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  1. INTEGRATE: Bacterial Genome Engineering Using CRISPR-Transposons

    Type
    Blog Post
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    Dec. 7, 2020, 2:53 p.m.
    ...transposon-encoded CRISPR–Cas system. Nature 577:271–274 . https://doi.org/10.1038/s41586-019-1849-0 Klompe SE, Vo...RNA-guided DNA integration. Nature 571:219–225 . https://doi.org/10.1038/s41586-019-1323-z Peters JE, Makarova...transposons. Proc Natl Acad Sci USA 114:E7358–E7366 . https://doi.org/10.1073/pnas.1709035114 Rubin BE, Diamond... Bacteria Within Microbial Communities. bioRxiv https://www.biorxiv.org/content/10.1101/2020.07.17.209189v2...CRISPR-associated transposases. Science 365:48–53 . https://doi.org/10.1126/science.aax9181 Strecker J, Ladha...CRISPR-associated transposases.” Science 368:eabb2920 . https://doi.org/10.1126/science.abb2920 Vo PLH, Ronda ...multiplexed bacterial genome engineering. Nat Biotechnol. https://doi.org/10.1038/s41587-020-00745-y Zhang Y, Sun...
  2. Sharing Your Lab Protocols: Using Apps to Save Time & Track Your Experiments

    Type
    Blog Post
    Published
    Sept. 23, 2014, 3:05 p.m.
    ... (e.g. http://openwetware.org/wiki/Protocols/Template). Nature Protocol Exchange Website: http://www.nature.com...share your lab protocols online Addgene Website: http://www.addgene.org/ If you’re working with plasmids...started on our deposit page. Protocols.io Website: http://protocols.io/ Protocols.io is the creation of ... to use the resource. OpenWetWare Wikis Website: http://www.openwetware.org/wiki/Protocols OpenWetWare.org... and biomedical topics. Protocol Online Website: http://www.protocol-online.org/ Protocol Online is one... find useful for your research. LabGuru Website: http://www.labguru.com/ Labguru is a good place to go...such as Nature Protcols and NEB. Quartzy Website: https://www.quartzy.com/ Quartzy is a free web-based lab...
  3. Plasmids 101: Plasmid Incompatibility

    Type
    Blog Post
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    March 31, 2020, 1:15 p.m.
    ...by low-copy number plasmids. Plasmid 80:54–62 . https://doi.org/10.1016/j.plasmid.2015.03.007 Pubmed PMID...clusters. Molecular Microbiology 56:1430–1440 . https://doi.org/10.1111/j.1365-2958.2005.04643.x Pubmed...resistance plasmids in vivo. PLOS ONE 12:e0172913 . https://doi.org/10.1371/journal.pone.0172913 Pubmed PMID...Using Plasmid Incompatibility. PLoS ONE 7:e29875 . https://doi.org/10.1371/journal.pone.0029875 Pubmed PMID...incompatibility. Letters in Applied Microbiology 47:235–240 . https://doi.org/10.1111/j.1472-765x.2008.02426.x Pubmed...Current Opinion in Structural Biology 22:72–79 . https://doi.org/10.1016/j.sbi.2011.11.001 Pubmed PMID:...and host taxonomy. Frontiers in Microbiology 6: . https://doi.org/10.3389/fmicb.2015.00242 Pubmed PMID: ...
  4. CRISPR 101: Cytosine Transversion Editors

    Type
    Blog Post
    Published
    March 25, 2025, 1:15 p.m.
    ...outcomes and assisting sgRNA selection is available at http://www.sunlab.fun:3838/BE_SMART/. Even more new DNA...repair proteins. Nature Communications, 12(1), 1384. https://doi.org/10.1038/s41467-021-21559-9 Huang, M. E...translocation. Nature Cell Biology, 26(2), 294–304. https://doi.org/10.1038/s41556-023-01342-2 Koblan, L. ...learning. Nature Biotechnology, 39(11), 1414–1425. https://doi.org/10.1038/s41587-021-00938-z Koblan, L. ...reconstruction. Nature Biotechnology, 36(9), 843–846. https://doi.org/10.1038/nbt.4172 Kurt, I. C., Zhou, R....human cells. Nature Biotechnology, 39(1), 41–46. https://doi.org/10.1038/s41587-020-0609-x Yang, C., Dong..., Baden-Wurttemberg, Germany), 9(26), e2202957. https://doi.org/10.1002/advs.202202957 Yuan, T., Yan, ...
  5. A Needle in a Base-Stack: Cas9 Structural Biology

