ISMB this year had quite a few twiterrers. Hashtag: #ISMB. I tried to collect all the #ISMB tweets, so I wrote my own twitter scavenger script, but it seems to go only 3 days back. I am not sure if this is a Twitter feature, or something with the library I am using (tweepy) or […]
Nearly a year ago, I posted about the Critical Assessment of Function prediction with which I am involved. The original post from July 22, 2010 is in the block quote. After that, an update about the meeting which will be held in exactly 2 weeks. The trouble with genomic sequencing, is that it is too […]
Miami University has joined the National Genomics Research Initiative (NGRI) offered by HHMI Science Education Alliance (SEA) in their Phage Genomics course. The students go directly into the lab, participating in an authentic research experience. In a full-year academic course they: isolate and characterize bacterial viruses from their local soil prepare the viral DNA […]
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 […]
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 […]
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 […]
The Genome Center at University of California Davis and researchers at UC Santa Cruz are organizing a genome assembly competition which they call The Assemblathon. They have released two simulated genomes for competing groups to assemble as best they can. Assemblies are due February 6th, 2011. So there is still time, if you would like […]
cag·ey /ˈkājē/ (adjective) Reluctant to give information owing to caution or suspicion CAGI /ˈkājē/ (acronym) Critical Assessment of Genomic Interpretations. For details keep reading. The ability to sequence one’s genome adds a new dimension to the ancient maxim “know thyself”. What could be more revealing of one’s self than one’s own blueprint, explaining existing […]
I’m at College Station airport, Texas, waiting for my delayed flight and hope that the weather in Dallas lets up within the hour. A good time to take a break and blog. College Station is the home of Texas A&M University, which is a place I am always happy to visit. The scientists here are […]
The trouble with genomic sequencing, is that it is too cheap. Anyone that has a bit of extra cash laying around, you can scrape the bugs off your windshield, sequence them, and write a paper. Seriously? Yes, seriously now: as we sequence more and more genomes, our annotation tools cannot keep up with them. It’s […]
Got back recently from the ISMB 2010 meeting in Boston. Five days amongst great science and scientists. I microblogged some of the talks on my FriendFeed channel, but definitely not all I attended. All the keynotes were microblogged by many of the attendees on the ISMB 2010 feed. An a conference is not just about […]
