Exploring the OncoGenomic Landscape of cancer by Lidia Mateo, Oriol Guitart-Pla, Miquel Duran-Frigola, Patrick Aloy

“…Results We present OncoGenomic Landscapes, a framework to analyze and display thousands of cancer genomic profiles in a 2D space. …”
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Oncogenomic Changes in Pancreatic Cancer and Their Detection in Stool by Heidelinde Sammallahti, Virinder Kaur Sarhadi, Arto Kokkola, Reza Ghanbari, Sama Rezasoltani, Hamid Asadzadeh Aghdaei, Pauli Puolakkainen, Sakari Knuutila

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canEvolve: a web portal for integrative oncogenomics. by Mehmet Kemal Samur, Zhenyu Yan, Xujun Wang, Qingyi Cao, Nikhil C Munshi, Cheng Li, Parantu K Shah

“…The presence of multiple data types, novel integrative analysis for identifying regulators of oncogenesis, network analysis and ability to query gene lists/pathways are distinctive features of canEvolve. canEvolve will facilitate integrative and meta-analysis of oncogenomics datasets.The canEvolve web portal is available at http://www.canevolve.org/.…”
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A mainstreaming oncogenomics model: improving the identification of Lynch syndrome by Rosie O’Shea, Ashley Crook, Chris Jacobs, Maira Kentwell, Maira Kentwell, Margaret Gleeson, Katherine M. Tucker, Heather Hampel, Alanna Kulchak Rahm, Natalie Taylor, Natalie Taylor, Sarah Lewis, Nicole M. Rankin, Nicole M. Rankin

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Aberrant Splicing Events and Epigenetics in Viral Oncogenomics: Current Therapeutic Strategies by Flavia Zita Francies, Zodwa Dlamini

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Cross-species oncogenomics offers insight into human muscle-invasive bladder cancer by Kim Wong, Federico Abascal, Latasha Ludwig, Heike Aupperle-Lellbach, Julia Grassinger, Colin W. Wright, Simon J. Allison, Emma Pinder, Roger M. Phillips, Laura P. Romero, Arnon Gal, Patrick J. Roady, Isabel Pires, Franco Guscetti, John S. Munday, Maria C. Peleteiro, Carlos A. Pinto, Tânia Carvalho, João Cota, Elizabeth C. Du Plessis, Fernando Constantino-Casas, Stephanie Plog, Lars Moe, Simone de Brot, Ingrid Bemelmans, Renée Laufer Amorim, Smitha R. Georgy, Justina Prada, Jorge del Pozo, Marianne Heimann, Louisiane de Carvalho Nunes, Outi Simola, Paolo Pazzi, Johan Steyl, Rodrigo Ubukata, Peter Vajdovich, Simon L. Priestnall, Alejandro Suárez-Bonnet, Franco Roperto, Francesca Millanta, Chiara Palmieri, Ana L. Ortiz, Claudio S. L. Barros, Aldo Gava, Minna E. Söderström, Marie O’Donnell, Robert Klopfleisch, Andrea Manrique-Rincón, Inigo Martincorena, Ingrid Ferreira, Mark J. Arends, Geoffrey A. Wood, David J. Adams, Louise van der Weyden

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A Framework for Prediction of Oncogenomic Progression Aiding Personalized Treatment of Gastric Cancer by Fahad M. Alotaibi, Yaser Daanial Khan

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Feline Oncogenomics: What Do We Know about the Genetics of Cancer in Domestic Cats? by Latasha Ludwig, Melanie Dobromylskyj, Geoffrey A. Wood, Louise van der Weyden

“…In humans, an understanding of the oncogenome of different cancer types has proven critical and is deeply interwoven into all aspects of patient care, including diagnostics, prognostics and treatments through the application of targeted therapies. …”
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C-type lectin receptors and RIG-I-like receptors: new points on the oncogenomics map by Yuzhalin AE, Kutikhin AG

“…The list of the most promising polymorphisms for oncogenomic investigations may include rs1926736, rs2478577, rs2437257, rs691005, rs2287886, rs735239, rs4804803, rs16910526, rs36055726, rs11795404, and rs10813831.Keywords: C-type lectin receptors, RIG-I-like receptors, cancer, single nucleotide polymorphisms, genetic variation, inflammation…”
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Computing Molecular Signatures as Optima of a Bi-Objective Function: Method and Application to Prediction in Oncogenomics by Vincent Gardeux, Rachid Chelouah, Maria F. Barbosa Wanderley, Patrick Siarry, Antônio P. Braga, Fabien Reyal, Roman Rouzier, Lajos Pusztai, René Natowicz

