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  1. New CRISPR Tools: Cas7-11 and PASTE

    Type
    Blog Post
    ...CRISPR effector protein they named Cas7-11. Testing showed that Cas7-11 cut RNA with unprecedented specificity...luciferase RNA knockdown assays using Cas7-11   Use The Cas7-11 targeting system contains two pieces: ...both of which we're featuring in today's blog. Cas7-11 Development and Discovery As part of their quest ...looked at the transformed E. coli expressing Cas7-11, they found no evidence of growth inhibition when...negative effects in RNA targeting experiments. If Cas7-11 lacked this toxicity, it would represent a major ...  The team originally suspected that this new Cas7-11 might be phylogenetically classified as the more ...observations, Koonin and Makarova found that Cas7-11 appeared to have derived from the more complex type...

  2. Split Fluorescent Proteins for Studying Protein-Protein Interactions

    Type
    Blog Post
    ...are split between strand 10 and 11 to yield large (1-10) and small (11) fragments. In several cases an... FP(11) fragments, even from a different base FP (for example, EBFP2(1-10) can be used with GFP(11)). ... Figure 1: Two proteins are fused to the FP(11) and FP(1-10) fragments. When Protein A and B interact...EBFP2 EBFP2(1-10) and Capri(1-10) for use with GFP(11) Multiplexed labeling of cellular proteins with split...Kamiyama Cerulean Cerulean(1-10) for use with GFP(11) Multiplexed labeling of cellular proteins with split...-folder GFP, our most-requested GFP(1-10) and GFP(11) Versatile protein tagging in cells with split fluorescent...Brian McNaughton mNeonGreen2 mNG2(1-10) and mNG2(11) Improved split fluorescent proteins for endogenous...

  3. Grad School Advice Part 1: Picking a Lab and a Project

    Type
    Blog Post
    ...doing rotations? 8:01 - 11:25 : How did you decide what lab to join? 11:25 - 11:50 : What is the number...rotation students should ask senior graduate students? 11:51 - 13:28 : How do you define what a good mentor...What's been your biggest experimental failure? 26:11 - 31: 32 : What's been your biggest experimental ...

  5. FlipGFP, a novel fluorescence protease reporter to study apoptosis

    Type
    Blog Post
    ...FlipGFP, sfCherry was split into  β1-9 and β10-11, where β10-11 was forced into a parallel conformation by...different self-assembling split GFP (GFP1-9 and GFP10-11) by flipping a single β-strand of GFP, hence the ...et al., 2019). How does FlipGFP work? GFP contains 11 β-strands and one central ɑ-helix that can be split... ɑ-helix, (2) β-strand 10 (β10), and (3) β-strand 11 (β11). Each part contains components and residues...was dependent on protease activation. Normally, β10-11 are antiparallel. To prevent binding, the β strands...thus can no longer fit with β1-9. They connected β10-11 with two linkers (E5 and K5) that dimerize together...

  6. CRISPR 101: Cas9 vs. The Other Cas(s)

    Type
    Blog Post
    ...Best for: targeting single stranded RNA.   Cas7-11 Cas7-11 is a naturally occurring RNase composed of the...between Cas7-11 and Cas13 are 1). non-specific RNA cleavage and 2). cell toxicity. Cas7-11 does not display...the fusion of several Cas7 and Cas11 domains. Cas7-11 cuts ssRNA and is capable of pre-crRNA self-processing... of collateral cleavage). You can read about Cas7-11 in our blog post on its development and use. Fast...targeting with the single-protein CRISPR effector Cas7-11. Nature, 597, 720-725 (2021). 10.1038/s41586-021-...

  7. Grad School Advice Part 2: Building Community

    Type
    Blog Post
    ...give their insights as to what causes this dip. 11:11 - 15:37 : How have you changed throughout graduate....com/watch?v=lQGAsgjjBDI&feature=youtu.be. 8:17 - 11:10 : The 3rd year of graduate school and what makes...

  8. Immunology Research Plasmids and Resources

    Type
    Collection
    ...interleukin 11 AGIF, IL-11 IL11RA interleukin 11 receptor, alpha MGC2146 IL11RB interleukin 11 receptor,... variable 11-55 (non-functional) IGLV1155, V4-6 IGLV2-11 immunoglobulin lambda variable 2-11 IGLV211, ...diversity 3-9 DXP1, IGHD39 IGHD4-11 immunoglobulin heavy diversity 4-11 (non-functional) DA1, IGHD411 IGHD4...variable 2-70 IGHV270, VH IGHV3-11 immunoglobulin heavy variable 3-11 (gene/pseudogene) IGHV311, VH IGHV3...variable 2D-40 IGKV2D40, O1 IGKV3-11 immunoglobulin kappa variable 3-11 IGKV311, L6 IGKV3-15 immunoglobulin...non-functional) IGKV37, L10, L10a, Vh IGKV3D-11 immunoglobulin kappa variable 3D-11 IGKV3D11, L20 IGKV3D-15 immunoglobulin...

