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Topics in Blog web:
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Changed: now 15:38 GMT
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Changed by:
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BurgessTypeBiota
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22 Nov 2008 - 20:21 - r1.6
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IanHolmes
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// Wikipedia:Burgess shale type biota // Reconstructions of half-billion-year-old Cambrian animals from the Burgess Shale in Yoho National Park, BC (via Boing Boing) . // As Gould says: the Old Ones... // They vaguely remind me of Drawings of Balinese Sorcery. //
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FuturistCookbook
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21 Nov 2008 - 12:45 - r1.36
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IanHolmes
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// The Futurist Cookbook // “…and the diners were given materials of different textures such as velvet and sandpaper to stroke with their left hand. Sweet was combined with savoury to produce startling effects, and bitter and sour tastes were given their place: sardines with pineapple, mortadella with nougat, cooked salami with coffee and cologne. An aphrodisiac cocktail was devised, consisting of pineapple juice, eggs, cocoa, caviar, red peppers, nutmeg, and ...
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WebStatistics
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20 Nov 2008 - 19:14 - r1.217
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TWikiGuest
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// Statistics for Web // Month: Topic views: Topic saves: File uploads: Most popular topic views: Top contributors for topic save and uploads: // // Nov 2008 6448 22 1 2464 567 WebHome 194 172 WebCritic 123 119 WebChanges 118 109 ImagingGeneMyers 107 97 WebSearch 87 WebIndex 19 Main.IanHolmes 4 Main.TWikiGuest // Oct 2008 10535 12 0 3208 706 WebHome 341 243 WebStatistics 213 178 SummerOfCode 157 128 WebTopicList 126 118 NotesAndComments 117 SingleSpeciesEcosystem ...
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ArchivedNotesAndComments
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19 Nov 2008 - 12:26 - r1.8
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TWikiGuest
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// rolroracal // Rambaud Drummond Pybus coolness HIV substitution rate predicts disease Main.IanHolmes 16 Feb 2007 06:18:40 // Stephen Salzberg on genome wikis Main.IanHolmes 13 Feb 2007 21:07:15 // Indelign: ML inference of evolutionary indel histories for a given multiple alignment Main.IanHolmes 12 Feb 2007 04:35:41 // Challenges in Engineering Microbes for Biofuel Production (Science sustainable energy issue) Main.IanHolmes 09 Feb 2007 10:13:35 ...
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NotesAndComments
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19 Nov 2008 - 12:23 - r1.472
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TWikiGuest
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// delliolo // and Comments // Origin and evolution of human microRNAs from transposable elements // This Spells DNA in your face RIAA/SoundExchange // Side-channel optimality of genetic code Main.IanHolmes 10 Apr 2007 04:56:26 // Human amplicons Main.IanHolmes 10 Apr 2007 04:55:35 // History of human DNA transposons Feschotte et al Main.IanHolmes 10 Apr 2007 04:53:57 // bio::blogs #9 Main.IanHolmes 07 Apr 2007 02:49:50 // Nature Medicine news article ...
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ImagingGeneMyers
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23 Oct 2008 - 11:31 - r1.4
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IanHolmes
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// Main.GeneMyers on imaging informatics. // http://www.bio-itworld.com/pb/2008/10/23/eugene-myers-imaging-informatics.html // Fun quotable statistic: mouse brain imaging will generate 4.2 trillion voxels/week // Main.IanHolmes 23 Oct 2008 //
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ExploringOrigins
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17 Oct 2008 - 11:01 - r1.2
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IanHolmes
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// Via Main.LarsBarquist: // 2008 NSF Science Engineering Visualization Winners: // http://www.nsf.gov/news/special reports/scivis/index.jsp?id win2008 // The honorable mention for interactive media is a site "Exploring Life's Origins" about the RNA World hypothesis, looks pretty neat. // http://www.exploringorigins.org/ // Main.IanHolmes 17 Oct 2008 //
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PageRank
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15 Oct 2008 - 06:54 - r1.3
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IanHolmes
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// The Wikipedia:PageRank for http://biowiki.org/ is up a point, to 5/10 perhaps indicating a recovery from the spam attacks of yesteryear? // Or just that we're getting more links? // Not that I take this all that seriously we could do a lot of things to improve PageRank if we really cared, like minimizing the number of outgoing links per page (see especially the left bar) but it's nice to be nudging up in the Google rankings... // Now, if only the Dow Jones ...
