Works by Doudna, Jennifer A.

Results: 111

Dynamic basis of supercoiling-dependent DNA interrogation by Cas12a via R-loop intermediates.

Published in:

Nature Communications, 2025, v. 16, n. 1, p. 1, doi. 10.1038/s41467-025-57703-y

By:

Aris, Kevin D. P.;
Cofsky, Joshua C.;
Shi, Honglue;
Al-Sayyad, Noor;
Ivanov, Ivan E.;
Balaji, Ashwin;
Doudna, Jennifer A.;
Bryant, Zev

Publication type:

Article

RNA language models predict mutations that improve RNA function.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-54812-y

By:

Shulgina, Yekaterina;
Trinidad, Marena I.;
Langeberg, Conner J.;
Nisonoff, Hunter;
Chithrananda, Seyone;
Skopintsev, Petr;
Nissley, Amos J.;
Patel, Jaymin;
Boger, Ron S.;
Shi, Honglue;
Yoon, Peter H.;
Doherty, Erin E.;
Pande, Tara;
Iyer, Aditya M.;
Doudna, Jennifer A.;
Cate, Jamie H. D.

Publication type:

Article

Mechanistic basis of atypical TERT promoter mutations.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-54158-5

By:

Elliott, Kerryn;
Singh, Vinod Kumar;
Bäckerholm, Alan;
Ögren, Linnea;
Lindberg, Markus;
Soczek, Katarzyna M.;
Hoberg, Emily;
Luijts, Tom;
Van den Eynden, Jimmy;
Falkenberg, Maria;
Doudna, Jennifer;
Ståhlberg, Anders;
Larsson, Erik

Publication type:

Article

Crystal structure of an RNA/DNA strand exchange junction.

Published in:

PLoS ONE, 2022, v. 17, n. 4, p. 1, doi. 10.1371/journal.pone.0263547

By:

Cofsky, Joshua C.;
Knott, Gavin J.;
Gee, Christine L.;
Doudna, Jennifer A.

Publication type:

Article

Rewriting the Code of Life.

Published in:

National Catholic Bioethics Quarterly, 2017, v. 17, n. 1, p. 37

By:

Doudna, Jennifer A.

Publication type:

Article

Structural and mechanistic insights into hepatitis C viral translation initiation.

Published in:

Nature Reviews Microbiology, 2007, v. 5, n. 1, p. 29, doi. 10.1038/nrmicro1558

By:

Fraser, Christopher S.;
Doudna, Jennifer A.

Publication type:

Article

A three-dimensional view of the molecular machinery of RNA interference.

Published in:

Nature, 2009, v. 457, n. 7228, p. 405, doi. 10.1038/nature07755

By:

Jinek, Martin;
Doudna, Jennifer A.

Publication type:

Article

A conformational switch controls hepatitis delta virus ribozyme catalysis.

Published in:

Nature, 2004, v. 429, n. 6988, p. 201, doi. 10.1038/nature02522

By:

Ke, Ailong;
Kaihong Zhou;
Fang Ding;
Cate, Jamie H. D.;
Doudna, Jennifer A.

Publication type:

Article

Unconventional miR-122 binding stabilizes the HCV genome by forming a trimolecular RNA structure.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 7, p. 4230, doi. 10.1093/nar/gkt075

By:

Mortimer, Stefanie A.;
Doudna, Jennifer A.

Publication type:

Article

Distinct sites of phosphorothioate substitution interfere with folding and splicing of the Anabaena group I intron.

Published in:

Nucleic Acids Research, 2004, v. 32, n. 7, p. 2272, doi. 10.1093/nar/gkh548

By:

Lupták, Andrej;
Doudna, Jennifer A.

Publication type:

Article

A functional map of HIV-host interactions in primary human T cells.

Published in:

Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-29346-w

By:

Hiatt, Joseph;
Hultquist, Judd F.;
McGregor, Michael J.;
Bouhaddou, Mehdi;
Leenay, Ryan T.;
Simons, Lacy M.;
Young, Janet M.;
Haas, Paige;
Roth, Theodore L.;
Tobin, Victoria;
Wojcechowskyj, Jason A.;
Woo, Jonathan M.;
Rathore, Ujjwal;
Cavero, Devin A.;
Shifrut, Eric;
Nguyen, Thong T.;
Haas, Kelsey M.;
Malik, Harmit S.;
Doudna, Jennifer A.;
May, Andrew P.