  9. Fluorescent Protein Guide: Biosensors

    Type
    Collection
    ... calcium indicators. J Biol Chem. 2019 Mar 15;294(11):3934-3946. Katalin Torok Calcium Red Calcium indicators... in multiple cellular locations. PLoS One. 2012;7(11):e49371. Direct comparison of a genetically encoded...of cytosolic Zn(2+). ACS Chem Biol. 2013 Nov 15;8(11):2366-71. Amy Palmer Zinc Cell surface localized ...ratiometric fluorescent sensor. PLoS One. 2017 Nov 9;12(11):e0187481. Mathew Tantama ATP QUEEN ATP sensors for... cyclic AMP. Sci Signal. 2018 Mar 6;11(520). pii: 11/520/eaah3738. Justin Blau cAMP (cyclic AMP) cAMPFIRE...imaging of cAMP in vivo. Nat Methods. 2022 Nov;19(11):1461-1471. Haining Zhong cAMP (cyclic AMP) RAB-ICUE...in bacteria. Biotechnol Biofuels. 2008 Jun 3. 1(1):11. Wolf Frommer Maltose Green fluorescent MBP-based...

  10. TALENs for the EGFP Reporter Gene

    Type
    Collection
    ...TAL2019 TCAGCTTGCCGT eGFP-TALEN-11-Left TAL2020 TGACCTACGGCG eGFP-TALEN-11-Right TAL2021 TGGTCGGGGTAG eGFP-TALEN...

  11. 8 Great Depositor Research Stories

    Type
    Blog Post
    ..., a bright red pigment reporter for plants.  Cas7-11 and PASTE: Omar Abudayyeh and Jonathan Gootenberg...worked with us to share their new CRISPR tools, Cas7-11, a low-toxicity RNA editing tool, and PASTE, a drag-and-drop...

  13. CRISPR Antimicrobials

    Type
    Blog Post
    ... the proportion of virulent S. aureus from 50% to 11% in just 24 hours.   Figure 1: Single-phage...efficiently-delivered RNA-guided nucleases.” Nature Biotechnol. 32(11): 1141-5. (2014). PubMed: PMID 252409288. PubMed ...sequence-specific antimicrobials.” Nature Biotechnol. 32(11): 1146-50. (2014). PubMed: PMID 25282355. PubMed ... next-generation antimicrobials.” Genome Biol. 15(11):516. (2014). PubMed: PMID 25417800. PubMed Central...

  15. Hot Plasmids: Fall 2024

    Type
    Blog Post
    .... J Gen Virol., 68 (Pt 11), 2769–2780. https://doi.org/10.1099/0022-1317-68-11-2769. PMID 2445904.   ...new variation on their previous sensor STReTCh, the 11-amino acid BiT fragment of luciferase is embedded... Society. Both PILATeS (18 kDa) and STReTCh (11 kDa) are significantly smaller than FRET-based mechanosensors...

  16. Screening for Successful Genome Editing with Digital PCR

    Type
    Blog Post
    ... iPS cells without antibiotic selection. Nat Meth 11, 291–293 (2014). PubMed PMID: 24509632. PubMed Central...Specific Screening of Genome Edited Cells. PLoS ONE 11, e0153901–17 (2016). PubMed PMID: 27089539. PubMed...-dPCR) mediated by designer nucleases. Nat Protoc 11, 598–615 (2016). PubMed PMID: 26914317. 4. Mock, ...

  18. Ras Pathway

    Type
    Collection
    ...Serine/threonine kinase STK11 Serine/threonine kinase 11 TBK1 TANK binding kinase 1 TFDP TFDP1 TFDP2 Transcription...therapy. Downward J. Nat Rev Cancer. 2003 Jan;3(1):11-22. PubMed PMID: 12509763 . Do you have suggestions...

  19. When Fidelity Matters: A frank discussion about ligase fidelity

    Type
    Blog Post
    ...substrates containing gaps or DNA base pair mismatches (8-11). For some applications, there cannot be any end-... near the ligation junction with high efficiency (11, 21). Ligases are thought to interrogate dsDNA for...thermostable DNA ligase-encoding gene." Gene 109.1 (1991): 1-11. PubMed PMID: 1756968. 7. Lauer, G., et al. "Cloning...PubMed PMID: 3684572. PubMed Central PMCID: PMC306403. 11. Wu, Dan Y., and R. Bruce Wallace. "Specificity of...
Showing: 1 - 20 of 146 results