The BLUEPRINT Data Analysis Portal
Open accessAbstract
The impact of large and complex epigenomic datasets on biological insights or clinical applications is limited by the lack of accessibility by easy, intuitive, and fast tools. Here, we describe an epigenomics comparative cyber-infrastructure (EPICO), an open-access reference set of libraries to develop comparative epigenomic data portals. Using EPICO, large epigenome projects can make available their rich datasets to the community without requiring specific technical skills. As a first instance of EPICO, we implemented the BLUEPRINT Data Analysis Portal (BDAP). BDAP provides a desktop for the comparative analysis of epigenomes of hematopoietic cell types based on results, such as the position of epigenetic features, from basic analysis pipelines. The BDAP interface facilitates interactive exploration of genomic regions, genes, and pathways in the context of differentiation of hematopoietic lineages. This work represents initial steps toward broadly accessible integrative analysis of epigenomic data across international consortia. EPICO can be accessed at https://github.com/inab, and BDAP can be accessed at http://blueprint-data.bsc.es.
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Large-scale annotation projects such as the Roadmap Epigenomics Project, the Blueprint Project, and PsychENCODE aim to generate, and make publicly available, high-quality reference annotation maps across a wide variety of human cell and tissue types.
“This search has been facilitated by large-scale annotation projects such as the Roadmap Epigenomics Project [180], the Blueprint Project [181], and PsychENCODE [182]. These projects aim to generate, and make publicly available, high-quality reference annotation maps across a wide variety of human cell and tissue types.”
From Genetic architecture of Alzheimer's disease (2020) · cites this paper as [181]
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MiR-146b-5p regulates IL-23 receptor complex expression in chronic lymphocytic leukemia cells
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Rare t(X;14)(q28;q32) translocation reveals link between MTCP1 and chronic lymphocytic leukemia
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In Silico Cell-Type Deconvolution Methods in Cancer Immunotherapy
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Tissue informative cell-free DNA methylation sites in amyotrophic lateral sclerosisPreprint
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- Authors
- Fernández, J. M., de la Torre, V., Richardson, D., Royo, R., Puiggròs, M., Moncunill, V., Fragkogianni, S., Clarke, L., Flicek, P., Rico, D., Torrents, D., Carrillo de Santa Pau, E., & Valencia, A.
- Affiliations
- Instituto de Salud Carlos III (ES)
- European Bioinformatics Institute (GB)
- Barcelona Supercomputing Center (ES)
- Spanish National Cancer Research Centre (ES)
- Institució Catalana de Recerca i Estudis Avançats (ES)
- Corresponding author
- Valencia, Alfonso
- ORCID
- Venue
- Cell Systems
- Publisher
- Elsevier BV
- Published
- 2016-11
- Volume
- 3
- Issue
- 5
- Pages
- 491-495.e5
- ISSN
- 2405-4712 (ISSN-L)
- PMC
- PMC5919098
- OpenAlex
- W2549343567
- Cited by
- 151
- References
- 22
- Citations by year
- 2026: 6 · 2025: 10 · 2024: 16 · 2023: 21 · 2022: 23 · 2021: 20 · 2020: 19 · 2019: 14 · 2018: 14 · 2017: 7 · 2016: 1
- FWCI
- 6.41
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Licence
- Locations
- Cell Systems (publishedVersion)
- PubMed (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- Newcastle University ePrints (Newcastle Univesity) (cc-by)
- Funders
- ISCIII (PT13/0001)
- FEDER
- Spanish Ministry of Health, ISCIII (PRB2: PT13/0001/0028)
- European Union’s Seventh Framework Programme (FP7/2007-2013)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Epigenetics and DNA Methylation
- Social Sciences › Decision Sciences › Information Systems and Management › Scientific Computing and Data Management
- Keywords
- epigenomics, hematopoietic differentiation, epigenetic features
- MeSH terms
- Cell Differentiation, Software, User-Computer Interface, Genome, Internet, Epigenesis, Genetic, Epigenomics
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Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
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