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Sample GSM2323293 Query DataSets for GSM2323293
Status Public on Dec 31, 2017
Title Scale dermis E9, rep1
Sample type SRA
 
Source name tarsometatarsal skin, E9
Organism Gallus gallus
Characteristics breed: White Leghorn
tissue: tarsometatarsal skin
developmental stage: H&H 35 (E9)
Treatment protocol Untreated
Growth protocol Fertilized eggs.
Extracted molecule total RNA
Extraction protocol Dissected tissue was extracted in Trizol reagent.
Libraries were prepared using Illumina TruSeq RNA Sample Preparation V2.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Data processing Prealignment QA/QC, adaptor sequence trimming, alignment of reads (TOPHAT 2, UCSC galGal4), and postalignment QA/QC were done in Partek Flow.
HTSeq-count was used for quantification.
TMM in edgeR was used for normalization.
Genome_build: galGal4 (Gallus_gallus-4.0)
Supplementary_files_format_and_content: Feather-scale_CPM_E7-E11.xlsx: Tab-delimited text file includes CPM value for each sample.
 
Submission date Sep 20, 2016
Last update date May 15, 2019
Contact name Ping Wu
E-mail(s) pingwu@usc.edu
Phone 6264979629
Organization name University of Southern California
Department Pathology
Street address 2011 Zonal Ave HMR313A
City Los Angeles
State/province CA
ZIP/Postal code 90033
Country USA
 
Platform ID GPL16133
Series (2)
GSE87139 Chicken embryonic feather and scale samples
GSE87250 Multiple regulatory modules are required for scale-to-feather conversion
Relations
BioSample SAMN05791704
SRA SRX2180307

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data is available on Series record

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