Genomics and Proteomics
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Submissions from 2024 2024

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Large-scale genome-wide association study of 398,238 women unveils seven novel loci associated with high-grade serous epithelial ovarian cancer risk., Daniel R Barnes, Jonathan P Tyrer, Joe Dennis, Goska Leslie, Manjeet K Bolla, Michael Lush, Amber M Aeilts, Kristiina Aittomäki, Nadine Andrieu, Irene L Andrulis, Hoda Anton-Culver, Adalgeir Arason, Banu K Arun, Judith Balmaña, Elisa V Bandera, Rosa B Barkardottir, Lieke P V Berger, Amy Berrington de Gonzalez, Pascaline Berthet, Katarzyna Białkowska, Line Bjørge, Amie M Blanco, Marinus J Blok, Kristie A Bobolis, Natalia V Bogdanova, James D Brenton, Henriett Butz, Saundra S Buys, Maria A Caligo, Ian Campbell, Carmen Castillo, Kathleen B M Claes, Sarah V Colonna, Linda S Cook, Mary B Daly, Agnieszka Dansonka-Mieszkowska, Miguel de la Hoya, Anna deFazio, Allison DePersia, Yuan Chun Ding, Susan M Domchek, Thilo Dörk, Zakaria Einbeigi, Christoph Engel, D Gareth Evans, Lenka Foretova, Renée T Fortner, Florentia Fostira, Maria Cristina Foti, Eitan Friedman, Megan N Frone, Patricia A Ganz, Aleksandra Gentry-Maharaj, Gord Glendon, Andrew K Godwin, Anna González-Neira, Mark H Greene, Jacek Gronwald, Aliana Guerrieri-Gonzaga, Ute Hamann, Thomas V O Hansen, Holly R Harris, Jan Hauke, Florian Heitz, Frans B L Hogervorst, Maartje J Hooning, John L Hopper, Chad D Huff, David G Huntsman, Evgeny N Imyanitov, Louise Izatt, Anna Jakubowska, Paul A James, Ramunas Janavicius, Esther M John, Siddhartha Kar, Beth Y Karlan, Catherine J Kennedy, Lambertus A L M Kiemeney, Irene Konstantopoulou, Jolanta Kupryjanczyk, Yael Laitman, Ofer Lavie, Kate Lawrenson, Jenny Lester, Fabienne Lesueur, Carlos Lopez-Pleguezuelos, Phuong L Mai, Siranoush Manoukian, Taymaa May, Iain A McNeish, Usha Menon, Roger L Milne, Francesmary Modugno, Jennifer M Mongiovi, Marco Montagna, Kirsten B Moysich, Susan L Neuhausen, Finn C Nielsen, Catherine Noguès, Edit Oláh, Olufunmilayo I Olopade, Ana Osorio, Laura Papi, Harsh Pathak, Celeste L Pearce, Inge S Pedersen, Ana Peixoto, Tanja Pejovic, Pei-Chen Peng, Beth N Peshkin, Paolo Peterlongo, C Bethan Powell, Darya Prokofyeva, Miquel Angel Pujana, Paolo Radice, Muhammad U Rashid, Gad Rennert, George Richenberg, Dale P Sandler, Naoko Sasamoto, Veronica W Setiawan, Priyanka Sharma, Weiva Sieh, Christian F Singer, Katie Snape, Anna P Sokolenko, Penny Soucy, Melissa C Southey, Dominique Stoppa-Lyonnet, Rebecca Sutphen, Christian Sutter, Manuel R Teixeira, Kathryn L Terry, Liv Cecilie V Thomsen, Marc Tischkowitz, Amanda E Toland, Toon Van Gorp, Ana Vega, Digna R Velez Edwards, Penelope M Webb, Jeffrey N Weitzel, Nicolas Wentzensen, Alice S Whittemore, Stacey J Winham, Anna H Wu, Siddhartha Yadav, Yao Yu, Argyrios Ziogas, Andrew Berchuck, Fergus J Couch, Ellen L Goode, Marc T Goodman, Alvaro N Monteiro, Kenneth Offit, Susan J Ramus, Harvey A Risch, Joellen M Schildkraut, Mads Thomassen, Jacques Simard, Douglas F Easton, Michelle R Jones, Georgia Chenevix-Trench, Simon A Gayther, Antonis C Antoniou, and Paul D P Pharoah

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Sunitinib in Patients With Breast Cancer With, Carmen J Calfa, Michael Rothe, Pam K Mangat, Elizabeth Garrett-Mayer, Eugene R Ahn, Monika L Burness, Keerthi Gogineni, Nitin Rohatgi, Tareq Al Baghdadi, Alison Conlin, Anu Gaba, Omid Hamid, Jairam Krishnamurthy, Naga Jyothi Gavini, Philip J Gold, Jordi Rodon, Jens Rueter, Ramya Thota, Gina N Grantham, Dominique C Hinshaw, Abigail Gregory, Susan Halabi, and Richard L Schilsky

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Metagenomic estimation of dietary intake from human stool., Christian Diener and Sean M Gibbons

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The relationship between 11 different polygenic longevity scores, parental lifespan, and disease diagnosis in the UK Biobank., Janith Don, Andrew J Schork, Gwênlyn Glusman, Noa Rappaport, Steve R Cummings, David Duggan, Anish Raju, Kajsa-Lotta Georgii Hellberg, Sophia Gunn, Stefano Monti, Thomas Perls, Jodi Lapidus, Laura H Goetz, Paola Sebastiani, and Nicholas J Schork

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Genome Evolution and Introgression in the New Zealand mud Snails Potamopyrgus estuarinus and Potamopyrgus kaitunuparaoa., Peter D Fields, Joseph R Jalinsky, Laura Bankers, Kyle E McElroy, Joel Sharbrough, Chelsea Higgins, Mary Morgan-Richards, Jeffrey L Boore, Maurine Neiman, and John M Logsdon

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Population Screening for High-Risk Patient Identification Partnership with CARE-Comprehensive Assessment, Risk, and Education., Ora K Gordon, Brad Bott, Nanor Parseghian, Kimberly K Childers, and Sandra Brown

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Multi-Cancer Early Detection Testing (MCED), Ora K Gordon, Brad Bott, Nanor Parseghian, Paul Psychogios, Kimberly K Childers, and Sandra Brown

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Digital Pathology for Better Clinical Practice., Assia Hijazi, Carlo Bifulco, Pamela Baldin, and Jérôme Galon

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Hidden secrets of the cancer genome: unlocking the impact of non-coding mutations in gene regulatory elements., Sandra Iñiguez-Muñoz, Pere Llinàs-Arias, Miquel Ensenyat-Mendez, Andrés F Bedoya-López, Javier I Orozco, Javier Cortés, Ananya Roy, Karin Forsberg-Nilsson, Maggie L DiNome, and Diego M Marzese

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Multi-omic profiling of simultaneous ductal carcinoma in situ and invasive breast cancer., Henry G Kaplan, Alexa K Dowdell, Anna B Berry, Racheli Ben Shimol, Fred L Robinson, Christopher A Carney, and Brian D. Piening

