cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Molecular mechanisms underlying tumorigenesis of non-small cell lung cancer subtypes
Creators: name: Pikor, Larissa A.
Publisher: name: University of British Columbia
Year: 2014

description: Lung cancer is the leading cause of cancer death in Canada and worldwide. A late stage of diagnosis in conjunction with a lack of effective treatment options are largely responsible for the poor survival rates of lung cancer. Histological subtypes of lung cancer are known to respond differently to standard therapies, suggesting they are distinct diseases. A better understanding of the molecular alterations and underlying biology of lung cancer subtypes is therefore necessary for the development of novel detection and treatment strategies in order to improve patient prognosis. We hypothesize that lung adenocarcinoma (AC) and squamous cell carcinoma (SqCC) arise through disparate patterns of molecular alterations and that these differences underlie unique biological mechanisms that contribute to subtype development, phenotypes and response to therapy. In this thesis, I apply multidimensional integrative 'omics approaches to characterize the genomic and epigenomic landscapes of AC and SqCC and elucidate differential patterns of alterations and subtype specific gene disruptions causal to NSCLC and the development of specific subtypes. The integration of DNA copy number, methylation, gene and miRNA expression data on AC and SqCC tumors and patient matched non-malignant tissue identified several subtype specific alterations and revealed unique oncogenic pathways associated with AC and SqCC that can be successfully targeted by existing therapies. By combining genomic analyses with manipulation of candidate genes in vitro and in vivo, we validated the contribution of candidate genes to tumorigenesis and determined the mechanisms through which they contribute to disease pathogenesis. In addition to revealing differentially disrupted genes and pathways we also identified numerous alterations common to both subtypes. Collectively, this work has further characterized the landscape of molecular alterations that define AC and SqCC, and the mechanisms through which these alterations contribute to subtype tumorigenesis. This work has identified novel candidate genes involved in subtype tumorigenesis as well as miRNAs with potential as diagnostic biomarkers for lung cancer. Taken together, these findings underscore the importance of tailoring treatment strategies to the histological subtype based on the underlying biology of that subtype.
Empirical Magnetic Structure of Frustrated Spin Systems
Creators: name: Paddison, Joseph A. M.
name: Goodwin, Andrew L.
Publisher: name: arXiv
Year: 2011
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: FOS: Physical sciences

description: Frustrated magnetism plays a central role in the phenomenology of exotic quantum states. However, because the magnetic structures of frustrated systems are aperiodic, there has always been the problem that they cannot be determined using traditional crystallographic techniques. Here we show that the magnetic component of powder neutron scattering data is actually sufficiently information-rich to drive magnetic structure solution for frustrated systems, including spin ices, spin liquids, and molecular magnets. Consequently, single-crystal samples are not prerequisite for detailed characterisation of exotic magnetic states. Our methodology employs ab initio reverse Monte Carlo refinement, making informed use of an additional constraint that minimises variance in local spin environments. By refining atomistic spin configurations, we obtain at once (i) a magnetic structure "solution" - i.e. the orientation of classical spin vectors - (ii) the spin correlation functions, and (iii) the full three-dimensional magnetic scattering pattern.
description: 10 pages, 3 figures
Analyzing the effects of GRAPPA-based acceleration on MREPT conductivity images acquired with multi spin multi echo pulse sequence
Creators: name: Magharehabed, Komron
Publisher: name: Macquarie University
Year: 2023
Subjects: classificationCode: 400304
subject: Biomedical imaging

