Anna Tramontano

发表

Assessment of homology‐based predictions in CASP5

Anna Tramontano, Veronica Morea, A. Tramontano, 2003, Proteins.

Improving your target-template alignment with MODalign

Anna Tramontano, Jan Kosinski, Alessandro Barbato, 2012, Bioinform..

An analysis of the Sargasso Sea resource and the consequences for database composition

Anna Tramontano, Alfonso Valencia, Michael L. Tress, 2006, BMC Bioinformatics.

Ten years of predictions … and counting

Anna Tramontano, Domenico Cozzetto, Adele Di Matteo, 2005, The FEBS journal.

Revisiting the prediction of protein function at CASP6

Anna Tramontano, Marialuisa Pellegrini-Calace, Simonetta Soro, 2006, The FEBS journal.

Network cleansing: Reliable interaction networks

Anna Tramontano, Paolo Marcatili, A. Tramontano, 2009 .

Sequences and topology: the completeness of biological space

Anna Tramontano, William R. Pearson, 2007 .

Protein design on computers. Five new proteins: Shpilka, grendel, fingerclasp, leather, and aida

Haruki Nakamura, Arne Elofsson, Anna Tramontano, 1992, Proteins.

Evaluation of the template‐based modeling in CASP12

Anna Tramontano, Torsten Schwede, Krzysztof Fidelis, 2018, Proteins.

Identification of a novel putative mitogen-activated kinase cascade on human chromosome 21 by computational approaches

Anna Tramontano, Marialuisa Pellegrini-Calace, A. Tramontano, 2006, Bioinform..

Antibody modeling using the Prediction of ImmunoGlobulin Structure (PIGS) web server

Anna Tramontano, Pier Paolo Olimpieri, Anna Chailyan, 2014, Nature Protocols.

3USS: a web server for detecting alternative 3′UTRs from RNA-seq experiments

Anna Tramontano, Mariagiovanna Mazzapioda, Loredana Le Pera, 2015, Bioinform..

Critical assessment of methods of protein structure prediction (CASP) — round x

Anna Tramontano, Torsten Schwede, Krzysztof Fidelis, 2014, Proteins.

The PMDB Protein Model Database

Anna Tramontano, Tiziana Castrignanò, Domenico Cozzetto, 2005, Nucleic Acids Res..

Ten Simple Rules for Developing a Short Bioinformatics Training Course

Anna Tramontano, Michelle D. Brazas, Javier De Las Rivas, 2011, PLoS Comput. Biol..

Protein Sequence Alignment

Anna Tramontano, 2005 .

The power of data: structural bioinformatics yesterday and today

Anna Tramontano, 2016 .

Evaluation of protein structure prediction methods: Issues and strategies

Anna Tramontano, Domenico Cozzetto, D. Cozzetto, 2011 .

Structural landscape of immunoglobulin lambda light chains

Anna Tramontano, Anna Chailyan, Paolo Marcatili, 2010, BCB '10.

PICMI: mapping point mutations on genomes

Anna Tramontano, Paolo Marcatili, Loredana Le Pera, 2010, Bioinform..

Methods of model accuracy estimation can help selecting the best models from decoy sets: Assessment of model accuracy estimations in CASP11

Anna Tramontano, Alessandro Barbato, Torsten Schwede, 2016, Proteins.

Exploiting homology information in nontemplate based prediction of protein structures.

Anna Tramontano, Alfredo Iacoangeli, Paolo Marcatili, 2015, Journal of chemical theory and computation.

Identification of the Schistosoma mansoni Molecular Target for the Antimalarial Drug Artemether

Anna Tramontano, Allegra Via, Domenico Raimondo, 2011, J. Chem. Inf. Model..

Tabhu: tools for antibody humanization

Anna Tramontano, Pier Paolo Olimpieri, Paolo Marcatili, 2015, Bioinform..

Comparative Modelling Techniques: Where are we?

Anna Tramontano, A. Tramontano, 2003, Comparative and functional genomics.

The MEPS server for identifying protein conformational epitopes

Anna Tramontano, Massimiliano Orsini, Matteo Floris, 2007, BMC Bioinformatics.

Assessment of protein disorder region predictions in CASP10

Anna Tramontano, Krzysztof Fidelis, Andriy Kryshtafovych, 2014, Proteins.

ISMB 2008 Organization

Burkhard Rost, Anna Tramontano, Alfonso Valencia, 2008, ISMB.

An account of the Seventh Meeting of the Worldwide Critical Assessment of Techniques for Protein Structure Prediction

Anna Tramontano, 2007, The FEBS journal.

LoopIng: a template-based tool for predicting the structure of protein loops

Anna Tramontano, Rosalba Lepore, Mario Abdel Messih, 2015, Bioinform..

