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| Status |
Public on Dec 31, 2017 |
| Title |
Feather dermis dorsal E7, rep2 |
| Sample type |
SRA |
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| Source name |
dorsal skin, E7
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| Organism |
Gallus gallus |
| Characteristics |
breed: White Leghorn
tissue: dorsal skin
developmental stage: H&H 31 (E7)
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| Treatment protocol |
Untreated
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| Growth protocol |
Fertilized eggs.
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| Extracted molecule |
total RNA |
| Extraction protocol |
Dissected tissue was extracted in Trizol reagent.
Libraries were prepared using Illumina TruSeq RNA Sample Preparation V2.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
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| 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.
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| Submission date |
Sep 20, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Ping Wu |
| E-mail(s) |
pingwu@usc.edu
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| Phone |
6264979629
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| Organization name |
University of Southern California
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| Department |
Pathology
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| Street address |
2011 Zonal Ave HMR313A
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| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90033 |
| Country |
USA |
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| Platform ID |
GPL16133 |
| Series (2) |
| GSE87139 |
Chicken embryonic feather and scale samples |
| GSE87250 |
Multiple regulatory modules are required for scale-to-feather conversion |
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| Relations |
| BioSample |
SAMN05791695 |
| SRA |
SRX2180300 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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