In press and preprints

Probing transcription factor combinatorics in different promoter classes and in enhancers

Vandel J., Cassan O., Lebre S., Lecellier C.-H., Bréhélin L.
BMC Genomics, to appear.
URL: https://www.biorxiv.org/content/early/2018/03/02/197418
PDF: https://www.biorxiv.org/content/biorxiv/early/2018/03/02/197418.full.pdf

Finding the most parsimonious or likely tree in a network with respect to an alignment.

Steven Kelk, Fabio Pardi, Celine Scornavacca and Leo van Iersel.
Journal of Mathematical Biology. in press
https://link.springer.com/article/10.1007/s00285-018-1282-2

Efficient Scheduling of Scientific Workflows using Hot Metadata in a Multisite Cloud

Liu J., Pineda L., Pacitti E., Costan A., Valduriez P., Antoniu G., Mattoso M. IEEE Transactions on Knowledge and Data Engineering, In press, pp.1-20. DOI: 10.1109/TKDE.2018.2867857 PDF: https://hal-lirmm.ccsd.cnrs.fr/lirmm-01867717

 

Point Pattern Search in Big Data

Porto F., Rittmeyer J., Ogasawara E., Krone-Martins A., Valduriez P., Shasha D. ACM, 30th International Conference on Scientific and Statistical Database Management (SSDBM), July 2018. URL :https://hal-lirmm.ccsd.cnrs.fr/lirmm-01819290. PDF : https://hal-lirmm.ccsd.cnrs.fr/lirmm-01819290/document.  

Agronomic Linked Data (AgroLD): a Knowledge-based System to Enable Integrative Biology in Agronomy

Aravind Venkatesan, Gildas Tagny Ngompe, Nordine El Hassouni, Imene Chentli, Valentin Guignon, Clement Jonquet, Manuel Ruiz, Pierre Larmande. ( BioArXiv, submitted to PlosOne) doi: https://doi.org/10.1101/325423

In situ visualization and data analysis for turbidity currents simulation

Camata J., Silva V., Valduriez P., Mattoso M., Coutinho, A. Computers & Geosciences, Elsevier, 110, pp.23-31, 2018. URL : https://doi.org/10.1016/j.cageo.2017.09.013 . PDF : https://hal-lirmm.ccsd.cnrs.fr/lirmm-01620127/document

Data reduction in scientific workflows using provenance monitoring and user steering.

A Survey of Scheduling Frameworks in Big Data Systems.

Liu J., Pacitti E., Valduriez P. International Journal of Cloud Computing, Inderscience Publishers, To appear, pp.1-27, 2018. URL : https://hal-lirmm.ccsd.cnrs.fr/lirmm-01692229. PDF : https://hal-lirmm.ccsd.cnrs.fr/lirmm-01692229/document

The Compressed Overlap Index