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Author Details

Anna Tramontano
Sapienza University of Rome
1982
206
58
PMIDPaper TitleJournal TitlePublished Year
28833563Assessment of model accuracy estimations in CASP12.Proteins2018
29844107Correction for Ballarino et al., "Novel Long Noncoding RNAs (lncRNAs) in Myogenesis: a <i>miR-31</i> Overlapping lncRNA Transcript Controls Myoblast Differentiation".Mol Cell Biol2018
30367178Genome-wide RNA-seq analysis indicates that the DAG1 transcription factor promotes hypocotyl elongation acting on ABA, ethylene and auxin signaling.Sci Rep2018
29082672Critical assessment of methods of protein structure prediction (CASP)-Round XII.Proteins2018
29159950Evaluation of the template-based modeling in CASP12.Proteins2018
27452518The Snail repressor recruits EZH2 to specific genomic sites through the enrollment of the lncRNA HOTAIR in epithelial-to-mesenchymal transition.Oncogene2017
28338016Superposition-free comparison and clustering of antibody binding sites: implications for the prediction of the nature of their antigen.Sci Rep2017
28212627Genome-wide identification of direct HBx genomic targets.BMC Genomics2017
28472367PIGSPro: prediction of immunoGlobulin structures v2.Nucleic Acids Res2017
29102305The computational prediction of protein assemblies.Curr Opin Struct Biol2017
28771696Dynamics behind affinity maturation of an anti-HCMV antibody family influencing antigen binding.FEBS Lett2017
28515787A computational approach for the functional classification of the epigenome.Epigenetics Chromatin2017
26825463A structural view of microRNA-target recognition.Nucleic Acids Res2016
26656568Prediction of the permeability of neutral drugs inferred from their solvation properties.Bioinformatics2016
26344049Methods of model accuracy estimation can help selecting the best models from decoy sets: Assessment of model accuracy estimations in CASP11.Proteins2016
26474083New encouraging developments in contact prediction: Assessment of the CASP11 results.Proteins2016
27604469An expanded evaluation of protein function prediction methods shows an improvement in accuracy.Genome Biol2016
27171127Critical assessment of methods of protein structure prediction: Progress and new directions in round XI.Proteins2016
27131789PepComposer: computational design of peptides binding to a given protein surface.Nucleic Acids Res2016
25304777Tabhu: tools for antibody humanization.Bioinformatics2015
26575774MD and Docking Studies Reveal That the Functional Switch of CYFIP1 is Mediated by a Butterfly-like Motion.J Chem Theory Comput2015
26574289Exploiting homology information in nontemplate based prediction of protein structures.J Chem Theory Comput2015
26249814LoopIng: a template-based tool for predicting the structure of protein loops.Bioinformatics2015
26267189All-Atom Molecular Dynamics Simulation of Protein Translocation through an α-Hemolysin Nanopore.J Phys Chem Lett2015
26169954RNA editing differently affects protein-coding genes in D. melanogaster and H. sapiens.Sci Rep2015
25866995Multistep current signal in protein translocation through graphene nanopores.J Phys Chem B2015
256174133USS: a web server for detecting alternative 3'UTRs from RNA-seq experiments.Bioinformatics2015
25811901Erratum: antibody modeling using the Prediction of ImmunoGlobulin Structure (PIGS) web server.Nat Protoc2015
25512605Novel long noncoding RNAs (lncRNAs) in myogenesis: a miR-31 overlapping lncRNA transcript controls myoblast differentiation.Mol Cell Biol2015
25581715Characterization of the differences in the cyclopiazonic acid binding mode to mammalian and P. Falciparum Ca2+ pumps: a computational study.Proteins2015
25600115Digestive peptidase evolution in holometabolous insects led to a divergent group of enzymes in Lepidoptera.Insect Biochem Mol Biol2015
23780644Assessment of the assessment: evaluation of the model quality estimates in CASP10.Proteins2014
28898681Cancer-Selective Targeting of the NF-κB Survival Pathway with GADD45β/MKK7 Inhibitors.Cancer Cell2014
26588503Exploring the Unfolding Pathway of Maltose Binding Proteins: An Integrated Computational Approach.J Chem Theory Comput2014
