Jessica Andreani's Webpage

Publications

Postic, Marcoux, Reys, Andreani, Vandenbrouck, Bousquet, Mouton-Barbosa, Cianférani, Burlet-Schiltz, Guerois, Labesse, Tufféry. Probing Protein Interaction Networks by Combining MS-Based Proteomics and Structural Data Integration. Journal of Proteome Research. American Chemical Society (ACS). (2020),[DOI] [bibtex]

@article{Postic_2020,
  doi = {10.1021/acs.jproteome.0c00066},
  url = {https://doi.org/10.1021%2Facs.jproteome.0c00066},
  year = {2020},
  month = {may},
  publisher = {American Chemical Society ({ACS})},
  author = {Guillaume Postic and Julien Marcoux and Victor Reys and Jessica Andreani and Yves Vandenbrouck and Marie-Pierre Bousquet and Emmanuelle Mouton-Barbosa and Sarah Cianf{\'{e}}rani and Odile Burlet-Schiltz and Raphael Guerois and Gilles Labesse and Pierre Tuff{\'{e}}ry},
  title = {Probing Protein Interaction Networks by Combining {MS}-Based Proteomics and Structural Data Integration},
  journal = {Journal of Proteome Research},
}

Andreani^#, Quignot, Guerois^#. Structural prediction of protein interactions and docking using conservation and coevolution. WIREs Computational Molecular Science. Wiley. (2020),[DOI] [bibtex]

@article{Andreani_2020,
  doi = {10.1002/wcms.1470},
  url = {https://doi.org/10.1002%2Fwcms.1470},
  year = {2020},
  month = {may},
  publisher = {Wiley},
  author = {Jessica Andreani\textsuperscript{\#} and Chlo{\'{e}} Quignot and Raphael Guerois\textsuperscript{\#}},
  title = {Structural prediction of protein interactions and docking using conservation and coevolution},
  journal = {{WIREs} Computational Molecular Science},
}

Nadaradjane, Quignot, Traoré, Andreani^#, Guerois^#. Docking Proteins and Peptides Under Evolutionary Constraints in CAPRI rounds 38-45. Proteins: Structure, Function, and Bioinformatics. (), ,[DOI] [bibtex]

@article{Nadaradjane2019,
  author = {Nadaradjane, Aravindan Arun and Quignot, Chlo{\'e} and Traor{\'e}, Seydou and Andreani\textsuperscript{\#}, Jessica and Guerois\textsuperscript{\#}, Rapha\"{e}l},
  title = {Docking Proteins and Peptides Under Evolutionary Constraints in CAPRI rounds 38-45},
  journal = {Proteins: Structure, Function, and Bioinformatics},
  volume = {},
  number = {},
  pages = {},
  keywords = {protein-protein docking, evolutionary information, coevolution, CAPRI, InterEvDock, protein-peptide docking, protein-protein interaction, protein-carbohydrate docking},
  doi = {10.1002/prot.25857},
  url = {https://onlinelibrary.wiley.com/doi/abs/10.1002/prot.25857},
  eprint = {https://onlinelibrary.wiley.com/doi/pdf/10.1002/prot.25857},
}

Vilela, Velours, Chenon, Aumont-Nicaise, Campanacci, Thureau, Pylypenko, Andreani, Llinas, Ménétrey. Structural characterization of the RH1-LZI tandem of JIP3/4 highlights RH1 domains as a cytoskeletal motor-binding motif. Scientific Reports. 9(1), 16036 (2019),[DOI] [bibtex]

@article{Vilela2019,
  author = {Vilela, Fernando and Velours, Christophe and Chenon, M{\'e}lanie and Aumont-Nicaise, Magali and Campanacci, Val{\'e}rie and Thureau, Aur{\'e}lien and Pylypenko, Olena and Andreani, Jessica and Llinas, Paola and M{\'e}n{\'e}trey, Julie},
  journal = {Scientific Reports},
  title = {{Structural characterization of the RH1-LZI tandem of JIP3/4 highlights RH1 domains as a cytoskeletal motor-binding motif}},
  year = {2019},
  volume = {9},
  number = {1},
  pages = {16036},
  issn = {2045-2322},
  doi = {10.1038/s41598-019-52537-3},
  url = {https://doi.org/10.1038/s41598-019-52537-3},
}

