Search Results - Andrea Guarracino

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  1. 1
    Unbiased pangenome graphs

    Unbiased pangenome graphs by Erik Garrison, Andrea Guarracino

    Published 2022
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  2. 2
    ODGI: understanding pangenome graphs

    ODGI: understanding pangenome graphs by Andrea Guarracino, Simon Heumos, Sven Nahnsen, Pjotr Prins, Erik Garrison

    Published 2022
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  3. 3
    Optimal gap-affine alignment in <i>O</i>(<i>s</i>) space

    Optimal gap-affine alignment in <i>O</i>(<i>s</i>) space by Santiago Marco‐Sola, Jordan M. Eizenga, Andrea Guarracino, Benedict Paten, Erik Garrison, Miquel Moretó

    Published 2023
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  4. 4
    Recurrent evolution and selection shape structural diversity at the amylase locus

    Recurrent evolution and selection shape structural diversity at the amylase locus by Davide Bolognini, Alma Halgren, Runyang Nicolas Lou, Alessandro Raveane, Joana L. Rocha, Andrea Guarracino, Nicole Soranzo, Chen-Shan Chin, Erik Garrison, Peter H. Sudmant

    Published 2024
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  5. 5
    Genome-wide bioinformatic analyses predict key host and viral factors in SARS-CoV-2 pathogenesis

    Genome-wide bioinformatic analyses predict key host and viral factors in SARS-CoV-2 pathogenesis by Mariana Galvão Ferrarini, Avantika Lal, Rita Rebollo, Andreas Gruber, Andrea Guarracino, Itziar Martínez-González, Taylor Floyd, Daniel Siqueira de Oliveira, Justin Shanklin, Ethan Beausoleil, Taneli Pusa, Brett E Pickett, Vanessa Aguiar‐Pulido

    Published 2021
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  6. 6
    Gapless assembly of complete human and plant chromosomes using only nanopore sequencing

    Gapless assembly of complete human and plant chromosomes using only nanopore sequencing by Sergey Koren, Zhigui Bao, Andrea Guarracino, Shujun Ou, Sara Goodwin, Katharine M. Jenike, Julian Lucas, Brandy McNulty, Jimin Park, Mikko Rautianinen, Arang Rhie, Dick Roelofs, Harrie Schneiders, Ilse Vrijenhoek, Koen Nijbroek, Doreen Ware, Michael C. Schatz, Erik Garrison, Sanwen Huang, W. Richard McCombie, Karen H. Miga, Alexander Wittenberg, Adam M. Phillippy

    Published 2024
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  7. 7
    Gapless assembly of complete human and plant chromosomes using only nanopore sequencing

    Gapless assembly of complete human and plant chromosomes using only nanopore sequencing by Sergey Koren, Zhigui Bao, Andrea Guarracino, Shujun Ou, Sara Goodwin, Katharine M. Jenike, Julian Lucas, Brandy McNulty, Jimin Park, Mikko Rautiainen, Arang Rhie, Dick Roelofs, Harrie Schneiders, Ilse Vrijenhoek, Koen Nijbroek, Olle Nordesjö, Sergey Nurk, Mike Vella, Katherine R. Lawrence, Doreen Ware, Michael C. Schatz, Erik Garrison, Sanwen Huang, W. Richard McCombie, Karen H. Miga, Alexander Wittenberg, Adam M. Phillippy

    Published 2024
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  8. 8
    Building pangenome graphs

    Building pangenome graphs by Erik Garrison, Andrea Guarracino, Simon Heumos, Flavia Villani, Zhigui Bao, Lorenzo Tattini, Jörg Hagmann, Sebastian Vorbrugg, Santiago Marco‐Sola, Christian Kubica, David G. Ashbrook, Kaisa Thorell, Rachel Rusholme‐Pilcher, Gianni Liti, Emilio Rudbeck, Agnieszka A. Golicz, Sven Nahnsen, Zuyu Yang, Moses Njagi Mwaniki, Franklin L. Nóbrega, Yi Wu, Hao Chen, Joep de Ligt, Peter H. Sudmant, Sanwen Huang, Detlef Weigel, Nicole Soranzo, Vincenza Colonna, Robert W. Williams, Pjotr Prins

