Alignments:  alignment files (and index files) of RNA-Seq read alignment of 24 tissues and cell types to Hg19 using Tophat. To download files use the link below. Alignments can be easily viewed using the Integrative Genomics Viewer (IGV).  Note that it is not necessary to download the alignments to view them in IGV. Alignments can be viewed on IGV by selecting Hg19 and File -> load from server -> Body Map2 (Illumina HiSeq). We advice you to upload only a few read files at once to avoid overload. 

Alignments files are available to download from the Broad Institute FTP site. 
User name: humanLincs
Password: humanLincs1