OmicsVis: an interactive tool for visually analyzing metabolomics data

When analyzing metabolomics data, cancer care researchers are searching for differences between known healthy samples and unhealthy samples. By analyzing and understanding these differences, researchers hope to identify cancer biomarkers. Due to the size and complexity of the data produced, however, analysis can still be very slow and time consuming. This is further complicated by the fact that datasets obtained will exhibit incidental differences in intensity and retention time, not related to actual chemical differences in the samples being evaluated. Additionally, automated tools to correct these errors do not always produce reliable results. This work presents a new analytics system that enables interactive comparative visualization and analytics of metabolomics data obtained by two-dimensional gas chromatography-mass spectrometry (GC × GC-MS). The key features of this system are the ability to produce visualizations of multiple GC × GC-MS data sets, and to explore those data sets interactively, allowing a user to discover differences and features in real time. The system provides statistical support in the form of difference, standard deviation, and kernel density estimation calculations to aid users in identifying meaningful differences between samples. These are combined with novel transfer functions and multiform, linked visualizations in order to provide researchers with a powerful new tool for GC × GC-MS exploration and bio-marker discovery

Ground Based Observation of Isotopic Oxygen in the Martian Atmosphere Using Infrared Heterodyne Spectroscopy

Infrared heterodyne spectra of isotopic CO2 in the Martian atmosphere were obtained using the Goddard Heterodyne Instrument for Planetary Wind and Composition, HIPWAC, which was interfaced with the 3-meter telescope at the NASA Infrared Telescope Facility- Spectra were colle cted at a resolution of lambda/delta lambda=10(exp 7). Absorption fea tures of the CO2 isotopologues have been identified from which isotop ic ratios of oxygen have been determined. The isotopic ratios O-17/O -16 and O-18/O-16 in the Martian atmosphere can be related to Martian atmospheric evolution and can be compared to isotopic ratios of oxyg en in the Earth's atmosphere. Isotopic carbon and oxygen are importa nt constraints on any theory for the erosion of the Martian primordia l atmosphere and the interaction between the atmosphere and surface o r subsurface chemical reservoirs. This investigation explored the pr esent abundance of the stable isotopes of oxygen in Mars' atmospheric carbon dioxide by measuring rovibrational line absorption in isotop ic species of CO2 using groundbased infrared heterodyne spectroscopy in the vicinity of the 9.6 micron and 10.6 micron CO2 lasing bands. T he target transitions during this observation were O-18 C-12 O-16 as well as O-178 C-12 O-16 and O-16 C-113 O-16 at higher resolving power of lambda/delta lambda=10(exp 7) and with high signal-to-noise ratio (longer integration time) in order to fully characterize the absorpt ion line profiles. The fully-resolved lineshape of both the strong n ormal-isotope and the weak isotopic CO2 lines were measured simultane ously in a single spectrum

Preliminary Results on HAT-P-4, TrES-3, XO-2, and GJ 436 from the NASA EPOXI Mission

EPOXI (EPOCh + DIXI) is a NASA Discovery Program Mission of Opportunity using the Deep Impact flyby spacecraft. The EPOCh (Extrasolar Planet Observation and Characterization) Science Investigation will gather photometric time series of known transiting exoplanet systems from January through August 2008. Here we describe the steps in the photometric extraction of the time series and present preliminary results of the first four EPOCh targets.Comment: 4 pages, 2 figures. To appear in the Proceedings of the 253rd IAU Symposium: "Transiting Planets", May 2008, Cambridge, M

Introduction: Examined Live – An Epistemological Exchange Between Philosophy and Cultural Psychology on Reflection

