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- Locht, Inka L. M., et al.
(författare)
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Ultrafast magnetization dynamics : Microscopic electronic configurations and ultrafast spectroscopy
- 2015
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Ingår i: Physical Review B. Condensed Matter and Materials Physics. - 1098-0121 .- 1550-235X. ; 92:6
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Tidskriftsartikel (refereegranskat)abstract
- We provide an approach for the identification of the electronic and magnetic configurations of ferromagnetic Fe after an ultrafast decrease or increase of the magnetization. The model is based on the well-grounded assumption that, after an ultrafast variation of the magnetization, the system achieves a partial thermal equilibrium. With statistical arguments we show that the magnetic configurations are qualitatively different in the case of reduced or increased magnetization. The predicted magnetic configurations are then used to compute the dielectric response at the 3p (M) absorption edge, which is directly related to the changes observed in the experimental T-MOKE data. The good qualitative agreement between theory and experiment offers a substantial support for the validity of the model, and to the very existence of an ultrafast increase of the magnetization.
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- Yan, WX, et al.
(författare)
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BLISS is a versatile and quantitative method for genome-wide profiling of DNA double-strand breaks
- 2017
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Ingår i: Nature communications. - : Springer Science and Business Media LLC. - 2041-1723. ; 8, s. 15058-
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Tidskriftsartikel (refereegranskat)abstract
- Precisely measuring the location and frequency of DNA double-strand breaks (DSBs) along the genome is instrumental to understanding genomic fragility, but current methods are limited in versatility, sensitivity or practicality. Here we present Breaks Labeling In Situ and Sequencing (BLISS), featuring the following: (1) direct labelling of DSBs in fixed cells or tissue sections on a solid surface; (2) low-input requirement by linear amplification of tagged DSBs by in vitro transcription; (3) quantification of DSBs through unique molecular identifiers; and (4) easy scalability and multiplexing. We apply BLISS to profile endogenous and exogenous DSBs in low-input samples of cancer cells, embryonic stem cells and liver tissue. We demonstrate the sensitivity of BLISS by assessing the genome-wide off-target activity of two CRISPR-associated RNA-guided endonucleases, Cas9 and Cpf1, observing that Cpf1 has higher specificity than Cas9. Our results establish BLISS as a versatile, sensitive and efficient method for genome-wide DSB mapping in many applications.
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- Zhang, XL, et al.
(författare)
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CUTseq is a versatile method for preparing multiplexed DNA sequencing libraries from low-input samples
- 2019
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Ingår i: Nature communications. - : Springer Science and Business Media LLC. - 2041-1723. ; 10:1, s. 4732-
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Tidskriftsartikel (refereegranskat)abstract
- Current multiplexing strategies for massively parallel sequencing of genomic DNA mainly rely on library indexing in the final steps of library preparation. This procedure is costly and time-consuming, because a library must be generated separately for each sample. Furthermore, library preparation is challenging in the case of fixed samples, such as DNA extracted from formalin-fixed paraffin-embedded (FFPE) tissues. Here we describe CUTseq, a method that uses restriction enzymes and in vitro transcription to barcode and amplify genomic DNA prior to library construction. We thoroughly assess the sensitivity and reproducibility of CUTseq in both cell lines and FFPE samples, and demonstrate an application of CUTseq for multi-region DNA copy number profiling within single FFPE tumor sections, to assess intratumor genetic heterogeneity at high spatial resolution. In conclusion, CUTseq is a versatile and cost-effective method for library preparation for reduced representation genome sequencing, which can find numerous applications in research and diagnostics.
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