Category Archives: SNPpets

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Friday SNPpets

This week’s SNPpets consist of the usual stuff–new data, new databases, old problems. For the US holiday weekend we’ll also include a styrofoam cooler guide. Ok, it’s for lab stuff, and you want to avoid pathogens. But still, useful. And during your picnic, think about what your Dog DNA is trying to tell you. Try to keep ants away from your picnic, unlike the one in the robot shown here. Probably the biggest surprise this week: DAVID has finally been updated.


SNPpets_2Welcome 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…


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Friday SNPpets

This week’s SNPpets consist of a lot more social and general public genomics tidbits than usual. I don’t know why–I don’t feel I was particularly looking for those over the week. There was a GINA-related ruling: a company fined for misuse of testing. Myriad was spanked for not giving patients’ information back. On the good news side, there’s educational opportunities for teachers on “personal genetics” too. As always, more software, more data. Some humor. Some head-shaking.


SNPpets_2Welcome 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…


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Friday SNPpets

This week’s SNPpets consist of an abbreviated week, because I’m on the road for a conference. But there’s plenty of interesting stuff already this week, and #BoG16 is just getting going. As usual, new and updated tools. But again the range of uses of genomics/bioinformatics is amazing: such as whole genome sequencing changing food safety. And making the tree of life more shrubby. And changing disease vector biology. Da Vinci DNA. There’s a change to DrugBank access. And how hard it is to get dbGaP data. There’s PolyMarker, a primer design tool for polyploid wheat. A phage host prediction tool. I’m so pleased to see more range of the tools and uses now. I think The Economist piece is right–the era is here and this time it’s real–but beyond humans too.  I ♥ the Blaxter Lab’s new policy of listing all the tools/settings in bioinformatics papers. My favorite thing this week.


SNPpets_2Welcome 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…


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Friday SNPpets

This week’s SNPpets include a slew of new tools, including RNA secondary structure, genome annotation, and a new platform for mitochondrial diseases. It includes some updates to old favorites, like GeneCards and a new InterMine for Xenopus. A call for help reviewing plugins at BioGPS. Two very interesting items on citations for software tools–one about software citations, and one way to publish and get properly cited. Cracking the walnut genome. And an irresistable look at cheetah genomics. And more.


SNPpets_2Welcome 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…


https://twitter.com/nswigginton/status/727841374465347585/photo/1

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Friday SNPpets

This week’s SNPpets include a variety of things–some the usual hard science, some were clever strategies to engage in softer ways. We also had genomics diagnostics and a roadmap to the clinic. Genes and developmental delays. Animal models for mechanisms, not for target discovery. There was a fun #DNADay16 talk about the genetics of Wizarding, using Harry Potter characters as the pedigrees. Metagenomics pizza. Also this week, the first time I saw news first “reported on github”.


SNPpets_2Welcome 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…


Friday SNPpets

This week’s SNPpets include a range of tools and genomics studies, from microbial to planaria to salmon to humans, as usual–as well as some that are species-agnostic.  Also stuff that is aimed at drug targets and pharmacology, including the Open Targets project Target Validation Platform. There’s a new DNA privacy bill under discussion in the US that I found interesting. Also–next Monday April 25 is #DNADay! Participate in community outreach with a number of strategies.


SNPpets_2Welcome 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…


 

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Friday SNPpets

This week’s SNPpets includea number of things about costs. The costs of sequencing–scaling computation, but also an offer for a free Galaxy server. The other thing is the cost of maintaining resources. BioCyc notified users that it can’t get funded to make the resources available to the public anymore. Some projects seek votes or crowds for funding. Some orphan genomes sit around waiting for analysis. Alas. The other things include new tools or updates which apparently have funding currently. Best idea this week: a “Dear Abby” style place for patient questions on genomics.


SNPpets_2Welcome 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…


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Friday SNPpets

This week’s SNPpets include something unusual: bioinformatics software becoming a mainstream discussion. A recent NYT piece about Zika genomics included a Bandage software-based illustrations, and a subsequent explainer piece in SciAm covered it. Zika was big this week. Of course, we covered Bandage months ago…. A reprise and riff of Tardigate was good reading. Also this week: GBrowse for peanut, FireBrowse for the Broad, updates to GeneMania, Galaxy record hit, and the opposite of update: UCSC Genome Browser in ASCII. Impersonal genomics made me laugh.


SNPpets_2Welcome 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…


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Friday SNPpets

This week’s SNPpets include items just posted to bioRxiv–which is lately where I see all the really intriguing tools. Including the awesomely-named “Clusterflock”. In a popular related item, someone responds to the Biostar question, “why are there errors in bioinformatics software?”. We have bat and bean genomics. And conch and lobster DNA. There’s at least 2 efforts to coordinate/wrangle human public genomes. And more.


SNPpets_2Welcome 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…


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Friday SNPpets

fluorsThis week’s SNPpets include “The Internet of Living Things” with portable sequencers; a collection of Galaxy tours; challenges of clinical sequencing and diagnostics; more biocuration; new and updated tools as usual. Russ Altman’s annual favorite translational bioinformatics papers piece is always great fun. Most fun image in a while, though: phylogeny of fluorescent proteins, made with the proteins. Gotta see that.


SNPpets_2Welcome 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…