Table 2 Tools and resources available to study AUD in the fly

Drosophila network resources

https://wiki.flybase.org/wiki/FlyBase:Drosophila_Network_Resources

Flybase

http://flybase.org/

[178]

Bloomington Stock center

https://bdsc.indiana.edu/index.html

Alliance of genome resources

https://www.alliancegenome.org/

Wildtype populations of flies

 Drosophila genetic reference panel (DGRP)

http://dgrp2.gnets.ncsu.edu/

[77]

 Drosophila synthetic population resource (DSRP)

http://wfitch.bio.uci.edu/~dspr/index.html

[75]

 Global diversity lines

http://www.johnpool.net/genomes.html

[76]

Genetic tools for cell-type specific next-generation sequencing

 INTACT

Nuclear purification

[117]

 TRAP

Translating Ribosomal Affinity Purification

[114, 115]

 TU or EC tagging

Labels RNA following feeding of 4-thiouracil or 5-ethynylcytosine

[179, 180]

 CAST-ChIP

[118]

 DamID

Methylation-based chromatin profiling

[181]

Relevant collections of fly strains for behavioral validation

 Vienna RNAi lines

[182]

 Transgenic RNAi project

[183]

 FlyLight

https://www.janelia.org/project-team/flylight

[184]

 Gene disruption project

MiMIC and CRIMIC lines

http://flypush.imgen.bcm.tmc.edu/pscreen/about.html

[86]

Relevant drosophila transcriptional data sets

 Updated mapping of Drosophila sequence read archive

GEO Series GSE117217

 Single-cell whole brain

GEO Series GSE107451

 Kenyon cells

GEO Series GSE115718

 Kenyon cells

GEO Series GSE119629

 Kenyon cells and subset of MBONs

GEO Series GSE74989

 Mating behavior

GEO Series GSE104706

 Antennal lobe

GEO Series GSE99545

 CREB RNA binding

GEO Series GSE59611

GEO Series GSE73386

 Ethanol exposure RNA expression

GEO Series GSE77792

GEO Series GSE89137

GEO Series GSE48449

Gene network analysis sites

 modENCODE

http://www.modencode.org/

[185]

 SCENIC

http://scenic.aertslab.org

[186]

 AmiGO 2

http://amigo.geneontology.org/amigo/

[187, 188]

 DAVID bioinformatics database

https://david.ncifcrf.gov/

[189, 190]

 MEME-ChiP

http://meme-suite.org/index.html

[191]

 Weighted gene co-expression network

https://horvath.genetics.ucla.edu/html/CoexpressionNetwork/

[119, 192]

 Reactome

https://reactome.org/

[193]

 Cytoscape

https://cytoscape.org/

[194]

 Geneweaver 2

https://beta.geneweaver.org/

[195]