Mutational Signatures in Breast Cancer: The Problem at the DNA Level

Autor Nik-Zainal, Serena, Morganella, Sandro
Vydáno v Clin Cancer Res (2017)

IRIS: a method for reverse engineering of regulatory relations in gene networks

Autor Morganella, Sandro, Zoppoli, Pietro, Ceccarelli, Michele
Vydáno 2009

TimeDelay-ARACNE: Reverse engineering of gene networks from time-course data by an information theoretic approach

Autor Zoppoli, Pietro, Morganella, Sandro, Ceccarelli, Michele
Vydáno 2010

VEGAWES: variational segmentation on whole exome sequencing for copy number detection

Autor Anjum, Samreen, Morganella, Sandro, D’Angelo, Fulvio, Iavarone, Antonio, Ceccarelli, Michele
Vydáno v BMC Bioinformatics (2015)

Noncanonical secondary structures arising from non-B DNA motifs are determinants of mutagenesis

Autor Georgakopoulos-Soares, Ilias, Morganella, Sandro, Jain, Naman, Hemberg, Martin, Nik-Zainal, Serena
Vydáno v Genome Res (2018)

Short inverted repeats contribute to localized mutability in human somatic cells

Autor Zou, Xueqing, Morganella, Sandro, Glodzik, Dominik, Davies, Helen, Li, Yilin, Stratton, Michael R., Nik-Zainal, Serena
Vydáno v Nucleic Acids Res (2017)

ChromoTrace: Computational reconstruction of 3D chromosome configurations for super-resolution microscopy

Autor Barton, Carl, Morganella, Sandro, Ødegård-Fougner, Øyvind, Alexander, Stephanie, Ries, Jonas, Fitzgerald, Tomas, Ellenberg, Jan, Birney, Ewan
Vydáno v PLoS Comput Biol (2018)

GARFIELD classifies disease-relevant genomic features through integration of functional annotations with association signals

Autor Iotchkova, Valentina, Ritchie, Graham R.S., Geihs, Matthias, Morganella, Sandro, Min, Josine L., Walter, Klaudia, Timpson, Nicholas John, Dunham, Ian, Birney, Ewan, Soranzo, Nicole
Vydáno v Nat Genet (2019)

The genome as a record of environmental exposure

Autor Nik-Zainal, Serena, Kucab, Jill E., Morganella, Sandro, Glodzik, Dominik, Alexandrov, Ludmil B., Arlt, Volker M., Weninger, Annette, Hollstein, Monica, Stratton, Michael R., Phillips, David H.
Vydáno v Mutagenesis (2015)

A Compendium of Mutational Signatures of Environmental Agents

Autor Kucab, Jill E., Zou, Xueqing, Morganella, Sandro, Joel, Madeleine, Nanda, A. Scott, Nagy, Eszter, Gomez, Celine, Degasperi, Andrea, Harris, Rebecca, Jackson, Stephen P., Arlt, Volker M., Phillips, David H., Nik-Zainal, Serena
Vydáno v Cell (2019)

Genome-wide analysis of copy number alterations led to the characterisation of PDCD10 as oncogene in ovarian cancer

Autor De Marco, Carmela, Zoppoli, Pietro, Rinaldo, Nicola, Morganella, Sandro, Morello, Matteo, Zuccalà, Valeria, Carriero, Maria Vincenza, Malanga, Donatella, Chirillo, Roberta, Bruni, Paola, Malzoni, Carmine, Di Vizio, Dolores, Venturella, Roberta, Zullo, Fulvio, Rizzuto, Antonia, Ceccarelli, Michele, Ciliberto, Gennaro, Viglietto, Giuseppe
Vydáno v Transl Oncol (2021)

A practical framework and online tool for mutational signature analyses show inter-tissue variation and driver dependencies

Autor Degasperi, Andrea, Amarante, Tauanne Dias, Czarnecki, Jan, Shooter, Scott, Zou, Xueqing, Glodzik, Dominik, Morganella, Sandro, Nanda, Arjun S., Badja, Cherif, Koh, Gene, Momen, Sophie E., Georgakopoulos-Soares, Ilias, Dias, João M. L., Young, Jamie, Memari, Yasin, Davies, Helen, Nik-Zainal, Serena
Vydáno v Nat Cancer (2020)

