The DOI matches its Crossref record; 9 of the 9 references it cites were found in a registry or an index.
Structural Basis for the Canonical and Non-canonical PAM Recognition by CRISPR-Cpf1
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
LbCpf1 and AsCpf1 have higher targeting specificity in mammalian cells than SpCas9, as measured through Digenome-Seq analysis.
“Cas12a (type-V Cpf1) from Lachnospiraceae bacterium ND2006 (LbCpf1) and Acidaminococcus sp. BV3L6 (AsCpf1) have many differences from SpCas9, but they are gaining popularity because they have higher targeting specificity in mammalian cells, as measured through Digenome-Seq analysis [74,75].”
From Viral Delivery Systems for CRISPR (2019) · cites this paper as [75]
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Coot : model-building tools for molecular graphics
Emsley, P., & Cowtan, K. (2004) · Acta Crystallographica Section D Biological Crystallography · doi:10.1107/s0907444904019158 · Cited by 30,571
A Programmable Dual-RNA–Guided DNA Endonuclease in Adaptive Bacterial Immunity
Jinek, M., Chylinski, K., Fonfara, I., Hauer, M., Doudna, J. A., & Charpentier, E. (2012) · Science · doi:10.1126/science.1225829 · Cited by 17,116
Genome engineering using the CRISPR-Cas9 system
Ran, F. A., Hsu, P. D., Wright, J., Agarwala, V., Scott, D. A., & Zhang, F. (2013) · Nature Protocols · doi:10.1038/nprot.2013.143 · Cited by 11,133
Self-citationThe new frontier of genome engineering with CRISPR-Cas9
Doudna, J. A., & Charpentier, E. (2014) · Science · doi:10.1126/science.1258096 · Cited by 7,062
In vivo genome editing using Staphylococcus aureus Cas9
Ran, F. A., Cong, L., Yan, W. X., Scott, D. A., Gootenberg, J. S., Kriz, A. J., Zetsche, B., Shalem, O., Wu, X., Makarova, K. S., et al. (2015) · Nature · doi:10.1038/nature14299 · Cited by 2,687
Self-citationCRISPR RNA Maturation by Trans-Encoded Small RNA and Host Factor RNase III
Deltcheva, E., Chylinski, K., Sharma, C. M., Gonzales, K., Chao, Y., Pirzada, Z. A., Eckert, M. R., Vogel, J., & Charpentier, E. (2011) · Nature · doi:10.1038/nature09886 · Cited by 2,563
Crystal structure of Cas9 in complex with guide RNA and target DNA
Nishimasu, H., Ran, F. A., Hsu, P. D., Konermann, S., Shehata, S. I., Dohmae, N., Ishitani, R., Zhang, F., & Nureki, O. (2014) · Cell · doi:10.1016/j.cell.2014.02.001 · Cited by 2,306
In vivo high-throughput profiling of CRISPR-Cpf1 activity
Kim, H. K., Song, M., Lee, J., Menon, A. V., Jung, S., Kang, Y.-M., Choi, J. W., Woo, E., Koh, H. C., Nam, J.-W., et al. (2017) · Nature Methods · doi:10.1038/nmeth.4104 · Cited by 383
Structural basis for the altered PAM recognition by engineered CRISPR-Cpf1
Nishimasu, H., Yamano, T., Gao, L., Zhang, F., Ishitani, R., & Nureki, O. (2017) · Molecular Cell · doi:10.1016/j.molcel.2017.04.019 · Cited by 102
Flagged first, then by citations
Research works printed but not linked: 36
- Adams, 2010, PHENIX: A comprehensive Python-based system for macromolecular structure solution, Acta Crystallogr. Sect. D Biol. Crystallogr., 66, 213, 10.1107/S0907444909052925 · DOI · Paper page
- Anders, 2014, Structural basis of PAM-dependent target DNA recognition by the Cas9 endonuclease, Nature, 513, 569, 10.1038/nature13579 · DOI · Paper page
