...Antibody Data Hub. Data reports  Each antibody submission is used to create a data report, which contains experimental...that information in the report as well.    Figure 3: An antibody data report, showing the results of ...methods section for the data report shown in Figure 3.   At the end of the report, you’ll find a results section... the data report shown in Figure 3. The antibody is rated "Pass". Curating the data reports Just like... Addgene antibody collection can look at user-deposited data detailing how an antibody performed in an... page of the Addgene Data Hub.   Antibody data reports can be searched and sorted by gene/target, name...information is then formatted and published as a report with a DOI for citation. If you’re considering ...

...invert the reporter and GeneR fragment. Then the second recombination event would excise the reporter from ...Spatio-temporal expression of optogenetic reporters: Since most optogenetic reporters are delivered using AAV injection...transduced reporter gene. Generating a FLEx switch to control expression of an optogenetic reporter would ...Cre-dependent reporter expression, the potential for background expression of the reporter will be greatly...shown in Figure 2, the cassette should contain a reporter DNA sequence (such as GFP) in the sense orientation...the two pairs of target sites. By flanking the reporter with one loxP site and one lox511 site in the ...would ensure that the reporter remains silent until a cell or tissue-specific Cre is provided. Since the FLEx...

...mutagenesis libraries or to insert heterologous genes, reporters, or other markers into a target genome. They did...screening New systems have been developed and deposited with Addgene which allow scientists to use CRISPR-Cas...Rep 2014 Jun 27;4:5469. MitoTimer plasmids to report mitochondrial turnover Mitochondrial health...Gottlieb’s lab has used an inducible MitoTimer reporter using a Tet-on system (pTRE-Tight-MitoTimer) to... to show its usefulness in cell culture to report changes in mitochondrial turnover and transport. pMitoTimer... Yan’s lab, which is constitutively expressed, reports on the balance of biogenesis and mitochondrial ...channelrhodopsins. CnChR1, nicknamed Chrimson, is the first reported yellow-peaked channelrhodopsin with a spectral...

...being requested or deposited. But, with our respective Master Reception and Master Deposit Agreements, your...future requests/deposits. This reduces the processing time of request MTAs and deposit agreements to basically...material requests and less than one week for material deposits. We were excited to deliver the very first ones... guarantee certain rights and protections for depositor and requestor alike. That’s why Addgene works ...works closely with TTOs to help protect our depositors’ intellectual property, and to help requesting institutions...Before Addgene can begin distributing a material, a deposit agreement must be put in place. And subsequently...about the Golden Stopwatch! Any organization that deposits with and/or requests materials from Addgene can...

...highlight a subset of the new plasmids in the repository through our hot plasmids articles. These brief...posts for every great plasmid that comes into the repository, but be sure to let us know if you'd like to ...studying the nervous system The Cole lab recently deposited the Tol2 Gateway-Compatible Toolobox, which will...phosphatase-positive assay) as well as stabilization (Nanog-GFP reporter activation and silencing of factor-linked mCherry...are available at Addgene. Kim, et al. Stem Cell Reports. 2015. PubMed PMID: 25772473 Targeting and manipulating...enhancer elements and combined it with a variety of reporters (i.e. eGFP) and effectors (i.e. DREADDs). The ...imaging and in protein fusions. The Gadella lab has deposited all mScarlet constructs with Addgene. Bindels...

...fundamentally the reporter construct monitors the expression of a nearby gene. The reporter gene serves as... screens to introduce reporters throughout an organism’s genome. These reporters have historically been...stimulate the expression of the reporter. The system is made up of a reporter gene flanked by a minimal promoter...promoter – all rely on the random integration of a reporter construct in close proximity to an endogenous ...example, if green fluorescent protein (GFP) was the reporter gene and green cells were observed in the kidneys... for with an uncharacterized gene. The actual reporter construct can be something phenotypic (such as...promoter. The system is composed of a promoter-less reporter which needs to integrate within an exon of a gene...