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The Genomic, Transcriptomic, and Immunologic Landscape of, Samuel A Kareff, Asaad Trabolsi, Harris B Krause, Timothy Samec, Andrew Elliott, Estelamari Rodriguez, Coral Olazagasti, Dionysios C Watson, Matias A Bustos, Dave SB Hoon, Stephanie L Graff, Emmanuel S Antonarakis, Sanjay Goel, George Sledge, and Gilberto Lopes

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Correction: Rare predicted loss-of-function variants of type I IFN immunity genes are associated with life-threatening COVID-19., Daniela Matuozzo, Estelle Talouarn, Astrid Marchal, Peng Zhang, Jeremy Manry, Yoann Seeleuthner, Yu Zhang, Alexandre Bolze, Matthieu Chaldebas, Baptiste Milisavljevic, Adrian Gervais, Paul Bastard, Takaki Asano, Lucy Bizien, Federica Barzaghi, Hassan Abolhassani, Ahmad Abou Tayoun, Alessandro Aiuti, Ilad Alavi Darazam, Luis M Allende, Rebeca Alonso-Arias, Andrés Augusto Arias, Gokhan Aytekin, Peter Bergman, Simone Bondesan, Yenan T Bryceson, Ingrid G Bustos, Oscar Cabrera-Marante, Sheila Carcel, Paola Carrera, Giorgio Casari, Khalil Chaïbi, Roger Colobran, Antonio Condino-Neto, Laura E Covill, Ottavia M Delmonte, Loubna El Zein, Carlos Flores, Peter K Gregersen, Marta Gut, Filomeen Haerynck, Rabih Halwani, Selda Hancerli, Lennart Hammarström, Nevin Hatipoğlu, Adem Karbuz, Sevgi Keles, Christèle Kyheng, Rafael Leon-Lopez, Jose Luis Franco, Davood Mansouri, Javier Martinez-Picado, Ozge Metin Akcan, Isabelle Migeotte, Pierre-Emmanuel Morange, Guillaume Morelle, Andrea Martin-Nalda, Giuseppe Novelli, Antonio Novelli, Tayfun Ozcelik, Figen Palabiyik, Qiang Pan-Hammarström, Rebeca Pérez de Diego, Laura Planas-Serra, Daniel E Pleguezuelo, Carolina Prando, Aurora Pujol, Luis Felipe Reyes, Jacques G Rivière, Carlos Rodriguez-Gallego, Julian Rojas, Patrizia Rovere-Querini, Agatha Schlüter, Mohammad Shahrooei, Ali Sobh, Pere Soler-Palacin, Yacine Tandjaoui-Lambiotte, Imran Tipu, Cristina Tresoldi, Jesus Troya, Diederik van de Beek, Mayana Zatz, Pawel Zawadzki, Saleh Zaid Al-Muhsen, Mohammed Faraj Alosaimi, Fahad M Alsohime, Hagit Baris-Feldman, Manish J Butte, Stefan N Constantinescu, Megan A Cooper, Clifton L Dalgard, Jacques Fellay, James R Heath, Yu-Lung Lau, Richard P Lifton, Tom Maniatis, Trine H Mogensen, Horst von Bernuth, Alban Lermine, Michel Vidaud, Anne Boland, Jean-François Deleuze, Robert Nussbaum, Amanda Kahn-Kirby, France Mentre, Sarah Tubiana, Guy Gorochov, Florence Tubach, Pierre Hausfater, Isabelle Meyts, Shen-Ying Zhang, Anne Puel, Luigi D Notarangelo, Stephanie Boisson-Dupuis, Helen C Su, Bertrand Boisson, Emmanuelle Jouanguy, Jean-Laurent Casanova, Qian Zhang, Laurent Abel, and Aurélie Cobat

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Immunogenomics and spatial proteomic mapping highlight distinct neuro-immune architectures in melanoma vs. non-melanoma-derived brain metastasis, Alberto Mendoza-Valderrey, Ethan Dettmann, Douglas Hanes, Daria Kessler, Ludmila Danilova, Kai Rau, Yueqin Quan, Stacey Stern, Garni Barkhoudarian, Carlo Bifulco, K A Margolin, Steven E Kolker, and Maria Ascierto

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A genome scale transcriptional regulatory model of the human placenta., Alison Paquette, Kylia Ahuna, Yeon Mi Hwang, Jocelynn Pearl, Hanna Liao, Paul Shannon, Leena Kadam, Samantha Lapehn, Matthew Bucher, Ryan Roper, Cory C Funk, James MacDonald, Theo Bammler, Priyanka Baloni, Heather Brockway, W Alex Mason, Nicole Bush, Kaja Z Lewinn, Catherine J Karr, John Stamatoyannopoulos, Louis J Muglia, Helen Jones, Yoel Sadovsky, Leslie Myatt, Sheela Sathyanarayana, and Nathan D Price

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Gene regulatory network topology governs resistance and treatment escape in glioma stem-like cells., James H Park, Parvinder Hothi, Adrian Lopez Garcia de Lomana, Min Pan, Rachel Calder, Serdar Turkarslan, Wei-Ju Wu, Hwahyung Lee, Anoop P Patel, Charles Cobbs, Sui Huang, and Nitin Baliga

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Aberrant DNA methylation distorts developmental trajectories in atypical teratoid/rhabdoid tumors., Meeri Pekkarinen, Kristiina Nordfors, Joonas Uusi-Mäkelä, Ville Kytölä, Anja Hartewig, Laura Huhtala, Minna Rauhala, Henna Urhonen, Sergei Häyrynen, Ebrahim Afyounian, Olli Yli-Harja, Wei Zhang, Pauli Helen, Olli Lohi, Hannu Haapasalo, Joonas Haapasalo, Matti Nykter, Juha Kesseli, and Kirsi J Rautajoki

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Genome-wide association analyses of ovarian cancer patients undergoing primary debulking surgery identify candidate genes for residual disease., Dhanya Ramachandran, Jonathan P Tyrer, Stefan Kommoss, Anna DeFazio, Marjorie J Riggan, AOCS Group, Penelope M Webb, Peter A Fasching, Diether Lambrechts, María J García, Cristina Rodríguez-Antona, Marc T Goodman, Francesmary Modugno, Kirsten B Moysich, Beth Y Karlan, Jenny Lester, Susanne K Kjaer, Allan Jensen, Estrid Høgdall, Ellen L Goode, William A Cliby, Amanika Kumar, Chen Wang, Julie M Cunningham, Stacey J Winham, Alvaro N Monteiro, Joellen M Schildkraut, Daniel W Cramer, Kathryn L Terry, Linda Titus, Line Bjorge, Liv Cecilie Vestrheim Thomsen, OPAL Study Group, Tanja Pejovic, Claus K Høgdall, Iain A McNeish, Taymaa May, David G Huntsman, Jacobus Pfisterer, Ulrich Canzler, Tjoung-Won Park-Simon, Willibald Schröder, Antje Belau, Lars Hanker, Philipp Harter, Jalid Sehouli, Rainer Kimmig, Nikolaus de Gregorio, Barbara Schmalfeldt, Klaus Baumann, Felix Hilpert, Alexander Burges, Boris Winterhoff, Peter Schürmann, Lisa-Marie Speith, Peter Hillemanns, Andrew Berchuck, Sharon E Johnatty, Susan J Ramus, Georgia Chenevix-Trench, Paul D P Pharoah, Thilo Dörk, and Florian Heitz