Bakail, Gaubert, Andreani, Moal, Pinna, Boyarchuk, Gaillard, Courbeyrette, Mann, Thuret, Guichard, Murciano, Richet, Poitou, Frederic, Le Du, Agez, Roelants, Gurard-Levin, Almouzni, Cherradi, Guerois, Ochsenbein. Design on a Rational Basis of High-Affinity Peptides Inhibiting the Histone Chaperone ASF1. Cell Chemical Biology. Elsevier. 26(11), 1573-1585.e10 (2019),[DOI] [bibtex]

@article{Bakail2019,
  annote = {doi: 10.1016/j.chembiol.2019.09.002},
  author = {Bakail, May and Gaubert, Albane and Andreani, Jessica and Moal, Gwena{\"{e}}lle and Pinna, Guillaume and Boyarchuk, Ekaterina and Gaillard, Marie-C{\'{e}}cile and Courbeyrette, Regis and Mann, Carl and Thuret, Jean-Yves and Guichard, B{\'{e}}reng{\`{e}}re and Murciano, Brice and Richet, Nicolas and Poitou, Adeline and Frederic, Claire and {Le Du}, Marie-H{\'{e}}l{\`{e}}ne and Agez, Morgane and Roelants, Caroline and Gurard-Levin, Zachary A and Almouzni, Genevi{\`{e}}ve and Cherradi, Nadia and Guerois, Raphael and Ochsenbein, Fran{\c{c}}oise},
  doi = {10.1016/j.chembiol.2019.09.002},
  issn = {2451-9456},
  journal = {Cell Chemical Biology},
  month = {Nov},
  day = {21},
  publisher = {Elsevier},
  volume = {26},
  number = {11},
  pages = {1573-1585.e10},
  title = {{Design on a Rational Basis of High-Affinity Peptides Inhibiting the Histone Chaperone ASF1}},
  url = {https://doi.org/10.1016/j.chembiol.2019.09.002},
  year = {2019},
}

Fischböck-Halwachs, Singh, Potocnjak, Hagemann, Solis-Mezarino, Woike, Ghodgaonkar-Steger, Weissmann, Gallego, Rojas, Andreani, Köhler, Herzog. The COMA complex interacts with Cse4 and positions Sli15/Ipl1 at the budding yeast inner kinetochore. eLife. 8, e42879 (2019),[DOI] [bibtex]

@article{fishboeck19,
  article_type = {journal},
  title = {The COMA complex interacts with Cse4 and positions Sli15/Ipl1 at the budding yeast inner kinetochore},
  author = {Fischb\"ock-Halwachs, Josef and Singh, Sylvia and Potocnjak, Mia and Hagemann, G\"otz and Solis-Mezarino, Victor and Woike, Stephan and Ghodgaonkar-Steger, Medini and Weissmann, Florian and Gallego, Laura D and Rojas, Julie and Andreani, Jessica and K\"ohler, Alwin and Herzog, Franz},
  editor = {Akhmanova, Anna and DeLuca, Jennifer G and Biggins, Sue and DeLuca, Jennifer G},
  volume = {8},
  year = {2019},
  month = {may},
  pub_date = {2019-05-21},
  pages = {e42879},
  citation = {eLife 2019;8:e42879},
  doi = {10.7554/eLife.42879},
  url = {https://doi.org/10.7554/eLife.42879},
  keywords = {kinetochore, mass spectrometry, feedback control, chromosome segregation, chemical crosslinking, error correction, chromosomal passenger complex, aurora B},
  journal = {eLife},
  issn = {2050-084X},
}

Lisboa, Celma, Sanchez, Marquis, Andreani, Guerois, Ochsenbein, Durand, Marsin, Cuniasse, Radicella, Quevillon-Cheruel. The C-terminal domain of HpDprA is a DNA-binding Winged Helix domain that does not bind double-stranded DNA. The FEBS Journal. (), (2019),[DOI] [bibtex]

