Browsing by Subject "COLLECTION"

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  • Silvennoinen, R.; Anttila, P.; Saily, M.; Lundan, T.; Heiskanen, J.; Siitonen, T. M.; Kakko, S.; Putkonen, M.; Ollikainen, H.; Terava, V.; Kutila, A.; Launonen, K.; Rasanen, A.; Sikio, A.; Suominen, M.; Bazia, P.; Kananen, K.; Selander, T.; Kuittinen, T.; Remes, K.; Jantunen, E. (2016)
    The most common means of mobilizing autologous stem cells is G-CSF alone or combined with cyclophosphamide (CY) to obtain sufficient CD34(+) cells for one to two transplants. There are few prospective, randomized studies investigating mobilization regimens in multiple myeloma (MM), especially after lenalidomide-based induction. We designed this prospective, randomized study to compare low-dose CY 2 g/m(2)+G-CSF (arm A) and G-CSF alone (arm B) after lenalidomide-based up-front induction in MM. Of the 80 initially randomized patients, 69 patients were evaluable, 34 and 35 patients in arms A and B, respectively. The primary end point was the proportion of patients achieving a yield of >= 3x10(6)/kg CD34(+) cells with 1 - 2 aphereses, which was achieved in 94% and 77% in arms A and B, respectively (P = 0.084). The median number of aphereses needed to reach the yield of >= 3x10(6)/kg was lower in arm A than in arm B (1 vs 2, P = 0.035). Two patients needed plerixafor in arm A and five patients in arm B (P = 0.428). Although CY-based mobilization was more effective, G-CSF alone was successful in a great majority of patients to reach the defined collection target after three cycles of lenalidomide-based induction.
  • Atashi, Nahid; Tuure, Juuso; Alakukku, Laura; Rahimi, Dariush; Pellikka, Petri; Zaidan, Martha Arbayani; Vuollekoski, Henri; Rasanen, Matti; Kulmala, Markku; Vesala, Timo; Hussein, Tareq (2021)
    Model evaluation against experimental data is an important step towards accurate model predictions and simulations. Here, we evaluated an energy-balance model to predict dew formation occurrence and estimate its amount for East-African arid-climate conditions against 13 months of experimental dew harvesting data in Maktau, Kenya. The model was capable of predicting the dew formation occurrence effectively. However, it overestimated the harvestable dew amount by about a ratio of 1.7. As such, a factor of 0.6 was applied for a long-term period (1979-2018) to investigate the spatial and temporal variation of the dew formation in Kenya. The annual average of dew occurrence in Kenya was similar to 130 days with dew yield > 0.1 L/m(2)/day. The dew formation showed a seasonal cycle with the maximum yield in winter and minimum in summer. Three major dew formation zones were identified after cluster analysis: arid and semi-arid regions; mountain regions; and coastal regions. The average daily and yearly maximum dew yield were 0.05 and 18; 0.9 and 25; and 0.15 and 40 L/m(2)/day; respectively. A precise prediction of dew occurrence and dew yield is very challenging due to inherent limitations in numerical models and meteorological input parameters.
  • Kareskoski, Maria; Venhoranta, Heli; Virtala, Anna-Maija; Katila, Terttu (2019)
    Artificial insemination (AI) with cooled stallion semen has increased markedly during the last decades in all countries, but fertility is often lower than when fresh semen or natural mating is used. The objective of this study was to examine field data (1634,cycles 523 Standardbred (SB) mares, 575 Finnhorse (FH) mares, and 90 stallions) using multivariable logistic regression for factors influencing the pregnancy rate (PR) after Al with cooled transported semen from SB and FH stallions. The PR per cycle for the material was 47%: Finnhorses 42% and Standardbreds 53%. When assessed with multivariable logistic regression analyses with a generalized linear mixed model, variables that affected the PR were breed, the number of inseminated estrus cycles, the percentage of progressively motile sperm (PMOT) in the ejaculate/AI dose at the time of shipment, and the number of progressively motile sperm in the Al dose at the time of insemination. In Standardbreds, variables that increased the per cycle PR were the number of Al per estrus cycle (multiple inseminations increasing the probability of pregnancy compared to only one insemination), the number of inseminated cycles, and PMOT in the AI dose at the time of insemination. In Finnhorses, the number of Al per estrus cycle (two and three inseminations increasing the probability of pregnancy compared to only one), the number of spermatozoa in the ejaculate and in the Al dose, and PMOT in the ejaculate/AI dose at the time of shipment increased the per cycle PR. Non-significant factors for the whole material included the type of artificial vagina (open-ended or closed), transport time, place of Al (stud farm or home stable), insemination done by veterinarian or technician, weekday, month, age of the mare (all age classes combined), age of the stallion, ejaculate parameters (sperm concentration, total number of sperm), and insemination dose parameters (volume proportion of seminal plasma, sperm concentration, PMOT, total number of sperm). In conclusion, breed, breeding opportunity in more than one cycle, more than one insemination/estrus, PMOT of the ejaculate/AI dose and the number of progressively motile sperm in the Al dose at the time of insemination are important for the outcome of inseminations with cooled semen. (C) 2018 Elsevier Inc. All rights reserved.
