We narrowed to 835 results for: ANG

..., Han, H., Li, Y., Wang, L., Chen, G., Ma, X., Geng, H., Huang, W., Pang, X., Yang, Z., … Li, D. (2020...mediate a C to T change (or a G to A change on the opposite strand). ABEs make an A to G change (or a T to ...025-02678-w Zhang, X., Zhu, B., Chen, L., Xie, L., Yu, W., Wang, Y., Li, L., Yin, S., Yang, L., Hu, H....out of 12 possible base-to-base changes. The other 8 base-to-base changes require Base Transversion Editors... Ru, G., Meng, H., Yan, Y., Hong, M., Zhang, D., Luan, C., Zhang, S., Wu, H., Gao, H., Bai, S., Li, C....to C change on the opposite strand). Both are base transition editors: converting one purine base to the...purine-to-purine or pyrimidine-to-pyrimidine base changes. Solid red arrows indicate a conversion directly...

...aptamer, Mango, binds to multiple derivatives of thiazole orange (TO) and fluoresces in the orange or red... and orange fluorescent aptamers Corn was described in the same study as Red Broccoli and Orange Broccoli...fluoresce in the red and orange channels, respectively. Both Red Broccoli and Orange Broccoli are derived ...(Autour et al., 2018). Three variants of Mango, coined Mango II, III, and IV, were then identified through...that bind metabolites, leading to conformational changes that control the expression of coding RNA. Spinach-based...molecule. Notably, like Broccoli, Red Broccoli and Orange Broccoli are not photostable, and were presented...et al., 2014). While 10 derivatives of TO exist, Mango is most frequently used with TO1-biotin or TO3-biotin...

...4811-9-39 Gao Q, Xu W, Yan T, Fang X, Cao Q, Zhang Z, Ding Z, Wang Y, Wang X (2019) Rescue of a plant cytorhabdovirus... Lowder LG, Zhang D, Baltes NJ, Paul JW III, Tang X, Zheng X, Voytas DF, Hsieh T-F, Zhang Y, Qi Y (2015... crops to increase agricultural yield (Wang et al., 2016; Wang et al., 2014). While it is certainly possible.... https://doi.org/10.1038/s41467-020-15731-w Wang F, Wang C, Liu P, Lei C, Hao W, Gao Y, Liu Y-G, Zhao...doi.org/10.1371/journal.pone.0154027 Wang Y, Cheng X, Shan Q, Zhang Y, Liu J, Gao C, Qiu J-L (2014) Simultaneous...https://doi.org/10.1038/nature.2016.19754 Zhang H, Demirer GS, Zhang H, Ye T, Goh NS, Aditham AJ, Cunningham... of reasons to consider using genome editing to change the genetic code of plants, including the development...

.../acssynbio.7b00399 Li Q, Sun B, Chen J, Zhang Y, Jiang Y, Yang S (2021) A modified pCas/pTargetF system....org/10.1038/nbt.3043 Bikard D, Jiang W, Samai P, Hochschild A, Zhang F, Marraffini LA (2013) Programmable...doi.org/10.1038/s41467-018-04901-6 Jiang W, Bikard D, Cox D, Zhang F, Marraffini LA (2013) RNA-guided ...homologous recombination in bacteria. These quirks change the way CRISPR-mediated genome engineering functions... to generate multiple mutations simultaneously (Jiang et al. 2013). Genome editing tools for bacteria ...coli and T. citrea scarless editing plasmids Sheng Yang’s lab describes a two-plasmid system that combines...system for scarless, iterative genome engineering (Jiang et al., 2015). pCas contains Cas9 and the phage ...

...-00745-y Zhang Y, Sun X, Wang Q, Xu J, Dong F, Yang S, Yang J, Zhang Z, Qian Y, Chen J, Zhang J, Liu Y... Y, Tao R, Jiang Y, Yang J, Yang S (2020) Multicopy Chromosomal Integration Using CRISPR-Associated Transposases...discovery of CRISPR-transposons by the Sternberg and Zhang labs (Peters et al., 2017; Klompe et al., 2019; ...and CAST (CRISPR-associated Transposase) by the Zhang group. Mechanism of CRISPR-transposons One of the... these systems have already been demonstrated, ranging from large genomic insertions and/or deletions,...multi-copy genomic integration of metabolic cassettes (Zhang et al. 2020); however, the technology potential ...Crits-Christoph A,  He C , Xu M, Zhou Z, Smock DC, Tang K, Owens TK, Krishnappa N, Sachdeva R, Deutschbauer...

...and single-stranded 5′ overhangs… but it doesn’t really matter if those overhangs perfectly match up. They...from its dependence on single-stranded overhangs. These overhangs must be accessible to allow for complementary...backbones, base pairing between these ~4 base overhangs isn’t strong enough to hold a plasmid together...be ligated. But in LIC, longer single-stranded overhangs can hold a nicked plasmid together long enough...) digested to create 10–12 base “chewed back” overhangs, they can be annealed, forming a circular product...limited by its sequence constraints. The long overhangs must not contain the dNTP present in the exonuclease...protocol itself is flexible. For one thing, those 5′ overhangs can be generated in several ways. One option, ...

