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| 2. |
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| 3. |
- Lahtinen, AK, et al.
(författare)
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Clinically relevant germline variants in allogeneic hematopoietic stem cell transplant recipients
- 2023
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Ingår i: Bone marrow transplantation. - : Springer Science and Business Media LLC. - 1476-5365 .- 0268-3369. ; 58:1, s. 39-45
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Tidskriftsartikel (refereegranskat)abstract
- Allogeneic hematopoietic stem cell transplantation (HSCT) provides patients with severe hematologic disease a well-established potential for curation. Incorporation of germline analyses in the workup of HSCT patients is not a common practice. Recognizing rare harmful germline variants may however affect patients’ pre-transplantation care, choice of the stem cell donor, and complication risks. We analyzed a population-based series of germline exome data of 432 patients who had undergone HSCT. Our aim was to identify clinically relevant variants that may challenge the outcome of the HSCT. We focused on genes predisposing to hematological diseases, or solid tumors, and genes included in the American College of Medical Genetics secondary findings list v3.0. As population-specific controls, we used GnomAD non-cancer Finns (n = 10,816). We identified in our population-based analysis rare harmful germline variants in disease-predisposing or actionable toxicity-increasing genes in 17.8% of adult and pediatric patients that have undergone HSCT (15.1% and 22.9%, respectively). More than half of the patients with a family member as a donor had not received genetic diagnosis prior to the HSCT. Our results encourage clinicians to incorporate germline genetic testing in the HSCT protocol in the future in order to reach optimal long-term outcome for the patients.
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| 4. |
- Cui, Y., et al.
(författare)
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Simultaneous Predictive Gaussian Classifiers
- 2016
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Ingår i: Journal of Classification. - : Springer-Verlag New York. - 0176-4268 .- 1432-1343. ; , s. 1-30
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Tidskriftsartikel (refereegranskat)abstract
- Gaussian distribution has for several decades been ubiquitous in the theory and practice of statistical classification. Despite the early proposals motivating the use of predictive inference to design a classifier, this approach has gained relatively little attention apart from certain specific applications, such as speech recognition where its optimality has been widely acknowledged. Here we examine statistical properties of different inductive classification rules under a generic Gaussian model and demonstrate the optimality of considering simultaneous classification of multiple samples under an attractive loss function. It is shown that the simpler independent classification of samples leads asymptotically to the same optimal rule as the simultaneous classifier when the amount of training data increases, if the dimensionality of the feature space is bounded in an appropriate manner. Numerical investigations suggest that the simultaneous predictive classifier can lead to higher classification accuracy than the independent rule in the low-dimensional case, whereas the simultaneous approach suffers more from noise when the dimensionality increases.
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| 5. |
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| 6. |
- Cunningham, J.A., et al.
(författare)
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Current heavy drinkers reasons for considering change : Results from a natural history general population survey
- 2005
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Ingår i: Addictive Behaviours. - 0306-4603 .- 1873-6327. ; 30:3, s. 581-584
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Tidskriftsartikel (refereegranskat)abstract
- Current heavy drinkers were recruited from a general population random-digit dialing telephone survey. Comparisons were made between those who were considering or not considering change. Those considering reducing or quitting their drinking in the next 6 months were asked their reasons for considering change. Respondents considering change had more severe alcohol problems and perceived more risk associated with their drinking as compared with those not considering change. The most common reasons for considering change were health and financial concerns.
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| 7. |
- Cunningham, J.A., et al.
(författare)
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Maturing Out of Drinking Problems : Perceptions of Natural History as a Function of Severity
- 2005
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Ingår i: Addiction Research and Theory. - : Informa UK Limited. - 1058-6989 .- 1606-6359 .- 1476-7392. ; 13:1, s. 79-84
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Tidskriftsartikel (refereegranskat)abstract
- This study tested the hypothesis that maturing out descriptions of change were more common among respondents whose drinking problems were less severe prior to reduction and that consequence driven changes were more common among those who had a lifetime diagnosis of alcohol dependence, prior to resolution. As part of a general population telephone survey, former heavy drinkers were asked their reasons for change. These responses were tape-recorded, transcribed and then coded into three categories – consequence driven reasons, drifting out reasons and reflective maturational reasons. As predicted, drifting out reasons were more often provided by those with less severe alcohol use and consequence related reasons appeared associated with respondents who had had more severe alcohol problems. The differing descriptions of pathways to change observed in natural history studies may be the result of research that captures only partial samples of the larger population of former heavy drinkers.