description: Magnetic resonance electrical properties tomography (MREPT) produces high frequency conductivity images of biological tissues. To produce MREPT images, an MRI pulse sequence using either multi spin multi echo (MSME) or multi gradient echo (MGRE) is used. MSME is better than MGRE in terms of MREPT image quality. However, the data acquisition time is very large. To reduce the acquisition time, application of a commonly used scanning acceleration method, generalized autocalibrating partially parallel acquisitions (GRAPPA), is applied.GRAPPA speeds up a scan by skipping some of the phase encoding lines which reduces the data acquisition time. While these skipped lines can be approximated using the surrounding acquired k-space lines, this introduces artifacts in MR images. MREPT algorithm relies on image reconstruction from phase images. Therefore, applying GRAPPA in MREPT reconstruction requires a new method of combining phase images from multichannel k-space data to calculate transreceive phase and subsequently MREPT conductivity images.To explore the application of GRAPPA accelerated MSME scans in MREPT, a multi subject pipeline was developed in Python and MATLAB. The errors between GRAPPA accelerated magnitude images and the corresponding full k-space magnitude images were calculated and found within acceptable errors. MREPT was performed on 2D slices covering the whole brain volume of 5 subjects. These slices were then segmented into cerebrospinal fluid, gray matter and white matter using segmentation masks from FSL. The relative conductivity between the tissues was found to be consistent across subjects. The effect of the acceleration factor on contrast among the three tissues was consistent across the different acceleration factors and across different subjects. In conclusion, GRAPPA accelerated MREPT can be performed using MSME pulse sequence to produce high frequency conductivity images with acceptable image quality.
Gap solitons and Bloch waves of interacting bosons in one-dimensional optical lattices: From the weak to the strong interaction limits
Creators: name: Xu, T. F.
name: Guo, X. M.
name: Jing, X. L.
name: Wu, W. C.
name: Liu, C. S.
Publisher: name: arXiv
Year: 2011
Subjects: subject: Quantum Gases (cond-mat.quant-gas)
subject: FOS: Physical sciences

description: We study the gap solitons and nonlinear Bloch waves of interacting bosons in one-dimensional optical lattices, taking into account the interaction from the weak to the strong limits. It is shown that composition relation between the gap solitons and nonlinear Bloch waves exists for the whole span of the interaction strength. The linear stability analysis indicates that the gap solitons are stable when their energies are near the bottom of the linear Bloch band gap. By increasing the interaction strength, the stable gap solitons can turn into unstable. It is argued that the stable gap solitons can easily be formed in a weakly interacting system with energies near the bottoms of the lower-level linear Bloch band gaps.
description: 8 papges, 7 figures
Social Dreaming Workshop
Creators: name: La Nave, Francesca
Publisher: name: Art Therapy Online
Year: 2015

description: Social Dreaming is an innovative method, discovered during the 1980s by Dr. Gordon Lawrence, former Director of the Tavistock Institute’s Department of Human Relations. Social Dreaming proposes that dreams be shared in a social assembly, fostering new thinking through free association and amplification of shared dream narratives (Lawrence 1998, 2003, 2005, 2007, 2011). Ancient societies valued dreams as ordinary sources of information as do some currently existing cultures such as the Australian Aborigines. Conversely, psychoanalysis has understood dreams to be conduits for, and to, unconscious material. Straddling the two positions, Gordon Lawrence developed the collective exchange of dreams into a tool to maximise creative thinking, to research the condition of systems and gain access to organizations’ unconscious reservoirs of resources when applied to organizational consultancy.
description: Art Therapy Online, Vol 5 No 1 (2014): International Art Therapy Conference Proceedings
Transfer of BECs through discrete breathers in an optical lattice
Creators: name: Hennig, Holger
name: Dorignac, Jérôme
name: Campbell, David K.
Publisher: name: arXiv
Year: 2010
Subjects: subject: Quantum Gases (cond-mat.quant-gas)
subject: Pattern Formation and Solitons (nlin.PS)
subject: FOS: Physical sciences

description: We study the stability of a stationary discrete breather (DB) on a nonlinear trimer in the framework of the discrete nonlinear Schrödinger equation (DNLS). In previous theoretical investigations of the dynamics of Bose-Einstein condensates in leaking optical lattices, collisions between a DB and a lattice excitation, e.g. a moving breather (MB) or phonon, were studied. These collisions lead to the transmission of a fraction of the incident (atomic) norm of the MB through the DB, while the DB can be shifted in the direction of the incident lattice excitation. Here we show that there exists a total energy threshold of the trimer, above which the lattice excitation can trigger the destabilization of the DB and that this is the mechanism leading to the movement of the DB. Furthermore, we give an analytic estimate of upper bound to the norm that is transmitted through the DB. Our analysis explains the results of the earlier numerical studies and may help to clarify functional operations with BECs in optical lattices such as blocking and filtering coherent (atomic) beams.
description: 8 pages, 5 figures
Open Studio Group
Creators: name: Tipple, Dr. Robin
name: Brown, Christopher
Publisher: name: Art Therapy Online
Year: 2015