Besides the general agreement about the human capability of reflection, there is a large area of disagreement and debate about the nature and value of “reflective scrutiny” and the role of “second-order states” in everyday life. This problem has been discussed in a vast and heterogeneous literature about topics such as epistemic injustice, epistemic norms, agency, understanding, meta-cognition etc. However, there is not yet any extensive and interdisciplinary work, specifically focused on the topic of the epistemic value of reflection. This volume is one of the first attempts aimed at providing an innovative contribution, an exchange between philosophy, epistemology and psychology about the place and value of reflection in everyday life. Our goal in the next sections is not to offer an exhaustive overview of recent work on epistemic reflection, nor to mimic all of the contributions made by the chapters in this volume. We will try to highlight some topics that have motivated a new resumption of this field and, with that, drawing on chapters from this volume where relevant. Two elements defined the scope and content of this volume, on the one hand, the crucial contribution of Ernest Sosa, whose works provide original and thought-provoking contributions to contemporary epistemology in setting a new direction for old dilemmas about the nature and value of knowledge, giving a central place to reflection. On the other hand, the recent developments of cultural psychology, in the version of the “Aalborg approach”, reconsider the object and scope of psychological sciences, stressing that “[h]uman conduct is purposeful”

Background and Lunar Neutron Populations Detected by LEND and Average Concentration of Near-Surface Hydrogen near the Moon's Poles

Neutron flux measurements by the Lunar Exploration Neutron Detector (LEND) on the Lunar Reconnaissance Orbiter (LRO) enable quantifying hydrogen-bearing volatiles in the lunar surface from orbit. Accurately determining hydrogen abundance requires discriminating between the instrument background detection rate and the population of lunar-sourced neutrons that are sensitive to surficial hydrogen. We have investigated the detection rate for lunar and non-lunar (spacecraft-sourced) neutrons in LEND by modeling maps of measured count rate in three LEND detector systems using linear combinations of maps compiled from LEND detectors and from the Lunar Prospector Neutron Spectrometer. We find that 30% of the global-average 24.926 +/- 0.020 neutron counts per second (cps) detected by the LEND STN3 thermal-energy neutron sensor are lunar-sourced neutrons in the thermal energy range (E 0.4 eV), and 5% are from spacecraft-sourced background signal. In the SETN epithermal neutron detector, 90% of the 10.622 +/- 0.002 neutron detections per second are consistent with a lunar source of epithermal and fast neutrons combined (E > 0.4 eV), with 3% due to lunar-sourced thermal neutron leakage into the detector (E < 0.4 eV), and background signal accounting for 7% of total detections. Background signal due to spacecraft-derived neutrons is substantial in the CSETN collimated detector system, accounting for 57% of the global average detection rate of 5.082 +/- 0.001 cps, greater than the 48% estimated from cruise-phase data. Lunar-sourced epithermal and fast neutrons account for 43% of detected neutrons, including neutrons in collimation as well as neutrons that penetrate the collimator wall to reach the detector. We estimate a lower limit of 17% of lunar-sourced neutrons detected by CSETN are epithermal neutrons in collimation (0.37 cps), with an upper limit estimate of 54 +/- 11% of lunar-sourced neutrons received in collimation, or 1.2 +/- 0.2 cps global average. The pole-to-equator contrast ratio in epithermal and high-energy epithermal neutron flux indicates that the average concentration of hydrogen in the polar regolith above 80deg north or south latitude is 105 ppmw (parts per million by weight), or 0.095 +/- 0.01 wt% water-equivalent hydrogen. Above 88deg north or south, the concentration increases to 140 ppmw, or 0.13 +/- 0.02 wt% water-equivalent hydrogen. The similar pattern of neutron flux suppression at both poles suggests that hydrogen concentration generally increases nearer the pole and is not closely associated with a specific feature such as Shackleton Crater at the lunar south pole that has no northern counterpart. Epithermal neutron flux decreases with increasing latitude outside the polar regions, consistent with surface hydration that increases with latitude if that hydration extends to 13-40 cm into the surface

Scanning-helium-ion-beam lithography with hydrogen silsesquioxane resist

A scanning-helium-ion-beam microscope is now commercially available. This microscope can be used to perform lithography similar to, but of potentially higher resolution than, scanning electron-beam lithography. This article describes the control of this microscope for lithography via beam steering/blanking electronics and evaluates the high-resolution performance of scanning helium-ion-beam lithography. The authors found that sub-10 nm-half-pitch patterning is feasible. They also measured a point-spread function that indicates a reduction in the micrometer-range proximity effect typical in electron-beam lithography.National Science Foundation (U.S.). Graduate Research Fellowship Progra

