[Genome] Human fetal brain exon array track

[Nenad Sestan]

To whom it may concern,

My name is Nenad Sestan and I’m an assistant professor of Neurobiology 
at Yale School of Medicine. My lab has recently generated a large amount 
of data on gene expression in the developing (fetal) human brain using 
Affymetrix Exon Arrays, and we are planning to submit a manuscript 
shortly to Cell as a resource paper, describing this and related data 
and providing it as a public resource for the research community. We 
feel that this data set is an invaluable resource for many reasons, not 
least of which is the current paucity of published genome-wide 
expression data from developing human or other primate brain. In 
addition, as you know, the Exon Array platform provides unparalleled 
resolution in its coverage of the genome; the prevalence and importance 
of alternative splicing and other fine transcriptional regulation in the 
brain is of great interest to a wide audience of researchers, and the 
Exon Array provides a platform for probing that fine resolution. Our 
data would be complementary to the existing Affy All Exon track that 
contains expression data from other, adult tissues. Finally, and most 
importantly, we have sampled the developing human brain with 
unprecedented spatial resolution, covering not only major brain 
structures but also ten distinct areas of cerebral cortex. Thus, these 
data provide the first comprehensive look at the regional transcriptome 
of the fetal human brain, and we feel that they will be of great 
interest to a wide audience of neurobiologists, human geneticists, and 
many others.

Because of the large size of the data set (over 100 arrays from 17 
regions of four late mid-fetal human brains) and the microarray format 
of the track, we hope you would be willing to host this track on the 
genome browser site. We would like to use the microarray (BED 15) 
format, exactly like the Affy All Exon track, to which our data are 
directly comparable. We have formatted a sample track using a subset of 
the data; a link is included below, and matching microarray.ra and 
trackDb settings are attached to this email. Thank you for your time and 
attention, and please let me know if there is any other information you 
need to help you make your decision.

Best wishes,
Nenad Sestan

Sestan lab BED15 sample 
<http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg18&position=chr1:1004629-1100379&hgt.customText=http://pantheon.yale.edu/%7Embj7/SestanBED15test.txt>

(http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg18&position=chr1:1004629-1100379&hgt.customText=http://pantheon.yale.edu/~mbj7/SestanBED15test.txt)

-- 
**********************************
Nenad Sestan, MD, PhD
Assistant Professor
Department of Neurobiology
Yale University School of Medicine
333 Cedar Street, SHM C323-C
New Haven, CT 06510

for U.S. postal service:
P.O. Box 208001
New Haven, CT  06520-8001 


Office: (203) 737-2190
Lab: (203) 737-1435
Fax: (203) 785-5263
E-mail: nenad.sestan at yale.edu
Lab website: www.sestanlab.org
**********************************


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