    Type
    Blog Post
    Published
    June 4, 2024, 1:15 p.m.
    .... Nature Reviews Microbiology, 20(11), 641–656. https://doi.org/10.1038/s41579-022-00739-4 References ...surveillance by CRISPR–Cas9. Nature, 603(7900), 343–347. https://doi.org/10.1038/s41586-022-04470-1 Cofsky, J. ...Structural & Molecular Biology, 29(4), 395–402. https://doi.org/10.1038/s41594-022-00756-0 Jiang, F., ...Mechanisms. Annual Review of Biophysics, 46, 505–529. https://doi.org/10.1146/annurev-biophys-062215-010822 ...Guide RNA and Target DNA. Cell, 156(5), 935–949. https://doi.org/10.1016/j.cell.2014.02.001 Osuka, S., ... CRISPR–Cas9. The EMBO Journal, 37(10), e96941. https://doi.org/10.15252/embj.201796941 Pattanayak, V....specificity. Nature Biotechnology, 31(9), 839–843. https://doi.org/10.1038/nbt.2673 Sternberg, S. H., LaFrance...
  6. How to Design Your gRNA for CRISPR Genome Editing

    Type
    Blog Post
    Published
    Sept. 24, 2020, 1:15 p.m.
    ... and prime editors. Nat Biotechnol 38:824–844 . https://doi.org/10.1038/s41587-020-0561-9 Dempster JM,...CRISPR-Cas9 gene dependency data sets. Nat Commun 10: . https://doi.org/10.1038/s41467-019-13805-y Doench JG (...guide to genetic screens. Nat Rev Genet 19:67–80 . https://doi.org/10.1038/nrg.2017.97 Hanna RE, Doench JG...CRISPR–Cas experiments. Nat Biotechnol 38:813–823 . https://doi.org/10.1038/s41587-020-0490-7 Radzisheuskaya...transcriptional repression. Nucleic Acids Res 44:e141–e141 . https://doi.org/10.1093/nar/gkw583 Rees HA, Liu DR (2018...transcriptome of living cells. Nat Rev Genet 19:770–788 . https://doi.org/10.1038/s41576-018-0059-1 Veres A, Gosis...Whole-Genome Sequencing. Cell Stem Cell 15:27–30 . https://doi.org/10.1016/j.stem.2014.04.020 Yang L, Guell...
  7. Predicting Adverse Reactions to Monoclonal Antibody Drugs

    Type
    Blog Post
    Published
    Feb. 13, 2024, 2:15 p.m.
    ...Vulnerable Patients. Frontiers in Immunology, 13. https://www.frontiersin.org/articles/10.3389/fimmu.2022.885672Piché...Safety Assessment (pp. 519–542). Academic Press. https://doi.org/10.1016/B978-0-12-417144-2.00027-5van ... Challenges. The oncologist, 21(10), 1260–1268. https://doi.org/10.1634/theoncologist.2016-0061WHO. International...Enhancements. Frontiers in drug discovery, 2, 952326. https://doi.org/10.3389/fddsv.2022.952326Joubert, M. K...Antibody-Based Biotherapeutics. PloS one, 11(8), e0159328. https://doi.org/10.1371/journal.pone.0159328Groell, F....Pharmazeutische Verfahrenstechnik e.V, 130, 128–142. https://doi.org/10.1016/j.ejpb.2018.06.008Lu, RM., Hwang...treatment of diseases. J Biomed Sci 27, 1 (2020). https://doi.org/10.1186/s12929-019-0592-z  Resources Antibodies...
  8. RNA Interference in Plant Biology: New Tools for an Old Favorite

    Type
    Blog Post
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    Oct. 27, 2020, 1:15 p.m.
    ... Function Phenotypes. Plant Biology 7:251–257 . https://doi.org/10.1055/s-2005-837597 Li J-F, Chung HS... Silencing in Plants. Plant Cell 25:1507–1522 . https://doi.org/10.1105/tpc.113.112235 Morgens DW, Deans...for essential genes. Nat Biotechnol 34:634–636 . https://doi.org/10.1038/nbt.3567 Nakaoka Y, Miki T, Fujioka...Microtubule Generation. Plant Cell 24:1478–1493 . https://doi.org/10.1105/tpc.112.098509 Smits AH, Ziebell...in CRISPR knock outs. Nat Methods 16:1087–1093 . https://doi.org/10.1038/s41592-019-0614-5 Sztal TE, Stainier...genetic robustness. Development 147:dev186452 . https://doi.org/10.1242/dev.186452 Wilson RC, Doudna JA...RNA Interference. Annu Rev Biophys 42:217–239 . https://doi.org/10.1146/annurev-biophys-083012-130404 ...
  9. Summer SciComm: Preprints

