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COTAN: scRNA-seq data analysis based on gene co-expression.
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- NAR Genomics & Bioinformatics, 2021, v. 3, n. 3, p. 1, doi. 10.1093/nargab/lqab072
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- Article
A novel method for the identification of conserved structural patterns in RNA: From small scale to high-throughput applications.
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- Nucleic Acids Research, 2016, v. 44, n. 18, p. 8600, doi. 10.1093/nar/gkw750
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- Article
Web-Beagle: a web server for the alignment of RNA secondary structures.
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- Nucleic Acids Research, 2015, v. 43, n. W1, p. W493, doi. 10.1093/nar/gkv489
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- Article
A novel approach to represent and compare RNA secondary structures.
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- Nucleic Acids Research, 2014, v. 42, n. 10, p. 6146, doi. 10.1093/nar/gku283
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- Article
Nucleos: a web server for the identification of nucleotide-binding sites in protein structures.
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- Nucleic Acids Research, 2013, v. 41, p. W281, doi. 10.1093/nar/gkt390
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- Article
Phosfinder: a web server for the identification of phosphate-binding sites on protein structures.
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- Nucleic Acids Research, 2011, v. 39, n. suppl_2, p. W278, doi. 10.1093/nar/gkr389
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- Article
Phosphate binding sites identification in protein structures.
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- Nucleic Acids Research, 2011, v. 39, n. 4, p. 1231, doi. 10.1093/nar/gkq987
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- Article
Phospho3D 2.0: an enhanced database of three-dimensional structures of phosphorylation sites.
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- Nucleic Acids Research, 2011, v. 39, n. suppl_1, p. D268, doi. 10.1093/nar/gkq936
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- Article
Modular architecture of nucleotide-binding pockets.
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- Nucleic Acids Research, 2010, v. 38, n. 11, p. 3809, doi. 10.1093/nar/gkq090
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- Article
SH3-Hunter: discovery of SH3 domain interaction sites in proteins.
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- Nucleic Acids Research, 2007, v. 35, n. suppl_2, p. W451, doi. 10.1093/nar/gkm296
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- Article
3dLOGO: a web server for the identification, analysis and use of conserved protein substructures.
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- Nucleic Acids Research, 2007, v. 35, n. suppl_2, p. W416, doi. 10.1093/nar/gkm228
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- Article
Phospho3D: a database of three-dimensional structures of protein phosphorylation sites.
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- Nucleic Acids Research, 2007, v. 35, p. d229, doi. 10.1093/nar/gkl922
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- Article
Inhibition of exosome biogenesis affects cell motility in heterogeneous sub-populations of paediatric-type diffuse high-grade gliomas.
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- Cell & Bioscience, 2023, v. 13, n. 1, p. 1, doi. 10.1186/s13578-023-01166-5
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- Article
Epigenetic priming of an epithelial enhancer by p63 and CTCF controls expression of a skin-restricted gene XP33.
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- Cell Death Discovery, 2023, v. 9, n. 1, p. 1, doi. 10.1038/s41420-023-01716-3
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- Article
B-Pred, a structure based B-cell epitopes prediction server.
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- Advances & Applications in Bioinformatics & Chemistry, 2012, v. 5, p. 11, doi. 10.2147/AABC.S30620
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- Article
Identification of Nucleotide-Binding Sites in Protein Structures: A Novel Approach Based on Nucleotide Modularity.
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- PLoS ONE, 2012, v. 7, n. 11, p. 1, doi. 10.1371/journal.pone.0050240
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- Article
Superpose3D: A Local Structural Comparison Program That Allows for User-Defined Structure Representations.
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- PLoS ONE, 2010, v. 5, n. 8, p. 1, doi. 10.1371/journal.pone.0011988
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- Article
Identification of Leishmania-specific protein phosphorylation sites by LC-ESI-MS/MS and comparative genomics analyses.
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- Proteomics, 2010, v. 10, n. 21, p. 3868, doi. 10.1002/pmic.201000305
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- Article
Exploiting holistic approaches to model specificity in protein phosphorylation.
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- Frontiers in Genetics, 2014, v. 5, p. 1, doi. 10.3389/fgene.2014.00315
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- Article
Computational methods for analysis and inference of kinase/inhibitor relationships.
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- Frontiers in Genetics, 2014, v. 5, p. 1, doi. 10.3389/fgene.2014.00196
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- Article
DBATE: database of alternative transcripts expression.
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- Database: The Journal of Biological Databases & Curation, 2013, v. 2013, p. 1, doi. 10.1093/database/bat050
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Preface: BITS2014, the annual meeting of the Italian Society of Bioinformatics.
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- BMC Bioinformatics, 2015, v. 16, p. 1, doi. 10.1186/1471-2105-16-S9-S1
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Bioinformatics in Italy: BITS2012, the ninth annual meeting of the Italian Society of Bioinformatics.
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- BMC Bioinformatics, 2013, v. 14, n. Suppl 7, p. 1, doi. 10.1186/1471-2105-14-S7-S1
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- Article
Modeling gene regulatory network motifs using statecharts.
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- BMC Bioinformatics, 2012, v. 13, n. Suppl 4, p. 1, doi. 10.1186/1471-2105-13-S4-S20
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- Article
Identification of binding pockets in protein structures using a knowledge-based potential derived from local structural similarities.
