posts aggrigation for "The biology of genomes" (2)
-
- いいね！0
Luke Jostins-Dean
@lukejostins
Roger Pique-Regi is talking about differential chromatin accessibility. Man, DNase1 is pretty popular these days #BG2011
2011-05-13 23:04:23
National Human Genome Research Institute
@genome_gov
RPR: Used 70 Yoruba cell lines, 44M reads per sample, 1000 Genomes data, RNA-seq data , ENCODE data #bg2011
2011-05-13 23:04:55
Michael Hoffman @michaelhoffman.bsky.social
@michaelhoffman
#bg2011 RP: Try to find genotypes within 2 kbp that explain differences in DNase-seq
2011-05-13 23:04:59
The Assemblathon
@assemblathon
#bg2011 RP: Try to find genotypes that explain differences in chromatin accessibility
2011-05-13 23:05:11
Luke Jostins-Dean
@lukejostins
RP-R: Take 70 HapMap individuals, measure DNase1 peaks in 100bp windows, look for chromatin accessibility SNPs (caQTLs) #BG2011
2011-05-13 23:06:45
Daniel MacArthur
@dgmacarthur
RP: finds 3,000 SNPs that affect chromatin accessibility; many of them disrupt transcription factor binding motif #bg2011
2011-05-13 23:06:54
Luke Ward
@Luke__Ward
RP: chromatin-modifying QTLs tend to be within the DNAse ftprnt and alter motifs #bg2011
2011-05-13 23:07:55
National Human Genome Research Institute
@genome_gov
RPR: looking for DNA variation that affects DNase-seq/chromatin accessibility #bg2011
2011-05-13 23:08:02
Orli Bahcall
@obahcall
Population genetics session has been exciting if tweet quiet. #bg2011
2011-05-13 23:08:56
Luke Ward
@Luke__Ward
RP: allele specific activity at caQTLs is detectable at hets #bg2011
2011-05-13 23:09:27
Orli Bahcall
@obahcall
First tweetable talk of the session by Roger Pique-Regi on SNPs affecting chromatin accessibility and expression. #bg2011
2011-05-13 23:09:52
The Assemblathon
@assemblathon
#bg2011 RP: QTLs for chromatin accessibility are also QTLs for gene expression (using RNA-seq data)
2011-05-13 23:10:35
Daniel MacArthur
@dgmacarthur
RP: many SNPs altering chromatin state also affect the expression of nearby genes (jargon: caQTLs are also eQTLs) #bg2011
2011-05-13 23:11:05
Ethan Perlstein
@eperlste
The age of the Tweetable science talk is upon us. Hallelujah! #bg2011
2011-05-13 23:11:07
Luke Ward
@Luke__Ward
RP: caQTLs discovered via genotype~DNAse then turn out to be eQTLs by genotype~RNASeq #bg2011
2011-05-13 23:11:13
Michael Hoffman @michaelhoffman.bsky.social
@michaelhoffman
#bg2011 RP: proposes "caQTL" = chromatin accessibility QTL. 20% of caQTLs are also eQTLs with q < 0.1
2011-05-13 23:11:41
Daniel MacArthur
@dgmacarthur
Key message from the meeting so far: we are assigning function to non-coding variation at an astonishing rate. #bg2011
2011-05-13 23:13:22
Michael Hoffman @michaelhoffman.bsky.social
@michaelhoffman
#bg2011 RP: Model for predicting whether a caQTL is an eQTL. Biggest + factors: inside transcript, correlation btw open chromatin, gene expr
2011-05-13 23:14:11
Devora Cohen-Karni
@DevoraCK
#bg2011 RP: exploring the regulatory architecture of eQTL and caQTL relationship
2011-05-13 23:14:16
Orli Bahcall
@obahcall
RP: ~20% of chromatin accessibility caQTLs are also eQTLs, and many for more than one gene. #bg2011.
2011-05-13 23:14:21
Michael Hoffman @michaelhoffman.bsky.social
@michaelhoffman
#bg2011 RP: biggest - factor: CTCF element between caQTL and gene
2011-05-13 23:14:30
Luke Ward
@Luke__Ward
RP: furthermore then P(eQTL|caQTL) can be explored in different contexts (conserv,CTCF between snp and promoter,etc) #bg2011
2011-05-13 23:15:10
National Human Genome Research Institute
@genome_gov
RPR: chromatin accessibility QTLs (caQTLs) are also eQTLs #bg2011
2011-05-13 23:16:04
Keith Bradnam 📈
@kbradnam
The next speaker today at the #bg2011 conference will be a fellow #ucdavis scientist Graham Coop (lab page: http://t.co/Ofw0w0z)
2011-05-13 23:16:16
Michael Hoffman @michaelhoffman.bsky.social
@michaelhoffman
#bg2011 To clarify: that is the biggest NEGATIVE factor
2011-05-13 23:16:22