Showing papers by "California Institute of Technology published in 2009"

The Seventh Data Release of the Sloan Digital Sky Survey

Abstract: This paper describes the Seventh Data Release of the Sloan Digital Sky Survey (SDSS), marking the completion of the original goals of the SDSS and the end of the phase known as SDSS-II. It includes 11,663 deg^2 of imaging data, with most of the ~2000 deg^2 increment over the previous data release lying in regions of low Galactic latitude. The catalog contains five-band photometry for 357 million distinct objects. The survey also includes repeat photometry on a 120° long, 2°.5 wide stripe along the celestial equator in the Southern Galactic Cap, with some regions covered by as many as 90 individual imaging runs. We include a co-addition of the best of these data, going roughly 2 mag fainter than the main survey over 250 deg^2. The survey has completed spectroscopy over 9380 deg^2; the spectroscopy is now complete over a large contiguous area of the Northern Galactic Cap, closing the gap that was present in previous data releases. There are over 1.6 million spectra in total, including 930,000 galaxies, 120,000 quasars, and 460,000 stars. The data release includes improved stellar photometry at low Galactic latitude. The astrometry has all been recalibrated with the second version of the USNO CCD Astrograph Catalog, reducing the rms statistical errors at the bright end to 45 milliarcseconds per coordinate. We further quantify a systematic error in bright galaxy photometry due to poor sky determination; this problem is less severe than previously reported for the majority of galaxies. Finally, we describe a series of improvements to the spectroscopic reductions, including better flat fielding and improved wavelength calibration at the blue end, better processing of objects with extremely strong narrow emission lines, and an improved determination of stellar metallicities.

Exact Matrix Completion via Convex Optimization

Abstract: We consider a problem of considerable practical interest: the recovery of a data matrix from a sampling of its entries. Suppose that we observe m entries selected uniformly at random from a matrix M. Can we complete the matrix and recover the entries that we have not seen? We show that one can perfectly recover most low-rank matrices from what appears to be an incomplete set of entries. We prove that if the number m of sampled entries obeys $$m\ge C\,n^{1.2}r\log n$$ for some positive numerical constant C, then with very high probability, most n×n matrices of rank r can be perfectly recovered by solving a simple convex optimization program. This program finds the matrix with minimum nuclear norm that fits the data. The condition above assumes that the rank is not too large. However, if one replaces the 1.2 exponent with 1.25, then the result holds for all values of the rank. Similar results hold for arbitrary rectangular matrices as well. Our results are connected with the recent literature on compressed sensing, and show that objects other than signals and images can be perfectly reconstructed from very limited information.

The gut microbiota shapes intestinal immune responses during health and disease

Abstract: Immunological dysregulation is the cause of many non-infectious human diseases such as autoimmunity, allergy and cancer. The gastrointestinal tract is the primary site of interaction between the host immune system and microorganisms, both symbiotic and pathogenic. In this Review we discuss findings indicating that developmental aspects of the adaptive immune system are influenced by bacterial colonization of the gut. We also highlight the molecular pathways that mediate host–symbiont interactions that regulate proper immune function. Finally, we present recent evidence to support that disturbances in the bacterial microbiota result in dysregulation of adaptive immune cells, and this may underlie disorders such as inflammatory bowel disease. This raises the possibility that the mammalian immune system, which seems to be designed to control microorganisms, is in fact controlled by microorganisms.

The formation, properties and impact of secondary organic aerosol: current and emerging issues

Abstract: Secondary organic aerosol (SOA) accounts for a significant fraction of ambient tropospheric aerosol and a detailed knowledge of the formation, properties and transformation of SOA is therefore required to evaluate its impact on atmospheric processes, climate and human health. The chemical and physical processes associated with SOA formation are complex and varied, and, despite considerable progress in recent years, a quantitative and predictive understanding of SOA formation does not exist and therefore represents a major research challenge in atmospheric science. This review begins with an update on the current state of knowledge on the global SOA budget and is followed by an overview of the atmospheric degradation mechanisms for SOA precursors, gas-particle partitioning theory and the analytical techniques used to determine the chemical composition of SOA. A survey of recent laboratory, field and modeling studies is also presented. The following topical and emerging issues are highlighted and discussed in detail: molecular characterization of biogenic SOA constituents, condensed phase reactions and oligomerization, the interaction of atmospheric organic components with sulfuric acid, the chemical and photochemical processing of organics in the atmospheric aqueous phase, aerosol formation from real plant emissions, interaction of atmospheric organic components with water, thermodynamics and mixtures in atmospheric models. Finally, the major challenges ahead in laboratory, field and modeling studies of SOA are discussed and recommendations for future research directions are proposed.