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- BMC Bioinformatics, 2012, v. 13, n. Suppl 4, p. 1, doi. 10.1186/1471-2105-13-S4-S17
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- Article
Bioinformatics in Italy: BITS2011, the Eighth Annual Meeting of the Italian Society of Bioinformatics.
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- BMC Bioinformatics, 2012, v. 13, n. Suppl 4, p. 1, doi. 10.1186/1471-2105-13-S4-I1
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- Article
FunClust: a web server for the identification of structural motifs in a set of non-homologous protein structures.
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- BMC Bioinformatics, 2008, v. 9, p. 1, doi. 10.1186/1471-2105-9-S2-S2
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- Article
Bioinformatics in Italy: BITS2007, the fourth annual meeting of the Italian Society of Bioinformatics.
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- BMC Bioinformatics, 2008, v. 9, p. 1, doi. 10.1186/1471-2105-9-S2-S1
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- Article
Bioinformatics in Italy: BITS2006, the third annual meeting of the Italian Society of Bioinformatics.
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- BMC Bioinformatics, 2007, v. 8, p. S1, doi. 10.1186/1471-2105-8-S1-S1
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- Article
Local comparison of protein structures highlights cases of convergent evolution in analogous functional sites.
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- BMC Bioinformatics, 2007, v. 8, p. S24, doi. 10.1186/1471-2105-8-S1-S24
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- Article
Query3d: a new method for high-throughput analysis of functional residues in protein structures.
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- BMC Bioinformatics, 2005, v. 6, p. S5, doi. 10.1186/1471-2105-6-S4-S5
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- Article
A neural strategy for the inference of SH3 domain-peptide interaction specificity.
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- BMC Bioinformatics, 2005, v. 6, p. S13, doi. 10.1186/1471-2105-6-S4-S13
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Overview of BITS2005, the Second Annual Meeting of the Italian Bioinformatics Society.
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- BMC Bioinformatics, 2005, v. 6, p. S1, doi. 10.1186/1471-2105-6-S4-S1
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- Article
Functional annotation by identification of local surface similarities: a novel tool for structural genomics.
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- BMC Bioinformatics, 2005, v. 6, p. 194, doi. 10.1186/1471-2105-6-194
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- Article
A structural study for the optimisation of functional motifs encoded in protein sequences.
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- BMC Bioinformatics, 2004, v. 5, p. 50, doi. 10.1186/1471-2105-5-50
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- Article
NRF2 connects Src tyrosine kinase to ferroptosis resistance in glioblastoma.
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- Life Science Alliance, 2024, v. 7, n. 1, p. 1, doi. 10.26508/lsa.202302205
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- Article
Conserved exchange of paralog proteins during neuronal differentiation.
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- Life Science Alliance, 2022, v. 5, n. 6, p. 1, doi. 10.26508/lsa.202201397
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- Article
Unveiling the signaling network of FLT3-ITD AML improves drug sensitivity prediction.
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- eLife, 2024, p. 1, doi. 10.7554/eLife.90532
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- Article
Modeling cancer drug response through drug-specific informative genes.
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- Scientific Reports, 2019, v. 9, n. 1, p. N.PAG, doi. 10.1038/s41598-019-50720-0
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- Article
Corrigendum: AMBRA1 links autophagy to cell proliferation and tumorigenesis by promoting c-Myc dephosphorylation and degradation.
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- Nature Cell Biology, 2015, v. 17, n. 5, p. 706, doi. 10.1038/ncb3171
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- Article
AMBRA1 links autophagy to cell proliferation and tumorigenesis by promoting c-Myc dephosphorylation and degradation.
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- Nature Cell Biology, 2015, v. 17, n. 1, p. 20, doi. 10.1038/ncb3072
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- Article
Design and properties of a Myc derivative that efficiently homodimerizes.
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- Oncogene, 1998, v. 17, n. 19, p. 2463, doi. 10.1038/sj.onc.1202199
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- Article
pdbFun: mass selection and fast comparison of annotated PDB residues.
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- Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w133, doi. 10.1093/nar/gki499
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- Article
SURFACE: a database of protein surface regions for functional annotation.
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- Nucleic Acids Research, 2004, v. 32, n. suppl 1, p. d240
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- Article
iSPOT: a web tool to infer the interaction specificity of families of protein modules.
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- Nucleic Acids Research, 2003, v. 31, n. 13, p. 3709, doi. 10.1093/nar/gkg592
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- Article
Genome-wide methylation analysis demonstrates that 5-aza-2-deoxycytidine treatment does not cause random DNA demethylation in fragile X syndrome cells.
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- Epigenetics & Chromatin, 2016, v. 9, p. 1, doi. 10.1186/s13072-016-0060-x
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- Article
The human rs1050286 polymorphism alters LOX-1 expression through modifying miR-24 binding.
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- Journal of Cellular & Molecular Medicine, 2016, v. 20, n. 1, p. 181, doi. 10.1111/jcmm.12716
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Deciphering a global network of functionally associated post‐translational modifications.
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- Molecular Systems Biology, 2012, v. 8, n. 1, p. 1, doi. 10.1038/msb.2012.31
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- Article
Mapping the human phosphatome on growth pathways.
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- Molecular Systems Biology, 2012, v. 8, n. 1, p. 1, doi. 10.1038/msb.2012.36
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- Article
Structure-based function prediction: approaches and applications.
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- Briefings in Functional Genomics & Proteomics, 2008, v. 7, n. 4, p. 291, doi. 10.1093/bfgp/eln030
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- Article