Single-Molecule Tracking dataset for histone H3 (hht1) from live and fixed cells of Schizosaccharomyces pombe
Abstract Single-molecule tracking provides direct real-time measurements of protein dynamics in live cells with high spatiotemporal resolution. In the last decade, this method has been adopted by several labs to understand the dynamics of DNA replication, transcription, telomerase, chromatin remodel...
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| Format: | Article |
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Nature Portfolio
2024-12-01
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| Series: | Scientific Data |
| Online Access: | https://doi.org/10.1038/s41597-024-04258-0 |
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| author | Akriti Kumari Nitesh Kumar Podh Sucharita Sen Kirti Kashyap Sahil Islam Anupam Gupta Eerappa Rajakumara Mridula Nambiar Gunjan Mehta |
| author_facet | Akriti Kumari Nitesh Kumar Podh Sucharita Sen Kirti Kashyap Sahil Islam Anupam Gupta Eerappa Rajakumara Mridula Nambiar Gunjan Mehta |
| author_sort | Akriti Kumari |
| collection | DOAJ |
| description | Abstract Single-molecule tracking provides direct real-time measurements of protein dynamics in live cells with high spatiotemporal resolution. In the last decade, this method has been adopted by several labs to understand the dynamics of DNA replication, transcription, telomerase, chromatin remodeling, etc. in a variety of model systems (bacteria, yeast S. cerevisiae, cell lines, embryo). However, it has not been employed for the yeast Schizosaccharomyces pombe, despite being a valuable model system. Here, we present single-molecule tracking datasets for chromatin-bound histone H3 (Hht1) in live and fixed cells and freely diffusing GFP in S. pombe nuclei to benchmark the diffusion parameters (diffusion coefficient, mean squared displacement, fraction of bound molecules, residence time). These parameters will be used to differentiate chromatin-bound molecules from unbound (free) molecules of any protein. It will be a valuable resource for any lab that starts employing this method for studying protein dynamics. This dataset can also be used to validate the performance of various tracking software and as a training dataset for machine learning-based automated tracking. |
| format | Article |
| id | doaj-art-6dea1f061d0e41f48a9eb7ee4b9122ae |
| institution | DOAJ |
| issn | 2052-4463 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Data |
| spelling | doaj-art-6dea1f061d0e41f48a9eb7ee4b9122ae2025-08-20T02:40:14ZengNature PortfolioScientific Data2052-44632024-12-0111111010.1038/s41597-024-04258-0Single-Molecule Tracking dataset for histone H3 (hht1) from live and fixed cells of Schizosaccharomyces pombeAkriti Kumari0Nitesh Kumar Podh1Sucharita Sen2Kirti Kashyap3Sahil Islam4Anupam Gupta5Eerappa Rajakumara6Mridula Nambiar7Gunjan Mehta8Laboratory of Chromosome Dynamics and Gene Regulation, Department of Biotechnology, Indian Institute of Technology Hyderabad, KandiLaboratory of Chromosome Dynamics and Gene Regulation, Department of Biotechnology, Indian Institute of Technology Hyderabad, KandiDepartment of Biology, Indian Institute of Science Education and ResearchDepartment of Physics, Indian Institute of Technology Hyderabad, KandiDepartment of Physics, Indian Institute of Technology Hyderabad, KandiDepartment of Physics, Indian Institute of Technology Hyderabad, KandiMacromolecular Structural Biology Laboratory, Department of Biotechnology, Indian Institute of Technology Hyderabad, KandiDepartment of Biology, Indian Institute of Science Education and ResearchLaboratory of Chromosome Dynamics and Gene Regulation, Department of Biotechnology, Indian Institute of Technology Hyderabad, KandiAbstract Single-molecule tracking provides direct real-time measurements of protein dynamics in live cells with high spatiotemporal resolution. In the last decade, this method has been adopted by several labs to understand the dynamics of DNA replication, transcription, telomerase, chromatin remodeling, etc. in a variety of model systems (bacteria, yeast S. cerevisiae, cell lines, embryo). However, it has not been employed for the yeast Schizosaccharomyces pombe, despite being a valuable model system. Here, we present single-molecule tracking datasets for chromatin-bound histone H3 (Hht1) in live and fixed cells and freely diffusing GFP in S. pombe nuclei to benchmark the diffusion parameters (diffusion coefficient, mean squared displacement, fraction of bound molecules, residence time). These parameters will be used to differentiate chromatin-bound molecules from unbound (free) molecules of any protein. It will be a valuable resource for any lab that starts employing this method for studying protein dynamics. This dataset can also be used to validate the performance of various tracking software and as a training dataset for machine learning-based automated tracking.https://doi.org/10.1038/s41597-024-04258-0 |
| spellingShingle | Akriti Kumari Nitesh Kumar Podh Sucharita Sen Kirti Kashyap Sahil Islam Anupam Gupta Eerappa Rajakumara Mridula Nambiar Gunjan Mehta Single-Molecule Tracking dataset for histone H3 (hht1) from live and fixed cells of Schizosaccharomyces pombe Scientific Data |
| title | Single-Molecule Tracking dataset for histone H3 (hht1) from live and fixed cells of Schizosaccharomyces pombe |
| title_full | Single-Molecule Tracking dataset for histone H3 (hht1) from live and fixed cells of Schizosaccharomyces pombe |
| title_fullStr | Single-Molecule Tracking dataset for histone H3 (hht1) from live and fixed cells of Schizosaccharomyces pombe |
| title_full_unstemmed | Single-Molecule Tracking dataset for histone H3 (hht1) from live and fixed cells of Schizosaccharomyces pombe |
| title_short | Single-Molecule Tracking dataset for histone H3 (hht1) from live and fixed cells of Schizosaccharomyces pombe |
| title_sort | single molecule tracking dataset for histone h3 hht1 from live and fixed cells of schizosaccharomyces pombe |
| url | https://doi.org/10.1038/s41597-024-04258-0 |
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