DualSeqDB : the host-pathogen dual RNA sequencing database for infection processes
Macho Rendón, Javier (Universitat Autònoma de Barcelona. Departament de Bioquímica i de Biologia Molecular)
Lang, Benjamin (Centre de Regulació Genòmica.)
Ramos Llorens, Marc (Universitat Autònoma de Barcelona. Departament de Bioquímica i de Biologia Molecular)
Tartaglia, Gian Gaetano (Centre de Regulació Genòmica.)
Torrent Burgas, Marc (Universitat Autònoma de Barcelona. Departament de Bioquímica i de Biologia Molecular)

Date:	2020
Abstract:	Despite antibiotic resistance being a matter of growing concern worldwide, the bacterial mechanisms of pathogenesis remain underexplored, restraining our ability to develop new antimicrobials. The rise of high-throughput sequencing technology has made available a massive amount of transcriptomic data that could help elucidate the mechanisms underlying bacterial infection. Here, we introduce the DualSeqDB database, a resource that helps the identification of gene transcriptional changes in both pathogenic bacteria and their natural hosts upon infection. DualSeqDB comprises nearly 300 000 entries from eight different studies, with information on bacterial and host differential gene expression under in vivo and in vitro conditions. Expression data values were calculated entirely from raw data and analyzed through a standardized pipeline to ensure consistency between different studies. It includes information on seven different strains of pathogenic bacteria and a variety of cell types and tissues in Homo sapiens, Mus musculus and Macaca fascicularis at different time points. We envisage that DualSeqDB can help the research community in the systematic characterization of genes involved in host infection and help the development and tailoring of new molecules against infectious diseases. DualSeqDB is freely available at .
Grants:	Ministerio de Economía y Competitividad SAF2015-72518-EXP Agencia Estatal de Investigación SAF2017-82158-R Agencia Estatal de Investigación BFU2017-86970-P Ministerio de Economía y Competitividad RYC-2012-09999 European Commission 309545 European Commission 727658 European Commission 793135
Rights:	Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, la comunicació pública de l'obra i la creació d'obres derivades, sempre que no sigui amb finalitats comercials, i sempre que es reconegui l'autoria de l'obra original.
Language:	Anglès
Document:	Article ; recerca ; Versió publicada
Published in:	Nucleic acids research, Vol. 49, Issue D1 (October 2020) , p. D687-D693, ISSN 1362-4962

DOI: 10.1093/nar/gkaa890
PMID: 33084904

7 p, 1.9 MB

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