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TypeBlog PostPublishedNov. 12, 2020, 2:15 p.m....gene engineering to improve gene expression by changing synonymous codons based on an organism's codon...protein production in certain systems, synonymous changes to a gene sequence can cause unexpected detrimental...affect protein conformation, folding and stability, change post-translational modification sites and even ...
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Hot Plasmids - August 2020
TypeBlog PostPublishedAug. 18, 2020, 1:15 p.m....structures and compartments in mammalian cells By Angela Abitua Genetically encoded fluorescent proteins...system for human pluripotent stem cells By Jennifer Tsang CRISPR gene interference (CRISPRi) and gene activation...s41598-020-57500-1 The CRISPR corner By Jennifer Tsang Here are a few highlights from recent CRISPR plasmids... -
Beyond the Blood Brain Barrier: PHP.B Enters the Central Nervous System Via the LY6A Receptor
TypeBlog PostPublishedJuly 23, 2019, 12:46 p.m.... PHP.B. The Deverman lab started by seeing how changes in LY6A’s expression affected PHP.B’s transduction...AAV-PHP.B vectors? See Supplementary Table 3 in Huang et al. for a list of PHP.B permissive and non-permissive...PMID: 29428298 PubMed Central PMCID: PMC5911151. Huang, Qin, et al. "Delivering genes across the blood-... -
Supporting Reproducibility with a Connected ELN
TypeBlog PostPublishedJan. 17, 2019, 1:38 p.m....that emerged from intensive engagement with a wide range of people at the University of Wisconsin in 2011...chat apps like Slack, Microsoft Teams, and Google Hangouts Chat, resources like Github and Gitlab, and science-specific...reproducibility an ELN should have integrations with a broad range of relevant generic and science-specific tools. ... -
AAV Titers: Where Do They Come From And What Do They Mean?
TypeBlog PostPublishedNov. 15, 2017, 3 p.m....temperature parameters. For example, we found that changing the annealing temperature of the PCR from 60° ...primers can have different annealing efficiencies (Wang et al., 2013). Although you can optimize your primers...: 28546538. PubMed Central PMCID: PMC5445070. 6. Wang, Feng, et al. "A reliable and feasible qPCR strategy... -
How to Write a Scientific Review Article
TypeBlog PostPublishedFeb. 16, 2017, 3:30 p.m....popular papers, but looked for papers from a wide range of authors. Just start writing When I first started... and forth with. That being said, we probably exchanged dozens of drafts of the manuscript. This is the...transform the document into something cohesive-- change the sentences, make it flow, and start telling ... -
Antibodies 101: Reading a Flow Plot
TypeBlog PostPublishedFeb. 6, 2024, 3:13 p.m....Jhunjhunwala, S., Aresta-Dasilva, S., Tang, K., Alvarez, D., Webber, M., Tang, B., Lavin, D., Veiseh, O., Doloff...Vegas, A., Ma, M., Sahay, G., Chiu, A., Bader, A., Langan, E., Siebert, S., Li, J., Greiner, D., & Anderson... -
Hot Plasmids Spring 2024
TypeBlog PostPublishedMay 23, 2024, 1:15 p.m....cells. Plus, Voltron2’s fluorescence is tunable by changing the dye that becomes conjugated with its HaloTag...Through in vivo screening of human promoters, the Zhang Lab found a short fragment of human IBA1 promoter...functionally reconstituting coding sequences for a range of applications, including CRISPR activation by ... -
Hot Plasmids: Fall 2024
TypeBlog PostPublishedNov. 21, 2024, 1:30 p.m....here! Zhong, B. L., Elliot, J. M., Wang, P., Li, H., Hall, R. N., Wang, B., Prakash, M., & Dunn, A. R. (...functional properties, and is amenable to a wide range of biophysical assays (Kroupova et al., 2024). They... -
Tips for CRISPR Gene Editing in Mice
TypeBlog PostPublishedJune 28, 2016, 10:59 a.m....now using this system in ever more creative ways, (Wang et al., 2013, Cho et al., 2014). There are several...option is the CRISPR Design tool supplied by the Zhang lab. This simple website invites you to input the... 56.1 (2014): 122-129. PubMed PMID: 24372541. 4. Wang, Haoyi, et al. "One-step generation of mice carrying... -