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SingleSpeciesEcosystem
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10 Oct 2008 - 10:47 - r1.3
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IanHolmes
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// Metagenomics reveals anoxic, single-bacterium ecosystem in a gold mine: // http://newscenter.lbl.gov/press-releases/2008/10/09/bold-traveler’s-journey-toward-the-center-of-the-earth/ // via http://news.bbc.co.uk/2/hi/in depth/7663927.stm // Can't find the Science paper yet but here is an anticipatory methods review article with Main.AdamArkin as co-author: // Main.IanHolmes 10 Oct 2008 //
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WebPreferences
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29 Aug 2008 - 21:45 - r1.17
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IanHolmes
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// Web Preferences // The following settings are web preferences of the web. These preferences overwrite the site-level preferences in ., and can be overwritten by user preferences (your personal topic, eg: .TWikiGuest in the web). // Preferences: // Koala skin: // Set SKIN koala // Set NAVBARH // Set NAVBARF // Set NOWEBSBAR // Set WIKILOGOIMG http://biowiki.org/twiki/pub/TWiki/TWikiLogos/BioWikiLogo.png // List of topics of the . web: //
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XMLandScheme
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28 Feb 2008 - 19:18 - r1.6
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IanHolmes
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// XML as a dialect of Scheme: // http://classes.eclab.byu.edu/330/wiki/index.cgi?XMLandScheme // http://okmij.org/ftp/Scheme/xml.html // Main.IanHolmes 29 Feb 2008 //
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SpookCountry
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23 Aug 2007 - 22:58 - r1.15
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IanHolmes
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// William Gibson's new book Spook Country has almost nothing in common with the original proposal, reproduced below. // Publishers Note: In around July 2005 (according to his blog) William // Gibson began writing the novel that became Spook Country and // delivered it 18months later to his publishers. Reproduced below is // William Gibson’s original proposal for this novel // Proposal for a novel by William Gibson //
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WebHome
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18 Jun 2007 - 23:33 - r1.25
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IanHolmes
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// URLPARAM{"search" default ". " } " web "INCLUDINGWEB " } " regex "on" nosearch "on" order "created" reverse "on" limit "" } // // OK, I've stopped trying to bend the wiki into being a blog and am now using this subweb as, uh, a wiki for random one-off observations. // Images are often reposted at biowiki.org home. // Here are the 25 most recent new pages. Main.IanHolmes 04 Jun 2007 // //
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SocialProlog
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02 Apr 2007 - 10:38 - r1.23
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IanHolmes
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// Game Dev // So I had this idea for a game that was a sort of blend of social networking and Prolog 8-) // Sounds weird, I know. // More later (maybe). // In the meantime, here are some links I've been scoping out as background research. // Main.IanHolmes 02 Apr 2007 // Open Source Social Networking Software // Social networking engines // http://elgg.org/ seems quite funky; PHP, "educationally" targeted, has !MediaWiki plugins... //
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WikiGangsign
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25 Mar 2007 - 15:14 - r1.68
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TWikiGuest
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// LTR Struc (PubMed): de novo annotation of LTR retrotransposons // Random links: fake eggs... script.aculo.us demos... the wiki gangsign // RNA logic (Breaker et al ); binding site evolution (Laessig et al ) // #CommentsSection // Comments // ... no changes ... no changes ... no changes ... no changes ... no changes ... no changes ... no changes ... no changes ... no changes ... no changes ... no changes ... // Main.TWikiGuest 09 Jul 2006 14:57:47 // .. ...
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WebCriticLinks
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17 Feb 2007 - 22:56 - r1.79
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IanHolmes
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// ImmuneActivation // WikisForSpooks // WarGamesAndHoneyBees // BombesAndBombBees // ChromatinsCodeAndCarlsonCurves // SwearAtTheMachine // WikiGangsign // InsectCyborgs // WhereInTheWorldIsPhilipKDick // TheThirdWay // FightingAndroids // GuardLlamas // TrackingDollarBills // DeletionMaps //
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WikisForSpooks
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03 Feb 2007 - 02:31 - r1.48
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TWikiGuest
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// Games, scifi, fun // Working jetpack! (more like paragliding than the classic Speccy game, though) // More retro game walkthrus on Youtube: Skool Daze (yet more here) // A history of computer RPGs; Mark Hurst's list of free games // Video game workout links: exercise bike workstation; Tetris weightlifting // Rudy Rucker's Flurb zine; wasting the Prince of Darkness at Microsoft // Christmas: the time of year for pardoning witches and praying to hacker gods ...
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WhereInTheWorldIsPhilipKDick
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16 Dec 2006 - 02:18 - r1.24
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TWikiGuest
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// Main.WebCritic on 17 Feb 2006: Blog. (view comments) // Prizes: Michael Ashburner wins Ben Franklin... GE essay on molecular motors // Gene circuits: evolution of body plans... negative feedback and spectral shifts... comparing networks // RNA: programmed recoding and degradation... modifications and folding... IRESes in L1 elements // Sequence analysis and the human meta-genome (aka gut flora...) // Mammalian evolution: Z-DNA and deletions... duplicate genes ...
