Elisa Durán

Universidad de Sevilla

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Rachel Satterfield

Max Planck Florida Institute for Neuroscience

MÁ

María Ángeles Montes

Universidad Pablo de Olavide

Josep M. Mercader

Broad Institute

David Torrents

Barcelona Supercomputing Center

Roderic Guigó

Pompeu Fabra University

Santiago González

European Bioinformatics Institute

Montserrat Soler‐López

European Synchrotron Radiation Facility

Modesto Orozco

Institute for Research in Biomedicine

Oscar Flores

Bronx Community College

Sarah Djebali

Digestive Health Research Institute

Cooperative Institutions

Universitat Politècnica de Catalunya

Barcelona Supercomputing Center

Pompeu Fabra University

Institute for Research in Biomedicine

Universitat de Barcelona

Universidad de Sevilla

Centre for Genomic Regulation

Max Planck Florida Institute for Neuroscience

Broad Institute

Institució Catalana de Recerca i Estudis Avançats

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Synaptotagmin-7 controls the size of the reserve and resting pools of synaptic vesicles in hippocampal neurons

Cell Calcium (2018)

Elisa Durán María Ángeles Montes Imane Jemal Rachel Satterfield Samuel Young

Synaptotagmin 1

Synaptotagmin I

10.1016/j.ceca.2018.06.004

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Unravelling the hidden DNA structural/physical code provides novel insights on promoter location

Nucleic Acids Research (2013)

Elisa Durán Sarah Djebali Santiago González Oscar Flores Josep M. Mercader

Although protein recognition of DNA motifs in promoter regions has been traditionally considered as a critical regulatory element in transcription, the location of promoters, and in particular transcription start sites (TSSs), still remains a challenge. Here we perform a comprehensive analysis of putative core promoter sequences relative to non-annotated predicted TSSs along the human genome, which were defined by distinct DNA physical properties implemented in our ProStar computational algorithm. A representative sampling of predicted regions was subjected to extensive experimental validation and analyses. Interestingly, the vast majority proved to be transcriptionally active despite the lack of specific sequence motifs, indicating that physical signaling is indeed able to detect promoter activity beyond conventional TSS prediction methods. Furthermore, highly active regions displayed typical chromatin features associated to promoters of housekeeping genes. Our results enable to redefine the promoter signatures and analyze the diversity, evolutionary conservation and dynamic regulation of human core promoters at large-scale. Moreover, the present study strongly supports the hypothesis of an ancient regulatory mechanism encoded by the intrinsic physical properties of the DNA that may contribute to the complexity of transcription regulation in the human genome.

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DNA binding site

Sequence motif

10.1093/nar/gkt511

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Citations (13)