The latest genome to be completed is the naked mole rat (Heterocephalus glaber). Now, could there be a cooler (if ugly) mammal on the planet? It’s one of only two truly eusocial mammals in the world, it lives up to 28 long years (my daughter’s rat, no relation, lived only 3 years) and is surprisingly [...]
If you go to the UCSC Genome Browser and type “vars” in the “gene” text box (human genome, 2009 assembly), you’ll notice something different. The chromosome region listed is “chr6_apd_hap1:3,060,047-3,078,462″ Those are the haplotype sequence coordinates. With the addition of the hg19 assembly, now provided by GRC, additional alternative sequences were included: haplotypes, alternative loci [...]
Would like to just announce that Mary and I will be giving an all-day hands-on workshop on Tuesday, November 2nd, 2010 in Washington DC (my home town), right before the ASHG conference (where we will also be). The title of the workshop is A World Tour of Genome Browsers and a Galaxy of Analysis Tools. [...]
Welcome to our Friday feature link collection: SNPpets. During the week we come across a lot of links and reads that we think are interesting, but don’t make it to a blog post. Here they are for your enjoyment… METAREP: JCVI Metagenomics Reports – an open source tool for high-performance comparative metagenomics. Hat tip to [...]
You may have been hearing about the 1000 Genomes project–it’s one of the ongoing “big data” projects that is going to yield a great deal of variation information about the human genome. The goal is to sequence well over1000 genomes to identify “most genetic variants that have frequencies of at least 1% in the populations [...]
Welcome to our Friday feature link dump: SNPpets. During the week we come across a lot of links and reads that we think are interesting, but don’t make it to a blog post. Here they are for your enjoyment… Deepak Singh blogs about the need for developers and more support and appreciation for developers and the [...]
Today’s Tip of the Week is a short introduction to WAVe, or the Web Analysis of the Variome. The tool was recently introduced to us, and I’ve found it a welcome introduction to the tools available to the researcher to analyze human variation. This is apropos considering the recent paper we’ve been discussing on the clinical [...]
There are a number of genome browsers out there–we’ve covered that a number of times. And there are always new ones coming along. With the onslaught of sequence data we’re about to get from high-throughput sequencing, more and more research groups, communities, and individuals are going to need to choose a genome browser to use [...]
Comprehensive tutorials on the publicly available Ensembl and an overview of genome browsers enable researchers to quickly and effectively use these invaluable resources. Seattle, WA (PRWEB) April 26, 2010 — OpenHelix today announced the availability of a new tutorial on Ensembl, and an updated tutorial suite on the Overview of Genome Browsers. Ensembl is a [...]
We know there are a number of different ways that scientists and students become familiar with genomics software. Some of it comes from the traditional publication routes–like the very handy NAR Database issue. Or like the Current Protocols papers we’ve done recently. We have these online tutorials that people use in various ways: some [...]
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