description: Robin volunteered to run the open studio group because, in part, he felt that in open groups it could easier for members and the conductor to manage anxiety, the situation was less anxiety provoking. He remembered open groups that he had been a part of, in learning disability settings, where the numbers ranged from 15 to 20 clients, depending on the demand that day. There were usually two therapists and a helper. Here clients came and used the space and materials as they felt inclined to do. There was not a lot of pressure to interact with others, other members of the group or the therapists. Many of the clients returned to the same part of the room each day, personalising the space in some way. Anxiety levels were lower in this environment and a culture of respect was inculcated over time, respect in relation to personal space and the work that others produced. Significant exchanges did take place in this group but they were not generated through any overt structures, rather they represented spontaneous communications, sharing of work, thought, emotions, and wishes. Robin wanted something like this in the conference, but without the territorial element, a space where individuals could access a range of art materials and work quietly, or sit quietly as they wished. Interaction, sharing and exchanges with others would be, of course, permitted but there would be no obligation in this respect.
description: Art Therapy Online, Vol 5 No 1 (2014): International Art Therapy Conference Proceedings
DJKM algebras I: Their Universal Central Extension
Creators: name: Cox, Ben
name: Futorny, Vyatcheslav
Publisher: name: arXiv
Year: 2010
Subjects: subject: Rings and Algebras (math.RA)
subject: Representation Theory (math.RT)
subject: FOS: Mathematics
subject: 17B37, 17B67

description: The purpose of this paper is to explicitly describe in terms of generators and relations the universal central extension of the infinite dimensional Lie algebra, $\mathfrak g\otimes \mathbb C[t,t^{-1},u|u^2=(t^2-b^2)(t^2-c^2)]$, appearing in the work of Date, Jimbo, Kashiwara and Miwa in their study of integrable systems arising from Landau-Lifshitz differential equation.
Small Experiential Group
Creators: name: Meyerowitz Katz, Julia
Publisher: name: Art Therapy Online
Year: 2015

description: In the context of the large, busy conference, the small group seemed to provide an intimate and safe space in which participants were able to catch their breath, process their myriad conference experiences and make links to their professional practice. In the beginning, save for two members, we were all strangers to each other. Six nationalities and five native languages were represented in the group; there were occasions when language had to be translated and explained.
description: Art Therapy Online, Vol 5 No 1 (2014): International Art Therapy Conference Proceedings
Additional file 1 of Learning styles of medical students and related factors
Creators: name: Gayef, Albena
name: Çaylan, Ayşe
name: Temiz, Selahattin Alp
Publisher: name: figshare
Year: 2023
Subjects: subject: Medicine
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Science Policy

description: Supplementary Material 1
The Lost Studio: “You don’t know what you’ve got till it’s gone”
Creators: name: Brown, Christopher
Publisher: name: Art Therapy Online
Year: 2015

description: The subtitle is from a Joni Mitchell song and the line continues ”˜they paved paradise, put up a parking lot’. I felt something of that sentiment through a recent experience of losing the art therapy studio in which I had worked for 17 years. This experience made me think about the elements I missed and why they were important to me. In this paper I will briefly describe the studio spaces created within three different social contexts, all driven by government legislation, they are: the mental asylum, care in the community, and managed care. I will then focus on one particular element: the display of pictures in the room providing containment for the therapist.
description: Art Therapy Online, Vol 5 No 1 (2014): International Art Therapy Conference Proceedings
Art therapy in Polish conditions – the beginning of wider usage
Creators: name: Bugajska-Bigos, Iwona
Publisher: name: Art Therapy Online
Year: 2015

description: In Poland, art therapy is not treated as an official occupation. In the list of professions announced by The Ministry of Labour and Social Policy we will not find this designation: art therapist. However, more and more institutions are becoming aware of the importance of art therapy and the possibilities of using it in many fields.
description: Art Therapy Online, Vol 5 No 1 (2014): International Art Therapy Conference Proceedings
Measurement of the Lambda(1405) in proton proton reactions with HADES
Creators: name: Siebenson, Johannes
name: Fabbietti, Laura
name: Schmah, Alexander
name: Epple, Eliane
Publisher: name: arXiv
Year: 2010
Subjects: subject: Nuclear Experiment (nucl-ex)
subject: FOS: Physical sciences

