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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.

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DUO:0000012
version: 2021-02-23

research specific restrictions

This data use modifier indicates that use is limited to studies of a certain research type.

DUO:0000014
version: 2019-01-07

research use only

This data use limitation indicates that use is limited to research purposes (e.g., does not include its use in clinical care).

DUO:0000025
version: 2021-02-23

time limit on use

This data use modifier indicates that use is approved for a specific number of months.

DUO:0000027
version: 2021-02-23

project specific restriction

This data use modifier indicates that use is limited to use within an approved project.

BC Cancer, part of the Provincial Health Services Authority - Data Access Policy

Access to this data is controlled. There are a number of steps that a researcher must take to obtain access to this data, including execution of a Data Access Agreement between the institutions. The process is overseen by the Technology Development Office; please contact our general email address TDOadmin@phsa.ca. Please only click the "request data" button on the EGA website after a Data Access Agreement is fully executed.

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 Quality Report
Located in
i
EGAF00002637464 fastq.gz 7.9 GB Report
EGAF00002637465 fastq.gz 8.3 GB Report
EGAF00002637466 fastq.gz 63.8 MB Report
EGAF00002637467 fastq.gz 69.0 MB Report
EGAF00002637468 fastq.gz 76.4 MB Report
EGAF00002637469 fastq.gz 82.2 MB Report
EGAF00002637470 fastq.gz 8.5 GB Report
EGAF00002637471 fastq.gz 9.0 GB Report
EGAF00002637472 fastq.gz 84.9 MB Report
EGAF00002637473 fastq.gz 90.3 MB Report
EGAF00002637474 fastq.gz 145.2 MB Report
EGAF00002637475 fastq.gz 155.7 MB Report
EGAF00002637476 fastq.gz 607.3 MB Report
EGAF00002637477 fastq.gz 604.1 MB Report
EGAF00002637478 fastq.gz 78.8 MB Report
EGAF00002637479 fastq.gz 84.0 MB Report
EGAF00002637480 fastq.gz 494.7 MB Report
EGAF00002637481 fastq.gz 511.1 MB Report
EGAF00002637482 fastq.gz 60.8 MB Report
EGAF00002637483 fastq.gz 64.5 MB Report
EGAF00002637484 fastq.gz 69.2 MB Report
EGAF00002637485 fastq.gz 73.0 MB Report
EGAF00002637486 fastq.gz 695.1 MB Report
EGAF00002637487 fastq.gz 697.6 MB Report
EGAF00002637488 fastq.gz 78.9 MB Report
EGAF00002637489 fastq.gz 83.2 MB Report
EGAF00002637490 fastq.gz 94.1 MB Report
EGAF00002637491 fastq.gz 99.5 MB Report
EGAF00002637492 fastq.gz 146.0 MB Report
EGAF00002637493 fastq.gz 156.5 MB Report
EGAF00002637494 fastq.gz 683.1 MB Report
EGAF00002637495 fastq.gz 688.3 MB Report
EGAF00002637496 fastq.gz 459.7 MB Report
EGAF00002637497 fastq.gz 471.6 MB Report
EGAF00002637498 fastq.gz 85.2 MB Report
EGAF00002637499 fastq.gz 90.1 MB Report
EGAF00002637500 fastq.gz 713.5 MB Report
EGAF00002637501 fastq.gz 721.0 MB Report
EGAF00002637502 fastq.gz 156.8 MB Report
EGAF00002637503 fastq.gz 172.0 MB Report
EGAF00002637504 fastq.gz 101.4 MB Report
EGAF00002637505 fastq.gz 107.1 MB Report
EGAF00002637506 fastq.gz 99.2 MB Report
EGAF00002637507 fastq.gz 105.0 MB Report
EGAF00002637508 fastq.gz 482.6 MB Report
EGAF00002637509 fastq.gz 488.9 MB Report
EGAF00002637510 fastq.gz 77.6 MB Report
EGAF00002637511 fastq.gz 83.7 MB Report
EGAF00002637512 fastq.gz 537.9 MB Report
EGAF00002637513 fastq.gz 548.7 MB Report
EGAF00002637514 fastq.gz 93.7 MB Report
EGAF00002637515 fastq.gz 100.0 MB Report
EGAF00002637534 fastq.gz 763.2 MB Report
EGAF00002637535 fastq.gz 792.4 MB Report
EGAF00002637536 fastq.gz 670.8 MB Report
EGAF00002637537 fastq.gz 704.0 MB Report
EGAF00002637538 fastq.gz 990.9 MB Report
EGAF00002637539 fastq.gz 1.0 GB Report
EGAF00002637540 fastq.gz 589.5 MB Report
EGAF00002637541 fastq.gz 615.7 MB Report
EGAF00002637542 fastq.gz 1.2 GB Report
EGAF00002637543 fastq.gz 1.2 GB Report
EGAF00002637544 fastq.gz 699.8 MB Report
EGAF00002637545 fastq.gz 729.5 MB Report
64 Files (56.1 GB)