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1.
Artigo em Inglês | MEDLINE | ID: mdl-38664126

RESUMO

BACKGROUND AND AIM: Body shape and anthropometrics are well-known risk factors for cardiovascular diseases (CVD) and mortality. Hand-grip strength (HGS) is also a meaningful marker of health and a promising predictor of CVD and mortality. There is a lack of studies that have systematically investigated associations between body shape and anthropometrics with HGS. In a population-based study, we investigated if anthropometric markers derived from 3D body scanning are related to HGS. METHODS AND RESULTS: We used the data of 1,599 individuals aged 36 to 93 years, who participated in the Study of Health in Pomerania. A total of 87 anthropometric markers, determined by a 3D body scanner, were included in the analysis. Anthropometric measurements were standardized and used as exposure variables. HGS was measured with a hand dynamometer and used as outcome. Sex-stratified linear regression models adjusted for age and height were used to relate standardized anthropometrics and HGS. Anthropometric markers were ranked according to -log-p-values. In men, left and right forearm circumference, left arm length to neck (C7), left forearm length, and forearm-fingertip length were most strongly related to HGS. In women, right forearm circumference, forearm-fingertip length, shoulder breadth, left forearm circumference, and right wrist circumference showed the most significant associations with HGS. The final prediction models contained 13 anthropometric markers in males (R2=0.54) and eight anthropometric markers in females (R2=0.37). CONCLUSIONS: The identified parameters may help estimate HGS in the clinical setting. However, studies in clinical settings are essential to validating our findings.

2.
BMC Public Health ; 24(1): 1079, 2024 Apr 18.
Artigo em Inglês | MEDLINE | ID: mdl-38637778

RESUMO

BACKGROUND: Low relative fat free mass (FFM) is associated with a greater risk of chronic diseases and mortality. Unfortunately, FFM is currently not being measured regularly to allow for individuals therapy. OBJECTIVE: One reason why FFM is not being used may be related to additional equipment and resources, thus we aimed to identify easily accessible anthropometric markers related with FFM. MATERIALS AND METHODS: We analyzed data of 1,593 individuals (784 women; 49.2%, age range 28-88 years) enrolled in the population-based Study of Health in Pomerania (SHIP-TREND 1). Forty-seven anthropometric markers were derived from a 3D optical body-scanner. FFM was assessed by bioelectrical impedance analysis (FFMBIA) or air displacement plethysmography (FFMADP). In sex-stratified linear regression models, FFM was regressed on anthropometric measurements adjusted for body height and age. Anthropometric markers were ranked according to the coefficient of determination (R2) derived from these regression models. RESULTS: Circumferences of high hip, belly, middle hip, waist and high waist showed the strongest inverse associations with FFM. These relations were stronger in females than in males. Associations of anthropometric markers with FFMAPD were greater compared to FFMBIA. CONCLUSION: Anthropometric measures were more strongly associated with FFMADP compared to FFMBIA. Anthropometric markers like circumferences of the high or middle hip, belly or waist may be appropriate surrogates for FFM to aid in individualized therapy. Given that the identified markers are representative of visceral adipose tissue, the connection between whole body strength as surrogate for FFM and fat mass should be explored in more detail.


Assuntos
Composição Corporal , Estatura , Masculino , Humanos , Feminino , Adulto , Pessoa de Meia-Idade , Idoso , Idoso de 80 Anos ou mais , Antropometria , Pesquisa , Índice de Massa Corporal , Impedância Elétrica
3.
Ergonomics ; 66(8): 1057-1071, 2023 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-36226532

RESUMO

For the ergonomic design of workplaces and products, a representative anthropometric dataset of the working-age population is needed. As body proportions are constantly changing and the latest publicly available dataset for Germany was published in 2004 (data collection period 1999-2002), the aim of this study was to create and publish an updated anthropometric dataset of the German working-age population. Within a regional epidemiological health study, 3D body scan data from 2313 subjects were collected and used to create an anthropometric dataset with a total of 39 ISO 7250-1 measures. To approximate the goal of generating representative values for Germany, the collected regional dataset was weighted with an algorithm, using values from a known nationally representative survey. Based on the weighted dataset, a gender stratified percentile table with values for the 5th, 50th, and 95th percentile was calculated. Practitioner summary: Body proportions are constantly changing and the latest publicly available anthropometric dataset for Germany was published in 2004. A new dataset was created, using 3D body scans from an epidemiological health study and a weighting algorithm. Ultimately, percentile tables with values for the 5th, 50th, and 95th percentile are published.


Assuntos
Algoritmos , Humanos , Antropometria , Inquéritos e Questionários , Alemanha/epidemiologia
4.
Ergonomics ; : 1-13, 2023 Nov 21.
Artigo em Inglês | MEDLINE | ID: mdl-38093519

RESUMO

For the German working-age population no publicly available and detailed anthropometric raw dataset exists, although several studies have collected anthropometric datasets. Unfortunately, the publication of raw data may be restricted by data usage regulations. This study presents a synthesis and validation algorithm to create a virtual copy of an already existing dataset. A detailed anthropometric dataset from a regional epidemiological public-health study in Germany was used for the synthesis and validation algorithm. Results revealed only minor deviations within the validation process. Compared to the original dataset, the virtual dataset was statistically almost identical. In a next step, the virtual dataset was weighted to approximate nationally representative values. In summary, the computed unweighted and weighted virtual data can be published without restrictions and used for ergonomic designing. Furthermore, the synthesis and validation algorithm is suitable for the generation of virtual copies and can be applied to other detailed anthropometric datasets.


Data usage regulations may restrict the publication of anthropometric datasets. A synthesis and validation algorithm was developed which can be applied to existing anthropometric datasets to create a virtual copy that is almost identical and can be published. In the current study this algorithm was used for data from Germany.

5.
Br J Nutr ; 128(2): 300-310, 2022 07 28.
Artigo em Inglês | MEDLINE | ID: mdl-34392851

RESUMO

Currently, various protocols regarding the site of waist circumference (WC) measurement are in place. This study aimed to analyse the effect of the site of WC measurement on visceral adipose tissue (VAT) estimation. WC was obtained at 7 anatomical sites in 211 German volunteers (103 males) aged 23-81 years using three-dimensional photonic body scanning (PBS). At one site, WC was additionally measured by tape. The quantity of VAT was assessed by MRI. Models to estimate VAT based on WC were developed; the precision of the estimation is represented by R2. The influence of the applied method of WC assessment (tape v. PBS) on the estimations is reported. Results show that the amount of estimated VAT and the precision of VAT estimation were dependent on the site of measurement. VAT was estimated most precisely by WC taken at the level of the lowest rib (WCrib: R2 = 0·75 females; 0·79 males), the minimum circumference (WCmin: R2 = 0·75 females; 0·77 males) and at the narrowest part of the torso (WCnar: R2 = 0·76 females; 0·77 males), and least precisely by WC assessed at the top of iliac crest (WCiliac: R2 = 0·61 females; 0·60 males). VAT estimates based on WC obtained by PBS were smaller and estimations were slightly less precise compared to estimates based on tape measures. Our results indicate that the method and the site of waist measurement should be considered when estimating VAT based on WC. The implementation of a standardised protocol using either WCrib, WCmin or WCnar could improve the precision of VAT estimation.


Assuntos
Abdome , Gordura Intra-Abdominal , Masculino , Feminino , Humanos , Circunferência da Cintura , Imageamento por Ressonância Magnética , População Branca , Índice de Massa Corporal
6.
J Clin Microbiol ; 54(11): 2774-2785, 2016 11.
Artigo em Inglês | MEDLINE | ID: mdl-27605711

RESUMO

Population-based studies on Staphylococcus aureus nasal colonization are scarce. We examined the prevalence, resistance, and molecular diversity of S. aureus in the general population in Northeast Germany. Nasal swabs were obtained from 3,891 adults in the large-scale population-based Study of Health in Pomerania (SHIP-TREND). Isolates were characterized using spa genotyping, as well as antibiotic resistance and virulence gene profiling. We observed an S. aureus prevalence of 27.2%. Nasal S. aureus carriage was associated with male sex and inversely correlated with age. Methicillin-resistant S. aureus (MRSA) accounted for 0.95% of the colonizing S. aureus strains. MRSA carriage was associated with frequent visits to hospitals, nursing homes, or retirement homes within the previous 24 months. All MRSA strains were resistant to multiple antibiotics. Most MRSA isolates belonged to the pandemic European hospital-acquired MRSA sequence type 22 (HA-MRSA-ST22) lineage. We also detected one livestock-associated MRSA ST398 (LA-MRSA-ST398) isolate, as well as six livestock-associated methicillin-susceptible S. aureus (LA-MSSA) isolates (clonal complex 1 [CC1], CC97, and CC398). spa typing revealed a diverse but also highly clonal S. aureus population structure. We identified a total of 357 spa types, which were grouped into 30 CCs or sequence types. The major seven CCs (CC30, CC45, CC15, CC8, CC7, CC22, and CC25) included 75% of all isolates. Virulence gene patterns were strongly linked to the clonal background. In conclusion, MSSA and MRSA prevalences and the molecular diversity of S. aureus in Northeast Germany are consistent with those of other European countries. The detection of HA-MRSA and LA-MRSA within the general population indicates possible transmission from hospitals and livestock, respectively, and should be closely monitored.


Assuntos
Portador Sadio/epidemiologia , Cavidade Nasal/microbiologia , Infecções Estafilocócicas/epidemiologia , Staphylococcus aureus/classificação , Staphylococcus aureus/isolamento & purificação , Adulto , Fatores Etários , Idoso , Idoso de 80 Anos ou mais , Portador Sadio/microbiologia , Análise por Conglomerados , Estudos de Coortes , Farmacorresistência Bacteriana , Feminino , Variação Genética , Genótipo , Técnicas de Genotipagem , Alemanha/epidemiologia , Humanos , Masculino , Pessoa de Meia-Idade , Epidemiologia Molecular , Tipagem Molecular , Prevalência , Fatores Sexuais , Infecções Estafilocócicas/microbiologia , Proteína Estafilocócica A/genética , Staphylococcus aureus/genética , Fatores de Virulência/genética , Adulto Jovem
7.
Skin Pharmacol Physiol ; 29(2): 83-91, 2016.
Artigo em Inglês | MEDLINE | ID: mdl-27035668

RESUMO

Previous studies on the antimicrobial activity of cold atmospheric pressure argon plasma showed varying effects against mecA+ or mecA-Staphylococcus aureus strains. This observation may have important clinical and epidemiological implications. Here, the antibacterial activity of argon plasma was investigated against 78 genetically different S. aureus strains, stratified by mecA, luk-P, agr1-4, or the cell wall capsule polysaccharide types 5 and 8. kINPen09® served as the plasma source for all experiments. On agar plates, mecA+luk-P-S. aureus strains showed a decreased susceptibility against plasma compared to other S. aureus strains. This study underlines the high complexity of microbial defence against antimicrobial treatment and confirms a previously reported strain-dependent susceptibility of S. aureus to plasma treatment.


Assuntos
Antibacterianos/administração & dosagem , Argônio/administração & dosagem , Pressão Atmosférica , Temperatura Baixa/efeitos adversos , Polissacarídeos Bacterianos/genética , Staphylococcus aureus/efeitos dos fármacos , Staphylococcus aureus/genética , Proteínas de Bactérias , Humanos , Peroxidases , Polissacarídeos Bacterianos/antagonistas & inibidores
8.
Gut ; 64(4): 646-56, 2015 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-25028398

RESUMO

OBJECTIVE: Serum lipase activities above the threefold upper reference limit indicate acute pancreatitis. We investigated whether high lipase activity-within the reference range and in the absence of pancreatitis-are associated with genetic single nucleotide polymorphisms (SNP), and whether these identified SNPs are also associated with clinical pancreatitis. METHODS: Genome-wide association studies (GWAS) on phenotypes 'serum lipase activity' and 'high serum lipase activity' were conducted including 3966 German volunteers from the population-based Study-of-Health-in-Pomerania (SHIP). Lead SNPs associated on a genome-wide significance level were replicated in two cohorts, 1444 blood donors and 1042 pancreatitis patients. RESULTS: Initial discovery GWAS detected SNPs within or near genes encoding the ABO blood group specifying transferases A/B (ABO), Fucosyltransferase-2 (FUT2), and Chymotrypsinogen-B2 (CTRB2), to be significantly associated with lipase activity levels in asymptomatic subjects. Replication analyses in blood donors confirmed the association of FUT-2 non-secretor status (OR=1.49; p=0.012) and ABO blood-type-B (OR=2.48; p=7.29×10(-8)) with high lipase activity levels. In pancreatitis patients, significant associations were found for FUT-2 non-secretor status (OR=1.53; p=8.56×10(-4)) and ABO-B (OR=1.69, p=1.0×10(-4)) with chronic pancreatitis, but not with acute pancreatitis. Conversely, carriers of blood group O were less frequently affected by chronic pancreatitis (OR=0.62; p=1.22×10(-05)) and less likely to have high lipase activity levels (OR=0.59; p=8.14×10(-05)). CONCLUSIONS: These are the first results indicating that ABO blood type-B as well as FUT2 non-secretor status are common population-wide risk factors for developing chronic pancreatitis. They also imply that, even within the reference range, elevated lipase activities may indicate subclinical pancreatic injury in asymptomatic subjects.


