201 research outputs found
Planar Electrode Quadrupole Ion Traps
A simple method has been proposed to study the effects of multipole components on the performance of a radiofrequency quadrupole ion-trap mass analyzer, named the planar Paul trap. The device consists of two parallel ceramic plates, the opposing surfaces of which are lithographically imprinted with 24 metal rings. This suggested method combines the unique properties of this type of trap: the multiple-circular-ring structure, and ease of changing the electric field through differing capacitor configurations on printed circuit boards. Using this approach, the magnitude and sign of different multipole components, including octopole and dodecapole, can easily be adjusted through altering the voltage applied to each ring. This study presents a systematic investigation of the effects of multipole components (e.g., octopole and dodecapole) on the performance of the planar Paul trap. The results demonstrate that the octopole component has a more pronounced effect on the performance of the planar Paul trap than the dodecapole field, especially for ions with larger mass-to-charge ratios. Also, the sample concentration in the trapping region has a significant influence on the performance of the planar Paul trap with the change of the multipole components in trapping potentials
A Paul Trap Mass Analyzer Consisting of Two Microfabricated Electrode Plates
We report the design and performance of a novel radiofrequency (RF) ion trap mass analyzer, the planar Paul trap, in which a quadrupolar potential distribution is made between two electrode plates. Each plate consists of a series of concentric, lithographically deposited 100-micrometer-wide metal rings, overlaid with a thin resistive layer. To each ring is applied a different RF amplitude, such that the trapping field produced is similar to that of the conventional Paul trap. The accuracy and shape of the electric fields in this trap are not limited by electrode geometry nor machining precision, as is the case in traps made with metal electrodes. The use of two microfabricated plates for ion trap construction presents a lower-cost alternative to conventional ion traps, with additional advantages in electrode alignment, electric field optimization, and ion trap miniaturization. Experiments demonstrate the effects of ion ejection mode and scan rate on mass resolution for several small organic compounds. The current instrument has a mass range up to ~180 Thompsons (Th), with better than unit mass resolution over the whole range
Food insecurity in Detroit: exploring the relationship between patient-reported food insecurity and proximity to healthful grocery stores
Objective: The objective of the current study was to determine if patients of a large health care system in Detroit who self-identify as food insecure live further away from healthy grocery stores compared with food secure patients. Second, we explored whether food insecurity and distance to healthy grocery stores are related to ecological measures of vehicle availability in the area of residence. Design: A secondary data analysis that uses baseline data from a pilot intervention/feasibility study. Setting: Detroit, Michigan, USA. Participants: Patients of Henry Ford Health System were screened for food insecurity to determine eligibility for a pilot intervention/feasibility study (i.e. Henryās Groceries for Health), conducted through a collaboration with Gleaners Community Foodbank of Southeastern Michigan. Only patients residing in Detroit city limits (including Highland Park and Hamtramck) were included in the secondary analysis. Of the 1,100 patients included in the analysis, 336 (31 %) were food insecure. Results: After accounting for socio-demographic factors associated with food insecurity, we did not find evidence that food insecure patients lived further away from healthier grocery stores, nor was this modified by ecological measures of vehicle access. However, some neighbourhoods were identified as having a significantly higher risk of food insecurity. Conclusions: Food insecure patients in Detroit are perhaps limited by social and political determinants and not their immediate neighbourhood geography or physical access to healthy grocery stores. Future research should explore the complexity in linkages between household socio-economic factors, socio-cultural dynamics and the neighbourhood food environment
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The metabolome regulates the epigenetic landscape during naive-to-primed human embryonic stem cell transition.
