• Cancer Discovery  ·  May 10, 2021

    Discovery of candidate DNA methylation cancer driver genes.

    Heng Pan, Loic Renaud, Ronan Chaligne, Johannes Bloehdorn, Eugen Tausch, Daniel Mertens, Anna Maria Fink, Kirsten Fischer, Chao Zhang, Doron Betel, Andreas Gnirke, Marcin Imielinski, Jerome Moreaux, Michael Hallek, Alexander Meissner, Stephan Stilgenbauer, Catherine J. Wu, Olivier Elemento and Dan A. Landau
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  • Nature Immunology  ·  May 6, 2021

    A latent subset of human hematopoietic stem cells resists regenerative stress to preserve stemness.

    Kerstin B. Kaufmann, Andy G. X. Zeng, Etienne Coyaud, Laura Garcia-Prat, Efthymia Papalexi, Alex Murison, Estelle M. N. Laurent, Michelle Chan-Seng-Yue, Olga I. Gan, Kristele Pan, Jessica McLeod, Héléna Boutzen, Sasan Zandi, Shin-ichiro Takayanagi, Rahul Satija, Brian Raught, Stephanie Z. Xie & John E. Dick

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  • Genome Research  ·  May 4, 2021

    The genomic basis of evolutionary differentiation among honey bees.

    Fouks B, Brand P, Nguyen HN, Herman J, Camara F, Ence D, Hagen D, Hoff KJ, Nachweide S, Romoth L, Walden KK, Guigo R, Stanke M, Narzisi G, Yandell M, Robertson HM, Koeniger N, Chantawannakul P, Schatz MC, Worley KC, Robinson GE, Elsik CG, Rueppell
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  • medRxiv  ·  May 3, 2021  ·  Preprint

    Rapid Identification and Phenotyping of Nonalcoholic Fatty Liver Disease Patients Using an Automated Algorithmic Approach in Diverse, Urban Healthcare Systems.

    Anna Okula Basile, Anurag Verma, Leigh Ann Tang, Marina Serper, Andrew Scanga, Ava Farrell, Brittney M Destin, Rotonya M Carr, Anuli Anyanwu-Ofili, Gunaretnam Rajagopal, Abraham Krikhely, Marc Bessler, Muredach P. Reilly, Marylyn D. Ritchie, Joshua Denny, Nicholas P Tatonetti, Julia Wattacheril

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  • Nature Biotechnology  ·  April 29, 2021

    Profiling the genetic determinants of chromatin accessibility with scalable single-cell CRISPR screens.

    Noa Liscovitch-Brauer, Antonino Montalbano, Jiale Deng, Alejandro Méndez-Mancilla, Hans-Hermann Wessels, Nicholas G. Moss, Chia-Yu Kung, Akash Sookdeo, Xinyi Guo, Evan Geller, Suma Jaini, Peter Smibert & Neville E. Sanjana

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  • bioRxiv  ·  April 23, 2021  ·  Preprint

    Cell environment shapes TDP-43 function: implications in neuronal and muscle disease.

    Urša Šušnjar, Neva Škrabar, Anna-Leigh Brown, Yasmine Abbassi, NYGC ALS Consortium, Hemali Phatnani, Andrea Cortese, Cristina Cereda, Enrico Bugiardini, Rosanna Cardani, Giovanni Meola, Michela Ripolone, Maurizio Moggio, Maurizio Romano, Maria Secrier, Pietro Fratta, Emanuele Buratti

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  • J Hered  ·  April 22, 2021

    Feather Gene Expression Elucidates the Developmental Basis of Plumage Iridescence in African Starlings.

    Rubenstein DR, Corvelo A, MacManes MD, Maia R, Narzisi G, Rousaki A, Vandenabeele P, Shawkey MD, Solomon J.
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  • Genome Medicine  ·  April 21, 2021

    Genetic and non-genetic factors affecting the expression of COVID-19 relevant genes in the large airway epithelium.