Assuntos
Sistema ABO de Grupos Sanguíneos/fisiologia , Fucosiltransferases/fisiologia , Estudos de Associação Genética , Estudo de Associação Genômica Ampla , Lipase/sangue , Pancreatite Crônica/epidemiologia , Pancreatite Crônica/genética , Adulto , Idoso , Idoso de 80 Anos ou mais , Feminino , Humanos , Masculino , Pessoa de Meia-Idade , Polimorfismo de Nucleotídeo Único , Medição de Risco , Adulto Jovem , Galactosídeo 2-alfa-L-Fucosiltransferase
9.
Am J Hum Genet ; 88(5): 664-73, 2011 May 13.
Artigo em Inglês | MEDLINE | ID: mdl-21565293

RESUMO

Thyroid disorders such as goiters represent important diseases, especially in iodine-deficient areas. Sibling studies have demonstrated that genetic factors substantially contribute to the interindividual variation of thyroid volume. We performed a genome-wide association study of this phenotype by analyzing a discovery cohort consisting of 3620 participants of the Study of Health in Pomerania (SHIP). Four genetic loci were associated with thyroid volume on a genome-wide level of significance. Of these, two independent loci are located upstream of and within CAPZB, which encodes the ß subunit of the barbed-end F-actin binding protein that modulates actin polymerization, a process crucial in the colloid engulfment during thyroglobulin mobilization in the thyroid. The third locus marks FGF7, which encodes fibroblast growth factor 7. Members of this protein family have been discussed as putative signal molecules involved in the regulation of thyroid development. The fourth locus represents a "gene desert" on chromosome 16q23, located directly downstream of the predicted coding sequence LOC440389, which, however, had already been removed from the NCBI database as a result of the standard genome annotation processing at the time that this study was initiated. Experimental proof of the formerly predicted mature mRNA, however, demonstrates that LOC440389 indeed represents a real gene. All four associations were replicated in an independent sample of 1290 participants of the KORA study. These results increase the knowledge about genetic factors and physiological mechanisms influencing thyroid volume.


Assuntos
Loci Gênicos , Estudo de Associação Genômica Ampla , Bócio/genética , Glândula Tireoide/patologia , Actinas/metabolismo , Adulto , Idoso , Idoso de 80 Anos ou mais , Feminino , Bócio/patologia , Humanos , Masculino , Pessoa de Meia-Idade , Tamanho do Órgão , Fenótipo , Polimerização , Polimorfismo de Nucleotídeo Único , Fatores de Risco , Adulto Jovem
10.
Diagnostics (Basel) ; 13(15)2023 Aug 04.
Artigo em Inglês | MEDLINE | ID: mdl-37568957