...When we start thinking about languages, humans have two types of languages: one to communicate amongst ...then there are languages to communicate with other things. These are programming languages like Java or ...successful human-to-human languages. Who owns computer-programming languages? That's trickier. Sometimes...successful computer languages are free to use. Of the 15 most popular computer programming languages, 12 out of...earlier this year by the White House as a Champion of Change, a program created as part of President Barack ...genetically encoded functions - the words in our language for programming life - and they should be free...1854 was thinking about logic and analyzing human language and observed that we humans find it useful to ...

...21559-9 Huang, M. E., Qin, Y., Shang, Y., Hao, Q., Zhan, C., Lian, C., Luo, S., Liu, L. D., Zhang, S., Zhang... Zhang, Y., Wo, Y., Li, N., Wu, S., Gui, T., Wang, B., Luo, Y., Cai, Y., Liu, X., Xu, Z., … Meng, F.-L...10.1038/s41587-020-0609-x Yang, C., Dong, X., Ma, Z., Li, B., Bi, C., & Zhang, X. (2022). Pioneer Factor... Bi, C., & Zhang, X. (2021). Glycosylase base editors enable C-to-A and C-to-G base changes. Nature Biotechnology...bacteria and mammalian cells Researchers in the Xueli Zhang lab were making similar observations around the ...pioneered these editors (calling them GBEs), Xueli Zhang’s lab, returned with a unique approach to improving...binding to and remodeling inaccessible chromatin (Yang et al., 2022). Specifically, they found that the...

... RuvC, orange; CTD, yellow; REC lobe, light blue; bridge helix, purple.   Apo Cas9 changes conformation...viewed from the same angle to highlight conformational differences. HNH, red; RuvC, orange; CTD, yellow; REC...resolved due to structural disorder. HNH, red; RuvC, orange; CTD, yellow; REC lobe, light blue; bridge helix...and are important for robust activity in cells (Jiang & Doudna, 2017). Within an interior cavity, Cas9...Cas9 grips nucleotides 1-10 of the guide RNA, prearranged for base pairing with a complementary DNA strand...state (PDB ID 4ZT0, bottom), seen from the same angle. Box highlights the DNA-binding region of the CTD...and absent from that structure. HNH, red; RuvC, orange; CTD, yellow; REC lobe, light blue; bridge helix...

... Barretto R, Habib N, Hsu PD, Wu X, Jiang W, Marraffini LA, Zhang F (2013) Multiplex Genome Engineering...102–106 . https://doi.org/10.1038/nbt.3055  Wang D, Zhang F, Gao G (2020) CRISPR-Based Therapeutic Genome...gene delivery due to their low immunogenicity and range of serotypes allowing preferential infection of ... room for additional regulatory elements. Feng Zhang's group previously packaged Cas9 and multiple gRNAs...a smaller, but equally potent Cas9 protein, the Zhang lab took a different approach. They analyzed over...compare the off-target effects of SpCas9 and SaCas9, Zhang’s group used an approach called BLESS (direct in ... test the efficiency of AAV-SaCas9 in vivo, the Zhang lab created an all-in-one SaCas9 and sgRNA construct...

...technologies used at Addgene Sanger sequencing (“First-generation sequencing”)  Sanger sequencing, developed ...Figure 1: Overview of Sanger sequencing technology. Created with BioRender.com. Sanger sequencing was considered...sequencing, Addgene relied on Sanger sequencing for QC. We occasionally still use Sanger sequencing to confirm...https://doi.org/10.1002/cpmb.59  Wang, Y., Zhao, Y., Bollas, A., Wang, Y., & Au, K. F. (2021). Nanopore...developed in 1977 by Fred Sanger, was the first widely used DNA sequencing technology. The process relies on “...recorded as a DNA strand is synthesized (Figure 1). Sanger sequencing requires four separate reactions, where...known as next-generation sequencing (NGS). However, Sanger sequencing remains useful for small sample sizes...

...Novartis researcher, Carrie Bhang. The ClonTracer Library, deposited by Carrie Bhang, a research investigator...in Frank Stegmeier’s lab in Novartis Oncology.  Bhang did her PhD work at Johns Hopkins and came to Novartis...The ClonTracer library originally came about as Bhang and co-workers were trying to develop a way to quantify... with lentiviral pooled shRNA libraries. Later, Bhang says, “When we developed this tool, there were so...Using ClonTracer to study drug resistance Although Bhang and co-workers started using the tool to look at...cancer development, metastasis, and drug resistance, Bhang says “the [drug] resistance story panned out quickly...recent Nature Medicine paper. In the publication, Bhang and coworkers used the ClonTracer library to determine...

