2026-06-14T05:06:42Zhttps://repisalud.isciii.es/rest/oai/requestoai:repisalud.isciii.es:20.500.12105/50612024-11-29T14:52:46Zcom_20.500.12105_2173com_20.500.12105_2051col_20.500.12105_19597
Repisalud
author
Carrillo de SantaPau, Enrique
author
Juan, David
author
Pancaldi, Vera
author
Were, Felipe
author
Martin-Subero, Ignacio
author
Rico, Daniel
author
Valencia, Alfonso
funder
Unión Europea. Fondo Europeo de Desarrollo Regional (FEDER/ERDF)
funder
Unión Europea. Comisión Europea. European Research Council (ERC)
funder
Ministerio de Economía y Competitividad (España)
2017-10-18T11:28:05Z
2017-10-18T11:28:05Z
2017-09-19
Nucleic Acids Res.2017;45 (16): 9244-9259.
10.1093/nar/gkx618
1362-4962
0305-1048
Nucleic acids research
28934481
http://hdl.handle.net/20.500.12105/5061
Hematopoiesis is one of the best characterized biological systems but the connection between chromatin changes and lineage differentiation is not yet well understood. We have developed a bioinformatic workflow to generate a chromatin space that allows to classify 42 human healthy blood epigenomes from the BLUEPRINT, NIH ROADMAP and ENCODE consortia by their cell type. This approach let us to distinguish different cells types based on their epigenomic profiles, thus recapitulating important aspects of human hematopoiesis. The analysis of the orthogonal dimension of the chromatin space identify 32,662 chromatin determinant regions (CDRs), genomic regions with different epigenetic characteristics between the cell types. Functional analysis revealed that these regions are linked with cell identities. The inclusion of leukemia epigenomes in the healthy hematological chromatin sample space gives us insights on the healthy cell types that are more epigenetically similar to the disease samples. Further analysis of tumoral epigenetic alterations in hematopoietic CDRs points to sets of genes that are tightly regulated in leukemic transformations and commonly mutated in other tumors. Our method provides an analytical approach to study the relationship between epigenomic changes and cell lineage differentiation. Method availability: https://github.com/david-juan/ChromDet.
eng
CHROMATIN STATE DYNAMICS
HUMAN CELL-TYPES
STEM-CELLS
LINEAGE COMMITMENT
BONE-MARROW
B-CELLS
REGULATES DIFFERENTIATION
MACROPHAGE ACTIVATION
HISTONE MODIFICATIONS
MYELOID PROGENITORS
Automatic identification of informative regions with epigenomic changes associated to hematopoiesis
journal article
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https://repisalud.isciii.es/bitstreams/2de36b69-e330-4953-bf9b-1f61955c46ef/download
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automaticidentificationof.pdf.txt