  • Bagheri, Mehrdad; Mladenović, Miloš N.; Kosonen, Iisakki; Nurminen, Jukka K (2020)
    Given the necessity to understand the modal shift potentials at the level of individual travel times, emissions, and physically active travel distances, there is a need for accurately computing such potentials from disaggregated data collection. Despite significant development in data collection technology, especially by utilizing smartphones, there are limited efforts in developing useful computational frameworks for this purpose. First, development of a computational framework requires longitudinal data collection of revealed travel behavior of individuals. Second, such a computational framework should enable scalable analysis of time-relevant low-carbon travel alternatives in the target region. To this end, this research presents an open-source computational framework, developed to explore the potential for shifting from private car to lower-carbon travel alternatives. In comparison to previous development, our computational framework estimates and illustrates the changes in travel time in relation to the potential reductions in emission and increases in physically active travel, as well as daily weather conditions. The potential usefulness of the framework was evaluated using long-term travel data of around a hundred travelers within the Helsinki Metropolitan Region, Finland. The case study outcomes also suggest that in several cases traveling by public transport or bike would not increase travel time compared to the observed car travel. Based on the case study results, we discuss potentially acceptable travel times for mode shift, and usefulness of the computational framework for decisions regarding transition to sustainable urban mobility systems. Finally, we discuss limitations and lessons learned for data collection and further development of similar computational frameworks.
  • Tanhuanpää, Pirjo; Erkkilä, Maria; Kalendar, Ruslan; Schulman, Alan Howard; Manninen, Outi (2016)
    Timothy (Phleum pratense L.), a cool-season hexaploid perennial, is the most important forage grass species in Nordic countries. Earlier analyses of genetic diversity in a collection of 96 genebank accessions of timothy with SSR markers demonstrated high levels of diversity but could not resolve population structure. Therefore, we examined a subset of 51 accessions with REMAP markers, which are based on retrotransposons, and compared the diversity results with those obtained with SSR markers.
  • Atashi, Nahid; Rahimi, Dariush; Sinclair, Victoria A.; Zaidan, Martha A.; Rusanen, Anton; Vuollekoski, Henri; Kulmala, Markku; Vesala, Timo; Hussein, Tareq (2021)
    Dew is a non-conventional source of water that has been gaining interest over the last two decades, especially in arid and semi-arid regions. In this study, we performed a long-term (1979-2018) energy balance model simulation to estimate dew formation potential in Iran aiming to identify dew formation zones and to investigate the impacts of long-term variation in meteorological parameters on dew formation. The annual average of dew occurrence in Iran was similar to 102 d, with the lowest number of dewy days in summer (similar to 7 d) and the highest in winter (similar to 45 d). The average daily dew yield was in the range of 0.03-0.14 Lm(-2) and the maximum was in the range of 0.29-0.52 Lm(-2). Six dew formation zones were identified based on cluster analysis of the time series of the simulated dew yield. The distribution of dew formation zones in Iran was closely aligned with topography and sources of moisture. Therefore, the coastal zones in the north and south of Iran (i.e., Caspian Sea and Oman Sea), showed the highest dew formation potential, with 53 and 34 Lm(-2) yr(-2), whereas the dry interior regions (i.e., central Iran and the Lut Desert), with the average of 12-18 Lm(-2) yr(-2), had the lowest potential for dew formation. Dew yield estimation is very sensitive to the choice of the heat transfer coefficient. The uncertainty analysis of the heat transfer coefficient using eight different parameterizations revealed that the parameterization used in this study the Richards (2004) formulation - gives estimates that are similar to the average of all methods and are neither much lower nor much higher than the majority of other parameterizations and the largest differences occur for the very low values of daily dew yield. Trend analysis results revealed a significant (p < 0:05) negative trend in the yearly dew yield in most parts of Iran during the last 4 decades (1979-2018). Such a negative trend in dew formation is likely due to an increase in air temperature and a decrease in relative humidity and cloudiness over the 40 years.
