A multi-modal data resource for investigating topographic heterogeneity in patient-derived xenograft tumors.

Patient-derived xenografts (PDXs) are an essential pre-clinical resource for investigating tumor biology. However, cellular heterogeneity within and across PDX tumors can strongly impact the interpretation of PDX studies. Here, we generated a multi-modal, large-scale dataset to investigate PDX heterogeneity in metastatic colorectal cancer (CRC) across tumor models, spatial scales and genomic, transcriptomic, proteomic and imaging assay modalities. To showcase this dataset, we present analysis to assess sources of PDX variation, including anatomical orientation within the implanted tumor, mouse contribution, and differences between replicate PDX tumors. A unique aspect of our dataset is deep characterization of intra-tumor heterogeneity via immunofluorescence imaging, which enables investigation of variation across multiple spatial scales, from subcellular to whole tumor levels. Our study provides a benchmark data resource to investigate PDX models of metastatic CRC and serves as a template for future, quantitative investigations of spatial heterogeneity within and across PDX tumor models

Galaxy Zoo: Disentangling the Environmental Dependence of Morphology and Colour

We analyze the environmental dependence of galaxy morphology and colour with two-point clustering statistics, using data from the Galaxy Zoo, the largest sample of visually classified morphologies yet compiled, extracted from the Sloan Digital Sky Survey. We present two-point correlation functions of spiral and early-type galaxies, and we quantify the correlation between morphology and environment with marked correlation functions. These yield clear and precise environmental trends across a wide range of scales, analogous to similar measurements with galaxy colours, indicating that the Galaxy Zoo classifications themselves are very precise. We measure morphology marked correlation functions at fixed colour and find that they are relatively weak, with the only residual correlation being that of red galaxies at small scales, indicating a morphology gradient within haloes for red galaxies. At fixed morphology, we find that the environmental dependence of colour remains strong, and these correlations remain for fixed morphology \textit{and} luminosity. An implication of this is that much of the morphology--density relation is due to the relation between colour and density. Our results also have implications for galaxy evolution: the morphological transformation of galaxies is usually accompanied by a colour transformation, but not necessarily vice versa. A spiral galaxy may move onto the red sequence of the colour-magnitude diagram without quickly becoming an early-type. We analyze the significant population of red spiral galaxies, and present evidence that they tend to be located in moderately dense environments and are often satellite galaxies in the outskirts of haloes. Finally, we combine our results to argue that central and satellite galaxies tend to follow different evolutionary paths.Comment: 19 pages, 18 figures. Accepted for publication in MNRA

Walking and Walkability: Is Wayfinding a Missing Link? Implications for Public Health Practice

Research on walking and walkability has yet to focus on wayfinding, the interactive, problem-solving process by which people use environmental information to locate themselves and navigate through various settings

Galaxy Zoo: The large-scale spin statistics of spiral galaxies in the Sloan Digital Sky Survey

We re-examine the evidence for a violation of large-scale statistical isotropy in the distribution of projected spin vectors of spiral galaxies. We have a sample of $\sim 37,000$ spiral galaxies from the Sloan Digital Sky Survey, with their line of sight spin direction confidently classified by members of the public through the online project Galaxy Zoo. After establishing and correcting for a certain level of bias in our handedness results we find the winding sense of the galaxies to be consistent with statistical isotropy. In particular we find no significant dipole signal, and thus no evidence for overall preferred handedness of the Universe. We compare this result to those of other authors and conclude that these may also be affected and explained by a bias effect.Comment: Accepted for publication in MNRAS. 8 pages, 5 figure

The Extended Star Formation History of the Andromeda Spheroid at 35 Kpc on the Minor Axis