RESUMO

BACKGROUND: The global obesity epidemic is a major public health concern, and accurate diagnosis is essential for identifying at-risk individuals. Three-dimensional (3D) body scanning technology offers several advantages over the standard practice of tape measurements for diagnosing obesity. This study was conducted to validate body scan data from a German population-based cohort and explore clinical implications of this technology in the context of metabolic syndrome. METHODS: We performed a cross-sectional analysis of 354 participants from the Study of Health in Pomerania that completed a 3D body scanning examination. The agreement of anthropometric data obtained from 3D body scanning with manual tape measurements was analyzed using correlation analysis and Bland-Altman plots. Classification agreement regarding abdominal obesity based on IDF guidelines was assessed using Cohen's kappa. The association of body scan measures with metabolic syndrome components was explored using correlation analysis. RESULTS: Three-dimensional body scanning showed excellent validity with slightly larger values that presumably reflect the true circumferences more accurately. Metabolic syndrome was highly prevalent in the sample (31%) and showed strong associations with central obesity. Using body scan vs. tape measurements of waist circumference for classification resulted in a 16% relative increase in the prevalence of abdominal obesity (61.3% vs. 52.8%). CONCLUSIONS: These results suggest that the prevalence of obesity may be underestimated using the standard method of tape measurements, highlighting the need for more accurate approaches.

11.
Stud Health Technol Inform ; 302: 871-875, 2023 May 18.
Artigo em Inglês | MEDLINE | ID: mdl-37203520

RESUMO

Conducting large-scale epidemiologic studies requires powerful software for electronic data capture, data management, data quality assessments, and participant management. There is also an increasing need to make studies and the data collected findable, accessible, interoperable, and reusable (FAIR). However, reusable software tools from major studies, underlying such needs, are not necessarily known to other researchers. Therefore, this work gives an overview on the main tools used to conduct the internationally highly networked population-based project Study of Health in Pomerania (SHIP), as well as approaches taken to improve its FAIRness. Deep phenotyping, formalizing processes from data capture to data transfer, with a strong emphasis on cooperation and data exchange have laid the foundation for a broad scientific impact with more than 1500 published papers to date.


Assuntos
Gerenciamento de Dados , Software , Humanos , Estudos de Coortes , Pesquisa , Estudos Epidemiológicos
12.
Plant Cell ; 21(9): 2715-32, 2009 Sep.
Artigo em Inglês | MEDLINE | ID: mdl-19737978

RESUMO

Plants possess acclimation responses in which structural reconfigurations adapt the photosynthetic apparatus to fluctuating illumination. Long-term acclimation involves changes in plastid and nuclear gene expression and is controlled by redox signals from photosynthesis. The kinetics of these signals and the adjustments of energetic and metabolic demands to the changes in the photosynthetic apparatus are currently poorly understood. Using a redox signaling system that preferentially excites either photosystem I or II, we measured the time-dependent impact of redox signals on the transcriptome and metabolome of Arabidopsis thaliana. We observed rapid and dynamic changes in nuclear transcript accumulation resulting in differential and specific expression patterns for genes associated with photosynthesis and metabolism. Metabolite pools also exhibited dynamic changes and indicate readjustments between distinct metabolic states depending on the respective illumination. These states reflect reallocation of energy resources in a defined and reversible manner, indicating that structural changes in the photosynthetic apparatus during long-term acclimation are additionally supported at the level of metabolism. We propose that photosynthesis can act as an environmental sensor, producing retrograde redox signals that trigger two parallel adjustment loops that coordinate photosynthesis and metabolism to adapt plant primary productivity to the environment.


Assuntos
Arabidopsis/metabolismo , Oxirredução , Fotossíntese , Plastídeos/metabolismo , Transdução de Sinais , Aclimatação/genética , Arabidopsis/genética , Perfilação da Expressão Gênica , Regulação da Expressão Gênica de Plantas , Luz , Metaboloma , RNA de Plantas/genética
13.
Eur J Cardiovasc Prev Rehabil ; 17(3): 355-62, 2010 Jun.
Artigo em Inglês | MEDLINE | ID: mdl-19907337

RESUMO

BACKGROUND: To investigate the ability of multiple cardiovascular disease (CVD) markers to predict future health care costs. CVD markers included traditional risk factors (smoking status, body mass index, waist circumference, alcohol intake, diabetes, total : high-density lipoprotein cholesterol ratio, actual hypertension, physical activity) and newer markers (carotid intima-media thickness, hemoglobin A1c, apolipoprotein B : apolipoprotein A-1 ratio, lipoprotein (a), leukocyte count, high-sensitive C-reactive protein, plasma fibrinogen, estimated glomerular filtration rate, urinary albumin : creatinine ratio). DESIGN AND METHODS: The study sample consisted of 2233 participants without history of myocardial infarction, stroke, heart failure, and angina pectoris at baseline (50.6% women; mean age 60.9 years; age range 45-81 years) from the cohort Study of Health in Pomerania, Germany (median follow-up 5 years). RESULTS: Predictive modeling revealed that a basic model with sex, age, years of school education, insurance status, and income explained 0.9% in baseline total cost variation and 1.5% in total cost variation at 5-year follow-up. The incorporation of a combination of significant CVD markers resulted in an increase in the R2 for total costs of 70% at baseline and 69% after 5 years, with a final R2 of 0.030 at baseline and an R2 of 0.048 at 5-year follow-up. CONCLUSION: Our data suggest that for individuals without history of CVD, the simultaneous addition of several CVD risk markers improves predictive modeling of future health care costs beyond that of a model that is based on established health care predictors.


