A Physical Model for z~2 Dust Obscured Galaxies

We present a physical model for the origin of z~2 Dust-Obscured Galaxies (DOGs), a class of high-redshift ULIRGs selected at 24 micron which are particularly optically faint (24/R>1000). By combining N-body/SPH simulations of high redshift galaxy evolution with 3D polychromatic dust radiative transfer models, we find that luminous DOGs (with F24 > 0.3 mJy at z~2 are well-modeled as extreme gas-rich mergers in massive (~5x10^12-10^13 Msun) halos, with elevated star formation rates (~500-1000 Msun/yr) and/or significant AGN growth (Mdot > 0.5 Msun/yr), whereas less luminous DOGs are more diverse in nature. At final coalescence, merger-driven DOGs transition from being starburst dominated to AGN dominated, evolving from a "bump" to a power-law shaped mid-IR (IRAC) spectral energy distribution (SED). After the DOG phase, the galaxy settles back to exhibiting a "bump" SED with bluer colors and lower star formation rates. While canonically power-law galaxies are associated with being AGN-dominated, we find that the power-law mid-IR SED can owe both to direct AGN contribution, as well as to a heavily dust obscured stellar bump at times that the galaxy is starburst dominated. Thus power-law galaxies can be either starburst or AGN dominated. Less luminous DOGs can be well-represented either by mergers, or by massive ($M_{\rm baryon} ~5x10^11 Msun) secularly evolving gas-rich disc galaxies (with SFR > 50 Msun/yr). By utilising similar models as those employed in the SMG formation study of Narayanan et al. (2010), we investigate the connection between DOGs and SMGs. We find that the most heavily star-forming merger driven DOGs can be selected as Submillimetre Galaxies (SMGs), while both merger-driven and secularly evolving DOGs typically satisfy the BzK selection criteria.Comment: Accepted by MNRAS; major changes include better description of dependency on ISM specification and updated models allowing dust to evolve with metallicity

Probing the Star Formation History and Initial Mass Function of the z~2.5 Lensed Galaxy SMM J163554.2+661225 with Herschel

We present the analysis of Herschel SPIRE far-infrared (FIR) observations of the z = 2.515 lensed galaxy SMM J163554.2+661225. Combining new 250, 350, and 500 micron observations with existing data, we make an improved fit to the FIR spectral energy distribution (SED) of this galaxy. We find a total infrared (IR) luminosity of L(8--1000 micron) = 6.9 +/- 0.6x10^11 Lsol; a factor of 3 more precise over previous L_IR estimates for this galaxy, and one of the most accurate measurements for any galaxy at these redshifts. This FIR luminosity implies an unlensed star formation rate (SFR) for this galaxy of 119 +/- 10 Msol per yr, which is a factor of 1.9 +/- 0.35 lower than the SFR derived from the nebular Pa-alpha emission line (a 2.5-sigma discrepancy). Both SFR indicators assume identical Salpeter initial mass functions (IMF) with slope Gamma=2.35 over a mass range of 0.1 - 100 Msol, thus this discrepancy suggests that more ionizing photons may be necessary to account for the higher Pa-alpha-derived SFR. We examine a number of scenarios and find that the observations can be explained with a varying star formation history (SFH) due to an increasing star formation rate (SFR), paired with a slight flattening of the IMF. If the SFR is constant in time, then larger changes need to be made to the IMF by either increasing the upper-mass cutoff to ~ 200 Msol, or a flattening of the IMF slope to 1.9 +/- 0.15, or a combination of the two. These scenarios result in up to double the number of stars with masses above 20 Msol, which produce the requisite increase in ionizing photons over a Salpeter IMF with a constant SFH.Comment: 9 pages, 4 figures, 1 table; Accepted for publication in the Astrophysical Journa

Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas

This integrated, multiplatform PanCancer Atlas study co-mapped and identified distinguishing molecular features of squamous cell carcinomas (SCCs) from five sites associated with smokin

Pan-Cancer Analysis of lncRNA Regulation Supports Their Targeting of Cancer Genes in Each Tumor Context

