| 1. |
- Hong, Ye, et al.
(author)
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PhosPiR : an automated phosphoproteomic pipeline in R
- 2022
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In: Briefings in Bioinformatics. - : Oxford University Press (OUP). - 1467-5463 .- 1477-4054. ; 23:1
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Journal article (peer-reviewed)abstract
- Large-scale phosphoproteome profiling using mass spectrometry (MS) provides functional insight that is crucial for disease biology and drug discovery. However, extracting biological understanding from these data is an arduous task requiring multiple analysis platforms that are not adapted for automated high-dimensional data analysis. Here, we introduce an integrated pipeline that combines several R packages to extract high-level biological understanding from large-scale phosphoproteomic data by seamless integration with existing databases and knowledge resources. In a single run, PhosPiR provides data clean-up, fast data overview, multiple statistical testing, differential expression analysis, phosphosite annotation and translation across species, multilevel enrichment analyses, proteome-wide kinase activity and substrate mapping and network hub analysis. Data output includes graphical formats such as heatmap, box-, volcano- and circos-plots. This resource is designed to assist proteome-wide data mining of pathophysiological mechanism without a need for programming knowledge.
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| 2. |
- Vähätalo, Mervi, et al.
(author)
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Institutional logics and efficiency pressures in public organizations : what about the healthcare sector?
- 2018
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In: Paper presented at the 25th Annual EurOMA Conference, Budapest, Hungary, June 24-26, 2018. ; , s. 1-8
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Conference paper (peer-reviewed)abstract
- This study describes the current state of public sector logic from the perspective of healthcare professionals. More than 1500 healthcare professionals answered the survey concerning the way in which values, decision making and aims appear in the public sector. Healthcare professionals felt that the essential value in the public sector is still the respect for human life. However, they also argued that good care has become subordinate to financial values. In the current age of austerity, improving efficiency in the public sector is inevitable. However, it shouldn’t be done by jeopardizing professionals’ ability to work according to their professional logic.
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