@article{lisboa19,
  author = {Lisboa, Johnny and Celma, Louisa and Sanchez, Dyana and Marquis, Mathilde and Andreani, Jessica and Guerois, Raphael and Ochsenbein, Francoise and Durand, Dominique and Marsin, St\'ephanie and Cuniasse, Philippe and Radicella, J. Pablo and Quevillon-Cheruel, Sophie},
  title = {The C-terminal domain of HpDprA is a DNA-binding Winged Helix domain that does not bind double-stranded DNA},
  journal = {The FEBS Journal},
  volume = {},
  number = {},
  pages = {},
  year = {2019},
  doi = {10.1111/febs.14788},
  url = {https://febs.onlinelibrary.wiley.com/doi/abs/10.1111/febs.14788},
}

Nguyen, Aumont-Nicaise, Andreani, Velours, Chenon, Vilela, Geneste, Varela, Llinas, Ménétrey. Characterization of the binding mode of JNK-interacting protein 1 (JIP1) to kinesin-light chain 1 (KLC1). Journal of Biological Chemistry. 293(36), 13946-13960 (2018),[DOI] [bibtex]

@article{nguyen-18,
  author = {Nguyen, T. Quyen and Aumont-Nicaise, Magali and Andreani, Jessica and Velours, Christophe and Chenon, M\'elanie and Vilela, Fernando and Geneste, Cl\'ementine and Varela, Paloma F. and Llinas, Paola and M\'en\'etrey, Julie},
  title = {Characterization of the binding mode of JNK-interacting protein 1 (JIP1) to kinesin-light chain 1 (KLC1)},
  volume = {293},
  number = {36},
  pages = {13946-13960},
  year = {2018},
  doi = {10.1074/jbc.RA118.003916},
  url = {http://www.jbc.org/content/293/36/13946.abstract},
  eprint = {http://www.jbc.org/content/293/36/13946.full.pdf+html},
  journal = {Journal of Biological Chemistry},
}

Quignot*, Rey*, Yu, Tufféry^#, Guerois^#, Andreani^#. InterEvDock2: an expanded server for protein docking using evolutionary and biological information from homology models and multimeric inputs. Nucleic Acids Research. 46(W1), W408-W416 (2018),[DOI] [bibtex]

@article{quignot-18,
  author = {Quignot*, Chlo\'e and Rey*, Julien and Yu, Jinchao and Tuff\'ery\textsuperscript{\#}, Pierre and Guerois\textsuperscript{\#}, Rapha\"{e}l and Andreani\textsuperscript{\#}, Jessica},
  title = {InterEvDock2: an expanded server for protein docking using evolutionary and biological information from homology models and multimeric inputs},
  journal = {Nucleic Acids Research},
  volume = {46},
  number = {W1},
  pages = {W408-W416},
  year = {2018},
  doi = {10.1093/nar/gky377},
  url = {http://dx.doi.org/10.1093/nar/gky377},
}

Nadaradjane, Guerois^#, Andreani^#. Protein-Protein Docking Using Evolutionary Information. In "Protein Complex Assembly: Methods and Protocols". Springer New York. 429-447 (2018),[DOI] [bibtex]

@inbook{Nadaradjane2018,
  author = {Nadaradjane, Aravindan Arun and Guerois\textsuperscript{\#}, Raphael and Andreani\textsuperscript{\#}, Jessica},
  editor = {Marsh, Joseph A.},
  title = {Protein-Protein Docking Using Evolutionary Information},
  booktitle = {Protein Complex Assembly: Methods and Protocols},
  year = {2018},
  publisher = {Springer New York},
  address = {New York, NY},
  pages = {429-447},
  isbn = {978-1-4939-7759-8},
  doi = {10.1007/978-1-4939-7759-8_28},
  url = {https://doi.org/10.1007/978-1-4939-7759-8_28},
}

De Muyt, Pyatnitskaya, Andreani, Ranjha, Ramus, Laureau, Fernandez-Vega, Holoch, Girard, Govin, Margueron, Couté, Cejka, Guerois, Borde. A meiotic XPF-ERCC1-like complex recognizes joint molecule recombination intermediates to promote crossover formation. Genes & Development. (2018),[DOI] [bibtex]