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Exploring the Genomic Landscape of Hepatobiliary Cancers to Establish a Novel Molecular Classification System., Anthony J Scholer, Rebecca Marcus, Mary Garland-Kledzik, Debopriya Ghosh, Miquel Ensenyat-Mendez, Joshua Germany, Juan A Santamaria-Barria, Adam Khader, Javier I Orozco, and Melanie Goldfarb

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A whole-slide foundation model for digital pathology from real-world data., Hanwen Xu, Naoto Usuyama, Jaspreet Bagga, Sheng Zhang, Rajesh Rao, Tristan Naumann, Cliff Wong, Zelalem Gero, Javier González, Yu Gu, Yanbo Xu, Mu Wei, Wenhui Wang, Shuming Ma, Furu Wei, Jianwei Yang, Chunyuan Li, Jianfeng Gao, Jaylen Rosemon, Tucker Bower, Soohee Lee, Roshanthi Weerasinghe, Bill J Wright, Ari Robicsek, Brian Piening, Carlo Bifulco, Sheng Wang, and Hoifung Poon

Submissions from 2023 2023

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Integrated unbiased multiomics defines disease-independent placental clusters in common obstetrical syndromes., Oren Barak, Tyler Lovelace, Samantha Piekos, Tianjiao Chu, Zhishen Cao, Elena Sadovsky, Jean-Francois Mouillet, Yingshi Ouyang, W Tony Parks, Leroy Hood, Nathan D Price, Panayiotis V Benos, and Yoel Sadovsky

Empowering Precision Medicine With Genomics, Multi-Modal AI And Real-World Data, C Bifulco

Spatial Biology: Driving Clinical Trials and Diagnostics in a Multiomics AI-Powered Era, C Bifulco

Spatial Omics: an Evolutionary Prospective, C Bifulco

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spongEffects: ceRNA modules offer patient-specific insights into the miRNA regulatory landscape., Fabio Boniolo, Markus Hoffmann, Norman Roggendorf, Bahar Tercan, Jan Baumbach, Mauro A A Castro, A Gordon Robertson, Dieter Saur, and Markus List

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Single-haplotype comparative genomics provides insights into lineage-specific structural variation during cat evolution., Kevin R Bredemeyer, LaDeana Hillier, Andrew J Harris, Graham M Hughes, Nicole M Foley, Colleen Lawless, Rachel A Carroll, Jessica Storer, Mark A Batzer, Edward S Rice, Brian W Davis, Terje Raudsepp, Stephen J O'Brien, Leslie A Lyons, Wesley C Warren, and William J Murphy

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Diagnostic miRNA Signatures in Paired Tumor, Plasma, and Urine Specimens From Renal Cell Carcinoma Patients., Matias A Bustos, Josh Gottlieb, Jane Choe, Suyeon Ryu, Selena Y Lin, Warren M Allen, David L Krasne, Timothy G Wilson, Dave S B Hoon, and Jennifer M Linehan

Minimal residual disease by circulating tumor DNA as a biomarker of recurrence free survival in resected high-risk melanoma patients treated with mRNA-4157/V940, a personalized cancer vaccine, and pembrolizumab, Matteo S. Carlino, Matthew H. Taylor, and See all authors in comments

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Temporary Knockdown of p53 During Focal Limb Irradiation Increases the Development of Sarcomas., Andrea R Daniel, Chang Su, Nerissa T Williams, Zhiguo Li, Jianguo Huang, Omar Lopez, Lixia Luo, Yan Ma, Lorraine da Silva Campos, Sara R Selitsky, Jennifer L Modliszewski, Siyao Liu, Rosa Hernansaiz-Ballesteros, Yvonne M Mowery, Diana M Cardona, Chang-Lung Lee, and David G Kirsch

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Trans-Proteomic Pipeline: Robust Mass Spectrometry-Based Proteomics Data Analysis Suite., Eric W Deutsch, Luis Mendoza, David D Shteynberg, Michael R Hoopmann, Zhi Sun, Jimmy K Eng, and Robert L Moritz

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Proteomics Standards Initiative at Twenty Years: Current Activities and Future Work., Eric W Deutsch, Juan Antonio Vizcaíno, Andrew R Jones, Pierre-Alain Binz, Henry Lam, Joshua Klein, Wout Bittremieux, Yasset Perez-Riverol, David L Tabb, Mathias Walzer, Sylvie Ricard-Blum, Henning Hermjakob, Steffen Neumann, Tytus D Mak, Shin Kawano, Luis Mendoza, Tim Van Den Bossche, Ralf Gabriels, Nuno Bandeira, Jeremy Carver, Benjamin Pullman, Zhi Sun, Nils Hoffmann, Jim Shofstahl, Yunping Zhu, Luana Licata, Federica Quaglia, Silvio C E Tosatto, and Sandra E Orchard

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Participation in genetic screening: testing different outreach methods across a diverse hospital system based patient population., Lindsay Dickey, Benjamin Gronowski, Kyle Jones, J B Rinaldi, Kate Emery, Jon Clemens, Ora K Gordon, and Keri B Vartanian

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Pembrolizumab in Patients With Tumors With High Tumor Mutational Burden: Results From the Targeted Agent and Profiling Utilization Registry Study., Herbert L Duvivier, Michael Rothe, Pam K Mangat, Elizabeth Garrett-Mayer, Eugene R Ahn, Tareq Al Baghdadi, Ajjai S Alva, Stephanie A Dublis, Timothy L Cannon, Carmen J Calfa, Rui Li, Deepti Behl, Vi K Chiu, Philip J Gold, Alissa S Marr, Kathryn F Mileham, Steven Francis Powell, Jordi Rodon, Ramya Thota, Gina N Grantham, Abigail Gregory, Dominique C Hinshaw, Susan Halabi, and Richard L Schilsky

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Editorial: Translational phenomics and its applications in immunotherapy., Hai Fang, Liye Chen, Leroy Hood, and Qiang Tian

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Effects of HLA single chain trimer design on peptide presentation and stability., Kathryn A K Finton, Peter B Rupert, Della J Friend, Ana Dinca, Erica S Lovelace, Matthew Buerger, Domnita V Rusnac, Ulysses Foote-McNabb, William Chour, James R Heath, Jean S Campbell, Robert H Pierce, and Roland K Strong

Applying Proteogenomics to Identify Cancer’s Non-Canonical Alternative Neoantigens and the Development of Immunotherapies Targeting Those Antigens and Other SLiPs, B Fox

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Inhibition of Microsomal Prostaglandin E2 Synthase Reduces Collagen Deposition in Melanoma Tumors and May Improve Immunotherapy Efficacy by Reducing T-cell Exhaustion., Yasunari Fukuda, Sun-Hee Kim, Matias A Bustos, Sung-Nam Cho, Jason Roszik, Jared K Burks, Hong Kim, Dave S B Hoon, Elizabeth A Grimm, and Suhendan Ekmekcioglu

