Yi Xing's Alternative Splicing and Computational Genomics Blog 2006-08-20T01:31:58Z tag:www.doe-mbi.ucla.edu,2006:/~yxing/AS//2 Movable Type Copyright (c) 2006, yxing Last Post Here 2006-08-20T01:31:58Z 2006-08-18T18:24:00-08:00 tag:www.doe-mbi.ucla.edu,2006:/~yxing/AS//2.175 2006-08-19T02:24:00Z This is my last post on this site. I am moving my blog to a new site. Please follow the link to RNA Bioinformatics.... yxing http://www.doe-mbi.ucla.edu/~yxing yxing@ucla.edu This is my last post on this site. I am moving my blog to a new site. Please follow the link to RNA Bioinformatics.

]]> R/Bioconductor 2006-07-24T10:10:04Z 2006-07-24T02:07:40-08:00 tag:www.doe-mbi.ucla.edu,2006:/~yxing/AS//2.173 2006-07-24T10:07:40Z library(affy) #Fit Li and Wong Model to a Probe Set Description: Fits the model described in Li and Wong (2001) to a probe set with I chips and J probes. fit.li.wong(data.matrix,remove.outliers=TRUE, normal.array.quantile=0.5, normal.resid.quantile=0.9, large.threshold=3, large.variation=0.8, outlier.fraction=0.14, delta=1e-06, maxit=50, outer.maxit=50,verbose=FALSE, ...)... yxing http://www.doe-mbi.ucla.edu/~yxing yxing@ucla.edu library(affy)

#Fit Li and Wong Model to a Probe Set
Description:
Fits the model described in Li and Wong (2001) to a probe set with I chips and J probes.

fit.li.wong(data.matrix,remove.outliers=TRUE, normal.array.quantile=0.5, normal.resid.quantile=0.9, large.threshold=3, large.variation=0.8, outlier.fraction=0.14, delta=1e-06, maxit=50, outer.maxit=50,verbose=FALSE, ...)

]]> Rafael A. Irizarry's Stanford course on Microarray Data Analysis 2006-07-11T01:13:05Z 2006-07-10T17:10:52-08:00 tag:www.doe-mbi.ucla.edu,2006:/~yxing/AS//2.172 2006-07-11T01:10:52Z Rafael Irizarry is teaching a class at Stanford this summer on microarray data analysis. I am auditing it.... yxing http://www.doe-mbi.ucla.edu/~yxing yxing@ucla.edu Rafael Irizarry is teaching a class at Stanford this summer on microarray data analysis. I am auditing it.

]]> RECOMB Systems Biology 2006 2006-07-06T09:15:26Z 2006-07-06T01:14:37-08:00 tag:www.doe-mbi.ucla.edu,2006:/~yxing/AS//2.171 2006-07-06T09:14:37Z Conference Website... yxing http://www.doe-mbi.ucla.edu/~yxing yxing@ucla.edu Conference Website

]]> Detecting exonic splicing elements using comparative genomics 2006-06-24T09:02:38Z 2006-06-24T01:01:34-08:00 tag:www.doe-mbi.ucla.edu,2006:/~yxing/AS//2.170 2006-06-24T09:01:34Z From Gil Ast group. Click here... yxing http://www.doe-mbi.ucla.edu/~yxing yxing@ucla.edu From Gil Ast group. Click here

]]> Mosquito version of DSCAM also has many isoforms 2006-06-20T02:34:15Z 2006-06-19T18:32:27-08:00 tag:www.doe-mbi.ucla.edu,2006:/~yxing/AS//2.169 2006-06-20T02:32:27Z AgDscam, more than 31000 potential isoforms. Interesting.... yxing http://www.doe-mbi.ucla.edu/~yxing yxing@ucla.edu AgDscam, more than 31000 potential isoforms. Interesting.

