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Optimizing sequence design strategies for perturbation MPRAs: a computational evaluation framework.

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Title: Optimizing sequence design strategies for perturbation MPRAs: a computational evaluation framework.
Authors: Liu J; Graduate Program in Cell & Developmental Biology, Rutgers, The State University of New Jersey, 604 Allison Rd, Piscataway, NJ 08854, USA.; Department of Biochemistry and Molecular Biology, Rutgers, The State University of New Jersey, 604 Allison Road, Piscataway, NJ 08854, USA.; Center for Advanced Biotechnology and Medicine, Rutgers, The State University of New Jersey, 679 Hoes Lane West, Piscataway, Piscataway, NJ 08854, USA., Ashuach T; Department of Electrical Engineering and Computer Sciences and Center for Computational Biology, University of California, Berkeley, 387 Soda Hall, Berkeley, CA 94720, USA., Inoue F; Institute for the Advanced Study of Human Biology (WPI-ASHBi), Kyoto University, Faculty of Medicine Building B, Yoshidatachibanacho, Sakyo Ward, Kyoto 606-8303, Japan., Ahituv N; Department of Bioengineering and Therapeutic Sciences, University of California, 1700 4th Street, San Francisco, CA 94158, USA.; Institute for Human Genetics, University of California, 513 Parnassus Ave, San Francisco, CA 94143, USA., Yosef N; Department of Systems Immunology, Weizmann Institute of Science, 234 Herzl Street, Rehovot 7610001, Israel.; Chan-Zuckerberg Biohub, 499 Illinois St, San Francisco, CA 94158, USA.; Department of Systems Immunology, Ragon Institute of MGH, MIT, and Harvard Institute of Science, 400 Technology Square, Cambridge, MA 02139, USA., Kreimer A; Department of Biochemistry and Molecular Biology, Rutgers, The State University of New Jersey, 604 Allison Road, Piscataway, NJ 08854, USA.; Center for Advanced Biotechnology and Medicine, Rutgers, The State University of New Jersey, 679 Hoes Lane West, Piscataway, Piscataway, NJ 08854, USA.
Source: Nucleic acids research [Nucleic Acids Res] 2024 Feb 28; Vol. 52 (4), pp. 1613-1627.
Publication Type: Journal Article; Research Support, N.I.H., Extramural
Journal Info: Publisher: Oxford University Press Country of Publication: England NLM ID: 0411011 Publication Model: Print Cited Medium: Internet ISSN: 1362-4962 (Electronic) Linking ISSN: 03051048 NLM ISO Abbreviation: Nucleic Acids Res Subsets: MEDLINE
Database: MEDLINE Ultimate
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  Data: <searchLink fieldCode="AU" term="%22Liu+J%22">Liu J</searchLink>; Graduate Program in Cell & Developmental Biology, Rutgers, The State University of New Jersey, 604 Allison Rd, Piscataway, NJ 08854, USA.; Department of Biochemistry and Molecular Biology, Rutgers, The State University of New Jersey, 604 Allison Road, Piscataway, NJ 08854, USA.; Center for Advanced Biotechnology and Medicine, Rutgers, The State University of New Jersey, 679 Hoes Lane West, Piscataway, Piscataway, NJ 08854, USA.<br /><searchLink fieldCode="AU" term="%22Ashuach+T%22">Ashuach T</searchLink>; Department of Electrical Engineering and Computer Sciences and Center for Computational Biology, University of California, Berkeley, 387 Soda Hall, Berkeley, CA 94720, USA.<br /><searchLink fieldCode="AU" term="%22Inoue+F%22">Inoue F</searchLink>; Institute for the Advanced Study of Human Biology (WPI-ASHBi), Kyoto University, Faculty of Medicine Building B, Yoshidatachibanacho, Sakyo Ward, Kyoto 606-8303, Japan.<br /><searchLink fieldCode="AU" term="%22Ahituv+N%22">Ahituv N</searchLink>; Department of Bioengineering and Therapeutic Sciences, University of California, 1700 4th Street, San Francisco, CA 94158, USA.; Institute for Human Genetics, University of California, 513 Parnassus Ave, San Francisco, CA 94143, USA.<br /><searchLink fieldCode="AU" term="%22Yosef+N%22">Yosef N</searchLink>; Department of Systems Immunology, Weizmann Institute of Science, 234 Herzl Street, Rehovot 7610001, Israel.; Chan-Zuckerberg Biohub, 499 Illinois St, San Francisco, CA 94158, USA.; Department of Systems Immunology, Ragon Institute of MGH, MIT, and Harvard Institute of Science, 400 Technology Square, Cambridge, MA 02139, USA.<br /><searchLink fieldCode="AU" term="%22Kreimer+A%22">Kreimer A</searchLink>; Department of Biochemistry and Molecular Biology, Rutgers, The State University of New Jersey, 604 Allison Road, Piscataway, NJ 08854, USA.; Center for Advanced Biotechnology and Medicine, Rutgers, The State University of New Jersey, 679 Hoes Lane West, Piscataway, Piscataway, NJ 08854, USA.
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        Value: 10.1093/nar/gkae012
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              Text: 2024 Feb 28
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