Systematic reconstruction of cellular trajectories across mouse embryogenesis von Qiu, Chengxiang, Cao, Junyue, Martin, Beth K., Li, Tony, Welsh, Ian C., Srivatsan, Sanjay, Huang, Xingfan, Calderon, Diego, Noble, William Stafford, Disteche, Christine M., Murray, Stephen A., Spielmann, Malte, Moens, Cecilia B., Trapnell, Cole, Shendure, Jay

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MIPgen: optimized modeling and design of molecular inversion probes for targeted resequencing von Boyle, Evan A, O'Roak, Brian J, Martin, Beth K, Kumar, Akash, Shendure, Jay

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Multiplex Targeted Sequencing Identifies Recurrently Mutated Genes in Autism Spectrum Disorders von O'Roak, Brian J., Vives, Laura, Fu, Wenqing, Egertson, Jarrett D., Stanaway, Ian B., Phelps, Ian G., Carvill, Gemma, Kumar, Akash, Lee, Choli, Ankenman, Katy, Munson, Jeff, Hiatt, Joseph B., Turner, Emily H., Levy, Roie, O'Day, Diana R., Krumm, Niklas, Coe, Bradley P., Martin, Beth K., Borenstein, Elhanan, Nickerson, Deborah A., Mefford, Heather C., Doherty, Dan, Akey, Joshua M., Bernier, Raphael, Eichler, Evan E., Shendure, Jay

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Results of genetic analysis of 11 341 participants enrolled in the My Life, Our Future hemophilia genotyping initiative in the United States von Johnsen, Jill M., Fletcher, Shelley N., Dove, Angela, McCracken, Haley, Martin, Beth K., Kircher, Martin, Josephson, Neil C., Shendure, Jay, Ruuska, Sarah E., Valentino, Leonard A., Pierce, Glenn F., Watson, Crystal, Cheng, Dunlei, Recht, Michael, Konkle, Barbara A.

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Multiplex, single-cell CRISPRa screening for cell type specific regulatory elements von Chardon, Florence M., McDiarmid, Troy A., Page, Nicholas F., Daza, Riza M., Martin, Beth K., Domcke, Silvia, Regalado, Samuel G., Lalanne, Jean-Benoît, Calderon, Diego, Li, Xiaoyi, Starita, Lea M., Sanders, Stephan J., Ahituv, Nadav, Shendure, Jay

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Genome-wide strand asymmetry in massively parallel reporter activity favors genic strands von Roberts, Brian S., Partridge, E. Christopher, Moyers, Bryan A., Agarwal, Vikram, Newberry, Kimberly M., Martin, Beth K., Shendure, Jay, Myers, Richard M., Cooper, Gregory M.

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Novel approach to genetic analysis and results in 3000 hemophilia patients enrolled in the My Life, Our Future initiative von Johnsen, Jill M., Fletcher, Shelley N., Huston, Haley, Roberge, Sarah, Martin, Beth K., Kircher, Martin, Josephson, Neil C., Shendure, Jay, Ruuska, Sarah, Koerper, Marion A., Morales, Jaime, Pierce, Glenn F., Aschman, Diane J., Konkle, Barbara A.

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Embryo model completes gastrulation to neurulation and organogenesis von Amadei, Gianluca, Handford, Charlotte E., Qiu, Chengxiang, De Jonghe, Joachim, Greenfeld, Hannah, Tran, Martin, Martin, Beth K., Chen, Dong-Yuan, Aguilera-Castrejon, Alejandro, Hanna, Jacob H., Elowitz, Michael B., Hollfelder, Florian, Shendure, Jay, Glover, David M., Zernicka-Goetz, Magdalena

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Optimized single-nucleus transcriptional profiling by combinatorial indexing von Martin, Beth K., Qiu, Chengxiang, Nichols, Eva, Phung, Melissa, Green-Gladden, Rula, Srivatsan, Sanjay, Blecher-Gonen, Ronnie, Beliveau, Brian J., Trapnell, Cole, Cao, Junyue, Shendure, Jay

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Single-cell analysis of chromatin and expression reveals age- and sex-associated alterations in the human heart von Read, David F., Booth, Gregory T., Daza, Riza M., Jackson, Dana L., Gladden, Rula Green, Srivatsan, Sanjay R., Ewing, Brent, Franks, Jennifer M., Spurrell, Cailyn H., Gomes, Anne Roshella, O’Day, Diana, Gogate, Aishwarya A., Martin, Beth K., Larson, Haleigh, Pfleger, Christian, Starita, Lea, Lin, Yiing, Shendure, Jay, Lin, Shin, Trapnell, Cole

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The haplotype-resolved genome and epigenome of the aneuploid HeLa cancer cell line von Adey, Andrew, Burton, Joshua N., Kitzman, Jacob O., Hiatt, Joseph B., Lewis, Alexandra P., Martin, Beth K., Qiu, Ruolan, Lee, Choli, Shendure, Jay