... Many of the systemic capsids in our repository are deposited by the Gradinaru lab. You can visit our...before moving on to deposits from other labs. AAVs not otherwise attributed were deposited by the Gradinaru...Look it up in Addgene’s Data Hub and the CLOVER repository of published systemic AAVs to find commonly used...coverage in rodent CNS Many of these capsids were deposited by the Gradinaru lab. For simplicity, in each ...AAV-PHP.B was the first systemic capsid developed and deposited by the Gradinaru lab (Deverman et al., 2016). ... the more efficient AAV-PHP.eB, developed and deposited by the same lab. AAV-PHP.eB is the most commonly...commonly requested systemic capsid in the Addgene repository. Like its parent AAV-PHP-B, it can be produced...

... upon you, our depositors, giving us as much information as possible during the deposit process. Special...amazing plasmid technologies contributed by our depositors, Addgene strives to make it easier for you to...plasmid" section Anytime you use a plasmid from the repository, we request that you cite it using both its Addgene...increases the visibility of both you and the original depositor. Our citations feature makes it so that, when ...you to browse through the many plasmids in the repository, our scientists have curated a number of special...attention to the great variety of plasmids in the repository. And last, but certainly not least, we often ...post about a plasmid or set of plasmids you’ve deposited with us. Don't forget to get yourself out there...

... transformation. Choose good reporter genes There are many great reporter genes available and which one...the T-DNA region with our gene of interest or a reporter gene so that the transformation and gene expression...different treatments on transformation success. Some reporter gene examples are below. The GUS gene (β-glucuronidase...histochemical GUS-staining is a very useful visual reporter (Figure 2). The GUS enzyme cleaves a substrate...transformation success. Luciferases are great quantitative reporters and use a substrate to produce bioluminescence...half-lives then GUS and are therefore good temporal reporters to measure promoter activity, for example. Useful...Agrobacterium. This is especially problematic with reporter genes as you might observe expression from Agrobacterium...

...quality cell culture. Biorepositories around the world ensure that the cell lines deposited with them and used...validation carried out by the commercial repository. Repositories generally ensure cell line identity and...invariably much older than those available from biorepositories leading to genotypic and phenotypic artefacts...been known about since 1966 when Stanley Gartler reported that most of the 18 cell lines he had studied ...The oldest, largest, and most diverse of these repositories is the American Type Culture Collection aka ... between materials available from commercial repositories and the same cell line from a colleague?”. The...cells lines. Even if you get your cells from a repository like the ATCC, there are times when it is important...

...It’s nearing the end of #DepositorWeek at Addgene and we’d like to show our gratitude on the blog by ...highlighting some of the great posts written by Addgene depositors. Below you’ll find brief summaries of several...several excellent guest posts from our depositors. Interested in writing your own post for the Addgene Blog...Lab at MIT developed plasmid based systems that report the order in which specific chemical inputs are...recombinase-based state machines could potentially be used to report upon and/or engineer “temporally ordered biochemical...derived from Zika virus and, upon binding, produce reporter proteins. These toehold switches can be used to...viral replication and transcription as well as reporter genes. To learn how you can use minigenomes in...

...constructed and deposited an unpublished set of Zika gene plasmids to Addgene’s repository. The genes, from...highlight a subset of the new plasmids in the repository through our hot plasmids articles. These brief...posts for every great plasmid that comes into the repository, but be sure to let us know if you'd like to ...growing number of CRISPR libraries from Addgene’s repository that can be used to perform screens in human ...-ome using a quick, affordable, and ubiquitous reporter assay. In their recent publication, Kroeze et ...murine CRISPR pooled libraries, but thanks to a deposit from the laboratory of Dr. Ji-Long Liu at Oxford...to use GMAP for your experiments, think about depositing your new plasmids with Addgene to help expand...

...containing these mutations have been deposited at Addgene. Plasmids deposited from Alejandro Balazs’s lab includes...including a handful of plasmids that have been in the repository for many years, has now grown into a collection...lentivirus with the SARS-CoV-2 spike protein. They deposited the plasmids used for this study at Addgene which...can be completed in just 45 minutes. The team deposited the reverse transcriptase, protease, and Bst polymerase...  Drew Endy’s and Philippa Marrack’s labs also deposited plasmids for producing COVID-19 diagnostic enzymes...cathepsins play a role in SARS-CoV infection and deposited plasmids for the expression of cathepsin S, L,... of these proteins with human proteins. Their deposited plasmids expressed 26 of the 29 SARS-CoV-2 proteins...

