Question

: Chromosome plotting/geneplotter

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Anthony Bosco ▴ 500

@anthony-bosco-517

Last seen 10.2 years ago

Hi. I am interested in plotting the chromosomal location of linkage markers identified in genome screens of complex diseases with differentially expressed genes that I have identified in microarray experiments. Also is it possible to label chromsome plots with centromere locations, gene symbols, p and q regions of chromosome etc. Regards Anthony -- ______________________________________________ Anthony Bosco - PhD Student Institute for Child Health Research (Company Limited by Guarantee ACN 009 278 755) Subiaco, Western Australia, 6008 Ph 61 8 9489 , Fax 61 8 9489 7700 email anthonyb@ichr.uwa.edu.au

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ADD COMMENT • link updated 20.5 years ago by Sean Davis 21k • written 20.5 years ago by Anthony Bosco ▴ 500

score 0 · Answer 1 · 2004-05-25

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Sean Davis 21k

@sean-davis-490

Last seen 3 months ago

United States

Anthony, I haven't tried it yet, but in the may 1, 2004 bioinformatics is discussion of an R package called ChromoViz which looks like a possible solution to many of these "location" plotting issues. Sean On 5/25/04 5:28 AM, "Anthony Bosco" <anthonyb@ichr.uwa.edu.au> wrote: > Hi. > > I am interested in plotting the chromosomal location of linkage > markers identified in genome screens of complex diseases with > differentially expressed genes that I have identified in microarray > experiments. > > Also is it possible to label chromsome plots with centromere > locations, gene symbols, p and q regions of chromosome etc. > > > Regards > > > Anthony

ADD COMMENT • link 20.5 years ago Sean Davis 21k

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-----BEGIN PGP SIGNED MESSAGE----- Hash: SHA1 Dear Anthony, Sean, for the combined visualisation of expression data with QTLs/markers please have a look at this paper Gertrud Fischer, Saleh M. Ibrahim, Gudrun A. Brockmann, Jens Pahnke, Ezio Bartocci, Hans-J?rgen Thiesen, Pablo Serrano-Fern?ndez, Steffen M?ller "Expressionview: Visualization of Quantitative Trait Loci and Gene Expression Data in EnsEMBL." Genome Biology 4(11):R77 (2003) http://genomebiology.com/2003/4/11/R77?mkt=4103 and the associated URLs http://ensembl.pzr.uni-rostock.de/Mus_musculus/expressionview http://ensembl.pzr.uni-rostock.de/Homo_sapiens/expressionview http://ensembl.pzr.uni-rostock.de/Rattus_norvegicus/expressionview Please contact me with any problems that occur using the web interface. Regards, Steffen - -- Steffen M?ller, PhD steffen dot moeller at med.uni-rostock.de T: +49 381 494 5885 -----BEGIN PGP SIGNATURE----- Version: GnuPG v1.2.4 (GNU/Linux) iD8DBQFAszPJ1gXdnL6dUzkRAiPZAJwMboTsek7QXHVmLuNn2O+R/dTQFwCfWvJv O/Fr65w19+0CKFk1x0h2zr8= =H5vm -----END PGP SIGNATURE-----

ADD REPLY • link 20.5 years ago SteffenMöller ▴ 30