Evaluation of protocols for rRNA depletion-based RNA sequencing of nanogram inputs of mammalian total RNA
Next generation RNA-Sequencing (RNA-seq) is a flexible approach that can be applied to e.g. global quantification of transcript expression, the characterization of RNA structure such as splicing patterns and profiling of expressed mutations. Many RNA-seq protocols require up to microgram levels of total RNA input amounts to generate high quality data, and thus remain impractical for the limited starting material amounts typically obtained from rare cell populations, such as those from early developmental stages or from laser micro-dissected clinical samples. Here, we present an assessment of the contemporary ribosomal RNA depletion-based protocols, and identify those that are suitable for inputs as low as 1-10 ng of intact total RNA and 100-500 ng of partially degraded RNA from formalin-fixed paraffin-embedded tissues.
- 3 samples
- DAC: EGAC00000000011
- Technologies: Illumina HiSeq 2500, Illumina MiSeq
- RS DUO:0000012 (version: 2021-02-23)research specific restrictionsThis data use modifier indicates that use is limited to studies of a certain research type.
- RU DUO:0000014 (version: 2019-01-07)research use onlyThis data use limitation indicates that use is limited to research purposes (e.g., does not include its use in clinical care).
- TS DUO:0000025 (version: 2021-02-23)time limit on useThis data use modifier indicates that use is approved for a specific number of months.
- PS DUO:0000027 (version: 2021-02-23)project specific restrictionThis data use modifier indicates that use is limited to use within an approved project.
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Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.
| Study ID | Study Title | Study Type |
|---|---|---|
| EGAS00001003849 | Transcriptome Analysis |
This table displays only public information pertaining to the files in the dataset. If you wish to access this dataset, please submit a request. If you already have access to these data files, please consult the download documentation.
| ID | File Type | Size | Located in | |
|---|---|---|---|---|
| EGAF00002637464 | fastq.gz | 7.9 GB | ||
| EGAF00002637465 | fastq.gz | 8.3 GB | ||
| EGAF00002637466 | fastq.gz | 63.8 MB | ||
| EGAF00002637467 | fastq.gz | 69.0 MB | ||
| EGAF00002637468 | fastq.gz | 76.4 MB | ||
| EGAF00002637469 | fastq.gz | 82.2 MB | ||
| EGAF00002637470 | fastq.gz | 8.5 GB | ||
| EGAF00002637471 | fastq.gz | 9.0 GB | ||
| EGAF00002637472 | fastq.gz | 84.9 MB | ||
| EGAF00002637473 | fastq.gz | 90.3 MB | ||
| EGAF00002637474 | fastq.gz | 145.2 MB | ||
| EGAF00002637475 | fastq.gz | 155.7 MB | ||
| EGAF00002637476 | fastq.gz | 607.3 MB | ||
| EGAF00002637477 | fastq.gz | 604.1 MB | ||
| EGAF00002637478 | fastq.gz | 78.8 MB | ||
| EGAF00002637479 | fastq.gz | 84.0 MB | ||
| EGAF00002637480 | fastq.gz | 494.7 MB | ||
| EGAF00002637481 | fastq.gz | 511.1 MB | ||
| EGAF00002637482 | fastq.gz | 60.8 MB | ||
| EGAF00002637483 | fastq.gz | 64.5 MB | ||
| EGAF00002637484 | fastq.gz | 69.2 MB | ||
| EGAF00002637485 | fastq.gz | 73.0 MB | ||
| EGAF00002637486 | fastq.gz | 695.1 MB | ||
| EGAF00002637487 | fastq.gz | 697.6 MB | ||
| EGAF00002637488 | fastq.gz | 78.9 MB | ||
| EGAF00002637489 | fastq.gz | 83.2 MB | ||
| EGAF00002637490 | fastq.gz | 94.1 MB | ||
| EGAF00002637491 | fastq.gz | 99.5 MB | ||
| EGAF00002637492 | fastq.gz | 146.0 MB | ||
| EGAF00002637493 | fastq.gz | 156.5 MB | ||
| EGAF00002637494 | fastq.gz | 683.1 MB | ||
| EGAF00002637495 | fastq.gz | 688.3 MB | ||
| EGAF00002637496 | fastq.gz | 459.7 MB | ||
| EGAF00002637497 | fastq.gz | 471.6 MB | ||
| EGAF00002637498 | fastq.gz | 85.2 MB | ||
| EGAF00002637499 | fastq.gz | 90.1 MB | ||
| EGAF00002637500 | fastq.gz | 713.5 MB | ||
| EGAF00002637501 | fastq.gz | 721.0 MB | ||
| EGAF00002637502 | fastq.gz | 156.8 MB | ||
| EGAF00002637503 | fastq.gz | 172.0 MB | ||
| EGAF00002637504 | fastq.gz | 101.4 MB | ||
| EGAF00002637505 | fastq.gz | 107.1 MB | ||
| EGAF00002637506 | fastq.gz | 99.2 MB | ||
| EGAF00002637507 | fastq.gz | 105.0 MB | ||
| EGAF00002637508 | fastq.gz | 482.6 MB | ||
| EGAF00002637509 | fastq.gz | 488.9 MB | ||
| EGAF00002637510 | fastq.gz | 77.6 MB | ||
| EGAF00002637511 | fastq.gz | 83.7 MB | ||
| EGAF00002637512 | fastq.gz | 537.9 MB | ||
| EGAF00002637513 | fastq.gz | 548.7 MB | ||
| EGAF00002637514 | fastq.gz | 93.7 MB | ||
| EGAF00002637515 | fastq.gz | 100.0 MB | ||
| EGAF00002637534 | fastq.gz | 763.2 MB | ||
| EGAF00002637535 | fastq.gz | 792.4 MB | ||
| EGAF00002637536 | fastq.gz | 670.8 MB | ||
| EGAF00002637537 | fastq.gz | 704.0 MB | ||
| EGAF00002637538 | fastq.gz | 990.9 MB | ||
| EGAF00002637539 | fastq.gz | 1.0 GB | ||
| EGAF00002637540 | fastq.gz | 589.5 MB | ||
| EGAF00002637541 | fastq.gz | 615.7 MB | ||
| EGAF00002637542 | fastq.gz | 1.2 GB | ||
| EGAF00002637543 | fastq.gz | 1.2 GB | ||
| EGAF00002637544 | fastq.gz | 699.8 MB | ||
| EGAF00002637545 | fastq.gz | 729.5 MB | ||
| 64 Files (56.1 GB) | ||||