@article{demuy-18,
  author = {De Muyt, Arnaud and Pyatnitskaya, Alexandra and Andreani, Jessica and Ranjha, Lepakshi and Ramus, Claire and Laureau, Rapha\"{e}lle and Fernandez-Vega, Ambra and Holoch, Daniel and Girard, Elodie and Govin, J\'{e}rome and Margueron, Rapha\"{e}l and Cout\'{e}, Yohann and Cejka, Petr and Guerois, Rapha\"{e}l and Borde, Val\'{e}rie},
  title = {A meiotic XPF-ERCC1-like complex recognizes joint molecule recombination intermediates to promote crossover formation},
  year = {2018},
  doi = {10.1101/gad.308510.117},
  url = {http://genesdev.cshlp.org/content/early/2018/02/09/gad.308510.117.abstract},
  eprint = {http://genesdev.cshlp.org/content/early/2018/02/09/gad.308510.117.full.pdf+html},
  journal = {Genes \& Development},
}

Nguyen, Chenon, Vilela, Velours, Aumont-Nicaise, Andreani, Varela, Llinas^#, Ménétrey^#. Structural plasticity of the N-terminal capping helix of the TPR domain of kinesin light chain. PLOS One. 12(10) (2017),[DOI] [bibtex]

@article{nguyen-17,
  author = {The Quyen Nguyen AND M\'elanie Chenon AND Fernando Vilela AND Christophe Velours AND Magali Aumont-Nicaise AND Jessica Andreani AND Paloma F. Varela AND Paola Llinas\textsuperscript{\#} AND Julie M\'en\'etrey\textsuperscript{\#}},
  journal = {PLOS One},
  title = {Structural plasticity of the N-terminal capping helix of the TPR domain of kinesin light chain},
  year = {2017},
  month = {10},
  volume = {12},
  number = {10},
  doi = {10.1371/journal.pone.0186354},
  url = {https://doi.org/10.1371/journal.pone.0186354},
}

Méneret, Franz, Trouillard, Oliver, Zagar, Robertson, Welniarz, Gardner, Gallea, Srour, Depienne, Jasoni, Dubacq, Riant, Lamy, Morel, Guérois, Andreani, Fouquet, Doulazmi, Vidailhet, Rouleau, Brice, Chédotal, Dusart, Roze, Markie. Mutations in the netrin-1 gene cause congenital mirror movements. The Journal of Clinical Investigation. 127(11) (2017),[DOI] [bibtex]

@article{meneret-17,
  author = {Aur\'elie M\'eneret AND Elizabeth A. Franz AND Oriane Trouillard AND Thomas C. Oliver AND Yvrick Zagar AND Stephen P. Robertson AND Quentin Welniarz AND R.J. MacKinlay Gardner AND C\'ecile Gallea AND Myriam Srour AND Christel Depienne AND Christine L. Jasoni AND Caroline Dubacq AND Florence Riant AND Jean-Charles Lamy AND Marie-Pierre Morel AND Raphael Gu\'erois AND Jessica Andreani AND Coralie Fouquet AND Mohamed Doulazmi AND Marie Vidailhet AND Guy A. Rouleau AND Alexis Brice AND Alain Ch\'edotal AND Isabelle Dusart AND Emmanuel Roze AND David Markie},
  journal = {The Journal of Clinical Investigation},
  title = {Mutations in the netrin-1 gene cause congenital mirror movements},
  year = {2017},
  month = {9},
  volume = {127},
  url = {https://doi.org/10.1172/JCI95442},
  number = {11},
  doi = {10.1172/JCI95442},
  url = {https://doi.org/10.1172/JCI95442},
}

Baejen*, Andreani*, Torkler, Battaglia, Schwalb, Lidschreiber, Maier, Boltendahl, Rus, Esslinger, Söding^#, Cramer^#. Genome-wide Analysis of RNA Polymerase II Termination at Protein-Coding Genes. Molecular Cell. 66(1), 38-49.e6 (2017),[DOI] [bibtex]

@article{baejen-17,
  title = {Genome-wide Analysis of RNA Polymerase II Termination at Protein-Coding Genes},
  author = {Baejen*, Carlo and Andreani*, Jessica and Torkler, Phillipp and Battaglia, Sofia and Schwalb, Bjoern and Lidschreiber, Michael and Maier, Kerstin C and Boltendahl, Andrea and Rus, Petra and Esslinger, Stephanie and S\"oding\textsuperscript{\#}, Johannes and Cramer\textsuperscript{\#}, Patrick},
  journal = {Molecular Cell},
  year = {2017},
  doi = {10.1016/j.molcel.2017.02.009},
  volume = {66},
  number = {1},
  pages = {38-49.e6},
}