Assuntos
Doenças Cardiovasculares/economia , Doenças Cardiovasculares/etiologia , Custos de Cuidados de Saúde/tendências , Indicadores Básicos de Saúde , Modelos Econômicos , Fatores Etários , Idoso , Idoso de 80 Anos ou mais , Distribuição de Qui-Quadrado , Escolaridade , Feminino , Previsões , Alemanha , Humanos , Renda , Cobertura do Seguro , Seguro Saúde , Modelos Logísticos , Masculino , Pessoa de Meia-Idade , Estudos Prospectivos , Reprodutibilidade dos Testes , Medição de Risco , Fatores de Risco , Fatores Sexuais , Fatores de Tempo
14.
PLoS One ; 14(3): e0213658, 2019.
Artigo em Inglês | MEDLINE | ID: mdl-30870494

RESUMO

BACKGROUND: Platelet count is known to be associated with sex, age and mean platelet volume (MPV). Sex and age were proposed for adjustment of platelet count reference intervals, but MPV is currently not used for further adjustment. We investigated the association of MPV, age and sex with platelet counts and established individualized reference ranges respecting MPV. METHODS: The association of platelet count with age, sex and MPV was assessed in healthy participants (n = 3,033 individuals; 1,542 women) in the cross-sectional population-based cohort Study of Health in Pomerania. Reference intervals respecting age, sex, and MPV were estimated using quantile regressions for the 2.5th and 97.5th percentile. RESULTS: Women had higher platelet counts than men (239 vs. 207 x109/L, p<0.001). Platelet counts correlated with age (p<0.001) and MPV (p<0.001). Quantile regression of lower and upper platelet count limits correlated less with age in female (p = 0.047 for 2.5th percentile; p = 0.906 for 97.5th percentile) and male subjects (p = 0.029 for 2.5th percentile; p = 0.195 for 97.5th percentile) compared to MPV (p<0.001 for upper and lower limit for both sexes). After adjustment for MPV, age did no longer correlate with the 2.5th (p = 0.165) or 97.5th percentile (p = 0.999) of platelet count. In contrast, after adjustment for age, MPV levels still significantly correlated with 2.5th, 50th and 97.5th percentile (p<0.001). CONCLUSION: MPV and sex have a stronger association with platelet count than age. MPV should be considered to adjust platelet count reference intervals and needs to be respected as confounder for platelet counts in epidemiological studies and clinical practice.


Assuntos
Fatores Etários , Hematologia/normas , Volume Plaquetário Médio , Contagem de Plaquetas , Adolescente , Adulto , Idoso , Idoso de 80 Anos ou mais , Plaquetas , Estudos de Coortes , Estudos Transversais , Feminino , Alemanha , Humanos , Masculino , Pessoa de Meia-Idade , Valores de Referência , Análise de Regressão , Fatores de Risco , Fatores Sexuais , Adulto Jovem
15.
BMC Genomics ; 9: 606, 2008 Dec 16.
Artigo em Inglês | MEDLINE | ID: mdl-19087315