    Published 2023
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  9. 9
    Inhibition of HECT E3 ligases as potential therapy for COVID-19

    Inhibition of HECT E3 ligases as potential therapy for COVID-19 by Giuseppe Novelli, Jing Liu, Michela Biancolella, Tonino Alonzi, Antonio Novelli, J. J. Patten, Dario Cocciadiferro, Emanuele Agolini, Vito Luigi Colona, Barbara Rizzacasa, Rosalinda Giannini, Benedetta Bigio, Delia Goletti, Maria Rosaria Capobianchi, Sandro Grelli, Justin David Mann, Trevor D. McKee, Ke Cheng, Fatima Amanat, Florian Krammer, Andrea Guarracino, Gerardo Pepe, Carlo Tomino, Yacine Tandjaoui-Lambiotte, Y. Uzunhan, Sarah Tubiana, Jade Ghosn, Luigi D. Notarangelo, Helen C. Su, Laurent Abel, Aurélie Cobat, Gai Elhanan, Joseph J. Grzymski, Andrea Latini, Sachdev S. Sidhu, Suresh Kumar Jain, Robert A. Davey, Jean‐Laurent Casanova, Wenyi Wei, Pier Paolo Pandolfi

    Published 2021
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  10. 10
    Type I IFNs promote cancer cell stemness by triggering the epigenetic regulator KDM1B

    Type I IFNs promote cancer cell stemness by triggering the epigenetic regulator KDM1B by Martina Musella, Andrea Guarracino, Nicoletta Manduca, Claudia Galassi, Eliana Ruggiero, Alessia Potenza, Ester Maccafeo, Gwenola Manic, Luca Mattiello, Sara Soliman Abdel Rehim, Michele Signore, Marco Pietrosanto, Manuela Helmer‐Citterich, Matteo Pallocca, Maurizio Fanciulli, Tiziana Bruno, Francesca De Nicola, Giacomo Corleone, Anna Di Benedetto, Cristiana Ercolani, Edoardo Pescarmona, Laura Pizzuti, Francesco Guidi, Francesca Sperati, Sara Vitale, Daniele Macchia, Massimo Spada, Giovanna Schiavoni, Fabrizio Mattei, Adele De Ninno, Luca Businaro, Valeria Lucarini, Laura Bracci, Eleonora Aricò, Giovanna Ziccheddu, Francesco Facchiano, Stefania Rossi, Massimo Sanchez, Alessandra Boe, Mauro Biffoni, Ruggero De Maria, Ilio Vitale, Antonella Sistigu

    Published 2022
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  11. 11
    Nanopore sequencing of 1000 Genomes Project samples to build a comprehensive catalog of human genetic variation

    Nanopore sequencing of 1000 Genomes Project samples to build a comprehensive catalog of human genetic variation by Jonas A. Gustafson, Sophia B Gibson, Nikhita Damaraju, Miranda Pg Zalusky, Kendra Hoekzema, David Twesigomwe, Lei Yang, Anthony A Snead, Phillip A. Richmond, Wouter De Coster, Nathan D. Olson, Andrea Guarracino, Qiuhui Li, Angela L Miller, Joy Goffena, Zachery Anderson, Sophie Storz, S. Ward, Maisha Sinha, Claudia Gonzaga‐Jauregui, Wayne E. Clarke, Anna O. Basile, André Corvelo, Catherine Reeves, Adrienne Helland, Rajeeva Musunuri, Mahler Revsine, Karynne Patterson, Cate Paschal, Christina Zakarian, Sara Goodwin, Tanner Jensen, E. Robb, W. Richard McCombie, Fritz J. Sedlazeck, Justin M. Zook, Stephen B. Montgomery, Erik Garrison, Mikhail Kolmogorov, Michael C. Schatz, Richard N. McLaughlin, Harriet Dashnow, Michael C. Zody, Matthew Loose, Miten Jain, Evan E. Eichler, Danny E. Miller