Using the HST ACS, we have obtained deep optical images reaching well below the oldest main sequence turnoff in fields on the southeast minor-axis of the Andromeda Galaxy, 35 kpc from the nucleus. These data probe the star formation history in the extended halo of Andromeda -- that region beyond 30 kpc that appears both chemically and morphologically distinct from the metal-rich, highly-disturbed inner spheroid. The present data, together with our previous data for fields at 11 and 21 kpc, do not show a simple trend toward older ages and lower metallicities, as one might expect for populations further removed from the obvious disturbances of the inner spheroid. Specifically, the mean ages and [Fe/H] values at 11 kpc, 21 kpc, and 35 kpc are 9.7 Gyr and -0.65, 11.0 Gyr and -0.87, and 10.5 Gyr and -0.98, respectively. In the best-fit model of the 35 kpc population, one third of the stars are younger than 10 Gyr, while only ~10% of the stars are truly ancient and metal-poor. The extended halo thus exhibits clear evidence of its hierarchical assembly, and the contribution from any classical halo formed via early monolithic collapse must be small.Comment: Accepted for publication in The Astrophysical Journal Letters. 4 pages, latex, 2 color figure

Galaxy Zoo: Reproducing Galaxy Morphologies Via Machine Learning

We present morphological classifications obtained using machine learning for objects in SDSS DR6 that have been classified by Galaxy Zoo into three classes, namely early types, spirals and point sources/artifacts. An artificial neural network is trained on a subset of objects classified by the human eye and we test whether the machine learning algorithm can reproduce the human classifications for the rest of the sample. We find that the success of the neural network in matching the human classifications depends crucially on the set of input parameters chosen for the machine-learning algorithm. The colours and parameters associated with profile-fitting are reasonable in separating the objects into three classes. However, these results are considerably improved when adding adaptive shape parameters as well as concentration and texture. The adaptive moments, concentration and texture parameters alone cannot distinguish between early type galaxies and the point sources/artifacts. Using a set of twelve parameters, the neural network is able to reproduce the human classifications to better than 90% for all three morphological classes. We find that using a training set that is incomplete in magnitude does not degrade our results given our particular choice of the input parameters to the network. We conclude that it is promising to use machine- learning algorithms to perform morphological classification for the next generation of wide-field imaging surveys and that the Galaxy Zoo catalogue provides an invaluable training set for such purposes.Comment: 13 Pages, 5 figures, 10 tables. Accepted for publication in MNRAS. Revised to match accepted version

Galaxy Zoo 1 : Data Release of Morphological Classifications for nearly 900,000 galaxies

Morphology is a powerful indicator of a galaxy's dynamical and merger history. It is strongly correlated with many physical parameters, including mass, star formation history and the distribution of mass. The Galaxy Zoo project collected simple morphological classifications of nearly 900,000 galaxies drawn from the Sloan Digital Sky Survey, contributed by hundreds of thousands of volunteers. This large number of classifications allows us to exclude classifier error, and measure the influence of subtle biases inherent in morphological classification. This paper presents the data collected by the project, alongside measures of classification accuracy and bias. The data are now publicly available and full catalogues can be downloaded in electronic format from http://data.galaxyzoo.org.Comment: Accepted by MNRAS, 14 pages. Updated to match final version; problem with table 7 header fixed. Full tables available at http://data.galaxyzoo.or

