|
Computational tools and resources
|
| DistMap |
https://github.com/rajewsky-lab/distmap (Karaiskos et al. 2017) |
| SCTCwhatateam |
https://github.com/thanhbuu04/SCTCwhatateam (Pham et al. 2020) |
| ASAP |
https://github.com/DeplanckeLab/ASAP (Gardeux et al. 2017) |
| FlyMine |
https://www.flymine.org/flymine/begin.do (Lyne et al. 2007) |
| BioLitMine |
https://www.flyrnai.org/tools/biolitmine/web/ (Hu et al. 2020b) |
| novoSpaRc |
https://github.com/rajewsky-lab/novosparc (Nitzan et al. 2019) |
|
Probe design for detection of RNA
|
| Oligopaints suite of resources |
https://oligopaints.hms.harvard.edu/ (Beliveau et al. 2012) |
| OligoMiner code repository |
https://github.com/beliveau-lab/OligoMiner (Beliveau et al. 2018; Passaro et al. 2020) |
| PaintSHOP design resource |
https://oligo.shinyapps.io/paintshop/ (Hershberg et al. 2020) |
| ProbeDealer design resource |
https://campuspress.yale.edu/wanglab/probedealer/ (Hu et al. 2020a) |
|
Experimental methods
|
|
In situ hybridization, alkaline phosphatase detection |
(Weiszmann et al. 2009) |
| FISH, general methods |
(Lecuyer et al. 2008, 2011; Legendre et al. 2013; Wilk et al. 2016) |
| FISH, brain whole mount |
Protocol at FigShare, https://doi.org/10.25386/genetics.7455137 (Meissner et al. 2019) |
| SABER-FISH |
(Amamoto et al. 2019; Kishi et al. 2019) |
| FP tagging using P-element or piggyBac mobilization |
(Morin et al. 2001; Kelso et al. 2004; Quinones-Coello et al. 2007) |
| FP tagging using Fosmids |
(Sarov et al. 2016) |
| FP tagging using MiMIC |
(Venken et al. 2011) |
| Scarless editing |
https://flycrispr.org/scarless-gene-editing/ (Lamb et al. 2017) |
| MiMIC combined with scarless editing |
(Li-Kroeger et al. 2018) |
| ALFA system |
(Gotzke et al. 2019) |
|
Technology-focused reviews
|
| FISH |
(Young et al. 2020) |
| Tagging in Drosophila
|
(Kanca et al. 2017) |
| Fluorescence imaging in Drosophila
|
(Dunst and Tomancak 2019) |
