NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE60571 Query DataSets for GSE60571
Status Public on Mar 26, 2015
Title RNA-Seq of female, male, and sex-transformed Drosophila melanogaster heads from flies heterozygous for deletions on chromosome X and 3L
Organism Drosophila melanogaster
Experiment type Expression profiling by high throughput sequencing
Summary To measure the response to gene dose, we performed mRNA-Seq of fly heads with molecularly defined deletions constructed from DrosDel deficiency lines (Ryder et al. Genetics 2007, 177(1):615-29) on the Illumina HiSeq 2000 platform.
 
Overall design We performed single-end next-generation sequencing (RNA-Seq) on poly-A+ RNA extracted from adult female and male heads in biological triplicate. Besides wildtype females (XX) and males (XY) that were heterozygous for deletions, we also sequenced females that were transformed into males (XX males) by using mutations in the sex determination gene transformer-2 (tra2). The original lines with deletions, including 22 deletions on the chromosome X and 12 deletions on the chromosome 3L, were from the DrosDel project. The diploid controls without DrosDel deletions were derived from w1118 (the parental line of DrosDel stocks) or Oregon-R Strain. We sequenced a total of 249 samples.
 
Contributor(s) Chen Z, Oliver B
Citation(s) 25850426, 29242386
Submission date Aug 20, 2014
Last update date Aug 13, 2019
Contact name Brian Oliver
E-mail(s) briano@nih.gov
Phone 301-204-9463
Organization name NIDDK, NIH
Department LBG
Lab Developmental Genomics
Street address 50 South Drive
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platforms (1)
GPL13304 Illumina HiSeq 2000 (Drosophila melanogaster)
Samples (249)
GSM1482491 Df(1)ED6957_F_Df(1)/w1118_rep_1 [Sample_100101]
GSM1482492 Df(1)ED6957_F_Df(1)/w1118_rep_2 [Sample_100102]
GSM1482493 Df(1)ED6957_F_Df(1)/w1118_rep_3 [Sample_100103]
Relations
BioProject PRJNA258556
SRA SRP045640

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
GSE60571_DESeq2_normalized_read_counts_gene_235.txt.gz 20.4 Mb (ftp)(http) TXT
GSE60571_DESeq2_normalized_read_counts_gene_249.txt.gz 21.7 Mb (ftp)(http) TXT
GSE60571_HTSeq_raw_read_counts_gene_ERCC_235.txt.gz 3.9 Mb (ftp)(http) TXT
GSE60571_HTSeq_raw_read_counts_gene_ERCC_249.txt.gz 4.2 Mb (ftp)(http) TXT
GSE60571_cufflinks_fpkm_gene_235.txt.gz 10.0 Mb (ftp)(http) TXT
GSE60571_cufflinks_fpkm_gene_ERCC_249.txt.gz 10.6 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Processed data are available on Series record
Raw data are available in SRA
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap