The FANTOM5 Project
FANTOM (Functional ANnoTation Of the Mammalian genome) is an international research consortium led by RIKEN focused on functional annotation of mammalian genomes and characterization of transcriptional regulatory networks. In FANTOM5 the consortium, consisting of over 500 international members from 20 countries, has generated maps of human regulatory elements and transcriptional regulatory network models. To achieve this they use CAGE (Cap Analysis of Gene Expression) sequencing on RNA samples from every major human organ, multiple primary cell types, over 200 cancer cell lines, 30 time courses of cellular differentiation, and mouse developmental time courses.
This collection brings together research articles, analyses, resource papers and letters from FANTOM5, as well as descriptions of the data generated by the project, all of which have been published by Nature Research.
FANTOM5 organizers published a Comment announcing the launch of this collection and have been interviewed on their contributions to FANTOM5.
"We support FANTOM’s continued dedication to establishing open access genomic resources to functionally annotate mammalian genomes and explore transcriptional regulatory networks. FANTOM began these efforts in 2000, with annotation of mouse full-length cDNAs, which was used also in the coordinated publication of the Human Genome Project. With FANTOM5 the consortium has generated maps of regulatory elements and transcriptional regulatory network models across every major human organ, primary cell types, cancer cell lines, and mouse developmental time courses. These valuable datasets are widely used across biological science research and further our understanding of our genomes. This follows on a tradition started with the Human Genome Project in providing open access to genomic resources. With this collection, we further develop our model for how we at Nature Research work together with consortia to present both their research publications and their datasets. We appreciate FANTOM5 and Scientific Data’s efforts in publishing the accompanying Data Descriptors, which we hope will facilitate the broader use of these datasets across research communities." Orli Bahcall, Senior Editor for Genetics & Genomics, Nature
The FANTOM consortium
FANTOM (Functional ANnoTation Of the Mammalian genome) is a worldwide collaborative project aiming at identifying all functional elements in mammalian genomes. There have been several iterations of the project since the first FANTOM publication in Nature in 2001. The latest iteration, FANTOM5, aims to create a comprehensive map of regulatory elements in the human genome across different cellular states and comparative transcriptional regulatory models.
Scientific Data
Scientific Data is a peer-reviewed, open access Nature Research journal for descriptions of scientifically valuable datasets. Scientific Data primarily publishes Data Descriptors, a novel publication format that focuses on helping others to reuse data, and crediting those who share. To raise awareness of data reuse and management, the journal also publishes articles on innovative examples of data reuse and systems or technologies that advance data sharing.
Contact scientificdata@nature.com if you would like to learn more about sharing your research data.
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