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- Buckley, Patrick G, et al.
(author)
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A full-coverage, high-resolution human chromosome 22 genomic microarrayfor clinical and research applications
- 2002
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In: Human Molecular Genetics. - : Oxford University Press (OUP). - 0964-6906 .- 1460-2083. ; 11:25, s. 3221-3229
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Journal article (peer-reviewed)abstract
- We have constructed the first comprehensive microarray representing a human chromosome for analysis of DNA copy number variation. This chromosome 22 array covers 34.7 Mb, representing 1.1% of the genome, with an average resolution of 75 kb. To demonstrate the utility of the array, we have applied it to profile acral melanoma, dermatofibrosarcoma, DiGeorge syndrome and neurofibromatosis 2. We accurately diagnosed homozygous/heterozygous deletions, amplifications/gains, IGLV/IGLC locus instability, and breakpoints of an imbalanced translocation. We further identified the 14-3-3 eta isoform as a candidate tumor suppressor in glioblastoma. Two significant methodological advances in array construction were also developed and validated. These include a strictly sequence defined, repeat-free, and non-redundant strategy for array preparation. This approach allows an increase in array resolution and analysis of any locus; disregarding common repeats, genomic clone availability and sequence redundancy. In addition, we report that the application of phi29 DNA polymerase is advantageous in microarray preparation. A broad spectrum of issues in medical research and diagnostics can be approached using the array. This well annotated and gene-rich autosome contains numerous uncharacterized disease genes. It is therefore crucial to associate these genes to specific 22q-related conditions and this array will be instrumental towards this goal. Furthermore, comprehensive epigenetic profiling of 22q-located genes and high-resolution analysis of replication timing across the entire chromosome can be studied using our array.
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- Diaz-Parejo, P, et al.
(author)
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Cerebral energy metabolism during transient hyperglycemia in patients with severe brain trauma
- 2003
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In: Intensive Care Medicine. - : Springer Science and Business Media LLC. - 0342-4642 .- 1432-1238. ; 29:4, s. 544-550
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Journal article (peer-reviewed)abstract
- Objective: To study whether transient hyperglycemia adversely affects cerebral energy metabolism in patients with severe traumatic brain lesions. Design and setting: Prospective, nonrandomized study in the neurosurgical intensive care unit of a university hospital. Patients: 108 patients treated for severe traumatic brain lesions. Interventions: All patients were treated according to neurosurgical intensive care routine including monitoring of, intracranial pressure. One microdialysis catheter was inserted via a burr hole frontally to that used for the intraventricular catheter ("better" position). In patients with focal lesions one or more catheters were inserted into cerebral cortex surrounding an evacuated focal contusion or underlying an evacuated hematoma ("worse" position). Perfusion rate was 0.3 mul/min and samples were taken every. 30 or 60 min. The levels of glucose, pyruvate, lactate, glutamate, and glycerol were analyzed and displayed bedside. Measurements and results: There were 18 episodes of moderate (12-15 mmol/1) and 6 episodes of pronounced (>15 mmol/1) hyperglycemia. Moderate hyperglycemia did not change intracerebral levels of lactate, pyruvate, glutamate, glycerol, or lactate/pyruvate ratio. Lactate concentrations increased during pronounced hyperglycemia. Pronounced cerebral lactic acidosis and a moderate increase in interstitial glycerol concentration indicating cell membrane degradation was observed in a single patient with pronounced, long-lasting hyperglycemia. Conclusions: Cerebral energy metabolism was affected by transient hyperglycemia only at blood glucose concentration above 15 mmol/l as shown by a moderate increase in interstitial lactate level.
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- Ehlers, Sarah, et al.
