Skip to main content
Addgene

Enter a sequence to perform a BLAST-based search of Addgene plasmid sequence databases.

In Category

We narrowed to 790 results for: COMP

Showing: 81 - 100 of 790 results

  1. A New Generation of Adenine Base Editors Improves Editing in Primary Human Cells

    Type
    Blog Post
    Published
    May 7, 2020, 1:15 p.m.
    ... for a new generation of ABEs), consists of 3 components:  a deaminase (TadA, originally from E.coli,... or Cas nickase)  a guide RNA that targets the complex of TadA and dCas to the genomic DNA of interest...effect of removing the wild-type TadA from the complex the researchers developed a second set: The ABE8...resulted altogether in 40 new ABE8 variants. When comparing on-target DNA editing efficiency in a human cell...found that the smaller version, ABE8.x-m, showed comparable editing behavior to ABE8.x-d. Overall, ABE8s ...showed a median increase of 1.94x editing activity compared to ABE7.10. Depending on the position in the protospacer...line while reducing indel frequency more than 90% compared to ABE7.10. Choosing Cas9 proteins to increase...

  2. Fluorescent Proteins 101: Visualizing Subcellular Structures & Organelles

    Type
    Blog Post
    Published
    June 22, 2017, 2:30 p.m.
    ... human body is made up of organs, cells comprise compartments and structures, called organelles. Take ... the subcellular localization and composition of cellular complexes are important steps in understanding...that the fusion protein localizes properly by comparing the signal from the fusion itself to the wild-...and potentially which other proteins it forms complexes with. These “colocalization” studies give insights...within the same subcellular structure or protein complex. By coexpressing both the marker protein and the...possible to determine the location of proteins within complex structures. In order to interpret colocalization...quantifiable results and statistics that can be used to compare between different experimental setups. A colocalization...

  3. Tips for Using BLAST to Verify Plasmids

    Type
    Blog Post
    Published
    May 29, 2014, 1:29 p.m.
    ...contains a composite of GenBank, EMBL, DDBJ, and PDB sequences and may be the most comprehensive for searching... Tool (BLAST) provided by NCBI. BLAST helps us compare the sequencing results of the plasmids in our repository...deletions, or insertions. We use blastp or blastx to compare our sequencing results to protein sequences to ...page, the first decision to make is whether to compare a Sanger sequencing result to a single known reference...BLAST search to perform and will save you time compared to other types of BLAST searches. If you do not...megablast, but can return longer alignments to compare with your sequencing trace file. Unlike megablast...consistently run our blastx searches with the “Low complexity regions” filter unchecked so that these regions...

  4. Drew Endy Introduces the Biobrick Public Agreement Plasmid Collection

    Type
    Blog Post
    Published
    Dec. 12, 2013, 3:35 p.m.
    ... most successful computer languages are free to use. Of the 15 most popular computer programming languages...engineered DNA systems capable of storing data and computing inside living cells. He's also a co-founder of...digital genetic switches that enable cellular computing. These logic gates built from transcriptors are...BPA) Plasmid Collection along with a BIOFAB kit comprised of well-characterized bacterial transcription .... What the BioBricks Foundation is seeking to accomplish is to make the engineering of biology much easier...carefully engineered to support reliable functional composition. In other words, these parts can be used over...logic shows up in mechanical systems, plumbing, computers, and now through BIL gates we've implemented them...

  5. RNA Interference in Plant Biology: New Tools for an Old Favorite

    Type
    Blog Post
    Published
    Oct. 27, 2020, 1:15 p.m.
    ... as the building block of our understanding of complex biological processes. Many tools exist to perturb...silencing,” of any gene that contains sequence complementary to the dsRNA (Wilson and Doudna, 2013). RNAi... translation, or chromatin modifications of complementary gene sequences (Figure 1). As a result, gene...unmodified dsRNA elicits immunogenic reactions that complicate the effectiveness and interpretation of RNAi.... of interfering RNAs.   RNAi vs. CRISPR: Complementary techniques It is fair to say that CRISPR has...Stainier, 2020). Additionally, a study that directly compared CRISPR to RNAi in the context of a high throughput...data generated from both methods did a more comprehensive gene list emerge that accurately reflected the...

