Ohcanbohtosat - Mehrtash Babadi

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  1. 1
    Unsupervised removal of systematic background noise from droplet-based single-cell experiments using <tt>CellBender</tt>

    Unsupervised removal of systematic background noise from droplet-based single-cell experiments using <tt>CellBender</tt> Dahkki Stephen J. Fleming, Mark Chaffin, Alessandro Arduini, Amer-Denis Akkad, Eric Banks, John C. Marioni, Anthony Philippakis, Patrick T. Ellinor, Mehrtash Babadi

    Almmustuhtton 2019
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  2. 2
    Unsupervised removal of systematic background noise from droplet-based single-cell experiments using CellBender

    Unsupervised removal of systematic background noise from droplet-based single-cell experiments using CellBender Dahkki Stephen J. Fleming, Mark Chaffin, Alessandro Arduini, Amer-Denis Akkad, Eric Banks, John C. Marioni, Anthony Philippakis, Patrick T. Ellinor, Mehrtash Babadi

    Almmustuhtton 2023
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  3. 3
    Analysis of 6.4 million SARS-CoV-2 genomes identifies mutations associated with fitness

    Analysis of 6.4 million SARS-CoV-2 genomes identifies mutations associated with fitness Dahkki Fritz Obermeyer, Martin Jankowiak, Nikolaos Barkas, S. F. Schaffner, Jesse D. Pyle, Lonya Yurkovetskiy, Matteo Bosso, Daniel Park, Mehrtash Babadi, Bronwyn MacInnis, Jeremy Luban, Pardis C. Sabeti, Jacob E. Lemieux

    Almmustuhtton 2021
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  4. 4
    Analysis of 6.4 million SARS-CoV-2 genomes identifies mutations associated with fitness

    Analysis of 6.4 million SARS-CoV-2 genomes identifies mutations associated with fitness Dahkki Fritz Obermeyer, Martin Jankowiak, Nikolaos Barkas, S. F. Schaffner, Jesse D. Pyle, Leonid Yurkovetskiy, Matteo Bosso, Daniel J. Park, Mehrtash Babadi, Bronwyn MacInnis, Jeremy Luban, Pardis C. Sabeti, Jacob E. Lemieux

    Almmustuhtton 2022
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  5. 5
    Learning representations for image-based profiling of perturbations

    Learning representations for image-based profiling of perturbations Dahkki Nikita Moshkov, Michael Bornholdt, Santiago Benoit, Matthew Smith, Claire McQuin, Allen Goodman, Rebecca A. Senft, Yu Han, Mehrtash Babadi, Péter Horváth, Beth A. Cimini, Anne E. Carpenter, Shantanu Singh, Juan C. Caicedo

    Almmustuhtton 2022
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  6. 6
    High-depth sequencing characterization of viral dynamics across tissues in fatal COVID-19 reveals compartmentalized infection

    High-depth sequencing characterization of viral dynamics across tissues in fatal COVID-19 reveals compartmentalized infection Dahkki Erica Normandin, Melissa A. Rudy, Nikolaos Barkas, S. F. Schaffner, Zoe Levine, Robert F. Padera, Mehrtash Babadi, Shibani S. Mukerji, Daniel J. Park, Bronwyn MacInnis, Katherine J. Siddle, Pardis C. Sabeti, Isaac H. Solomon

    Almmustuhtton 2023
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  7. 7
    Learning representations for image-based profiling of perturbations

    Learning representations for image-based profiling of perturbations Dahkki Nikita Moshkov, Michael Bornholdt, Santiago Benoit, Matthew Smith, Claire McQuin, Allen Goodman, Rebecca A. Senft, Yu Han, Mehrtash Babadi, Péter Horváth, Beth A. Cimini, Anne E. Carpenter, Shantanu Singh, Juan Carlos Caicedo

    Almmustuhtton 2024
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  8. 8
    GATK-gCNV enables the discovery of rare copy number variants from exome sequencing data