RESUMO

BACKGROUND: Lymphotoxin signaling via the lymphotoxin-beta receptor (LTbetaR) has been implicated in biological processes ranging from development of secondary lymphoid organs, maintenance of spleen architecture, host defense against pathogens, autoimmunity, and lipid homeostasis. The major transcription factor that is activated by LTbetaR crosslinking is NF-kappaB. Two signaling pathways have been described, the classical inhibitor of NF-kappaB alpha (IkappaBalpha)-regulated and the alternative p100-regulated pathway that result in the activation of p50-RelA and p52-RelB NF-kappaB heterodimers, respectively. RESULTS: Using microarray analysis, we investigated the transcriptional response downstream of the LTbetaR in mouse embryonic fibroblasts (MEFs) and its regulation by the RelA and RelB subunits of NF-kappaB. We describe novel LTbetaR-responsive genes that were regulated by RelA and/or RelB. The majority of LTbetaR-regulated genes required the presence of both RelA and RelB, revealing significant crosstalk between the two NF-kappaB activation pathways. Gene Ontology (GO) analysis confirmed that LTbetaR-NF-kappaB target genes are predominantly involved in the regulation of immune responses. However, other biological processes, such as apoptosis/cell death, cell cycle, angiogenesis, and taxis were also regulated by LTbetaR signaling. Moreover, LTbetaR activation inhibited expression of a key adipogenic transcription factor, peroxisome proliferator activated receptor-gamma (pparg), suggesting that LTbetaR signaling may interfere with adipogenic differentiation. CONCLUSION: Microarray analysis of LTbetaR-stimulated fibroblasts provided comprehensive insight into the transcriptional response of LTbetaR signaling and its regulation by the NF-kappaB family members RelA and RelB.


Assuntos
Regulação da Expressão Gênica , Receptor beta de Linfotoxina/metabolismo , Fator de Transcrição RelA/genética , Fator de Transcrição RelB/genética , Transcrição Gênica , Células 3T3 , Animais , Perfilação da Expressão Gênica , Camundongos , Análise de Sequência com Séries de Oligonucleotídeos
16.
PLoS Comput Biol ; 2(6): e70, 2006 Jun 16.
Artigo em Inglês | MEDLINE | ID: mdl-16789814

RESUMO

Systematic chromatin immunoprecipitation (chIP-chip) experiments have become a central technique for mapping transcriptional interactions in model organisms and humans. However, measurement of chromatin binding does not necessarily imply regulation, and binding may be difficult to detect if it is condition or cofactor dependent. To address these challenges, we present an approach for reliably assigning transcription factors (TFs) to target genes that integrates many lines of direct and indirect evidence into a single probabilistic model. Using this approach, we analyze publicly available chIP-chip binding profiles measured for yeast TFs in standard conditions, showing that our model interprets these data with significantly higher accuracy than previous methods. Pooling the high-confidence interactions reveals a large network containing 363 significant sets of factors (TF modules) that cooperate to regulate common target genes. In addition, the method predicts 980 novel binding interactions with high confidence that are likely to occur in so-far untested conditions. Indeed, using new chIP-chip experiments we show that predicted interactions for the factors Rpn4p and Pdr1p are observed only after treatment of cells with methyl-methanesulfonate, a DNA-damaging agent. We outline the first approach for consistently integrating all available evidences for TF-target interactions and we comprehensively identify the resulting TF module hierarchy. Prioritizing experimental conditions for each factor will be especially important as increasing numbers of chIP-chip assays are performed in complex organisms such as humans, for which "standard conditions" are ill defined.


Assuntos
Imunoprecipitação da Cromatina/métodos , Modelos Genéticos , Alinhamento de Sequência/métodos , Análise de Sequência de DNA/métodos , Fatores de Transcrição/química , Fatores de Transcrição/genética , Transcrição Gênica/genética , Algoritmos , Sequência de Bases , Sítios de Ligação , Simulação por Computador , Modelos Químicos , Dados de Sequência Molecular , Ligação Proteica , Integração de Sistemas
17.
Stud Health Technol Inform ; 235: 549-553, 2017.
Artigo em Inglês | MEDLINE | ID: mdl-28423853

RESUMO

Valid scientific inferences from epidemiological and clinical studies require high data quality. Data generating departments therefore aim to detect data irregularities as early as possible in order to guide quality management processes. In addition, after the completion of data collections the obtained data quality must be evaluated. This can be challenging in complex studies due to a wide scope of examinations, numerous study variables, multiple examiners, devices, and examination centers. This paper describes a Java EE web application used to monitor and evaluate data quality in institutions with complex and multiple studies, named Square2. It uses the Java libraries Apache MyFaces 2, extended by BootsFaces for layout and style. RServe and REngine manage calls to R server processes. All study data and metadata are stored in PostgreSQL. R is the statistics backend and LaTeX is used for the generation of print ready PDF reports. A GUI manages the entire workflow. Square2 covers all steps in the data monitoring workflow, including the setup of studies and their structure, the handling of metadata for data monitoring purposes, selection of variables, upload of data, statistical analyses, and the generation as well as inspection of quality reports. To take into account data protection issues, Square2 comprises an extensive user rights and roles concept.