The SPLASH Survey: A Spectroscopic Portrait of Andromeda's Giant Southern Stream

The giant southern stream (GSS) is the most prominent tidal debris feature in M31's stellar halo. The GSS is composed of a relatively metal-rich, high surface-brightness "core" and a lower metallicity, lower surface brightness "envelope." We present Keck/DEIMOS spectroscopy of red giant stars in six fields in the vicinity of M31's GSS and one field on Stream C, an arc-like feature on M31's SE minor axis at R=60 kpc. Several GSS-related findings and measurements are presented here. We present the innermost kinematical detection of the GSS core to date (R=17 kpc). This field also contains the continuation of a second kinematically cold component originally seen in a GSS core field at R=21 kpc. The velocity gradients of the GSS and the second component in the combined data set are parallel over a radial range of 7 kpc, suggesting a possible bifurcation in the line-of-sight velocities of GSS stars. We also present the first kinematical detection of substructure in the GSS envelope. Using kinematically identified samples, we show that the envelope debris has a ~0.7 dex lower mean photometric metallicity and possibly higher intrinsic velocity dispersion than the GSS core. The GSS is also identified in the field of the M31 dSph satellite And I; the GSS in this field has a metallicity distribution identical to that of the GSS core. We confirm the presence of two kinematically cold components in Stream C, and measure intrinsic velocity dispersions of ~10 and ~4 km/s. This compilation of the kinematical (mean velocity, intrinsic velocity dispersion) and chemical properties of stars in the GSS core and envelope, coupled with published surface brightness measurements and wide-area star-count maps, will improve constraints on the orbit and internal structure of the dwarf satellite progenitor.Comment: Accepted for publication in Ap

The ACS Survey of Galactic Globular Clusters. IX. Horizontal Branch Morphology and the Second Parameter Phenomenon

The horizontal branch (HB) morphology of globular clusters (GCs) is most strongly influenced by metallicity. The second parameter phenomenon acknowledges that metallicity alone is not enough to describe the HB morphology of all GCs. In particular, the outer Galactic halo contains GCs with redder HBs at a given metallicity than are found inside the Solar circle. Thus, at least a second parameter is required to characterize HB morphology. Here we analyze the median color difference between the HB and the red giant branch (RGB), d(V-I), measured from HST ACS photometry of 60 GCs within ~20 kpc of the Galactic Center. Analysis of this homogeneous data set reveals that, after the influence of metallicity has been removed, the correlation between d(V-I) and age is stronger than that of any other parameter considered. Expanding the sample to include HST photometry of the 6 most distant Galactic GCs lends additional support to the correlation between d(V-I) and age. This result is robust with respect to the adopted metallicity scale and the method of age determination, but must bear the caveat that high quality, detailed abundance information is not available for a significant fraction of the sample. When a subset of GCs with similar metallicities and ages are considered, a correlation between d(V-I) and central luminosity density is exposed. With respect to the existence of GCs with anomalously red HBs at a given metallicity, we conclude that age is the second parameter and central density is most likely the third. Important problems related to HB morphology in GCs, notably multi-modal distributions and faint blue tails, remain to be explained. (Abridged)Comment: Accepted for publication in ApJ; 49 pages, 19 figure

Galaxy Zoo: Dust in Spirals

We investigate the effect of dust on spiral galaxies by measuring the inclination-dependence of optical colours for 24,276 well-resolved SDSS galaxies visually classified in Galaxy Zoo. We find clear trends of reddening with inclination which imply a total extinction from face-on to edge-on of 0.7, 0.6, 0.5 and 0.4 magnitudes for the ugri passbands. We split the sample into "bulgy" (early-type) and "disky" (late-type) spirals using the SDSS fracdeV (or f_DeV) parameter and show that the average face-on colour of "bulgy" spirals is redder than the average edge-on colour of "disky" spirals. This shows that the observed optical colour of a spiral galaxy is determined almost equally by the spiral type (via the bulge-disk ratio and stellar populations), and reddening due to dust. We find that both luminosity and spiral type affect the total amount of extinction, with "disky" spirals at M_r ~ -21.5 mags having the most reddening. This decrease of reddening for the most luminous spirals has not been observed before and may be related to their lower levels of recent star formation. We compare our results with the latest dust attenuation models of Tuffs et al. We find that the model reproduces the observed trends reasonably well but overpredicts the amount of u-band attenuation in edge-on galaxies. We end by discussing the effects of dust on large galaxy surveys and emphasize that these effects will become important as we push to higher precision measurements of galaxy properties and their clustering.Comment: MNRAS in press. 25 pages, 22 figures (including an abstract comparing GZ classifications with common automated methods for selecting disk/early type galaxies in SDSS data). v2 corrects typos found in proof