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TypeBlog Post... 2020. We fit our model for each region using stochastic gradient descent in Pytorch, which gave us the...Liu is Director of the Merkin Institute and Vice-Chair of the Faculty at the Broad Institute; Professor...
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Isolating Genomic Regions of Interest with the CRISPR System
TypeBlog Post...identification of DNA binding proteins, this method can characterize nucleic acid-nucleic acid interactions at a ...2017). This upregulates expression of IGF2, a characteristic of many human malignancies. Additionally, the... -
Viral Vectors 101: The Retroviral Lifecycle
TypeBlog Post...genomic sequence from one another) — by various mechanisms, only one of the two strands’ DNA counterparts...γ-Retrovirus Guide References Cullen, B. R. (1992). Mechanism of action of regulatory proteins encoded by complex... -
CRISPR 101: Ribonucleoprotein (RNP) Delivery
TypeBlog Post...generation of the RNP complex. While one option is to purchase the Cas9 protein and a gRNA from a commercial ...performed rapidly and, in many cases, with reduced chance for off-target effects. As the CRISPR field continues... -
AAVs in Retinal Gene Therapy
TypeBlog Post...occurring animal model, the RPE65−/− dog, was characterized and found to suffer from early and severe visual.... PubMed PMID: 29983335. 9. Day TP1, Byrne LC, Schaffer DV, Flannery JG, 2014. Advances in AAV vector ... -
Great Results Start with Great Standard Curves
TypeBlog Post...final readout. When preparing a standard curve, change pipette tips and mix thoroughly by inversion or...dilution series, use consistent dilution factors, change pipette tips regularly, and mix samples very well... -
Better Dyeing Through Chemistry & Small Molecule Fluorophores
TypeBlog Post...college student searching couch cushions for spare change, desperate to extract a few more photons from a...Fluorescent Protein Fusions Request Plasmids from the Michael Davidson Collection Find Fluorescent Protein Kits... -
CRISPR Between the Genes: How to Experiment with Enhancers and Epigenomics
TypeBlog Post...usually housed in a single flask. Through a bit of stochastic magic and Poisson statistics, each sub-population...population. Recall that guide RNAs are the targeting mechanism for CRISPR. Therefore if a gRNA drops or disappears... -
Tips from the Repository Trenches: Using Barcodes to Track Samples
TypeBlog Post...transformed with a micropulser using an electric charge to help the DNA enter the cells. Some samples require... to be read one at a time. 1D barcodes can be purchased from many companies such as Corning. Tubes can... -
The Importance of a Fun Workplace: Company Culture at Addgene
TypeBlog Post... included a simple corn hole set and a cooler. Chances are one of your colleagues has a frisbee at least...where to be and when. This pre-planning will avoid chaos and delays in getting the fun started. I’m aware... -
Your Lentiviral Plasmid FAQs Answered
TypeBlog Post...lentiviral and retroviral packaging vectors are not interchangeable. While these differences may seem subtle they...the generation used to package the virus does not change the generation of the transfer vector. Q5: What... -
Plasmids 101: Plasmid Incompatibility
TypeBlog Post...during cell division. They don’t simply rely on chance (or random diffusion) to make this happen. There...centromere-based incompatibilities: Insights into the mechanism of incompatibility mediated by low-copy number... -
CRISPR 101: Which Cas9 Do I Choose for My CRISPR Experiment?
TypeBlog Post... been converted to an alanine (D10A or H840A), changing its double-strand cut to a single-stranded nick...Walton et al., 2020). Further, this group also characterized a second Cas9 variant, SpRY, which cuts at NRN... -
Rett Syndrome: A History of Research and Therapeutic Outlooks
TypeBlog Post... Rett Syndrome, respectively. One of the main challenges facing Rett researchers is how to deliver the... by Gail Mandel. There are numerous technical challenges to overcome for both of these approaches, such... -
Plasmids 101: Shuttle Vectors
TypeBlog Post...My Bio 101 professor displayed a codon table — a chart every molecular biologist has seen before, showing...bacteria and eukaryotes. But be careful — antibiotic mechanisms vary! Aminoglycoside antibiotics also block protein... -
Viral Vectors 101: Pseudotyping
TypeBlog Post...have different levels of cytotoxicity and the mechanisms behind the cytotoxicity can vary. For example...differentially inactivated by nonspecific complement mechanisms in serum. Sometimes this is due to the cells ... -
Plasmids 101: Gateway Cloning
TypeBlog Post...destination vectors prior to recombination, and it is exchanged with the gene of interest during the BP or LR ...Multiple Hosts. Curr Protoc Protein Sci. 2003 Feb;Chapter 5:Unit 5.17. PubMed PMID:18429245. 3. Ptashne, ... -
Mesothelioma - Causes, Symptoms, and Treatment
TypeBlog Post...Although different types of cancer have different challenges and obstacles to overcome, mesothelioma sufferers...of immunotherapy is the use of drugs (or other mechanisms) that work through body’s immune system to fight... -
Plasmids 101: E. coli Strains for Protein Expression
TypeBlog Post...suited for recombinant protein expression. Many challenges can arise when over-expressing a foreign protein...minutes before adding the inducer. Growth Media: Changing media is tricky, because there can be a trade-... -
SARS-CoV-2/COVID-19 Detection Methods Based on CRISPR/Cas
TypeBlog Post... This test can be performed in two steps for challenging samples as in Two-Step-SHERLOCK or in a fast,...the immobilised target sequences. Upon binding, changes in fluorescence can be visualised. Another approach...