|
| Status |
Public on Oct 01, 2012 |
| Title |
Transcriptome wide analysis of classically and alternatively activated macrophages |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare NGS-derived human M1- and M2-like macrophage profiling (RNA-seq) to microarray and quantitative reverse transcription polymerase chain reaction (qRT–PCR) methods and to establish a high resolution transcriptome of human macrophages.
Total RNA was isolated from classically and aternative activated human macrophages.mRNA profiles were generated by deep sequencing og M1 and M2 macrophages from 3 donors using Illumina HiSeqSQ. The sequence reads that passed quality filters were analyzed at the transcript isoform level with two methods: Casava1.8 and TopHat followed by Cufflinks. qRT–PCR validation was performed using LightCycler and SYBR Green assays.
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| |
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| Overall design |
mRNA profiles were generated by deep sequencing og M1 and M2 macrophages from 3 donors using Illumina HiSeqSQ.
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| |
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| Contributor(s) |
Mallmann M, Beyer M, Schultze JL |
| Citation(s) |
23029029, 26729620 |
| Submission date |
Mar 30, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Andrea Nino Castro |
| E-mail(s) |
anino@uni-bonn.de
|
| Organization name |
Life and Medical Sciences institute
|
| Lab |
Genomics and Immunoregulation
|
| Street address |
Carl Troll str. 31
|
| City |
Bonn |
| State/province |
NRW |
| ZIP/Postal code |
53115 |
| Country |
Germany |
| |
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| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
|
| Samples (6)
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| Relations |
| BioProject |
PRJNA157281 |
| SRA |
SRP012015 |
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