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Spatial profiling of cancer-associated fibroblasts of sporadic early onset colon cancer microenvironment., Satoru Furuhashi, Matias A Bustos, Shodai Mizuno, Suyeon Ryu, Yalda Naeini, Anton J Bilchik, and Dave SB Hoon

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The neuronal chromatin landscape in adult schizophrenia brains is linked to early fetal development., Kiran Girdhar, Jaroslav Bendl, Andrew M Baumgartner, Karen Therrien, Sanan Venkatesh, Deepika Mathur, Pengfei Dong, Samir Rahman, Steven P Kleopoulos, Ruth Misir, Sarah M Reach, Pavan K Auluck, Stefano Marenco, David A Lewis, Vahram Haroutunian, Cory C Funk, Georgios Voloudakis, Gabriel E Hoffman, John F Fullard, and Panos Roussos

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The neuronal chromatin landscape in adult schizophrenia brains is linked to early fetal development., Kiran Girdhar, Jaroslav Bendl, Andrew Baumgartner, Karen Therrien, Sanan Venkatesh, Deepika Mathur, Pengfei Dong, Samir Rahman, Steven P Kleopoulos, Ruth Misir, Sarah M Reach, Pavan K Auluck, Stefano Marenco, David A Lewis, Vahram Haroutunian, Cory C Funk, Georgios Voloudakis, Gabriel E Hoffman, John F Fullard, and Panos Roussos

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Evidence-based procedures to improve the reliability of circulating miRNA biomarker assays., Sarah R Greytak, Kelly B Engel, Dave S B Hoon, Kevin M Elias, Christina M Lockwood, Ping Guan, and Helen M Moore

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Publisher Correction: The DNA sequence and analysis of human chromosome 14., Roland Heilig, Ralph Eckenberg, Jean-Louis Petit, Núria Fonknechten, Corinne Da Silva, Laurence Cattolico, Michaël Levy, Valérie Barbe, Véronique de Berardinis, Abel Ureta-Vidal, Eric Pelletier, Virginie Vico, Véronique Anthouard, Lee Rowen, Anup Madan, Shizhen Qin, Hui Sun, Hui Du, Kymberlie Pepin, François Artiguenave, Catherine Robert, Corinne Cruaud, Thomas Brüls, Olivier Jaillon, Lucie Friedlander, Gaelle Samson, Philippe Brottier, Susan Cure, Béatrice Ségurens, Franck Anière, Sylvie Samain, Hervé Crespeau, Nissa Abbasi, Nathalie Aiach, Didier Boscus, Rachel Dickhoff, Monica Dors, Ivan Dubois, Cynthia Friedman, Michel Gouyvenoux, Rose James, Anuradha Madan, Barbara Mairey-Estrada, Sophie Mangenot, Nathalie Martins, Manuela Ménard, Sophie Oztas, Amber Ratcliffe, Tristan Shaffer, Barbara Trask, Benoit Vacherie, Chadia Bellemere, Caroline Belser, Marielle Besnard-Gonnet, Delphine Bartol-Mavel, Magali Boutard, Stéphanie Briez-Silla, Stephane Combette, Virginie Dufossé-Laurent, Carolyne Ferron, Christophe Lechaplais, Claudine Louesse, Delphine Muselet, Ghislaine Magdelenat, Emilie Pateau, Emmanuelle Petit, Peggy Sirvain-Trukniewicz, Arnaud Trybou, Nathalie Vega-Czarny, Elodie Bataille, Elodie Bluet, Isabelle Bordelais, Maria Dubois, Corinne Dumont, Thomas Guérin, Sébastien Haffray, Rachid Hammadi, Jacqueline Muanga, Virginie Pellouin, Dominique Robert, Edith Wunderle, Gilbert Gauguet, Alice Roy, Laurent Sainte-Marthe, Jean Verdier, Claude Verdier-Discala, LaDeana Hillier, Lucinda Fulton, John McPherson, Fumihiko Matsuda, Richard Wilson, Claude Scarpelli, Gábor Gyapay, Patrick Wincker, William Saurin, Francis Quétier, Robert Waterston, Leroy Hood, and Jean Weissenbach

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Improved Analysis of Cross-Linking Mass Spectrometry Data with Kojak 2.0, Advanced by Integration into the Trans-Proteomic Pipeline., Michael R Hoopmann, David D Shteynberg, Alex Zelter, Michael Riffle, Andrew S Lyon, David A Agard, Qing Luan, Brad J Nolen, Michael J MacCoss, Trisha N Davis, and Robert L Moritz

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Multi-omic profiling reveals discrepant immunogenic properties and a unique tumor microenvironment among melanoma brain metastases., Gino K In, Jennifer R Ribeiro, Jun Yin, Joanne Xiu, Matias A Bustos, Fumito Ito, Frances Chow, Gabriel Zada, Lindsay Hwang, April K S Salama, Soo J Park, Justin C Moser, Sourat Darabi, Evidio Domingo-Musibay, Maria L Ascierto, Kim Margolin, Jose Lutzky, Geoffrey T Gibney, Michael B Atkins, Benjamin Izar, Dave Hoon, and Ari M VanderWalde

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The Vicious Cycle of Melanoma-Microglia Crosstalk: Inter-Melanoma Variations in the Brain-Metastasis-Promoting IL-6/JAK/STAT3 Signaling Pathway., Sivan Izraely, Shlomit Ben-Menachem, Sapir Malka, Orit Sagi-Assif, Matias A Bustos, Orit Adir, Tsipi Meshel, Maharrish Chelladurai, Suyeon Ryu, Romela Irene Ramos, Metsada Pasmanik-Chor, Dave S B Hoon, and Isaac P Witz

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The Association of Biomolecular Resource Facilities Proteome Informatics Research Group Study on Metaproteomics (iPRG-2020)., Pratik D Jagtap, Michael R Hoopmann, Benjamin A Neely, Antony Harvey, Lukas Käll, Yasset Perez-Riverol, Milky K Abajorga, Julie A Thomas, Susan T Weintraub, and Magnus Palmblad

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Comprehensive Overview of Bottom-Up Proteomics using Mass Spectrometry., Yuming Jiang, Devasahayam Arokia Balaya Rex, Dina Schuster, Benjamin A Neely, Germán L Rosano, Norbert Volkmar, Amanda Momenzadeh, Trenton M Peters-Clarke, Susan B Egbert, Simion Kreimer, Emma H Doud, Oliver M Crook, Amit Kumar Yadav, Muralidharan Vanuopadath, Martín L Mayta, Anna G Duboff, Nicholas M Riley, Robert L Moritz, and Jesse G Meyer