25473968Rapid profiling of the antigen regions recognized by serum antibodies using massively parallel sequencing of antigen-specific libraries.PLoS One2014
25429624SAP97-mediated ADAM10 trafficking from Golgi outposts depends on PKC phosphorylation.Cell Death Dis2014
25314077Cancer-selective targeting of the NF-κB survival pathway with GADD45β/MKK7 inhibitors.Cancer Cell2014
25375991Antibody modeling using the prediction of immunoglobulin structure (PIGS) web server [corrected].Nat Protoc2014
24845543Mapping the hydropathy of amino acids based on their local solvation structure.J Phys Chem B2014
24930144Improving the accuracy of the structure prediction of the third hypervariable loop of the heavy chains of antibodies.Bioinformatics2014
24344053Critical assessment of methods of protein structure prediction (CASP)--round x.Proteins2014
23946100Assessment of protein disorder region predictions in CASP10.Proteins2014
23760879Evaluation of residue-residue contact prediction in CASP10.Proteins2014
23333734ProCoCoA: A quantitative approach for analyzing protein core composition.Comput Biol Chem2013
23667459The PARIGA server for real time filtering and analysis of reciprocal BLAST results.PLoS One2013
23636053Igs expressed by chronic lymphocytic leukemia B cells show limited binding-site structure variability.J Immunol2013
23676497Endocytosis of synaptic ADAM10 in neuronal plasticity and Alzheimer's disease.J Clin Invest2013
23698860TiPs: a database of therapeutic targets in pathogens and associated tools.Bioinformatics2013
23803466Prediction of site-specific interactions in antibody-antigen complexes: the proABC method and server.Bioinformatics2013
23754850FIDEA: a server for the functional interpretation of differential expression analysis.Nucleic Acids Res2013
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Collaborators

Krzysztof Fidelis
University of California davis
Co-authored papers 19
Andriy Kryshtafovych
University of California davis
Co-authored papers 19
John Moult
Institute for Bioscience and Biotechnology Research
Co-authored papers 12
Domenico Cozzetto
Imperial College London
Co-authored papers 11
Rosalba Lepore
Basel University Hospital and University of Basel
Co-authored papers 11
Daniel D'Andrea
Nottingham Trent University
Co-authored papers 10
Torsten Schwede
University of Basel
Co-authored papers 8
Tim Hubbard
Co-authored papers 7
Cyrus Chothia
Co-authored papers 5
Romina Oliva
University of Naples "Parthenope"
Co-authored papers 5
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Josep Carreras Leukaemia Research Institute (IJC)
Co-authored papers 5
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Technical University of Munich (TUM)
Co-authored papers 5
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Co-authored papers 4
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INFN Sezione di Bologna and University of Bologna
Co-authored papers 3
Christine Orengo
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Spanish National Cancer Research Centre (CNIO)
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Andrea Urbani
National Research Council (CNR)
Co-authored papers 2
Luigi Cavallo
King Abdullah University of Science and Technology (KAUST)
Co-authored papers 2
Marco Nardini
University of Milano
Co-authored papers 2
James D Watson
EMBL--European Bioinformatics Institute
Co-authored papers 2
Michal Linial
Institute of Life Sciences, The Hebrew University of Jerusalem
Co-authored papers 2
Christoph Driessen
Cantonal Hospital St. Gallen
Co-authored papers 2
Pier Luigi Martelli
Department of Pharmacy and Biotechnology, University of Bologna
Co-authored papers 2
David T Jones
University College London
Co-authored papers 2
Rita Casadio
Department of Pharmacy and Biotechnology, University of Bologna
Co-authored papers 2
Chris Sander
Broad Institute of MIT and Harvard
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Daniel Carbajo
Institut de Quimica Avancada de Catalunya (IQAC-CSIC)
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Miguel A Andrade-Navarro
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Release 1.2