    Published 2024
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  12. 12
    Human de novo mutation rates from a four-generation pedigree reference

    Human de novo mutation rates from a four-generation pedigree reference by David Porubský, Harriet Dashnow, Thomas A. Sasani, Glennis A. Logsdon, Pille Hallast, Michelle D. Noyes, Zev Kronenberg, Tom Mokveld, Nidhi Koundinya, C. Nolan, Cody J. Steely, Andrea Guarracino, Egor Dolzhenko, William T. Harvey, William J. Rowell, Kirill Grigorev, Thomas J. Nicholas, Michael E. Goldberg, Keisuke K. Oshima, Jiadong Lin, Peter Ebert, W. Scott Watkins, Tiffany Y. Leung, Vincent C. T. Hanlon, Sean McGee, Brent S. Pedersen, Hannah C. Happ, Hyeonsoo Jeong, Katherine M. Munson, Kendra Hoekzema, Daniel D. Chan, Yanni Wang, Jordan Knuth, Gage H. Garcia, Cairbre Fanslow, Christine Lambert, Charles Lee, Joshua D. Smith, Shawn Levy, Christopher E. Mason, Erik Garrison, Peter M. Lansdorp, Deborah W. Neklason, Lynn B. Jorde, Aaron R. Quinlan, Michael A. Eberle, Evan E. Eichler

    Published 2025
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  13. 13
    A Draft Human Pangenome Reference

    A Draft Human Pangenome Reference by Wen‐Wei Liao, Mobin Asri, Jana Ebler, Daniel Doerr, Marina Haukness, Glenn Hickey, Shuangjia Lu, Julian Lucas, Jean Monlong, Haley Abel, Silvia Buonaiuto, Xian Chang, Haoyu Cheng, Justin Chu, Vincenza Colonna, Jordan M. Eizenga, Xiaowen Feng, Christian Fischer, Robert S. Fulton, Shilpa Garg, Cristian Groza, Andrea Guarracino, William T. Harvey, Simon Heumos, Kerstin Howe, Miten Jain, Tsung-Yu Lu, Charles Markello, Fergal J. Martin, Matthew W. Mitchell, Katherine M. Munson, Moses Njagi Mwaniki, Adam M. Novak, Hugh E. Olsen, Trevor Pesout, David Porubský, Pjotr Prins, Jonas A. Sibbesen, Chad Tomlinson, Flavia Villani, Mitchell R. Vollger, Guillaume Bourque, Mark Chaisson, Paul Flicek, Adam M. Phillippy, Justin M. Zook, Evan E. Eichler, David Haussler, Erich D. Jarvis, Karen H. Miga, Ting Wang, Erik Garrison, Tobias Marschall, Ira M. Hall, Heng Li, Benedict Paten

    Published 2022
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  14. 14
    Semi-automated assembly of high-quality diploid human reference genomes