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Interindividual variation in human cortical cell type abundance and expression., Nelson Johansen, Saroja Somasundaram, Kyle J Travaglini, Anna Marie Yanny, Maya Shumyatcher, Tamara Casper, Charles Cobbs, Nick Dee, Richard Ellenbogen, Manuel Ferreira, Jeff Goldy, Junitta Guzman, Ryder P Gwinn, Daniel Hirschstein, Nikolas L Jorstad, C Dirk Keene, Andrew Ko, Boaz P Levi, Jeffrey G Ojemann, Thanh Pham, Nadiya Shapovalova, Daniel Silbergeld, Josef Sulc, Amy Torkelson, Herman Tung, Kimberly Smith, Ed S Lein, Trygve E Bakken, Rebecca D Hodge, and Jeremy A Miller

Integrative omic profiling and analyses in two pig heart to human xenotransplants, B Keating, Brian Piening, and See full list of authors in comments

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Distant metastasis-free survival results from the randomized, phase 2 mRNA-4157-P201/KEYNOTE-942 trial., Adnan Khattak, Matthew H Taylor, and See full list of authors in comments

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Selective enrichment of plasma cell-free messenger RNA in cancer-associated extracellular vesicles., Hyun Ji Kim, Matthew J Rames, Florian Goncalves, C Ward Kirschbaum, Breeshey Roskams-Hieter, Elias Spiliotopoulos, Josephine Briand, Aaron Doe, Joseph Estabrook, Josiah T. Wagner, Emek Demir, Gordon Mills, and Thuy T M Ngo

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2019 Association of Biomolecular Resource Facilities Multi-Laboratory Data-Independent Acquisition Proteomics Study., Joanna Kirkpatrick, Paul M Stemmer, Brian C Searle, Laura E Herring, LeRoy Martin, Mukul K Midha, Brett S Phinney, Baozhen Shan, Magnus Palmblad, Yan Wang, Pratik D Jagtap, and Benjamin A Neely

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Race, Gene Expression Signatures, and Clinical Outcomes of Patients With High-Risk Early Breast Cancer., Beverly Kyalwazi, Christina Yau, Michael J Campbell, Toshio F Yoshimatsu, A Jo Chien, Anne M Wallace, Andres Forero-Torres, Lajos Pusztai, Erin D Ellis, Kathy S Albain, Anne H Blaes, Barbara B Haley, Judy C Boughey, Anthony D Elias, Amy S Clark, Claudine J Isaacs, Rita Nanda, Hyo S Han, Rachel L Yung, Debasish Tripathy, Kristen K Edmiston, Rebecca K Viscusi, Donald W Northfelt, Qamar J Khan, Smita M Asare, Amy Wilson, Gillian L Hirst, Ruixiao Lu, William Fraser Symmans, Douglas Yee, Angela M DeMichele, Laura J van 't Veer, Laura J Esserman, and Olufunmilayo I Olopade

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Chromatin insulation orchestrates matrix metalloproteinase gene cluster expression reprogramming in aggressive breast cancer tumors., Pere Llinàs-Arias, Miquel Ensenyat-Mendez, Sandra Íñiguez-Muñoz, Javier I Orozco, Betsy Valdez, Matthew P Salomon, Chikako Matsuba, Maria Solivellas-Pieras, Andrés F Bedoya-López, Borja Sesé, Anja Mezger, Mattias Ormestad, Fernando Unzueta, Siri H Strand, Alexander D Boiko, E Shelley Hwang, Javier Cortés, Maggie L DiNome, Manel Esteller, Mathieu Lupien, and Diego M Marzese

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3-D chromatin conformation, accessibility, and gene expression profiling of triple-negative breast cancer., Pere Llinàs-Arias, Miquel Ensenyat-Méndez, Javier I Orozco, Sandra Íñiguez-Muñoz, Betsy Valdez, Chuan Wang, Anja Mezger, Eunkyoung Choi, Yan Zhou Tran, Liqun Yao, Franziska Bonath, Remi-André Olsen, Mattias Ormestad, Manel Esteller, Mathieu Lupien, and Diego M Marzese

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Feasibility of circulating tumor DNA (ctDNA) to guide organ preservation in patients with node-negative rectal cancer undergoing neoadjuvant chemotherapy, excision, and observation in the phase II CCTG CO.28 trial, Jonathan M. Loree, Hagen F Kennecke, and See full list of authors in comments

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Hyper-Dependence on NHEJ Enables Synergy Between DNA-PK Inhibitors and Low-Dose Doxorubicin in Leiomyosarcoma., Adrián Mariño-Enríquez, Jan Philipp Novotny, Doga C Gulhan, Isabella Klooster, Antuan V Tran, Macy Kasbo, Meijun Z Lundberg, Wen-Bin Ou, Derrick L Tao, Daniel F Pilco-Janeta, Victor Y Mao, Frank T Zenke, Brittaney A Leeper, Prafulla C Gokhale, Glenn S Cowley, Laurence H Baker, Karla V Ballman, David E Root, Joachim Albers, Peter J Park, Suzanne George, and Jonathan A Fletcher

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Gene expression profiling and multiplex immunofluorescence analysis of bullous pemphigoid immune-related adverse event reveal upregulation of toll-like receptor 4/complement-induced innate immune response and increased density of T, Mario L Marques-Piubelli, Riyad N H Seervai, Kumaran M Mudaliar, Wencai Ma, Denái R Milton, Jing Wang, Aaron Muhlbauer, Edwin R Parra, Luisa M Solis, Priyadharsini Nagarajan, Jodi Speiser, Courtney Hudgens, Woo Cheal Cho, Phyu P Aung, Anisha Patel, Omar Pacha, Kelly C Nelson, Michael T Tetzlaff, Rodabe N Amaria, Carlos A Torres-Cabala, Victor G Prieto, Ignacio I Wistuba, and Jonathan L Curry

