It’s probably just the human brain’s ability to connect dots & find patterns, but it can be interesting how many “unrelated” events and information bits accumulate in my head & eventually get mulled into an idea or theory. Take, for example, a recent biotech mixer, bits from an education leadership series & a past Nature [...]
We are acutely aware of the thousands of bioinformatics resources out there, and we are often asked for guidance on finding a particular type of tool for some function or other. There are some excellent lists out there which attempt to catalog the various tools–the NAR Database Issue and corresponding list, the Resource Collection at [...]
For another project I’m on, I had to research some of the sources of information around phenotyping experimental animal models. And just as I needed it, the RGD team produced a very nice screencast of access to the phenotyping data and resources that they offer about rat phenotyping. If you are interested in that type [...]
Ever since I was a post-doc at Jax, I’ve been on the MGI mailing list. Some days it brings back memories. Some days it brings laughter. The other day I had a major problem with the spam filter because the discussion was about: “Breeding from male with low sex drive” which, for obvious reasons, my [...]
From the MGI mailing list the other day came notice of 2 new SNP sets that have been added to the Mouse Phenome Database SNP collection (MPD). From their note: – Center for Genome Dynamics (CGD) – SNP data from Mouse Diversity Genotyping Array (CGD2). 582,000+ locations and 72 strains. – Palmer A – SNP [...]
At first the title of this paper made laugh, as I am a major fan of Paul Scofield’s performance in A Man for All Seasons. And then I remembered what happened to Thomas More. Well, the analogy drops away for me there…. A Mouse for All Reasons by the International Mouse Knockout Consortium presented the [...]
NHGRI recently pointed out our new set of tutorials on model organism databases (funded mainly by NHGRI on their home page, genome.gov. Always nice to be recognized . And it gives me the opportunity to again point out that we do indeed have seven publicly available tutorials and training materials (slides, exercises, etc) on model [...]
OpenHelix today announced the free availability of tutorial suites on model organism databases and resources used extensively in research. The first tutorial suites available are GBrowse, Rat Genome Database (RGD), Mouse Genome Informatics (MGI), and WormBase. To be added in the coming weeks are Zebrafish Information Network (ZFIN), FlyBase and Saccharomyces (Yeast) Genome Database (SGD). [...]
From the MGI mailing list comes a request for your input on the Gene Expression Database. C’mon, fill it out if you use the site. The Gene Expression Database for Mouse Development (GXD) (http://www.informatics.jax.org/expression.shtml) is a well-established public database funded by NIH and constitutes an important component of the Mouse Genome Informatics (MGI) resource. I [...]
An email from the MGI mailing list alerted me to some interesting new data on the browsers. The mouse KOMP project is generating knock-out mouse ES cells for every gene in the genome (well, that’s the goal anyway). This means you will be able to buy off-the-shelf mouse knockout cells for lots of regions you [...]
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