“…Conclusions Defining molecular signatures as the optima of a bi-objective function that combined the signature size and the interclass distance was well founded and efficient for prediction in oncogenomics. The complexity of the computation was very low because the optimal signatures were the sets of genes in the ranking of their valuation. …”
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Bridging the educational gaps of health professionals in oncogenomics: results from a pilot e-learning course by Emilia Stellacci, Simone Martinelli, Pietro Carbone, Elena Demuru, Maurizio Genuardi, Maurizio Genuardi, Paola Ghiorzo, Paola Ghiorzo, Giuseppe Novelli, Alessandra Di Pucchio, Federica Maria Regini, Debora Guerrera, Andrea Vittozzi, Donatella Barbina, Serenella Venanzi, Marc van den Bulcke, Stefania Boccia, Alfonso Mazzaccara, Arcangela De Nicolo, Roberta De Angelis

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Prognosis and oncogenomic profiling of patients with tropomyosin receptor kinase fusion cancer in the 100,000 genomes project by John Bridgewater, Xiaolong Jiao, Mounika Parimi, Clare Flach, Jeran Stratford, Atanas Kamburov, Arndt A. Schmitz, Jihong Zong, John A. Reeves, Karen Keating, Amanda Bruno, Marc Fellous, Mariana Buongermino Pereira, Lyudmila Bazhenova

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Comparative oncogenomics identifies combinations of driver genes and drug targets in BRCA1-mutated breast cancer by Stefano Annunziato, Julian R. de Ruiter, Linda Henneman, Chiara S. Brambillasca, Catrin Lutz, François Vaillant, Federica Ferrante, Anne Paulien Drenth, Eline van der Burg, Bjørn Siteur, Bas van Gerwen, Roebi de Bruijn, Martine H. van Miltenburg, Ivo J. Huijbers, Marieke van de Ven, Jane E. Visvader, Geoffrey J. Lindeman, Lodewyk F. A. Wessels, Jos Jonkers

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Comparative Oncogenomic Analysis of Copy Number Alterations in Human and Zebrafish Tumors Enables Cancer Driver Discovery by Zhang, GuangJun, Hoersch, Sebastian, Amsterdam, Adam, Whittaker, Charles A., Beert, Eline, Catchen, Julian M., Postlethwait, John H., Legius, Eric, Farrington, Sarah M., Hopkins, Nancy H., Lees, Jacqueline

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Transcriptomic analysis reveals a tissue-specific loss of identity during ageing and cancer by Gabriel Arantes dos Santos, Kasit Chatsirisupachai, Roberto A. Avelar, João Pedro de Magalhães

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Profiling genetic mutations in the DNA damage repair genes of oral squamous cell carcinoma patients from Pakistan by Wafa Naeem, Fouzia Nawab, Muhammad Tahir Sarwar, Ali Talha Khalil, Dalia Ali Gaber, Hilal Ahmad, Muhammad Fazeel, Mohammed Alorini, Ishtiaq Ahmad Khan, Muhammad Irfan, Muslim Khan, Syed Ali Khurram, Asif Ali

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Integrative Network Fusion: A Multi-Omics Approach in Molecular Profiling by Marco Chierici, Nicole Bussola, Nicole Bussola, Alessia Marcolini, Margherita Francescatto, Margherita Francescatto, Alessandro Zandonà, Lucia Trastulla, Claudio Agostinelli, Giuseppe Jurman, Cesare Furlanello, Cesare Furlanello

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Advancements in pathology: Digital transformation, precision medicine, and beyond by Sana Ahuja, Sufian Zaheer

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Weighted gene coexpression network analysis and machine learning reveal oncogenome associated microbiome plays an important role in tumor immunity and prognosis in pan-cancer by Shi-Wei Guan, Quan Lin, Xi-Dong Wu, Hai-Bo Yu

“…Correlation analysis between the microbial and mRNA modules was conducted to identify oncogenome associated microbiome module (OAM) modules, with three microbial modules selected for each tumor type. …”
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Smart Sensors and Microtechnologies in the Precision Medicine Approach against Lung Cancer by Giulia Maria Stella, Sara Lettieri, Davide Piloni, Ilaria Ferrarotti, Fabio Perrotta, Angelo Guido Corsico, Chandra Bortolotto

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