Local Guarantees in Graph Cuts and Clustering

Correlation Clustering is an elegant model that captures fundamental graph cut problems such as Min $s-t$ Cut, Multiway Cut, and Multicut, extensively studied in combinatorial optimization. Here, we are given a graph with edges labeled $+$ or $-$ and the goal is to produce a clustering that agrees with the labels as much as possible: $+$ edges within clusters and $-$ edges across clusters. The classical approach towards Correlation Clustering (and other graph cut problems) is to optimize a global objective. We depart from this and study local objectives: minimizing the maximum number of disagreements for edges incident on a single node, and the analogous max min agreements objective. This naturally gives rise to a family of basic min-max graph cut problems. A prototypical representative is Min Max $s-t$ Cut: find an $s-t$ cut minimizing the largest number of cut edges incident on any node. We present the following results: $(1)$ an $O(\sqrt{n})$-approximation for the problem of minimizing the maximum total weight of disagreement edges incident on any node (thus providing the first known approximation for the above family of min-max graph cut problems), $(2)$ a remarkably simple $7$-approximation for minimizing local disagreements in complete graphs (improving upon the previous best known approximation of $48$), and $(3)$ a $1/(2+\varepsilon)$-approximation for maximizing the minimum total weight of agreement edges incident on any node, hence improving upon the $1/(4+\varepsilon)$-approximation that follows from the study of approximate pure Nash equilibria in cut and party affiliation games

Algorithms for Visualizing Phylogenetic Networks

We study the problem of visualizing phylogenetic networks, which are extensions of the Tree of Life in biology. We use a space filling visualization method, called DAGmaps, in order to obtain clear visualizations using limited space. In this paper, we restrict our attention to galled trees and galled networks and present linear time algorithms for visualizing them as DAGmaps.Comment: Appears in the Proceedings of the 24th International Symposium on Graph Drawing and Network Visualization (GD 2016

Whole transcriptome analysis of human erythropoietic cells during ontogenesis suggests a role of VEGFA gene as modulator of fetal hemoglobin and pharmacogenomic biomarker of treatment response to hydroxyurea in β-type hemoglobinopathy patients

Background: Human erythropoiesis is characterized by distinct gene expression profiles at various developmental stages. Previous studies suggest that fetal-to-adult hemoglobin switch is regulated by a complex mechanism, in which many key players still remain unknown. Here, we report our findings from whole transcriptome analysis of erythroid cells, isolated from erythroid tissues at various developmental stages in an effort to identify distinct molecular signatures of each erythroid tissue.Results: From our in-depth data analysis, pathway analysis, and text mining, we opted to focus on the VEGFA gene, given its gene expression characteristics. Selected VEGFA genomic variants, identified through linkage disequilibrium analysis, were explored further for their association with elevated fetal hemoglobin levels in β-type hemoglobinopathy patients. Our downstream analysis of non-transfusion-dependent β-thalassemia patients, β-thalassemia major patients, compound heterozygous sickle cell disease/β-thalassemia patients receiving hydroxyurea as fetal hemoglobin augmentation treatment, and non-thalassemic individuals indicated that VEGFA genomic variants were associated with disease severity in β-thalassemia patients and hydroxyurea treatment efficacy in SCD/β-thalassemia compound heterozygous patients.Conclusions: Our findings suggest that VEGFA may act as a modifier gene of human globin gene expression and, at the same time, serve as a genomic biomarker in β-type hemoglobinopathy disease severity and hydroxyurea treatment efficacy

AEGIS: Infrared Spectral Energy Distributions of MIPS 70micron selected sources

We present 0.5 -160 micron Spectral Energy Distributions (SEDs) of galaxies, detected at 70microns with the Multiband Imaging Photometer for Spitzer (MIPS), using broadband imaging data from Spitzer and ground-based telescopes. Spectroscopic redshifts, in the range 0.2<z<1.5, have been measured as part of the Deep Extragalactic Evolutionary Probe2 (DEEP2) project. Based on the SEDs we explore the nature and physical properties of the sources. Using the optical spectra we derive Hbeta and [OII]-based Star Formation Rates (SFR) which are 10-100 times lower than SFR estimates based on IR and radio. The median offset in SFR between optical and IR is reduced by a factor of ~3 when we apply a typical extinction corrections. We investigate mid-to-far infrared correlations for low redshift (>0.5) and high redshift (0.5<z<1.2) bins. Using this unique ``far-infrared'' selected sample we derive an empirical mid to far-infrared relationship that can be used to estimate the infrared energy budget of galaxies in the high-redshift universe. Our sample can be used as a template to translate far-infrared luminosities into bolometric luminosities for high redshift objects.Comment: 4 pages, 5 figures, accepted for publication in AEGIS ApJL Special Issu

