Document Type
Article
Publication Date
5-25-2022
Publication Title
Sci Data
Keywords
JMG, Animals, Brain, Databases, Factual, Mice, X-Ray Microtomography
JAX Source
Sci Data 2022 May 25; 9(1):230
Volume
9
Issue
1
First Page
230
Last Page
230
ISSN
2052-4463
PMID
35614082
DOI
https://doi.org/10.1038/s41597-022-01338-x
Abstract
Complex morphological traits are the product of many genes with transient or lasting developmental effects that interact in 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 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 scripts are available on FaceBase ( www.facebase.org , https://doi.org/10.25550/3-HXMC ) and GitHub ( https://github.com/jaydevine/MusMorph ).
Recommended Citation
Devine J,
Vidal-García M,
Liu W,
Neves A,
Lo Vercio L,
Green R,
Richbourg H,
Marchini M,
Unger C,
Nickle A,
Radford B,
Young N,
Gonzalez P,
Schuler R,
Bugacov A,
Rolian C,
Percival C,
Williams T,
Niswander L,
Calof A,
Lander A,
Visel A,
Jirik F,
Cheverud J,
Klein O,
Birnbaum R,
Merrill A,
Ackermann R,
Graf D,
Hemberger M,
Dean W,
Forkert N,
Murray SA,
Westerberg H,
Marcucio R,
Hallgrímsson B.
MusMorph, a database of standardized mouse morphology data for morphometric meta-analyses. Sci Data 2022 May 25; 9(1):230
Comments
This article is licensed under a Creative Commons Attribution 4.0 International License.