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TypeBlog Post...FRET has also been used to measure conformational changes, cleavage activity using FRET-based biosensors,...method useful for dynamic experiments in which FRET changes are large. Two other methods are commonly used... such as pH or autofluorescence background, can change the fluorescence decay time and have to be taken...
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Data Freedom: The Expansion of Data Sharing in Research Publications
TypeBlog Post... but sufficiently annotated data used to create charts and tables in the paper are in scope. For images...end” figure or table, clicking on the published chart could reveal the underlying data and allow other...work against transparency. This opens science to charges of elitism and for scientists to be hiding behind... -
Quick Guide to Near-Infrared Fluorescent Proteins
TypeBlog Post...blue-light controlled optogenetics, such as channelrhodopsins and tools based on light-oxygen-voltage (LOV...tell us about cellular events via fluorescence changes occurring due to protein synthesis, degradation...developed based on mIFP6. Learn more about the characteristics, performance, and applications of near-infrared... -
Evolution of Brainbow: Using Cre-lox for Multicolor Labeling of Neurons
TypeBlog Post...OFP (orange), is expressed when Cre is absent; stochastic Cre excision results in one of three recombinations...First, the imaging of Brainbow mouse tissue was challenging due to low fluorescence intensity, caused partially...fluorescent proteins to find those with ideal characteristics (low aggregation, high photostability, and ... -
Is this the right place for me? 8 tactics for choosing a lab
TypeBlog Post...or lab manager be your actual mentor? Is there a chance the supervisor will be moving on soon? Will you...teaching the stuff you want to know and display character traits and skills that you hope to grow. Find... you? Maybe you like things a bit hectic and challenging and this drives your best work. Or is it teamwork... -
CRISPR 101: Off-Target Effects
TypeBlog Post...activates/represses gene expression by various mechanisms. The RNA guide is typically 20 nts and the genomic...off-target events Even after you’ve reduced the chance of off-target effects, you still need to do your... knock-out cell line to perform downstream characterization of, isolating 2 or 3 distinct clones to perform... -
Recombinase-based State Machines Enable Order-dependent Logic in vivo
TypeBlog Post...register and catalyzes their recombination, thereby changing the state of the RSM. If an attB-attP pair is ...general would benefit from a more comprehensive characterization of the recombinases at our disposal. Many...Vectors Can Be Used for Genome Editing Learn about Michael Koeris' Journey from Grad Student to SynBio Entrepeneur... -
Plasmids 101: Restriction Cloning
TypeBlog Post...matrix (usually agarose) to pull your negatively charged DNA through the gel. As indicated in the figure...the gel in wells positioned toward the cathode (- charge). When the voltage is applied across the gel, the... the DNA migrates toward the anode (+ charge). Larger fragments of linearized DNA migrate slower than ... -
Deep Dive: Statistical Tests (Comparisons)
TypeBlog Post...quantifies the likelihood that a result is due to chance vs. the factor that is being experimentally manipulated...) or skewed (see Fig. 2). Assumptions – characteristics of a data set; the ‘rules’ a statistical test...trial, for example). Fig. 3: Question flowchart for choosing an ANOVA/MANOVA statistical test ... -
A Practical Guide to Optimizing AAV DIO and FLEx Vector Expression
TypeBlog Post... Figure 2. Schematic diagram showing the mechanism of spontaneous reversion during AAV plasmid amplification...phenotype in a mixed population (Burger, C. 2004, Aschauer, DF. 2013, O’Carroll, SJ. 2021). This is due to...outcome. References and resources References Aschauer DF, Kreuz S, Rumpel S (2013) Analysis of Transduction... -
Starter Guide to induced Pluripotent Stem Cells (iPSCs) Part 2: Reprogramming and Transdifferentiation
TypeBlog Post...adapted from Zhou and Melton, 2008, [43]): Characteristic Reprogramming+ Transdifferentiation in vivo...oncogene is one of the reprogramming factors) More Chances of accumulation of harmful mutations More, due ...21434814. PubMed Central PMCID: PMC3161101. 20. Chang, C.J., et al., Production of embryonic and fetal-like... -
Antibody Data Repositories and Search Engines
TypeBlog Post...Antibodypedia Any Any Data repository YCharOS Human proteins Immunoblot (western blot), IP...BioMolecular Atlas Program (HuBMAP) Antibody Characterization Laboratory Cancer Any Data repository... -
CRISPR Cheat Sheet
TypeBlog Post...template, CRISPR can be used to introduce a functional change in the DNA sequence. Base Editors: Modified versions...versions of CRISPR nucleases that make single base changes in the DNA sequence without completely cutting ... -
New Podcast Segment: Hot Plasmids
TypeBlog Post...covered in this segment Hot Plasmid 1: CRISPR X from Michael Bassik's Lab - A new tool for making diverse, localized...this kit to complement unused auxotrophies in Saccharomyces strains. Listen to Our Segment on The Yeast... -
Countdown to Halloween @Addgene
TypeBlog Post...(old board games and movies can provide great character costumes). All of this costume planning is for...guess each plasmid? Our lab paid tribute to the changing seasons – and they also invited Father Time to... -
Newly Updated AAV Data Hub!
TypeBlog Post...dendritic spines! Curious? Watch our AAV Data Hub Challenge recording to see two reports presented by the ...report describes a functional vector such as a channelrhodopsin Images showing the injection site as well ... -
Congratulations, Deck The Lab winners!
TypeBlog Post...created a microbe advent tree displaying over 25 archaea, bacteria, fungi, and viruses. Final tree with...MicrobeAdventCalendar ornament set (plus more!) It features archaea, bacteria, fungi, viruses, and one microbe ornament... -
Plasmids 101: How to Name Your Plasmid in 3 Easy Steps
TypeBlog Post...generally listed as the amino acid change and not a nucleotide change. The proper way to denote an amino... -
Make a Splash: Notions of Scientific Impact Are Evolving
TypeBlog Post... Considering citations to all articles, Anurag Acharya and colleagues report, the percentage of citations...has increasingly moved online, surely times have changed. Altmetrics.org calls to expand our view of what... -
A Scientist's Guide to Ebola
TypeBlog Post...through the air and that’s considered unlikely to change – but the illness has been fatal in 70 percent ... Ebolavirus (EBOV) is a Filovirus, a family characterized by single, linear, negative-sense, single-stranded...