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Series GSE55601 Query DataSets for GSE55601
Status Public on Mar 06, 2014
Title Comparative Genomic Hybridization (CGH) reveals sex chromosome location and gene movement in stalk-eyed flies (family Diopsidae)
Organism Teleopsis dalmanni
Experiment type Genome binding/occupancy profiling by array
Summary We utilized Comparative Genomic Hybridization (CGH), using probes designed from de novo assembly of 10 tissues into a grand transcriptome to identify genes located on the X and Y chromosomes of a stalk-eyed fly, Teleopsis dalmanni.
We use next generation sequencing of RNA to identify over 500 genes that are differentially expressed in the testes due to the effects of a driving X chromosome (XSR) in T. dalmanni. Most of these genes were X-linked, evolving more rapidly than control genes, and exhibit elevated expression in the gonads. Finally, XSR has become genetically differentiated from standard X chromosomes – using the RNA sequence data, we found nearly 1000 sites in X-linked genes and only a handful in autosomal genes where there was a fixed nucleotide difference. We conclude that XSR has led to widespread sequence and expression divergence on the X chromosome in T. dalmanni.
 
Overall design Two-condition experiment, female vs. male DNA, for one species with 4 biological replicates
 
Contributor(s) Reinhardt JA, Baker RH, Wilkinson GS
Citation(s) 24832132
Submission date Mar 05, 2014
Last update date Oct 31, 2014
Contact name Gerald S Wilkinson
E-mail(s) wilkinso@umd.edu
Phone 301-405-6942
Organization name University of Maryland
Department Biology
Lab Wilkinson
Street address Bldg 144, Field House Dr
City College Park
State/province MD
ZIP/Postal code 20742
Country USA
 
Platforms (1)
GPL18369 Agilent-037314 Teleopsis dalmanni CGH (CGH_II_PG1_037314_D_20111107.gal)
Samples (4)
GSM1340059 TD MF 180K-CGH replicate 1
GSM1340060 TD MF 180K-CGH replicate 2
GSM1340061 TD MF 180K-CGH replicate 3
Relations
BioProject PRJNA240208

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE55601_RAW.tar 180.8 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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