Preprint > Page 20
  • bioRxiv  ·  March 8, 2022  ·  Preprint

    Nanobody-tethered transposition allows for multifactorial chromatin profiling at single-cell resolution.

    Tim Stuart, Stephanie Hao, Bingjie Zhang, Levan Mekerishvili, Dan A Landau, Silas Maniatis, Rahul Satija, and Ivan Raimondi

    Satija Lab
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  • bioRxiv  ·  February 24, 2022  ·  Preprint

    Dictionary learning for integrative, multimodal, and scalable single-cell analysis.

    Yuhan Hao, Tim Stuart, Madeline Kowalski, Saket Choudhary, Paul Hoffman, Austin Hartman, Avi Srivastava, Gesmira Molla, Shaista Madad, Carlos Fernandez-Granda, Rahul Satija

    Satija Lab
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  • bioRxiv  ·  February 2, 2022  ·  Preprint

    Efficient combinatorial targeting of RNA transcripts in single cells with Cas13 RNA Perturb-seq.

    Hans-Hermann Wessels, Alejandro Mendez-Mancilla, Efthymia Papalexi, William M Mauck, Lu Lu, John A Morris, Eleni P Mimitou, Peter Smibert, Neville E Sanjana, Rahul Satija

    Sanjana Lab Satija Lab Computational Biology Lab
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  • bioRxiv  ·  January 20, 2022  ·  Preprint

    Machine learning guided signal enrichment for ultrasensitive plasma tumor burden monitoring.

    Adam J. Widman, Minita Shah, Nadia Ogaard, Cole C. Khamnei, Amanda Frydendahl, Aditya Deshpande, Anushri Arora, Mingxuan Zhang, Daniel Halmos, Jake Bass, Theophile Langanay, Srinivas Rajagopalan, Zoe Steinsnyder, Will Liao, Mads Heilskov Rasmussen, Sarah Ostrup Jensen, Jesper Nors, Christina Therkildsen, Jesus Sotelo, Ryan Brand, Ronak H. Shah, Alexandre Pellan Cheng, Colleen Maher, Lavinia Spain, Kate Krause, Dennie T. Frederick, Murtaza S. Malbari, Melissa Marton, Dina Manaa, Lara Winterkorn, Margaret K. Callahan, Genevieve Boland, Jedd D. Wolchok, Ashish Saxena, Samra Turajlic, Marcin Imielinski, Michael F. Berger, Nasser K. Altorki, Michael A. Postow, Nicolas Robine, Claus Lindbjerg Andersen, Dan A. Landau
    Imieliński Lab Landau Lab Cancer Biology, Genomics & Technology Computational Biology Lab
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  • bioRxiv  ·  January 18, 2022  ·  Preprint

    Non-Coding Genetic Analysis Implicates Interleukin 18 Receptor Accessory Protein 3′UTR in Amyotrophic Lateral Sclerosis.

    Chen Eitan, Aviad Siany, Elad Barkan, Tsviya Olender, Kristel R. van Eijk, Matthieu Moisse, Sali M. K. Farhan, Yehuda M. Danino, Eran Yanowski, Hagai Marmor-Kollet, Natalia Rivkin, Nancy Yacovzada, Shu-Ting Hung, Johnathan Cooper-Knock, Chien-Hsiung Yu, Cynthia Louis, Seth L. Masters, Kevin P. Kenna, Rick A. A. van der Spek, William Sproviero, Ahmad Al Khleifat, Alfredo Iacoangeli, Aleksey Shatunov, Ashley R. Jones, Yael Elbaz Alon, Yahel Cohen, Elik Chapnik, Daphna Rothschild, Omer Weissbrod, Gilad Beck, Elena Ainbinder, Shifra Ben-Dor, Sebastian Werneburg, Dorothy P. Schafer, Robert H. Brown Jr, Pamela J. Shaw, Philip Van Damme, Leonard H. van den Berg, Hemali P. Phatnani, Eran Segal, Justin K. Ichida, Ammar Al-Chalabi, Jan H. Veldink, Project MinE ALS Sequencing Consortium, NYGC ALS Consortium, Eran Hornstein
    Phatnani Lab Biology, Genomics & Technology Neurodegenerative Disease
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  • bioRxiv  ·  January 12, 2022  ·  Preprint

    Epigenetic dysregulation from chromosomal transit in micronuclei.

    Albert Agustinus, Ramya Raviram, Bhargavi Dameracharla, Jens Luebeck, Stephanie Stransky, Lorenzo Scipioni, Robert Myers Melody DiBona, Mercedes Duran, Britta Weigelt, Shira Yomtoubian, Eleonore Toufektchan, Paul Mischel, Vivek Mittal, Sohrab Shah, John Maciejowski, Enrico Gratton, Peter Ly, Mathieu Bakhoum, Dan Landau, Vineet Bafna, Simone Sidoli, Yael David, Samuel F Bakhoum

    Landau Lab Cancer Biology, Genomics & Technology
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  • bioRxiv  ·  November 20, 2021  ·  Preprint

    Antigen presentation by type 3 innate lymphoid cells instructs the differentiation of gut microbiota-specific regulatory T cells.

    Ranit Kedmi, Tariq Najar, Kailin R. Mesa, Allyssa Grayson, Lina Kroehling, Yuhan Hao, Stephanie Hao, Maria Pokrovskii, Mo Xu, Jhimmy Talbot, Jiaxi Wang, Mark S. Anderson, James M. Gardner, Terri M. Laufer, Iannis Aifantis, Juliet M. Bartleson, Paul M. Allen, Marlon Stoeckius, Dan R. Littman

    Biology, Genomics & Technology Computational Biology Lab
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  • bioRxiv  ·  November 10, 2021  ·  Preprint

    High coverage whole genome sequencing of the expanded 1000 Genomes Project cohort including 602 trios.

    Marta Byrska-Bishop, Uday S Evani, Xuefang Zhao, Anna O Basile, Haley J Abel, Allison A Regier, André Corvelo, Wayne E Clarke, Rajeeva Musunuri, Kshithija Nagulapalli, Susan Fairley, Alexi Runnels, Lara Winterkorn, Ernesto Lowy, The Human Genome Structural Variation Consortium, Paul Flicek, Soren Germer, Harrison Brand, Ira M Hall, Michael E Talkowski, Giuseppe Narzisi, Michael C Zody

    Biology, Genomics & Technology Computational Biology Lab
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  • medRxiv  ·  September 2, 2021  ·  Preprint

    Integrative genetic analysis of the amyotrophic lateral sclerosis spinal cord implicates glial activation and suggests new risk genes.

    Jack Humphrey, Sanan Venkatesh, Rahat Hasan, Jake T Herb, Katia de Paiva Lopes, Fahri Kucukali, Marta Byrska-Bishop, Uday S Evani, Giuseppe Narzisi, Delphine Fagegaltier, NYGC ALS Consortium, Kristel Sleegers, Hemali Phatnani, David A Knowles, Pietro Fratta, Towfique Raj

    Knowles Lab Phatnani Lab Biology, Genomics & Technology Neurodegenerative Disease Computational Biology Lab
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