Assuntos
Pesquisa Biomédica , Confiabilidade dos Dados , Coleta de Dados , Internet , Software , Estudos Epidemiológicos , Fluxo de Trabalho
19.
Nat Genet ; 45(10): 1238-1243, 2013 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-24013639

RESUMO

Identifying the downstream effects of disease-associated SNPs is challenging. To help overcome this problem, we performed expression quantitative trait locus (eQTL) meta-analysis in non-transformed peripheral blood samples from 5,311 individuals with replication in 2,775 individuals. We identified and replicated trans eQTLs for 233 SNPs (reflecting 103 independent loci) that were previously associated with complex traits at genome-wide significance. Some of these SNPs affect multiple genes in trans that are known to be altered in individuals with disease: rs4917014, previously associated with systemic lupus erythematosus (SLE), altered gene expression of C1QB and five type I interferon response genes, both hallmarks of SLE. DeepSAGE RNA sequencing showed that rs4917014 strongly alters the 3' UTR levels of IKZF1 in cis, and chromatin immunoprecipitation and sequencing analysis of the trans-regulated genes implicated IKZF1 as the causal gene. Variants associated with cholesterol metabolism and type 1 diabetes showed similar phenomena, indicating that large-scale eQTL mapping provides insight into the downstream effects of many trait-associated variants.


Assuntos
Predisposição Genética para Doença , Locos de Características Quantitativas , Diabetes Mellitus Tipo 1/genética , Humanos , Lúpus Eritematoso Sistêmico/genética , Polimorfismo de Nucleotídeo Único
20.
J Clin Endocrinol Metab ; 97(2): 408-15, 2012 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-22162468

RESUMO

OBJECTIVE: RIA-based sex hormone measurements offer only limited precision and specificity in the low concentration range of women. Therefore, we aimed to establish age-specific reference ranges for serum sex hormone concentrations in women using mass spectrometry and quantile regression. METHODS AND RESULTS: Data from 985 women aged 20-80 yr, recruited for the prospective Study of Health in Pomerania, were included in the analyses. Quantile regressions models were performed to calculate the age-specific 2.5th and 97.5th percentiles for sex hormone concentrations in women. Serum total testosterone (TT) and androstenedione (AD) concentrations were measured by liquid chromatography-tandem mass spectrometry. Measured concentrations of SHBG and TT were used to calculate free testosterone (free T). TT, AD, and free T concentrations showed a distinct age-related decline across 10-yr age groups (one way ANOVA P < 0.001). Sex hormone reference ranges for TT, AD, and free T were determined across each single year of age and for 10-yr age groups. Reference ranges over the whole age range of 20-80 yr were 0.35-1.97 nmol/liter for TT, 0.89-4.56 nmol/liter for AD, and 0.0025-0.0253 nmol/liter for free T. Separate reference ranges were provided for pre- and postmenopausal women as well as after inclusion of women using oral contraceptives or hormone therapy (n = 1357). CONCLUSION: This is the first study to establish age-specific reference ranges for liquid chromatography-tandem mass spectrometry-measured TT and AD and calculated free T concentrations based on quantile regression analyses, accurately accounting for the observed low concentration range and the strong age dependency of these sex hormones in women.


Assuntos
Androstenodiona/sangue , Técnicas de Diagnóstico Endócrino/normas , Espectrometria de Massas em Tandem/normas , Testosterona/sangue , Adulto , Distribuição por Idade , Fatores Etários , Idoso , Idoso de 80 Anos ou mais , Androstenodiona/normas , Cromatografia Líquida/métodos , Cromatografia Líquida/normas , Feminino , Humanos , Pessoa de Meia-Idade , Concentração Osmolar , Valores de Referência , Sensibilidade e Especificidade , Espectrometria de Massas em Tandem/métodos , Testosterona/normas , Adulto Jovem
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