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YamBlogLinks
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01 Oct 2006 - 20:18 - r1.12
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TWikiGuest
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// YamBlog200648100206 // YamBlog203607092406 // YamBlog222319080606 // YamBlog080628071206 // YamBlog152840030305 // YamBlog010744030305 // RenamedFifthEntry // YamBlog010645030305 // YamBlog010630030305 // YamBlog010614030305 // YamBlog010419030305 //
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SharRotationBlog153642021806
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17 Feb 2006 - 16:17 - r1.4
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SharonChao
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// // 2/17/06 // Met with Ian today to talk about the projects. // BOINC: I need to talk to Yuri at some point about applying BOINC to the project he worked on for his summer rotation. // Blog: Looks at Scoop, Slashcode, and maybe Wordpress. We need something that's easy to install and multiuser. // A link to possible blog software // Protein-Coding Gene Training Set: Lior Pactor has an 8 fly and 9 fly database of alignments, the genomes for each, and a file ...
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SharRotationBlog173531021606
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17 Feb 2006 - 15:59 - r1.2
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SharonChao
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// // 2/16/06 // Downloaded Rhodopsin 1 data, which was used in the Bergman paper. This might be a good starting point, although the paper was written in 2002 when there were only 4 species. Also downloaded the drosophila chromosome arm files from Release 4. I got these off of the Berkeley Drosophila Genome Project. // 2/15/06 // Built dart, had a little trouble with getting binutils and coreutils for the mac. Rob suggested downloading Xcode's legacy, which ...
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SharRotationBlogLinks
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17 Feb 2006 - 15:50 - r1.6
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SharonChao
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// SharRotationBlog153642021806 // SharRotationBlog173531021606 // SharRotationBlog145504021406 // SharRotationBlog143303021406 // SharRotationBlog143303021406 // SharRotationBlog160331021106 //
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SharRotationBlogProjIdeas
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10 Feb 2006 - 16:22 - NEW
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SharonChao
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// Rotation Project Ideas // Friday 2/11/06 // After meeting with Ian today, I've got a few rotation project to work on this semester. // 1. Working on protein coding models for xgram and the genome browser. // This involves aligning known protein coding genes with the fruitfly genome to come up with a training dataset. // 2. Distributive computation using BOINK. // Divide the xgram batches into small jobs running as an awesome screensaver. // 3. Finding a suitable ...
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SharRotationBlog160331021106
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10 Feb 2006 - 16:19 - r1.4
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SharonChao
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// Rotation Project Ideas // Friday 2/11/06 // After meeting with Ian today, I've got a few rotation project to work on this semester. // 1. Working on protein coding models for xgram and the genome browser. // This involves aligning known protein coding genes with the fruitfly genome to come up with a training dataset. // 2. Distributive computation using BOINK. // Divide the xgram batches into small jobs running as an awesome screensaver. // 3. Finding a suitable ...
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WebCritic222110121505
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14 Dec 2005 - 22:35 - r1.3
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IanHolmes
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// Main.WebCritic on 15 Dec 2005 // The dog genome: recently published in Nature, discussed in Genome Research // Linux on the Treo 650 wow. Too bad the new Treo uses Windows. But Motorola's linux efforts are promising // Via Science magazine's Netwatch: Phosphosite is a clickable database of protein phosphorylation sites // Also from Science: signaling models and DNA self-assembly //
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WebCritic231501092205
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26 Sep 2005 - 18:41 - r1.15
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IanHolmes
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// Main.WebCritic on 22 Sep 2005 // Ranganathan et al describe, in Nature, how modeling covariation is necessary in order to mimic folds in protein design... // ...but is their Statistical Coupling Analysis just another take on mutual information? // Perhaps something like Bill Bruno's Corind could work just as well? Or some kind of Markov random field? // That said, David Baker's group has designed proteins without modeling covariation, using Rosetta... hmmmm ...
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WebCritic224224042505
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26 Apr 2005 - 08:55 - r1.5
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TWikiGuest
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// Main.WebCritic on 25 Apr 2005 // STEM: Spatiotemporal Epidemiological Modeler // Environmental genomic tags: eco-fingerprinting // Pharmacognostic text-mining for ethnobotany // More MRI mind-reading (but, "you could use it to detect peoples' prejudices" ? Please...) //
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WebCriticFirstEntry
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04 Mar 2005 - 15:56 - r1.6
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TWikiGuest
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// Main.WebCritic on 25 Feb 2005 // Ewan Birney wins 2005 Ben Franklin award // so expect kite-flying lightning talk at BOSC 2005 // Liked the argument sketch at 2005 OpenEye CUP // c2.com's InformalHistoryOfProgrammingIdeas //
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Number of topics: 50
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