Fire in the Earth System

Abstract: Fire is a worldwide phenomenon that appears in the geological record soon after the appearance of terrestrial plants. Fire influences global ecosystem patterns and processes, including vegetation distribution and structure, the carbon cycle, and climate. Although humans and fire have always coexisted, our capacity to manage fire remains imperfect and may become more difficult in the future as climate change alters fire regimes. This risk is difficult to assess, however, because fires are still poorly represented in global models. Here, we discuss some of the most important issues involved in developing a better understanding of the role of fire in the Earth system.

RING Domain E3 Ubiquitin Ligases

Abstract: E3 ligases confer specificity to ubiquitination by recognizing target substrates and mediating transfer of ubiquitin from an E2 ubiquitinconjugating enzyme to substrate. The activity of most E3s is specified by a RING domain, which binds to an E2∼ubiquitin thioester and activates discharge of its ubiquitin cargo. E2-E3 complexes can either monoubiquitinate a substrate lysine or synthesize polyubiquitin chains assembled via different lysine residues of ubiquitin. These modifications can have diverse effects on the substrate, ranging from proteasome-dependent proteolysis to modulation of protein function, structure, assembly, and/or localization. Not surprisingly, RING E3mediated ubiquitination can be regulated in a number of ways. RING-based E3s are specified by over 600 human genes, surpassing the 518 protein kinase genes. Accordingly, RING E3s have been linked to the control of many cellular processes and to multiple human diseases. Despite their critical importance, our knowledge of the physiological partners, biological functions, substrates, and mechanism of action for most RING E3s remains at a rudimentary stage.

Finding structure with randomness: Probabilistic algorithms for constructing approximate matrix decompositions

Abstract: Low-rank matrix approximations, such as the truncated singular value decomposition and the rank-revealing QR decomposition, play a central role in data analysis and scientific computing. This work surveys and extends recent research which demonstrates that randomization offers a powerful tool for performing low-rank matrix approximation. These techniques exploit modern computational architectures more fully than classical methods and open the possibility of dealing with truly massive data sets. This paper presents a modular framework for constructing randomized algorithms that compute partial matrix decompositions. These methods use random sampling to identify a subspace that captures most of the action of a matrix. The input matrix is then compressed---either explicitly or implicitly---to this subspace, and the reduced matrix is manipulated deterministically to obtain the desired low-rank factorization. In many cases, this approach beats its classical competitors in terms of accuracy, speed, and robustness. These claims are supported by extensive numerical experiments and a detailed error analysis.

Satellite-based estimates of groundwater depletion in India

Abstract: Groundwater is a primary source of fresh water in many parts of the world. Some regions are becoming overly dependent on it, consuming groundwater faster than it is naturally replenished and causing water tables to decline unremittingly 1 . Indirect evidencesuggeststhatthisisthecaseinnorthwestIndia 2 ,butthere has been no regional assessment of the rate of groundwater depletion. Here we use terrestrial water storage-change observations from the NASA Gravity Recovery and Climate Experiment satellites 3 and simulated soil-water variations from a dataintegrating hydrological modelling system 4 to show that groundwater is being depleted at a mean rate of 4.0 61.0cmyr 21 equivalent height of water (17.7 64.5km 3 yr 21 ) over the Indian states

The Spitzer c2d legacy results: star-formation rates and efficiencies; evolution and lifetimes