    Silva Kasela, Victor E Ortega, Molly Martorella, Suresh Garudadri, Jenna Nguyen, Elizabeth Ampleford, Anu Pasanen, Srilaxmi Nerella, Kristina L Buschur, Igor Z Barjaktarevic, R Graham Barr, Eugene R Bleecker, Russell P Bowler, Alejandro P Comellas, Christopher B Cooper, David J Couper, Gerard J Criner, Jeffrey L Curtis, MeiLan K Han, Nadia N Hansel, Eric A Hoffman, Robert J Kaner, Jerry A Krishnan, Fernando J Martinez, Merry-Lynn N McDonald, Deborah A Meyers, Robert Paine III, Stephen P Peters, Mario Castro, Loren C Denlinger, Serpil C Erzurum, John V Fahy, Elliot Israel, Nizar N Jarjour, Bruce D Levy, Xingnan Li, Wendy C Moore, Sally E Wenzel, Joe Zein, NHLBI SubPopulations and InteRmediate Outcome Measures In COPD Study (SPIROMICS), NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium, Charles Langelier, Prescott G Woodruff, Tuuli Lappalainen, Stephanie A Christenson

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  • Genes  ·  April 20, 2021

    Molecular Phylogeny and Evolution of Amazon Parrots in the Greater Antilles.

    Kolchanova S, Komissarov A, Kliver S, Mazo-Vargas A, Afanador Y, Velez-Valentín J, de la Rosa RV, Castro-Marquez S, Rivera-Colon I, Majeske AJ, Wolfsberger WW, Hains T, Corvelo A, Martinez-Cruzado J-C, Glenn TC, Robinson O, Koepfli K-P, Oleksyk TK.

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  • eLife  ·  April 16, 2021

    Improving oligo-conjugated antibody signal in multimodal single-cell analysis.

    Terkild Brink Buus, Alberto Herrera, Ellie Ivanova, Eleni Mimitou, Anthony Cheng, Ramin Herati, Thales Papagiannakopoulos, Peter Smibert, Niels Odum, Sergei B Koralov

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  • bioRxiv  ·  April 13, 2021  ·  Preprint

    Occult polyclonality of preclinical pancreatic cancer models drives in vitro evolution.

    Maria E Monberg, Heather Geiger, Roshan Sharma Jaewon J Lee, Alexander Semaan, Vincent Bernard, Daniel B Swartzlander, Bret M Stephens, Ken Chen, Matthew HG Katz, Nicolas Robine, Paola A Guerrero, Anirban Maitra

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  • Cell  ·  April 13, 2021

    Population-scale tissue transcriptomics maps long non-coding RNAs to complex disease.

    de Goede OM, Nachun DC, Ferraro NM, Gloudemans MJ, Rao AS, Smail C, Eulalio TY, Aguet F, Ng B, Xu J, Barbeira AN, Castel SE, Kim-Hellmuth S, Park Y, Scott AJ, Strober BJ; GTEx Consortium, Brown CD, Wen X, Hall IM, Battle A, Lappalainen T, Im HK, Ardlie KG, Mostafavi S, Quertermous T, Kirkegaard K, Montgomery SB.

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  • PNAS  ·  April 13, 2021

    Integrated mutational landscape analysis of uterine leiomyosarcomas.

    Jungmin Choi, Aranzazu Manzano, Weilai Dong, Stefania Bellone, Elena Bonazzoli, Luca Zammataro, Xiaotong Yao, Aditya Deshpande, Samir Zaidi, Adele Guglielmi, Barbara Gnutti, Nupur Nagarkatti, Joan R. Tymon-Rosario, Justin Harold, Dennis Mauricio, Burak Zeybek, Gulden Menderes, Gary Altwerger, Kyungjo Jeong, Siming Zhao, Natalia Buza, Pei Hui, Antonella Ravaggi, Eliana Bignotti, Chiara Romani, Paola Todeschini, Laura Zanotti, Franco Odicino, Sergio Pecorelli, Laura Ardighieri, Kaya Bilguvar, Charles M. Quick, Dan-Arin Silasi, Gloria S. Huang, Vaagn Andikyan, Mitchell Clark, Elena Ratner, Masoud Azodi, Marcin Imielinski, Peter E. Schwartz, Ludmil B. Alexandrov, Richard P. Lifton, Joseph Schlessinger, and Alessandro D. Santin

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  • Cancer Discovery  ·  April 11, 2021

    Genomics and Cancer Disparities: The Justice and Power of Inclusion.