- Barrangou, 2016, Applications of CRISPR technologies in research and beyond, Nat. Biotechnol., 34, 933, 10.1038/nbt.3659 · DOI · Paper page
- Dong, 2016, The crystal structure of Cpf1 in complex with CRISPR RNA, Nature, 532, 522, 10.1038/nature17944 · DOI · Paper page
- Evans, 2013, How good are my data and what is the resolution?, Acta Crystallogr. Sect. D Biol. Crystallogr., 69, 1204, 10.1107/S0907444913000061 · DOI
- Fonfara, 2014, Phylogeny of Cas9 determines functional exchangeability of dual-RNA and Cas9 among orthologous type II CRISPR-Cas systems, Nucleic Acids Res., 42, 2577, 10.1093/nar/gkt1074 · DOI · Paper page
- Fonfara, 2016, The CRISPR-associated DNA-cleaving enzyme Cpf1 also processes precursor CRISPR RNA, Nature, 532, 517, 10.1038/nature17945 · DOI · Paper page
- Gao, 2016, Type V CRISPR-Cas Cpf1 endonuclease employs a unique mechanism for crRNA-mediated target DNA recognition, Cell Res., 26, 901, 10.1038/cr.2016.88 · DOI
- Gao, 2017, Engineered Cpf1 variants with altered PAM specificities, Nat. Biotechnol., 10.1038/nbt.3900 · DOI · Paper page
- Garneau, 2010, The CRISPR/Cas bacterial immune system cleaves bacteriophage and plasmid DNA, Nature, 468, 67, 10.1038/nature09523 · DOI
- Hirano, 2016, Structure and engineering of Francisella novicida Cas9, Cell, 164, 950, 10.1016/j.cell.2016.01.039 · DOI
- Hur, 2016, Targeted mutagenesis in mice by electroporation of Cpf1 ribonucleoproteins, Nat. Biotechnol., 34, 807, 10.1038/nbt.3596 · DOI
- Jiang, 2015, A Cas9-guide RNA complex preorganized for target DNA recognition, Science, 348, 1477, 10.1126/science.aab1452 · DOI
- Karvelis, 2015, Rapid characterization of CRISPR-Cas9 protospacer adjacent motif sequence elements, Genome Biol., 16, 253, 10.1186/s13059-015-0818-7 · DOI
- Kim, 2016, Generation of knockout mice by Cpf1-mediated gene targeting, Nat. Biotechnol., 34, 808, 10.1038/nbt.3614 · DOI
- Kim, 2016, Genome-wide analysis reveals specificities of Cpf1 endonucleases in human cells, Nat. Biotechnol., 34, 863, 10.1038/nbt.3609 · DOI · Paper page
- Kleinstiver, 2016, Genome-wide specificities of CRISPR-Cas Cpf1 nucleases in human cells, Nat. Biotechnol., 34, 869, 10.1038/nbt.3620 · DOI · Paper page
- Komor, 2017, CRISPR-based technologies for the manipulation of eukaryotic genomes, Cell, 168, 20, 10.1016/j.cell.2016.10.044 · DOI
- Liu, 2017, C2c1-sgRNA complex structure reveals RNA-guided DNA cleavage mechanism, Mol. Cell, 65, 310, 10.1016/j.molcel.2016.11.040 · DOI
- Makarova, 2015, An updated evolutionary classification of CRISPR-Cas systems, Nat. Rev. Microbiol., 13, 722, 10.1038/nrmicro3569 · DOI · Paper page
- Marraffini, 2015, CRISPR-Cas immunity in prokaryotes, Nature, 526, 55, 10.1038/nature15386 · DOI
- Mohanraju, 2016, Diverse evolutionary roots and mechanistic variations of the CRISPR-Cas systems, Science, 353, aad5147, 10.1126/science.aad5147 · DOI
- Nishimasu, 2017, Structures and mechanisms of CRISPR RNA-guided effector nucleases, Curr. Opin. Struct. Biol., 43, 68, 10.1016/j.sbi.2016.11.013 · DOI
- Nishimasu, 2015, Crystal structure of Staphylococcus aureus Cas9, Cell, 162, 1113, 10.1016/j.cell.2015.08.007 · DOI
- Shmakov, 2015, Discovery and functional characterization of diverse class 2 CRISPR-Cas systems, Mol. Cell, 60, 385, 10.1016/j.molcel.2015.10.008 · DOI · Paper page