The repertoire of mutational signatures in human cancer

Autor Alexandrov, Ludmil B., Kim, Jaegil, Haradhvala, Nicholas J., Huang, Mi Ni, Tian Ng, Alvin Wei, Wu, Yang, Boot, Arnoud, Covington, Kyle R., Gordenin, Dmitry A., Bergstrom, Erik N., Islam, S. M. Ashiqul, Lopez-Bigas, Nuria, Klimczak, Leszek J., McPherson, John R., Morganella, Sandro, Sabarinathan, Radhakrishnan, Wheeler, David A., Mustonen, Ville, Getz, Gad, Rozen, Steven G., Stratton, Michael R.
Vydáno v Nature (2020)

Partially methylated domains are hypervariable in breast cancer and fuel widespread CpG island hypermethylation

Autor Brinkman, Arie B., Nik-Zainal, Serena, Simmer, Femke, Rodríguez-González, F. Germán, Smid, Marcel, Alexandrov, Ludmil B., Butler, Adam, Martin, Sancha, Davies, Helen, Glodzik, Dominik, Zou, Xueqing, Ramakrishna, Manasa, Staaf, Johan, Ringnér, Markus, Sieuwerts, Anieta, Ferrari, Anthony, Morganella, Sandro, Fleischer, Thomas, Kristensen, Vessela, Gut, Marta, van de Vijver, Marc J., Børresen-Dale, Anne-Lise, Richardson, Andrea L., Thomas, Gilles, Gut, Ivo G., Martens, John W. M., Foekens, John A., Stratton, Michael R., Stunnenberg, Hendrik G.
Vydáno v Nat Commun (2019)

A somatic-mutational process recurrently duplicates germline susceptibility loci and tissue-specific super-enhancers in breast cancers

Autor Glodzik, Dominik, Morganella, Sandro, Davies, Helen, Simpson, Peter T, Li, Yilong, Zou, Xueqing, Diez-Perez, Javier, Staaf, Johan, Alexandrov, Ludmil B, Smid, Marcel, Brinkman, Arie B, Rye, Inga Hansine, Russnes, Hege, Raine, Keiran, Purdie, Colin A, Lakhani, Sunil R, Thompson, Alastair M, Birney, Ewan, Stunnenberg, Hendrik G, van de Vijver, Marc J, Martens, John W M, Børresen-Dale, Anne-Lise, Richardson, Andrea L, Kong, Gu, Viari, Alain, Easton, Douglas, Evan, Gerard, Campbell, Peter J, Stratton, Michael R, Nik-Zainal, Serena
Vydáno v Nat Genet (2017)

The Genomic and Immune Landscapes of Lethal Metastatic Breast Cancer

Autor De Mattos-Arruda, Leticia, Sammut, Stephen-John, Ross, Edith M., Bashford-Rogers, Rachael, Greenstein, Erez, Markus, Havell, Morganella, Sandro, Teng, Yvonne, Maruvka, Yosef, Pereira, Bernard, Rueda, Oscar M., Chin, Suet-Feung, Contente-Cuomo, Tania, Mayor, Regina, Arias, Alexandra, Ali, H. Raza, Cope, Wei, Tiezzi, Daniel, Dariush, Aliakbar, Dias Amarante, Tauanne, Reshef, Dan, Ciriaco, Nikaoly, Martinez-Saez, Elena, Peg, Vicente, Ramon y Cajal, Santiago, Cortes, Javier, Vassiliou, George, Getz, Gad, Nik-Zainal, Serena, Murtaza, Muhammed, Friedman, Nir, Markowetz, Florian, Seoane, Joan, Caldas, Carlos
Vydáno v Cell Rep (2019)

HRDetect is a predictor of BRCA1 and BRCA2 deficiency based on mutational-signatures

