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Series GSE57485 Query DataSets for GSE57485
Status Public on Jul 10, 2014
Title Comparing Reference-Based RNA-Seq Mapping Methods for Non-Human Primate Data
Organism Papio cynocephalus
Experiment type Expression profiling by high throughput sequencing
Summary We present a comparison of four reference-based mapping methods for mapping non-human primate data to a human reference sequence. We utilize TopHat2 and GSNAP for mapping to the human genome, and Bowtie2 and Stampy for mapping to the human genome and transcriptome for a total of six mapping approaches
 
Overall design Comparison of reference-based mapping methods for 12 yellow baboons
 
Contributor(s) Benjamin AM
Citation(s) 25001289
Submission date May 08, 2014
Last update date May 15, 2019
Contact name Geoffrey S Ginsburg
Organization name Duke University
Department Clinical Genomics Studies Unit
Street address 101 Science Drive
City Durham
State/province NC
ZIP/Postal code 27708
Country USA
 
Platforms (1)
GPL18669 Illumina HiSeq 2000 (Papio cynocephalus)
Samples (12)
GSM1383655 Participant 1, Baseline
GSM1383656 Participant 2, Baseline
GSM1383657 Participant 3, Baseline
Relations
BioProject PRJNA246538
SRA SRP041821

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
GSE57485_bowtie2G_trans_counts_baseline.txt.gz 404.8 Kb (ftp)(http) TXT
GSE57485_bowtie2_trans_counts_baseline.txt.gz 499.0 Kb (ftp)(http) TXT
GSE57485_gsnap_trans_counts_baseline.txt.gz 378.4 Kb (ftp)(http) TXT
GSE57485_stampyG_trans_counts_baseline.txt.gz 432.7 Kb (ftp)(http) TXT
GSE57485_stampy_trans_counts_baseline.txt.gz 560.0 Kb (ftp)(http) TXT
GSE57485_tophat_trans_counts_baseline.txt.gz 425.9 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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