...concentration lies within the dynamic range of the curve. The dynamic range is the linear span between the lowest...the dynamic range of your standard curve, so if your sample does not fall within this range, it may be ... of the series dilutes by 1:2 for a series that ranges from 1:2–1:32. The specific dilution series used...Figure 1: A 1 mg/mL control is diluted in a series ranging from 1:2 to 1:32. Each individual step of the series...final readout. When preparing a standard curve, change pipette tips and mix thoroughly by inversion or... how well the data points fit the trendline. R2 ranges from 0 to 1 with 1 being a perfect fit and 0 indicating...that the curve can accurately measure.  Dynamic range depends on a number of factors, including the dilution...

...that surround changes in gene expression and determine who’s a key driver of these changes. By generating...on gene regulation. References Han, J., Zhang, Z., & Wang, K. (2018). 3C and 3C-based techniques: the..., X., Chen, Y., Zhang, Y., Liu, Y., Liu, N., Botten, G.A., Cao, H., Orkin, S.H., Zhang, M.Q., & Xu, J....and proteins that forms chromosomes. These long range DNA interactions are often detected with chromosome... CAPTURE method, the Xu Lab made the following changes to create CAPTURE 2.0:  Replace the biotinalatable...control gRNA or predicted gRNA off-target sites. Long-range chromatin interactions identified with the multiplexed...of 157 super enhancers.  3. Measuring temporal changes in chromatin interactions A third application for...

...heterogeneity, and/or cell position changes (To et al., 2016, Zhang et al., 2019). Thus to effectively ... 27447051. PubMed Central PMCID: PMC5026494. Zhang, Qiang, et al. "Designing a green fluorogenic protease...site. Cutting the linker by a caspase results in a change in fluorescence emission. FRET and fluorescence..., and thus quantify, due to small fluorescence changes of the donor and acceptor after proteolytic cleavage...need a protease reporter that has a large dynamic range and high brightness. The Shu Lab from UCSF designed...However, the lab wanted to increase the fluorescence range to better study the spatio-temporal dynamics of ...fluorescence 100-fold compared to other reporters (Zhang et al., 2019). How does FlipGFP work? GFP contains...

...parts, etc). These overhangs are known as the common MoClo nomenclature. The overhangs are generated using...four-base overhangs for the same type of parts to ensure that these would be interchangeable between different...sites and four-base overhangs flank a coding sequence of interest (CDS1, top). Overhangs must match the Level...modules or parts. Assembly is dictated by four-base overhangs that are paired with different part types (e.g... acceptor vectors and parts with the adequate overhangs is crucial for the position and directionality...assemblies depend on compatibility of four-base overhangs flanking each genetic part. (A) Example Level ...different Level 0 vectors depends on the four-base overhangs flanking each part, as they need to match sequentially...

...dilution range from 1:100–1:1,000. If your antibodies come from ascites fluid, try a dilution range from ...of interest to understand the dynamic or working range of a given reagent (usually an antibody).    ...concentrations are within the antibody’s dynamic range. Created with biorender.com   Alternatively,... protein aggregation, you may want to consider changing your incubation temperature. Some proteins aggregate...kDa) and a 0.45 µm (p) membrane for larger ones. Changing your membrane size is probably the easiest troubleshooting...antibodies come with a recommended dilution and/or range (typically between 1:500 and 1:10,000 for primary...recommended dilution. If the antibody dilution’s dynamic range encompasses your protein’s expected concentrations...

...tools needed to do so. Cepko lab researcher Jonathan Tang wanted to express a variety of proteins in single...develop the mouse lines required for this purpose. Tang wondered if he could use previously established ...selectively manipulate only GFP-labeled cells. Once Tang and Cepko found a description of GFP-binding nanobodies...Envisioning GFP as a substrate promoting dimerization, Tang et al. tested pairs of their GFP-binding proteins...transcription factor, activating luciferase transcription. Tang et al. coined this system T-DDOG (Transcriptional...GFP). In testing the specificity of their system, Tang et al. found that YFP and CFP can activate certain...different promoters. Moving to an in vivo system, Tang et al. electroporated T-DDOGs, GFP, and a reporter...

...with 5’ overhang TGGA and 3’ overhang TCCG can be ligated into a vector containing those overhangs. Entry...sequence, creating four base flanking overhangs. Since these overhangs are not part of the recognition sequence...targeting. Cermak T, Doyle EL, Christian M, Wang L, Zhang Y, Schmidt C, Baller JA, Somia NV, Bogdanove...destination vector contains sites with complementary overhangs that direct assembly of the final ligation product...Entry DNA overhangs may be present in the original plasmid (Option 1) or added using PCR-based amplification...Gate cloning is its scalability. Unique 4 base overhangs can be used to assemble multiple fragments - up...commonly assembled in a single reaction! These overhangs specify the desired order of fragments, and the...

... #1, any change in the normalized intensity of your POI could reflect either a genuine change in your ...lies the linear detection range. Figure 4: The linear detection range of the assay is between the...detection range, band intensity measurements become extremely susceptible to error, since tiny changes in intensity...your POI, but simply whether its concentration changes in response to experimental parameters. This is... even hit the gel. But what if your experiment changes the expression of your loading control without ...your POI or an opposite change in your loading control. Assumption #2: The loading control can be accurately...control points are outside of the linear detection range. As a result, they have almost the same value on...