Abstract: The c2d Spitzer Legacy project obtained images and photometry with both IRAC and MIPS instruments for five large, nearby molecular clouds. Three of the clouds were also mapped in dust continuum emission at 1.1 mm, and optical spectroscopy has been obtained for some clouds. This paper combines information drawn from studies of individual clouds into a combined and updated statistical analysis of star-formation rates and efficiencies, numbers and lifetimes for spectral energy distribution (SED) classes, and clustering properties. Current star-formation efficiencies range from 3% to 6%; if star formation continues at current rates for 10 Myr, efficiencies could reach 15-30%. Star-formation rates and rates per unit area vary from cloud to cloud; taken together, the five clouds are producing about 260 M ☉ of stars per Myr. The star-formation surface density is more than an order of magnitude larger than would be predicted from the Kennicutt relation used in extragalactic studies, reflecting the fact that those relations apply to larger scales, where more diffuse matter is included in the gas surface density. Measured against the dense gas probed by the maps of dust continuum emission, the efficiencies are much higher, with stellar masses similar to masses of dense gas, and the current stock of dense cores would be exhausted in 1.8 Myr on average. Nonetheless, star formation is still slow compared to that expected in a free-fall time, even in the dense cores. The derived lifetime for the Class I phase is 0.54 Myr, considerably longer than some estimates. Similarly, the lifetime for the Class 0 SED class, 0.16 Myr, with the notable exception of the Ophiuchus cloud, is longer than early estimates. If photometry is corrected for estimated extinction before calculating class indicators, the lifetimes drop to 0.44 Myr for Class I and to 0.10 for Class 0. These lifetimes assume a continuous flow through the Class II phase and should be considered median lifetimes or half-lives. Star formation is highly concentrated to regions of high extinction, and the youngest objects are very strongly associated with dense cores. The great majority (90%) of young stars lie within loose clusters with at least 35 members and a stellar density of 1 M ☉ pc–3. Accretion at the sound speed from an isothermal sphere over the lifetime derived for the Class I phase could build a star of about 0.25 M ☉, given an efficiency of 0.3. Building larger mass stars by using higher mass accretion rates could be problematic, as our data confirm and aggravate the "luminosity problem" for protostars. At a given T bol, the values for L bol are mostly less than predicted by standard infall models and scatter over several orders of magnitude. These results strongly suggest that accretion is time variable, with prolonged periods of very low accretion. Based on a very simple model and this sample of sources, half the mass of a star would be accreted during only 7% of the Class I lifetime, as represented by the eight most luminous objects.

Self-control in decision-making involves modulation of the vmPFC valuation system

Abstract: Every day, individuals make dozens of choices between an alternative with higher overall value and a more tempting but ultimately inferior option. Optimal decision-making requires self-control. We propose two hypotheses about the neurobiology of self-control: (i) Goal-directed decisions have their basis in a common value signal encoded in ventromedial prefrontal cortex (vmPFC), and (ii) exercising self-control involves the modulation of this value signal by dorsolateral prefrontal cortex (DLPFC). We used functional magnetic resonance imaging to monitor brain activity while dieters engaged in real decisions about food consumption. Activity in vmPFC was correlated with goal values regardless of the amount of self-control. It incorporated both taste and health in self-controllers but only taste in non–self-controllers. Activity in DLPFC increased when subjects exercised self-control and correlated with activity in vmPFC.

Quasinormal modes of black holes and black branes

Abstract: Quasinormal modes are eigenmodes of dissipative systems. Perturbations of classical gravitational backgrounds involving black holes or branes naturally lead to quasinormal modes. The analysis and classification of the quasinormal spectra require solving non-Hermitian eigenvalue problems for the associated linear differential equations. Within the recently developed gauge-gravity duality, these modes serve as an important tool for determining the near-equilibrium properties of strongly coupled quantum field theories, in particular their transport coefficients, such as viscosity, conductivity and diffusion constants. In astrophysics, the detection of quasinormal modes in gravitational wave experiments would allow precise measurements of the mass and spin of black holes as well as new tests of general relativity. This review is meant as an introduction to the subject, with a focus on the recent developments in the field.

Powering the planet with solar fuel

Abstract: With energy swiftly rising to the top of the world's agenda, Harry B. Gray at the California Institute of Technology looks at how chemistry can help to harness the power of the Sun to meet the world's energy needs.

The Social Brain: Neural Basis of Social Knowledge

Abstract: Social cognition in humans is distinguished by psychological processes that allow us to make inferences about what is going on inside other people—their intentions, feelings, and thoughts. Some of these processes likely account for aspects of human social behavior that are unique, such as our culture and civilization. Most schemes divide social information processing into those processes that are relatively automatic and driven by the stimuli, versus those that are more deliberative and controlled, and sensitive to context and strategy. These distinctions are reflected in the neural structures that underlie social cognition, where there is a recent wealth of data primarily from functional neuroimaging. Here I provide a broad survey of the key abilities, processes, and ways in which to relate these to data from cognitive neuroscience.

