BeWith: A Between-Within method to discover relationships between cancer modules via integrated analysis of mutual exclusivity, co-occurrence and functional interactions von Dao, Phuong, Kim, Yoo-Ah, Wojtowicz, Damian, Madan, Sanna, Sharan, Roded, Przytycka, Teresa M

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Understanding Genotype-Phenotype Effects in Cancer via Network Approaches von Kim, Yoo-Ah, Cho, Dong-Yeon, Przytycka, Teresa M

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Semantic prioritization of novel causative genomic variants von Boudellioua, Imane, Mahamad Razali, Rozaimi B, Kulmanov, Maxat, Hashish, Yasmeen, Bajic, Vladimir B, Goncalves-Serra, Eva, Schoenmakers, Nadia, Gkoutos, Georgios V, Schofield, Paul N, Hoehndorf, Robert

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A Molecular Clock Infers Heterogeneous Tissue Age Among Patients with Barrett's Esophagus von Curtius, Kit, Wong, Chao-Jen, Hazelton, William D, Kaz, Andrew M, Chak, Amitabh, Willis, Joseph E, Grady, William M, Luebeck, E Georg

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Parameter estimation for multistage clonal expansion models from cancer incidence data: A practical identifiability analysis von Brouwer, Andrew F, Meza, Rafael, Eisenberg, Marisa C

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Uncovering and characterizing splice variants associated with survival in lung cancer patients von West, Sean, Kumar, Sushil, Batra, Surinder K, Ali, Hesham, Ghersi, Dario

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HER2+ Cancer Cell Dependence on PI3K vs. MAPK Signaling Axes Is Determined by Expression of EGFR, ERBB3 and CDKN1B von Kirouac, Daniel C, Du, Jinyan, Lahdenranta, Johanna, Onsum, Matthew D, Nielsen, Ulrik B, Schoeberl, Birgit, McDonagh, Charlotte F

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Uncovering the subtype-specific temporal order of cancer pathway dysregulation von Khakabimamaghani, Sahand, Ding, Dujian, Snow, Oliver, Ester, Martin

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MinePath: Mining for Phenotype Differential Sub-paths in Molecular Pathways von Koumakis, Lefteris, Kanterakis, Alexandros, Kartsaki, Evgenia, Chatzimina, Maria, Zervakis, Michalis, Tsiknakis, Manolis, Vassou, Despoina, Kafetzopoulos, Dimitris, Marias, Kostas, Moustakis, Vassilis, Potamias, George

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Epistasis in genomic and survival data of cancer patients von Matlak, Dariusz, Szczurek, Ewa

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graph-GPA: A graphical model for prioritizing GWAS results and investigating pleiotropic architecture von Chung, Dongjun, Kim, Hang J, Zhao, Hongyu

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Predicted Molecular Effects of Sequence Variants Link to System Level of Disease von Reeb, Jonas, Hecht, Maximilian, Mahlich, Yannick, Bromberg, Yana, Rost, Burkhard

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Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets von Samadian, Soroush, Bruce, Jeff P, Pugh, Trevor J

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A Dual Model for Prioritizing Cancer Mutations in the Non-coding Genome Based on Germline and Somatic Events von Li, Jia, Poursat, Marie-Anne, Drubay, Damien, Motz, Arnaud, Saci, Zohra, Morillon, Antonin, Michiels, Stefan, Gautheret, Daniel

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Calibration of computational tools for missense variant pathogenicity classification and ClinGen recommendations for PP3/BP4 criteria von Pejaver, Vikas, Byrne, Alicia B., Feng, Bing-Jian, Pagel, Kymberleigh A., Mooney, Sean D., Karchin, Rachel, O’Donnell-Luria, Anne, Harrison, Steven M., Tavtigian, Sean V., Greenblatt, Marc S., Biesecker, Leslie G., Radivojac, Predrag, Brenner, Steven E., Biesecker, Leslie G., Harrison, Steven M., Tayoun, Ahmad A., Berg, Jonathan S., Brenner, Steven E., Cutting, Garry R., Ellard, Sian, Greenblatt, Marc S., Kang, Peter, Karbassi, Izabela, Karchin, Rachel, Mester, Jessica, O’Donnell-Luria, Anne, Pesaran, Tina, Plon, Sharon E., Rehm, Heidi L., Strande, Natasha T., Tavtigian, Sean V., Topper, Scott

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Using the ACMG/AMP framework to capture evidence related to predicted and observed impact on splicing: Recommendations from the ClinGen SVI Splicing Subgroup von Walker, Logan C., Hoya, Miguel de la, Wiggins, George A.R., Lindy, Amanda, Vincent, Lisa M., Parsons, Michael T., Canson, Daffodil M., Bis-Brewer, Dana, Cass, Ashley, Tchourbanov, Alexander, Zimmermann, Heather, Byrne, Alicia B., Pesaran, Tina, Karam, Rachid, Harrison, Steven M., Spurdle, Amanda B., Biesecker, Leslie G., Harrison, Steven M., Tayoun, Ahmad A., Berg, Jonathan S., Brenner, Steven E., Cutting, Garry R., Ellard, Sian, Greenblatt, Marc S., Kang, Peter, Karbassi, Izabela, Karchin, Rachel, Mester, Jessica, O’Donnell-Luria, Anne, Pesaran, Tina, Plon, Sharon E., Rehm, Heidi L., Strande, Natasha T., Tavtigian, Sean V., Topper, Scott

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Recommendations for application of the functional evidence PS3/BS3 criterion using the ACMG/AMP sequence variant interpretation framework von Brnich, Sarah E, Abou Tayoun, Ahmad N, Couch, Fergus J, Cutting, Garry R, Greenblatt, Marc S, Heinen, Christopher D, Kanavy, Dona M, Luo, Xi, McNulty, Shannon M, Starita, Lea M, Tavtigian, Sean V, Wright, Matt W, Harrison, Steven M, Biesecker, Leslie G, Berg, Jonathan S

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Modulation of gene expression using electrospun scaffolds with templated architecture von Karchin, A., Wang, Y-N., Sanders, J. E.

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Assessment of the evidence yield for the calibrated PP3/BP4 computational recommendations von Stenton, Sarah L., Pejaver, Vikas, Bergquist, Timothy, Biesecker, Leslie G., Byrne, Alicia B., Nadeau, Emily A.W., Greenblatt, Marc S., Harrison, Steven M., Tavtigian, Sean V., Radivojac, Predrag, Brenner, Steven E., O’Donnell-Luria, Anne, Biesecker, Leslie G., Harrison, Steven M., Tayoun, Ahmad A., Berg, Jonathan S., Brenner, Steven E., Cutting, Garry R., Ellard, Sian, Greenblatt, Marc S., Kang, Peter, Karbassi, Izabela, Karchin, Rachel, Mester, Jessica, O’Donnell-Luria, Anne, Pesaran, Tina, Plon, Sharon E., Rehm, Heidi L., Strande, Natasha T., Tavtigian, Sean V., Topper, Scott

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Druggable genomic landscapes of high-grade gliomas von Ghanem, Paola, Fatteh, Maria, Kamson, David Olayinka, Balan, Archana, Chang, Michael, Tao, Jessica, Blakeley, Jaishri, Canzoniero, Jenna, Grossman, Stuart A, Marrone, Kristen, Schreck, Karisa C, Anagnostou, Valsamo

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