  • Xu, Cheng-Jian; Soderhall, Cilla; Bustamante, Mariona; Baiz, Nour; Gruzieva, Olena; Gehring, Ulrike; Mason, Dan; Chatzi, Leda; Basterrechea, Mikel; Llop, Sabrina; Torrent, Maties; Forastiere, Francesco; Fantini, Maria Pia; Carlsen, Karin C. Lodrup; Haahtela, Tari; Morin, Andreanne; Kerkhof, Marjan; Merid, Simon Kebede; van Rijkom, Bianca; Jankipersadsing, Soesma A.; Bonder, Marc Jan; Ballereau, Stephane; Vermeulen, Cornelis J.; Aguirre-Gamboa, Raul; de Jongste, Johan C.; Smit, Henriette A.; Kumar, Ashish; Pershagen, Goran; Guerra, Stefano; Garcia-Aymerich, Judith; Greco, Dario; Reinius, Lovisa; McEachan, Rosemary R. C.; Azad, Raf; Hovland, Vegard; Mowinckel, Petter; Alenius, Harri; Fyhrquist, Nanna; Lemonnier, Nathanael; Pellet, Johann; Auffray, Charles; van der Vlies, Pieter; van Diemen, Cleo C.; Li, Yang; Wijmenga, Cisca; Netea, Mihai G.; Moffatt, Miriam F.; Cookson, William O. C. M.; Anto, Josep M.; Kere, Juha (2018)
    Background DNA methylation profiles associated with childhood asthma might provide novel insights into disease pathogenesis. We did an epigenome-wide association study to assess methylation profiles associated with childhood asthma. Methods We did a large-scale epigenome-wide association study (EWAS) within the Mechanisms of the Development of ALLergy (MeDALL) project. We examined epigenome-wide methylation using Illumina Infinium Human Methylation450 BeadChips (450K) in whole blood in 207 children with asthma and 610 controls at age 4-5 years, and 185 children with asthma and 546 controls at age 8 years using a cross-sectional case-control design. After identification of differentially methylated CpG sites in the discovery analysis, we did a validation study in children (4-16 years; 247 cases and 2949 controls) from six additional European cohorts and meta-analysed the results. We next investigated whether replicated CpG sites in cord blood predict later asthma in 1316 children. We subsequently investigated cell-type-specific methylation of the identified CpG sites in eosinophils and respiratory epithelial cells and their related gene-expression signatures. We studied cell-type specificity of the asthma association of the replicated CpG sites in 455 respiratory epithelial cell samples, collected by nasal brushing of 16-year-old children as well as in DNA isolated from blood eosinophils (16 with asthma, eight controls [age 2-56 years]) and compared this with whole-blood DNA samples of 74 individuals with asthma and 93 controls (age 1-79 years). Whole-blood transcriptional profiles associated with replicated CpG sites were annotated using RNA-seq data of subsets of peripheral blood mononuclear cells sorted by fluorescence-activated cell sorting. Findings 27 methylated CpG sites were identified in the discovery analysis. 14 of these CpG sites were replicated and passed genome-wide significance (p Interpretation Reduced whole-blood DNA methylation at 14 CpG sites acquired after birth was strongly associated with childhood asthma. These CpG sites and their associated transcriptional profiles indicate activation of eosinophils and cytotoxic T cells in childhood asthma. Our findings merit further investigations of the role of epigenetics in a clinical context.
  • Mäkitie, Antti A.; Almangush, Alhadi; Youssef, Omar; Metsälä, Markus; Silen, Suvi; Nixon, Iain J.; Haigentz, Missak; Rodrigo, Juan P.; Saba, Nabil F.; Vander Poorten, Vincent; Ferlito, Alfio (2020)
    Head and neck cancer (HNC) comprises a heterogeneous group of upper aerodigestive tract malignant neoplasms, the most frequent of which is squamous cell carcinoma. HNC forms the eighth most common cancer type and the incidence is increasing. However, survival has improved only moderately during the past decades. Currently, early diagnosis remains the mainstay for improving treatment outcomes in this patient population. Unfortunately, screening methods to allow early detection of HNC are not yet established. Therefore, many cases are still diagnosed at advanced stage, compromising outcomes. Exhaled breath analysis (EBA) is a diagnostic tool that has been recently introduced for many cancers. Breath analysis is non-invasive, cost-effective, time-saving, and can potentially be applied for cancer screening. Here, we provide a summary of the accumulated evidence on the feasibility of EBA in the diagnosis of HNC.
