Genomics & Epigenetics

Omics Software Galore!

If you are looking for Omics software, then I suspect the G6G Directory of Omics and Intelligent Software need be your only stop. From the name it will come as no surprise that this website is a directory of Omics and AI software. On the Omics side it lists software for: Genomics Gene Expression Analysis/Profiling…

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An Introduction to RNA-seq

RNA sequencing (Wang 2009) is rapidly replacing gene expression microarrays in many labs. RNA-seq lets you quantify, discover and profile RNAs. For this technique, mRNA (and other RNAs) are first converted to cDNA.   The cDNA is then used as the input for a next-generation sequencing library preparation. In this article, I’ll give a brief…

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Get Started in Genome Editing with CRISPR

The development of CRISPR/Cas9 technology has made it relatively straightforward to selectively edit genomes and has revolutionized the way in which we approach biological questions. CRISPR stands for Clustered Regularly Interspaced Short Palindromic Repeats and in simple terms, this technique allows you to direct a nuclease to cut at a specific site in the genome of interest. The…

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Kiss your samples goodbye: Outsourcing your Next-Gen experiment

Genomic Science has come a long way since the early days of Sanger sequencing in the 1970’s. Today, there are jazzy new sequencing technologies that include fragment analysis, epigenetic sequencing, RNA/transcriptome sequencing and Next Generation Sequencing (NGS). Increasingly these technologies are becoming more accessible, but they still require highly specialized (read: expensive) equipment. Unless your…

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Single Molecule Real-Time Sequencing

Recently, I have witnessed the uprising of various next generation sequencing (NGS) platforms and it’s quite interesting because each platform uses a different method. Previously, I’ve written about the exciting possibility of nanopore sequencing—a new sequencing technology based on the “signature” electrical currents generated as a single strand of DNA passes through the nanopore. The…

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Why DNA Size Selection Matters in NGS Pipelines

Of all the sample prep steps necessary for next generation sequencing, DNA size selection may have the greatest impact on quality of results. After all, ineffective sizing can waste sequencing capacity on low molecular weight material such as adapter-dimers or primer-dimers, while imprecise sizing can prevent bioinformaticians from producing accurate assemblies. High-quality size selection can…

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