Publication type:

Article

Comprehensive deletion landscape of CRISPR-Cas9 identifies minimal RNA-guided DNA-binding modules.

Published in:

Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-25992-8

By:

Shams, Arik;
Higgins, Sean A.;
Fellmann, Christof;
Laughlin, Thomas G.;
Oakes, Benjamin L.;
Lew, Rachel;
Kim, Shin;
Lukarska, Maria;
Arnold, Madeline;
Staahl, Brett T.;
Doudna, Jennifer A.;
Savage, David F.

Publication type:

Article

Structural coordination between active sites of a CRISPR reverse transcriptase-integrase complex.

Published in:

Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-22900-y

By:

Wang, Joy Y.;
Hoel, Christopher M.;
Al-Shayeb, Basem;
Banfield, Jillian F.;
Brohawn, Stephen G.;
Doudna, Jennifer A.

Publication type:

Article

Diverse ATPase Proteins in Mobilomes Constitute a Large Potential Sink for Prokaryotic Host ATP.

Published in:

Frontiers in Microbiology, 2021, v. 12, p. 1, doi. 10.3389/fmicb.2021.691847

By:

Shim, Hyunjin;
Shivram, Haridha;
Lei, Shufei;
Doudna, Jennifer A.;
Banfield, Jillian F.

Publication type:

Article

RNA and DNA Targeting by a Reconstituted Thermus thermophiles Type III-A CRISPR-Cas System.

Published in:

PLoS ONE, 2017, v. 12, n. 1, p. 1, doi. 10.1371/journal.pone.0170552

By:

Liu, Tina Y.;
Iavarone, Anthony T.;
Doudna, Jennifer A.

Publication type:

Article

Insights into RNA structure and function from genome-wide studies.

Published in:

Nature Reviews Genetics, 2014, v. 15, n. 7, p. 469, doi. 10.1038/nrg3681

By:

Mortimer, Stefanie A.;
Kidwell, Mary Anne;
Doudna, Jennifer A.

Publication type:

Article

Rapid assembly of SARS-CoV-2 genomes reveals attenuation of the Omicron BA.1 variant through NSP6.

Published in:

Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-37787-0

By:

Taha, Taha Y.;
Chen, Irene P.;
Hayashi, Jennifer M.;
Tabata, Takako;
Walcott, Keith;
Kimmerly, Gabriella R.;
Syed, Abdullah M.;
Ciling, Alison;
Suryawanshi, Rahul K.;
Martin, Hannah S.;
Bach, Bryan H.;
Tsou, Chia-Lin;
Montano, Mauricio;
Khalid, Mir M.;
Sreekumar, Bharath K.;
Renuka Kumar, G.;
Wyman, Stacia;
Doudna, Jennifer A.;
Ott, Melanie

Publication type:

Article

Conserved features of TERT promoter duplications reveal an activation mechanism that mimics hotspot mutations in cancer.

Published in:

Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-33099-x

By:

Barger, Carter J.;
Suwala, Abigail K.;
Soczek, Katarzyna M.;
Wang, Albert S.;
Kim, Min Y.;
Hong, Chibo;
Doudna, Jennifer A.;
Chang, Susan M.;
Phillips, Joanna J.;
Solomon, David A.;
Costello, Joseph F.

Publication type:

Article

CRISPR-Cas9 genome engineering of primary CD4<sup>+</sup> T cells for the interrogation of HIV-host factor interactions.

Published in:

Nature Protocols, 2019, v. 14, n. 1, p. 1, doi. 10.1038/s41596-018-0069-7

By:

Hultquist, Judd F.;
Hiatt, Joseph;
Schumann, Kathrin;
McGregor, Michael J.;
Roth, Theodore L.;
Haas, Paige;
Doudna, Jennifer A.;
Marson, Alexander;
Krogan, Nevan J.

Publication type:

Article

DNA recognition by an RNA-guided bacterial Argonaute.