    GATK-gCNV enables the discovery of rare copy number variants from exome sequencing data Dahkki Mehrtash Babadi, Jack Fu, Samuel K. Lee, Andrey N. Smirnov, Laura D. Gauthier, Mark Walker, David Benjamin, Xuefang Zhao, Konrad J. Karczewski, Isaac Wong, Ryan L. Collins, Alba Sanchis‐Juan, Harrison Brand, Eric Banks, Michael E. Talkowski

    Almmustuhtton 2023
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  9. 9
    Transcriptional and Cellular Diversity of the Human Heart

    Transcriptional and Cellular Diversity of the Human Heart Dahkki Nathan R. Tucker, Mark Chaffin, Stephen J. Fleming, Amelia Weber Hall, Victoria A. Parsons, Kenneth Bedi, Amer-Denis Akkad, Caroline N. Herndon, Alessandro Arduini, Irinna Papangeli, Carolina Roselli, François Aguet, Seung Hoan Choi, Kristin Ardlie, Mehrtash Babadi, Kenneth B. Margulies, Christian M. Stegmann, Patrick T. Ellinor

    Almmustuhtton 2020
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  10. 10
    Cancer-Germline Antigen Expression Discriminates Clinical Outcome to CTLA-4 Blockade

    Cancer-Germline Antigen Expression Discriminates Clinical Outcome to CTLA-4 Blockade Dahkki Sachet A. Shukla, Pavan Bachireddy, Bastian Schilling, Christina Galonska, Qian Zhan, Clyde Bango, Rupert Langer, Patrick Lee, Daniel Gusenleitner, Derin B. Keskin, Mehrtash Babadi, Arman W. Mohammad, Andreas Gnirke, Kendell Clement, Zachary Cartun, Eliezer M. Van Allen, Diana Miao, Ying Huang, Alexandra Snyder, Taha Merghoub, Jedd D. Wolchok, Levi A. Garraway, Alexander Meissner, Jeffrey S. Weber, Nir Hacohen, Donna Neuberg, Patrick Ryan Potts, Gëorge F. Murphy, Christine G. Lian, Dirk Schadendorf, F. Stephen Hodi, Catherine J. Wu

    Almmustuhtton 2018
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  11. 11
    Rare coding variation illuminates the allelic architecture, risk genes, cellular expression patterns, and phenotypic context of autism

    Rare coding variation illuminates the allelic architecture, risk genes, cellular expression patterns, and phenotypic context of autism Dahkki Jack Fu, F. Kyle Satterstrom, Minshi Peng, Harrison Brand, Ryan L. Collins, Shan Dong, Lambertus Klei, Christine Stevens, Caroline Cusick, Mehrtash Babadi, Eric Banks, Brett Collins, Sheila Dodge, Stacey B. Gabriel, Laura D. Gauthier, Samuel K. Lee, Lindsay Liang, Alicia Ljungdahl, Behrang Mahjani, Laura Sloofman, Andrey N. Smirnov, Mafalda Barbosa, Alfredo Brusco, Brian Hon‐Yin Chung, Michael L. Cuccaro, Enrico Domenici, Giovanni Battista Ferrero, J. Jay Gargus, Gail E. Herman, Irva Hertz‐Picciotto, Patrı́cia Maciel, Dara S. Manoach, Maria Rita Passos‐Bueno, Antonio M. Persico, Alessandra Renieri, Flora Tassone, Elisabetta Trabetti, Gabriele da Silva Campos, Marcus C.Y. Chan, Chiara Fallerini, Elisa Giorgio, Ana Cristina Girard, Emily Hansen‐Kiss, So Lun Lee, Carla Lintas, Yunin Ludeña, Rachel Nguyen, Lisa Pavinato, Margaret A. Pericak‐Vance, Isaac N. Pessah, Evelise Riberi, Rebecca J. Schmidt, Moyra Smith, Claudia I.C. Souza, Slavica Trajkova, Jaqueline Y. T. Wang, Mullin H.C. Yu, David J. Cutler, Silvia De Rubeis, Joseph D. Buxbaum, Mark J. Daly, Bernie Devlin, Kathryn Roeder, Stephan Sanders, Michael E. Talkowski

    Almmustuhtton 2021
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  12. 12
    A single-cell and spatial atlas of autopsy tissues reveals pathology and cellular targets of SARS-CoV-2

