... from an analysis of human metastasis cohorts and a prior mouse metastasis CRISPR screen. The Chen Mouse... Using the structure of CasX at eight different states of assembly from cryo-electron microscopy, the ...mutated human estrogen receptor. This protein fusion stays in the cytoplasm, but with the addition of 4-hydroxytamoxifen...knockout libraries for cancer research. The Mouse Metastasis CRISPR-Cpf1(Cas12a) Double Knockout Library is...tumor suppressor genes (TSG). Find the Mouse Metastasis CRISPR-Cpf1 Double Knockout Library Find the...

...conventional microscopes, amplified staining methods, and oligonucleotide-based staining. Of course, if you’re interested...multiplexed tissue imaging method that uses iterative staining and chemical bleaching to allow for high-resolution...reagents that you know work…preferably before you start your experiment. (And you’re certainly not alone...Biomolecular Atlas Program (HuBMAP) antibody metadata standards. And the dataset is rich. Experimental data...seeking to create an iterative process that is constantly becoming better, with more data, more discussion...

...continue to improve plant nutrition, yield, and pest resistance. Much of plant genetic engineering revolves around...optimize this system for gene transfer, studying the stability of modified Ti plasmids during plant infection...versatile binary Ti vector for both transient and stable gene expression applications in plants. This smaller... To build a better binary vector, Sahoo et al. started with a vector commonly used by their lab, the 13...variety of plant species. The kanamycin antibiotic resistance gene is controlled by a weaker constitutive Nos...expression vector for transient assays as well as stable expression of foreign genes in plants." PLoS one...

...AAV.  Where do you start? Plasmids of course! You just need three plasmids to start making the AAVs you...endonuclease domain. Following replication, Rep78/68 stays attached to the AAV genome and docks with the genome...Alternative splicing and differing translational start sites generate the three VP proteins. The three ...clearly defined yet. Now you’ve got a basic understanding of the AAV RepCap plasmid! Check out this blog.../doi.org/10.1007/s40259-017-0234-5  Büning H, Srivastava A (2019) Capsid Modifications for Targeting and...

... of the project. The state of research is constantly shifting, and long-distance collaborations are becoming...between each meeting, but short enough that everyone stays on the same page. Ideally, these meetings include...Conference in Frankfurt, Germany When funding and circumstances permit, think about having collaborators spend...communication within an existing collaboration, or start something new! Additional resources on the Addgene...

...new to plasmids may need some extra guidance to understand the specific components that make up a plasmid...and techniques, and empower you with a firm understanding of the fundamentals. Our mission is to curate... more functional benefits to the host such as resistance to antibiotics, degradative functions, and/or...advantageous for survival, such as an antibiotic resistance gene. In contrast, plasmids utilized in the ...recruiting replication machinery proteins Antibiotic Resistance Gene Allows for selection of plasmid-containing... obtained. Selectable Marker The antibiotic resistance gene allows for selection in bacteria. However...

...process One major challenge when we started was creating a LEGO stage that resembles a real laboratory. ... pathways just waiting to be discovered. As we started building, we thought – how can we make the connection...in a custom made, colorful laboratory. When we started, the hardest part of the process was to embed personality... trained to follow protocols, guidelines, and standards. Bricking science reminded us of our inner children...children who have no preconceived obstacles, optimistically grasp at limitless potential, and who sometimes...

...was using.  I started to do little things to save reagents and money.  This was the start of my interest...resources where possible.  At the lunch table, for instance, we have a plastic container problem…reusable ... a popular topic in the media.  At one point I started to become very aware of how little care I took ...time and money. My other stingy science project started when I realized I was pouring large agarose gels... a small portion of the gel.  What a waste?  I started looking for smaller and smaller gel apparatus until...

...turn on with a light-pulse at one wavelength and stay on until a second pulse of light, with a different...it off, allowing the cell to be excited over a sustained period of time (Gong et al., 2020). Light-gated...signaling cascade that may go awry in a disease state.      Figure 4: Example of an intracellular...optogenetics or biosensors in one system. There can be substantial overlap in the activation curves (Marshel et ...system in your own work, you’ll need to know (and understand!) the hardware types, construction, and testing...main text.  Then, check out the Deisseroth lab’s Stanford Optogenetics Resources and the Boyden lab’s Synthetic...havoc on your experiments, so it is important to understand the details of how each tool performs and the...

...just dive right in and start injecting your virus, a successful AAV experiment starts with validation and...your system that can affect expression, before starting the selection process. Factors to think about ...expression.   Once you know that, you’re ready to start selecting, testing, and optimizing three key variables...serotype that works great in a GABA neuron, for instance, may not transduce the adjacent norepinephrine...in your system and then test each vector before starting your experiments (Rolland et al., 2016; Su et ...selection …is truly validation and optimization! Understanding serotypes, promoters, and titers will allow ...