For nearly a century developmental biologists have recognized that cells from embryos can differ in their potential to differentiate into distinct cell types. Recently, it has been recognized that embryonic stem cells derived from both mice and humans exhibit two stable yet epigenetically distinct states of pluripotency: naive and primed. We now show that nicotinamide N-methyltransferase (NNMT) and the metabolic state regulate pluripotency in human embryonic stem cells (hESCs). Ā Specifically, in naive hESCs, NNMT and its enzymatic product 1-methylnicotinamide are highly upregulated, and NNMT is required for low S-adenosyl methionine (SAM) levels and the H3K27me3 repressive state. NNMT consumes SAM in naive cells, making it unavailable for histone methylation that represses Wnt and activates the HIF pathway in primed hESCs. These data support the hypothesis that the metabolome regulates the epigenetic landscape of the earliest steps in human development
Beliefs about the Minds of Others Influence How We Process Sensory Information
Attending where others gaze is one of the most fundamental mechanisms of social cognition. The present study is the first to examine the impact of the attribution of mind to others on gaze-guided attentional orienting and its ERP correlates. Using a paradigm in which attention was guided to a location by the gaze of a centrally presented face, we manipulated participants' beliefs about the gazer: gaze behavior was believed to result either from operations of a mind or from a machine. In Experiment 1, beliefs were manipulated by cue identity (human or robot), while in Experiment 2, cue identity (robot) remained identical across conditions and beliefs were manipulated solely via instruction, which was irrelevant to the task. ERP results and behavior showed that participants' attention was guided by gaze only when gaze was believed to be controlled by a human. Specifically, the P1 was more enhanced for validly, relative to invalidly, cued targets only when participants believed the gaze behavior was the result of a mind, rather than of a machine. This shows that sensory gain control can be influenced by higher-order (task-irrelevant) beliefs about the observed scene. We propose a new interdisciplinary model of social attention, which integrates ideas from cognitive and social neuroscience, as well as philosophy in order to provide a framework for understanding a crucial aspect of how humans' beliefs about the observed scene influence sensory processing
Period and chemical evolution of SC stars
The SC and CS stars are thermal-pulsing AGB stars with C/O ratio close to
unity. Within this small group, the Mira variable BH Cru recently evolved from
spectral type SC (showing ZrO bands) to CS (showing weak C2). Wavelet analysis
shows that the spectral evolution was accompanied by a dramatic period
increase, from 420 to 540 days, indicating an expanding radius. The pulsation
amplitude also increased. Old photographic plates are used to establish that
the period before 1940 was around 490 days. Chemical models indicate that the
spectral changes were caused by a decrease in stellar temperature, related to
the increasing radius. There is no evidence for a change in C/O ratio. The
evolution in BH Cru is unlikely to be related to an on-going thermal pulse.
Periods of the other SC and CS stars, including nine new periods, are
determined. A second SC star, LX Cyg, also shows evidence for a large increase
in period, and one further star shows a period inconsistent with a previous
determination. Mira periods may be intrinsically unstable for C/O ~ 1; possibly
because of a feedback between the molecular opacities, pulsation amplitude, and
period. LRS spectra of 6 SC stars suggest a feature at wavelength > 15 micron,
which resembles one recently attributed to the iron-sulfide troilite. Chemical
models predict a large abundance of FeS in SC stars, in agreement with the
proposed association.Comment: 14 pages, 20 figures. MNRAS, 2004, accepted for publication. Janet
Mattei, one of the authors, died on 22 March, 2004. This paper is dedicated
to her memor
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Insights into the evolution of Darwinās finches from comparative analysis of the Geospiza magnirostris genome sequence
Background: A classical example of repeated speciation coupled with ecological diversification is the evolution of 14 closely related species of Darwinās (GalĆ”pagos) finches (Thraupidae, Passeriformes). Their adaptive radiation in the GalĆ”pagos archipelago took place in the last 2ā3 million years and some of the molecular mechanisms that led to their diversification are now being elucidated. Here we report evolutionary analyses of genome of the large ground finch, Geospiza magnirostris. Results: 13,291 protein-coding genes were predicted from a 991.0 Mb G. magnirostris genome assembly. We then defined gene orthology relationships and constructed whole genome alignments between the G. magnirostris and other vertebrate genomes. We estimate that 15% of genomic sequence is functionally constrained between G. magnirostris and zebra finch. Genic evolutionary rate comparisons indicate that similar selective pressures acted along the G. magnirostris and zebra finch lineages suggesting that historical effective population size values have been similar in both lineages. 21 otherwise highly conserved genes were identified that each show evidence for positive selection on amino acid changes in the Darwin's finch lineage. Two of these genes (Igf2r and Pou1f1) have been implicated in beak morphology changes in Darwinās finches. Five of 47 genes showing evidence of positive selection in early passerine evolution have cilia related functions, and may be examples of adaptively evolving reproductive proteins. Conclusions: These results provide insights into past evolutionary processes that have shaped G. magnirostris genes and its genome, and provide the necessary foundation upon which to build population genomics resources that will shed light on more contemporaneous adaptive and non-adaptive processes that have contributed to the evolution of the Darwinās finches.Organismic and Evolutionary Biolog
