A mechanistic framework for auxin dependent Arabidopsis root hair elongation to low external phosphate

by Bhosale, Rahul, Giri, Jitender, Pandey, Bipin K, Giehl, Ricardo F H, Hartmann, Anja, Traini, Richard, Truskina, Jekaterina, Leftley, Nicola, Hanlon, Meredith, Swarup, Kamal, Rashed, Afaf, Voß, Ute, Alonso, Jose, Stepanova, Anna, Yun, Jeonga, Ljung, Karin, Brown, Kathleen M, Lynch, Jonathan P, Dolan, Liam, Vernoux, Teva, Bishopp, Anthony, Wells, Darren, von Wirén, Nicolaus, Bennett, Malcolm J, Swarup, Ranjan
Published in Nature communications

Author Correction: A mechanistic framework for auxin dependent Arabidopsis root hair elongation to low external phosphate

by Bhosale, Rahul, Giri, Jitender, Pandey, Bipin K, Giehl, Ricardo F H, Hartmann, Anja, Traini, Richard, Truskina, Jekaterina, Leftley, Nicola, Hanlon, Meredith, Swarup, Kamal, Rashed, Afaf, Voß, Ute, Alonso, Jose, Stepanova, Anna, Yun, Jeonga, Ljung, Karin, Brown, Kathleen M, Lynch, Jonathan P, Dolan, Liam, Vernoux, Teva, Bishopp, Anthony, Wells, Darren, von Wirén, Nicolaus, Bennett, Malcolm J, Swarup, Ranjan
Published in Nature communications

Mutational signatures of ionizing radiation in second malignancies

by Behjati, Sam, Gundem, Gunes, Wedge, David C, Roberts, Nicola D, Tarpey, Patrick S, Cooke, Susanna L, Van Loo, Peter, Alexandrov, Ludmil B, Ramakrishna, Manasa, Davies, Helen, Nik-Zainal, Serena, Hardy, Claire, Latimer, Calli, Raine, Keiran M, Stebbings, Lucy, Menzies, Andy, Jones, David, Shepherd, Rebecca, Butler, Adam P, Teague, Jon W, Jorgensen, Mette, Khatri, Bhavisha, Pillay, Nischalan, Shlien, Adam, Futreal, P Andrew, Badie, Christophe, McDermott, Ultan, Bova, G Steven, Richardson, Andrea L, Flanagan, Adrienne M, Stratton, Michael R, Campbell, Peter J
Published in Nature communications

A comprehensive assessment of somatic mutation detection in cancer using whole-genome sequencing

by Alioto, Tyler S, Buchhalter, Ivo, Derdak, Sophia, Hutter, Barbara, Eldridge, Matthew D, Hovig, Eivind, Heisler, Lawrence E, Beck, Timothy A, Simpson, Jared T, Tonon, Laurie, Sertier, Anne-Sophie, Patch, Ann-Marie, Jäger, Natalie, Ginsbach, Philip, Drews, Ruben, Paramasivam, Nagarajan, Kabbe, Rolf, Chotewutmontri, Sasithorn, Diessl, Nicolle, Previti, Christopher, Schmidt, Sabine, Brors, Benedikt, Feuerbach, Lars, Heinold, Michael, Gröbner, Susanne, Korshunov, Andrey, Tarpey, Patrick S, Butler, Adam P, Hinton, Jonathan, Jones, David, Menzies, Andrew, Raine, Keiran, Shepherd, Rebecca, Stebbings, Lucy, Teague, Jon W, Ribeca, Paolo, Giner, Francesc Castro, Beltran, Sergi, Raineri, Emanuele, Dabad, Marc, Heath, Simon C, Gut, Marta, Denroche, Robert E, Harding, Nicholas J, Yamaguchi, Takafumi N, Fujimoto, Akihiro, Nakagawa, Hidewaki, Quesada, Víctor, Valdés-Mas, Rafael, Nakken, Sigve, Vodák, Daniel, Bower, Lawrence, Lynch, Andrew G, Anderson, Charlotte L, Waddell, Nicola, Pearson, John V, Grimmond, Sean M, Peto, Myron, Spellman, Paul, He, Minghui, Kandoth, Cyriac, Lee, Semin, Zhang, John, Létourneau, Louis, Ma, Singer, Seth, Sahil, Torrents, David, Xi, Liu, Wheeler, David A, López-Otín, Carlos, Campo, Elías, Campbell, Peter J, Boutros, Paul C, Puente, Xose S, Gerhard, Daniela S, Pfister, Stefan M, McPherson, John D, Hudson, Thomas J, Schlesner, Matthias, Lichter, Peter, Eils, Roland, Jones, David T W, Gut, Ivo G
Published in Nature communications

Frequency of the C9orf72 hexanucleotide repeat expansion in patients with amyotrophic lateral sclerosis and frontotemporal dementia: a cross-sectional study