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Multiplex profiling of developmental cis-regulatory elements with quantitative single-cell expression reporters von Lalanne, Jean-Benoît, Regalado, Samuel G., Domcke, Silvia, Calderon, Diego, Martin, Beth K., Li, Xiaoyi, Li, Tony, Suiter, Chase C., Lee, Choli, Trapnell, Cole, Shendure, Jay

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Retinoic acid induces human gastruloids with posterior embryo-like structures von Hamazaki, Nobuhiko, Yang, Wei, Kubo, Connor A., Qiu, Chengxiang, Martin, Beth K., Garge, Riddhiman K., Regalado, Samuel G., Nichols, Eva K., Pendyala, Sriram, Bradley, Nicholas, Fowler, Douglas M., Lee, Choli, Daza, Riza M., Srivatsan, Sanjay, Shendure, Jay

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Chromatin context-dependent regulation and epigenetic manipulation of prime editing von Li, Xiaoyi, Chen, Wei, Martin, Beth K., Calderon, Diego, Lee, Choli, Choi, Junhong, Chardon, Florence M., McDiarmid, Troy A., Daza, Riza M., Kim, Haedong, Lalanne, Jean-Benoît, Nathans, Jenny F., Lee, David S., Shendure, Jay

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A single-cell time-lapse of mouse prenatal development from gastrula to birth von Qiu, Chengxiang, Martin, Beth K., Welsh, Ian C., Daza, Riza M., Le, Truc-Mai, Huang, Xingfan, Nichols, Eva K., Taylor, Megan L., Fulton, Olivia, O’Day, Diana R., Gomes, Anne Roshella, Ilcisin, Saskia, Srivatsan, Sanjay, Deng, Xinxian, Disteche, Christine M., Noble, William Stafford, Hamazaki, Nobuhiko, Moens, Cecilia B., Kimelman, David, Cao, Junyue, Schier, Alexander F., Spielmann, Malte, Murray, Stephen A., Trapnell, Cole, Shendure, Jay

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Results of genetic analysis of 11341 participants enrolled in the My Life, Our Future hemophilia genotyping initiative in the United States von Johnsen, Jill M, Fletcher, Shelley N, Dove, Angela, McCracken, Haley, Martin, Beth K, Kircher, Martin, Josephson, Neil C, Shendure, Jay, Ruuska, Sarah E, Valentino, Leonard A, Pierce, Glenn F, Watson, Crystal, Cheng, Dunlei, Recht, Michael, Konkle, Barbara A

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Results of Genetic Analysis of 11,341 Participants Enrolled in the My Life, Our Future (MLOF) Hemophilia Genotyping Initiative von Johnsen, Jill M, Fletcher, Shelley N, Dove, Angela, McCracken, Haley, Martin, Beth K, Kircher, Martin, Josephson, Neil C, Shendure, Jay, Ruuska, Sarah, Valentino, Leonard A., Pierce, Glenn, Watson, Crystal, Cheng, Dunlei, Recht, Michael, Konkle, Barbara A.

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Caspase-8, association with Alzheimer's Disease and functional analysis of rare variants von Rehker, Jan, Rodhe, Johanna, Nesbitt, Ryan R, Boyle, Evan A, Martin, Beth K, Lord, Jenny, Karaca, Ilker, Naj, Adam, Jessen, Frank, Helisalmi, Seppo, Soininen, Hilkka, Hiltunen, Mikko, Ramirez, Alfredo, Scherer, Martin, Farrer, Lindsay A, Haines, Jonathan L, Pericak-Vance, Margaret A, Raskind, Wendy H, Cruchaga, Carlos, Schellenberg, Gerard D, Joseph, Bertrand, Brkanac, Zoran

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Novel Approach to and Results of Genetic Analysis of 3000 Hemophilia Patients Enrolled in the MyLifeOurFuture Initiative von Johnsen, Jill, Fletcher, Shelley N, Huston, Haley, Roberge, Sarah, Martin, Beth K, Kircher, Martin, Josephson, Neil C, Shendure, Jay, Ruuska, Sarah, Koerper, Marion A, Meltzer, Leslie, Pierce, Glenn F, Aschman, Diane, Konkle, Barbara

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Embryo model completes gastrulation to neurulation and organogenesis von Amadei, Gianluca, Handford, Charlotte E, Qiu, Chengxiang, De Jonghe, Joachim, Greenfeld, Hannah, Tran, Martin, Martin, Beth K, Chen, Dong-Yuan, Aguilera-Castrejon, Alejandro, Hanna, Jacob H, Elowitz, Michael B, Hollfelder, Florian, Shendure, Jay, Glover, David M, Zernicka-Goetz, Magdalena

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