Archives

Recently I had the opportunity to volunteer my time at the Saint Louis Science Center, helping out with one of their programs called DNA Gene Shorts. While arranging my schedule at work to allow [...]

Part 6 of our 6 part series on RNA-seq. Part 1, Part 2, Part 3, Part 4, and Part 5 6. Understand where the noise threshold is in your RNA-seq data. This one today will be short…. we are in [...]

Part 5 of our 6 part series on RNA-seq. Part 1, Part 2, Part 3, Part 4 5. Estimate the number of biological replicates and reads needed to accomplish your goals…. before you start sequencing! I [...]

Part 4 of our 6 part series on RNA-seq. Part 1, Part 2, Part 3. 4. Align to the gene set and genome Depending on a researchers goals, it may be advantageous to align to both the gene set and [...]

Part 3 of our series on RNA-seq. Part 1, Part 2 3. Use spike-in controls Spike-in controls, whether custom, or the ERCC set can be an extremely useful tool, even they are only used for assessing [...]

Part 2 of our series on RNA-seq. Part 1, Part 3 2. Poly(A) enrichment or ribosomal removal? To continue where we left off yesterday, I sometimes see researchers fretting over whether to do [...]

We frequently talk to researchers about the small changes that can have a big impact on the results of an RNA-seq experiment. Over the coming week, I’m going to focus on six different [...]

In my last post, I discussed the advantages of RNA-seq for characterizing conditional knock out mice. The question arises for this experiment and most other biological studies: how do we isolate [...]

Wow, you just generated a conditional knock-out mouse! A huge feat, and now you need to validate your model before characterization and testing your hypothesis. We’ve all heard it before, what [...]