| 1. |
- Eriksson, Jonatan O., et al.
(författare)
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Clusterwise Peak Detection and Filtering Based on Spatial Distribution to Efficiently Mine Mass Spectrometry Imaging Data
- 2019
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Ingår i: Analytical Chemistry. - : American Chemical Society (ACS). - 0003-2700 .- 1520-6882. ; , s. 11888-11896
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Tidskriftsartikel (refereegranskat)abstract
- Mass spectrometry imaging (MSI) has the potential to reveal the localization of thousands of biomolecules such as metabolites and lipids in tissue sections. The increase in both mass and spatial resolution of today's instruments brings on considerable challenges in terms of data processing; accurately extracting meaningful signals from the large data sets generated by MSI without losing information that could be clinically relevant is one of the most fundamental tasks of analysis software. Ion images of the biomolecules are generated by visualizing their intensities in 2-D space using mass spectra collected across the tissue section. The intensities are often calculated by summing each compound's signal between predefined sets of borders (bins) in the m/z dimension. This approach, however, can result in mixed signals from different compounds in the same bin or splitting the signal from one compound between two adjacent bins, leading to low quality ion images. To remedy this problem, we propose a novel data processing approach. Our approach consists of a sensitive peak detection method able to discover both faint and localized signals by utilizing clusterwise kernel density estimates (KDEs) of peak distributions. We show that our method can recall more ground-truth molecules, molecule fragments, and isotopes than existing methods based on binning. Furthermore, it automatically detects previously reported molecular ions of lipids, including those close in m/z, in an experimental data set.
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| 2. |
- Josefsson, Karin, 1958-, et al.
(författare)
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Distriktssköterskors hälsofrämjande omvårdnadsåtgärder vid hypertoni: En litteraturstudie . [Public health nurses’ nursing interventions for hyper pressure: A literature study].
- 2015
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Ingår i: Nordisk sygeplejeforskning. - : Universitetsforlaget. - 1892-2678 .- 1892-2686. ; :4, s. 367-381
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Tidskriftsartikel (refereegranskat)abstract
- Hypertension is a common disease that affects approximately one fifth of the Swedish population. It may be caused by lifestyle issues such as stress, obesity, and physical inactivity. It is the job of public health nurses to control patients’ blood pressure and provide support and counseling for necessary lifestyle changes, thus promoting health, preventing hypertension, and improving high blood pressure. The study’s aim was to review and describe the knowledge contained in the literature regarding district nurses' nursing interventions for patients with hypertension. The method was a literature study of 12 scientific studies. The results indicate that public health nursing interventions for patients with hypertension provide health education in either a standardized or a person-centered way by monitoring health, providing health counseling, and supporting lifestyle changes. The conclusion is that it can be difficult to distinguish between a standardized approach and a person-centered approach when a health-promoting intervention can start by using a standardized approach and then move to a person-centered approach and vice versa.
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| 3. |
- Kuras, Magdalena, et al.
(författare)
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Proteomic Workflows for High-Quality Quantitative Proteome and Post-Translational Modification Analysis of Clinically Relevant Samples from Formalin-Fixed Paraffin-Embedded Archives
- 2021
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Ingår i: Journal of Proteome Research. - : American Chemical Society (ACS). - 1535-3893 .- 1535-3907. ; 20:1, s. 1027-1039
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Tidskriftsartikel (refereegranskat)abstract
- Well-characterized archival formalin-fixed paraffin-embedded (FFPE) tissues are of much value for prospective biomarker discovery studies, and protocols that offer high throughput and good reproducibility are essential in proteomics. Therefore, we implemented efficient paraffin removal and protein extraction from FFPE tissues followed by an optimized two-enzyme digestion using suspension trapping (S-Trap). The protocol was then combined with TMTpro 16plex labeling and applied to lung adenocarcinoma patient samples. In total, 9585 proteins were identified, and proteins related to the clinical outcome were detected. Because acetylation is known to play a major role in cancer development, a fast on-trap acetylation protocol was developed for studying endogenous lysine acetylation, which allows identification and localization of the lysine acetylation together with quantitative comparison between samples. We demonstrated that FFPE tissues are equivalent to frozen tissues to study the degree of acetylation between patients. In summary, we present a reproducible sample preparation workflow optimized for FFPE tissues that resolves known proteomic-related challenges. We demonstrate compatibility of the S-Trap with isobaric labeling and for the first time, we prove that it is feasible to study endogenous lysine acetylation stoichiometry in FFPE tissues, contributing to better utility of the existing global tissue archives. The MS proteomic data have been deposited to the ProteomeXchange Consortium via the PRIDE partner repository with the data set identifiers PXD020157, PXD021986, and PXD021964.
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