Display Settings:

Format
Items per page
Sort by

Send to:

Choose Destination

Results: 1 to 20 of 33

1.

A proteome-wide Domain-centric Perspective on Protein Phosphorylation.

Palmeri A, Ausiello G, Ferre F, Helmer-Citterich M, Gherardini PF.

Mol Cell Proteomics. 2014 May 15. pii: mcp.M114.039990. [Epub ahead of print]

PMID:
24830415
[PubMed - as supplied by publisher]
Free PMC Article
2.

A novel approach to represent and compare RNA secondary structures.

Mattei E, Ausiello G, Ferrè F, Helmer-Citterich M.

Nucleic Acids Res. 2014;42(10):6146-57. doi: 10.1093/nar/gku283. Epub 2014 Apr 21.

PMID:
24753415
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

DBATE: database of alternative transcripts expression.

Bianchi V, Colantoni A, Calderone A, Ausiello G, Ferrè F, Helmer-Citterich M.

Database (Oxford). 2013 Jul 9;2013:bat050. doi: 10.1093/database/bat050. Print 2013.

PMID:
23842462
[PubMed - indexed for MEDLINE]
Free Article
4.

Alternative splicing tends to avoid partial removals of protein-protein interaction sites.

Colantoni A, Bianchi V, Gherardini PF, Tomba GS, Ausiello G, Helmer-Citterich M, Ferrè F.

BMC Genomics. 2013 Jun 7;14:379. doi: 10.1186/1471-2164-14-379.

PMID:
23758645
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

webPDBinder: a server for the identification of ligand binding sites on protein structures.

Bianchi V, Mangone I, Ferrè F, Helmer-Citterich M, Ausiello G.

Nucleic Acids Res. 2013 Jul;41(Web Server issue):W308-13. doi: 10.1093/nar/gkt457. Epub 2013 Jun 3.

PMID:
23737450
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Nucleos: a web server for the identification of nucleotide-binding sites in protein structures.

Parca L, Ferré F, Ausiello G, Helmer-Citterich M.

Nucleic Acids Res. 2013 Jul;41(Web Server issue):W281-5. doi: 10.1093/nar/gkt390. Epub 2013 May 22.

PMID:
23703207
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Identification of nucleotide-binding sites in protein structures: a novel approach based on nucleotide modularity.

Parca L, Gherardini PF, Truglio M, Mangone I, Ferrè F, Helmer-Citterich M, Ausiello G.

PLoS One. 2012;7(11):e50240. doi: 10.1371/journal.pone.0050240. Epub 2012 Nov 27.

PMID:
23209685
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

B-Pred, a structure based B-cell epitopes prediction server.

Giacò L, Amicosante M, Fraziano M, Gherardini PF, Ausiello G, Helmer-Citterich M, Colizzi V, Cabibbo A.

Adv Appl Bioinform Chem. 2012;5:11-21. doi: 10.2147/AABC.S30620. Epub 2012 Jul 25.

PMID:
22888263
[PubMed]
Free PMC Article
9.

Identification of binding pockets in protein structures using a knowledge-based potential derived from local structural similarities.

Bianchi V, Gherardini PF, Helmer-Citterich M, Ausiello G.

BMC Bioinformatics. 2012 Mar 28;13 Suppl 4:S17. doi: 10.1186/1471-2105-13-S4-S17.

PMID:
22536963
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

PhosTryp: a phosphorylation site predictor specific for parasitic protozoa of the family trypanosomatidae.

Palmeri A, Gherardini PF, Tsigankov P, Ausiello G, Späth GF, Zilberstein D, Helmer-Citterich M.

BMC Genomics. 2011 Dec 19;12:614. doi: 10.1186/1471-2164-12-614.

PMID:
22182631
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Phosfinder: a web server for the identification of phosphate-binding sites on protein structures.

Parca L, Mangone I, Gherardini PF, Ausiello G, Helmer-Citterich M.

Nucleic Acids Res. 2011 Jul;39(Web Server issue):W278-82. doi: 10.1093/nar/gkr389. Epub 2011 May 26.

PMID:
21622655
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Phosphate binding sites identification in protein structures.

Parca L, Gherardini PF, Helmer-Citterich M, Ausiello G.

Nucleic Acids Res. 2011 Mar;39(4):1231-42. doi: 10.1093/nar/gkq987. Epub 2010 Oct 24.

PMID:
20974634
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Superpose3D: a local structural comparison program that allows for user-defined structure representations.

Gherardini PF, Ausiello G, Helmer-Citterich M.

PLoS One. 2010 Aug 5;5(8):e11988. doi: 10.1371/journal.pone.0011988.

PMID:
20700534
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Modular architecture of nucleotide-binding pockets.

Gherardini PF, Ausiello G, Russell RB, Helmer-Citterich M.

Nucleic Acids Res. 2010 Jun;38(11):3809-16. doi: 10.1093/nar/gkq090. Epub 2010 Feb 25.

PMID:
20185567
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Structural motifs recurring in different folds recognize the same ligand fragments.

Ausiello G, Gherardini PF, Gatti E, Incani O, Helmer-Citterich M.

BMC Bioinformatics. 2009 Jun 15;10:182. doi: 10.1186/1471-2105-10-182.

PMID:
19527512
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Development of computational tools for the inference of protein interaction specificity rules and functional annotation using structural information.

Ferrè F, Via A, Ausiello G, Brannetti B, Zanzoni A, Helmer-Citterich M.

Comp Funct Genomics. 2003;4(4):416-9. doi: 10.1002/cfg.304.

PMID:
18629081
[PubMed]
Free PMC Article
17.

FunClust: a web server for the identification of structural motifs in a set of non-homologous protein structures.

Ausiello G, Gherardini PF, Marcatili P, Tramontano A, Via A, Helmer-Citterich M.

BMC Bioinformatics. 2008 Mar 26;9 Suppl 2:S2. doi: 10.1186/1471-2105-9-S2-S2.

PMID:
18387204
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

3dLOGO: a web server for the identification, analysis and use of conserved protein substructures.

Via A, Peluso D, Gherardini PF, de Rinaldis E, Colombo T, Ausiello G, Helmer-Citterich M.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W416-9. Epub 2007 May 8.

PMID:
17488847
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

SH3-Hunter: discovery of SH3 domain interaction sites in proteins.

Ferraro E, Peluso D, Via A, Ausiello G, Helmer-Citterich M.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W451-4. Epub 2007 May 7.

PMID:
17485474
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Local comparison of protein structures highlights cases of convergent evolution in analogous functional sites.

Ausiello G, Peluso D, Via A, Helmer-Citterich M.

BMC Bioinformatics. 2007 Mar 8;8 Suppl 1:S24.

PMID:
17430569
[PubMed - indexed for MEDLINE]
Free PMC Article

Display Settings:

Format
Items per page
Sort by

Send to:

Choose Destination

Supplemental Content

Loading ...
Write to the Help Desk