@misc{10481/59005,
year = {2018},
month = {10},
url = {http://hdl.handle.net/10481/59005},
abstract = {MiRNAs are important regulators of gene expression
and are frequently deregulated under pathologic conditions.
They are highly stable in bodily fluids which
makes them feasible candidates to become minimally
invasive biomarkers. In fact, several studies
already proposed circulating miRNA-based biomarkers
for different types of neoplastic, cardiovascular
and degenerative diseases. However, many of these
studies rely on small RNA sequencing experiments
that are based on different RNA extraction and processing
protocols, rendering results incomparable.
We generated liqDB, a database for liquid biopsy
small RNA sequencing profiles that provides users
with meaningful information to guide their small RNA
liquid biopsy research and to overcome technical and
conceptual problems. By means of a user-friendly
web interface, miRNA expression profiles from 1607
manually annotated samples can be queried and explored
at different levels. Result pages include downloadable
expression matrices, differential expression
analysis, most stably expressed miRNAs, cluster
analysis and relevant visualizations by means of boxplots
and heatmaps. We anticipate that liqDB will be
a useful tool in liquid biopsy research as it provides
a consistently annotated large compilation of experiments
together with tools for reproducible analysis,
comparison and hypothesis generation.},
organization = {European Union’s Horizon 2020 research and innovation
programme under the Marie Skłodowska-Curie [grant
agreement ELBA, 765492 to M.H. and D.K.L.]; Spanish
Government [AGL2017-88702-C2-2-R to M.H.]; Instituto
de Salud Carlos III, FEDER funds [PIE16/00045 to
J.A.M.]; Chair ‘Doctors Galera-Requena in cancer stem
cell research’ (to J.A.M.); Ministry of Education of Spain
[FPU13/05662 to R.L. and IFI16/00041 to E.A.]. Funding
for open access charge: Instituto de Salud Carlos III
(FEDER funds) [PIE16/00045].},
publisher = {Oxford University Press},
title = {liqDB: a small-RNAseq knowledge discovery database for liquid biopsy studies},
doi = {10.1093/nar/gky981},
author = {Aparicio Puerta, Ernesto and Jáspez, David and Lebrón Aguilar, Ricardo and Koppers-Lalic, Danijela and Marchal Corrales, Juan Antonio and Hackenberg, Michael},
}