  6. Science as Art

    Type
    Blog Post
    Published
    March 2, 2015, 3:13 p.m.
    ...scientific art competitions where creations can go on display for all to enjoy. The largest competition of this... University’s Annual Art in Science competition. This competition has gained so much public interest for...moonlighting as artists can compete in the Nikon Small World Photomicrography Competition - a 40 year old international...voyage. Previous destructive techniques were incompatible with the need to conserve these unique samples...been featured in Time magazine . Other smaller competitions are now taking place and gathering momentum,...international competition that last year received over 2,000 entries. Do you mix your passion for art and...

  7. Plasmids 101: Secondary Nanobody Toolbox

    Type
    Blog Post
    Published
    Feb. 27, 2018, 2:04 p.m.
    ...them for use in your lab. Structural Comparison Functional Comparison Advantages of Nanobodies How to Use...for a comparison of nanobody, HCab, and traditional IgG antibody structures. Functional comparison Strong...nanobodies and how their structure and function compare to IgG antibodies, as well as how to produce them...Nanobody Toolbox Find Nanobody Plasmids Structural comparison As the name suggests, nanobodies are smaller ...incubated together without forming large oligomeric complexes. Antibodies are also too large to be expressed... antibody incubation. See figure 4A below for comparison of this one-step staining with nanobodies vs ...localization patterns as cells stained for one target (compare nanobodies staining in figure 4A vs 4B). How to...

  8. CRISPR Between the Genes: How to Experiment with Enhancers and Epigenomics

    Type
    Blog Post
    Published
    Aug. 9, 2016, 2:30 p.m.
    ... function as a kind of “GPS for the genome” to compute coordinates for genetic elements like protein, ...action at a distance.” Through the marvel of DNA compaction, an enhancer can increase the expression of a...millions of base pairs away. (For details on DNA compaction and the structural proteins that make it possible...appendix DNA is a 3D fractal). Enhancer biology is a complex and dynamic field. We’re going to focus on a tried...details. DNA is a 3D Fractal Figure 2: DNA compaction. Graphics courtesy of beyondthedish (left) and...People are wrong. In reality, cellular DNA is a complex three-dimensional globule of chromatin. Chromatin...tertiary structures (globules) to achieve exquisite compaction—on the order of 700 terabytes per gram—and form...

  9. Antibodies 101: Introduction to Antibodies

    Type
    Blog Post
    Published
    Jan. 19, 2021, 2:15 p.m.
    ...But what exactly is an antibody, and how is a component of the immune system useful as a research reagent...heavy chains, and the rest of the Fab regions are completed with the Ig light chains. The variable region ...production strategy has advantages and disadvantages compared to each other. Polyclonal antibodies These antibodies...Single-chain variable fragment (ScFv) Figure 2: Comparison between the IgG antibody and scFv. Because... their lower affinity for their target protein compared to whole antibodies (Crivianu-Gaita 2016). Get...Variables (scFvs). Nanobodies Figure 3: Comparison of the Hcab and nanobody. Nanobodies are the...fluorescence. Western blots are frequently used to compare relative levels of protein expression between cell...

  10. New CRISPR Tools: Cas7-11 and PASTE

    Type
    Blog Post
    Published
    Feb. 17, 2022, 2 p.m.
    ...derived from the more complex type III-A and III-B systems. Though it was composed of many protein subunits...might be phylogenetically classified as the more complex Class I systems that contain multiple subunits,...evolution, were also working on the project. Using computational observations, Koonin and Makarova found that...the domains into a single protein, shedding the complexity of its ancestors. They classified the system ...system contains two pieces: a single protein, computationally described as a fusion of four Cas7 proteins...significantly reduced amount of off-target toxicity compared to other RNA editing methods — streamlining experimental...mammalian cell lines. However, in those same comparisons, the AbuGoot lab reported no detectable effect...