Pten and Dicer1 loss in the mouse uterus causes poorly-differentiated endometrial adenocarcinoma
Endometrial cancer remains the most common gynecological malignancy in the United States. While the loss of the tumor suppressor, PTEN (phosphatase and tensin homolog), is well studied in endometrial cancer, recent studies suggest that DICER1, the endoribonuclease responsible for miRNA genesis, also plays a significant role in endometrial adenocarcinoma. Conditional uterine deletion of Dicer1 and Pten in mice resulted in poorly differentiated endometrial adenocarcinomas, which expressed Napsin A and HNF1B (hepatocyte nuclear factor 1 homeobox B), markers of clear-cell adenocarcinoma. Adenocarcinomas were hormone-independent. Treatment with progesterone did not mitigate poorly differentiated adenocarcinoma, nor did it affect adnexal metastasis. Transcriptomic analyses of DICER1 deleted uteri or Ishikawa cells revealed unique transcriptomic profiles and global miRNA downregulation. Computational integration of miRNA with mRNA targets revealed deregulated let-7 and miR-16 target genes, similar to published human DICER1-mutant endometrial cancers from TCGA (The Cancer Genome Atlas). Similar to human endometrial cancers, tumors exhibited dysregulation of ephrin-receptor signaling and transforming growth factor-beta signaling pathways. LIM kinase 2 (LIMK2), an essential molecule in p21 signal transduction, was significantly upregulated and represents a novel mechanism for hormone-independent pathogenesis of endometrial adenocarcinoma. This preclinical mouse model represents the first genetically engineered mouse model of poorly differentiated endometrial adenocarcinoma
Measurement of the production of a W boson in association with a charm quark in pp collisions at ās = 7 TeV with the ATLAS detector
The production of a W boson in association with a single charm quark is studied using 4.6 fbā1 of pp collision data at sā = 7 TeV collected with the ATLAS detector at the Large Hadron Collider. In events in which a W boson decays to an electron or muon, the charm quark is tagged either by its semileptonic decay to a muon or by the presence of a charmed meson. The integrated and differential cross sections as a function of the pseudorapidity of the lepton from the W-boson decay are measured. Results are compared to the predictions of next-to-leading-order QCD calculations obtained from various parton distribution function parameterisations. The ratio of the strange-to-down sea-quark distributions is determined to be 0.96+0.26ā0.30 at Q 2 = 1.9 GeV2, which supports the hypothesis of an SU(3)-symmetric composition of the light-quark sea. Additionally, the cross-section ratio Ļ(W + +cĀÆĀÆ)/Ļ(W ā + c) is compared to the predictions obtained using parton distribution function parameterisations with different assumptions about the sāsĀÆĀÆĀÆ quark asymmetry
Genomewide Analysis of Inherited Variation Associated with Phosphorylation of PI3K/AKT/mTOR Signaling Proteins
While there exists a wealth of information about genetic influences on gene expression, less is known about how inherited variation influences the expression and post-translational modifications of proteins, especially those involved in intracellular signaling. The PI3K/AKT/mTOR signaling pathway contains several such proteins that have been implicated in a number of diseases, including a variety of cancers and some psychiatric disorders. To assess whether the activation of this pathway is influenced by genetic factors, we measured phosphorylated and total levels of three key proteins in the pathway (AKT1, p70S6K, 4E-BP1) by ELISA in 122 lymphoblastoid cell lines from 14 families. Interestingly, the phenotypes with the highest proportion of genetic influence were the ratios of phosphorylated to total protein for two of the pathway members: AKT1 and p70S6K. Genomewide linkage analysis suggested several loci of interest for these phenotypes, including a linkage peak for the AKT1 phenotype that contained the AKT1 gene on chromosome 14. Linkage peaks for the phosphorylated:total protein ratios of AKT1 and p70S6K also overlapped on chromosome 3. We selected and genotyped candidate genes from under the linkage peaks, and several statistically significant associations were found. One polymorphism in HSP90AA1 was associated with the ratio of phosphorylated to total AKT1, and polymorphisms in RAF1 and GRM7 were associated with the ratio of phosphorylated to total p70S6K. These findings, representing the first genomewide search for variants influencing human protein phosphorylation, provide useful information about the PI3K/AKT/mTOR pathway and serve as a valuable proof of concept for studies integrating human genomics and proteomics
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