(author)
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Assessing Error Correlations in Remote Sensing-Based Estimates of Forest Attributes for Improved Composite Estimation
- 2018
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In: Remote Sensing. - : MDPI AG. - 2072-4292. ; 10
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Journal article (peer-reviewed)abstract
- Today, non-expensive remote sensing (RS) data from different sensors and platforms can be obtained at short intervals and be used for assessing several kinds of forest characteristics at the level of plots, stands and landscapes. Methods such as composite estimation and data assimilation can be used for combining the different sources of information to obtain up-to-date and precise estimates of the characteristics of interest. In composite estimation a standard procedure is to assign weights to the different individual estimates inversely proportional to their variance. However, in case the estimates are correlated, the correlations must be considered in assigning weights or otherwise a composite estimator may be inefficient and its variance be underestimated. In this study we assessed the correlation of plot level estimates of forest characteristics from different RS datasets, between assessments using the same type of sensor as well as across different sensors. The RS data evaluated were SPOT-5 multispectral data, 3D airborne laser scanning data, and TanDEM-X interferometric radar data. Studies were made for plot level mean diameter, mean height, and growing stock volume. All data were acquired from a test site dominated by coniferous forest in southern Sweden. We found that the correlation between plot level estimates based on the same type of RS data were positive and strong, whereas the correlations between estimates using different sources of RS data were not as strong, and weaker for mean height than for mean diameter and volume. The implications of such correlations in composite estimation are demonstrated and it is discussed how correlations may affect results from data assimilation procedures.
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- Karlmats, Ulf, et al.
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Björk på åkermark : - beståndsetablering eller betesbeskogning
- 2005
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Reports (other academic/artistic)abstract
- I ett bestånd med björk, planterad 1990 på nedlagd åkermark i 3x1 m förband har en jämförande studie gjorts. Halva arealen har traditionell skogsproduktion, vilken jämförts med en del med skötsel för kombinerad betesdrift och skogsproduktion. I arbetet redovisas utnyttjad metodik vid anläggning, markbehandling, ogräsbekämpning, stängsling och djurhållning, röjning och gallring, nuvarande och beräknad total produktion, grenrensning samt skador. Tre viktiga regler som har bidragit till den lyckosamma etableringen vid beskogningen av denna betesmark är kontinuerlig ogräsbekämpning, tidig och kraftfull röjning/gallring samt stängsling. In a birch stand established in 1990 on former agricultural land in a 3x1 m spacing a comparative study was made. Half the accerage has ad a traditional silviculture while the other half has been managed aiming at future grace land combined with wood production. In this paper we describe the establishment method used, soil treatment, weed protection, fencing and animal treatment, thinning, productivity and yield, furthermore pruning and occurrence of damages. Three important rules for establishment of silvipastures are continuous weed elimination, early, forceful thinning and good fencing.
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- Lindgren, Nils, et al.
(author)
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Data assimilation in stand level forest inventory – first results
- 2015
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In: Natural resources and bioeconomy studies. - 2342-7639. ; 29, s. 37-37
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Conference paper (other academic/artistic)abstract
- Data assimilation in stand-level forest inventory – first results Nils Lindgren 1 , Mattias Nyström1 , Jörgen Wallerman 1 , Sarah Ehlers 1 , Anton Grafström1 , Anders Muszta 1 , Kenneth Nyström1 , Erik Willen 2 , Johan Fransson 1 , Jonas Bohlin 1 , Håkan Olsson 1 , Göran Ståhl 1 1Swedish University of Agricultural Sciences, Umeå, Sweden 2Skogforsk, Uppsala, Sweden As we are entering an era of increased supply of remote sensing data, we believe that data assimilation has a large potential for keeping forest stand registers up to date (Ehlers et al. 2013). Data assimilation combines forecasts of previous estimates with new observations of the current state in an optimal way based on the uncertainties in the forecast and the observations. These forecasting and updating steps can be repeated with new available observations to get improved estimations. In the present study, we use canopy height models obtained from matching of digital aerial photos over the test site Remningstorp in Sweden, acquired 2003, 2005, 2007, 2009, 2010 and 2012 and normalized with a DEM from airborne laser scanning. Stem volume was estimated for each data acquisition and stand, using regression functions based on field reference data from sample plots. Forecasting was done with growth functions constructed from National Forest Inventory plots. The remote sensing estimates for each time point were assimilated with the forecasts of the previous estimates, using extended Kalman filtering. Validation was done on 40 m radius sample plots dominated by Norway spruce. Early results for three stands show that the variances were lower when using assimilation of new estimates and there was less fluctuation compared to repeated remote sensing estimates. The results for the assimilated data at year 2011 were also consistently closer to the validation data measured in 2011 compared to the remote sensing estimates from year 2011.
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