  11. Healthcare Consulting: A Door to the Business of Life Sciences

    Type
    Blog Post
    Published
    Oct. 13, 2016, 2:30 p.m.
    ... advise pharmaceutical companies, biotech start-ups, health insurance companies, and governments on the...the part of the company involved: Research & Development (R&D) teams at pharma companies carry out preclinical... acquisitions of or collaborations with other companies. Medical Affairs groups work on building awareness... patients, shaping discussions with insurance companies about the pricing and coverage of drugs, and developing... teams, reflecting the need for all parts of a company to collaborate whenever it faces an important challenge...investments over the next 3, 5, or 10 years. Complicating these challenges is the fact that they occur...their jobs most, get pleasure from taking up such complex challenges, quickly breaking them up into smaller...

  12. What Do I Do Now? Academic v. Non-Academic Career Decisions

    Type
    Blog Post
    Published
    March 9, 2017, 3:40 p.m.
    ...Table 1: Taking it a Step Further - Big Company v. Small Company Big (e.g. Pharma) Small (e.g. Biotech...advancement in one company, good performers in for the long haul Limited movement in one company, likely will...academic silo to tenured professor.  Non-academia encompasses millions of choices including pharma, tech transfer...options in nonprofit science. No one list can ever encompass them all. We can’t designate non-academic jobs...and teach students Collaborations may be less “complicated” - for example, easy to initiate a collaboration...More sources of training and resources within the company Must find own sources of knowledge often externally...every 3-6 years—a short and exciting ride Complicated matrix structures are common Small integrated...

  13. Technical Design of a Western Blot

    Type
    Blog Post
    Published
    Aug. 22, 2024, 1:15 p.m.
    ...protein. Proteins located in membrane-bound subcompartments, like the mitochondria or nucleus, will likely...loading buffers, as most Bradford assays are not compatible with detergents like SDS, while BCA assays are...their differing chemistries. You therefore cannot compare Bis and Tris gels or blots to each other. Once ...protein-based blocker is either degraded or not completely mixed together.   Commercially available chemical-based...lower cost, and smaller size. However, HRP is not compatible with sodium azide, a common microbial agent used...phosphates have a linear reaction rate and are compatible with antimicrobial agents. Chemiluminescence ...chemiluminescence enzymes, they are more likely to be compatible with stripping and probing.   Imaging At the ...

  14. Flow Cytometry Readouts: Yes, No, and Everything in Between

    Type
    Blog Post
    Published
    Aug. 20, 2024, 1:15 p.m.
    ...easier to identify by comparing peak positions to the base expression. When compared to the control — which... voltage has been adjusted appropriately and compensation performed. Before you read out your plots, you...to make sure you’ve also adjusted voltage and compensated your colors. Here are some good practice tips...population cluster would be shifted to the right in comparison, say somewhere between a 104–105 signal intensity...place your gate based on the dot plot would be complicated.  Figure 2: (A) a smeary dot plot showing...with the baseline suggesting this sample has a comparable expression to the baseline/negative control. ... populations in the histogram plot in Figure 4 compared to the dot plot in Figure 2. Quantification using...

  15. A Quick Guide to a Career in Software Product Management

    Type
    Blog Post
    Published
    Nov. 24, 2020, 2:15 p.m.
    ...career at a biotech company, I always assumed I’d work one or two years at the company and then go to grad... the head of software product management at my company was open to meeting with me and explaining more...software product manager helps ensure that the company or software group is building the software tools...Well, I’ll give you an example. At my previous company, Ginkgo Bioworks, our software development team...backgrounds, most did not. It was my job to translate complex lab operations workflows into a format the developers... to solve is clear, but the solution is more complicated. You’ll need to be creative to be able to work...framework If you can’t find internships at science companies, try to find internships with translatable skills...