  • Atashi, Nahid; Rahimi, Dariush; Al Kuisi, Mustafa; Jiries, Anwar; Vuollekoski, Henri; Kulmala, Markku; Vesala, Timo; Hussein, Tareq (2020)
    In this study, we performed model simulations to investigate the spatial, seasonal, and annual dew yield during 40 years (1979-2018) at ten locations reflecting the variation of climate and environmental conditions in Jordan. In accordance with the climate zones in Jordan, the dew formation had distinguished characteristics features with respect to the yield, seasonal variation, and spatial variation. The highest water dew yield (an overall annual mean cumulative dew yield as high as 88 mm) was obtained for theMountains Heights Plateau, which has a Mediterranean climate. The least dew yield (as low as 19 mm) was obtained inBadia, which has an arid climate. The dew yield had a decreasing trend in the past 40 years due to climate change impacts such as increased desertification and the potential of sand and dust storms in the region. In addition, increased anthropogenic air pollution slows down the conversion of vapor to liquid phase change, which also impacts the potential of dew formation. The dew yield showed three distinguished seasonal patterns reflecting the three climates in Jordan. TheMountains Heights Plateau(Mediterranean climate) has the highest potential for dew harvesting (especially during the summer) thanBadia(semi-arid climate).
  • Frank, C.; Fallah, M.; Sundquist, J.; Hemminki, Akseli; Hemminki, K. (2015)
    Public perception and anxiety of familial cancer have increased demands for clinical counseling, which may be well equipped for gene testing but less prepared for counseling of the large domain of familial cancer with unknown genetic background. The aim of the present study was to highlight the full scope of familial cancer and the variable levels of risk that need to be considered. Data on the 25 most common cancers were obtained from the Swedish Family Cancer Database and a Poisson regression model was applied to estimate relative risks (RR) distinguishing between family histories of single or multiple affected first-degree relatives and their diagnostic ages. For all cancers, individual risks were significantly increased if a parent or a sibling had a concordant cancer. While the RRs were around 2.00 for most cancers, risks were up to 10-fold increased for some cancers. Familial risks were even higher when multiple relatives were affected. Although familial risks were highest at ages below 60 years, most familial cases were diagnosed at older ages. The results emphasized the value of a detailed family history as a readily available tool for individualized counseling and its preventive potential for a large domain of non-syndromatic familial cancers.
  • Jonauskaite, Domicele; Abdel-Khalek, Ahmed; Abu-Akel, Ahmad; Al-Rasheed, Abdulrahman Saud; Antonietti, Jean-Philippe; Ásgeirsson, Árni Gunnar; Atitsogbe, Kokou Amenyona; Barma, Marodégueba; Barratt, Daniel; Bogushevskaya, Victoria; Bouayed Meziane, Maliha Khadidja; Chamseddine, Amer; Charernboom, Thammanard; Chkonia, Eka; Ciobanu, Teofil; Corona, Violeta; Creed, Allison; Dael, Nele; Daouk, Hassan; Dimitrova, Nevena; Doorenbos, Cornelis B.; Fomins, Sergejs; Fonseca-Pedrero, Eduardo; Gaspar, Augusta; Gizdic, Alena; Griber, Yulia A.; Grimshaw, Gina; Hasan Aya, Ahmed; Havelka, Jelena; Hirnstein, Marco; Karlsson, Bodil S.A.; Kim, Jejoong; Konstantinou, Nikos; Laurent, Eric; Lindeman, Marjaana; Manav, Banu; Marquardt, Lynn; Mefoh, Philip; Mroczko-Wąsowicz, Aleksandra; Mutandwa, Phillip; Muthusi, Steve; Ngabolo, Georgette; Oberfeld, Daniel; Papadatou-Pastou, Marietta; Perchtold, Corinna M.; Pérez-Albéniz, Alicia; Pouyan, Niloufar; Rashid Soron, Tanjir; Roinishvili, Maya; Romanyuk, Lyudmyla; Salgado Montejo, Alejandro; Sultanova, Aygun; Tau, Ramiro; Uusküla, Mari; Vainio, Suvi; Vargas-Soto, Veronica; Volkan, Eliz; Wąsowicz, Grażyna; Zdravković, Sunčica; Zhang, Meng; Mohr, Christine (2019)
    Across cultures, people associate colours with emotions. Here, we test the hypothesis that one driver of this cross-modal correspondence is the physical environment we live in. We focus on a prime example – the association of yellow with joy, – which conceivably arises because yellow is reminiscent of life-sustaining sunshine and pleasant weather. If so, this association should be especially strong in countries where sunny weather is a rare occurrence. We analysed yellow-joy associations of 6625 participants from 55 countries to investigate how yellow-joy associations varied geographically, climatologically, and seasonally. We assessed the distance to the equator, sunshine, precipitation, and daytime hours. Consistent with our hypotheses, participants who live further away from the equator and in rainier countries are more likely to associate yellow with joy. We did not find associations with seasonal variations. Our findings support a role for the physical environment in shaping the affective meaning of colour.