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Series GSE136631 Query DataSets for GSE136631
Status Public on Aug 30, 2019
Title Histone concentration times the cell cycle and transcription in early development.
Organism Drosophila melanogaster
Experiment type Expression profiling by high throughput sequencing
Summary This study measures transcriptomic differences due to overexpression (via Slbp RNAi) or knockdown (via abo mutation) of histones in precisely staged Drosophila melanogaster embryos spanning the maternal to zygotic transition.
 
Overall design This study was conducted as 3 different RNA-seq experiments; a) Slbp v/s WT single embryo broad timecourse comparison b) abo v/s WT single time point pooled embryo comparison and c) abo v/s WT single embryo timecourse comparison For Slbp (single embryo) comparison: 5 replicates each of Slbp and WT pre-nuclear cycle (NC) 9 embryos; 4 replicates of Slbp and 6 replicates of WT NC13; 5 replicates of WT NC14 embryos. Slbp NC13 Replicates 1 and 2 and WT NC13 Replicate 1 were also sequenced multiple times i.e. technical replicates. For abo single time-point (40 pooled embryo) comparison: 3 replicates each of abo and WT at NC14. For abo timcourse (single embryo) comparison: 2 replicates of abo unfertilized (NC0) and 3 replicates of WT NC0; 3 replicates each of abo and WT at NC10, NC11, NC12, NC13 and NC14. The abo time course libraries were sequenced over 4 lanes in 2 different in different batches to get the necessary read depth i.e. technical replicates.
 
Contributor(s) Chari S, Amodeo AA
Citation(s) 31511251
Submission date Aug 29, 2019
Last update date Jan 12, 2020
Contact name Amanda Amodeo
E-mail(s) aamodeo@princeton.edu
Phone 6092589406
Organization name Princeton University
Department Lewis-Sigler Institute for Integrative Genomics
Street address Carl Ichan Laboratory, Washington Rd
City Princeton
State/province NJ
ZIP/Postal code 08544
Country USA
 
Platforms (1)
GPL17275 Illumina HiSeq 2500 (Drosophila melanogaster)
Samples (175)
GSM4053413 SLBP_Pre9_R1_B2
GSM4053414 SLBP_Pre9_R2_B2
GSM4053415 SLBP_Pre9_R3_B2
Relations
BioProject PRJNA562896
SRA SRP219644

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
GSE136631_RAW.tar 67.0 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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