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Human Protein Atlas - http://www.proteinatlas.org/
Daniel Mietchen, A Roy and Neil Saunders liked this
"The human protein atlas shows expression and localization of proteins in a large variety of normal human tissues, cancer cells and cell lines with the aid of immunohistochemistry (IHC) images and immunofluorescence (IF) confocal microscopy images."
- Michael Kuhn
eQTL Special Session: Ritsert Jansen, Genetical Genomics: Defining gene and QTL networks
162 Arabidopsis recombinant inbred lines
- Michael Kuhn
look at genome and epigenome variation
- Michael Kuhn
get information from: phenome, metabolome, proteome, transcriptome, genome; can do QTL analyses from the different levels
- Michael Kuhn
eQTL^DNA networks: how does gene expression correlate with certain genome variations? Keurentjes PNAS 2006
- Michael Kuhn
Which genes are highly correlated with regualted genes? E.g. GI gene has the highest correlation with the majority of the other genes that map to the region [???] --> prioritize potential regulators
- Michael Kuhn
mQTL^DNA; look at partial correlation between metabolites. Fu, Nat Prot 2007
- Michael Kuhn
xQTL^DNA: Jansen, Curr Opinion Plant Bio 2009
- Michael Kuhn
look across the different QTL levels for correlations on the genome. I.e. look for related phenotypes / metabolites / proteins / transcripts
- Michael Kuhn
like to come up with a causal QTL network
- Michael Kuhn
pleiotropic: T1 = Q + e1 ; T2 = Q + e2. e == error terms, T = trait, Q = input
- Michael Kuhn
causal: T1 = Q + e1 ; T2 = T1 + e2
- Michael Kuhn
error term: biological variation, not measurement error!
- Michael Kuhn
most relations are pleiotropic, only very few are causal. thus Bayesian calculation to identify causal relations will mainly give false positives
- Michael Kuhn
need pretty high population size number of causal QTL analysis
- Michael Kuhn
i.e. probably won't find causal relations with the 162 Arabidopsis data set
- Michael Kuhn
system-wide genetical genomics: many traits are regulated by just a few hotspots, six major fragilities
- Michael Kuhn
epigenome level: Johannes, Nat Rev Genet 2008
- Michael Kuhn
flowering time: 26% of variation caused by epigenetics, plant height: 32% ... but not sure if this is true
- Michael Kuhn
[more coverage on this talk: http://friendfeed.com/ismbecc... ]
- Michael Kuhn
China bans gold farming, real-world sale of virtual goods - http://english.mofcom.gov.cn/aarticl...
creativecommons: CC BY-SA update completed on all Wikimedia sites http://blog.wikimedia.org/2009...
Graham Steel liked this
timbray: Eeek, @gruber thinks Adobe's heading down the drain. Perhaps they could spin off Lightroom first, please? http://daringfireball.net/linked...
Apparently live-blogging at ISMB is so popular that FriendFeed banned our IP address (via http://friendfeed.com/ismbecc...)
David G. Pisano, Benjamin Good, Jean-Claude Bradley and 12 other people liked this
DM Brett or one of the other FF staff. They're usually helpful and I'm sure happy about the usage once they know what's going on.
- Neil Saunders
Could have been anticipated. I guess next year in Boston it is going to be Google Wave anyway.
- Daniel Jurczak
wow :)
- Pedro Beltrao
Excellent. Well, sort of.
- Michael Nielsen
Well I guess that answers the concern that without some of last year's ring leaders it wouldn't take off huh?
- Cameron Neylon
BBC Magazine: Giving up my iPod for a Walkman - http://news.bbc.co.uk/2...
"When the Sony Walkman was launched, 30 years ago this week, it started a revolution in portable music. But how does it compare with its digital successors? The Magazine invited 13-year-old Scott Campbell to swap his iPod for a Walkman for a week."
- Michael Kuhn
via Bookmarklet
Operation Pancake: Undercover investigation of LA vegan restaurants | vegan food and living in Los Angeles - http://www.quarrygirl.com/2009...
Science, followed by an investigation of the causes of non-vegan "contaminants"
- Michael Kuhn
via Bookmarklet
FriendFeed now has the Comment box at the bottom, and it auto-focuses after you post. Makes for nicer live-blogging than one year ago.
Michael Nielsen and Richard Akerman liked this
I can't compete with @allysonlister in typing quotes from the slides. more power to you. :)
Simon Cockell, Daniel Swan, Allyson Lister and 4 other people liked this
@allysonlister on past performance, Ally will cover all of ISMB single-handed :-)
- Neil Saunders
I don't even see why anyone bothers putting up the slides afterwards, Allyson's notes are all you need :-D
- Benjamin Tseng
@allysonlister Go Robo-Blogger Go!
- Duncan Hull
Awww shucks :) I'm definitely blushing now! Thanks guys... And @Michael - don't stop! Different perspectives are the best part of synchronised liveblogging I think! Just look at the FF thread for today's keynote! http://ff.im/4yWcl
- Allyson Lister
http://twitpic.com/8qopm - ...and we're live with the FriendFeed / ISMB integration
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Cameron Neylon and Neil Saunders liked this
I still wonder how many people are going to join the blogging at #ismb, as we're missing many of the core group from last year
Will be very interesting to watch. If there is any decent level of blogging/twittering, then it means that it's not just us.
- Deepak Singh
at least u have an audience with so many not there... btw, I'll groupy on Monday... time for a outside science blogging unconference?
- Egon Willighagen
I am curious as well... I am stuck with exams right in the middle of the ISMB, too bad..
- Daniel Jurczak
@Egon: Have you seen the discussion of a meeting Mon night? Is that fine w/ you? http://friendfeed.com/ismbecc...
- Michael Kuhn
Deepak, who's "us"?
- Ruchira S. Datta
us = the usual suspects. Folks active on Friendfeed etc
- Deepak Singh
yes, would love to, but got to get back home... I'll groupy around the #ismb registration desk during the day...
- Egon Willighagen
I will not have internet, so email me offline before tomorrow 7:00am and we can exchange SMS numbers if you want to meet...
- Egon Willighagen
So far coverage is a bit iffy. Much easier with multiple people covering the same talk -- the amount of parallel tracks is not going to help.
- Oliver Hofmann
tomorrow the number of attendants will increase, but also the number of sessions... Reinhard Schneider told me that they're going to announce it at the beginning (as opposed to last year, where it was at the end :) -- I guess we have to hope for the best that many people join.
- Michael Kuhn
other people are blogging as well, but it might be hard to find their blogs. This one I noticed with a twitter search for ISMB: http://ardalby2.blogspot.com/
- Michael Kuhn
RT @lille_stjerne http://www.wordnik.com/ee/ When you look up a word you get: definition, usage statistics, twitter feeds and flickr pictures.
I hate it when upon entering a hotel room, all the lights and the TV go on.
In a hotel room in Vienna when I came in the TV was on and the screen showed something like "Welcome Richard Akerman". Kinda freaked me out.
- Richard Akerman
same here in Stockholm... but I figured I just gave them my name at the front desk, so they should know it :)
- Michael Kuhn
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