Hi All again,

A separate point about the analysis of cufflinks data is the subject of the 
Pseudo Autosomal Regions in X and Y - this will make a mess of gene expression 
analysis in some cases especially because tophat will assign a read to both 
places which therefore makes it a multihit read (which you might then filter 
out) or it may double the true levels of reported expression. Anyone had 
experience/thoughts on this?

Best Wishes,
David.

__________________________________
Dr David A. Matthews

Senior Lecturer in Virology
Room E49
Department of Cellular and Molecular Medicine,
School of Medical Sciences
University Walk,
University of Bristol
Bristol.
BS8 1TD
U.K.

Tel. +44 117 3312058
Fax. +44 117 3312091

d.a.matth...@bristol.ac.uk






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