    Semi-automated assembly of high-quality diploid human reference genomes by Erich D. Jarvis, Giulio Formenti, Arang Rhie, Andrea Guarracino, Chentao Yang, Jonathan Wood, Alan Tracey, Françoise Thibaud‐Nissen, Mitchell R. Vollger, David Porubský, Haoyu Cheng, Mobin Asri, Glennis A. Logsdon, P. Carnevali, Mark Chaisson, Chen-Shan Chin, Sarah Cody, Joanna Collins, Peter Ebert, Merly Escalona, Olivier Fédrigo, Robert S. Fulton, Lucinda Fulton, Shilpa Garg, Jennifer L. Gerton, Jay Ghurye, Anastasiya Granat, Richard E. Green, William T. Harvey, Patrick Hasenfeld, Alex Hastie, Marina Haukness, Erich Jaeger, Miten Jain, Melanie Kirsche, Mikhail Kolmogorov, Jan O. Korbel, Sergey Koren, Jonas Korlach, Joyce Lee, Daofeng Li, Tina Lindsay, Julian Lucas, Feng Luo, Tobias Marschall, Matthew W. Mitchell, Jennifer McDaniel, Fan Nie, Hugh E. Olsen, Nathan D. Olson, Trevor Pesout, Tamara Potapova, Daniela Puiu, Allison Regier, Jue Ruan, Steven L. Salzberg, Ashley D. Sanders, Michael C. Schatz, Anthony D. Schmitt, Valérie Schneider, Siddarth Selvaraj, Kishwar Shafin, Alaina Shumate, Nathan O. Stitziel, Catherine Brasseur, James Torrance, Justin Wagner, Jianxin Wang, Aaron M. Wenger, Chuan‐Le Xiao, Aleksey V. Zimin, Guojie Zhang, Ting Wang, Heng Li, Erik Garrison, David Haussler, Ira M. Hall, Justin M. Zook, Evan E. Eichler, Adam M. Phillippy, Benedict Paten, Kerstin Howe, Karen H. Miga

    Published 2022
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  15. 15
    Pangenome graph construction from genome alignments with Minigraph-Cactus

    Pangenome graph construction from genome alignments with Minigraph-Cactus by Glenn Hickey, Jean Monlong, Jana Ebler, Adam M. Novak, Jordan M. Eizenga, Yan Gao, Haley Abel, Lucinda Antonacci-Fulton, Mobin Asri, Gunjan Baid, Carl Baker, Anastasiya Belyaeva, Konstantinos Billis, Guillaume Bourque, Silvia Buonaiuto, Andrew Carroll, Mark Chaisson, Pi-Chuan Chang, Xian Chang, Haoyu Cheng, Justin Chu, Sarah Cody, Vincenza Colonna, Daniel E. Cook, Robert Cook‐Deegan, Omar E. Cornejo, Mark Diekhans, Daniel Doerr, Peter Ebert, Jana Ebler, Evan E. Eichler, Susan Fairley, Olivier Fédrigo, Adam L. Felsenfeld, Xiaowen Feng, Christian Fischer, Paul Flicek, Giulio Formenti, Adam Frankish, Robert S. Fulton, Shilpa Garg, Erik Garrison, Nanibaa’ A. Garrison, Carlos García Girón, Richard E. Green, Cristian Groza, Andrea Guarracino, Leanne Haggerty, Ira M. Hall, William T. Harvey, Marina Haukness, David Haussler, Simon Heumos, Kendra Hoekzema, Thibaut Hourlier, Kerstin Howe, Miten Jain, Erich D. Jarvis, Hanlee P. Ji, Eimear E. Kenny, Barbara A. Koenig, Alexey Kolesnikov, Jan O. Korbel, Jennifer Kordosky, Sergey Koren, HoJoon Lee, Alexandra P. Lewis, Wen‐Wei Liao, Shuangjia Lu, Tsung-Yu Lu, Julian Lucas, Hugo Magalhães, Santiago Marco‐Sola, Pierre Marijon, Charles Markello, Tobias Marschall, Fergal J. Martin, Ann M. Mc Cartney, Jennifer McDaniel, Karen H. Miga, Matthew W. Mitchell, Jacquelyn Mountcastle, Katherine M. Munson, Moses Njagi Mwaniki, Maria Nattestad, Sergey Nurk, Hugh E. Olsen, Nathan D. Olson, Trevor Pesout, Adam M. Phillippy, Alice B. Popejoy, David Porubský, Pjotr Prins, Daniela Puiu, Mikko Rautiainen, Allison Regier, Arang Rhie, Samuel Sacco, Ashley D. Sanders, Valérie Schneider