Yu, Andreani, Ochsenbein, Guerois. Lessons from (co-)evolution in the docking of proteins and peptides for CAPRI Rounds 28-35. Proteins. 85(3), 378-390 (2016),[DOI] [bibtex]

@article{yu-16b,
  author = {Yu, Jinchao and Andreani, Jessica and Ochsenbein, Francoise and Guerois, Rapha\"el},
  title = {Lessons from \(co-\)evolution in the docking of proteins and peptides for CAPRI Rounds 28-35},
  volume = {85},
  number = {3},
  pages = {378-390},
  year = {2016},
  doi = {10.1002/prot.25180},
  url = {http://onlinelibrary.wiley.com/doi/10.1002/prot.25180},
  journal = {Proteins},
}

Yu, Vavrusa, Andreani, Rey, Tufféry^#, Guerois^#. InterEvDock: a docking server to predict the structure of protein-protein interactions using evolutionary information. Nucleic Acids Research. 44(W1), W542-W549 (2016),[DOI] [bibtex]

@article{yu-16,
  author = {Yu, Jinchao and Vavrusa, Marek and Andreani, Jessica and Rey, Julien and Tuff\'ery\textsuperscript{\#}, Pierre and Guerois\textsuperscript{\#}, Rapha\"el},
  title = {InterEvDock: a docking server to predict the structure of protein-protein interactions using evolutionary information},
  volume = {44},
  number = {W1},
  pages = {W542-W549},
  year = {2016},
  doi = {10.1093/nar/gkw340},
  url = {http://nar.oxfordjournals.org/content/44/W1/W542.abstract},
  eprint = {http://nar.oxfordjournals.org/content/44/W1/W542.full.pdf+html},
  journal = {Nucleic Acids Research},
}

Andreani^#, Söding^#. bbcontacts: prediction of β-strand pairing from direct coupling patterns. Bioinformatics. 31(11), 1729-1737 (2015),[DOI] [bibtex]

@article{andreani-15,
  author = {Andreani\textsuperscript{\#}, Jessica and S\"oding\textsuperscript{\#}, Johannes},
  title = {bbcontacts: prediction of $\beta$-strand pairing from direct coupling patterns},
  volume = {31},
  number = {11},
  pages = {1729-1737},
  year = {2015},
  doi = {10.1093/bioinformatics/btv041},
  url = {http://bioinformatics.oxfordjournals.org/content/early/2015/01/22/bioinformatics.btv041.abstract},
  journal = {Bioinformatics},
}

Wickles, Singharoy, Andreani, Seemayer, Bischoff, Berninghausen, Soeding, Schulten, van der Sluis, Beckmann. A structural model of the active ribosome-bound membrane protein insertase YidC. eLife. 3, e03035 (2014),[DOI] [bibtex]

@article{wickles-14,
  author = {Wickles, Stephan and Singharoy, Abhishek and Andreani, Jessica and Seemayer, Stefan and Bischoff, Lukas and Berninghausen, Otto and Soeding, Johannes and Schulten, Klaus and van der Sluis, Eli and Beckmann, Roland},
  title = {A structural model of the active ribosome-bound membrane protein insertase YidC},
  volume = {3},
  pages = {e03035},
  year = {2014},
  doi = {10.7554/eLife.03035},
  isbn = {2050-084X},
  url = {http://elifesciences.org/content/early/2014/07/09/eLife.03035},
  journal = {eLife},
}

Andreani^#, Guerois^#. Evolution of Protein Interactions: From Interactomes to Interfaces. Archives of Biochemistry and Biophysics. 554, 65-75 (2014),[DOI] [bibtex]

@article{andreani-14,
  author = {Andreani\textsuperscript{\#}, Jessica and Guerois\textsuperscript{\#}, Raphael},
  title = {Evolution of Protein Interactions: From Interactomes to Interfaces},
  year = {2014},
  volume = {554},
  pages = {65-75},
  doi = {10.1016/j.abb.2014.05.010},
  url = {http://www.sciencedirect.com/science/article/pii/S0003986114001593},
  journal = {Archives of Biochemistry and Biophysics},
}

