The Quasar Accretion Disk Size - Black Hole Mass Relation

We use the microlensing variability observed for nine gravitationally lensed quasars to show that the accretion disk size at 2500 Angstroms is related to the black hole mass by log(R_2500/cm) = (15.6+-0.2) + (0.54+-0.28)log(M_BH/10^9M_sun). This scaling is consistent with the expectation from thin disk theory (R ~ M_BH^(2/3)), but it implies that black holes radiate with relatively low efficiency, log(eta) = -1.29+-0.44 + log(L/L_E) where eta=L/(Mdot c^2). These sizes are also larger, by a factor of ~3, than the size needed to produce the observed 0.8 micron quasar flux by thermal radiation from a thin disk with the same T ~ R^(-3/4) temperature profile. More sophisticated disk models are clearly required, particularly as our continuing observations improve the precision of the measurements and yield estimates of the scaling with wavelength and accretion rate.Comment: 5 pages, 3 figures, submitted to ApJ

The Role of Molecular Gas in Obscuring Seyfert Active Galactic Nuclei

In a sample of local active galactic nuclei studied at a spatial resolution on the order of 10 pc we show that the interstellar medium traced by the molecular hydrogen v=1-0 S(1) 2.1um line forms a geometrically thick, clumpy disk. The kinematics of the molecular gas reveals general rotation, although an additional significant component of random bulk motion is required by the high local velocity dispersion. The size scale of the typical gas disk is found to have a radius of ~30 pc with a comparable vertical height. Within this radius the average gas mass is estimated to be ~10^7 Msun based on a typical gas mass fraction of 10%, which suggests column densities of Nh ~ 5x10^23 cm^-2. Extinction of the stellar continuum within this same region suggest lower column densities of Nh ~ 2x10^22 cm^-2, indicating that the gas distribution on these scales is dominated by dense clumps. In half of the observed Seyfert galaxies this lower column density is still great enough to obscure the AGN at optical/infrared wavelengths. We conclude, based on the spatial distribution, kinematics, and column densities that the molecular gas observed is spatially mixed with the nuclear stellar population and is likely to be associated with the outer extent of any smaller scale nuclear obscuring structure. Furthermore, we find that the velocity dispersion of the molecular gas is correlated with the star formation rate per unit area, suggesting a link between the two phenomena, and that the gas surface density follows known "Schmidt-Kennicutt" relations. The molecular/dusty structure on these scales may be dynamic since it is possible that the velocity dispersion of the gas, and hence the vertical disk height, is maintained by a short, massive inflow of material into the nuclear region and/or by intense, short-lived nuclear star formation.Comment: 24 pages, including 12 figures and 7 tables; Accepted for publication in ApJ; Minor changes and final corrections to match proof

Alternative Functions of Core Cell Cycle Regulators in Neuronal Migration, Neuronal Maturation, and Synaptic Plasticity

Recent studies have demonstrated that boundaries separating a cycling cell from a postmitotic neuron are not as concrete as expected. Novel and unique physiological functions in neurons have been ascribed for proteins fundamentally required for cell cycle progression and control. These “core” cell cycle regulators serve diverse postmitotic functions that span various developmental stages of a neuron, including neuronal migration, axonal elongation, axon pruning, dendrite morphogenesis, and synaptic maturation and plasticity. In this review, we detail the nonproliferative postmitotic roles that these cell cycle proteins have recently been reported to play, the significance of their expression in neurons, mechanistic insight when available, and future prospects.National Institutes of Health (U.S.) (PO1 grant AG27916)National Institutes of Health (U.S.) (RO1 grant NS51876

Progress with the Prime Focus Spectrograph for the Subaru Telescope: a massively multiplexed optical and near-infrared fiber spectrograph

The Prime Focus Spectrograph (PFS) is an optical/near-infrared multi-fiber spectrograph with 2394 science fibers, which are distributed in 1.3 degree diameter field of view at Subaru 8.2-meter telescope. The simultaneous wide wavelength coverage from 0.38 um to 1.26 um, with the resolving power of 3000, strengthens its ability to target three main survey programs: cosmology, Galactic archaeology, and galaxy/AGN evolution. A medium resolution mode with resolving power of 5000 for 0.71 um to 0.89 um also will be available by simply exchanging dispersers. PFS takes the role for the spectroscopic part of the Subaru Measurement of Images and Redshifts project, while Hyper Suprime-Cam works on the imaging part. To transform the telescope plus WFC focal ratio, a 3-mm thick broad-band coated glass-molded microlens is glued to each fiber tip. A higher transmission fiber is selected for the longest part of cable system, while one with a better FRD performance is selected for the fiber-positioner and fiber-slit components, given the more frequent fiber movements and tightly curved structure. Each Fiber positioner consists of two stages of piezo-electric rotary motors. Its engineering model has been produced and tested. Fiber positioning will be performed iteratively by taking an image of artificially back-illuminated fibers with the Metrology camera located in the Cassegrain container. The camera is carefully designed so that fiber position measurements are unaffected by small amounts of high special-frequency inaccuracies in WFC lens surface shapes. Target light carried through the fiber system reaches one of four identical fast-Schmidt spectrograph modules, each with three arms. Prototype VPH gratings have been optically tested. CCD production is complete, with standard fully-depleted CCDs for red arms and more-challenging thinner fully-depleted CCDs with blue-optimized coating for blue arms.Comment: 14 pages, 12 figures, submitted to "Ground-based and Airborne Instrumentation for Astronomy V, Suzanne K. Ramsay, Ian S. McLean, Hideki Takami, Editors, Proc. SPIE 9147 (2014)

A community challenge to evaluate RNA-seq, fusion detection, and isoform quantification methods for cancer discovery