]]> Our new review on alternative splicing 2006-06-16T10:59:24Z 2006-06-07T18:16:24-08:00 tag:www.doe-mbi.ucla.edu,2006:/~yxing/AS//2.168 2006-06-08T02:16:24Z Alternative splicing and RNA selection pressure: evolutionary consequences for eukaryotic genomes. 2006, Xing, Y., Lee, C. Nature Reviews Genetics, in press. The review is online. Click here Update: the entire July issue of NRG is online. So please get our... yxing http://www.doe-mbi.ucla.edu/~yxing yxing@ucla.edu Alternative splicing and RNA selection pressure: evolutionary consequences for eukaryotic genomes.
2006, Xing, Y., Lee, C. Nature Reviews Genetics, in press.

The review is online. Click here

Update: the entire July issue of NRG is online. So please get our review from here.

]]> more on motif findings 2006-06-08T02:15:11Z 2006-06-07T18:03:47-08:00 tag:www.doe-mbi.ucla.edu,2006:/~yxing/AS//2.167 2006-06-08T02:03:47Z Qing Zhou's PhD dissertation. Very good materials for learning more about motif findings.... yxing http://www.doe-mbi.ucla.edu/~yxing yxing@ucla.edu Qing Zhou's PhD dissertation. Very good materials for learning more about motif findings.

]]> See our recent NAR paper on probabilistic isoform inference 2006-06-06T22:59:50Z 2006-06-06T14:58:35-08:00 tag:www.doe-mbi.ucla.edu,2006:/~yxing/AS//2.166 2006-06-06T22:58:35Z Click here... yxing http://www.doe-mbi.ucla.edu/~yxing yxing@ucla.edu Click here

]]> Copy editing symbols 2006-06-02T06:34:42Z 2006-06-01T22:34:04-08:00 tag:www.doe-mbi.ucla.edu,2006:/~yxing/AS//2.165 2006-06-02T06:34:04Z Click here... yxing http://www.doe-mbi.ucla.edu/~yxing yxing@ucla.edu Click here

]]> SAM 2006-05-31T07:34:18Z 2006-05-30T23:33:48-08:00 tag:www.doe-mbi.ucla.edu,2006:/~yxing/AS//2.164 2006-05-31T07:33:48Z SAM Web Site... yxing http://www.doe-mbi.ucla.edu/~yxing yxing@ucla.edu SAM Web Site

]]> Jun Liu's Publications 2006-05-30T17:08:01Z 2006-05-30T09:06:59-08:00 tag:www.doe-mbi.ucla.edu,2006:/~yxing/AS//2.163 2006-05-30T17:06:59Z Click here... yxing http://www.doe-mbi.ucla.edu/~yxing yxing@ucla.edu Click here

]]> Online Supplement to the Probabilistic Isoform Method Paper 2006-05-16T19:03:42Z 2006-05-16T02:23:59-08:00 tag:www.doe-mbi.ucla.edu,2006:/~yxing/AS//2.162 2006-05-16T10:23:59Z Click here It turns out that UC is not a NAR Open Access institutional member this year. So we'll have to pay the 1900$ Open Access fee. Ouch...... yxing http://www.doe-mbi.ucla.edu/~yxing yxing@ucla.edu Click here

It turns out that UC is not a NAR Open Access institutional member this year. So we'll have to pay the 1900$ Open Access fee. Ouch...

]]> dChip User Manual 2006-05-11T08:40:03Z 2006-05-11T00:39:11-08:00 tag:www.doe-mbi.ucla.edu,2006:/~yxing/AS//2.161 2006-05-11T08:39:11Z Click Here... yxing http://www.doe-mbi.ucla.edu/~yxing yxing@ucla.edu Click Here

]]> RECOMB 2006 Comparative Genomics 2006-05-11T08:22:50Z 2006-05-11T00:21:20-08:00 tag:www.doe-mbi.ucla.edu,2006:/~yxing/AS//2.160 2006-05-11T08:21:20Z Sept 2006, Montreal, Canada. Click here... yxing http://www.doe-mbi.ucla.edu/~yxing yxing@ucla.edu Sept 2006, Montreal, Canada.
Click here

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