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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
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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
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Overall design |
Comparison of reference-based mapping methods for 12 yellow baboons
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Contributor(s) |
Benjamin AM |
Citation(s) |
25001289 |
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Submission date |
May 08, 2014 |
Last update date |
May 15, 2019 |
Contact name |
Geoffrey S Ginsburg |
Organization name |
Duke University
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Department |
Clinical Genomics Studies Unit
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Street address |
101 Science Drive
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City |
Durham |
State/province |
NC |
ZIP/Postal code |
27708 |
Country |
USA |
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Platforms (1) |
GPL18669 |
Illumina HiSeq 2000 (Papio cynocephalus) |
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Samples (12)
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Relations |
BioProject |
PRJNA246538 |
SRA |
SRP041821 |
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 |
SRA Run Selector |
Raw data are available in SRA |
Processed data are available on Series record |
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