PAGNANI, ANDREA

PAGNANI, ANDREA  

Dipartimento Scienza Applicata e Tecnologia  

030845  

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Citazione Data di pubblicazione Autori File
DCAlign v1.0: Aligning biological sequences using co-evolution models and informed priors / Muntoni, Anna Paola; Pagnani, Andrea. - In: BIOINFORMATICS. - ISSN 1367-4811. - 39:9(2023). [10.1093/bioinformatics/btad537] 1-gen-2023 Muntoni, Anna PaolaPagnani, Andrea btad537.pdf
Generating Interacting Protein Sequences using Domain-to-Domain Translation / Meynard-Piganeau, Barthelemy; Fabbri, Caterina; Weigt, Martin; Pagnani, Andrea; Feinauer, Christoph. - In: BIOINFORMATICS. - ISSN 1367-4811. - 39:7(2023). [10.1093/bioinformatics/btad401] 1-gen-2023 Barthelemy Meynard-PiganeauAndrea PagnaniChristoph Feinauer + btad401 (1).pdf
Relationship between fitness and heterogeneity in exponentially growing microbial populations / Muntoni, Anna Paola; Braunstein, Alfredo; Pagnani, Andrea; De Martino, Daniele; De Martino, Andrea. - In: BIOPHYSICAL JOURNAL. - ISSN 0006-3495. - ELETTRONICO. - 121:10(2022), pp. 1919-1930. [10.1016/j.bpj.2022.04.012] 1-gen-2022 Muntoni, Anna PaolaBraunstein, AlfredoPagnani, AndreaDe Martino, Andrea + mmc2.pdf
Statistical-physics approaches to RNA molecules, families and networks / Cocco, Simona; DE MARTINO, Andrea; Pagnani, Andrea; Weigt, Martin. - (2022). 1-gen-2022 Andrea De MartinoAndrea Pagnani + -
{LPTD}: a novel linear programming-based topology determination method for cryo-{EM} maps / Behkamal, Bahareh; Naghibzadeh, Mahmoud; Pagnani, Andrea; Reza Saberi, Mohammad; Al Nasr, Kamal. - In: BIOINFORMATICS. - ISSN 1367-4803. - ELETTRONICO. - (2022). [10.1093/bioinformatics/btac170] 1-gen-2022 Andrea Pagnani + -
AMaLa: Analysis of Directed Evolution Experiments via Annealed Mutational Approximated Landscape / Sesta, Luca; Uguzzoni, Guido; Fernandez-de-Cossio-Diaz, Jorge; Pagnani, Andrea. - In: INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES. - ISSN 1422-0067. - ELETTRONICO. - 22:20(2021), p. 10908. [10.3390/ijms222010908] 1-gen-2021 Luca SestaGuido UguzzoniAndrea Pagnani + ijms-22-10908.pdf
Efficient generative modeling of protein sequences using simple autoregressive models / Trinquier, Jeanne; Uguzzoni, Guido; Pagnani, Andrea; Zamponi, Francesco; Weigt, Martin. - In: NATURE COMMUNICATIONS. - ISSN 2041-1723. - ELETTRONICO. - 12:(2021). [10.1038/s41467-021-25756-4] 1-gen-2021 Guido UguzzoniAndrea Pagnani + s41467-021-25756-4.pdf
Expectation propagation on the diluted Bayesian classifier / Braunstein, Alfredo; Gueudre, Thomas; Pagnani, Andrea; Pieropan, Mirko. - In: PHYSICAL REVIEW. E. - ISSN 2470-0045. - ELETTRONICO. - 103:4(2021). [10.1103/PhysRevE.103.043301] 1-gen-2021 Alfredo BraunsteinThomas GueudréAndrea PagnaniMirko Pieropan PhysRevE.103.043301.pdf
Unsupervised inference of protein fitness landscape from deep mutational scan / Fernandez-de-Cossio-Diaz, Jorge; Uguzzoni, Guido; Pagnani, Andrea. - In: MOLECULAR BIOLOGY AND EVOLUTION. - ISSN 0737-4038. - ELETTRONICO. - 38:1(2021), pp. 318-328. [10.1093/molbev/msaa204] 1-gen-2021 Uguzzoni, GuidoPagnani, Andrea + 2020.03.18.996595v1.full (1).pdfmsaa204.pdfmsaa204.pdf
Aligning biological sequences by exploiting residue conservation and coevolution / Muntoni, Anna Paola; Pagnani, Andrea; Weigt, Martin; Zamponi, Francesco. - In: PHYSICAL REVIEW. E. - ISSN 2470-0045. - 102:6(2020), p. 062409. [10.1103/PhysRevE.102.062409] 1-gen-2020 Muntoni, Anna PaolaPagnani, Andrea + PhysRevE.102.062409.pdf