    Type
    Blog Post
    Published
    Aug. 16, 2022, 1:15 p.m.
    ...Resources References ASAPbio, Preprint Resource Center: https://asapbio.org/preprint-info ASAPbio, Preprints and... and Rapid Communication of COVID-19 research: https://asapbio.org/preprints-and-covid-19 Ettinger CL,...preprinting for early-career researchers. Biol Open. https://doi.org/10.1242/bio.059310 Fraser N, Mayr P, ...preprints: a survey of bioRxiv authors. bioRxiv. https://doi.org/10.1101/2021.09.07.459259 Sarabipour S...early career researcher perspective. PLoS Biol. https://doi.org/10.1371/journal.pbio.3000151 Sever R, ...bioRxiv: the preprint server for biology. bioRxiv. https://doi.org/10.1101/833400  Stern BM, O’Shea EK (2019...scientific publishing in the life sciences. PLoS Biol. https://doi.org/10.1371/journal.pbio.3000116 More resources...
  10. CRISPR 101: Anti-CRISPR Proteins Switch Off CRISPR-Cas Systems

    Type
    Blog Post
    Published
    July 23, 2020, 1:20 p.m.
    ...by an anti-CRISPR protein. Nature 546:436–439 . https://doi.org/10.1038/nature22377 Harrington LB, Doxzen...Inhibitor of CRISPR-Cas9. Cell 170:1224-1233.e15 . https://doi.org/10.1016/j.cell.2017.07.037 Li C, Psatha...Therapy - Methods & Clinical Development 9:390–401 . https://doi.org/10.1016/j.omtm.2018.04.008 Marino ND, ...CRISPR-Cas technologies. Nat Methods 17:471–479 . https://doi.org/10.1038/s41592-020-0771-6 Mayo-Muñoz D...islandicus Rod-Shaped Virus 2. Viruses 10:695 . https://doi.org/10.3390/v10120695 Pawluk A, Amrani N, ...Off-Switches for CRISPR-Cas9. Cell 167:1829-1838.e9 . https://doi.org/10.1016/j.cell.2016.11.017 Shin J, Jiang... an anti-CRISPR DNA mimic. Sci Adv 3:e1701620 . https://doi.org/10.1126/sciadv.1701620 Additional Resources...
  11. Viral Vectors 101: Chemogenetics

    Type
    Blog Post
    Published
    July 11, 2023, 1:15 p.m.
    ...Designer Drugs. ACS Chemical Neuroscience 6:476–484 . https://doi.org/10.1021/cn500325v Goutaudier, R., Coizet...Specific Ligands. Eneuro, 6(5), ENEURO.0171-19.2019. https://doi.org/10.1523/ENEURO.0171-19.2019Jendryka M,...DREADD-based chemogenetics in mice. Scientific Reports 9: https://doi.org/10.1038/s41598-019-41088-2 Magnus C, Lee... clinical applications. Science 6436: eaav5282. https://science.sciencemag.org/content/364/6436/eaav5282...transgenic mice. Nature Biotechnology 17:165–169 . https://doi.org/10.1038/6165 Roth BL (2016) DREADDs for...for Neuroscientists. Neuron 89:683–694 . https://doi.org/10.1016/j.neuron.2016.01.040 Saloman, J. L., ...The Journal of Neuroscience, 36(42), 10769–10781. https://doi.org/10.1523/JNEUROSCI.3480-15.2016 Weston ...
  12. Degrading DNA with Cascade-Cas3

    Type
    Blog Post
    Published
    Feb. 11, 2025, 2:15 p.m.
    ...unwinding steps. Molecular Cell, 70(3), 385-394.e3. https://doi.org/10.1016/j.molcel.2018.03.031 Xiao, Y.,...degradation by Cascade and Cas3. Science, 361(6397). https://doi.org/10.1126/science.aat0839 Yoshimi, K., &...CRISPR system. Gene and Genome Editing, 3–4, 100013. https://doi.org/10.1016/j.ggedit.2022.100013 O’Brien, ...CRISPR Cascade. Molecular Cell, 83(5), 746-758.e5. https://doi.org/10.1016/j.molcel.2023.01.024 Morisaka,...editing in human cells. Nature Communications, 10(1). https://doi.org/10.1038/s41467-019-13226-x Cameron, P....cells. Nature Biotechnology, 37(12), 1471–1477. https://doi.org/10.1038/s41587-019-0310-0 Makarova, K..... Nature Reviews Microbiology, 13(11), 722–736. https://doi.org/10.1038/nrmicro3569 Additional resources...
  13. Magnetic Control of Proteins: More than a Dream