- Shmakov, 2017, Diversity and evolution of class 2 CRISPR-Cas systems, Nat. Rev. Microbiol., 15, 169, 10.1038/nrmicro.2016.184 · DOI · Paper page
- Swarts, 2017, Structural basis for guide RNA processing and seed-dependent DNA targeting by CRISPR-Cas12a, Mol. Cell, 66, 221, 10.1016/j.molcel.2017.03.016 · DOI
- Tang, 2017, A CRISPR-Cpf1 system for efficient genome editing and transcriptional repression in plants, Nat Plants, 3, 17018, 10.1038/nplants.2017.18 · DOI
- Vagin, 2010, Molecular replacement with MOLREP, Acta Crystallogr. Sect. D Biol. Crystallogr., 66, 22, 10.1107/S0907444909042589 · DOI
- Waterman, 2013, The DIALS framework for integration software, CCP4 Newsletter, 49, 16
- Wright, 2016, Biology and applications of CRISPR systems: Harnessing Nature’s toolbox for genome engineering, Cell, 164, 29, 10.1016/j.cell.2015.12.035 · DOI · Paper page
- Yamada, 2017, Crystal structure of the minimal Cas9 from Campylobacter jejuni reveals the molecular diversity in the CRISPR-Cas9 systems, Mol. Cell, 65, 1109, 10.1016/j.molcel.2017.02.007 · DOI
- Yamano, 2016, Crystal structure of Cpf1 in complex with guide RNA and target DNA, Cell, 165, 949, 10.1016/j.cell.2016.04.003 · DOI
- Yang, 2016, PAM-dependent target DNA recognition and cleavage by C2c1 CRISPR-Cas endonuclease, Cell, 167, 1814, 10.1016/j.cell.2016.11.053 · DOI
- Zetsche, 2015, Cpf1 is a single RNA-guided endonuclease of a class 2 CRISPR-Cas system, Cell, 163, 759, 10.1016/j.cell.2015.09.038 · DOI · Paper page
- Zetsche, 2017, Multiplex gene editing by CRISPR-Cpf1 using a single crRNA array, Nat. Biotechnol., 35, 31, 10.1038/nbt.3737 · DOI · Paper page
Cited by
Sorted by citations
Engineered CRISPR-Cas9 nuclease with expanded targeting space
Nishimasu, H., Shi, X., Ishiguro, S., Gao, L., Hirano, S., Okazaki, S., Noda, T., Abudayyeh, O. O., Gootenberg, J. S., Mori, H., et al. (2018) · Science · doi:10.1126/science.aas9129 · Cited by 1,100
Self-citationViral Delivery Systems for CRISPR
Xu, C. L., Ruan, M. Z. C., Mahajan, V. B., & Tsang, S. H. (2019) · Viruses · doi:10.3390/v11010028 · Cited by 277
Extension of the crRNA enhances Cpf1 gene editing in vitro and in vivo
Park, H. M., Liu, H., Wu, J., Chong, A., Mackley, V., Fellmann, C., Rao, A., Jiang, F., Chu, H., Murthy, N., et al. (2018) · Nature Communications · doi:10.1038/s41467-018-05641-3 · Cited by 102
Metadata
- Authors
- Yamano, T., Zetsche, B., Ishitani, R., Zhang, F., Nishimasu, H., & Nureki, O.
- Venue
- Molecular Cell
- Publisher
- Elsevier BV
- Published
- 2017-08
- Volume
- 67
- Issue
- 4
- Pages
- 633-645.e3
- ISSN
- 1097-2765
- PMC
- PMC5957536
- Cited by
- 322
- References
- 9
- Language
- en
- Licence
- Funders
- Japan Society for the Promotion of Science (15H01463, 26291010)
- National Institutes of Health
- Ministry of Education, Culture, Sports, Science and Technology
- National Institute of Mental Health (1R01-MH110049, 5DP1-MH100706)
- Japan Science and Technology Agency
- National Institute of Diabetes and Digestive and Kidney Diseases (5R01DK097768-03)
- Precursory Research for Embryonic Science and Technology (JPMJPR13L8)
- Japan Agency for Medical Research and Development
- Vallee Foundation
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review