Please use this identifier to cite or link to this item:
doi:10.22028/D291-33739
Title: | CoolMPS: evaluation of antibody labeling based massively parallel non-coding RNA sequencing |
Author(s): | Li, Yongping Fehlmann, Tobias Borcherding, Adam Drmanac, Snezana Liu, Sophie Groeger, Laura Xu, Chongjun Callow, Matthew Villarosa, Christian Jorjorian, Alexander Kern, Fabian Grammes, Nadja Meese, Eckart Jiang, Hui Drmanac, Radoje Ludwig, Nicole Keller, Andreas |
Language: | English |
Title: | Nucleic Acids Research |
Volume: | 49 (2021) |
Issue: | 2 |
Publisher/Platform: | Oxford University Press |
Year of Publication: | 2020 |
DDC notations: | 610 Medicine and health |
Publikation type: | Journal Article |
Abstract: | Results of massive parallel sequencing-by-synthesis vary depending on the sequencing approach. CoolMPS™ is a new sequencing chemistry that incorporates bases by labeled antibodies. To evaluate the performance, we sequenced 240 human non-coding RNA samples (dementia patients and controls) with and without CoolMPS. The Q30 value as indicator of the per base sequencing quality increased from 91.8 to 94%. The higher quality was reached across the whole read length. Likewise, the percentage of reads mapping to the human genome increased from 84.9 to 86.2%. For both technologies, we computed similar distributions between different RNA classes (miRNA, piRNA, tRNA, snoRNA and yRNA) and within the classes. While standard sequencing-by-synthesis allowed to recover more annotated miRNAs, CoolMPS yielded more novel miRNAs. The correlation between the two methods was 0.97. Evaluating the diagnostic performance, we observed lower minimal P-values for CoolMPS (adjusted P-value of 0.0006 versus 0.0004) and larger effect sizes (Cohen's d of 0.878 versus 0.9). Validating 19 miRNAs resulted in a correlation of 0.852 between CoolMPS and reverse transcriptase-quantitative polymerase chain reaction. Comparison to data generated with Illumina technology confirmed a known shift in the overall RNA composition. With CoolMPS we evaluated a novel sequencing-by-synthesis technology showing high performance for the analysis of non-coding RNAs. |
DOI of the first publication: | 10.1093/nar/gkaa1122 |
Link to this record: | urn:nbn:de:bsz:291--ds-337394 hdl:20.500.11880/31077 http://dx.doi.org/10.22028/D291-33739 |
ISSN: | 1362-4962 0305-1048 |
Date of registration: | 7-Apr-2021 |
Description of the related object: | Supplementary data |
Related object: | https://oup.silverchair-cdn.com/oup/backfile/Content_public/Journal/nar/49/2/10.1093_nar_gkaa1122/1/gkaa1122_supplemental_files.zip?Expires=1620818791&Signature=QE7hKWFsQYUzjEYYw0a2sM-s0Wglab3txXijtdlWXziPbN5tzzAUCxAskIW01SJzu1GnYqTnaVbECkSebm1mCi4Oqu934av3wgeNITixA9CRpbR77VdNJ1HIp9lbT77DqewK8NrgwjvgF66qJOQehkEcbhSz5v4KefPPLS2-Lls9-W0C7WamcMnC1xIxZ~oGPH-ApXM008mOElCIyrilNHns35606OsFzEFj18gtVAjtbNZAQhC6JHDIewBJINQPy2mRjYVNP0PFVTp-GkAVvOUwOnJHpWIrxXW9hRTl-O-a3GCQnfsBOwV89kVCHOPtjYdPUu2fBdEVVv5PZH093Q__&Key-Pair-Id=APKAIE5G5CRDK6RD3PGA |
Faculty: | M - Medizinische Fakultät |
Department: | M - Humangenetik M - Medizinische Biometrie, Epidemiologie und medizinische Informatik |
Professorship: | M - Prof. Dr. Eckhart Meese M - Keiner Professur zugeordnet |
Collections: | SciDok - Der Wissenschaftsserver der Universität des Saarlandes |
Files for this record:
File | Description | Size | Format | |
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gkaa1122.pdf | 2,6 MB | Adobe PDF | View/Open |
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