    Type
    Blog Post
    Published
    Sept. 24, 2024, 1:15 p.m.
    ...Channels. Biophysical Journal, 116(3), 454–468. https://doi.org/10.1016/j.bpj.2019.01.003.  Frank Hayward...the brightness of fluorescent proteins. Zenodo. https://doi.org/10.5281/zenodo.11406498. andrewgyork.github.io...magnetoreception. Protein Science, 30(8), 1521–1534. https://doi.org/10.1002/pro.4124.  Kattnig, D. R., Evans...magnetoreception. Nature Chemistry, 8(4), 384–391. https://doi.org/10.1038/nchem.2447.  Lee, H., Yang, N....Pair Reaction. Nano Letters, 11(12), 5367–5372. https://doi.org/10.1021/nl202950h.  Matsuoka, R., Kimura...American Chemical Society, 145(25), 13615–13622. https://doi.org/10.1021/jacs.3c01076.  Wheeler, M. A.,...nervous system. Nature Neuroscience, 19(5), 756–761. https://doi.org/10.1038/nn.4265.  Additional resources...
  14. Adenoviral Delivery of CRISPR/Cas9 Aims to Expand Genome Editing to Primary Cells

    Type
    Blog Post
    Published
    Dec. 10, 2020, 1 p.m.
    ...CRISPR-Cas9 Genome Editing. Circ Res 115:488–492 . https://doi.org/10.1161/circresaha.115.304351 Holkers ...engineered nucleases. Nat Methods 11:1051–1057 . https://doi.org/10.1038/nmeth.3075 Lukashev AN, Zamyatnin... perspectives. Biochemistry Moscow 81:700–708 . https://doi.org/10.1134/s0006297916070063 Maddalo D, Manchado...with the CRISPR/Cas9 system. Nature 516:423–427 . https://doi.org/10.1038/nature13902 Maggio I, Holkers ...in a diverse array of human cells. Sci Rep 4: . https://doi.org/10.1038/srep05105 Stephens CJ, Lauron ...Cas9. Journal of Controlled Release 298:128–141 . https://doi.org/10.1016/j.jconrel.2019.02.009 Wang D, ...Immune Responses. Human Gene Therapy 26:432–442 . https://doi.org/10.1089/hum.2015.087 Additional resources...
  15. Chromoproteins: Colorful Proteins For Molecular Biology Experiments

    Type
    Blog Post
    Published
    Feb. 4, 2020, 2:15 p.m.
    ...Cassiopea xamachana. Marine Biology 94:423–430 . https://doi.org/10.1007/bf00428249 Chan MCY, Karasawa ...Journal of Biological Chemistry 281:37813–37819 . https://doi.org/10.1074/jbc.m606921200 Dove SG, Takabayashi...Acroporid Corals. The Biological Bulletin 189:288–297 . https://doi.org/10.2307/1542146 Lazarus, J. E., Warr, ...Applied and Environmental Microbiology, 85(16). https://doi.org/10.1128/aem.00990-19 Liljeruhm, J., Funk...biology. Journal of Biological Engineering, 12(1). https://doi.org/10.1186/s13036-018-0100-0 Murakoshi, H...expression in living cells. Scientific Reports, 9(1). https://doi.org/10.1038/s41598-019-48604-4 Salih A, Larkum...corals are photoprotective. Nature 408:850–853 . https://doi.org/10.1038/35048564...
  16. CRISPR 101: Any Base Transversion Editors

    Type
    Blog Post
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    April 1, 2025, 1:15 p.m.
    ... embryos. Nature Biotechnology, 42(4), 638–650. https://doi.org/10.1038/s41587-023-01821-9 He, Y., Zhou...base editing. Molecular Cell, 84(7), 1257-1270.e6. https://doi.org/10.1016/j.molcel.2024.01.021 Tong, H.,...glycosylase. National Science Review, 10(8), nwad143. https://doi.org/10.1093/nsr/nwad143 Tong, H., Wang, H....glycosylase. Nature Communications, 15(1), 4897. https://doi.org/10.1038/s41467-024-49343-5 Tong, H., Wang...glycosylase. Nature Biotechnology, 41(8), 1080–1084. https://doi.org/10.1038/s41587-022-01595-6 Ye, L., Zhao...cells. Nature Biotechnology, 42(10), 1538–1547. https://doi.org/10.1038/s41587-023-02050-w Yi, Z., Zhang...glycosylase. Nature Communications, 15(1), 6397. https://doi.org/10.1038/s41467-024-50012-w Additional ...
  17. Hot Plasmids: Fall 2024