Phospho3D 2.0: an enhanced database of three-dimensional structures of phosphorylation sites

Anna Tramontano, Allegra Via, Manuela Helmer-Citterich, 2010, Nucleic Acids Res..

PIGS: a resource for immunoglobulin structure prediction

Anna Tramontano, Paolo Marcatili, Alessandra Rossi, 2008 .

The Evaluation of Protein Structure Prediction Results

Anna Tramontano, Domenico Raimondo, Domenico Cozzetto, 2008, Molecular biotechnology.

The prediction of protein function at CASP6

Anna Tramontano, Simonetta Soro, A. Tramontano, 2005, Proteins.

Assessment of the assessment: Evaluation of the model quality estimates in CASP10

Anna Tramontano, Alessandro Barbato, Torsten Schwede, 2014, Proteins.

The Computational Analysis of Protein Structures: Sources, Methods, Systems and Results

Anna Tramontano, Arthur M. Lesk, 1989, Journal of research of the National Institute of Standards and Technology.

Evaluation of template‐based models in CASP8 with standard measures

Burkhard Rost, Anna Tramontano, Domenico Cozzetto, 2009, Proteins.

Exploring the Unfolding Pathway of Maltose Binding Proteins: An Integrated Computational Approach.

Anna Tramontano, Fabio Cecconi, Carlo Guardiani, 2014, Journal of chemical theory and computation.

Evaluation of CASP8 model quality predictions

Anna Tramontano, Domenico Cozzetto, Andriy Kryshtafovych, 2009, Proteins.

A resource for benchmarking the usefulness of protein structure models

Anna Tramontano, Daniel Carbajo, 2012, BMC Bioinformatics.

The PARIGA Server for Real Time Filtering and Analysis of Reciprocal BLAST Results

Anna Tramontano, Massimiliano Orsini, Gianmauro Cuccuru, 2013, PloS one.

PepComposer: computational design of peptides binding to a given protein surface

Anna Tramontano, Rosalba Lepore, Alfredo Iacoangeli, 2016, Nucleic Acids Res..

TiPs: a database of therapeutic targets in pathogens and associated tools

Anna Tramontano, Allegra Via, Rosalba Lepore, 2013, Bioinform..

Critical assessment of methods of protein structure prediction—Round VII

Anna Tramontano, Krzysztof Fidelis, Andriy Kryshtafovych, 2007, Proteins.

ProCoCoA: A quantitative approach for analyzing protein core composition

Anna Tramontano, Diego Garlaschelli, Andrea Bernini, 2013, Comput. Biol. Chem..

MODexplorer: an integrated tool for exploring protein sequence, structure and function relationships

Anna Tramontano, Jan Kosinski, Alessandro Barbato, 2013, Bioinform..

Prediction of the permeability of neutral drugs inferred from their solvation properties

Anna Tramontano, Domenico Raimondo, Edoardo Milanetti, 2015, Bioinform..

Education and Research Infrastructures

Anna Tramontano, Alfonso Valencia, 2011 .

Of men and machines

Anna Tramontano, 2003, Nature Structural Biology.

Sequences and topology: a decade of genomes Editorial overview

Anna Tramontano, Steven E. Brenner, 2005 .

PIGSPro: prediction of immunoGlobulin structures v2

Anna Tramontano, Pier Paolo Olimpieri, Rosalba Lepore, 2017, Nucleic Acids Res..

The assessment of methods for protein structure prediction.

Anna Tramontano, Domenico Raimondo, Domenico Cozzetto, 2008, Methods in molecular biology.

Evaluating the usefulness of protein structure models for molecular replacement

Anna Tramontano, Domenico Raimondo, Alejandro Giorgetti, 2005, ECCB/JBI.

Assessment of predictions in the model quality assessment category

Anna Tramontano, Domenico Cozzetto, Andriy Kryshtafovych, 2007, Proteins.

Probability of coding of a DNA sequence: an algorithm to predict translated reading frames from their thermodynamic characteristics

Anna Tramontano, M. F. Macchiato, 1986, Nucleic Acids Res..

An automatic method for identifying surface proteins in bacteria: SLEP

Anna Tramontano, Massimiliano Orsini, Danilo Carrabino, 2010, BMC Bioinformatics.

FIDEA: a server for the functional interpretation of differential expression analysis

Anna Tramontano, Mariagiovanna Mazzapioda, Luigi Grassi, 2013 .

Engineering stable cytoplasmic intrabodies with designed specificity.

Anna Tramontano, Veronica Morea, Eugenio Benvenuto, 2003, Journal of molecular biology.

The ten most wanted solutions in protein bioinformatics

Anna Tramontano, A. Tramontano, 2005 .

