Category Archives: SNPpets

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Friday SNPpets

This week’s SNPpets includes some info on the Brexit fallout, at least some good news as it affects EMBL-EBI. The genomes of foodborne illness are being wrangled. A note about HapMap retirement and data access. The PDB tour of proteins is really fun. I thought we were done with single genomes of an organism with a name (like Susie the orang or Cinnamon the cat), but we now have Santander the 1200 year-old olive tree. See also high-throughput screening in plants–and a fitbit for plants in the field. Software citation principles. Genome papers vs genome reports. GTEx resources at UCSC Genome Browser. Also–watch the Galaxy and GMOD meeting hashtags for great stuff.


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…


SNPpets_2

Friday SNPpets

This week’s SNPpets have lentils. I love lentils. But also zombies. And a baronet established by DNA sequencing. A need for some CRISPR edting. And the sudden retirement of HapMap. There’s also an attempt to save the model organisms from retirement or zombie-ness. Wormbase/Flybase/ZFIN et al need your signature. I wish signaures could save science from the Brexit as well. But I suspect that’s unlikely.


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 have a pretty typical list of both new and updated sites and tools. The wheat genome (not gluten-free). A couple of key bits for folks who are scripting calls to NCBI (need to use https soon), or for folks in Asia who could use a UCSC Genome Browser mirror site closer to their location: http://genome-asia.ucsc.edu/. But my favorite thing this week was the best postdoc ad on twitter evah–see the snake one.


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/Sara_and_Snakes/status/742891484064546816

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Friday SNPpets

This week’s SNPpets offer a rather eclectic collection. Visualization with PanViz, LepBase for lepidopterans, a simulated data generator, and a new collection of community-curated phylogenetic estimates. But the big noise was the cancer “moonshot” data commons and the clinical trial for NCI-MATCH and precision medicine. Also newborn genome sequencing. Funniest thing: passive-aggresive bioinformatics. Coolest thing: Paul Simon and CRISPR (scroll to the bottom of the list).


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…


SNPpets_2

Friday SNPpets

This week’s SNPpets offer quite the range of stories and links. Genomics for nurses and rice breeders. CRISPR tricks. A database retirement (Epigenomics DB), and a new collection of miRNA tools among other new resources and data. There are multiple forays into visualization of data, and a visual search engine for scientific diagrams. There’s an important story about genetic drift in research model mice. And a distressing story about how even a highly informed patient/family has difficultly getting tumor genomics investigations accomplished.


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/BioMickWatson/status/736206222144221184

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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…


SNPpets_2

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…


SNPpets_2

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…


SNPpets_2

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…