Integral Channel Features

Abstract: We study the performance of ‘integral channel features’ for image classification tasks, focusing in particular on pedestrian detection. The general idea behind integral channel features is that multiple registered image channels are computed using linear and non-linear transformations of the input image, and then features such as local sums, histograms, and Haar features and their various generalizations are efficiently computed using integral images. Such features have been used in recent literature for a variety of tasks – indeed, variations appear to have been invented independently multiple times. Although integral channel features have proven effective, little effort has been devoted to analyzing or optimizing the features themselves. In this work we present a unified view of the relevant work in this area and perform a detailed experimental evaluation. We demonstrate that when designed properly, integral channel features not only outperform other features including histogram of oriented gradient (HOG), they also (1) naturally integrate heterogeneous sources of information, (2) have few parameters and are insensitive to exact parameter settings, (3) allow for more accurate spatial localization during detection, and (4) result in fast detectors when coupled with cascade classifiers.

Pedestrian detection: A benchmark

Abstract: Pedestrian detection is a key problem in computer vision, with several applications including robotics, surveillance and automotive safety. Much of the progress of the past few years has been driven by the availability of challenging public datasets. To continue the rapid rate of innovation, we introduce the Caltech Pedestrian Dataset, which is two orders of magnitude larger than existing datasets. The dataset contains richly annotated video, recorded from a moving vehicle, with challenging images of low resolution and frequently occluded people. We propose improved evaluation metrics, demonstrating that commonly used per-window measures are flawed and can fail to predict performance on full images. We also benchmark several promising detection systems, providing an overview of state-of-the-art performance and a direct, unbiased comparison of existing methods. Finally, by analyzing common failure cases, we help identify future research directions for the field.

Mitochondrial dynamics–fusion, fission, movement, and mitophagy–in neurodegenerative diseases

Abstract: Neurons are metabolically active cells with high energy demands at locations distant from the cell body. As a result, these cells are particularly dependent on mitochondrial function, as reflected by the observation that diseases of mitochondrial dysfunction often have a neurodegenerative component. Recent discoveries have highlighted that neurons are reliant particularly on the dynamic properties of mitochondria. Mitochondria are dynamic organelles by several criteria. They engage in repeated cycles of fusion and fission, which serve to intermix the lipids and contents of a population of mitochondria. In addition, mitochondria are actively recruited to subcellular sites, such as the axonal and dendritic processes of neurons. Finally, the quality of a mitochondrial population is maintained through mitophagy, a form of autophagy in which defective mitochondria are selectively degraded. We review the general features of mitochondrial dynamics, incorporating recent findings on mitochondrial fusion, fission, transport and mitophagy. Defects in these key features are associated with neurodegenerative disease. Charcot-Marie-Tooth type 2A, a peripheral neuropathy, and dominant optic atrophy, an inherited optic neuropathy, result from a primary deficiency of mitochondrial fusion. Moreover, several major neurodegenerative diseases—including Parkinson's, Alzheimer's and Huntington's disease—involve disruption of mitochondrial dynamics. Remarkably, in several disease models, the manipulation of mitochondrial fusion or fission can partially rescue disease phenotypes. We review how mitochondrial dynamics is altered in these neurodegenerative diseases and discuss the reciprocal interactions between mitochondrial fusion, fission, transport and mitophagy.

The Palomar Transient Factory: system overview, performance and first results

Abstract: The Palomar Transient Factory (PTF) is a fully-automated, wide-field survey aimed at a systematic exploration of the optical transient sky. The transient survey is performed using a new 8.1 square degree camera installed on the 48 inch Samuel Oschin telescope at Palomar Observatory; colors and light curves for detected transients are obtained with the automated Palomar 60 inch telescope. PTF uses 80% of the 1.2 m and 50% of the 1.5 m telescope time. With an exposure of 60 s the survey reaches a depth of m_(g′) ≈ 21.3 and m_R ≈ 20.6 (5σ, median seeing). Four major experiments are planned for the five-year project: (1) a 5 day cadence supernova search; (2) a rapid transient search with cadences between 90 s and 1 day; (3) a search for eclipsing binaries and transiting planets in Orion; and (4) a 3π sr deep H-alpha survey. PTF provides automatic, real-time transient classification and follow-up, as well as a database including every source detected in each frame. This paper summarizes the PTF project, including several months of on-sky performance tests of the new survey camera, the observing plans, and the data reduction strategy. We conclude by detailing the first 51 PTF optical transient detections, found in commissioning data.

