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We narrowed to 563 results for: cat.3

Showing: 161 - 180 of 563 results

  1. New CRISPR Web Resources and #12DaysofCRISPR Recap

    Type
    Blog Post
    ...Directed Repair and 3 Tips to Improve HDR Efficiency for CRISPR Editing in Human Cells Day 3: Cpf1: Cpf1: A...job - we strive to also give you high-quality educational resources to help you do better research. CRISPR...design, sorting the plasmids we have available by category. Each plasmid page now has a helpful graphic to... newest page in the Transcriptional Regulation category already has five blue flame plasmids covering ...providing an avenue for temporary/reversible CRISPR modification. In addition to these subpages, our updated ... HypaCas9 Day 10: Transcriptional regulation: Truncated gRNAs for Regulating Gene Expression and CRISPR...

  2. Plasmids 101: Control Plasmids

    Type
    Blog Post
    ...effect, which is green fluorescent cells (Figure 3).   Figure 3: Expression of Plasmid B (as positive control...we have successfully transfected our cells (Figure 3), we can continue with our experiment, incorporating...two types of replicate controls: technical and biological. In general, technical replicates can be thought... employ transfection, negative, positive, and replicate controls.  Transfection controls: empty vector... Plasmid B (as internal control) This result indicates that the transfection was not successful due to...the interrogation of the independent variable. Replicate controls: technical and biological Reliable results...derived from one source. Conversely, biological replicates ARE independent and can be thought of as "reproducibility...

  3. Antibodies 101: Flow Compensation

    Type
    Blog Post
    ...large compensation values will not move it (Figure 3). If the population is not a double-positive population...in Figure 2, following compensation. Figure 3: Flow plot for a double positive sample. The cell ...plot, compensation is not required.  In Figure 3, we also know that on most cytometers, FITC and APC...diagonal population, this is a sign of spillover and indicates that it is necessary to apply a compensation value...

  4. Degrading DNA with Cascade-Cas3

    Type
    Blog Post
    ... technology and applications with the type I CRISPR system. Gene and Genome Editing, 3–4, 100013. https...behind that the cell can use to repair. Figure 3: General overview of the Cascade-Cas3 mechanism. Created...in nucleotide unwinding steps. Molecular Cell, 70(3), 385-394.e3. https://doi.org/10.1016/j.molcel.2018.03.031...antiviral defense). Cascade is brought to the target location using a gRNA and can then recruit Cas3, which ... type I, the most abundant type in the Class 1 category. These type Is can then be further broken into...of DNA much like a fisherman would reel in a big catch. It was originally suspected that Cas3 moved a couple...unidirectional genome editing in human cells. Nature Communications, 10(1). https://doi.org/10.1038/s41467-019-...

  5. Fluorescent Proteins 101: Aptamer Fluorophores

    Type
    Blog Post
    ...selection techniques to come up with new colors (Fig. 3), such as Radish and Carrot, and further means to ...imaging in situ”. Nature Methods 9, 787–790 (2012). 3. Filonov, Gregory S., et al. “In-gel imaging of RNA...RNA-Modifying Enzymes.” Cell Chem Biol. 2016 Mar 17;23(3):415-25. PubMed PMID: 26877022. PubMed Central PMCID... Aptamer biosensors are used in a variety of applications, including detection of environmental pollutants... opens aptamers for use in many entirely new applications including aptamer based fluorescent biosensors... render this approach less sensitive in most applications. Learn About Fluorescent Biosensors Light-up..., MG proved to be too toxic for many in vivo applications, but this work proved the concept that RNA could...

  6. Golden Gate Assembly Upgrades: More Fragments, Faster Assembly, and Higher Fidelity

    Type
    Blog Post
    ...fidelity of cohesive end ligation by this enzyme for all 3- and 4-base overhang sequences under standard reaction...assemblies and over 90% for 24-fragment assemblies (Figure 3, Table 1). These improvements (5- to 12-fold increases...plate using outgrowth volumes described in Figure 3, with calculated yields from entire outgrowth built...upon growth on LB/Cam/X-gal/IPTG agar plates, indicating successful reconstruction of the coding sequence... sequence-dependent ligation efficiency and identification of mismatch-prone pairings. Using these 4 bp...Kucera is a Principal Development Scientist of Applications & Product Development focusing on DNA cloning...Optimization of Golden Gate assembly through application of ligation sequence-dependent fidelity and bias...

  7. INTEGRATE: Bacterial Genome Engineering Using CRISPR-Transposons

    Type
    Blog Post
    ...sequence for recognition by QCascade; although 5’-CC-3’ is one of the best PAMs for VchINT, many other PAMs..., by expressing multiple crRNAs in parallel (Fig. 3), multiplexed insertions into multiple distinct targets... or isolated (Rubin et al., 2020).  Figure 3: Multiplexed insertions with Type I-F INTEGRATE using... and have been adapted for a wide variety of applications - as mutagenesis tools for genetic studies (... The process also creates a 5-bp target-site duplication (TSD), a hallmark characteristic of the Tn7-family...the new streamlined VchINT system was shown to catalyze insertion of mini-transposons up to 10 kb in size...at one or multiple desired genomic loci. Many applications of these systems have already been demonstrated...