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Rare predicted loss-of-function variants of type I IFN immunity genes are associated with life-threatening COVID-19., Daniela Matuozzo, Estelle Talouarn, Astrid Marchal, Peng Zhang, Jeremy Manry, Yoann Seeleuthner, Yu Zhang, Alexandre Bolze, Matthieu Chaldebas, Baptiste Milisavljevic, Adrian Gervais, Paul Bastard, Takaki Asano, Lucy Bizien, Federica Barzaghi, Hassan Abolhassani, Ahmad Abou Tayoun, Alessandro Aiuti, Ilad Alavi Darazam, Luis M Allende, Rebeca Alonso-Arias, Andrés Augusto Arias, Gokhan Aytekin, Peter Bergman, Simone Bondesan, Yenan T Bryceson, Ingrid G Bustos, Oscar Cabrera-Marante, Sheila Carcel, Paola Carrera, Giorgio Casari, Khalil Chaïbi, Roger Colobran, Antonio Condino-Neto, Laura E Covill, Ottavia M Delmonte, Loubna El Zein, Carlos Flores, Peter K Gregersen, Marta Gut, Filomeen Haerynck, Rabih Halwani, Selda Hancerli, Lennart Hammarström, Nevin Hatipoğlu, Adem Karbuz, Sevgi Keles, Christèle Kyheng, Rafael Leon-Lopez, Jose Luis Franco, Davood Mansouri, Javier Martinez-Picado, Ozge Metin Akcan, Isabelle Migeotte, Pierre-Emmanuel Morange, Guillaume Morelle, Andrea Martin-Nalda, Giuseppe Novelli, Antonio Novelli, Tayfun Ozcelik, Figen Palabiyik, Qiang Pan-Hammarström, Rebeca Pérez de Diego, Laura Planas-Serra, Daniel E Pleguezuelo, Carolina Prando, Aurora Pujol, Luis Felipe Reyes, Jacques G Rivière, Carlos Rodriguez-Gallego, Julian Rojas, Patrizia Rovere-Querini, Agatha Schlüter, Mohammad Shahrooei, Ali Sobh, Pere Soler-Palacin, Yacine Tandjaoui-Lambiotte, Imran Tipu, Cristina Tresoldi, Jesus Troya, Diederik van de Beek, Mayana Zatz, Pawel Zawadzki, Saleh Zaid Al-Muhsen, Mohammed Faraj Alosaimi, Fahad M Alsohime, Hagit Baris-Feldman, Manish J Butte, Stefan N Constantinescu, Megan A Cooper, Clifton L Dalgard, Jacques Fellay, James R Heath, Yu-Lung Lau, Richard P Lifton, Tom Maniatis, Trine H Mogensen, Horst von Bernuth, Alban Lermine, Michel Vidaud, Anne Boland, Jean-François Deleuze, Robert Nussbaum, Amanda Kahn-Kirby, France Mentre, Sarah Tubiana, Guy Gorochov, Florence Tubach, Pierre Hausfater, COVID Human Genetic Effort, COVIDeF Study Group, French COVID Cohort Study Group, CoV-Contact Cohort, COVID-STORM Clinicians, COVID Clinicians, Orchestra Working Group, Amsterdam UMC Covid-19 Biobank, NIAID-USUHS COVID Study Group, Isabelle Meyts, Shen-Ying Zhang, Anne Puel, Luigi D Notarangelo, Stephanie Boisson-Dupuis, Helen C Su, Bertrand Boisson, Emmanuelle Jouanguy, Jean-Laurent Casanova, Qian Zhang, Laurent Abel, and Aurélie Cobat

Quality Improvement: Increasing staff and patient awareness of and knowledge of genetic therapy research, Joan Milton

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Integrated analysis of proteomics, epigenomics and metabolomics data revealed divergent pathway activation patterns in the recent versus chronic post-traumatic stress disorder., Seid Muhie, Aarti Gautam, Burook Misganaw, Ruoting Yang, Synthia H Mellon, Allison Hoke, Janine Flory, Bernie Daigle, Kevin Swift, PTSD Systems Biology Consortium, Leroy Hood, Francis J Doyle, Owen M Wolkowitz, Charles R Marmar, Kerry Ressler, Rachel Yehuda, Rasha Hammamieh, and Marti Jett

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Molecular signatures of post-traumatic stress disorder in war-zone-exposed veteran and active-duty soldiers., Seid Muhie, Aarti Gautam, Ruoting Yang, Burook Misganaw, Bernie J Daigle, Synthia H Mellon, Janine D Flory, Duna Abu-Amara, Inyoul Lee, Kai Wang, Ryan Rampersaud, PTSD Systems Biology Consortium, Leroy Hood, Rachel Yehuda, Charles R Marmar, Owen M Wolkowitz, Kerry J Ressler, Francis J Doyle, Rasha Hammamieh, and Marti Jett

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Computational capabilities of a multicellular reservoir computing system., Vladimir Nikolić, Moriah Echlin, Boris Aguilar, and Ilya Shmulevich

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Insights into mammalian TE diversity through the curation of 248 genome assemblies., Austin B Osmanski, Nicole S Paulat, Jenny Korstian, Jenna R Grimshaw, Michaela Halsey, Kevin A M Sullivan, Diana D Moreno-Santillán, Claudia Crookshanks, Jacquelyn Roberts, Carlos Garcia, Matthew G Johnson, Llewellyn D Densmore, Richard D Stevens, Jeb Rosen, Jessica Storer, Robert Hubley, Arian F A Smit, Liliana M Dávalos, Elinor K Karlsson, Kerstin Lindblad-Toh, and David A Ray

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Chiropterans Are a Hotspot for Horizontal Transfer of DNA Transposons in Mammalia., Nicole S Paulat, Jessica Storer, Diana D Moreno-Santillán, Austin B Osmanski, Kevin A M Sullivan, Jenna R Grimshaw, Jennifer Korstian, Michaela Halsey, Carlos J Garcia, Claudia Crookshanks, Jaquelyn Roberts, Arian F A Smit, Robert Hubley, Jeb Rosen, Emma C Teeling, Sonja C Vernes, Eugene Myers, Martin Pippel, Thomas Brown, Michael Hiller, Danny Rojas, Liliana M Dávalos, Kerstin Lindblad-Toh, Elinor K Karlsson, and David A Ray

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Toward structuring real-world data: Deep learning for extracting oncology information from clinical text with patient-level supervision., Sam Preston, Mu Wei, Rajesh Rao, Robert Tinn, Naoto Usuyama, Michael Lucas, Yu Gu, Roshanthi Weerasinghe, Soohee Lee, Brian D. Piening, Paul Tittel, Naveen Valluri, Tristan Naumann, Carlo Bifulco, and Hoifung Poon

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A Network Landscape of HPVOPC Reveals Methylation Alterations as Significant Drivers of Gene Expression via an Immune-Mediated GPCR Signal., Jesse R Qualliotine, Takuya Nakagawa, Sara Brin Rosenthal, Sayed Sadat, Carmen Ballesteros-Merino, Guorong Xu, Adam Mark, Art Nasamran, J Silvio Gutkind, Kathleen M Fisch, Theresa Guo, Bernard A Fox, Zubair Khan, Alfredo A Molinolo, and Joseph A Califano

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A meta-analysis of rice phosphoproteomics data to understand variation in cell signalling across the rice pan-genome., Kerry A Ramsbottom, Ananth Prakash, Yasset Perez Riverol, Oscar Martin Camacho, Zhi Sun, Deepti J Kundu, Emily Bowler-Barnett, Maria Martin, Jun Fan, Dmytro Chebotarov, Kenneth L McNally, Eric W Deutsch, Juan Antonio Vizcaíno, and Andrew R Jones

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Genomic characterization of IDH-mutant astrocytoma progression to grade 4 in the treatment setting., Kirsi J Rautajoki, Serafiina Jaatinen, Anja Hartewig, Aliisa M Tiihonen, Matti Annala, Iida Salonen, Masi Valkonen, Vili Simola, Elisa M Vuorinen, Anni Kivinen, Minna J Rauhala, Riikka Nurminen, Kendra K Maass, Sirpa-Liisa Lahtela, Arja Jukkola, Olli Yli-Harja, Pauli Helén, Kristian W Pajtler, Pekka Ruusuvuori, Joonas Haapasalo, Wei Zhang, Hannu Haapasalo, and Matti Nykter

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ProteomicsML: An Online Platform for Community-Curated Data sets and Tutorials for Machine Learning in Proteomics., Tobias G Rehfeldt, Ralf Gabriels, Robbin Bouwmeester, Siegfried Gessulat, Benjamin A Neely, Magnus Palmblad, Yasset Perez-Riverol, Tobias Schmidt, Juan Antonio Vizcaíno, and Eric W Deutsch