The use and calibration of read-out streaks to increase the dynamic range of the Swift Ultraviolet/Optical Telescope

The dynamic range of photon counting micro-channel-plate (MCP) intensified charged-coupled device (CCD) instruments such as the Swift Ultraviolet/Optical Telescope (UVOT) and the XMM-Newton Optical Monitor (XMM-OM) is limited at the bright end by coincidence loss, the superposition of multiple photons in the individual frames recorded by the CCD. Photons which arrive during the brief period in which the image frame is transferred for read out of the CCD are displaced in the transfer direction in the recorded images. For sufficiently bright sources, these displaced counts form read-out streaks. Using UVOT observations of Tycho-2 stars, we investigate the use of these read-out streaks to obtain photometry for sources which are too bright (and hence have too much coincidence loss) for normal aperture photometry to be reliable. For read-out-streak photometry, the bright-source limiting factor is coincidence loss within the MCPs rather than the CCD. We find that photometric measurements can be obtained for stars up to 2.4 magnitudes brighter than the usual full-frame coincidence-loss limit by using the read-out streaks. The resulting bright-limit Vega magnitudes in the UVOT passbands are UVW2=8.80, UVM2=8.27, UVW1=8.86, u=9.76, b=10.53, v=9.31 and White=11.71; these limits are independent of the windowing mode of the camera. We find that a photometric precision of 0.1 mag can be achieved through read-out streak measurements. A suitable method for the measurement of read-out streaks is described and all necessary calibration factors are given.Comment: 11 pages, accepted for publication in MNRAS. Code available from the calibration link at http://www.mssl.ucl.ac.uk/www_astro/uvo

The incidence of myelodysplastic syndromes in Western Greece is increasing.

Descriptive epidemiology of the myelodysplastic syndromes (MDS) is always interesting and may reveal time-dependent and geographical variations, as well as occupational exposure. Epidemiological data in Greece are not available by now. We have collected and analyzed medical records of all patients with a documented diagnosis of MDS, performed by an expert hematologist and/or hematopathologist, in the geographical area of Western Greece, during the 20-year period, defined between 1990 and 2009. We have then calculated and described demographic and clinical features of the diagnosed MDS patient population, and assessed the incidence and prevalence rates of MDS in Western Greece, during the above-mentioned period. A total of 855 patients with newly diagnosed MDS have been identified. Refractory anemia was the most common subtype in both FAB and WHO classification systems and in both genders. Del-5q and RARS were more commonly encountered among females, and the dysplastic subtype of chronic myelomonocytic leukemia among males. Trisomy 8 was the most common single cytogenetic abnormality. The crude mean annual incidence rate of MDS was 6.0 per 100,000 inhabitants aged ≥15 years old (all subtypes according to FAB), and it was 4.8 per 100,000 when CMML and RAEB-T were excluded. Crude incidence rate was higher in rural than in urban areas, but this finding was not confirmed after age standardization. Age-standardized mean annual incidence rate in men was 7.9/100,000 and in women 3.4/100,000. A continuously increasing incidence rate of MDS has been observed throughout the study period

