Identification of determinants of differential chromatin accessibility through a massively parallel genome-integrated reporter assay av Hammelman, Jennifer, Krismer, Konstantin, Gifford, David K, Sherwood, Richard I.

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Cloning-free CRISPR av Arbab, Mandana, Srinivasan, Sharanya, Geijsen, Niels, Sherwood, Richard I., Hashimoto, Tatsunori Benjamin

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Cas9 Functionally Opens Chromatin av Barkal, Amira A., Srinivasan, Sharanya, Gifford, David K., Sherwood, Richard I., Hashimoto, Tatsunori Benjamin

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A Multiplexed Barcodelet Single-Cell RNA-Seq Approach Elucidates Combinatorial Signaling Pathways that Drive ESC Differentiation av Yeo, Grace Hui Ting, Lin, Lin, Qi, Celine Yueyue, Cha, Minsun, Gifford, David K, Sherwood, Richard I

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A Multiplexed Barcodelet Single-Cell RNA-Seq Approach Elucidates Combinatorial Signaling Pathways that Drive ESC Differentiation av Yeo, Grace Hui Ting, Lin, Lin, Qi, Celine Yueyue, Cha, Minsun, Gifford, David K, Sherwood, Richard I.

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Machine learning based CRISPR gRNA design for therapeutic exon skipping av Louie, Wilson, Shen, Max W, Tahiry, Zakir, Zhang, Sophia, Worstell, Daniel, Cassa, Christopher A, Sherwood, Richard I, Gifford, David K

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An Integrated Model of Multiple-Condition ChIP-Seq Data Reveals Predeterminants of Cdx2 Binding av Mahony, Shaun, Edwards, Matthew D, Mazzoni, Esteban O, Sherwood, Richard I, Kakumanu, Akshay, Morrison, Carolyn A, Wichterle, Hynek, Gifford, David K

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An Integrated Model of Multiple-Condition ChIP-Seq Data Reveals Predeterminants of Cdx2 Binding av Mahony, Shaun, Edwards, Matthew D, Mazzoni, Esteban O, Sherwood, Richard I, Kakumanu, Akshay, Morrison, Carolyn A, Wichterle, Hynek, Gifford, David K

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Small molecule inhibition of ATM kinase increases CRISPR-Cas9 1-bp insertion frequency av Bermudez-Cabrera, Heysol C, Culbertson, Sannie, Barkal, Sammy, Holmes, Benjamin, Shen, Max W, Zhang, Sophia, Gifford, David K, Sherwood, Richard I

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An Integrated Model of Multiple-Condition ChIP-Seq Data Reveals Predeterminants of Cdx2 Binding av Mahony, Shaun, Edwards, Matthew Douglas, Mazzoni, Esteban O., Sherwood, Richard I., Kakumanu, Akshay, Morrison, Carolyn A., Wichterle, Hynek, Gifford, David K.

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Detection of gene cis-regulatory element perturbations in single-cell transcriptomes av Yeo, Grace Hui Ting, Juez, Oscar, Chen, Qing, Banerjee, Budhaditya, Chu, Lendy, Shen, Max Walt, Sabry, May, Logister, Ive, Sherwood, Richard I., Gifford, David K

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Discovery of directional and nondirectional pioneer transcription factors by modeling DNase profile magnitude and shape av Lewis, Sophia, van Hoff, John Peter, Karun, Vivek, Hashimoto, Tatsunori Benjamin, Sherwood, Richard I., O'Donnell, Charles William, Barkal, Amira A., Jaakkola, Tommi S., Gifford, David K.

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A synergistic DNA logic predicts genome-wide chromatin accessibility av Sherwood, Richard I., Emons, Bart J.M., Hashimoto, Tatsunori Benjamin, Kang, Daniel D., Rajagopal, Nisha, Barkal, Amira, Zeng, Haoyang, Srinivasan, Sharanya, Jaakkola, Tommi S., Gifford, David K.

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High-throughput mapping of regulatory DNA av Kooshesh, Kameron, Banerjee, Budhaditya, Emons, Bart J M, Sherwood, Richard I, Rajagopal, Nisha, Srinivasan, Sharanya, Guo, Yuchun, Edwards, Matthew D, Syed, Tahin Fahmid, Gifford, David K

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Predictable and precise template-free CRISPR editing of pathogenic variants av Shen, Max Walt, Arbab, Mandana, Hsu, Jonathan Yee-Ting, Worstell, Daniel, Culbertson, Sannie J., Krabbe, Olga, Cassa, Christopher A., Liu, David R., Gifford, David K., Sherwood, Richard I.

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A multi-parametric flow cytometric assay to analyze DNA–protein interactions av Arbab, Mandana, Mahony, Shaun, Cho, Hyunjii, Chick, Joel M., Rolfe, Philip Alexander, Van Hoff, John Peter, Morris, Viveca W. S., Gygi, Steven P., Maas, Richard L., Gifford, David K., Sherwood, Richard I.

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Chemogenetic System Demonstrates That Cas9 Longevity Impacts Genome Editing Outcomes av Sreekanth, Vedagopuram, Zhou, Qingxuan, Kokkonda, Praveen, Bermudez-Cabrera, Heysol C., Lim, Donghyun, Law, Benjamin K., Holmes, Benjamin Ray, Chaudhary, Santosh K., Pergu, Rajaiah, Leger, Brittany S., Walker, James A., Gifford, David K, Sherwood, Richard I., Choudhary, Amit

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A distant trophoblast-specific enhancer controls HLA-G expression at the maternal–fetal interface av Ferreira, Leonardo M. R., Meissner, Torsten B., Mikkelsen, Tarjei S., Mallard, William, O’Donnell, Charles W., Tilburgs, Tamara, Gomes, Hannah A. B., Camahort, Raymond, Sherwood, Richard I., Rinn, John L., Cowan, Chad A., Strominger, Jack L., Gifford, David K

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A CD47-associated super-enhancer links pro-inflammatory signalling to CD47 upregulation in breast cancer av Betancur, Paola A., Abraham, Brian J., Yiu, Ying Y., Willingham, Stephen B., Khameneh, Farnaz, Zarnegar, Mark, Kuo, Angera H., McKenna, Kelly, Kojima, Yoko, Leeper, Nicholas J., Ho, Po, Gip, Phung, Swigut, Tomek, Sherwood, Richard I., Clarke, Michael F., Somlo, George, Weissman, Irving L., Young, Richard A.

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