Autor Davies, Helen, Glodzik, Dominik, Morganella, Sandro, Yates, Lucy R., Staaf, Johan, Zou, Xueqing, Ramakrishna, Manasa, Martin, Sancha, Boyault, Sandrine, Sieuwerts, Anieta M., Simpson, Peter T., King, Tari A., Raine, Keiran, Eyfjord, Jorunn E., Kong, Gu, Borg, Åke, Birney, Ewan, Stunnenberg, Hendrik G., van de Vijver, Marc J., Børresen-Dale, Anne-Lise, Martens, John W.M., Span, Paul N., Lakhani, Sunil R, Vincent-Salomon, Anne, Sotiriou, Christos, Tutt, Andrew, Thompson, Alastair M., Van Laere, Steven, Richardson, Andrea L., Viari, Alain, Campbell, Peter J, Stratton, Michael R., Nik-Zainal, Serena
Vydáno v Nat Med (2017)

The topography of mutational processes in breast cancer genomes

Autor Morganella, Sandro, Alexandrov, Ludmil B., Glodzik, Dominik, Zou, Xueqing, Davies, Helen, Staaf, Johan, Sieuwerts, Anieta M., Brinkman, Arie B., Martin, Sancha, Ramakrishna, Manasa, Butler, Adam, Kim, Hyung-Yong, Borg, Åke, Sotiriou, Christos, Futreal, P. Andrew, Campbell, Peter J., Span, Paul N., Van Laere, Steven, Lakhani, Sunil R., Eyfjord, Jorunn E., Thompson, Alastair M., Stunnenberg, Hendrik G., van de Vijver, Marc J., Martens, John W. M., Børresen-Dale, Anne-Lise, Richardson, Andrea L., Kong, Gu, Thomas, Gilles, Sale, Julian, Rada, Cristina, Stratton, Michael R., Birney, Ewan, Nik-Zainal, Serena
Vydáno v Nat Commun (2016)

Landscape of somatic mutations in 560 breast cancer whole genome sequences

Autor Nik-Zainal, Serena, Davies, Helen, Staaf, Johan, Ramakrishna, Manasa, Glodzik, Dominik, Zou, Xueqing, Martincorena, Inigo, Alexandrov, Ludmil B., Martin, Sancha, Wedge, David C., Van Loo, Peter, Ju, Young Seok, Smid, Marcel, Brinkman, Arie B, Morganella, Sandro, Aure, Miriam R., Lingjærde, Ole Christian, Langerød, Anita, Ringnér, Markus, Ahn, Sung-Min, Boyault, Sandrine, Brock, Jane E., Broeks, Annegien, Butler, Adam, Desmedt, Christine, Dirix, Luc, Dronov, Serge, Fatima, Aquila, Foekens, John A., Gerstung, Moritz, Hooijer, Gerrit KJ, Jang, Se Jin, Jones, David R., Kim, Hyung-Yong, King, Tari A., Krishnamurthy, Savitri, Lee, Hee Jin, Lee, Jeong-Yeon, Li, Yilong, McLaren, Stuart, Menzies, Andrew, Mustonen, Ville, O’Meara, Sarah, Pauporté, Iris, Pivot, Xavier, Purdie, Colin A., Raine, Keiran, Ramakrishnan, Kamna, Rodríguez-González, F. Germán, Romieu, Gilles, Sieuwerts, Anieta M., Simpson, Peter T, Shepherd, Rebecca, Stebbings, Lucy, Stefansson, Olafur A, Teague, Jon, Tommasi, Stefania, Treilleux, Isabelle, Van den Eynden, Gert G., Vermeulen, Peter, Vincent-Salomon, Anne, Yates, Lucy, Caldas, Carlos, van’t Veer, Laura, Tutt, Andrew, Knappskog, Stian, Tan, Benita Kiat Tee, Jonkers, Jos, Borg, Åke, Ueno, Naoto T, Sotiriou, Christos, Viari, Alain, Futreal, P. Andrew, Campbell, Peter J, Span, Paul N., Van Laere, Steven, Lakhani, Sunil R, Eyfjord, Jorunn E., Thompson, Alastair M., Birney, Ewan, Stunnenberg, Hendrik G, van de Vijver, Marc J, Martens, John W.M., Børresen-Dale, Anne-Lise, Richardson, Andrea L., Kong, Gu, Thomas, Gilles, Stratton, Michael R.
Vydáno v Nature (2016)