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Archives for January, 2007

The general steps in genome sequencing were presented in the earlier installments ( there are links at the bottom of the page), but it’s worth repeating them again since each of the earlier steps has a bearing on the outcome of those that come later. These are: Break the genome into lots of small pieces…

“How much do I love you? I’ll tell you no lie. How deep is the ocean? How high is the sky?” – Irving Berlin The other installments are here: Part I: Introduction Part II: Sequencing strategies Part III: Reads and chromats Part V: checking out the library We all know that sequencing a genome must…

The University of Nevada in Las Vegas is looking for a few good undergraduates to come do research this summer in environmental microbiology. Environmental microbiology goes way beyond hot springs bacteria and Yellowstone Park. At UNLV, you can do science in the desert. It almost makes me wish I was an undergraduate again.

Shotgun sequencing. Sounds like fun.

Considering that several genomes that have been sequenced in the past decade, it seems amazing in retrospect, that the first complete bacterial genome sequence was only published 12 years ago (1). Now, the Genome database at the NCBI lists 450 complete microbial genomes (procaryotes and archea), 1476 genomes from eucaryotes, 2145 viruses, and genome sequences…

Note to self: doing live BLAST searches during a lecture is not a good idea. Would Julia Child make her viewers watch the food bake? Standing in front of a class and waiting for results to appear, makes me realize how much instructors can learn a lot from watching Julia Child demonstrate cooking. I think…

Tired of waiting for congress and you don’t want to move to California or out of the US? Attila Csordas shows us in a few photographs how to isolate placental stem cells at home. His series brings back memories. My very first paid technician job in college involved visiting the maternity ward, collecting placentas, and…

About a week ago, I offered to answer questions about subjects that I’ve either worked with, studied or taught. I haven’t had many questions yet, but I can certainly answer the ones I’ve had so far. Today, I’ll answer the first question: How do you sequence a genome?

In the effort to help us define a few basic concepts, PZ started out by giving us a nice simple definition of a gene, but as he, rightly noted: I tell you right now that if I asked a half dozen different biologists to help me out with this, they’d rip into it and add…

I read about this in Science and immediately had to check it out. Instant gratification on the internet is such a wonderful thing! The Ed Kravitz lab has made movies of fights and even put them on the web for your viewing pleasure.