The accurate identification and quantitation of RNA isoforms present in the cancer transcriptome is key for analyses ranging from the inference of the impacts of somatic variants to pathway analysis to biomarker development and subtype discovery. The ICGC-TCGA DREAM Somatic Mutation Calling in RNA (SMC-RNA) challenge was a crowd-sourced effort to benchmark methods for RNA isoform quantification and fusion detection from bulk cancer RNA sequencing (RNA-seq) data. It concluded in 2018 with a comparison of 77 fusion detection entries and 65 isoform quantification entries on 51 synthetic tumors and 32 cell lines with spiked-in fusion constructs. We report the entries used to build this benchmark, the leaderboard results, and the experimental features associated with the accurate prediction of RNA species. This challenge required submissions to be in the form of containerized workflows, meaning each of the entries described is easily reusable through CWL and Docker containers at https://github.com/SMC-RNA-challenge. A record of this paper's transparent peer review process is included in the supplemental information

The Youngest Victims: Children and Youth Affected by War

In 1989, the United Nation Convention on the Rights of the Child declared, “[state parties] shall take all feasible measures to ensure protection and care of children who are affected by an armed conflict.” In addition to attempting to secure the welfare of children in armed conflict, the Convention went on to ban the recruitment and deployment of children during armed conflict. Despite the vast majority of sovereign nations signing and ratifying this agreement, this treaty, unfortunately, has not prevented children and youth from witnessing, becoming victims of, or participating in political, ethnic, religious, and cultural violence across the past three decades. This chapter offers an “ecological perspective” on the psychosocial consequences of exposure to the trauma of war-related violence and social disruption

Fludarabine, cytarabine, granulocyte colony-stimulating factor, and idarubicin with gemtuzumab ozogamicin improves event-free survival in younger patients with newly diagnosed aml and overall survival in patients with npm1 and flt3 mutations

Purpose To determine the optimal induction chemotherapy regimen for younger adults with newly diagnosed AML without known adverse risk cytogenetics. Patients and Methods One thousand thirty-three patients were randomly assigned to intensified (fludarabine, cytarabine, granulocyte colony-stimulating factor, and idarubicin [FLAG-Ida]) or standard (daunorubicin and Ara-C [DA]) induction chemotherapy, with one or two doses of gemtuzumab ozogamicin (GO). The primary end point was overall survival (OS). Results There was no difference in remission rate after two courses between FLAG-Ida + GO and DA + GO (complete remission [CR] + CR with incomplete hematologic recovery 93% v 91%) or in day 60 mortality (4.3% v 4.6%). There was no difference in OS (66% v 63%; P = .41); however, the risk of relapse was lower with FLAG-Ida + GO (24% v 41%; P < .001) and 3-year event-free survival was higher (57% v 45%; P < .001). In patients with an NPM1 mutation (30%), 3-year OS was significantly higher with FLAG-Ida + GO (82% v 64%; P = .005). NPM1 measurable residual disease (MRD) clearance was also greater, with 88% versus 77% becoming MRD-negative in peripheral blood after cycle 2 (P = .02). Three-year OS was also higher in patients with a FLT3 mutation (64% v 54%; P = .047). Fewer transplants were performed in patients receiving FLAG-Ida + GO (238 v 278; P = .02). There was no difference in outcome according to the number of GO doses, although NPM1 MRD clearance was higher with two doses in the DA arm. Patients with core binding factor AML treated with DA and one dose of GO had a 3-year OS of 96% with no survival benefit from FLAG-Ida + GO. Conclusion Overall, FLAG-Ida + GO significantly reduced relapse without improving OS. However, exploratory analyses show that patients with NPM1 and FLT3 mutations had substantial improvements in OS. By contrast, in patients with core binding factor AML, outcomes were excellent with DA + GO with no FLAG-Ida benefit

Characterization of Venom from Conus obscurus in Search of Novel Peptide Sequences

M.S. University of Hawaii at Manoa 2015.Includes bibliographical references.In this study, Conus obscurus milked venom has been analyzed in search of novel bioactive peptide sequences and fragments. About 250 diverse milked venoms were observed in high-performance liquid chromatography (HPLC) and pooled. A peptide survey and peptide sequence data was collected via electrospray mass spectrometry (ESI-MS) and matrix assisted laser desorption ionization mass spectrometry (MALDI-MS). The Peaks6 program was used to sequence peptides de novo from ESI data. Although there were many high probability fragments calculated by Peaks6, one sequence had particularly high coverage. Interest in this sequence was also spurred by the documented cysteine framework, although the sequence itself was novel. MALDI MS/MS data was manually interpreted, then sent to a separate investigator to interpret blinded. From these separate interpretations, multiple possible sequences were derived, of which three will be synthesized and tested for bioactivity in future work. This work not only documents peptide sequences and fragments derived from mass spectrometry, but also includes a commentary on mass spectrometry limitations encountered during sequencing

Automatic identification of tinnitus malingering based on overt and covert behavioral responses during psychoacoustic testing

Tinnitus, or ringing in the ears, is a prevalent condition that imposes a substantial health and financial burden on the patient and to society. The diagnosis of tinnitus, like pain, relies on patient self-report, which can complicate the distinction between actual and fraudulent claims. Here, we combined tablet-based self-directed hearing assessments with neural network classifiers to automatically differentiate participants with tinnitus (N = 24) from a malingering cohort, who were instructed to feign an imagined tinnitus percept (N = 28). We identified clear differences between the groups, both in their overt reporting of tinnitus features, but also covert differences in their fingertip movement trajectories on the tablet surface as they performed the reporting assay. Using only 10 min of data, we achieved 81% accuracy classifying patients and malingerers (ROC AUC = 0.88) with leave-one-out cross validation. Quantitative, automated measurements of tinnitus salience could improve clinical outcome assays and more accurately determine tinnitus incidence