Panchromatic spectral energy distributions of Herschel sources

(abridged) Far-infrared Herschel photometry from the PEP and HerMES programs is combined with ancillary datasets in the GOODS-N, GOODS-S, and COSMOS fields. Based on this rich dataset, we reproduce the restframe UV to FIR ten-colors distribution of galaxies using a superposition of multi-variate Gaussian modes. The median SED of each mode is then fitted with a modified version of the MAGPHYS code that combines stellar light, emission from dust heated by stars and a possible warm dust contribution heated by an AGN. The defined Gaussian grouping is also used to identify rare sources. The zoology of outliers includes Herschel-detected ellipticals, very blue z~1 Ly-break galaxies, quiescent spirals, and torus-dominated AGN with star formation. Out of these groups and outliers, a new template library is assembled, consisting of 32 SEDs describing the intrinsic scatter in the restframe UV-to-submm colors of infrared galaxies. This library is tested against L(IR) estimates with and without Herschel data included, and compared to eight other popular methods often adopted in the literature. When implementing Herschel photometry, these approaches produce L(IR) values consistent with each other within a median absolute deviation of 10-20%, the scatter being dominated more by fine tuning of the codes, rather than by the choice of SED templates. Finally, the library is used to classify 24 micron detected sources in PEP GOODS fields. AGN appear to be distributed in the stellar mass (M*) vs. star formation rate (SFR) space along with all other galaxies, regardless of the amount of infrared luminosity they are powering, with the tendency to lie on the high SFR side of the "main sequence". The incidence of warmer star-forming sources grows for objects with higher specific star formation rates (sSFR), and they tend to populate the "off-sequence" region of the M*-SFR-z space.Comment: Accepted for publication in A&A. Some figures are presented in low resolution. The new galaxy templates are available for download at the address http://www.mpe.mpg.de/ir/Research/PEP/uvfir_temp

X-ray-selected broad absorption line quasi-stellar objects

We study a sample of six X-ray-selected broad absorption line (BAL) quasi-stellar objects (QSOs) from the XMM–Newton Wide Angle Survey. All six objects are classified as BALQSOs using the classic balnicity index, and together they form the largest sample of X-ray-selected BALQSOs. We find evidence for absorption in the X-ray spectra of all six objects. An ionized absorption model applied to an X-ray spectral shape that would be typical for non-BAL QSOs (a power law with energy index α = 0.98) provides acceptable fits to the X-ray spectra of all six objects. The optical to X-ray spectral indices, αOX, of the X-ray-selected BALQSOs, have a mean value of 〈αOX〉 = 1.69 ± 0.05, which is similar to that found for X-ray-selected and optically selected non-BAL QSOs of a similar ultraviolet luminosity. In contrast, optically selected BALQSOs typically have much larger αOX and so are characterized as being X-ray weak. The results imply that X-ray selection yields intrinsically X-ray bright BALQSOs, but their X-ray spectra are absorbed by a similar degree to that seen in optically selected BALQSO samples; X-ray absorption appears to be ubiquitous in BALQSOs, but X-ray weakness is not. We argue that BALQSOs sit at one end of a spectrum of X-ray absorption properties in QSOs related to the degree of ultraviolet absorption in C iv 1550 Å

The AGN content in luminous IR galaxies at z\sim2 from a global SED analysis including Herschel data

We use Herschel-PACS far-infrared data, combined with previous multi-band information and mid-IR spectra, to properly account for the presence of an active nucleus and constrain its energetic contribution in luminous infrared (IR) sources at z\sim2. The sample is composed of 24 sources in the GOODS-South field, with typical IR luminosity of 10^{12} Lo. Data from the 4 Ms Chandra X-ray imaging in this field are also used to identify and characterize AGN emission. We reproduce the observed spectral energy distribution (SED), decomposed into a host-galaxy and an AGN component. A smooth-torus model for circum-nuclear dust is used to account for the direct and re-processed contribution from the AGN. We confirm that galaxies with typical L_{8-1000um}\sim10^{12}Lo at z\sim2 are powered predominantly by star-formation. An AGN component is present in nine objects (\sim35% of the sample) at the 3sigma confidence level, but its contribution to the 8-1000 um emission accounts for only \sim5% of the energy budget. The AGN contribution rises to \sim23% over the 5-30 um range (in agreement with Spitzer IRS results) and to \sim60% over the narrow 2-6 um range. The presence of an AGN is confirmed by X-ray data for 3 (out of nine) sources, with X-ray spectral analysis indicating the presence of significant absorption, i.e. NH\sim10^{23}-10^{24} cm^{-2}. An additional source shows indications of obscured AGN emission from X-ray data. The comparison between the mid-IR--derived X-ray luminosities and those obtained from X-ray data suggests that obscuration is likely present also in the remaining six sources that harbour an AGN according to the SED-fitting analysis.Comment: 12 pages, including 5 figures. Accepted for publication in MNRA