Fluorescent Proteins 101: GFP Fusion Proteins - Making the Right Connection
TypeBlog PostPublishedApril 9, 2019, 1:13 p.m....exceptional brightness, photostability and dynamic range: characterization of dedicated sensors for FLIM,...PMC5837189. Nagai, Takeharu, et al. "Expanded dynamic range of fluorescent indicators for Ca2+ by circularly...Improving the photostability of bright monomeric orange and red fluorescent proteins." Nature methods 5.6... -
Plasmids 101: Biotinylation
TypeBlog PostPublishedNov. 15, 2018, 1:50 p.m....nature. Once the bond is formed it is unaffected by changes in pH, temperature or organic solvents. Uses of... 25980573. PubMed Central PMCID: PMC4461904. 9. Huang, Q., Mao, Z., Li, S., Hu, J., & Zhu, Y. “A non-radioactive...PubMed Central PMCID: PMC164612. 11. Liou, Y.-R., Wang, Y.-H., Lee, C.-Y., & Li, P.-C. “Buoyancy-Activated... -
New Optogenetic Tools for Cytoskeleton and Membrane Control
TypeBlog PostPublishedSept. 28, 2023, 1:15 p.m....under blue light BcLOV4 undergoes a conformational change and binds the plasma membrane under blue light ...family signaling pathways. Rho guanine-nucleotide exchange factors (GEFs) activate their partner Rho GTPase...formation, cell contraction, or other morphological changes, depending on the specific Rho GTPase/GEF pair ... -
Antibodies 101: Beyond Surface Labeling
TypeBlog PostPublishedJune 27, 2024, 1:15 p.m.... Many people use 'labeling' and 'staining' interchangeably to refer to any technique that combines a marker...conjugates are commercially available for a wide range of fluorophores, allowing for great flexibility ...epitope-targeting antibody can originate from a range of species; for example, rabbit or mouse. In a second... -
Scientific Reproducibility - Focusing on Solutions at the Minisymposium on Reproducibility
TypeBlog PostPublishedMay 18, 2018, 7:32 p.m....of peer reviews so we can see how and why papers change throughout the review process. This will hopefully...problem in Button et al 2013 and Ioannidis 2005) and changing an experimental set-up partway through an experiment... the experiments they’re reading about weren’t changed halfway through in order to chase a positive result... -
Easi-CRISPR: Generating Knock-In and Conditional Mouse Models
TypeBlog PostPublishedApril 5, 2018, 12:42 p.m....First, you’d construct a plasmid with your desired changes, long homology arms and a selection marker, then...creating a conditional allele, or floxed mouse, from Yang et al. requires two gRNAs targeting two intronic...assistance with editing this blog post. References Yang, Hui, et al. "One-step generation of mice carrying... -
A Control for All Seasons
TypeBlog PostPublishedOct. 5, 2023, 1:15 p.m....purple) and nonspecifically through the Fc region (orange). The Preimmune serum control will not bind to ...the label control for all new samples, protocol changes, or when high background labeling occurs (Burry...critical for data interpretation, especially when changes in protein expression are the experimental readout... -
Plasmids 101: Dimers and Multimers
TypeBlog PostPublishedJan. 10, 2023, 2:15 p.m....giving greater concentration of cut DNA without changing the size. As a result, a restriction digest of... Resources and References References Bacolla A, Wang G, Jain A, Chuzhanova NA, Cer RZ, Collins JR, Cooper...19233255; PMCID: PMC2693335. Williams JA, Luke J, Langtry S, Anderson S, Hodgson CP, Carnes AE. Generic plasmid... -
When Fidelity Matters: A frank discussion about ligase fidelity
TypeBlog PostPublishedMarch 6, 2018, 1:49 p.m....temperatures (up to 95 °C) and is active over a range of elevated temperatures (37–75 °C). T4 DNA ligase... PubMed Central PMCID: PMC1933048. 16. Cheng, Changming, et al. "Electrochemiluminescent assay for detection...26365241. PubMed Central PMCID: PMC4737175. 22. Liu, Pingfang, Artur Burdzy, and Lawrence C. Sowers. "DNA ligases... -
It’s CRISPR Week at Addgene!
TypeBlog PostPublishedMay 13, 2019, 12:01 p.m....exciting news for you too! The CRISPR field is always changing so we’ve been busy updating our CRISPR guide. ... Jennifer Tsang...