...Tchetchelnitski V, Mehmet H (2012) Remarkable stability of an instability-prone lentiviral vector plasmid in Escherichia...culture, only the plasmid with the antibiotic resistance gene and origin will replicate, and the transgene...recombined vector backbone contains the antibiotic resistance gene (AmpR) and origins of replication (ori and...Recombinase-deficient strains like Stbl2, Stbl3, and NEB stable E. coli reduce the rate of recombination in samples...CS, Esposito D (2007) Improved recombinational stability of lentiviral expression vectors using reduced-genomeEscherichia...

...choice while bypassing the intermediate pluripotent state. Though a valuable tool for regenerative medicine...These library-specific identifiers act like a timestamp and help demultiplex the scRNA-seq data and build...reprogramming treatment (CellTagD3), and 13 days after the start of reprogramming (CellTagD13), which is when the...least day 13. However, distinct transcriptional states were seen as early as day 6. All together these...stochastic, but rather there’s a particular cell state that’s permissive to reprogramming.In this lineage...putative methyltransferase. Adding Mettl7a1 to the standard Foxa1-Hnf4α retroviral overexpression cocktail...

...shipping staff agreed to come in and start getting plasmid deposits into the collection and to start shipping...closure was earlier than most companies. Since the start of this crisis, we’ve been very responsive to the...Addgenies home.  At the same time, as Addgene started dealing with this new reality of working remotely...processes are entirely self-supporting. We hire more staff as we need them to meet demand and to serve the ...

...stop you. Where do you start? Turns out like all good experiments, making AAV starts with some plasmids. .... You just need three plasmids to start making AAV:  the packaging plasmid which contains the structural...between the ITRs is ~4.4 kb. ITRs are inherently unstable due to their secondary structure, palindromic ...palindromic nature, and high GC content. This instability can cause partial loss of an ITR during routine plasmid... Plasmid video!   Now you’ve got a basic understanding of some common AAV plasmid elements! And while...

...towards a career in science communication, an established field of inquiry with which I was not yet familiar...Herein, a good science communicator—with an understanding of how to appeal to a given audience and how... a scientific background and bring with them established interests and areas of expertise. Perhaps the...individuals respond to issues of unsettled science. Understanding just how the public utilizes insights gleaned... ours reflect a growing effort to address this obstacle in its many forms. A short stroll from my office...by the day, it has never been more crucial to understand just how we receive, process and respond to that...

...Addgene Blog? Fill out our guest blogger form to get started!   Thanks for all your hard work!   Fluorophores... Nucleic acid based machines Recombinase-based State Machines Enable Order-dependent Logic in vivo Nathaniel...received by a cell. These so-called recombinase-based state machines could potentially be used to report upon...this post to learn more about recombinase-based state machines and how they function. Adapting Toehold...important things to consider if you’re getting started with them. CRISPR Pairing CombiGEM and CRISPR ...efficient genome editing - all influenced by an understanding of Cas9 biophysics! Casilio: An Adaptive, Multitasking...

... use since the 1980s. “Synthetic dyes were the standard in the field, but there is one problem: how to...biochemistry of living neurons in an effort to understand the connection between molecular- and cellular-level...elegans, and zebrafish – essentially all of the standard organisms for which extensive genetic tools are...presence of a ligand (they stick together in one state, but not the other). “It’s quite a robust way to.... “I hope by depositing at Addgene, people will start using them,” Merkx said. “For us, it is one of the...developed something useful [enough] that other people start using it. For us, it’s like a test.” References...

...use grows across the life sciences and to establish standardized validation techniques for academia, industry...both Surveyor™ and Sanger may not be adequate standards for validating edits.  Mismatch cleavage assays...Tsiatis et al. 2010). As the field moves toward standardized thresholds for validating CRISPR experiments...breaks Prediction algorithms: A good place to start for biased validation At the moment, many software...sequences of the genome and sgRNA. This is a good starting point for most researchers as it provides a list...approval. It is key to maintain a consistent set of standards as the field seeks to generate reproducible, quality...

...of this workshop? What do I understand already? What don’t I understand? How does the information I’...prevents it from forming concatemers later. The "FS" stands for Fragmentation System and this is the most important...libraries from small amounts of DNA i.e 100 pg. At the start of the workshop, NEB gave a brief presentation describing...hoped, we found that regardless of how much DNA we started the process with, we got great amplification of...is extremely important for us as a company to constantly update our processes and get new ideas from learning...

...the community to understand and grow the scientific ecosystem, including understanding how shared materials...  An MTA is simply a contract or agreement that states the terms of use for a tangible research material...process, which eventually led to the creation of a standardized agreement on the transfer of biological materials...with many properties, having well-understood standardized terms makes it a lot easier for organizations...One-Time Plasmid Deposit and Distribution Agreement establishes the terms under which your material will be distributed...