    A single-cell and spatial atlas of autopsy tissues reveals pathology and cellular targets of SARS-CoV-2 Dahkki Toni Delorey, Carly G.K. Ziegler, Graham Heimberg, Rachelly Normand, Yiming Yang, Åsa Segerstolpe, Domenic Abbondanza, Stephen J. Fleming, Ayshwarya Subramanian, Daniel T. Montoro, Karthik A. Jagadeesh, Kushal K. Dey, Pritha Sen, Michal Slyper, Yered Pita-Juárez, Devan Phillips, Zohar Bloom-Ackerman, Nick Barkas, Andrea Ganna, James Gomez, Erica Normandin, Pourya Naderi Yeganeh, Yury Popov, Siddharth S. Raju, Sebastian Niezen, Linus Tsai, Katherine J. Siddle, Malika Sud, Victoria M. Tran, Shamsudheen Karuthedath Vellarikkal, Liat Amir-Zilberstein, Deepak Atri, Joseph Beechem, Olga R. Brook, Jonathan H. Chen, Prajan Divakar, Phylicia Dorceus, J Engreitz, Adam L. Essene, Donna M. Fitzgerald, Robin Fropf, Steven Gazal, Joshua Gould, John Grzyb, Tyler Harvey, Jonathan L. Hecht, Tyler Hether, Judit Jané‐Valbuena, Michael Leney-Greene, Hui Ma, Cristin McCabe, Daniel E. McLoughlin, Eric Miller, Christoph Muus, Mari Niemi, Robert F. Padera, Liuliu Pan, Deepti Pant, Carmel Pe’er, Jenna Pfiffner-Borges, Christopher J. Pinto, Jacob Plaisted, Jason Reeves, Marty Ross, Melissa A. Rudy, Erroll H. Rueckert, Michelle Siciliano, Alexander Sturm, Ellen Todres, Avinash Waghray, Sarah Warren, Shuting Zhang, Daniel R. Zollinger, Lisa A. Cosimi, Rajat M. Gupta, Nir Hacohen, Yoshihide Hayashizaki, Alkes L. Price, Jayaraj Rajagopal, Purushothama Rao Tata, Stefan Riedel, Gyöngyi Szabó, Timothy L. Tickle, Deborah T. Hung, Pardis C. Sabeti, Richard Novák, Robert Rogers, Donald E. Ingber, Z. Gordon Jiang, Dejan Juric, Mehrtash Babadi, Samouil L. Farhi, James R. Stone, Ioannis S. Vlachos, Isaac H. Solomon, Orr Ashenberg, Caroline Porter, Bo Li, Alex K. Shalek, Alexandra–Chloé Villani

    Almmustuhtton 2021
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  13. 13
    COVID-19 tissue atlases reveal SARS-CoV-2 pathology and cellular targets

    COVID-19 tissue atlases reveal SARS-CoV-2 pathology and cellular targets Dahkki Toni Delorey, Carly G.K. Ziegler, Graham Heimberg, Rachelly Normand, Yiming Yang, Åsa Segerstolpe, Domenic Abbondanza, Stephen J. Fleming, Ayshwarya Subramanian, Daniel T. Montoro, Karthik A. Jagadeesh, Kushal K. Dey, Pritha Sen, Michal Slyper, Yered Pita-Juárez, Devan Phillips, Jana Biermann, Zohar Bloom‐Ackermann, Nikolaos Barkas, Andrea Ganna, James Gomez, Johannes C. Melms, Igor Katsyv, Erica Normandin, Pourya Naderi Yeganeh, Yury Popov, Siddharth S. Raju, Sebastian Niezen, Linus Tsai, Katherine J. Siddle, Malika Sud, Victoria M. Tran, Shamsudheen Karuthedath Vellarikkal, Yiping Wang, Liat Amir-Zilberstein, Deepak Atri, Joseph Beechem, Olga R. Brook, Jonathan H. Chen, Prajan Divakar, Phylicia Dorceus, J Engreitz, Adam L. Essene, Donna M. Fitzgerald, Robin Fropf, Steven Gazal, Joshua Gould, John Grzyb, Tyler Harvey, Jonathan L. Hecht, Tyler Hether, Judit Jané‐Valbuena, Michael Leney-Greene, Hui Ma, Cristin McCabe, Daniel E. McLoughlin, Eric Miller, Christoph Muus, Mari Niemi, Robert F. Padera, Liuliu Pan, Deepti Pant, Carmel Pe’er, Jenna Pfiffner-Borges, Christopher J. Pinto, Jacob Plaisted, Jason Reeves, Marty Ross, Melissa A. Rudy, Erroll H. Rueckert, Michelle Siciliano, Alexander Sturm, Ellen Todres, Avinash Waghray, Sarah Warren, Shuting Zhang, Daniel R. Zollinger, Lisa A. Cosimi, Rajat M. Gupta, Nir Hacohen, Hanina Hibshoosh, Yoshihide Hayashizaki, Alkes L. Price, Jayaraj Rajagopal, Purushothama Rao Tata, Stefan Riedel, Gyöngyi Szabó, Timothy L. Tickle, Patrick T. Ellinor, Deborah T. Hung, Pardis C. Sabeti, Richard Novák, Robert Rogers, Donald E. Ingber, Z. Gordon Jiang, Dejan Juric, Mehrtash Babadi, Samouil L. Farhi, Benjamin Izar, James R. Stone