Clostridium cellulovorans metabolism of cellulose as studied by comparative proteomic approach / Usai, G.; Cirrincione, S.; Re, A.; Manfredi, M.; Pagnani, A.; Pessione, E.; Mazzoli, R.. - In: JOURNAL OF PROTEOMICS. - ISSN 1874-3919. - ELETTRONICO. - 216:(2020), p. 103667. [10.1016/j.jprot.2020.103667] 1-gen-2020 Usai G.Re A.Pagnani A. + 1-s2.0-S187439192030035X_main.pdf1-s2.0-S187439192030035X-mmc1.pptx1-s2.0-S187439192030035X-mmc2.pptx1-s2.0-S187439192030035X-mmc3.xlsx
Compressed sensing reconstruction using Expectation Propagation / Braunstein, Alfredo; Muntoni, Anna Paola; Pagnani, Andrea; Pieropan, Mirko. - In: JOURNAL OF PHYSICS. A, MATHEMATICAL AND THEORETICAL. - ISSN 1751-8113. - 53:18(2020), p. 184001. [10.1088/1751-8121/ab3065] 1-gen-2020 Braunstein, AlfredoMuntoni, Anna PaolaPagnani, AndreaPieropan, Mirko Braunstein+et+al_2019_J._Phys._A:_Math._Theor._10.1088_1751-8121_ab3065.pdfBraunstein_2020_J._Phys._A__Math._Theor._53_184001.pdf
Predicting interacting protein pairs by coevolutionary paralog matching / Gueudre, T.; Baldassi, C.; Pagnani, A.; Weigt, M. (METHODS IN MOLECULAR BIOLOGY). - In: Protein-Protein Interaction Networks[s.l] : Humana Press Inc., 2020. - ISBN 978-1-4939-9872-2. - pp. 57-65 [10.1007/978-1-4939-9873-9_5] 1-gen-2020 Pagnani A. + capitolo_protein_interaction.pdf
A common root for coevolution and substitution rate variability in protein sequence evolution / Rizzato, F.; Zamuner, S.; Pagnani, A.; Laio, A.. - In: SCIENTIFIC REPORTS. - ISSN 2045-2322. - 9:1(2019), p. 18032. [10.1038/s41598-019-53958-w] 1-gen-2019 Pagnani A. + s41598-019-53958-w.pdf
Kinetic modelling of competition and depletion of shared miRNAs by competing endogenous RNAs / Martirosyan, Araks; Del Giudice, Marco; ENRICO BENA, Chiara; Pagnani, Andrea; Bosia, Carla; De Martino, Andrea (METHODS IN MOLECULAR BIOLOGY). - In: Methods in Molecular BiologySTAMPA. - [s.l] : Humana Press Inc., 2019. - ISBN 978-1-4939-8981-2. - pp. 367-409 [10.1007/978-1-4939-8982-9_15] 1-gen-2019 Del Giudice, MarcoENRICO BENA, CHIARAPagnani, AndreaBosia, CarlaDe Martino, Andrea + Chapter15.pdf
Nonconvex image reconstruction via expectation propagation / Muntoni, ANNA PAOLA; Díaz Hernández Rojas, Rafael; Braunstein, Alfredo; Pagnani, Andrea; Pérez Castillo, Isaac. - In: PHYSICAL REVIEW. E. - ISSN 2470-0053. - ELETTRONICO. - 100:(2019), p. 032134. [10.1103/PhysRevE.100.032134] 1-gen-2019 Anna Paola MuntoniAlfredo BraunsteinAndrea Pagnani + PhysRevE.100.032134.pdf
The intrinsic dimension of protein sequence evolution / Facco, Elena; Pagnani, Andrea; Russo, Elena Tea; Laio, Alessandro. - In: PLOS COMPUTATIONAL BIOLOGY. - ISSN 1553-734X. - ELETTRONICO. - 15:4(2019), p. e1006767. [10.1371/journal.pcbi.1006767] 1-gen-2019 Pagnani, AndreaLAIO, ALESSANDRO + journal.pcbi.1006767.pdf
Somatic mutagenesis in satellite cells associates with human skeletal muscle aging / Franco, Irene; Johansson, Anna; Olsson, Karl; Vrtačnik, Peter; Lundin, Pär; Helgadottir, Hafdis T.; Larsson, Malin; Revêchon, Gwladys; Bosia, Carla; Pagnani, Andrea; Provero, Paolo; Gustafsson, Thomas; Fischer, Helene; Eriksson, Maria. - In: NATURE COMMUNICATIONS. - ISSN 2041-1723. - ELETTRONICO. - 9:1(2018), p. 800. [10.1038/s41467-018-03244-6] 1-gen-2018 BOSIA, CARLAPagnani, Andrea + s41467-018-03244-6.pdf
An analytic approximation of the feasible space of metabolic networks / Braunstein, Alfredo; Muntoni, ANNA PAOLA; Pagnani, Andrea. - In: NATURE COMMUNICATIONS. - ISSN 2041-1723. - ELETTRONICO. - 8:(2017), p. 14915. [10.1038/ncomms14915] 1-gen-2017 BRAUNSTEIN, ALFREDOMUNTONI, ANNA PAOLAPAGNANI, ANDREA ncomms14915.pdf
CeRNA crosstalk stabilizes protein expression and affects the correlation pattern of interacting proteins / Martirosyan, Araks; De Martino, Andrea; Pagnani, Andrea; Marinari, Enzo. - In: SCIENTIFIC REPORTS. - ISSN 2045-2322. - 7:(2017), p. 43673. [10.1038/srep43673] 1-gen-2017 De Martino, AndreaPAGNANI, ANDREA + srep43673.pdf