|
| Status |
Public on May 30, 2017 |
| Title |
Functional and Technical Validation of SL-seq, a method for RNA-seq in Trypanosomatids |
| Organisms |
Leishmania donovani; Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
We developed a novel method for RNA-seq in Trypanosomatids called ‘Spliced-Leader Sequencing’ (SL-seq). The method is based on the fact that the 5’ end of Trypanosomatid mRNA is starts with a SL-sequence, and specifically enriches SL-containing RNA prior to sequencing. In this study we compared the performance and functional results obtained with SL-seq to those generated with conventional Illumina Stranded mRNA prep. Therefore we sequenced mRNA of Leishmania donovani logarithmic phase promastigotes, stationary phase promastigotes and intracellular amastigotes with both methods. We also sequenced controlled dilutions of Leishmania RNA with human RNA.
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| |
|
| Overall design |
37 samples
|
| |
|
| Contributor(s) |
Cuypers B |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| BioProject |
PRJNA375925 |
| Submission date |
Feb 24, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Bart Cuypers |
| E-mail(s) |
bart.cuypers@uantwerpen.be
|
| Organization name |
Adrem Data Lab
|
| Department |
Computer Science
|
| Lab |
Adrem Data Lab
|
| Street address |
Middelheimlaan 1
|
| City |
Antwerpen |
| State/province |
Antwerp |
| ZIP/Postal code |
2020 |
| Country |
Belgium |
| |
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| Platforms (3) |
| GPL23108 |
Illumina Hiseq 1500 (Leishmania donovani) |
| GPL23109 |
Illumina Hiseq 1500 (Homo sapiens) |
| GPL23110 |
Illumina Hiseq 1500 (Homo sapiens; Leishmania donovani) |
|
| Samples (37)
|
|
| Relations |
| SRA |
SRP100315 |
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