Lisboa*, Andreani*, Sanchez, Boudes, Collinet, Liger, Tilbeurgh, Guerois^#, Quevillon-Cheruel^#. Molecular determinants of the DprA-RecA interaction for nucleation on ssDNA. Nucleic Acids Research. 42(11), 7395-7408 (2014),[DOI] [bibtex]

@article{lisboa-14,
  author = {Lisboa*, Johnny and Andreani*, Jessica and Sanchez, Dyana and Boudes, Marion and Collinet, Bruno and Liger, Dominique and Tilbeurgh, Herman van and Guerois\textsuperscript{\#}, Raphael and Quevillon-Cheruel\textsuperscript{\#}, Sophie},
  title = {Molecular determinants of the DprA-RecA interaction for nucleation on ssDNA},
  year = {2014},
  volume = {42},
  number = {11},
  pages = {7395-7408},
  doi = {10.1093/nar/gku349},
  url = {http://nar.oxfordjournals.org/content/early/2014/04/29/nar.gku349.abstract},
  eprint = {http://nar.oxfordjournals.org/content/early/2014/04/29/nar.gku349.full.pdf+html},
  journal = {Nucleic Acids Research},
}

Lombardi, Ayach, Beaurepaire, Chenon, Andreani, Guerois, Jupin, Bressanelli. A compact viral processing proteinase / ubiquitin hydrolase from the OTU family. PLoS Pathogens. 9(8), e1003560 (2013),[DOI] [bibtex]

@article{lombardi-13,
  author = {Lombardi, Charlotte and Ayach, Maya and Beaurepaire, Lionel and Chenon, M\'elanie and Andreani, Jessica and Guerois, Rapha\"el and Jupin, Isabelle and Bressanelli, St\'ephane},
  title = {{A compact viral processing proteinase / ubiquitin hydrolase from the OTU family}},
  journal = {PLoS Pathogens},
  volume = {9},
  number = {8},
  pages = {e1003560},
  year = {2013},
  doi = {10.1371/journal.ppat.1003560},
}

Andreani, Faure, Guerois. InterEvScore: a novel coarse-grained interface scoring function using a multi-body statistical potential coupled to evolution. Bioinformatics. 29(14), 1742-1749 (2013),[DOI] [bibtex]

@article{andreani-13,
  author = {Andreani, Jessica and Faure, Guilhem and Guerois, Rapha\"el},
  title = {{InterEvScore: a novel coarse-grained interface scoring function using a multi-body statistical potential coupled to evolution}},
  journal = {Bioinformatics},
  year = {2013},
  volume = {29},
  number = {14},
  pages = {1742-1749},
  doi = {10.1093/bioinformatics/btt260},
}

Andreani, Faure, Guerois. Versatility and Invariance in the Evolution of Homologous Heteromeric Interfaces. PLoS Comput Biol. 8(8), e1002677+ (2012),[DOI] [bibtex]

@article{andreani-12,
  author = {Andreani, Jessica and Faure, Guilhem and Guerois, Rapha\"el},
  title = {{Versatility and Invariance in the Evolution of Homologous Heteromeric Interfaces}},
  journal = {PLoS Comput Biol},
  year = {2012},
  month = {aug},
  volume = {8},
  number = {8},
  pages = {e1002677+},
  doi = {10.1371/journal.pcbi.1002677},
}

Faure, Andreani, Guerois. InterEvol database: exploring the structure and evolution of protein complex interfaces. Nucleic Acids Research. 40(D1), 847-856 (2012),[DOI] [bibtex]

@article{faure-12,
  author = {Faure, Guilhem and Andreani, Jessica and Guerois, Rapha\"el},
  title = {{InterEvol database: exploring the structure and evolution of protein complex interfaces}},
  journal = {Nucleic Acids Research},
  volume = {40},
  number = {D1},
  pages = {847-856},
  year = {2012},
  doi = {10.1093/nar/gkr845},
}

* equal contribution
^# co-corresponding authors