Age-related striatal BOLD changes without changes in behavioral loss aversion

Loss aversion (LA), the idea that negative valuations have a higher psychological impact than positive ones, is considered an important variable in consumer research. The literature on aging and behavior suggests older individuals may show more LA, although it is not clear if this is an effect of aging in general (as in the continuum from age 20 and 50 years), or of the state of older age (e.g., past age 65 years). We also have not yet identified the potential biological effects of aging on the neural processing of LA. In the current study we used a cohort of subjects with a 30 year range of ages, and performed whole brain functional MRI (fMRI) to examine the ventral striatum/nucleus accumbens (VS/NAc) response during a passive viewing of affective faces with model-based fMRI analysis incorporating behavioral data from a validated approach/avoidance task with the same stimuli. Our a priori focus on the VS/NAc was based on (1) the VS/NAc being a central region for reward/aversion processing; (2) its activation to both positive and negative stimuli; (3) its reported involvement with tracking LA. LA from approach/avoidance to affective faces showed excellent fidelity to published measures of LA. Imaging results were then compared to the behavioral measure of LA using the same affective faces. Although there was no relationship between age and LA, we observed increasing neural differential sensitivity (NDS) of the VS/NAc to avoidance responses (negative valuations) relative to approach responses (positive valuations) with increasing age. These findings suggest that a central region for reward/aversion processing changes with age, and may require more activation to produce the same LA behavior as in younger individuals, consistent with the idea of neural efficiency observed with high IQ individuals showing less brain activation to complete the same task

Far‐UV emissions from the SL9 impacts with Jupiter

Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/95348/1/grl8617.pd

Evidence for the Sequestration of Hydrogen-Bearing Volatiles Towards the Moons Southern Pole-Facing Slopes

The Lunar Exploration Neutron Detector (LEND) onboard the Lunar Reconnaissance Orbiter (LRO) detects a widespread suppression of the epithermal neutron leakage flux that is coincident with the pole-facing slopes (PFS) of the Moon's southern hemisphere. Suppression of the epithermal neutron flux is consistent with an interpretation of enhanced concentrations of hydrogen-bearing volatiles within the upper meter of the regolith. Localized flux suppression in PFS suggests that the reduced solar irradiation and lowered temperature on PFS constrains volatility to a greater extent than in surrounding regions. Epithermal neutron flux mapped with LEND's Collimated Sensor for Epithermal Neutrons (CSETN) was analyzed as a function of slope geomorphology derived from the Lunar Orbiting Laser Altimeter (LOLA) and the results compared to co-registered maps of diurnally averaged temperature from the Diviner Lunar Radiometer Experiment and an averaged illumination map derived from LOLA. The suppression in the average south polar epithermal neutron flux on equator-facing slopes (EFS) and PFS (85-90 deg S) is 3.3 +/- 0.04% and 4.3 +/- 0.05% respectively (one-sigma-uncertainties), relative to the average count-rate in the latitude band 45-90 deg S. The discrepancy of 1.0 +/- 0.06% between EFS and PFS neutron flux corresponds to an average of approximately 23 parts-per-million-by-weight (ppmw) more hydrogen on PFS than on EFS. Results show that the detection of hydrogen concentrations on PFS is dependent on their spatial scale. Epithermal flux suppression on large scale PFS was found to be enhanced to 5.2 +/- 0.13%, a discrepancy of approximately 45 ppmw hydrogen relative to equivalent EFS. Enhanced poleward hydration of PFS begins between 50 deg S and 60 deg S latitude. Polar regolith temperature contrasts do not explain the suppression of epithermal neutrons on pole-facing slopes. The Supplemental on-line materials include supporting results derived from the uncollimated Lunar Prospector Neutron Spectrometer and the LEND Sensor for Epithermal Neutrons