description: We present an analysis of the Lambda(1405) resonance in p+p reactions at a kinetic beam energy of 3.5 GeV, measured by the High Acceptance Di-Electron Spectrometer (HADES). The resonance is reconstructed in the two charged decay channels Sigma^(+/-) pi^(-/+), with help of a kinematic refit, which improves the mass resolution. The high misidentification of pions and protons as kaons required the development of a sophisticated sideband analysis, which can describe the misidentification background quite well.
description: 5 pages, 3 figures, Bormio Conference 2010
A diagrammatic expansion of the Casimir energy in multiple reflections: theory and applications
Creators: name: Maghrebi, Mohammad F.
Publisher: name: arXiv
Year: 2010
Subjects: subject: Quantum Physics (quant-ph)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: We develop a diagrammatic representation of the Casimir energy of a multibody configuration. The diagrams represent multiple reflections between the objects and can be organized by a few simple rules. The lowest-order diagrams (or reflections) give the main contribution to the Casimir interaction which proves the usefulness of this expansion. Among some applications of this, we find analytical formulae describing the interaction between "edges", i.e. semi-infinite plates, where we also give a first example of blocking in the context of the Casimir energy. We also find the interaction of edges with a needle and describe analytically a recent model of the repulsion due to the Casimir interaction.
Diffractive Dijet Photoproduction in ep Collisions at HERA
Creators: name: H1 Collaboration
Publisher: name: arXiv
Year: 2010
Subjects: subject: High Energy Physics - Experiment (hep-ex)
subject: FOS: Physical sciences

description: Measurements are presented of single and double-differential dijet cross sections in diffractive photoproduction based on a data sample with an integrated luminosity of 47 pb^-1. The events are of the type ep -> eXY, where the hadronic system X contains at least two jets and is separated by a large rapidity gap from the system Y, which consists of a leading proton or low-mass proton excitation. The dijet cross sections are compared with QCD calculations at next-to-leading order and with a Monte Carlo model based on leading order matrix elements with parton showers. The measured cross sections are smaller than those obtained from the next-to-leading order calculations by a factor of about 0.6. This suppression factor has no significant dependence on the fraction x_gamma of the photon four-momentum entering the hard subprocess. Ratios of the diffractive to the inclusive dijet cross sections are measured for the first time and are compared with Monte Carlo models.
description: 34 pages, 9 figures, 6 tables
Additional file 1 of How to select interventions for promoting physical activity in schools? Combining preferences of stakeholders and scientists
Creators: name: Brandes, Mirko
name: Brandes, Berit
name: Sell, Louisa
name: Sacheck, Jennifer M.
name: Chinapaw, Mai
name: Lubans, David R.
name: Woll, Alexander
name: Schipperijn, Jasper
name: Jago, Russell
name: Busse, Heide
Publisher: name: figshare
Year: 2023
Subjects: subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Sociology
subject: FOS: Sociology
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Additional file 1. Final list of criteria and definitions by the local stakeholders.
An Art Therapy Intervention in Oncology using Collage for strengthening self-ascribed Autonomy
Creators: name: Hopf, Alexandra
Publisher: name: Art Therapy Online
Year: 2015

description: In psycho-oncology the development of specific art therapy interventions is necessary to strengthen and to support the autonomy of inpatients. Some art therapy interventions have been developed for cancer patients but none specifically for inpatients. The first step was to develop an art therapy intervention. Collage was used as a significant technique. A second step was to identify the power factors of this art therapy intervention (KSKT®) for the conditions of the inpatients. Therefore the art technique collage was analysed as a therapeutic tool. A further step was a qualitative study with 5 inpatients who were interviewed. The study population consisted of adult women (age ranged from 25 to 55 years) treated in an acute hospital for cancer. In the theoretical approach, collage was associated with supporting autonomy, establishing new life structures in the pictorial space, passing restrictive limitations and exploring emotions. These are therapeutic effects that can be attained by the use of the KSKT®. The qualitative study found the patients evaluated the intervention positively. They felt stabilized and their self-ascribed autonomy was strengthened. The intervention (KSKT®) meets the therapeutic objectives for oncology inpatients.

