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| Status |
Public on Nov 07, 2022 |
| Title |
Next Generation Sequencing Analysis of primary rat lung fibroblast transcriptomes |
| Organism |
Rattus norvegicus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Purpose: We report the application of single-molecule-based sequencing technology for high-throughput profiling of primary rat lung fibroblast cultured on 3-5 kPa PDMS compared to plastic over a 14-day timecourse.
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| Overall design |
Methods: mRNA of primary fibroblasts were generated by deep sequencing, in triplicates or quadruplicates, using Illumina HiSeq2000. Sequenced read quality was checked with FastQC v0.11.2. Duplication rates of the RNA-Seq samples were computed with bamUtil v1.0.11 to mark duplicate reads and the dupRadar v1.4 Bioconductor R package for assessment. The gene expression profiles were quantified using Cufflinks software version 2.2.
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| Contributor(s) |
Nemeth J, Groß A, Quast K, Frick M |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Mar 30, 2022 |
| Last update date |
Nov 07, 2022 |
| Contact name |
Manfred Frick |
| E-mail(s) |
manfred.frick@uni-ulm.de
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| Organization name |
University of Ulm
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| Street address |
Albert-Einstein Allee 11
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| City |
Ulm |
| ZIP/Postal code |
89081 |
| Country |
Cote d'Ivoire |
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| Platforms (1) |
| GPL14844 |
Illumina HiSeq 2000 (Rattus norvegicus) |
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| Samples (27)
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| Relations |
| BioProject |
PRJNA821442 |
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