Matrix Completion With Noise

Abstract: On the heels of compressed sensing, a remarkable new field has very recently emerged. This field addresses a broad range of problems of significant practical interest, namely, the recovery of a data matrix from what appears to be incomplete, and perhaps even corrupted, information. In its simplest form, the problem is to recover a matrix from a small sample of its entries, and comes up in many areas of science and engineering including collaborative filtering, machine learning, control, remote sensing, and computer vision to name a few. This paper surveys the novel literature on matrix completion, which shows that under some suitable conditions, one can recover an unknown low-rank matrix from a nearly minimal set of entries by solving a simple convex optimization problem, namely, nuclear-norm minimization subject to data constraints. Further, this paper introduces novel results showing that matrix completion is provably accurate even when the few observed entries are corrupted with a small amount of noise. A typical result is that one can recover an unknown n x n matrix of low rank r from just about nr log^2 n noisy samples with an error which is proportional to the noise level. We present numerical results which complement our quantitative analysis and show that, in practice, nuclear norm minimization accurately fills in the many missing entries of large low-rank matrices from just a few noisy samples. Some analogies between matrix completion and compressed sensing are discussed throughout.

COSMOS Photometric Redshifts with 30-bands for 2-deg2

Abstract: We present accurate photometric redshifts in the 2-deg2 COSMOS field. The redshifts are computed with 30 broad, intermediate, and narrow bands covering the UV (GALEX), Visible-NIR (Subaru, CFHT, UKIRT and NOAO) and mid-IR (Spitzer/IRAC). A chi2 template-fitting method (Le Phare) was used and calibrated with large spectroscopic samples from VLT-VIMOS and Keck-DEIMOS. We develop and implement a new method which accounts for the contributions from emission lines (OII, Hbeta, Halpha and Ly) to the spectral energy distributions (SEDs). The treatment of emission lines improves the photo-z accuracy by a factor of 2.5. Comparison of the derived photo-z with 4148 spectroscopic redshifts (i.e. Delta z = zs - zp) indicates a dispersion of sigma_{Delta z/(1+zs)}=0.007 at i<22.5, a factor of 2-6 times more accurate than earlier photo-z in the COSMOS, CFHTLS and COMBO-17 survey fields. At fainter magnitudes i<24 and z<1.25, the accuracy is sigma_{Delta z/(1+zs)}=0.012. The deep NIR and IRAC coverage enables the photo-z to be extended to z~2 albeit with a lower accuracy (sigma_{Delta z/(1+zs)}=0.06 at i~24). The redshift distribution of large magnitude-selected samples is derived and the median redshift is found to range from z=0.66 at 22

First results from the catalina real-time transient survey

Abstract: We report on the results from the first six months of the Catalina Real-Time Transient Survey (CRTS). In order to search for optical transients (OTs) with timescales of minutes to years, the CRTS analyses data from the Catalina Sky Survey which repeatedly covers 26,000 of square degrees on the sky. The CRTS provides a public stream of transients that are bright enough to be followed up using small telescopes. Since the beginning of the survey, all CRTS transients have been made available to astronomers around the world in real time using HTML tables,RSS feeds, and VOEvents. As part of our public outreach program, the detections are now also available in Keyhole Markup Language through Google Sky. The initial discoveries include over 350 unique OTs rising more than 2 mag from past measurements. Sixty two of these are classified as supernovae (SNe), based on light curves, prior deep imaging and spectroscopic data. Seventy seven are due to cataclysmic variables (CVs; only 13 previously known), while an additional 100 transients were too infrequently sampled to distinguish between faint CVs and SNe. The remaining OTs include active galactic nucleus, blazars, high-proper-motions stars, highly variable stars (such as UV Ceti stars), and transients of an unknown nature. Our results suggest that there is a large population of SNe missed by many current SN surveys because of selection biases. These objects appear to be associated with faint host galaxies. We also discuss the unexpected discovery of white dwarf binary systems through dramatic eclipses.

