News & Events

Announcing the release of MusMorph (09 November 2021)

Imaging examples from the MusMorph project

FaceBase is excited to announce the release of a large database of standardized mouse morphology data spanning numerous genotypes and developmental stages. This dataset, deposited by Jay Devine and Benedikt Hallgrimsson of the University of Calgary, encompasses one of the largest collections in FaceBase to date. And because the data are standardized, this allows for accurate comparisons with other datasets for analysis.

Here is the complete description from the MusMorph project page:

Complex morphological traits are the product of many genes with transient or lasting developmental effects that interact in an anatomical context. Mouse models are a key resource for disentangling such effects, because they offer myriad tools for manipulating the genome in a controlled environment. Unfortunately, phenotypic data are often obtained using laboratory-specific protocols, resulting in self-contained datasets that are difficult to relate to one another for larger scale analyses. To enable meta-analyses of morphological variation, particularly in the craniofacial complex and brain, we created MusMorph, a database of standardized mouse morphology data spanning numerous genotypes and developmental stages, including E10.5, E11.5, E14.5, E15.5, E18.5, and adulthood. To standardize data collection, we implemented an atlas-based phenotyping pipeline that combines techniques from image registration, deep learning, and morphometrics. Alongside stage-specific atlases, we provide rigidly aligned micro-computed tomography images, dense anatomical landmarks, and segmentations (if available) for each specimen (N=10,056). Our workflow is open-source to encourage transparency and reproducible data collection. The MusMorph data and metadata are stored across datasets in this project directory. The atlas files and project-wide metadata can be found in the project-wide dataset. The MusMorph scripts can be found on GitHub.

Next FaceBase "Office Hours" On Wed, November 17th (02 November 2021)

Join us for our next Office Hours when you can ask questions: about FaceBase, about the process of contributing data to FaceBase, tips for finding particular data you are looking for, or basically any question you might have regarding the FaceBase resource.

To participate, please register via Zoom to receive the login information. You may also submit a question ahead of time when you register or anytime afterward (just send email to help@facebase.org).

CLICK HERE TO REGISTER VIA ZOOM

Wednesday, November 17th
Start: 12:00 pm Eastern / 9:00 am Pacific
End: 1:00 pm Eastern / 10:00 am Pacific

Introducing FaceBase "Office Hours" On Wed, October 27th (06 October 2021)

Starting on Wednesday, October 27th, members of FaceBase will host “Office Hours”. This is a virtual meeting time when you can join and ask questions: about FaceBase, about the process of contributing data to FaceBase, tips for finding particular data you are looking for, or basically any question you might have regarding the FaceBase resource.

To participate, please register via Zoom to receive the login information. You may also submit a question ahead of time when you register or anytime afterward (just send email to help@facebase.org).

CLICK HERE TO REGISTER VIA ZOOM

Wednesday, October 27th
Start: 12:00 pm Eastern / 9:00 am Pacific
End: 1:00 pm Eastern / 10:00 am Pacific

Agenda available for FaceBase Bootcamp on September 8th (01 September 2021)

Join us for our next training that with tracks for both users of FaceBase and those who wish to contribute data. We’ll also be covering some new features related to imaging data for both users and data submitters.

Click link below to view the complete agenda:

Agenda

Date and Times

Wednesday, September 8, 2021
12:00 pm to 4:30 pm Eastern / 9:00 am to 1:30 pm Pacific

Format

The bootcamp has two scheduled tracks - one focused for users and one for data contributors:

12:00 pm to 1:30 pm Eastern - Users track - Members of FaceBase will walk through the resources available on FaceBase, best practices for using the search interface, proper citation practices and how to export data.
2:00 pm to 4:30 pm Eastern - Data Contributors track - Learn about contributing data (including metadata and data models) and how data is curated (including updated information regarding protocols) along with a live demonstration of adding metadata and uploading data.

Zoom

Zoom details will be emailed to registrants and replay videos will be available after the event.

Details

Just click this link for details and how to register: https://www.facebase.org/training/2021-09-08/

If you have any questions, please send them to help@facebase.org.

Upcoming FaceBase Bootcamp for Users & Data Contributors on September 8th (27 July 2021)

FaceBase is hosting a new bootcamp in September which will include sessions for both users of FaceBase and those who wish to contribute data.