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

od Nik-Zainal, Serena, Morganella, Sandro
Izdano u Clin Cancer Res (2017)

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

od Morganella, Sandro, Zoppoli, Pietro, Ceccarelli, Michele
Izdano 2009

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

od Zoppoli, Pietro, Morganella, Sandro, Ceccarelli, Michele
Izdano 2010

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

od Anjum, Samreen, Morganella, Sandro, D’Angelo, Fulvio, Iavarone, Antonio, Ceccarelli, Michele
Izdano u BMC Bioinformatics (2015)

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

od Georgakopoulos-Soares, Ilias, Morganella, Sandro, Jain, Naman, Hemberg, Martin, Nik-Zainal, Serena
Izdano u Genome Res (2018)

Short inverted repeats contribute to localized mutability in human somatic cells

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

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

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

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

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

The genome as a record of environmental exposure

od 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.
Izdano u Mutagenesis (2015)

A Compendium of Mutational Signatures of Environmental Agents

od 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
Izdano u Cell (2019)

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

od 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
Izdano u Transl Oncol (2021)

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

od 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
Izdano u Nat Cancer (2020)

The repertoire of mutational signatures in human cancer

od 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.
Izdano u Nature (2020)

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

od 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.
Izdano u Nat Commun (2019)

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

od 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
Izdano u Nat Genet (2017)

The Genomic and Immune Landscapes of Lethal Metastatic Breast Cancer

od 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
Izdano u Cell Rep (2019)

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

od 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
Izdano u Nat Med (2017)

The topography of mutational processes in breast cancer genomes

od 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
Izdano u Nat Commun (2016)

Landscape of somatic mutations in 560 breast cancer whole genome sequences

od 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.
Izdano u Nature (2016)