  16. Antibodies 101: ChIP

    Type
    Blog Post
    Published
    March 10, 2022, 3:25 p.m.
    ...protein:DNA complexes with antibodies specific to your protein(s) of interest. Once the complex is captured...protein:DNA complexes and finally (5) isolated the DNA from your antibody:protein:DNA complexes. Your DNA... the first step is to ensure your protein:DNA complexes will remain bound to each other until you are ...reversible bonds. This will keep the protein:DNA complexes together until you want to break them. Crosslinking...digestion can preserve more of the protein:DNA complexes. Once you’ve finished fragmenting the DNA, spin...that?  So while this method is certainly long and complex, you may be thinking, well, these are mostly fairly...techniques. What’s all the fuss? Well, ChIP’s complexities come not from the techniques used, but from ...

  17. 7 Tips to Secure a STEAM Internship This Summer

    Type
    Blog Post
    Published
    Feb. 2, 2021, 2:15 p.m.
    ...that the classroom cannot offer. Furthermore, companies across most industries tend to hire their former...Prior to March 2020, internships were a fiercely competitive endeavor. Due to the COVID-19 pandemic, students...college, and graduate students. In order to gain a competitive advantage this cycle, consider the advice below...which is the perfect opportunity to paint a comprehensive picture of your academic interests, potential... impress the judges on your ability to tell a compelling narrative that is positive, and forward-looking...counterintuitive since that approach seems to create competition for your own spot. True! But you create a network...sense approaches that will prepare you for the competitive landscape beyond college. They will also serve...

  18. Advice on Career Paths and the Green Card Process for International Researchers and Entrepreneurs

    Type
    Blog Post
    Published
    Dec. 20, 2017, 2:33 p.m.
    ...requirement if you work for a private company you must show that your company employs at least 3 full-time people...Within these sectors, you could start your own company, work in a bench research career or a non-bench... to find the perfect job immediately after you complete your Ph.D. or postdoc. Foreign national researchers... need to be aware of the April 1 deadline for companies to submit an application on their behalf.  If ...technology transfer, communications, medical writing, compliance, core facility management, collaboration management...be directed to you specifically. You must also complete the peer review for it to be counted as proof ...your CV and bio sketch whenever you have new accomplishments to add. Obtain copies and translations of documents...

  19. Easi-CRISPR: Generating Knock-In and Conditional Mouse Models

    Type
    Blog Post
    Published
    April 5, 2018, 12:42 p.m.
    ...challenging for sequences with complex secondary structure. Today, multiple companies offer long single-stranded...ribonucleoprotein (RNP) complexes of Cas9 protein and the separated guide RNA components (crRNA and tracrRNA...months. With CRISPR (B), you can inject CRISPR components directly into a zygote and obtain a knockout ...maximum Easi-CRISPR efficiency. Easi-CRISPR is compatible with standard microinjection and electroporation...successfully used guides targeting the same or complementary strands, as well as guides facing towards or... simple method for delivery of genome editing components to the germline. In contrast to standard microinjection...placed to mediate electroporation. Ohtsuka et al. compared traditional microinjection and i-GONAD knock-in...

  20. Generating Mouse Models Using CRISPR/Cas9

    Type
    Blog Post
    Published
    July 12, 2016, 2:30 p.m.
    ...engineered ESCs), and chimeric adults mated to produce completely transgenic offspring. Although powerful, this... genome, the CRISPR/Cas system makes use of 3 components, a guide RNA (gRNA) of about 125 nt that specifies...gRNA, Cas9, and donor oligonucleotide or plasmid components are brought together and microinjected into either...eggs. Or, to avoid handling embryos ex vivo, the components can be electroporated into the oviduct of pregnant... major advantages of CRISPR mouse editing when compared to more conventional methods. First, one can work... work with almost any strains of mice, as compared with conventional gene targeting, which is limited ...including 129 and C57BL/6, for which we have germline competent ESC lines. Second, the process is much quicker...
Showing: 81 - 100 of 790 results