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DnaK as Antibiotic Target: Hot Spot Residues Analysis for Differential Inhibition of the Bacterial Protein in Comparison with the Human HSP70.

Chiappori F, Fumian M, Milanesi L, Merelli I.

PLoS One. 2015 Apr 23;10(4):e0124563. doi: 10.1371/journal.pone.0124563. eCollection 2015.


Integrating multi-omic features exploiting Chromosome Conformation Capture data.

Merelli I, Tordini F, Drocco M, Aldinucci M, Liò P, Milanesi L.

Front Genet. 2015 Feb 11;6:40. doi: 10.3389/fgene.2015.00040. eCollection 2015.


High-performance computing and big data in omics-based medicine.

Merelli I, Pérez-Sánchez H, Gesing S, D'Agostino D.

Biomed Res Int. 2014;2014:825649. doi: 10.1155/2014/825649. Epub 2014 Dec 22. No abstract available.


Managing, analysing, and integrating big data in medical bioinformatics: open problems and future perspectives.

Merelli I, Pérez-Sánchez H, Gesing S, D'Agostino D.

Biomed Res Int. 2014;2014:134023. doi: 10.1155/2014/134023. Epub 2014 Sep 1. Review.


Parallel solutions for voxel-based simulations of reaction-diffusion systems.

D'Agostino D, Pasquale G, Clematis A, Maj C, Mosca E, Milanesi L, Merelli I.

Biomed Res Int. 2014;2014:980501. doi: 10.1155/2014/980501. Epub 2014 Jun 12.


Cloud infrastructures for in silico drug discovery: economic and practical aspects.

D'Agostino D, Clematis A, Quarati A, Cesini D, Chiappori F, Milanesi L, Merelli I.

Biomed Res Int. 2013;2013:138012. doi: 10.1155/2013/138012. Epub 2013 Sep 10.


NuChart: an R package to study gene spatial neighbourhoods with multi-omics annotations.

Merelli I, Liò P, Milanesi L.

PLoS One. 2013 Sep 19;8(9):e75146. doi: 10.1371/journal.pone.0075146. eCollection 2013.


Static and dynamic interactions between GALK enzyme and known inhibitors: guidelines to design new drugs for galactosemic patients.

Chiappori F, Merelli I, Milanesi L, Marabotti A.

Eur J Med Chem. 2013 May;63:423-34. doi: 10.1016/j.ejmech.2013.02.021. Epub 2013 Feb 27.


Sensitivity analysis for studying the relation between biochemical reactions and metabolic phenotypes.

Maj C, Mosca E, Merelli I, Mauri G, Milanesi L.

J Bioinform Comput Biol. 2013 Feb;11(1):1340002. doi: 10.1142/S0219720013400027. Epub 2013 Jan 28.


SNPranker 2.0: a gene-centric data mining tool for diseases associated SNP prioritization in GWAS.

Merelli I, Calabria A, Cozzi P, Viti F, Mosca E, Milanesi L.

BMC Bioinformatics. 2013;14 Suppl 1:S9. doi: 10.1186/1471-2105-14-S1-S9. Epub 2013 Jan 14.


Molecular mechanism of allosteric communication in Hsp70 revealed by molecular dynamics simulations.

Chiappori F, Merelli I, Colombo G, Milanesi L, Morra G.

PLoS Comput Biol. 2012;8(12):e1002844. doi: 10.1371/journal.pcbi.1002844. Epub 2012 Dec 27.


IBDsite: a Galaxy-interacting, integrative database for supporting inflammatory bowel disease high throughput data analysis.

Merelli I, Viti F, Milanesi L.

BMC Bioinformatics. 2012;13 Suppl 14:S5. doi: 10.1186/1471-2105-13-S14-S5. Epub 2012 Sep 7.


Structural thermal adaptation of β-tubulins from the Antarctic psychrophilic protozoan Euplotes focardii.

Chiappori F, Pucciarelli S, Merelli I, Ballarini P, Miceli C, Milanesi L.

Proteins. 2012 Apr;80(4):1154-66. doi: 10.1002/prot.24016. Epub 2012 Jan 24.


myMIR: a genome-wide microRNA targets identification and annotation tool.

Corrada D, Viti F, Merelli I, Battaglia C, Milanesi L.

Brief Bioinform. 2011 Nov;12(6):588-600. doi: 10.1093/bib/bbr062. Epub 2011 Oct 22.


Image-based surface matching algorithm oriented to structural biology.

Merelli I, Cozzi P, D'Agostino D, Clematis A, Milanesi L.

IEEE/ACM Trans Comput Biol Bioinform. 2011 Jul-Aug;8(4):1004-16. doi: 10.1109/TCBB.2010.21.


Semi-automatic identification of punching areas for tissue microarray building: the tubular breast cancer pilot study.

Viti F, Merelli I, Timmermans M, den Bakker M, Beltrame F, Riegman P, Milanesi L.

BMC Bioinformatics. 2010 Nov 18;11:566. doi: 10.1186/1471-2105-11-566.


Exploring the role of the phospholipid ligand in endothelial protein C receptor: a molecular dynamics study.

Chiappori F, Merelli I, Milanesi L, Rovida E.

Proteins. 2010 Sep;78(12):2679-90. doi: 10.1002/prot.22782.


A multilevel data integration resource for breast cancer study.

Mosca E, Alfieri R, Merelli I, Viti F, Calabria A, Milanesi L.

BMC Syst Biol. 2010 Jun 3;4:76. doi: 10.1186/1752-0509-4-76.


RSSsite: a reference database and prediction tool for the identification of cryptic Recombination Signal Sequences in human and murine genomes.

Merelli I, Guffanti A, Fabbri M, Cocito A, Furia L, Grazini U, Bonnal RJ, Milanesi L, McBlane F.

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W262-7. doi: 10.1093/nar/gkq391. Epub 2010 May 16.


SNPRanker: a tool for identification and scoring of SNPs associated to target genes.

Calabria A, Mosca E, Viti F, Merelli I, Milanesi L.

J Integr Bioinform. 2010 Mar 25;7(3). doi: 10.2390/biecoll-jib-2010-138.

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