Published in:

PLoS ONE, 2017, v. 12, n. 5, p. 1, doi. 10.1371/journal.pone.0177097

By:

Doxzen, Kevin W.;
Doudna, Jennifer A.

Publication type:

Article

Correction: RNA and DNA Targeting by a Reconstituted Thermus thermophilus Type III-A CRISPR-Cas System.

Published in:

2017

By:

Liu, Tina Y.;
Iavarone, Anthony T.;
Doudna, Jennifer A.

Publication type:

Correction Notice

Analog sensitive chemical inhibition of the DEAD-box protein DDX3.

Published in:

Protein Science: A Publication of the Protein Society, 2016, v. 25, n. 3, p. 638, doi. 10.1002/pro.2857

By:

Floor, Stephen N.;
Barkovich, Krister J.;
Condon, Kendall J.;
Shokat, Kevan M.;
Doudna, Jennifer A.

Publication type:

Article

Mass spectrometric analysis of the human 40S ribosomal subunit: Native and HCV IRES-bound complexes.

Published in:

Protein Science: A Publication of the Protein Society, 2005, v. 14, n. 6, p. 1438, doi. 10.1110/ps.041293005

By:

Yu, Yonghao;
Ji, Hong;
Doudna, Jennifer A.;
Leary, Julie A.

Publication type:

Article

CRISPR System: From Adaptive Immunity to Genome Editing.

Published in:

Molecular Frontiers Journal, 2017, v. 1, n. 2, p. 76, doi. 10.1142/S2529732517400090

By:

Doudna, Jennifer

Publication type:

Article

Use of Cis- and Trans-Ribozymes to Remove 5′ and 3′ Heterogeneities From Milligrams of In Vitro Transcribed RNA.

Published in:

Nucleic Acids Research, 1996, v. 24, n. 5, p. 977, doi. 10.1093/nar/24.5.977

By:

Ferré-D'Amaré, Adrian R.;
Doudna, Jennifer A.

Publication type:

Article

Engineering self-deliverable ribonucleoproteins for genome editing in the brain.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-45998-2

By:

Chen, Kai;
Stahl, Elizabeth C.;
Kang, Min Hyung;
Xu, Bryant;
Allen, Ryan;
Trinidad, Marena;
Doudna, Jennifer A.

Publication type:

Article

Engineering self-deliverable ribonucleoproteins for genome editing in the brain.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-45998-2

By:

Chen, Kai;
Stahl, Elizabeth C.;
Kang, Min Hyung;
Xu, Bryant;
Allen, Ryan;
Trinidad, Marena;
Doudna, Jennifer A.

Publication type:

Article

Engineering self-deliverable ribonucleoproteins for genome editing in the brain.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-45998-2

By:

Chen, Kai;
Stahl, Elizabeth C.;
Kang, Min Hyung;
Xu, Bryant;
Allen, Ryan;
Trinidad, Marena;
Doudna, Jennifer A.

Publication type:

Article

Genomic Engineering and the Future of Medicine.

Published in:

2015

By:

Doudna, Jennifer A.

Publication type:

Opinion

Direct Link between RACK1 Function and Localization at the Ribosome In Vivo.

Published in:

Molecular & Cellular Biology, 2009, v. 29, n. 6, p. 20, doi. 10.1128/MCB.01718-08

By:

Coyle, Scott M.;
Gilbert, Wendy V.;
Doudna, Jennifer A.

Publication type:

Article

A molecular contortionist.

Published in:

Nature, 1997, v. 388, n. 6645, p. 830, doi. 10.1038/42139

By:

Doudna, Jennifer A.

Publication type:

Article

Real-time observation of DNA recognition and rejection by the RNA-guided endonuclease Cas9.

Published in:

Nature Communications, 2016, v. 7, n. 9, p. 12778, doi. 10.1038/ncomms12778

By:

Singh, Digvijay;
Sternberg, Samuel H.;
Fei, Jingyi;
Doudna, Jennifer A.;
Ha, Taekjip

Publication type:

Article

Tertiary Motifs in RNA Structure and Folding.

Published in:

Angewandte Chemie International Edition, 1999, v. 38, n. 16, p. 2326, doi. 10.1002/(SICI)1521-3773(19990816)38:16<2326::AID-ANIE2326>3.0.CO;2-3

By:

Batey, Robert T.;
Rambo, Robert P.;
Doudna, Jennifer A.