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| 8. |
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| 9. |
- Beal, Jacob, et al.
(författare)
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Robust estimation of bacterial cell count from optical density
- 2020
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Ingår i: Communications Biology. - : Springer Science and Business Media LLC. - 2399-3642. ; 3:1
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Tidskriftsartikel (refereegranskat)abstract
- Optical density (OD) is widely used to estimate the density of cells in liquid culture, but cannot be compared between instruments without a standardized calibration protocol and is challenging to relate to actual cell count. We address this with an interlaboratory study comparing three simple, low-cost, and highly accessible OD calibration protocols across 244 laboratories, applied to eight strains of constitutive GFP-expressing E. coli. Based on our results, we recommend calibrating OD to estimated cell count using serial dilution of silica microspheres, which produces highly precise calibration (95.5% of residuals <1.2-fold), is easily assessed for quality control, also assesses instrument effective linear range, and can be combined with fluorescence calibration to obtain units of Molecules of Equivalent Fluorescein (MEFL) per cell, allowing direct comparison and data fusion with flow cytometry measurements: in our study, fluorescence per cell measurements showed only a 1.07-fold mean difference between plate reader and flow cytometry data.
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| 10. |
- Gyllenberg, M, et al.
(författare)
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New methods for the analysis of binarized BIOLOG GN data of vibrio species : Minimization of stochastic complexity and cumulative classification
- 2002
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Ingår i: Systematic and Applied Microbiology. - : Elsevier BV. - 0723-2020 .- 1618-0984. ; 25:3, s. 403-415
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Tidskriftsartikel (refereegranskat)abstract
- We apply minimization of stochastic complexity and the closely related method of cumulative classification to analyse the extensively studied BIOLOG GN data of Vibrio spp. Minimization of stochastic complexity provides an objective tool of bacterial taxonomy as it produces classifications that are optimal from the point of view of information theory. We compare the outcome of our results with previously published classifications of the same data set. Our results both confirm earlier detected relationships between species and discover new ones.
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| 11. |
- Gyllenberg, Mats, et al.
(författare)
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Non-uniqueness of numerical taxonomic structures
- 1993
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Ingår i: Binary Computing in Microbiology. - 0266-304X. ; 5:4, s. 138-144
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Tidskriftsartikel (refereegranskat)abstract
- The most important methods of numerical taxonomy in microbiology are based on so called reference matrices giving the frequencies of positive binary features of the different taxa. Microbiologists seem to have been tacitly assuming that every well-defined classification method, that is, every algorithm for constructing a reference matrix from data, leads to a unique classification (reference matrix). We use a mathematical result-that a finite mixture of multivariate Bernoulli distributions is always unidentifiable-to disprove this assumption. We show that the same classification method applied to the same data can always lead to different classifications. This result is of importance for the foundations of computational microbial taxonomy. It is illustrated by simple examples from the two main methods of classification and identification: the one where classification is performed first and then followed by identification, and cumulative classification where classification and identification are carried out simultaneously. The consequences of the non-uniqueness result for microbiological practice are discussed
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| 12. |
- Hamari, Lotta, et al.
(författare)
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Association of Self-Perceived Physical Competence and Leisure-Time Physical Activity in Childhood : A Follow-Up Study
- 2017
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Ingår i: Journal of School Health. - : John Wiley & Sons. - 0022-4391 .- 1746-1561. ; 87:4, s. 236-243
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Tidskriftsartikel (refereegranskat)abstract
- BACKGROUNDThe basis of self-perceived physical competence is built in childhood and school personnel have an important role in this developmental process. We investigated the association between initial self-perceived physical competence and reported leisure-time physical activity (LTPA) longitudinally in 10-, 12-, and 15-year-old children.METHODSThis longitudinal follow-up study comprises pupils from an elementary school cohort (N = 1346) in the city of Turku, Finland (175,000 inhabitants). The self-perceived physical competence (fitness and appearance) and LTPA data were collected with questionnaires. The full longitudinal data were available from 571 pupils based on repeated studies at the ages of 10, 12, and 15 years in 2004, 2006, and 2010. We analyzed the association of self-perceived physical competence and LTPA using regression models.RESULTSSelf-perceived physical competence was positively associated with LTPA at all ages (10 years p < .05, 12 years p < .0001, 15 years p < .0001). Increase in the self-perceived physical fitness scores was likely to associate with higher LTPA at each age point (10 years [odds ratio, OR] = 1.18, 95% confidence interval, CI: 1.09-1.27; 12 years [OR] = 1.27, 95% CI: 1.18-1.37; and 15 years [OR] = 1.28, 95% CI: 1.19-1.38).CONCLUSIONSSelf-perceived physical competence is associated with LTPA in children and adolescents, and the association is strengthened with age.
