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- Pham, Tuan D
(author)
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Fractal characteristics of mass spectrometry based cancer data
- 2007
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In: WSEAS Transactions on Mathematics. - : World Scientific and Engineering Academy and Society. - 1109-2769 .- 2224-2880. ; , s. 30-35
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Journal article (peer-reviewed)abstract
- This paper addresses the fractal analysis of mass spectrometry data for the prediction of complex diseases. We studied ovarian and prostate cancers as examples of the analysis. Experimental results show that the fractal dimensions of cancer states distinctively tend to have higher values than those of the control states. High values of the Hurst exponent of the mass spectrometry data under study suggest the persistent behavior of the datasets and the reliability of the fractal dimensions.
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- Mirzazadeh, Reza, et al.
(author)
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Spatially resolved transcriptomic profiling of degraded and challenging fresh frozen samples
- 2023
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In: Nature Communications. - : Springer Nature. - 2041-1723. ; 14:1
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Journal article (peer-reviewed)abstract
- Spatially resolved transcriptomics has enabled precise genome-wide mRNA expression profiling within tissue sections. The performance of methods targeting the polyA tails of mRNA relies on the availability of specimens with high RNA quality. Moreover, the high cost of currently available spatial resolved transcriptomics assays requires a careful sample screening process to increase the chance of obtaining high-quality data. Indeed, the upfront analysis of RNA quality can show considerable variability due to sample handling, storage, and/or intrinsic factors. We present RNA-Rescue Spatial Transcriptomics (RRST), a workflow designed to improve mRNA recovery from fresh frozen specimens with moderate to low RNA quality. First, we provide a benchmark of RRST against the standard Visium spatial gene expression protocol on high RNA quality samples represented by mouse brain and prostate cancer samples. Then, we test the RRST protocol on tissue sections collected from five challenging tissue types, including human lung, colon, small intestine, pediatric brain tumor, and mouse bone/cartilage. In total, we analyze 52 tissue sections and demonstrate that RRST is a versatile, powerful, and reproducible protocol for fresh frozen specimens of different qualities and origins.
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- Tabansky, Inna, et al.
(author)
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Temporally-patterned deep brain stimulation in a mouse model of multiple traumatic brain injury
- 2014
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In: Behavioural Brain Research. - : Elsevier. - 0166-4328 .- 1872-7549. ; 273, s. 123-132
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Journal article (peer-reviewed)abstract
- We report that mice with closed-head multiple traumatic brain injury (TBI) show a decrease in the motoric aspects of generalized arousal, as measured by automated, quantitative behavioral assays. Further, we found that temporally-patterned deep brain stimulation (DBS) can increase generalized arousal and spontaneous motor activity in this mouse model of TBI. This arousal increase is input-pattern-dependent, as changing the temporal pattern of DBS can modulate its effect on motor activity. Finally, an extensive examination of mouse behavioral capacities, looking for deficits in this model of TBI, suggest that the strongest effects of TBI in this model are found in the initiation of any kind of movement.
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- Di Baldassarre, Giuliano, et al.
(author)
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Sociohydrology : Scientific Challenges in Addressing the Sustainable Development Goals
- 2019
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In: Water resources research. - 0043-1397 .- 1944-7973. ; 55:8, s. 6327-6355
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Journal article (peer-reviewed)abstract
- The Sustainable Development Goals (SDGs) of the United Nations Agenda 2030 represent an ambitious blueprint to reduce inequalities globally and achieve a sustainable future for all mankind. Meeting the SDGs for water requires an integrated approach to managing and allocating water resources, by involving all actors and stakeholders, and considering how water resources link different sectors of society. To date, water management practice is dominated by technocratic, scenario-based approaches that may work well in the short term but can result in unintended consequences in the long term due to limited accounting of dynamic feedbacks between the natural, technical, and social dimensions of human-water systems. The discipline of sociohydrology has an important role to play in informing policy by developing a generalizable understanding of phenomena that arise from interactions between water and human systems. To explain these phenomena, sociohydrology must address several scientific challenges to strengthen the field and broaden its scope. These include engagement with social scientists to accommodate social heterogeneity, power relations, trust, cultural beliefs, and cognitive biases, which strongly influence the way in which people alter, and adapt to, changing hydrological regimes. It also requires development of new methods to formulate and test alternative hypotheses for the explanation of emergent phenomena generated by feedbacks between water and society. Advancing sociohydrology in these ways therefore represents a major contribution toward meeting the targets set by the SDGs, the societal grand challenge of our time. Plain Language Summary Water crises that humanity faces are increasingly connected and are growing in complexity. As such, they require a more integrated approach in managing water resources, which involves all actors and stakeholders and considers how water resources link different sectors of society. Yet, water management practice is still dominated by technocratic approaches, which emphasize technical solutions. While these approaches may work in the short-term, they often result in unintended consequences in the long-term. Sociohydrology is developing a generalizable understanding of the interactions and feedbacks between natural,technical and social processes, which can improve water management practice. As such, advancing sociohydrology can contribute to address the global water crises and meet the water-related targets defined by the United Nations' Sustainable Development Goals.
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- Zhirnov, Ivan, et al.
(author)
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Measurement of Basic Geometric Characteristics of Particle Flow Between Surfacing Head and Substrate
- 2017
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In: Measurement techniques. - : Springer Science and Business Media LLC. - 0543-1972 .- 1573-8906. ; 59:11, s. 1187-1190
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Journal article (peer-reviewed)abstract
- We present a method of determining the geometric characteristics of gas-powder flow during laser cladding with coaxial injection. We evaluate the effect of the operating parameters (feed rate and channel width of powder injection) on the geometry of particle flow. Optical diagnostics of the laser cladding is carried out by an infrared camera.
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