    Published 2023
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  16. 16
    Increased mutation and gene conversion within human segmental duplications

    Increased mutation and gene conversion within human segmental duplications by Mitchell R. Vollger, Philip C. Dishuck, William T. Harvey, William S. DeWitt, Xavi Guitart, Michael E. Goldberg, Allison N. Rozanski, Julian Lucas, Mobin Asri, Haley Abel, Lucinda Antonacci-Fulton, Gunjan Baid, Carl Baker, Anastasiya Belyaeva, Konstantinos Billis, Guillaume Bourque, Silvia Buonaiuto, Andrew Carroll, Mark Chaisson, Pi-Chuan Chang, Xian Chang, Haoyu Cheng, Justin Chu, Sarah Cody, Vincenza Colonna, Daniel E. Cook, Robert Cook‐Deegan, Omar E. Cornejo, Mark Diekhans, Daniel Doerr, Peter Ebert, Jana Ebler, Jordan M. Eizenga, Susan Fairley, Olivier Fédrigo, Adam L. Felsenfeld, Xiaowen Feng, Christian Fischer, Paul Flicek, Giulio Formenti, Adam Frankish, Robert S. Fulton, Yan Gao, Shilpa Garg, Erik Garrison, Nanibaa’ A. Garrison, Carlos García Girón, Richard E. Green, Cristian Groza, Andrea Guarracino, Leanne Haggerty, Ira M. Hall, Marina Haukness, David Haussler, Simon Heumos, Glenn Hickey, Thibaut Hourlier, Kerstin Howe, Miten Jain, Erich D. Jarvis, Hanlee P. Ji, Eimear E. Kenny, Barbara A. Koenig, Alexey Kolesnikov, Jan O. Korbel, Jennifer Kordosky, Sergey Koren, HoJoon Lee, Heng Li, Wen‐Wei Liao, Shuangjia Lu, Tsung-Yu Lu, Julian Lucas, Hugo Magalhães, Santiago Marco‐Sola, Pierre Marijon, Charles Markello, Tobias Marschall, Fergal J. Martin, Ann M. Mc Cartney, Jennifer McDaniel, Karen H. Miga, Matthew W. Mitchell, Jean Monlong, Jacquelyn Mountcastle, Moses Njagi Mwaniki, Maria Nattestad, Adam M. Novak, Sergey Nurk, Hugh E. Olsen, Nathan D. Olson, Benedict Paten, Trevor Pesout, Adam M. Phillippy, Alice B. Popejoy, Pjotr Prins, Daniela Puiu, Mikko Rautiainen, Allison Regier, Arang Rhie

    Published 2023
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  17. 17
    A draft human pangenome reference