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| 13. |
- Karppinen, Jaro, et al.
(författare)
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Evaluation of training in guideline‐oriented biopsychosocial management of low back pain in occupational health services : Protocol of a cluster randomized trial
- 2021
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Ingår i: Health Science Reports. - : John Wiley & Sons. - 2398-8835. ; 4:1
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Tidskriftsartikel (refereegranskat)abstract
- BackgroundTo prevent low back pain (LBP) from developing into a prolonged disabling condition, clinical guidelines advocate early stage assessment, risk‐screening, and tailored interventions. Occupational health services recommend guideline‐oriented biopsychosocial screening and individualized assessment and management. However, it is not known whether training a limited number of health care professionals improves the management process. The primary objective of this study is to investigate whether training in the biopsychosocial practice model is effective in reducing disability. Furthermore, we aim to evaluate health‐economic impacts of the training intervention in comparison to usual medical care.MethodsThe occupational health service units will be allocated into a training or control arm in a two‐arm cluster randomized controlled design. The training of occupational physiotherapists and physicians will include the assessment of pain‐related psychosocial factors using the STarT Back Tool and the short version of the Örebro Musculoskeletal Pain Screening Questionnaire, the use of an evidence‐based patient education booklet as part of the management of LBP, and tailored individualized management of LBP according to risk stratification. The control units will receive no training. The study population will include patients aged 18–65 with nonspecific LBP. The primary outcome is a patient‐reported Oswestry Disability Index from baseline to 12 months. By estimating group differences over time, we aim to evaluate the effectiveness of the training intervention in comparison to usual medical care, and to undertake an economic evaluation using individual patients' health care records (participant‐level data) and the participating units' registries (cluster‐level data). In addition, through interviews and questionnaires, we will explore the health care professionals' conceptions of the adoption of, the barriers to, and the facilitators of the implementation of the practice model.DiscussionThe evaluation of training in the guideline‐oriented biopsychosocial management of LBP in occupational health services is justified because LBP represents an enormous burden in terms of work disability.
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| 14. |
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| 15. |
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| 16. |
- Koski, Timo J. T., et al.
(författare)
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The Minimal Hoppe-Beta Prior Distribution for Directed Acyclic Graphs and Structure Learning
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Annan publikation (övrigt vetenskapligt/konstnärligt)abstract
- The main contribution of this article is a new prior distribution over directed acyclic graphs intended for structured Bayesian networks, where the structure is given by an ordered block model. That is, the nodes of the graph are objects which fall into categories or blocks; the blocks have a natural ordering or ranking. The presence of a relationship between two objects is denoted by a directed edge, from the object of category of lower rank to the object of higher rank. The models considered here were introduced in Kemp et al. [7] for relational data and extended to multivariate data in Mansinghka et al. [12].We consider the situation where the nodes of the graph represent random variables, whose joint probability distribution factorises along the DAG. We use a minimal layering of the DAG to express the prior. We describe Monte Carlo schemes, with a similar generative that was used for prior, for finding the optimal a posteriori structure given a data matrix and compare the performance with Mansinghka et al. and also with the uniform prior.
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| 17. |
- Kozlowsky-Suzuki, B, et al.