  8. Tips for Screening with Yeast Two Hybrid Systems

    Type
    Blog Post
    ... different systems could be combined effectively (3). In Figure 1 for instance, the DBD of the fusion ...activator, bacterial LexA DBD and the lacZ reporter gene (3, 4), there are now many variations, including many...Science. 1986; 231:699-704. PubMed PMID: 3080805. 3. Brent, R., and Ptashne, M. A eukaryotic transcriptional... can often be accounted for using appropriate replicates and controls (see Tips below), and by validating...two-hybrid screening Minimizing false positives: Run replicates of the experiment to reduce the likelihood of...expression and correct folding, post-translational modification, protein degradation, access to the nucleus ...co-expression of the enzyme responsible for the modification in the assay host strain can help. In order...

  9. Plasmids 101: Gateway Cloning

    Type
    Blog Post
    ...program to design Gateway plasmids.    Figure 3: Method A to create an entry clone: recombination ...Gateway cloning efficiency can reach >99%.   STEP 3: Express your Gene of Interest! Be sure to verify ...2003 Feb;Chapter 5:Unit 5.17. PubMed PMID:18429245. 3. Ptashne, M. (1992). A Genetic Switch: Phage (Lambda...attP sites of the donor vector. This reaction is catalyzed by the BP Clonase enzyme mix and generates the...sites of the destination vector. This reaction is catalyzed by the LR Clonase enzyme mix. As a result, an ...carry different antibiotic resistance markers (indicated here by plasmid color), allowing you to easily...is simple -  no restriction, ligation or gel purification steps are required! Multiple fragment cloning...

  10. Quick Guide to All Things Lentivirus

    Type
    Blog Post
    ...genome which was composed of the wild-type 5’ and 3’ LTRs, the ψ sequence, a part of the env gene containing...exception of the env gene (packaging plasmid), and 3) the vesicular stomatitis virus G protein (VSV-G) ... been described (protocol 1, protocol 2, protocol 3) to find the one that will give you the best production...Science 272.5259 (1996): 263. PubMed PMID: 8602510. 3. Yasutsugu Suzuki and Youichi Suzuki (2011). Gene ...mammalian cells often relied on chemical (CaCl2, cationic liposome) or electrical (electric current forming...particles and the virus particles produced could not replicate. However, Mother Nature found a way to re-create...packaging plasmid forming a vector that could create replication competent virus. Even though this system was ...

  11. Plasmids 101: Secondary Nanobody Toolbox

    Type
    Blog Post
    ... microscopy. Nanobodies can be labeled with up to 3 dyes, yielding similar signal strength to a standard...nanobodies are useful for colocalization labeling of up to 3 targets (Pleiner et al figure 4D). Unlike large secondary...PMID: 26633879 PubMed Central PMCID: PMC4755751   3. Muyldermans, Serge. “Nanobodies: natural single-domain...in bacteria and extracted with common protein purification methods. Read on to learn more about nanobodies..., Alexa Fluor 568, or Alexa Fluor 647 before application to the sample. Staining with this multi-color...PubMed PMID: 29263082 Find plasmids from this publication at Addgene. 2. Bates, M., Böhning, M.I., Chug...

  12. Neuronal labeling with Spaghetti Monster

    Type
    Blog Post
    ...labels than fusions to 3 or more HA tags. 4. High-resolutions microscopy As indicated above, smFPs can be...moleculare were better resolved with smFP_FLAG than GFP.   3. Enhanced ability to distinguish weakly expressed ...brain". Oxford University Press, New York. pp 719. 3.Rizzo, Mark A., Michael W. Davidson, and David W. ...controlled by collections of neurons that are intricately wired into circuits through synaptic connections...photostable than GFP. In addition, antibody-based amplification of their signals is weak and increases background...

  13. Plasmids 101: Codon usage bias

    Type
    Blog Post
    ...possible because there are 4 bases (A, T, C, and G) and 3 positions in each codon. There are therefore 64 possible...possible codons but only 20 amino acids and 3 stop codons to encode leaving 41 codons unaccounted for....PMID: 15678157. PubMed Central PMCID: PMC1299251. 3. Emilsson, Valur, and Charles G. Kurland. "Growth ...ribosome may therefore stall at inappropriate locations or fail to make it through the entire transcript...generally segregate with the cell pellet during purification procedures. Even if you produce a large amount...