Keywords: Art therapy intervention - psycho-oncology - special needs of inpatients - collage - autonomy - qualitative study
description: Art Therapy Online, Vol 5 No 1 (2014): International Art Therapy Conference Proceedings
Two components of the coronal emission revealed by EUV spectroscopic observations
Creators: name: Tian, Hui
name: McIntosh, Scott W.
name: De Pontieu, Bart
name: Martinez-Sykora, Juan
name: Sechler, Marybeth
name: Wang, Xin
Publisher: name: arXiv
Year: 2011
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: FOS: Physical sciences

description: Recent spectroscopic observations have revealed the ubiquitous presence of blueward asymmetries of emission lines formed in the solar corona and transition region. These asymmetries are most prominent in loop footpoint regions, where a clear correlation of the asymmetry with the Doppler shift and line width determined from the single Gaussian fit is found. Such asymmetries suggest at least two emission components: a primary component accounting for the background emission and a secondary component associated with high-speed upflows. The latter has been proposed to play a vital role in the coronal heating process and there is no agreement on its properties. Here we slightly modify the initially developed technique of Red-Blue (RB) asymmetry analysis and apply it to both artificial spectra and spectra observed by the EUV Imaging Spectrometer onboard Hinode, and demonstrate that the secondary component usually contributes a few percent of the total emission, has a velocity ranging from 50 to 150 km s-1 and a Gaussian width comparable to that of the primary one in loop footpoint regions. The results of the RB asymmetry analysis are then used to guide a double Gaussian fit and we find that the obtained properties of the secondary component are generally consistent with those obtained from the RB asymmetry analysis. Through a comparison of the location, relative intensity, and velocity distribution of the blueward secondary component with the properties of the upward propagating disturbances revealed in simultaneous images from the Atmospheric Imaging Assembly onboard the Solar Dynamics Observatory, we find a clear association of the secondary component with the propagating disturbances.
description: 19 figures, accepted by ApJ
Proteomic Profiles of Body Mass Index and Waist-to-Hip Ratio and their Role in Incidence of Diabetes.
Creators: name: Bao, Xue
name: Xu, Biao
name: Yin, Songjiang
name: Pan, Jingxue
name: Nilsson, Peter M
name: Nilsson, Jan
name: Melander, Olle
name: Orho-Melander, Marju
name: Engström, Gunnar
Publisher: name: figshare
Year: 2022
Subjects: Biomarkers
Diseases

description: Supplemental Material
Breakdown of universality in few-boson systems
Creators: name: Deltuva, A.
name: Lazauskas, R.
Publisher: name: arXiv
Year: 2010
Subjects: subject: Atomic Physics (physics.atom-ph)
subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: We develop a series of resonant short-range two-boson potentials reproducing the same two-body low-energy observables and apply them in three- and four-body calculations. We demonstrate that the universal behavior predicted by effective field theory may be strongly violated and analyze the conditions for this phenomenon.
Light Propagation and Paired Superradiance in Coherent Medium
Creators: name: Yoshimura, M.
Publisher: name: arXiv
Year: 2010
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: The problem of light propagation of frequency corresponding to half of the energy difference between a metastable excited state and the ground state of atoms is examined, and solved for coherent medium by analytic means. We demonstrate that the non-linear system of Maxwell-Bloch equation for the effective model of the $Λ-$type three levels is integrable in the mathematical sense. Analytic solutions thus obtained describe pulse splitting accompanied by compression, indicating a kind of non-linear instability of propagating pulses. The instability is eventually terminated by coherent two photon emission (called paired superradiance or PSR in short). These results are displayed by numerical outputs for visual understanding, as well. It is further shown that the integrable system allows a new class of soliton solutions. Solitons, implying the phenomenon of seff-induced transparancy at non-resonant frequencies, are stable against PSR. One of our goals of the present work is construction of a calculable theoretical framework for PSR rates associated with a trigger pulse propagation, which is achieved by combining analytic results with perturbative methods. PSR photon spectrum and its rate $\propto$(target number density)$^2$, along with their time structure, are clarified this way. These results may open a new path for interesting technological applications such as quantum entanglement and for solving the remaining problems of the still mysterious neutrino. Some basic strategy for realistic experiments of PSR detection and soliton production is also outlined.
description: 43 pages, 23 figures
Additional file 2 of How to select interventions for promoting physical activity in schools? Combining preferences of stakeholders and scientists
Creators: name: Brandes, Mirko
name: Brandes, Berit
name: Sell, Louisa
name: Sacheck, Jennifer M.
name: Chinapaw, Mai
name: Lubans, David R.
name: Woll, Alexander
name: Schipperijn, Jasper
name: Jago, Russell
name: Busse, Heide
Publisher: name: figshare
Year: 2023
Subjects: subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Sociology
subject: FOS: Sociology
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Additional file 2. Final list of criteria and definitions by scientists.
Anger Management with Art in Northern Uganda
Creators: name: Liebmann, Dr. Marian
Publisher: name: Art Therapy Online
Year: 2015

description: These workshops arose out of a request from a Ugandan colleague, who had been working with victims of the Lord’s Resistance Army (LRA) war 1988-2004, started by Joseph Kony and rebel forces. She and her colleagues felt some direct work on anger would be helpful.