Control of DNA Strand Displacement Kinetics Using Toehold Exchange

Abstract: DNA is increasingly being used as the engineering material of choice for the construction of nanoscale circuits, structures, and motors. Many of these enzyme-free constructions function by DNA strand displacement reactions. The kinetics of strand displacement can be modulated by toeholds, short single-stranded segments of DNA that colocalize reactant DNA molecules. Recently, the toehold exchange process was introduced as a method for designing fast and reversible strand displacement reactions. Here, we characterize the kinetics of DNA toehold exchange and model it as a three-step process. This model is simple and quantitatively predicts the kinetics of 85 different strand displacement reactions from the DNA sequences. Furthermore, we use toehold exchange to construct a simple catalytic reaction. This work improves the understanding of the kinetics of nucleic acid reactions and will be useful in the rational design of dynamic DNA and RNA circuits and nanodevices.

THE SINS SURVEY: SINFONI INTEGRAL FIELD SPECTROSCOPY OF z ∼ 2 STAR-FORMING GALAXIES*

Abstract: We present the Spectroscopic Imaging survey in the near-infrared (near-IR) with SINFONI (SINS) of high-redshift galaxies. With 80 objects observed and 63 detected in at least one rest-frame optical nebular emission line, mainly Hα, SINS represents the largest survey of spatially resolved gas kinematics, morphologies, and physical properties of star-forming galaxies at z ~ 1-3. We describe the selection of the targets, the observations, and the data reduction. We then focus on the "SINS Hα sample," consisting of 62 rest-UV/optically selected sources at 1.3 < z < 2.6 for which we targeted primarily the Hα and [N II] emission lines. Only ≈30% of this sample had previous near-IR spectroscopic observations. The galaxies were drawn from various imaging surveys with different photometric criteria; as a whole, the SINS Hα sample covers a reasonable representation of massive M_* ≳ 10^(10) M_☉ star-forming galaxies at z ≈ 1.5-2.5, with some bias toward bluer systems compared to pure K-selected samples due to the requirement of secure optical redshift. The sample spans 2 orders of magnitude in stellar mass and in absolute and specific star formation rates, with median values ≈3 × 10^(10) M_☉, ≈70 M_☉ yr^(–1), and ≈3 Gyr^(–1). The ionized gas distribution and kinematics are spatially resolved on scales ranging from ≈1.5 kpc for adaptive optics assisted observations to typically ≈4-5 kpc for seeing-limited data. The Hα morphologies tend to be irregular and/or clumpy. About one-third of the SINS Hα sample galaxies are rotation-dominated yet turbulent disks, another one-third comprises compact and velocity dispersion-dominated objects, and the remaining galaxies are clear interacting/merging systems; the fraction of rotation-dominated systems increases among the more massive part of the sample. The Hα luminosities and equivalent widths suggest on average roughly twice higher dust attenuation toward the H II regions relative to the bulk of the stars, and comparable current and past-averaged star formation rates.

SEGUE: A SPECTROSCOPIC SURVEY OF 240,000 STARS WITH g = 14-20

Abstract: The Sloan Extension for Galactic Understanding and Exploration (SEGUE) Survey obtained {approx}240,000 moderate-resolution (R {approx} 1800) spectra from 3900 {angstrom} to 9000 {angstrom} of fainter Milky Way stars (14.0 10 per resolution element, stellar atmospheric parameters are estimated, including metallicity, surface gravity, and effective temperature. SEGUE obtained 3500 deg{sup 2} of additional ugriz imaging (primarily at low Galactic latitudes) providing precise multicolor photometry ({sigma}(g, r, i) {approx} 2%), ({sigma}(u, z) {approx} 3%) and astrometry ({approx}0.1) for spectroscopic target selection. The stellar spectra, imaging data, and derived parameter catalogs for this survey are publicly available as part of Sloan Digital Sky Survey Data Release 7.

ABC transporters: the power to change

Abstract: ATP-binding cassette (ABC) transporters constitute a ubiquitous superfamily of integral membrane proteins that are responsible for the ATP-powered translocation of many substrates across membranes. The highly conserved ABC domains of ABC transporters provide the nucleotide-dependent engine that drives transport. By contrast, the transmembrane domains that create the translocation pathway are more variable. Recent structural advances with prokaryotic ABC transporters have provided a qualitative molecular framework for deciphering the transport cycle. An important goal is to develop quantitative models that detail the kinetic and molecular mechanisms by which ABC transporters couple the binding and hydrolysis of ATP to substrate translocation.