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Editorial: Insights in human and medical genomics: 2022., Jared C. Roach and Maxim B. Freidin

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Unsupervised mRNA-seq classification of heart transplant endomyocardial biopsies., Erick Romero, Esteban Tabak, Gregory Fishbein, Silvio Litovsky, Jose Tallaj, David Liem, Maral Bakir, Yeraz Khachatoorian, Brian Piening, Brendan Keating, Mario Deng, and Martin Cadeiras

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2166 / 8 - Analysis of ctDNA next generation sequencing (NGS) for predicting response to amivantamab and lazertinib among patients with EGFR-mutant NSCLC after progression on osimertinib and platinum-based chemotherapy (CHRYSALIS-2 Cohort A), Rachel E Sanborn and See full list of authors in comments

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Single-molecule Sequencing of an Animal Mitochondrial Genome Reveals Chloroplast-like Architecture and Repeat-mediated Recombination., Joel Sharbrough, Laura Bankers, Emily Cook, Peter D Fields, Joseph Jalinsky, Kyle E McElroy, Maurine Neiman, John M Logsdon, and Jeffrey L Boore

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Prediction of HLA genotypes from single-cell transcriptome data., Benjamin D Solomon, Hong Zheng, Laura W Dillon, Jason D Goldman, Christopher S Hourigan, James R Heath, and Purvesh Khatri

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Genome-wide coancestry reveals details of ancient and recent male-driven reticulation in baboons., Erik F Sørensen, R Alan Harris, Liye Zhang, Muthuswamy Raveendran, Lukas F K Kuderna, Jerilyn A Walker, Jessica Storer, Martin Kuhlwilm, Claudia Fontsere, Lakshmi Seshadri, Christina M Bergey, Andrew S Burrell, Juraj Bergman, Jane E Phillips-Conroy, Fekadu Shiferaw, Kenneth L Chiou, Idrissa S Chuma, Julius D Keyyu, Julia Fischer, Marie-Claude Gingras, Sejal Salvi, Harshavardhan Doddapaneni, Mikkel H Schierup, Mark A Batzer, Clifford J Jolly, Sascha Knauf, Dietmar Zinner, Kyle K-H Farh, Tomas Marques-Bonet, Kasper Munch, Christian Roos, and Jeffrey Rogers

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LIFEHOUSE's Functional Nutrition Examination (Physical Exam, Anthropometrics, and Selected Biomarkers) Informs Personalized Wellness Interventions., Michael Stone, Dan Lukaczer, Christopher R D'Adamo, Nicole Dotson, Andrey Volkov, Deanna Minich, Dina Metti, Michelle Leary, Monique Class, Malisa Carullo, Erik Lundquist, Brent Eck, Jose Ordovas, Joseph Lamb, and Jeffrey Bland

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Detection and editing of the updated Arabidopsis plastid- and mitochondrial-encoded proteomes through PeptideAtlas., Klaas J van Wijk, Stephane Bentolila, Tami Leppert, Qi Sun, Zhi Sun, Luis Mendoza, Margaret Li, and Eric W Deutsch

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Does the Ubiquitination Degradation Pathway Really Reach inside of the Chloroplast? A Re-Evaluation of Mass Spectrometry-Based Assignments of Ubiquitination., Klaas J van Wijk, Tami Leppert, Zhi Sun, and Eric W Deutsch

Location, location, location: spatial analysis of ultrahigh-plex immunofluorescence panel in head and neck cancer, Q Vu, Rom Leidner, Bernard Fox, and See full list of authors in comments

Accurate Prediction of 1p/19q Co-deletion in Oligodendrogliomas Using Comprehensive Genomic Profiling, J Wagner, Carlo Bifulco, Brian Piening, and See full list of authors in comments

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Lifespan-extending interventions induce consistent patterns of fatty acid oxidation in mouse livers., Kengo Watanabe, Tomasz Wilmanski, Priyanka Baloni, Max Robinson, Gonzalo G Garcia, Michael R Hoopmann, Mukul K Midha, David H Baxter, Michal Maes, Seamus R Morrone, Kelly M Crebs, Charu Kapil, Ulrike Kusebauch, Jack Wiedrick, Jodi Lapidus, Lance Pflieger, Christopher Lausted, Jared C Roach, Gwênlyn Glusman, Steven R Cummings, Nicholas J Schork, Nathan D Price, Leroy Hood, Richard A Miller, Robert L Moritz, and Noa Rappaport

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Entropic analysis of antigen-specific CDR3 domains identifies essential binding motifs shared by CDR3s with different antigen specificities., Alexander M Xu, William Chour, Diana C DeLucia, Yapeng Su, Ana Jimena Pavlovitch-Bedzyk, Rachel Ng, Yusuf Rasheed, Mark M Davis, John K Lee, and James R Heath

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P418: A genome sequencing approach to pharmacogenomic profiling across diverse population in a large health system, Li Chi Yuan and Isabelle Lucas-Beckett

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The transition from genomics to phenomics in personalized population health., James T Yurkovich, Simon J Evans, Noa Rappaport, Jeffrey L Boore, Jennifer C Lovejoy, Nathan D Price, and Leroy Hood

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Integrating Genetics, Transcriptomics, and Proteomics in Lung Tissue to Investigate COPD., Yu-Hang Zhang, Michael H Cho, Jarrett D Morrow, Peter J Castaldi, Craig P Hersh, Mukul K Midha, Michael R Hoopmann, Sharon M Lutz, Robert L Moritz, and Edwin K Silverman

Submissions from 2022 2022

940 siRNA screen of upregulated genes identifies targets for a multiantigen polyepitope vaccine to prevent HNSCC, Fnu Alka, James Annis, Brady Bernard, and Sasha Stanton

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Multi-modal molecular programs regulate melanoma cell state., Miles C Andrews, Junna Oba, Chang-Jiun Wu, Haifeng Zhu, Tatiana Karpinets, Caitlin A Creasy, Marie-Andrée Forget, Xiaoxing Yu, Xingzhi Song, Xizeng Mao, A Gordon Robertson, Gabriele Romano, Peng Li, Elizabeth M Burton, Yiling Lu, Robert Szczepaniak Sloane, Khalida M Wani, Kunal Rai, Alexander J Lazar, Lauren E Haydu, Matias A Bustos, Jianjun Shen, Yueping Chen, Margaret B Morgan, Jennifer A Wargo, Lawrence N Kwong, Cara L Haymaker, Elizabeth A Grimm, Patrick Hwu, Dave S B Hoon, Jianhua Zhang, Jeffrey E Gershenwald, Michael A Davies, P Andrew Futreal, Chantale Bernatchez, and Scott E Woodman

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Perspectives in Immunotherapy: meeting report from the Immunotherapy Bridge, December 1st-2nd, 2021., Paolo A Ascierto, Antonio Avallone, Nina Bhardwaj, Carlo Bifulco, Sergio Bracarda, Joshua D Brody, Luigi Buonaguro, Sandra Demaria, Leisha A Emens, Robert L Ferris, Jérôme Galon, Samir N Khleif, Christopher A Klebanoff, Tamara Laskowski, Ignacio Melero, Chrystal M Paulos, Sandro Pignata, Marco Ruella, Inge Marie Svane, Janis M Taube, Bernard A Fox, Patrick Hwu, and Igor Puzanov