    Davis MB

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  • bioRxiv  ·  April 8, 2021

    Discovery of target genes and pathways of blood trait loci using pooled CRISPR screens and single cell RNA sequencing.

    John A Morris, Zharko Daniloski, Júlia Domingo, Timothy Barry, Marcello Ziosi, Dafni A Glinos, Stephanie Hao, Eleni Mimitou, Peter Smibert, Kathryn Roeder, Eugene Katsevich, Tuuli Lappalainen, Neville E Sanjana

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  • Cell  ·  April 7, 2021

    Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes.

    Stefan C. Dentro, Ignaty Leshchiner, Kerstin Haase, Maxime Tarabichi, Jeff Wintersinger, Amit G. Deshwar, Kaixian Yu, Yulia Rubanova, Geoff Macintyre, Jonas Demeulemeester, Ignacio Vazquez-Garcıa, Kortine Kleinheinz, Dimitri G. Livitz, Salem Malikic,15 Nilgun Donmez, Subhajit Sengupta, Pavana Anur, Clemency Jolly, Marek Cmero, Daniel Rosebrock,Steven E. Schumacher, Yu Fan, Matthew Fittall, Ruben M. Drews, Xiaotong Yao, Thomas B.K. Watkins, Juhee Lee, Matthias Schlesner, Hongtu Zhu, David J. Adams, Nicholas McGranahan, Charles Swanton, Gad Getz, Paul C. Boutros, Marcin Imielinski, Rameen Beroukhim, S. Cenk Sahinalp, Yuan Ji, Martin Peifer, Inigo Martincorena, Florian Markowetz, Ville Mustonen, Ke Yuan, Moritz Gerstung, Paul T. Spellman, Wenyi Wang, Quaid D. Morris, David C. Wedge, Peter Van Loo, and on behalf of the PCAWG Evolution and Heterogeneity Working Group and the PCAWG Consortium

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  • Nature Communications  ·  April 7, 2021

    Structural variant evolution after telomere crisis.

    Sally M Dewhurst, Xiaotong M Yao, Joel Rosiene, Huasong Tian, Julie Behr, Nazario Bosco, Kaori Takai, Titia de Lange, Marcin Imielinski

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  • bioRxiv  ·  April 4, 2021  ·  Preprint

    Common ALS/FTD risk variants in UNC13A exacerbate its cryptic splicing and loss upon TDP-43 mislocalization

    Anna-Leigh Brown, Oscar G. Wilkins, Matthew J. Keuss, Sarah E. Hill, Matteo Zanovello, Weaverly Colleen Lee, Flora C.Y. Lee, Laura Masino, Yue A. Qi, Sam Bryce-Smith, Alexander Bampton, Ariana Gatt, Hemali Phatnani, NYGC ALS Consortium, Giampietro Schiavo, Elizabeth M.C. Fisher, Towfique Raj, Maria Secrier, Tammaryn Lashley, Jernej Ule, Emanuele Buratti, Jack Humphrey, Michael E. Ward, Pietro Fratta

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  • bioRxiv  ·  April 2, 2021  ·  Preprint

    Induction of Dopaminergic Neurons for Neuronal Subtype-Specific Modeling of Psychiatric Disease Risk.

    Samuel K. Powell, Callan O’Shea, Kayla Townsley, Iya Prytkova, Kristina Dobrindt, Rahat Elahi, Marina Iskhakova, Tova Lambert, Aditi Valada, Will Liao, Seok-Man Ho, Paul A. Slesinger, Laura M. Huckins, Schahram Akbarian, Kristen J. Brennand

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