Handling Editor: James Briscoe
ABSTRACT
The FaceBase Consortium was established by the National Institute of Dental and Craniofacial Research in 2009 as a ‘big data’ resource for the craniofacial research community. Over the past decade, researchers have deposited hundreds of annotated and curated datasets on both normal and disordered craniofacial development in FaceBase, all freely available to the research community on the FaceBase Hub website. The Hub has developed numerous visualization and analysis tools designed to promote integration of multidisciplinary data while remaining dedicated to the FAIR principles of data management (findability, accessibility, interoperability and reusability) and providing a faceted search infrastructure for locating desired data efficiently. Summaries of the datasets generated by the FaceBase projects from 2014 to 2019 are provided here. FaceBase 3 now welcomes contributions of data on craniofacial and dental development in humans, model organisms and cell lines. Collectively, the FaceBase Consortium, along with other NIH-supported data resources, provide a continuously growing, dynamic and current resource for the scientific community while improving data reproducibility and fulfilling data sharing requirements.
Footnotes
Competing interests
The authors declare no competing or financial interests.
Author contributions
Conceptualization: C.K., Y.C.; Methodology: C.K., R.S.; Software: A.B., M.L.M., R.S., A.V., C.W.; Validation: A.V., T.J.W.; Formal analysis: R.A., J.F.B., E.F., S.F., A.S.G.-R., B.H., K.H., M.P.H., T.H., G.H., J.E.H., E.W.J., K.L.J., O.D.K., E.J.L., H. Li, E.C.L., H. Long, N.L., R.L.M., M.L.M., J.M., S.P., L.S., R.A.S., T.S., H.v.B., A.V., I.W., T.J.W., J.W., Y.Y.; Investigation: R.A., J.F.B., E.F., S.F., A.S.G.-R., B.H., K.H., M.P.H., T.H., G.H., J.E.H., E.W.J., K.L.J., O.D.K., E.J.L., H. Li, E.C.L., H. Long, N.L., R.L.M., M.L.M., J.M., S.P., L.S., R.A.S., T.S., H.v.B., A.V., I.W., T.J.W., J.W., Y.Y.; Data curation: B.D.S., A.B., J.G.H., B.H., T.H., M.L.M., R.S., T.S., A.V., C.W., Y.C.; Writing - original draft: B.D.S., R.A., J.F.B., E.F., S.F., A.S.G.-R., B.H., K.H., M.P.H., T.H., G.H., J.E.H., E.W.J., K.L.J., C.K., O.D.K., E.J.L., H. Li, E.C.L., H. Long, N.L., R.L.M., M.L.M., J.M., S.P., R.S., L.S., R.A.S., T.S., H.v.B, A.V., I.W., C.W., T.J.W., J.W., Y.Y., Y.C.; Writing - review & editing: B.D.S., J.F.B., S.F., J.G.H., B.H., M.P.H., T.H., G.H., J.E.H., E.W.J., K.L.J., C.K., O.D.K., E.C.L., R.L.M., M.L.M., R.S., L.S., R.A.S., H.v.B., A.V., C.W., T.J.W., J.W., Y.C.; Visualization: B.D.S., R.S., C.W.; Supervision: E.F., B.H., M.P.H., G.H., J.E.H., E.W.J., K.L.J., R.L.M., L.S., R.A.S., H.v.B., A.V., T.J.W., J.W., Y.C.; Project administration: B.D.S., S.F., C.K., C.W., Y.C.; Funding acquisition: J.F.B., S.F., B.H., M.P.H., G.H., J.E.H., E.W.J., K.L.J., C.K., O.D.K., E.C.L., R.L.M., M.L.M., L.S., R.A.S., H.v.B., A.V., T.J.W., J.W., Y.C.
Funding
The FaceBase 3 Hub is supported by the National Institute of Dental and Craniofacial Research (U01-DE028729 to C.K. and Y.C.). The FaceBase 2 Consortium projects were supported by the following awards from the National Institute of Dental and Craniofacial Research: U01-DE024449 (C.K.), U01-DE024434 (S.F. and M.P.H.), U01-DE024440 (R.S. and O.D.K.), U01-DE024430 (J.W. and L.S.), U01-DE024427 (A.V.), U01-DE024425 (M.L.M.), U01-DE024421 (Y.C.), U01-DE024417 (J.F.B.), U01-DE024443 (R.M.), U01-DE024429 (T.J.W., J.G.H. and K.L.J.) and U01-DE024448 (E.W.J., G.H. and H.v.B.). Research conducted at the E.O. Lawrence Berkeley National Laboratory was performed under Department of Energy Contract DE-AC02-05CH11231, University of California. Deposited in PMC for release after 12 months.
Data availability
The datasets referenced in this article are available through the FaceBase Hub (facebase.org)
Supplementary information
Supplementary information available online at https://dev.biologists.org/lookup/doi/10.1242/dev.191213.supplemental
- Received April 2, 2020.
- Accepted August 13, 2020.
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Article navigation
- Top
- Article
- ABSTRACT
- Introduction
- FaceBase 2 spoke projects
- Anatomical atlas and transgenic tools for late skull formation in the zebrafish (https://doi.org/10.25550/1WW2)
- Transcriptome atlases of the craniofacial sutures (https://doi.org/10.25550/1WW8)
- Genomic and transgenic resources for craniofacial enhancer studies (https://doi.org/10.25550/1WW4)
- Integrated research of functional genomics and craniofacial morphogenesis (https://doi.org/10.25550/1WWE)
- RNA dynamics in the developing mouse face (https://doi.org/10.25550/1WW6)
- Epigenetic landscapes and regulatory divergence of human craniofacial traits (https://doi.org/10.25550/1WWG)
- Rapid identification and validation of human craniofacial development genes (https://doi.org/10.25550/1WWA)
- Developing 3D craniofacial morphometry data and tools to transform dysmorphology (https://doi.org/10.25550/1WWC)
- Ontology of craniofacial development and malformation (OCDM) (https://doi.org/10.25550/1WX2)
- Human genomics analysis interface (https://doi.org/10.25550/1WX0)
- The FaceBase Hub: a FAIR data resource for complex, diverse, evolving research data to advance craniofacial research
- Technical overview
- Technical innovations
- The future of FaceBase
- Acknowledgements
- Footnotes
- Peer review history
- References
- Figures & tables
- Supp info
- Info & metrics
- PDF + SI
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