The Phase of Ongoing EEG Oscillations Predicts Visual Perception

Abstract: Oscillations are ubiquitous in electrical recordings of brain activity. While the amplitude of ongoing oscillatory activity is known to correlate with various aspects of perception, the influence of oscillatory phase on perception remains unknown. In particular, since phase varies on a much faster timescale than the more sluggish amplitude fluctuations, phase effects could reveal the fine-grained neural mechanisms underlying perception. We presented brief flashes of light at the individual luminance threshold while EEG was recorded. Although the stimulus on each trial was identical, subjects detected approximately half of the flashes (hits) and entirely missed the other half (misses). Phase distributions across trials were compared between hits and misses. We found that shortly before stimulus onset, each of the two distributions exhibited significant phase concentration, but at different phase angles. This effect was strongest in the theta and alpha frequency bands. In this time-frequency range, oscillatory phase accounted for at least 16% of variability in detection performance and allowed the prediction of performance on the single-trial level. This finding indicates that the visual detection threshold fluctuates over time along with the phase of ongoing EEG activity. The results support the notion that ongoing oscillations shape our perception, possibly by providing a temporal reference frame for neural codes that rely on precise spike timing.

The 6dF Galaxy Survey: final redshift release (DR3) and southern large-scale structures

Abstract: We report the final redshift release of the 6dF Galaxy Survey (6dFGS), a combined redshift and peculiar velocity survey over the southern sky (|b| > 10°). Its 136 304 spectra have yielded 110 256 new extragalactic redshifts and a new catalogue of 125 071 galaxies making near-complete samples with (K, H, J, r_F, b_J) ≤ (12.65, 12.95, 13.75, 15.60, 16.75). The median redshift of the survey is 0.053. Survey data, including images, spectra, photometry and redshifts, are available through an online data base. We describe changes to the information in the data base since earlier interim data releases. Future releases will include velocity dispersions, distances and peculiar velocities for the brightest early-type galaxies, comprising about 10 per cent of the sample. Here we provide redshift maps of the southern local Universe with z ≤ 0.1, showing nearby large-scale structures in hitherto unseen detail. A number of regions known previously to have a paucity of galaxies are confirmed as significantly underdense regions. The URL of the 6dFGS data base is http://www-wfau.roe.ac.uk/6dFGS.

The First Targeted Delivery of siRNA in Humans via a Self-Assembling, Cyclodextrin Polymer-Based Nanoparticle: From Concept to Clinic

Abstract: Experimental therapeutics developed to exploit RNA interference (RNAi) are now in clinical studies. Here, the translation from concept to clinic for the first experimental therapeutic to provide targeted delivery of synthetic, small interfering RNA (siRNA) in humans is described. This targeted, nanoparticle formulation of siRNA, denoted as CALAA-01, consists of a cyclodextrin-containing polymer (CDP), a polythethylene glycol (PEG) steric stabilization agent, and human transferrin (Tf) as a targeting ligand for binding to transferrin receptors (TfR) that are typically upregulated on cancer cells. The four component formulation is self-assembled into nanoparticles in the pharmacy and administered intravenously (iv) to patients. The designed features of this experimental therapeutic are described, and their functions illustrated.

Decline in Arctic sea ice thickness from submarine and ICESat records: 1958–2008

Abstract: [1] The decline of sea ice thickness in the Arctic Ocean from ICESat (2003–2008) is placed in the context of estimates from 42 years of submarine records (1958–2000) described by Rothrock et al. (1999, 2008). While the earlier 1999 work provides a longer historical record of the regional changes, the latter offers a more refined analysis, over a sizable portion of the Arctic Ocean supported by a much stronger and richer data set. Within the data release area (DRA) of declassified submarine sonar measurements (covering ∼38% of the Arctic Ocean), the overall mean winter thickness of 3.64 m in 1980 can be compared to a 1.89 m mean during the last winter of the ICESat record—an astonishing decrease of 1.75 m in thickness. Between 1975 and 2000, the steepest rate of decrease is −0.08 m/yr in 1990 compared to a slightly higher winter/summer rate of −0.10/−0.20 m/yr in the five-year ICESat record (2003–2008). Prior to 1997, ice extent in the DRA was >90% during the summer minimum. This can be contrasted to the gradual decrease in the early 2000s followed by an abrupt drop to <55% during the record setting minimum in 2007. This combined analysis shows a long-term trend of sea ice thinning over submarine and ICESat records that span five decades.