... sequence or a sequence provided by the depositor. Depositing labs often provide insert sequences or annotated...by the depositing lab, we call these “quality control (QC) issues.” We then ask the depositing laboratory...take when performing quality control of newly deposited plasmids is to align the NGS result to a reference...laboratory to review the discrepancies. If the depositing laboratory confirms that these differences are expected...information about our sequencing results in the Depositor Comments section at the bottom of the plasmid .... In general, our QC scientists work with the depositing lab to develop a PCR strategy suitable for the...hope to make available as part of our OpenBio Repository sometime soon. Stay posted!     References ...

... versions of this reporter to target the K9 (pcDNA3-K9 histone methylation reporter) and K27 (pcDNA3-K27...The K9 reporter uses the HP1 chromodomain to recognise lysine 9 methylation, while the K27 reporter uses... methylation in living cells. Essentially this reporter construct consists of one substrate (the histone-derived...-K27 histone methylation reporter) positions on histone H3, which are known to be involved in repression...methylation of these sites was controlled, the reporter consistently showed significantly different FRET...states. Thus, this system is a reliable tool in reporting methylation status of these sites. This new technology...Alice Y. Ting. "Genetically encoded fluorescent reporters of histone methylation in living cells." Journal...

... added a new feature for depositing labs to its website, allowing depositors to download their plasmid...information can be of personal interest to the depositor, but it can also be valuable data to share in ...grant proposals or to demonstrate impact in annual reports. While the raw data is, of course, interesting ...is launched, it will show my data by default. Depositors can download their CSV file from Addgene by following...Dashboard After the upload, the name of the depositor and the date of downloading the CSV is shown (...and the source code is available in the Github repository (you can find the link in the upper right hand...dashboard useful when analyzing and sharing your own depositor metrics!  About the Author Joachim Goedhart is...

...vector (deposited by David Root of the Broad Institute) has consistently been one of the repository’s most... to upload protocols when they deposit their plasmids to the repository. These protocols show up on the... and you decide to share them using Addgene’s repository, you can also share your associated protocols...“Supplemental Document”: gRNA_Cloning Vector (deposited by George Church’s lab). Addgene has also cataloged...the benefits and how you can get started on our deposit page. Protocols.io Website: http://protocols.io...the software aims to be a life science protocol repository. The software can be used with the ZappyLabs ...Protocol Exchange (NPE) is an open online protocol repository hosted by the Nature Publishing Group. Like the...

...combination with that reporter, you can infer its presence through detecting the reporter's fluorescence. Another...labeling proteins is to fuse them with a fluorescent reporter, such as GFP or mCherry, through genetic modification...combination of antibody-fluorophores, fluorescent reporters, and/or dye stains used in your flow cytometry...mentioned previously, you can also use fluorescent reporters, such as GFP, and fluorophore-conjugated antibodies...compare the excitation/emission spectra of your reporter with the ones from your fluorophore labels and...encodes for eGFP, which serves as a transduction reporter. Note that eGFP is not fused to CD45, but is separately...for having a separately expressed transduction reporter is that not every transduced cell will necessarily...

...on creating a repository that made it easy to share plasmids, both for people depositing plasmids and ... materials in our repository. We started to increase accessibility to our repository by making it easier...to — so far, we’ve shipped materials from our repository to an amazing 111 countries (Figure 1)! But while...distributor allowed us to share materials and accept deposits from scientists in China. They were also able ...strides in increasing the accessibility of our repository, from physical materials to useful information...changes. It was only after creating a plasmid repository and shipping internationally, after all, that... addgene.org. Currently, we’re evaluating our depositor process to identify and reduce barriers for scientists...

...information from requestors and depositors, and identifying trends in our own repository data, giving us significant...been finding and sharing stories unique to our repository and resources. As editor of Addgene’s eBooks ...order high quality viral vectors from the Addgene repository can save researchers significant time and removes...Cumulative AAV preps available in the Addgene repository each year from 2016–2023. B) AAV preps distributed...serotypes. In fact, the 879 viral vectors in our repository are produced from only 413 plasmids containing...different types of tools scientists were using/depositing. Our viral vectors data is less amenable to such...GCaMP-encoding viral vectors available in the repository. GCaMP, a calcium indicator (biosensor, by Addgene...