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Multi-Omic analyses characterize the ceramide/sphingomyelin pathway as a therapeutic target in Alzheimer's disease., Priyanka Baloni, Matthias Arnold, Luna Buitrago, Kwangsik Nho, Herman Moreno, Kevin Huynh, Barbara Brauner, Gregory Louie, Alexandra Kueider-Paisley, Karsten Suhre, Andrew J Saykin, Kim Ekroos, Peter J Meikle, Leroy Hood, Nathan D Price, Alzheimer’s Disease Metabolomics Consortium, P Murali Doraiswamy, Cory C Funk, A Iván Hernández, Gabi Kastenmüller, Rebecca Baillie, Xianlin Han, and Rima Kaddurah-Daouk

Clinical actionability and therapy selection for advanced NSCLC patients tested using comprehensive genomic profiling, B Bapat, R Weerasignhe, R Meng, A Dowdell, SC Chang, B Schroeder, C Bifulco, and B Piening

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Blocking UBE2N abrogates oncogenic immune signaling in acute myeloid leukemia., Laura Barreyro, Avery M Sampson, Chiharu Ishikawa, Kathleen M Hueneman, Kwangmin Choi, Mario A Pujato, Somchai Chutipongtanate, Michael Wyder, Wendy D Haffey, Eric O'Brien, Mark Wunderlich, Vighnesh Ramesh, Ellen M Kolb, Cem Meydan, Yaseswini Neelamraju, Lyndsey C Bolanos, Susanne Christie, Molly A Smith, Madeline Niederkorn, Tomoya Muto, Santosh Kesari, Francine E Garrett-Bakelman, Boris Bartholdy, Britta Will, Matthew T Weirauch, James C Mulloy, Zartash Gul, Stephen Medlin, Rhett A Kovall, Ari M Melnick, John P Perentesis, Kenneth D Greis, Elmar Nurmemmedov, William L Seibel, and Daniel T Starczynowski

Genomic Models of Practice That Support the Quadruple Aim, Carlo Bifulco

Enhancing Clinical Genomics Datasets with Multimodal EHR Data and Imaging, Carlo Bifulco and Brian Piening

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A Random Forest Genomic Classifier for Tumor Agnostic Prediction of Response to Anti-PD1 Immunotherapy., Emma Bigelow, Suchi Saria, Brian D. Piening, Brendan Curti, Alexa K Dowdell, Roshanthi Weerasinghe, Carlo Bifulco, Walter Urba, Noam Finkelstein, Elana J Fertig, Alex Baras, Neeha Zaidi, Elizabeth Jaffee, and Mark Yarchoan

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Cross-ancestry genome-wide meta-analysis of 61,047 cases and 947,237 controls identifies new susceptibility loci contributing to lung cancer., Jinyoung Byun, Younghun Han, Yafang Li, Jun Xia, Erping Long, Jiyeon Choi, Xiangjun Xiao, Meng Zhu, Wen Zhou, Ryan Sun, Yohan Bossé, Zhuoyi Song, Ann Schwartz, Christine Lusk, Thorunn Rafnar, Kari Stefansson, Tongwu Zhang, Wei Zhao, Rowland W Pettit, Yanhong Liu, Xihao Li, Hufeng Zhou, Kyle M Walsh, Ivan Gorlov, Olga Gorlova, Dakai Zhu, Susan M Rosenberg, Susan Pinney, Joan E Bailey-Wilson, Diptasri Mandal, Mariza de Andrade, Colette Gaba, James C Willey, Ming You, Marshall Anderson, John K Wiencke, Demetrius Albanes, Stephan Lam, Adonina Tardon, Chu Chen, Gary E Goodman, Stig Bojeson, Hermann Brenner, Maria Teresa Landi, Stephen J Chanock, Mattias Johansson, Thomas Muley, Angela Risch, H-Erich Wichmann, Heike Bickeböller, David C Christiani, Gad Rennert, Susanne Arnold, John K Field, Sanjay Shete, Loic Le Marchand, Olle Melander, Hans Brunnstrom, Geoffrey Liu, Angeline S Andrew, Lambertus A Kiemeney, Hongbing Shen, Shanbeh Zienolddiny, Kjell Grankvist, Mikael Johansson, Neil Caporaso, Angela Cox, Yun-Chul Hong, Jian-Min Yuan, Philip Lazarus, Matthew B Schabath, Melinda C Aldrich, Alpa Patel, Qing Lan, Nathaniel Rothman, Fiona Taylor, Linda Kachuri, John S Witte, Lori C Sakoda, Margaret Spitz, Paul Brennan, Xihong Lin, James McKay, Rayjean J Hung, and Christopher I Amos

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DNA methylome combined with chromosome cluster-oriented analysis provides an early signature for cutaneous melanoma aggressiveness., Arnaud Carrier, Cécile Desjobert, Loic Ponger, Laurence Lamant, Matias A Bustos, Jorge Torres-Ferreira, Rui Henrique, Carmen Jeronimo, Luisa Lanfrancone, Audrey Delmas, Gilles Favre, Antoine Daunay, Florence Busato, Dave S B Hoon, Jorg Tost, Chantal Etievant, Joëlle Riond, and Paola B Arimondo

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Analysis of germline-driven ancestry-associated gene expression in cancers., Nyasha Chambwe, Rosalyn W Sayaman, Donglei Hu, Scott Huntsman, Cancer Genome Analysis Network, Anab Kemal, Samantha Caesar-Johnson, Jean C Zenklusen, Elad Ziv, Rameen Beroukhim, and Andrew D Cherniack

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Genomic Correlates of Outcome in Tumor-Infiltrating Lymphocyte Therapy for Metastatic Melanoma., Caitlin A Creasy, Yuzhong Jeff Meng, Marie-Andrée Forget, Tatiana Karpinets, Katarzyna Tomczak, Chip Stewart, Carlos A Torres-Cabala, Shari Pilon-Thomas, Amod A Sarnaik, James J Mule, Levi Garraway, Matias A Bustos, Jianhua Zhang, Sapna P Patel, Adi Diab, Isabella C Glitza, Cassian Yee, Hussein Tawbi, Michael K Wong, Jennifer McQuade, Dave S B Hoon, Michael A Davies, Patrick Hwu, Rodabe N Amaria, Cara Haymaker, Rameen Beroukhim, and Chantale Bernatchez

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The TP53 Database: transition from the International Agency for Research on Cancer to the US National Cancer Institute., Kelvin César de Andrade, Elaine E Lee, Elise M Tookmanian, Chimene A Kesserwan, James J Manfredi, Jessica N Hatton, Jennifer K Loukissas, Jiri Zavadil, Lei Zhou, Magali Olivier, Megan N Frone, Owais Shahzada, William J R Longabaugh, Christian P Kratz, David Malkin, Pierre Hainaut, and Sharon A Savage

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