Long noncoding RNAs (lncRNAs) are commonly dys-regulated in tumors, but only a handful are known toplay pathophysiological roles in cancer. We inferredlncRNAs that dysregulate cancer pathways, onco-genes, and tumor suppressors (cancer genes) bymodeling their effects on the activity of transcriptionfactors, RNA-binding proteins, and microRNAs in5,185 TCGA tumors and 1,019 ENCODE assays.Our predictions included hundreds of candidateonco- and tumor-suppressor lncRNAs (cancerlncRNAs) whose somatic alterations account for thedysregulation of dozens of cancer genes and path-ways in each of 14 tumor contexts. To demonstrateproof of concept, we showed that perturbations tar-geting OIP5-AS1 (an inferred tumor suppressor) andTUG1 and WT1-AS (inferred onco-lncRNAs) dysre-gulated cancer genes and altered proliferation ofbreast and gynecologic cancer cells. Our analysis in-dicates that, although most lncRNAs are dysregu-lated in a tumor-specific manner, some, includingOIP5-AS1, TUG1, NEAT1, MEG3, and TSIX, synergis-tically dysregulate cancer pathways in multiple tumorcontexts

Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images

Beyond sample curation and basic pathologic characterization, the digitized H&E-stained images of TCGA samples remain underutilized. To highlight this resource, we present mappings of tumorinfiltrating lymphocytes (TILs) based on H&E images from 13 TCGA tumor types. These TIL maps are derived through computational staining using a convolutional neural network trained to classify patches of images. Affinity propagation revealed local spatial structure in TIL patterns and correlation with overall survival. TIL map structural patterns were grouped using standard histopathological parameters. These patterns are enriched in particular T cell subpopulations derived from molecular measures. TIL densities and spatial structure were differentially enriched among tumor types, immune subtypes, and tumor molecular subtypes, implying that spatial infiltrate state could reflect particular tumor cell aberration states. Obtaining spatial lymphocytic patterns linked to the rich genomic characterization of TCGA samples demonstrates one use for the TCGA image archives with insights into the tumor-immune microenvironment

Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas

Although theMYConcogene has been implicated incancer, a systematic assessment of alterations ofMYC, related transcription factors, and co-regulatoryproteins, forming the proximal MYC network (PMN),across human cancers is lacking. Using computa-tional approaches, we define genomic and proteo-mic features associated with MYC and the PMNacross the 33 cancers of The Cancer Genome Atlas.Pan-cancer, 28% of all samples had at least one ofthe MYC paralogs amplified. In contrast, the MYCantagonists MGA and MNT were the most frequentlymutated or deleted members, proposing a roleas tumor suppressors.MYCalterations were mutu-ally exclusive withPIK3CA,PTEN,APC,orBRAFalterations, suggesting that MYC is a distinct onco-genic driver. Expression analysis revealed MYC-associated pathways in tumor subtypes, such asimmune response and growth factor signaling; chro-matin, translation, and DNA replication/repair wereconserved pan-cancer. This analysis reveals insightsinto MYC biology and is a reference for biomarkersand therapeutics for cancers with alterations ofMYC or the PMN

Physical properties of dense molecular gas in centres of Seyfert galaxies

We present new ~1" resolution data of the dense molecular gas in the central 50-100 pc of four nearby Seyfert galaxies. PdBI observations of HCN and, in 2 of the 4 sources, simultaneously HCO+ allow us to carefully constrain the dynamical state of the dense gas surrounding the AGN. Analysis of the kinematics shows large line widths of 100-200 km/s FWHM that can only partially arise from beam smearing of the velocity gradient. The observed morphological and kinematic parameters (dimensions, major axis position angle, red and blue channel separation, and integrated line width) are well reproduced by a thick disk, where the emitting dense gas has a large intrinsic dispersion (20-40 km/s), implying that it exists at significant scale heights (25-30% of the disk radius). To put the observed kinematics in the context of the starburst and AGN evolution, we estimate the Toomre Q parameter. We find this is always greater than the critical value, i.e. Q is above the limit such that the gas is stable against rapid star formation. This is supported by the lack of direct evidence, in these 4 Seyfert galaxies, for on-going star formation close around the AGN. Instead, any current star formation tends to be located in a circumnuclear ring. We conclude that the physical conditions are indeed not suited to star formation within the central ~100 pc.Comment: 15 pages, 13 figures, 7 tables. Accepted for pubblication in MNRA