Friday, 19 January 2018

iPOND, Part 2: Why Should You Go Fishing with iPOND?

iPOND, Part 2: Why Should You Go Fishing with iPOND? 

In part 1, ‘iPOND: Fishing for Proteins with DNA as Bait’ we went on a fishing expedition and learned how the iPOND technique can help us investigate the protein landscape of DNA synthesis. In this article, we will pit iPOND against a few other widely used techniques in order to answer the question: ‘Why should…

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Quantifying Individual Proteins Per Bacterial Cell

Quantifying Individual Proteins Per Bacterial Cell 

I’m a simple molecular biologist. It’s awesome how computational biologists use math to reduce and rebuild biological phenomenon. In my own way, I also like to reduce my observations to numbers. As a budding biochemist, I need to assemble and quantify the players in my pathway to truly understand it. In particular, I am interested…

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Thursday, 18 January 2018

Using dbSNP and ClinVar to Classify Gene Variants

Using dbSNP and ClinVar to Classify Gene Variants 

As we discussed previously, the gaps in our understanding of the human genome make variant classification an extremely difficult job. However, with each passing day our knowledge increases, and the tools to help us become increasingly more efficient. Let’s pick up where we left off in our first article about variants. After checking Ensemble to…

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Wednesday, 3 January 2018

A Crash Course in BLAST Searching

A Crash Course in BLAST Searching 

Simple BLAST searching is pretty straightforward to many of us. Just plug in your sequence, select the species genome, and hit search! But have you ever wondered what it takes to run a BLAST query using these mammoth-sized (no pun intended!) sequence databases? BLAST searching can produce dozens, hundreds, or even thousands of candidate alignments.…

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Thursday, 14 December 2017

A Beginner’s Guide to Exosome Isolation

A Beginner’s Guide to Exosome Isolation 

For all of you who have never heard of exosomes: You are missing out on a whole new paradigm in cell-to-cell communication. Exosomes are tiny extracellular vesicles that arise from fusion of the plasma membrane with specific endosomal compartments called multivesicular bodies. Most cells types make exosomes, and release them in order to communicate with…

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Tuesday, 12 December 2017

Modeling – in the World of Proteins

Modeling – in the World of Proteins 

Computational protein structure prediction provides three-dimensional structures of proteins that are predicted by in-silico techniques. Such protein modeling relies on principles from known protein structures obtained via x-Ray crystallography, NMR Spectroscopy, as well as from physical energy functions.  There are three main methods of modeling: The first and favorite method is Homology Modeling,1-2 Followed by the…

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What to Do If You Want to Become a Freelance Writer

What to Do If You Want to Become a Freelance Writer 

A lot of people today are drawn to freelancing and want to become a freelance writer. There are great benefits when you work from home (like doing work in your pajamas) or wherever you feel most comfortable. The appeal is even greater when you count in that you make your own hours and you are…

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