a large compendium of Drosophila-related links for the public, educators, and students. These include information on Drosophila as a model system, general fly-related info, Drosophila movies and images, fly-related equipment, tools, and materials, information for teaching Drosophila at schools and universities, and the history of Drosophila research.
-Gerard Manning's Drosophila Virtual Library:
-* http://www.ceolas.org/fly/
-If you can't find the information you are looking for, we suggest you address appropriate requests to the fly community by posting a message to the Drosophila discussion group bionet.drosophila
+On our Twitter [https://twitter.com/FlyBaseDotOrg @FlyBaseDotOrg], we post '''Tweetorials: threads that provide a guide to a feature, resource, or tool at FlyBase'''. You can view the Tweetorial index on the wiki [https://wiki.flybase.org/wiki/FlyBase:Tweetorial here], or see them directly on Twitter using the hashtag [https://twitter.com/hashtag/FlyBaseTweetorial?src=hashtag_click&f=live #FlyBaseTweetorial].
-* http://www.bio.net/hypermail/dros/
+==Learning Drosophila genetics==
-or e-mail your message to dros@net.bio.net.
+'''Online guides''':
+* [http://www.g3journal.org/content/3/2/353.full How to Design a Genetic Mating Scheme: A Basic Training Package for Drosophila Genetics]: a four-part training package available from John Roote and Andreas Prokop, including topics like binary expression systems (UAS GAL4), clone generation methods (MARCM, germline clones), enhancer and protein trap lines, P-elements, deletion mapping, and more.
+* [https://bdsc.indiana.edu/stocks/balancers/balancer_intro.html An Introduction to Balancers]: from the [https://bdsc.indiana.edu/index.html BDSC]
+* Descriptions of the core genetic components of [https://bdsc.indiana.edu/stocks/balancers/balancer_defs.html balancer stocks at BDSC] and [https://kyotofly.kit.jp/stocks/documents/?Balancers balancer stocks at Kyoto Stock Center]
+'''Computer-simulated genetic experiments''' can be performed at the following sites:
+* [https://www.biologycorner.com/worksheets/drosophila_simulation.html Drosophila Simulation ------- Patterns of Heredity]
+* [http://www.sciencecourseware.org/vcise/ Virtual Courseware for Inquiry-based Science Education - Drosophila]
+==External Resources on the FlyBase Wiki==
+We have an extensive collection of '''links to external sites''', organized by topic on our [https://wiki.flybase.org/wiki/FlyBase:External_Resources '''External Resources'''] page, including things like:
+* [https://wiki.flybase.org/wiki/FlyBase:Drosophila_Material_Resources Where to obtain many kinds of '''genetic reagents''']: [https://wiki.flybase.org/wiki/FlyBase:Stocks stocks], [https://wiki.flybase.org/wiki/FlyBase:Drosophila_Material_Resources#Cell_Lines_and_Hybridomas cell lines], [https://wiki.flybase.org/wiki/FlyBase:Drosophila_Material_Resources#Genomic_Clones genomic clones], [https://wiki.flybase.org/wiki/FlyBase:Antibodies antibodies], and more
+* [https://www.flyrnai.org/tools/protocols/web/ Drosophila '''protocols''']: categorized at the [https://fgr.hms.harvard.edu/ DRSC Functional Genomics Resources] site
+* [https://wiki.flybase.org/wiki/FlyBase:Images '''Image'''-based resources]: including both databases of Drosophila images (anatomy guides, expression from endogenous genes and reporters), and software for image analysis and processing
+* Links to technical guides, analysis tools, and reagents for working with [https://wiki.flybase.org/wiki/FlyBase:CRISPR '''CRISPR'''], [https://wiki.flybase.org/wiki/FlyBase:ScRNA-Seq '''single-cell RNA-seq'''], and [https://wiki.flybase.org/wiki/FlyBase:RNAi '''RNAi''']
+*[https://wiki.flybase.org/wiki/FlyBase:Neuroscience Drosophila '''neuroscience''']: items from the above categories that are specific to neuroscience
+*[https://wiki.flybase.org/wiki/FlyBase:Drosophila_Online_Resources Drosophila Online Resources]: includes many more types of resources, such as [https://wiki.flybase.org/wiki/FlyBase:Drosophila_Online_Resources#Orthology_Predictions orthology predictions], [https://wiki.flybase.org/wiki/FlyBase:Drosophila_Online_Resources#Orthology_Predictions transcription regulation databases], [https://wiki.flybase.org/wiki/FlyBase:Drosophila_Online_Resources#Drosophila_Genomes_Data_and_Metadata genomes of other Drosophilids], and many more
+==How to use FlyBase==
+[https://wiki.flybase.org/wiki/FlyBase:FAQ FlyBase '''FAQs''' (Frequently Asked Questions)]
+All of FlyBase's [https://wiki.flybase.org/wiki/FlyBase:About#FlyBase_Publications publications] and [https://wiki.flybase.org/wiki/FlyBase:FlyBase_Guides:_Pamphlets,_Powerpoints,_and_Posters presentations] are on our wiki, and are a great starting place for learning how to use more of FlyBase's features.
+If you have questions, please don't hesitate to [http://flybase.org/contact/email contact FlyBase directly].
+== Social media and online groups==
+[https://flyslackco.slack.com/ FlySlack]
+Twitter accounts: see our account at [https://twitter.com/FlyBaseDotOrg @FlyBaseDotOrg], and check out other accounts that it follows, like the Alliance for Genome Resources [https://twitter.com/alliancegenome @alliancegenome].
+The [https://community.alliancegenome.org/categories Alliance User Community Forums] include fly-specific discussions, as well as job posting, positions wanted, and meeting announcement forums.
+[http://www.bio.net/hypermail/dros/ Archive of the bionet.drosophila discussion group]: for a historical perspective of 26 years of Drosophila discussion online.
 [[Category:DONE]]