    Almmustuhtton 2021
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  14. 14
    Rare coding variation provides insight into the genetic architecture and phenotypic context of autism

    Rare coding variation provides insight into the genetic architecture and phenotypic context of autism Dahkki Jack Fu, F. Kyle Satterstrom, Minshi Peng, Harrison Brand, Ryan L. Collins, Shan Dong, Brie Wamsley, Lambertus Klei, Lily Wang, Stephanie P. Hao, Christine Stevens, Caroline Cusick, Mehrtash Babadi, Eric Banks, Brett Collins, Sheila Dodge, Stacey B. Gabriel, Laura D. Gauthier, Samuel K. Lee, Lindsay Liang, Alicia Ljungdahl, Behrang Mahjani, Laura Sloofman, Andrey N. Smirnov, Mafalda Barbosa, Catalina Betancur, Alfredo Brusco, Brian Hon‐Yin Chung, Edwin H. Cook, Michael L. Cuccaro, Enrico Domenici, Giovanni Battista Ferrero, J. Jay Gargus, Gail E. Herman, Irva Hertz‐Picciotto, Patrı́cia Maciel, Dara S. Manoach, Maria Rita Passos‐Bueno, Antonio M. Persico, Alessandra Renieri, James S. Sutcliffe, Flora Tassone, Elisabetta Trabetti, Gabriele da Silva Campos, Simona Cardaropoli, Diana Carli, Marcus C.Y. Chan, Chiara Fallerini, Elisa Giorgio, Ana Cristina De Sanctis Girardi, Emily Hansen‐Kiss, So Lun Lee, Carla Lintas, Yunin Ludeña, Rachel Nguyen, Lisa Pavinato, Margaret A. Pericak‐Vance, Isaac N. Pessah, Rebecca J. Schmidt, Moyra Smith, Claudia Ismania Samogy Costa, Slavica Trajkova, Jaqueline Y. T. Wang, Mullin H.C. Yu, Branko Aleksić, Mykyta Artomov, Elisa Benetti, Monica Biscaldi-Schafer, Anders D. Børglum, Ángel Carracedo, Andreas G. Chiocchetti, Hilary Coon, Ryan N. Doan, Montserrat Fernández Prieto, Christine M. Freitag, Sherif Gerges, Stephen J. Guter, David M. Hougaard, Christina M. Hultman, Suma Jacob, Miia Kaartinen, Alexander Kolevzon, Itaru Kushima, Terho Lehtimäki, Caterina Lo Rizzo, Nell Maltman, Marianna Manara, Gal Meiri, Idan Menashe, Judith Miller, Nancy J. Minshew, Matthew W. Mosconi, Norio Ozaki, Aarno Palotie, Mara Parellada, Kaija Puura, Abraham Reichenberg, Sven Sandin, Stephen W. Scherer, Sabine Schlitt

    Almmustuhtton 2022
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