by Majounie, Elisa, PhD, Renton, Alan E, PhD, Mok, Kin, MSc, Dopper, Elise GP, Waite, Adrian, PhD, Rollinson, Sara, PhD, Chiò, Adriano, MD, Restagno, Gabriella, MD, Nicolaou, Nayia, MSc, Simon-Sanchez, Javier, PhD, van Swieten, John C, Prof, Abramzon, Yevgeniya, Johnson, Janel O, PhD, Sendtner, Michael, Prof, Pamphlett, Roger, MD, Orrell, Richard W, MD, Mead, Simon, MD, Sidle, Katie C, MD, Houlden, Henry, Prof, Rohrer, Jonathan D, MD, Morrison, Karen E, Prof, Pall, Hardev, MD, Talbot, Kevin, Prof, Ansorge, Olaf, MD, Hernandez, Dena G, MSc, Arepalli, Sampath, MS, Sabatelli, Mario, MD, Mora, Gabriele, MD, Corbo, Massimo, MD, Giannini, Fabio, MD, Calvo, Andrea, MD, Englund, Elisabet, MD, Borghero, Giuseppe, MD, Floris, Gian Luca, MD, Remes, Anne M, Prof, Laaksovirta, Hannu, MD, McCluskey, Leo, MD, Trojanowski, John Q, Prof, Van Deerlin, Vivianna M, MD, Schellenberg, Gerard D, Prof, Nalls, Michael A, PhD, Drory, Vivian E, MD, Lu, Chin-Song, Prof, Yeh, Tu-Hsueh, MD, Ishiura, Hiroyuki, MD, Takahashi, Yuji, MD, Tsuji, Shoji, Prof, Le Ber, Isabelle, MD, Brice, Alexis, Prof, Drepper, Carsten, PhD, Williams, Nigel, PhD, Kirby, Janine, PhD, Shaw, Pamela, Prof, Hardy, John, Prof, Tienari, Pentti J, MD, Heutink, Peter, Prof, Morris, Huw R, MD, Pickering-Brown, Stuart, Prof, Traynor, Bryan J, Dr
Published in Lancet neurology

A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns

by Jiao, Wei, Atwal, Gurnit, Polak, Paz, Karlic, Rosa, Cuppen, Edwin, Danyi, Alexandra, de Ridder, Jeroen, van Herpen, Carla, Lolkema, Martijn P, Steeghs, Neeltje, Getz, Gad, Morris, Quaid D, Stein, Lincoln D
Published in Nature communications

Integrative pathway enrichment analysis of multivariate omics data

by Paczkowska, Marta, Barenboim, Jonathan, Sintupisut, Nardnisa, Fox, Natalie S, Zhu, Helen, Abd-Rabbo, Diala, Mee, Miles W, Boutros, Paul C, Reimand, Jüri
Published in Nature communications

Divergent mutational processes distinguish hypoxic and normoxic tumours

by Bhandari, Vinayak, Li, Constance H, Bristow, Robert G, Boutros, Paul C
Published in Nature communications

Sex differences in oncogenic mutational processes

by Li, Constance H, Prokopec, Stephenie D, Sun, Ren X, Yousif, Fouad, Schmitz, Nathaniel, Boutros, Paul C
Published in Nature communications

Genomic footprints of activated telomere maintenance mechanisms in cancer

by Sieverling, Lina, Hong, Chen, Koser, Sandra D, Ginsbach, Philip, Kleinheinz, Kortine, Hutter, Barbara, Braun, Delia M, Cortés-Ciriano, Isidro, Xi, Ruibin, Kabbe, Rolf, Park, Peter J, Eils, Roland, Schlesner, Matthias, Brors, Benedikt, Rippe, Karsten, Jones, David T W, Feuerbach, Lars
Published in Nature communications

Pathway and network analysis of more than 2500 whole cancer genomes

by Reyna, Matthew A, Haan, David, Paczkowska, Marta, Verbeke, Lieven P C, Vazquez, Miguel, Kahraman, Abdullah, Pulido-Tamayo, Sergio, Barenboim, Jonathan, Wadi, Lina, Dhingra, Priyanka, Shrestha, Raunak, Getz, Gad, Lawrence, Michael S, Pedersen, Jakob Skou, Rubin, Mark A, Wheeler, David A, Brunak, Søren, Izarzugaza, Jose M G, Khurana, Ekta, Marchal, Kathleen, von Mering, Christian, Sahinalp, S Cenk, Valencia, Alfonso, Reimand, Jüri, Stuart, Joshua M, Raphael, Benjamin J
Published in Nature communications

High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations

by Zhang, Yiqun, Chen, Fengju, Fonseca, Nuno A, He, Yao, Fujita, Masashi, Nakagawa, Hidewaki, Zhang, Zemin, Brazma, Alvis, Creighton, Chad J
Published in Nature communications

Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples

by Bailey, Matthew H, Meyerson, William U, Dursi, Lewis Jonathan, Wang, Liang-Bo, Dong, Guanlan, Liang, Wen-Wei, Weerasinghe, Amila, Li, Shantao, Li, Yize, Kelso, Sean, Saksena, Gordon, Ellrott, Kyle, Wendl, Michael C, Wheeler, David A, Getz, Gad, Simpson, Jared T, Gerstein, Mark B, Ding, Li
Published in Nature communications

Combined burden and functional impact tests for cancer driver discovery using DriverPower

by Shuai, Shimin, Gallinger, Steven, Stein, Lincoln D
Published in Nature communications

Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig

by Rubanova, Yulia, Shi, Ruian, Harrigan, Caitlin F, Li, Roujia, Wintersinger, Jeff, Sahin, Nil, Deshwar, Amit G, Morris, Quaid D
Published in Nature communications

Inferring structural variant cancer cell fraction

by Cmero, Marek, Yuan, Ke, Ong, Cheng Soon, Schröder, Jan, Corcoran, Niall M, Papenfuss, Tony, Hovens, Christopher M, Markowetz, Florian, Macintyre, Geoff
Published in Nature communications

Author Correction: Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples

by Bailey, Matthew H, Meyerson, William U, Dursi, Lewis Jonathan, Wang, Liang-Bo, Dong, Guanlan, Liang, Wen-Wei, Weerasinghe, Amila, Li, Shantao, Li, Yize, Kelso, Sean, Saksena, Gordon, Ellrott, Kyle, Wendl, Michael C, Wheeler, David A, Getz, Gad, Simpson, Jared T, Gerstein, Mark B, Ding, Li
Published in Nature communications