(författare)
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Feeding, reproduction and toxin accumulation by the copepods Acartia bifilosa and Eurytemora affinis in the presence of the toxic cyanobacterium Nodularia spumigena
- 2003
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Ingår i: Marine Ecology - Progress Series. - 1616-1599. ; 249, s. 237-249
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Tidskriftsartikel (refereegranskat)abstract
- Feeding, reproduction and accumulation of cyanobacterial toxins by the calanoid copepods Acartia bifilosa and Eurytemora affinis were studied during a cruise in the northern Baltic Sea. The experiments were carried out using both mixtures of natural plankton communities, mixtures containing the toxic Nodularia spumigena, and diets containing only the toxic cyanobacterium. Both copepod species had a high survival and fed actively on N. spumigena, both as a single food source and when offered in mixtures. Feeding on N. spumigena resulted in the detection of nodularin equivalents in the animals. However, there was a negative relationship between the gross growth efficiency and accumulated toxins, which indicates that the food quality was not ideal, possibly related to a high metabolic cost to cope with ingested toxins. Overall low egg production rates by both species and low egg hatching success by A. bifilosa in natural seawater suggested that the copepods were food-limited in the environment. The presence of Brachiomonas submarina offered in combination with N. spumigena enhanced A. bifilosa egg production, but not egg hatching success. Egg hatching success was not affected by increasing concentrations of N. spumigena in the diet. Instead, lack of food seemed to be a more important factor. Similar responses by E. affinis populations from sites with different history of toxin occurrence suggest that tolerance to cyanobacterial toxins has evolved in the Baltic Sea. This has possibly been guaranteed by genetic exchange between the 2 populations. These results suggest that N. spumigena is not directly harmful to copepods if an alternative food source is available, even though reproduction is not sustained if the species is offered as a single diet. Moreover, even if both copepods might act as a link transporting toxins to higher trophic levels, a very small fraction of the estimated ingested toxin was found in the animals, therefore the relative importance of this pathway seems limited.
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| 18. |
- Lissner, Lauren, 1956, et al.
(författare)
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Statement by Members of the Task Force on Prevention and Public Health of the European Association for the Study of Obesity (EASO)
- 2009
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Ingår i: Obesity Facts. - 1662-4025. ; 2:1, s. 54-55
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Tidskriftsartikel (refereegranskat)abstract
- This document is signed by all members of the task force, who will contribute knowledge on the problem of obesity in the various regions of Europe. It is apparent from the wide range of available prevalence estimates that the magnitude of the obesity epidemic varies across Europe. However certain similarities are present, including consistent but varying increases in prevalence in all countries from the end of the 20th century to the present, together with clear inverse socioeconomic gradients. The lack of harmonized surveillance efforts across Europe makes international monitoring and comparative assessments imprecise at best. A particularly worrisome aspect of this epidemic is the recently observed increase in the proportion of European children with overweight and obesity. The Task Force is in agreement that the epidemic reflects changing lifestyles and environments and that prevention can only be achieved by identifying and arresting these trends, a statement that has been repeated by many groups advocating obesity prevention over the years. For instance, in 1999 the Milan Declaration was made on behalf of all members of the EASO, resolving to support the development of coherent national and Europe-wide strategies for the prevention and management of overweight and obesity. Since then, there have been recent steps to develop a public health strategy for obesity prevention across Europe, including most notably the 2006 European Ministerial Conference on Counteracting Obesity in the European Region. At that time, all member states of WHO Europe met in Istanbul and explicitly agreed on an ecological approach to fighting the obesity epidemic, with a charter recognizing that counteracting obesity requires a multidisciplinary effort with a timeline for improvements (www.euro.who.int/ document/E89567.pdf). In this context, the vision of our Task Force is to provide guidance and leadership to researchers, governments, and agencies that are trying to fulfill the charter developed in Istanbul and other recent initiatives. Specifically, we will support and strengthen research and interventions to improve prevention of obesity across Europe, within the framework of the EASO.
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| 19. |
- Olowoyo, J. O., et al.