  14. FastCloning: A Newer, Simpler Cloning Technique

    Type
    Blog Post
    ...vector is located in the 3’ end of the multi-cloning site, and the reverse primer is located in the 5’...correct size (vector + insert). You should screen 3-4 colonies to ensure that you find the correct product...Restriction Enzymes + - PCR Amplification + + Digestion + + Gel Purification + - Ligation + - Transformation...Molecular cloning is the isolation, insertion and amplification of a recombinant DNA without sequence alteration... multi-step process consisting of digestion, purification, ligation, and transformation. While restriction...sequences for base pair overhangs, insert and vector purification, and, most importantly, excessive time requirements...is ligation independent, it does not require purification of insert or vector products, nor does it require...

  15. Hot Plasmids - October 2022

    Type
    Blog Post
    ...Na+ and other cations. B) Cortical slice of HcKCR1-EYFP and tdTomato expressed layer 2/3 neurons in mouse...know. We’d love to hear from you!   Fig. 3: Image of Addgene’s western blot for the myc-tagged ...what you'll find in this post: Improved voltage indicator: JEDI-2P Novel class of light-gated potassium...-Myc [9E10] now available! Improved voltage indicator: JEDI-2P  by: Brian O'Neill  The François St-Pierre...have successfully developed an improved voltage indicator (GEVI) called JEDI-2P. Using a custom, high-throughput...predecessor GEVIs (called ASAP 1 and 2), they found an indicator that is optimized for 2-photon imaging of voltages...screen for improved genetically-encoded voltage indicators (GEVIs) based on the ASAP sensors. The resultant...

  16. Live and Let Dye: Self-Labeling Protein Tags

    Type
    Blog Post
    ...protein. Nature Communications, 14(1), Article 1. https://doi.org/10.1038/s41467-023-39655-3  Wilhelm, J....depending on the needs of your experiment (Figure 3). And using self-labeling tags makes updating your...ligands at different time points.   Figure 3: Single-molecule tracking of actin filament assembly-regulating...Imaging and Protein Analysis. ACS Chemical Biology, 3(6), 373–382. https://doi.org/10.1021/cb800025k  Miller...Few Complicated Non-natural amino acids 1 Various Many Complicated   Applications Organic...new green fluorescent protein, some affinity purification tags, another version with that same red fluorescent... an enzyme that has been mutated to block its catalytic activity and instead become trapped in a covalent...

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

    Type
    Blog Post
    ... DNA by joining 5 ́-phosphorylated DNA termini to 3 ́-OH DNA termini (1-4). In vitro, ligases (notably...the ligation junction (the base pair providing the 3 ́-OH terminus to the ligation) than on the downstream...reviews 106.2 (2006): 687-699. PubMed PMID: 16464020.  3. Ellenberger, Tom, and Alan E. Tomkinson. "Eukaryotic...Colette, Veronique Bailly, and Walter G. Verly. "Nicks 3′ or 5′ to AP sites or to mispaired bases, and one-...or DNA base pair mismatches (8-11). For some applications, there cannot be any end-joining activity, and...regions. Why use a high fidelity ligase? Numerous applications have been developed to take advantage of the...Taq and other thermostable DNA ligases. These applications detect specific nucleotide sequences with high...

  18. Plasmids 101: Broad Host Range Plasmids

    Type
    Blog Post
    ...Escherichia coli and Agrobacterium tumefaciens. 3 Biotech, 13(3), 91. https://doi.org/10.1007/s13205-023-03507...plasmid RK2. Molecular & General Genetics: MGG, 152(3), 129–135. https://doi.org/10.1007/BF00268809  Prior...ori2, ori3) and replication initiation proteins (RepA, RepB) necessary for replication in various hosts...the ori and allow for replication. However, if plasmids have their own replication machinery such as Rep...different hosts that a plasmid can transfer to, replicate in, and persist in. Some plasmids have a narrow... while others have a broad host range and can replicate and stably maintain the genes they carry among.... These features are: The plasmid origin of replication (ori) contains structural elements that are versatile...

  19. We're Updating Our Hold for Publication Policy

    Type
    Blog Post
    ...clearly described in a journal publication. Plasmids will be released 3 years after the deposit date. ...other scientists to use? We take this Hold for Publication policy seriously and appreciate the trust you...of July 1, 2025, we are updating our Hold for Publication policy with two changes that will help us ensure...keep things moving internally. And remember, a publication isn’t required to share your plasmids! You can...can make your deposit available before publication and we can update the plasmids’ citation when the paper...

  20. Antibodies 101: Reading a Flow Plot

    Type
    Blog Post
    ...it into four, using the location of the cell populations as a guide  (Figure 3.) You can see that in our... but no cells that are A+B-.      Figure 3: It's often easier to identify different populations...series of one- or two-marker plots, like in Figure 3 above, until the population of interest has been successfully...done using side scatter (SSC) and forward scatter (FSC), which measure light that “scatters” past the cell...be used for this purpose.  Pro tip! The forward scatter is a proxy for diameter and volume of the cell,...the exclusion of doublets and debris. The side scatter roughly measures granularity, a proxy for nucleic... will have numbers by gated populations; this indicates the percentage of total events contained in the...
Showing: 161 - 180 of 563 results