Most of the anger being expressed has arisen from people’s experiences in the LRA wars. Boys and girls were abducted and recruited into the LRA army and taught how to kill; they suffered beatings and watched brothers and sisters die at the hands of the LRA. If they were able to escape, they returned home only to find that often their parents had been killed by the LRA and their houses burnt down.

Clearly any short-term training could not remove the causes of the huge anger that has built up. So the focus of this training was to introduce strategies of handling anger so that people did not make things worse for themselves.

Case studies and examples of participants’ art work are included. The article also reflects on the relevance of such work in cultures where both art work and therapy are not very usual or available, and whether such work can be sustainable.

Key words: conflict, Lord’s Resistance Army (LRA), trauma, Uganda, war
description: Art Therapy Online, Vol 5 No 1 (2014): International Art Therapy Conference Proceedings
Qubit-Initialisation and Readout with Finite Coherent Amplitudes in Cavity QED
Creators: name: Kennedy, Ricardo
name: Horstmeyer, Leonhard
name: Dragan, Andrzej
name: Rudolph, Terry
Publisher: name: arXiv
Year: 2010
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We consider a unitary transfer of an arbitrary state of a two-level atomic qubit in a cavity to the finite amplitude coherent state cavity field. Such transfer can be used to either provide an effective readout measurement on the atom by a subsequent measurement on the light field or as a method for initializing a fixed atomic state - a so-called "attractor state", studied previously for the case of an infinitely strong cavity field. We show that with a suitable adjustment of the coherent amplitude and evolution time the qubit transfers all its information to the field, attaining a selected state of high purity irrespectively of the initial state.
description: 6 pages, 4 figures
Functional characterization of Rtt107 in the DNA damage response in Saccharomyces cerevisiae
Creators: name: Leung, Grace Pui Yan
Publisher: name: University of British Columbia
Year: 2014

