Monthly Archives: August 2013

New VFB release: queries available for all neuroanatomy terms and Janelia FlyLight 3D images on stack viewer

We are pleased to announce a new release of VFB, including the ability to query the whole adult, larval and embryonic neuroanatomy,  and to layer the Janelia FlyLight 3D images on the stack viewer.

Users can now choose to query  ‘All Neuroanatomy’ or to restrict their queries to ‘Adult Brain’. Queries can now be done on , the adult thoracico-abdominal ganglion, sense organs, and motor neurons, among others. For example, searching for ventral cibarial sense organ:

searching for sense organs

 Find the term on the autocomplete and select it.

cibarial_organ

From here, further queries on expression are possible, just as previously for the adult brain.

cibarial_trangenes

We have also added the ability to layer the 3D Janelia FlyLight images on stack viewer. Users can now build composite images with any of the Janelia lines, FlyCircuit neurons, neuroblast and fruitless clones.

Janelia 3D images can be added from any expression queries, clicking on ‘See in Viewer’.  For example, a query for transgenes expressed in the ‘wedge’ lists:

wedge

Looking at GMR27B03 in the stack viewer:

janelia_stack

You can now build composite images with the Janelia lines. For any image in the stack viewer, click ‘Add to composite view’, and then go back to run more queries and add any other images you want (up to 3 at a time for each composite).

composite

You have any any feedback please let us know!

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New VFB release – extensive lineage clone data and images added; layer multiple 3D images in the stack viewer

We are excited to announce a new release of VFB, featuring a full set of adult central brain lineage clone images and mapping data from Ito et al., 2013 & Yu et al., 2003 + fruitless expressing clones from Cachero and Ostrovsky et al., 2010. The mapping data we’ve added includes mapping to brain regions and mapping of single neurons and fru expressing lineage clones to complete central brain lineage clones. We’ve also added functionality for display of multiple images on our stack browser. In combination with new functionality allowing multiple registered images. The combination of these functionalities provides opportunities for querying and exploring lineage data that are unavailable from any other resource.

To search textually for clones, simply type ‘clone’ into the text search box on the front page or :

clone search

To query by region:

clone query

clone query result

All clones from the Ito and Yu papers and most from Cachero come with linked thumbnail images.

clone thumbs

Any of these thumbnails can be added to the stack browser:

AOTUv4 clone on stack

You can layer up to 3 image stacks in a single browser view:

3 layers on stack

Images that can be added to the stack browser include > 16000 neurons from the FlyCircuit dataset. We plan to add downloads for many of our registered stacks in the near future.

Many thanks to Kei Ito & Tzumin Lee for providing us with data and mapping tables to make this release possible.

We hope you enjoy the new content and features. Please let us know what you think,

The VFB team.

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Filed under New Content, New Feature, Usage Examples