For some time now, NERC has been providing us with Bio-Linux. If you don’t want to be bothered with installing all the essential bioinformatic software for your Ubuntu box, you can install Bio-Linux, either as a a Linux distro for installation from scratch, or as a set of packages for an already existing Debian or Ubuntu […]
There are some interesting developments regarding the February outbreak of Legionelliosis which was traced to the Playboy mansion. Reminder: over 120 delegates of the DOMAINFest in Santa Monica, California came down with symptoms of a respiratory illness. The convention included a trip to the Playboy mansion, which later was suspected as the outbreak source. […]
William Shakespeare was baptized April 26, 1564. His birthday is traditionally commemorated on April 23 (incidentally, that is also the date of his death, in 1616). One interesting connection between Shakespeare and evolution was made by Richard Dawkins in his book The Blind Watchmaker: I am talking about the Weasel program. Weasel is an elegant illustration of the […]
A Planet of Viruses Carl Zimmer The University of Chicago Press 109 pages Interesting things happen when physicists decide to go into biological research. They ask questions that biologists generally won’t. For example, viruses have small genomes, but they also have very small storage space in their capsids. Bacteriophages inject their genetic material into the […]
We will never look at life at quite the same way again. Until now, information flow in biology looked like this: DNA gets transcribed to RNA, wheich in turn is translated to protein. While reverse transcription does take place with retroviruses using reverse transcriptase, the central dogma of molecular biology held that […]
Thanks to John Stevenson for drawing my attention to this one: Giant African Pouched Rats are trained as detectors; a good solution for low-income countries and communities. HeroRATS, as they are called, come in two “models”: landmine detectors and tuberculosis detectors. Rats born in captivity (captured rats are impossible to train) are trained to […]
Some microbes are evil minions of Hell (but not all) Quite a few people think that microbes are evil, disease causing minions of Hell that should be eradicated. Supermarkets are handing out sanitary wipes: wipe the handlebar if you want to live, never mind that 90% of the food in the supermarket is worse for […]
Last July I introduced CAFA: Critical Assessment of (Gene and Protein) Function Annotations. Recap: the number of genomic and metagenomic sequences is growing at a horrendous rate. We are inundated with sequence data, yet the fraction of useful information we can glean from these sequences is steadily decreasing. There are simply too many sequences, and they are […]
…you find this on the top of the paper pile on his desk:
א וַיְדַבֵּר יְהוָה, אֶל-מֹשֶׁה וְאֶל-אַהֲרֹן לֵאמֹר. ב דַּבְּרוּ אֶל-בְּנֵי יִשְׂרָאֵל, וַאֲמַרְתֶּם אֲלֵהֶם: אִישׁ אִישׁ, כִּי יִהְיֶה זָב מִבְּשָׂרוֹ–זוֹבוֹ, טָמֵא הוּא. ג וְזֹאת תִּהְיֶה טֻמְאָתוֹ, בְּזוֹבוֹ: רָר בְּשָׂרוֹ אֶת-זוֹבוֹ, אוֹ-הֶחְתִּים בְּשָׂרוֹ מִזּוֹבוֹ–טֻמְאָתוֹ, הִוא. ד כָּל-הַמִּשְׁכָּב, אֲשֶׁר יִשְׁכַּב עָלָיו הַזָּב–יִטְמָא; וְכָל-הַכְּלִי אֲשֶׁר-יֵשֵׁב עָלָיו, יִטְמָא. , The day after Valentine’s Day. Ah! What better day in the year can we find […]
It seems like an outbreak of Legionnaire’s disease (in a mild form, Pontiac Fever) has occurred at the DOMAINFest this year at Santa Monica, California. Legionnaire’s disease is caused by gram-negative bacterium, Legionlla pneumophila. Legionella typically inhabits the water tanks of central air conditioning systems, but any aerosolized fresh water such as from fog machines […]
Posting for a colleague, who leads a great structural bioinformatics group in Valencia. Structural Genomics Unit Bioinformatics & Genomics Department – Príncipe Felipe Research Center Seeking a Bioniformatician and a Postdoc The Structural Genomics Unit at the CIPF (Valencia, Spain) seeks candidates for two open positions: Open position in RNA 3D modeling (Technician/Bioinformatician) Open position in […]
I have just returned from British Columbia in Canada. I have to admit that their license plate motto is quite accurate: BC is incredibly beautiful. Another thing that struck me is the provincial flag of BC: the Union Jack at the top (OK, it is British Columbia), there are white and blue horizontal stripes, and […]
No apologies to Lady Gaga necessary.
So here are EssOh and OhOne assembling a rather frustrating puzzle containing cows. The same 5-6 cow “characters” are repeated, which is a perfect way to illustrate low-complexity DNA sequences, and why they are hard to assemble, especially when the pieces are small, like those you get from some second generation sequencers.
