Single-cell transcriptomics in the context of long-read nanopore sequencing
Single cell transcriptomics were declared twice ‘Method of the year’ by Nature Methods journal, in 2013 and 2019. It marks the beginning of new avenue in fundamental and clinical research, as the classic biochemical approach is already seen as limited, as pooling up the contents of a large number of...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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Taylor & Francis Group
2021-01-01
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| Series: | Biotechnology & Biotechnological Equipment |
| Subjects: | |
| Online Access: | http://dx.doi.org/10.1080/13102818.2021.1988868 |
| _version_ | 1818821100863225856 |
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| author | Soren Hayrabedyan Petya Kostova Viktor Zlatkov Krassimira Todorova |
| author_facet | Soren Hayrabedyan Petya Kostova Viktor Zlatkov Krassimira Todorova |
| author_sort | Soren Hayrabedyan |
| collection | DOAJ |
| description | Single cell transcriptomics were declared twice ‘Method of the year’ by Nature Methods journal, in 2013 and 2019. It marks the beginning of new avenue in fundamental and clinical research, as the classic biochemical approach is already seen as limited, as pooling up the contents of a large number of cells together depicts an averaged image that is missing the decision maker cells. Short-read sequencing has already revolutionized biology and medicine, providing an unsurpassed accuracy of the reads, and now third generation long-read nanopore sequencing completes and extends transcriptomics with the ability to discover all full-length isoforms at a single-cell level, providing a deeper insight in our understating of physiology and pathology of tissue functions. This review provides insight on how nanopore technological specifics and limitations have been explored so far in implementing the only direct nucleic acid sequencing platform in single cells sequencing. We review how single-cell sequencing was introduced, most widely used conventional and microfluidic approaches for single cell isolation, ways for further sequencing library generation tailored for Illumina, and how these were adopted for the nanopore technology. |
| first_indexed | 2024-12-18T23:02:50Z |
| format | Article |
| id | doaj.art-4f94f93611fa432c95d4a0499416751e |
| institution | Directory Open Access Journal |
| issn | 1310-2818 1314-3530 |
| language | English |
| last_indexed | 2024-12-18T23:02:50Z |
| publishDate | 2021-01-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | Biotechnology & Biotechnological Equipment |
| spelling | doaj.art-4f94f93611fa432c95d4a0499416751e2022-12-21T20:48:32ZengTaylor & Francis GroupBiotechnology & Biotechnological Equipment1310-28181314-35302021-01-013511439145110.1080/13102818.2021.19888681988868Single-cell transcriptomics in the context of long-read nanopore sequencingSoren Hayrabedyan0Petya Kostova1Viktor Zlatkov2Krassimira Todorova3Laboratory of Reproductive OMICs Technologies, Institute of Biology and Immunology of Reproduction, Bulgarian Academy of SciencesGynecology Clinic, National Oncology HospitalDepartment of Obstetrics and Gynecology, Faculty of Medicine, Medical University of SofiaLaboratory of Reproductive OMICs Technologies, Institute of Biology and Immunology of Reproduction, Bulgarian Academy of SciencesSingle cell transcriptomics were declared twice ‘Method of the year’ by Nature Methods journal, in 2013 and 2019. It marks the beginning of new avenue in fundamental and clinical research, as the classic biochemical approach is already seen as limited, as pooling up the contents of a large number of cells together depicts an averaged image that is missing the decision maker cells. Short-read sequencing has already revolutionized biology and medicine, providing an unsurpassed accuracy of the reads, and now third generation long-read nanopore sequencing completes and extends transcriptomics with the ability to discover all full-length isoforms at a single-cell level, providing a deeper insight in our understating of physiology and pathology of tissue functions. This review provides insight on how nanopore technological specifics and limitations have been explored so far in implementing the only direct nucleic acid sequencing platform in single cells sequencing. We review how single-cell sequencing was introduced, most widely used conventional and microfluidic approaches for single cell isolation, ways for further sequencing library generation tailored for Illumina, and how these were adopted for the nanopore technology.http://dx.doi.org/10.1080/13102818.2021.1988868single cell transcriptomicsnanopore sequencinglong-read sequencing |
| spellingShingle | Soren Hayrabedyan Petya Kostova Viktor Zlatkov Krassimira Todorova Single-cell transcriptomics in the context of long-read nanopore sequencing Biotechnology & Biotechnological Equipment single cell transcriptomics nanopore sequencing long-read sequencing |
| title | Single-cell transcriptomics in the context of long-read nanopore sequencing |
| title_full | Single-cell transcriptomics in the context of long-read nanopore sequencing |
| title_fullStr | Single-cell transcriptomics in the context of long-read nanopore sequencing |
| title_full_unstemmed | Single-cell transcriptomics in the context of long-read nanopore sequencing |
| title_short | Single-cell transcriptomics in the context of long-read nanopore sequencing |
| title_sort | single cell transcriptomics in the context of long read nanopore sequencing |
| topic | single cell transcriptomics nanopore sequencing long-read sequencing |
| url | http://dx.doi.org/10.1080/13102818.2021.1988868 |
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