Publication type:

Article

Crystal structure of an RNA tertiary domain essential to HCV IRES-mediated translation initiation.

Published in:

Nature Structural Biology, 2002, v. 9, n. 5, p. 370

By:

Kieft, Jeffrey S.;
Zhou, Kaihong;
Grech, Angie;
Jubin, Ronald;
Doudna, Jennifer A.

Publication type:

Article

A universal mode of helix packing in RNA.

Published in:

Nature Structural Biology, 2001, v. 8, n. 4, p. 339, doi. 10.1038/86221

By:

Doherty, Elizabeth A.;
Batey, Robert T.;
Masquida, Benoît;
Doudna, Jennifer A.

Publication type:

Article

Structural genomics of RNA.

Published in:

Nature Structural Biology, 2000, v. 7, p. 954, doi. 10.1038/80729

By:

Doudna, Jennifer A.

Publication type:

Article

A specific monovalent metal ion integral to the AA platform of the RNA tetraloop receptor.

Published in:

Nature Structural Biology, 1998, v. 5, n. 11, p. 986, doi. 10.1038/2960

By:

Basu, Soumitra;
P. Rambo, Robert;
Strauss-Soukup, Juliane;
H.Cate, Jamie;
R. Ferré-D´Amaré, Adrian;
Strobel, Scott A.;
Doudna, Jennifer A.

Publication type:

Article

SARS-CoV-2 evolution balances conflicting roles of N protein phosphorylation.

Published in:

PLoS Pathogens, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.ppat.1012741

By:

Syed, Abdullah M.;
Ciling, Alison;
Chen, Irene P.;
Carlson, Christopher R.;
Adly, Armin N.;
Martin, Hannah S.;
Taha, Taha Y.;
Khalid, Mir M.;
Price, Nathan;
Bouhaddou, Mehdi;
Ummadi, Manisha R.;
Moen, Jack M.;
Krogan, Nevan J.;
Morgan, David O.;
Ott, Melanie;
Doudna, Jennifer A.

Publication type:

Article

Correction: Selective stalling of human translation through small-molecule engagement of the ribosome nascent chain.

Published in:

2018

By:

Lintner, Nathanael G.;
McClure, Kim F.;
Petersen, Donna;
Londregan, Allyn T.;
Piotrowski, David W.;
Wei, Liuqing;
Xiao, Jun;
Bolt, Michael;
Loria, Paula M.;
Maguire, Bruce;
Geoghegan, Kieran F.;
Huang, Austin;
Rolph, Tim;
Liras, Spiros;
Doudna, Jennifer A.;
Dullea, Robert G.;
Cate, Jamie H. D.

Publication type:

Correction Notice

Genome im Fokus: Entwicklung und Anwendungen von CRISPR‐Cas9‐Bildgebungstechnologien.

Published in:

Angewandte Chemie, 2018, v. 130, n. 16, p. 4412, doi. 10.1002/ange.201709201

By:

Knight, Spencer C.;
Tjian, Robert;
Doudna, Jennifer A.

Publication type:

Article

Packaged delivery of CRISPR–Cas9 ribonucleoproteins accelerates genome editing.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 5, p. 1, doi. 10.1093/nar/gkaf105

By:

Karp, Hannah;
Zoltek, Madeline;
Wasko, Kevin;
Vazquez, Angel Luis;
Brim, Jinna;
Ngo, Wayne;
Schepartz, Alanna;
Doudna, Jennifer A

Publication type:

Article

CRISPR-Cas12a bends DNA to destabilize base pairs during target interrogation.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 2, p. 1, doi. 10.1093/nar/gkae1192

By:

Soczek, Katarzyna M;
Cofsky, Joshua C;
Tuck, Owen T;
Shi, Honglue;
Doudna, Jennifer A

Publication type:

Article

Assembly of SARS-CoV-2 nucleocapsid protein with nucleic acid.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6647, doi. 10.1093/nar/gkae256

By:

Zhao, Huaying;
Syed, Abdullah M;
Khalid, Mir M;
Nguyen, Ai;
Ciling, Alison;
Wu, Di;
Yau, Wai-Ming;
Srinivasan, Sanjana;
Esposito, Dominic;
Doudna, Jennifer A;
Piszczek, Grzegorz;
Ott, Melanie;
Schuck, Peter

Publication type:

Article

A phage nucleus-associated RNA-binding protein is required for jumbo phage infection.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 8, p. 4440, doi. 10.1093/nar/gkae216

By:

Enustun, Eray;
Armbruster, Emily G;
Lee, Jina;
Zhang, Sitao;
Yee, Brian A;
Malukhina, Kseniya;
Gu, Yajie;
Deep, Amar;
Naritomi, Jack T;
Liang, Qishan;
Aigner, Stefan;
Adler, Benjamin A;
Cress, Brady F;
Doudna, Jennifer A;
Chaikeeratisak, Vorrapon;
Cleveland, Don W;
Ghassemian, Majid;
Bintu, Bogdan;
Yeo, Gene W;
Pogliano, Joe

Publication type:

Article

Eukaryotic RNA-guided endonucleases evolved from a unique clade of bacterial enzymes.

Published in:

Nucleic Acids Research, 2023, v. 52, n. 22, p. 12414, doi. 10.1093/nar/gkad1053

By:

Yoon, Peter H;
Skopintsev, Petr;
Shi, Honglue;
Chen, LinXing;
Adler, Benjamin A;
Al-Shimary, Muntathar;
Craig, Rory J;
Loi, Kenneth J;
DeTurk, Evan C;
Li, Zheng;
Amerasekera, Jasmine;
Trinidad, Marena;
Nisonoff, Hunter;
Chen, Kai;
Lahiri, Arushi;
Boger, Ron;
Jacobsen, Steve;
Banfield, Jillian F;
Doudna, Jennifer A

Publication type:

Article

CRISPR-RNAa: targeted activation of translation using dCas13 fusions to translation initiation factors.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 15, p. 8986, doi. 10.1093/nar/gkac680

By:

Otoupal, Peter B;
Cress, Brady F;
Doudna, Jennifer A;
Schoeniger, Joseph S

Publication type:

Article

CRISPR–Cas9-mediated nuclear transport and genomic integration of nanostructured genes in human primary cells.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 3, p. 1256, doi. 10.1093/nar/gkac049

By:

Lin-Shiao, Enrique;
Pfeifer, Wolfgang G;
Shy, Brian R;
Saffari Doost, Mohammad;
Chen, Evelyn;
Vykunta, Vivasvan S;
Hamilton, Jennifer R;
Stahl, Elizabeth C;
Lopez, Diana M;
Sandoval Espinoza, Cindy R;
Deyanov, Alexander E;
Lew, Rachel J;
Poirer, Michael G;
Marson, Alexander;
Castro, Carlos E;
Doudna, Jennifer A

Publication type:

Article

A CRISPR-Cas9–integrase complex generates precise DNA fragments for genome integration.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 6, p. 3546, doi. 10.1093/nar/gkab123

By:

Jakhanwal, Shrutee;
Cress, Brady F;
Maguin, Pascal;
Lobba, Marco J;
Marraffini, Luciano A;
Doudna, Jennifer A

Publication type:

Article

Machine learning predicts new anti-CRISPR proteins.

Published in:

Nucleic Acids Research, 2020, v. 48, n. 9, p. 4698, doi. 10.1093/nar/gkaa219

By:

Eitzinger, Simon;
Asif, Amina;
Watters, Kyle E;
Iavarone, Anthony T;
Knott, Gavin J;
Doudna, Jennifer A;
Minhas, Fayyaz ul Amir Afsar

Publication type:

Article

Targeted gene knock-in by homology-directed genome editing using Cas9 ribonucleoprotein and AAV donor delivery.

Published in:

Nucleic Acids Research, 2017, v. 45, n. 11, p. 1, doi. 10.1093/nar/gkx154

By:

Gaj, Thomas;
Staahl, Brett T.;
Rodrigues, Gonçalo M. C.;
Limsirichai, Prajit;
Ekman, Freja K.;
Doudna, Jennifer A.;
Schaffer, David V.

Publication type:

Article