    A draft human pangenome reference by Wen‐Wei Liao, Mobin Asri, Jana Ebler, Daniel Doerr, Marina Haukness, Glenn Hickey, Shuangjia Lu, Julian Lucas, Jean Monlong, Haley Abel, Silvia Buonaiuto, Xian Chang, Haoyu Cheng, Justin Chu, Vincenza Colonna, Jordan M. Eizenga, Xiaowen Feng, Christian Fischer, Robert S. Fulton, Shilpa Garg, Cristian Groza, Andrea Guarracino, William T. Harvey, Simon Heumos, Kerstin Howe, Miten Jain, Tsung-Yu Lu, Charles Markello, Fergal J. Martin, Matthew W. Mitchell, Katherine M. Munson, Moses Njagi Mwaniki, Adam M. Novak, Hugh E. Olsen, Trevor Pesout, David Porubský, Pjotr Prins, Jonas A. Sibbesen, Jouni Sirén, Chad Tomlinson, Flavia Villani, Mitchell R. Vollger, Lucinda Antonacci-Fulton, Gunjan Baid, Carl Baker, Anastasiya Belyaeva, Konstantinos Billis, Andrew Carroll, Pi-Chuan Chang, Sarah Cody, Daniel E. Cook, Robert Cook‐Deegan, Omar E. Cornejo, Mark Diekhans, Peter Ebert, Susan Fairley, Olivier Fédrigo, Adam L. Felsenfeld, Giulio Formenti, Adam Frankish, Yan Gao, Nanibaa’ A. Garrison, Carlos García Girón, Richard E. Green, Leanne Haggerty, Kendra Hoekzema, Thibaut Hourlier, Hanlee P. Ji, Eimear E. Kenny, Barbara A. Koenig, Alexey Kolesnikov, Jan O. Korbel, Jennifer Kordosky, Sergey Koren, HoJoon Lee, Alexandra P. Lewis, Hugo Magalhães, Santiago Marco‐Sola, Pierre Marijon, Ann M. Mc Cartney, Jennifer McDaniel, Jacquelyn Mountcastle, Maria Nattestad, Sergey Nurk, Nathan D. Olson, Alice B. Popejoy, Daniela Puiu, Mikko Rautiainen, Allison Regier, Arang Rhie, Samuel Sacco, Ashley D. Sanders, Valérie Schneider, Baergen I. Schultz, Kishwar Shafin, Michael W. Smith, Heidi J. Sofia, Ahmad Abou Tayoun, Françoise Thibaud‐Nissen, Francesca Floriana Tricomi

    Published 2023
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  18. 18
    Complete sequencing of ape genomes

    Complete sequencing of ape genomes by DongAhn Yoo, Arang Rhie, Prajna Hebbar, Francesca Antonacci, Glennis A. Logsdon, Steven J. Solar, Dmitry Antipov, Brandon D. Pickett, Yana Safonova, Francesco Montinaro, Yanting Luo, Joanna Malukiewicz, Jessica M. Storer, Jiadong Lin, Abigail N Sequeira, Riley J. Mangan, Glenn Hickey, Graciela Monfort Anez, Parithi Balachandran, Anton Bankevich, Christine R. Beck, Arjun Biddanda, Matthew Borchers, Gerard G. Bouffard, Emry O. Brannan, Shelise Brooks, Lucia Carbone, Laura Carrel, Agnes P. Chan, Juyun Crawford, Mark Diekhans, Eric Engelbrecht, Cedric Feschotte, Giulio Formenti, Gage H. Garcia, Luciana de Gennaro, David M. Gilbert, Richard E. Green, Andrea Guarracino, Ishaan Gupta, Diana Haddad, Junmin Han, Robert S. Harris, Gabrielle A. Hartley, William T. Harvey, Michael Hiller, Kendra Hoekzema, Marlys L. Houck, Hyeonsoo Jeong, Kaivan Kamali, Manolis Kellis, Bryce Kille, Chul Lee, Young Ho Lee, William Lees, Alexandra P. Lewis, Qiuhui Li, Mark Loftus, Yong Hwee Eddie Loh, Hailey Loucks, Jian Ma, Yafei Mao, Juan Francisco Iturralde Martinez, Patrick Masterson, Rajiv C. McCoy, Barbara C. McGrath, Sean McKinney, Britta Meyer, Karen H. Miga, Saswat K. Mohanty, Katherine M. Munson, Karol Pál, Matthew W. Pennell, Pavel A. Pevzner, David Porubský, Tamara Potapova, Francisca Rojas, Joana L. Rocha, Oliver A. Ryder, Samuel Sacco, Swati Saha, Takayo Sasaki, Michael C. Schatz, Nicholas J. Schork, Cole Shanks, Linnéa Smeds, Dongmin R. Son, Cynthia Steiner, Alexander P. Sweeten, Michael G. Tassia, Françoise Thibaud‐Nissen, Edmundo Torres-González, Mihir Trivedi, Wenjie Wei, Julie Wertz, Muyu Yang, Panpan Zhang, Shilong Zhang, Yang Zhang, Zhenmiao Zhang

    Published 2025
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