(författare)
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Blood lead concentrations in exposed forecourt attendants and taxi drivers in parts of South Africa
- 2024
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Ingår i: Journal of Trace Elements in Medicine and Biology. - 0946-672X .- 1878-3252. ; 81
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Tidskriftsartikel (refereegranskat)abstract
- Background: Leaded fuel was banned in South Africa in 2006, in order to improve human health and reduce environmental pollution. Lead (Pb) has been suggested to contribute to the development of neurodegenerative disorders, and the role of respiratory exposure to Pb from petrol fumes should not be neglected in this context. In addition to Pb, petrol contains various harmful chemicals including other neurotoxic metals and hydrocarbons.Objectives and Methods: Here, we investigated concentrations of Pb and other metals in blood from petrol station forecourt attendants (n = 38), taxi drivers (n = 21), and unexposed controls (n = 36). Taxi drivers and forecourt attendants were divided into three groups each, based on number of years worked. A questionnaire was designed to investigate the health status of the participants. Blood samples were collected by medical professionals and analyzed for metal concentrations by ICP-MS.Results: A positive correlation between number of years worked and Pb blood concentrations was found. The highest Pb concentration (60.2 µg/L) was observed in a forecourt attendant who had worked 11–20 years, and the average Pb concentration in this group (24.5 µg/L) was significantly (p < 0.05) higher than in forecourt attendants who had worked 2–5 years (10.4 µg/L). Some individuals had elevated concentrations of manganese, arsenic, cadmium, chromium and cobalt, yet not significantly elevated at the group level. The blood levels of arsenic appeared to be related to smoking. Mood swings, dizziness, headaches and tiredness were reported by the workers.Conclusion: Blood Pb concentrations in petrol station forecourt attendants and taxi drivers exposed to leaded petrol are elevated and correlate to exposure time. A health monitoring program should be erected for all individuals working in these industries, and preventive measures should be implemented to eliminate metal exposure from petrol.
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| 20. |
- Rantakari, Krista, et al.
(författare)
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Early oxygen levels contribute to brain injury in extremely preterm infants
- 2021
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Ingår i: Pediatric Research. - : Springer Science and Business Media LLC. - 0031-3998 .- 1530-0447. ; 90, s. 131-139
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Tidskriftsartikel (refereegranskat)abstract
- BACKGROUND Extremely low gestational age newborns (ELGANs) are at risk of neurodevelopmental impairments that may originate in early NICU care. We hypothesized that early oxygen saturations (SpO(2)), arterial pO(2) levels, and supplemental oxygen (FiO(2)) would associate with later neuroanatomic changes.METHODS SpO(2), arterial blood gases, and FiO(2) from 73 ELGANs (GA 26.4 +/- 1.2; BW 867 +/- 179 g) during the first 3 postnatal days were correlated with later white matter injury (WM, MRI, n = 69), secondary cortical somatosensory processing in magnetoencephalography (MEG-SII, n = 39), Hempel neurological examination (n = 66), and developmental quotients of Griffiths Mental Developmental Scales (GMDS, n = 58).RESULTS The ELGANs with later WM abnormalities exhibited lower SpO(2) and pO(2) levels, and higher FiO(2) need during the first 3 days than those with normal WM. They also had higher pCO(2) values. The infants with abnormal MEG-SII showed opposite findings, i.e., displayed higher SpO(2) and pO(2) levels and lower FiO(2) need, than those with better outcomes. Severe WM changes and abnormal MEG-SII were correlated with adverse neurodevelopment.CONCLUSIONS Low oxygen levels and high FiO(2) need during the NICU care associate with WM abnormalities, whereas higher oxygen levels correlate with abnormal MEG-SII. The results may indicate certain brain structures being more vulnerable to hypoxia and others to hyperoxia, thus emphasizing the role of strict saturation targets. Impact This study indicates that both abnormally low and high oxygen levels during early NICU care are harmful for later neurodevelopmental outcomes in preterm neonates. Specific brain structures seem to be vulnerable to low and others to high oxygen levels. The findings may have clinical implications as oxygen is one of the most common therapies given in NICUs. The results emphasize the role of strict saturation targets during the early postnatal period in preterm infants.
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| 21. |
- Sorkio, Susa, et al.
