From f955b6fe051a53dbba2e19f32c9edd43b5c71e91 Mon Sep 17 00:00:00 2001 From: Rob Court Date: Thu, 28 Nov 2024 11:48:52 +0000 Subject: [PATCH] Update README.md --- README.md | 59 +++++++++++++++++++++++++++++++++++++++++++++++++++++-- 1 file changed, 57 insertions(+), 2 deletions(-) diff --git a/README.md b/README.md index f22c2fb..29b2944 100644 --- a/README.md +++ b/README.md @@ -1,2 +1,57 @@ -BrainTrap -========= +# BrainTrap + +BrainTrap is a database of 3D protein expression patterns in the Drosophila brain, providing interactive visualization and exploration of confocal datasets showing reporter gene expression and protein localization. + +## Overview + +BrainTrap was developed as part of a large-scale collaborative research project to collect protein expression location information from protein-trap lines generated by the Cambridge Protein Trap (CPT) project. The database provides detailed 3D confocal datasets showing protein expression patterns throughout the adult Drosophila brain. + +## Features + +- Interactive web-based viewer for exploring 3D confocal datasets +- Full-size images throughout the brain volume can be viewed interactively +- Secondary immunohistochemical label (anti-brp) aids navigation and helps identify brain structures +- Searchable annotations linked to the FlyBase Drosophila anatomy ontology +- Anatomical search criteria can be specified using: + - Automatic term completion + - Hierarchical browser for the ontology +- Annotation provenance tracking with highlighted expression locations +- Downloadable confocal dataset files in original format +- XML format annotation data export +- Gene comparison tables for selected genes + +## Original Publication + +Knowles-Barley S, Longair M and Armstrong JD (2010). BrainTrap: a database of 3D protein expression patterns in the Drosophila brain. Database, Vol. 2010, Article ID baq005, doi:10.1093/database/baq005 (https://doi.org/10.1093/database/baq005) + +## Funding + +Original development was funded by: +- Engineering and Physical Sciences Research Council (EPSRC) +- Medical Research Council +- Biotechnology and Biological Sciences Research Council (BBSRC) +- British Society for Developmental Biology +- Society for Experimental Biology +- Virtual Fly Brain e-Science Institute (ESI) Theme + +The fly lines were generated by the Cambridge Protein Trap Project, supported by a Wellcome Trust grant to Kathryn Lilley, Steve Russell and Daniel St. Johnson. + +## Current Maintenance + +This resource is currently archived and maintained by Virtual Fly Brain (VFB). + +Current website: https://braintrap.virtualflybrain.org/ + +Source code repository: https://github.com/VirtualFlyBrain/BrainTrap + +## Original Development + +School of Informatics +The University of Edinburgh +Edinburgh, EH8 9AB, UK + +## Citation + +If you use BrainTrap in your research, please cite: + +Knowles-Barley S, Longair M and Armstrong JD (2010). BrainTrap: a database of 3D protein expression patterns in the Drosophila brain. Database, Vol. 2010, Article ID baq005, doi:10.1093/database/baq005 (https://doi.org/10.1093/database/baq005)