Automatic procedure for using models of proteins in molecular replacement

Anna Tramontano, Domenico Raimondo, Alejandro Giorgetti, 2006, Proteins.

Stereotyped patterns of B-cell receptor in splenic marginal zone lymphoma

Anna Tramontano, Francesco Bertoni, Paolo Marcatili, 2010, Haematologica.

Protein structure prediction

Anna Tramontano, A. Tramontano, 2013 .

Evaluation of disorder predictions in CASP9

Anna Tramontano, Krzysztof Fidelis, Andriy Kryshtafovych, 2011, Proteins.

Erratum: Antibody structural modeling with prediction of immunoglobulin structure (PIGS) (Nature Protocols (2014) 9 (2771-2783) DOI: 10.1038/nprot.2014.189)

Anna Tramontano, Paolo Marcatili, Pier Paolo Olimpieri, 2015 .

Probing the tertiary structure of proteins by limited proteolysis and mass spectrometry: The case of minibody

Anna Tramontano, Gennaro Marino, Francesca Zappacosta, 1996, Protein science : a publication of the Protein Society.

The association of heavy and light chain variable domains in antibodies: implications for antigen specificity

Anna Tramontano, Paolo Marcatili, Anna Chailyan, 2011, The FEBS journal.

The Relationship Between Protein Sequence, Structure and Function

Anna Tramontano, Domenico Cozzetto, D. Cozzetto, 2005 .

A model of the complex between the PfEMP1 malaria protein and the human ICAM‐1 receptor

Anna Tramontano, A. Tramontano, C. Bertonati, 2007, Proteins.

Evaluation of model quality predictions in CASP9

Anna Tramontano, Krzysztof Fidelis, Andriy Kryshtafovych, 2011, Proteins.

Accurate energies of hydrogen bonded nucleic acid base pairs and triplets in tRNA tertiary interactions

Anna Tramontano, Luigi Cavallo, Romina Oliva, 2006, Nucleic acids research.

Superposition-free comparison and clustering of antibody binding sites: implications for the prediction of the nature of their antigen

Anna Tramontano, Pier Paolo Olimpieri, Rosalba Lepore, 2017, Scientific Reports.

A designed metal-binding protein with a novel fold

Anna Tramontano, A. Tramontano, A. Crameri, 1993, Nature.

The significance of performance ranking in CASP--response to Marti-Renom et al.

Anna Tramontano, Adam Zemla, Krzysztof Fidelis, 2002, Structure.

Igs Expressed by Chronic Lymphocytic Leukemia B Cells Show Limited Binding-Site Structure Variability

Anna Tramontano, Paolo Marcatili, Silvia Bruno, 2013, The Journal of Immunology.

Evaluation of residue–residue contact prediction in CASP10

Anna Tramontano, Krzysztof Fidelis, Andriy Kryshtafovych, 2014, Proteins.

Antibody structural modeling with prediction of immunoglobulin structure (PIGS)

Anna Tramontano, Paolo Marcatili, Pier Paolo Olimpieri, 2014 .

A model for the hepatitis C virus envelope glycoprotein E2

Anna Tramontano, Armin Lahm, A. Tramontano, 2000, Proteins.

Anna Tramontano, Fabio Ghiotto, M. Nardini, 2004, The Journal of clinical investigation.

A structural view of microRNA–target recognition

Anna Tramontano, Guido Leoni, A. Tramontano, 2016, Nucleic acids research.

The implications of alternative splicing in the ENCODE protein complement

Hagen Blankenburg, Fidel Ramírez, Thomas Lengauer, 2007, Proceedings of the National Academy of Sciences.

Exploiting evolutionary relationships for predicting protein structures

Anna Tramontano, Veronica Morea, A. Tramontano, 2003, Biotechnology and bioengineering.

The role of molecular modelling in biomedical research

Anna Tramontano, A. Tramontano, 2006, FEBS letters.

Cancer-Selective Targeting of the NF-κB Survival Pathway with GADD45β/MKK7 Inhibitors

Anna Tramontano, Domenico Raimondo, Menotti Ruvo, 2014, Cancer cell.

Towards a solution for hepatitis C virus hypervariability: mimotopes of the hypervariable region 1 can induce antibodies cross‐reacting with a large number of viral variants

Anna Tramontano, Silvia Zucchelli, Armin Lahm, 1998, The EMBO journal.

Protein Structure Prediction: Concepts and Applications

Anna Tramontano, 2006 .

Mutation Pattern of Paired Immunoglobulin Heavy and Light Variable Domains in Chronic Lymphocytic Leukemia B Cells

Anna Tramontano, Paolo Marcatili, Silvia Bruno, 2011, Molecular medicine.