(författare)
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Breastfeeding patterns of mothers with type 1 diabetes: results from an infant feeding trial
- 2010
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Ingår i: DIABETES-METABOLISM RESEARCH AND REVIEWS. - : John Wiley and Sons, Ltd. - 1520-7552 .- 1520-7560. ; 26:3, s. 206-211
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Tidskriftsartikel (refereegranskat)abstract
- Background Both the initiation and maintenance of breastfeeding have been reported to be negatively affected by maternal type 1 diabetes (T1D). The aim of this study was to prospectively examine the breastfeeding patterns among mothers with and without T1D participating in a large international randomized infant feeding trial (TRIGR). Methods Families with a member affected by T1D and with a newborn infant were invited into the study. Those who had HLA-conferred genetic susceptibility for T1D tested at birth with gestation andgt;35 weeks and were healthy were eligible to continue in the trial. Among the 2160 participating children, 1096 were born to women with T1D and 1064 to unaffected women. Information on infant feeding was acquired from the family by frequent prospective dietary interviews. Results Most (andgt;90%) of the infants of mothers with and without T1D were initially breastfed. Breastfeeding rates declined more steeply among mothers with than without T1D being 50 and 72% at 6 months, respectively. Mothers with T1D were younger, less educated and delivered earlier and more often by caesarean section than other mothers (p andlt; 0.01). After adjusting for all these factors associated with the termination of breastfeeding, there was no difference in the duration of breastfeeding among mothers with and without T1D. Conclusions Maternal diabetes status per se was not associated with shorter breastfeeding. The lower duration of breastfeeding in mothers with T1D is largely explained by their more frequent caesarean sections, earlier delivery and lower age and education.
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| 22. |
- Thor, Peter, 1965, et al.
(författare)
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Supplemental effects of diet mixing on absorption of ingested organic carbon in the marine copepod Acartia tonsa
- 2007
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Ingår i: Marine Ecology Progress Series. ; 331, s. 131-138
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Tidskriftsartikel (refereegranskat)abstract
- We investigated increased carbon absorption efficiencies (AEs) as a possible cause for positive effects of diet mixing on copepod egg production rates (EPRs) and hatching success (EHS). Female Acartia tonsa were fed 14C/51Cr dual-labelled Dunaliella tertiolecta (Dun), Amphidinium carterae (Amp), Phaeocystis globosa (Pha), and 3 pairwise 1:1 mixes of the 3 diets. AEs, derived from the ratios of labels in algae and copepod faecal pellets, were 44% on Dun, 37% on Amp, and 49% on Pha, but increased significantly to 61% on Dun + Amp. As a result, EPRs remained low in all tested diets except for Dun + Amp, where it was twice that in the individual diets. Linear multiple regression analysis revealed that EPRs were strongly dependent on the ingestion and absorption of the fatty acids 18:3(n-3) and 22:6(n-3) so that the simultaneous ingestion and absorption of 18:3(n-3) from Dun and 22:6(n-3) from Amp enhanced EPR in the Dun + Amp diet. EHS was low with the Dun diet, which was devoid of 20:5(n-3) and 22:6(n-3). Multiple regression analysis showed that EHS depended on 16:1(n-7) and any or all of 22:6(n-3), 20:5(n-3), or 18:5(n-3).
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| 23. |
- Westerlind, H., et al.
(författare)
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Identity-by-descent mapping in a Scandinavian multiple sclerosis cohort
- 2015
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Ingår i: European Journal of Human Genetics. - : Springer Science and Business Media LLC. - 1018-4813 .- 1476-5438. ; 23:5, s. 688-692
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Tidskriftsartikel (refereegranskat)abstract
- In an attempt to map chromosomal regions carrying rare gene variants contributing to the risk of multiple sclerosis (MS), we identified segments shared identical-by-descent (IBD) using the software BEAGLE 4.0's refined IBD analysis. IBD mapping aims at identifying segments inherited from a common ancestor and shared more frequently in case-case pairs. A total of 2106 MS patients of Nordic origin and 624 matched controls were genotyped on Illumina Human Quad 660 chip and an additional 1352 ethnically matched controls typed on Illumina HumanHap 550 and Illumina 1M were added. The quality control left a total of 441 731 markers for the analysis. After identification of segments shared by descent and significance testing, a filter function for markers with low IBD sharing was applied. Four regions on chromosomes 5, 9, 14 and 19 were found to be significantly associated with the risk for MS. However, all markers but for one were located telomerically, including the very distal markers. For methodological reasons, such segments have a low sharing of IBD signals and are prone to be false positives. One marker on chromosome 19 reached genome-wide significance and was not one of the distal markers. This marker was located within the GNA11 gene, which contains no previous association with MS. We conclude that IBD mapping is not sufficiently powered to identify MS risk loci even in ethnically relatively homogenous populations, or that alternatively rare variants are not adequately present.
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