    Type
    Blog Post
    Published
    Nov. 21, 2024, 1:30 p.m.
    ...Blot for Anti-V5 [IPI-SV5-Pk1]. Addgene Report, https://doi.org/10.57733/addgene.l0ulu4. Hanke, T., Szawlowski...tag-linked antigen. J Gen Virol., 73 (Pt 3), 653–660. https://doi.org/10.1099/0022-1317-73-3-653. PMID 1372038... isolates. J Gen Virol., 68 (Pt 11), 2769–2780. https://doi.org/10.1099/0022-1317-68-11-2769. PMID 2445904...of protein degraders. Nat Commun., 15(1), 8885. https://doi.org/10.1038/s41467-024-52871-9. PMID 39406745...Caenorhabditis elegans. Genetics, 228(2), iyae126. https://doi.org/10.1093/genetics/iyae126.   Gene disruption...Mycobacterium abscessus. J Bacteriol., 206(3), e0033523. https://doi.org/10.1128/jb.00335-23.  Bioluminescent...Biological Systems. ACS Sensors, 9(7), 3489–3495. https://doi.org/10.1021/acssensors.3c02664. ...
  18. Hot Plasmids Spring 2024

    Type
    Blog Post
    Published
    May 23, 2024, 1:15 p.m.
    ...CRISPR screens. bioRxiv 2024.03.17.585235; doi: https://doi.org/10.1101/2024.03.17.585235.   Improved...small RNA-binding protein. Nature. 2024 Apr 3. doi: https://doi.org/10.1038/s41586-024-07259-6. PMID: 38570691...specific monoclonal antibody. Virology. 558, 28–37. https://doi.org/10.1016/j.virol.2021.01.003. PMID: 33714753...JaneliaFluor dye emitting at 525 nm. Image reused from https://www.janelia.org/open-science/voltron-and-positron... al. (2023) Neuron, 111(10), 1547–1563.e9. doi: https://doi.org/10.1016/j.neuron.2023.03.009. PMID: 37015225...Adeno-Associated Virus. bioRxiv 2023.12.12.571321; doi: https://doi.org/10.1101/2023.12.12.571321.  Revolutionizing...editing and gene therapy. Nat Commun., 14(1), 6578. https://doi.org/10.1038/s41467-023-42386-0. PMID: 37852949...
  19. Hot Plasmids: Summer 2024

    Type
    Blog Post
    Published
    Aug. 27, 2024, 1:15 p.m.
    ...heterogeneous samples. bioRxiv 2024.01.21.576499; doi: https://doi.org/10.1101/2024.01.21.576499.    LEA proteins...plunge freezing. bioRxiv 2024.02.06.579238. doi: https://doi.org/10.1101/2024.02.06.579238.    Engineered...Biotechnology, 10.1038/s41587-023-02078-y. doi: https://doi.org/10.1038/s41587-023-02078-y.  Anzalone,...editing. Nature Biotechnology, 40(5), 731–740. doi: https://doi.org/10.1038/s41587-021-01133-w Pandey, S.,... Engineering, 10.1038/s41551-024-01227-1. doi:  https://doi.org/10.1038/s41551-024-01227-1   CHARM: A...epigenetic editor. Science, 384(6703), ado7082. doi: https://doi.org/10.1126/science.ado7082.  Nuñez, J. K....epigenome editing. Cell, 184(9), 2503–2519.e17. doi: https://doi.org/10.1016/j.cell.2021.03.025.    Recombinant...
  20. New Optogenetic Tools for Cytoskeleton and Membrane Control

    Type
    Blog Post
    Published
    Sept. 28, 2023, 1:15 p.m.
    ...Chemistry, 15(7), 7. https://doi.org/10.1038/s41557-023-01214-0. Preprint on bioRxiv: https://doi.org/10.1101...organizer development. PLoS Genetics, 19(5), e1010765. https://doi.org/10.1371/journal.pgen.1010765.  Berlew,...Toolbox. ACS Synthetic Biology, 11(1), 515–521. https://doi.org/10.1021/acssynbio.1c00604.  Mahlandt, ...endothelial barrier strength. eLife, 12, RP84364. https://doi.org/10.7554/eLife.84364.  Meiring, J. C. M...disassembly. Current Biology, 32(21), 4660-4674.e6. https://doi.org/10.1016/j.cub.2022.09.010.  Ridley, A..... Current Opinion in Cell Biology, 36, 103–112. https://doi.org/10.1016/j.ceb.2015.08.005.  Tei, R., Bagde...
Showing: 41 - 60 of 238 results