Replicate sequencing libraries are important for quantification of allelic imbalance
Allele-specific expression in diploid organisms can be quantified by RNA-seq and it is common practice to rely on a single library. Here, the authors show that the standard approach has variable error rate and present Qllelic as a tool to improve reproducibility of allele-specific RNA-seq analysis.
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Nature Portfolio
2021-06-01
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| Series: | Nature Communications |
| Online Access: | https://doi.org/10.1038/s41467-021-23544-8 |
| _version_ | 1818722400940851200 |
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| author | Asia Mendelevich Svetlana Vinogradova Saumya Gupta Andrey A. Mironov Shamil R. Sunyaev Alexander A. Gimelbrant |
| author_facet | Asia Mendelevich Svetlana Vinogradova Saumya Gupta Andrey A. Mironov Shamil R. Sunyaev Alexander A. Gimelbrant |
| author_sort | Asia Mendelevich |
| collection | DOAJ |
| description | Allele-specific expression in diploid organisms can be quantified by RNA-seq and it is common practice to rely on a single library. Here, the authors show that the standard approach has variable error rate and present Qllelic as a tool to improve reproducibility of allele-specific RNA-seq analysis. |
| first_indexed | 2024-12-17T20:54:02Z |
| format | Article |
| id | doaj.art-6708d342cd5e4c4980bf8799bffb923c |
| institution | Directory Open Access Journal |
| issn | 2041-1723 |
| language | English |
| last_indexed | 2024-12-17T20:54:02Z |
| publishDate | 2021-06-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Nature Communications |
| spelling | doaj.art-6708d342cd5e4c4980bf8799bffb923c2022-12-21T21:32:56ZengNature PortfolioNature Communications2041-17232021-06-0112111310.1038/s41467-021-23544-8Replicate sequencing libraries are important for quantification of allelic imbalanceAsia Mendelevich0Svetlana Vinogradova1Saumya Gupta2Andrey A. Mironov3Shamil R. Sunyaev4Alexander A. Gimelbrant5Skolkovo Institute of Science and TechnologyCenter for Cancer Systems Biology, Dana-Farber Cancer Institute, Harvard Medical SchoolCenter for Cancer Systems Biology, Dana-Farber Cancer Institute, Harvard Medical SchoolLomonosov Moscow State University, Faculty of Bioengineering and BioinformaticsDepartment of Biomedical Informatics, Harvard Medical SchoolCenter for Cancer Systems Biology, Dana-Farber Cancer Institute, Harvard Medical SchoolAllele-specific expression in diploid organisms can be quantified by RNA-seq and it is common practice to rely on a single library. Here, the authors show that the standard approach has variable error rate and present Qllelic as a tool to improve reproducibility of allele-specific RNA-seq analysis.https://doi.org/10.1038/s41467-021-23544-8 |
| spellingShingle | Asia Mendelevich Svetlana Vinogradova Saumya Gupta Andrey A. Mironov Shamil R. Sunyaev Alexander A. Gimelbrant Replicate sequencing libraries are important for quantification of allelic imbalance Nature Communications |
| title | Replicate sequencing libraries are important for quantification of allelic imbalance |
| title_full | Replicate sequencing libraries are important for quantification of allelic imbalance |
| title_fullStr | Replicate sequencing libraries are important for quantification of allelic imbalance |
| title_full_unstemmed | Replicate sequencing libraries are important for quantification of allelic imbalance |
| title_short | Replicate sequencing libraries are important for quantification of allelic imbalance |
| title_sort | replicate sequencing libraries are important for quantification of allelic imbalance |
| url | https://doi.org/10.1038/s41467-021-23544-8 |
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