description: Living cells are constantly exposed to DNA damage that if not properly repaired may lead to mutations or cell death. Due to the crucial importance of genome integrity, cells have complex response mechanisms to sense and repair DNA lesions. In my dissertation, I focus on a protein called Rtt107 in the DNA damage response in Saccharomyces cerevisiae. Yeast lacking Rtt107 are hypersensitive to DNA damaging agents, but the exact role of Rtt107 remains unclear. The DNA damage response occurs in the context of chromatin, and thus is affected by chromatin modifiers. I explored the connection between Rtt107 and the histone methyltransferase Dot1. Deletion of DOT1 or loss of its target H3 K79 trimethylation suppressed the DNA damage sensitivity of rtt107∆ mutants. This suppression was mediated by the translesion synthesis bypass pathway, which improved DNA damage resistance, but increased mutation rates. Rtt107 interacts physically with a number of DNA repair proteins, and I characterized its interaction with the SMC5/6 complex, which has numerous roles in chromosome maintenance. Rtt107 was required for the recruitment of SMC5/6 to double-stranded breaks, but not protein-bound nicks. However, these proteins also contributed independently to other genome maintenance functions. I mapped conditional genetic interaction networks to further understand the functions of Rtt107, its interaction partner Slx4, and a poorly characterized helicase, Hrq1. RTT107 had the greatest number of conditional genetic interactions, particularly after exposure to camptothecin, suggesting that it has an important role in responding to this type of lesion. The genetic interaction profiles and associated gene ontology terms of HRQ1 was the most similar to that of SLX4, suggesting that they may work together in the DNA damage response. Focusing more closely on the protein structure of Rtt107, I discovered that the C-terminal BRCT (BRCA1 C-terminal) domains bound to phosphorylated H2A, mediating the recruitment of Rtt107 to sites of DNA lesions. Rtt107 acted as a scaffold to recruit other proteins to these sites, but its requirement differed depending on the type of DNA insult. In summary, my dissertation contributes to the understanding of Rtt107 function, while highlighting key principles in the DNA damage response.
Chirality-Assisted Electronic Cloaking in Bilayer Graphene Nanostructures
Creators: name: Gu, Nan
name: Rudner, Mark
name: Levitov, Leonid
Publisher: name: arXiv
Year: 2011
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: We show that the strong coupling of pseudospin orientation and charge carrier motion in bilayer graphene has a drastic effect on transport properties of ballistic p-n-p junctions. Electronic states with zero momentum parallel to the barrier are confined under it for one pseudospin orientation, whereas states with the opposite pseudospin tunnel through the junction totally uninfluenced by the presence of confined states. We demonstrate that the junction acts as a cloak for confined states, making them nearly invisible to electrons in the outer regions over a range of incidence angles. This behavior is manifested in the two-terminal conductance as transmission resonances with non-Lorentzian, singular peak shapes. The response of these phenomena to a weak magnetic field or electric-field-induced interlayer gap can serve as an experimental fingerprint of electronic cloaking.
description: 5 pgs, 5 fgs
Turn-off of Deuterium Astration in the Recent Star Formation of the Galaxy Disk
Creators: name: Tsujimoto, T.
Publisher: name: arXiv
Year: 2010
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: Chemical features of the local stellar disk have firmly established that long-term, continuous star formation has been accompanied by a steady rate of accretion of low-metallicity gas from the halo. We now argue that the recent discovery of an enhanced deuterium (D) fraction in the Galaxy is consistent with this picture. We consider two processes: the destruction of D in the interior of stars (astration) and the supply of nearly primordial D associated with the gas infall. Conventional Galactic chemical evolution models predict a monotonic decrease in D/H with time with a present-day D/H abundance which is much lower than the local value recently revealed. This predicted feature is the result of high levels of deuterium astration involved in the formation of the local metal-enhanced disk. Here we propose a new channel to explain the observed enhancement in D/H. Our model, which invokes ongoing gaseous infall and a star formation rate that declines over the past several Gyr, predicts that the D astration is suppressed over the same time interval.
description: 9 pages including 4 figures, accepted for publication in MNRAS
Can the Lorenz-gauge potentials be considered physical quantities?
Creators: name: Heras, Jose A.
name: Fernandez-Anaya, Guillermo
Publisher: name: arXiv
Year: 2010
Subjects: subject: Classical Physics (physics.class-ph)
subject: FOS: Physical sciences

description: Two results support the idea that the scalar and vector potentials in the Lorenz gauge can be considered to be physical quantities: (i) they separately satisfy the properties of causality and propagation at the speed of light and not imply spurious terms and (ii) they can naturally be written in a manifestly covariant form. In this paper we introduce expressions for the Lorenz-gauge potentials at the present time in terms of electric and magnetic fields at the retarded time. These expressions provide a third result in favor of a physical interpretation of the Lorenz-gauge potentials: (iii) they can be regarded as causal effects of the observed electric and magnetic fields.
description: 12 pages
Additional file 1 of Does an app designed to reduce repetitive negative thinking decrease depression and anxiety in young people? (RETHINK): a randomized controlled prevention trial
Creators: name: Funk, Julia
name: Kopf-Beck, Johannes
name: Watkins, Edward
name: Ehring, Thomas
Publisher: name: figshare
Year: 2023
Subjects: subject: Medicine
subject: Neuroscience
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Science Policy
subject: 111714 Mental Health
subject: FOS: Health sciences

description: Additional file 1.
The Shear Mode of Multi-Layer Graphene
Creators: name: Tan, P. H.
name: Han, W. P.
name: Zhao, W. J.
name: Wu, Z. H.
name: Chang, K.
name: Wang, H.
name: Wang, Y. F.
name: Bonini, N.
name: Marzari, N.
name: Savini, G.
name: Lombardo, A.
name: Ferrari, A. C.
Publisher: name: arXiv
Year: 2011
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: We uncover the interlayer shear mode of multi-layer graphene samples, ranging from bilayer-graphene (BLG) to bulk graphite, and show that the corresponding Raman peak measures the interlayer coupling. This peak scales from~43cm-1 in bulk graphite to~31cm-1 in BLG. Its low energy makes it a probe of near-Dirac point quasi-particles, with a Breit-Wigner-Fano lineshape due to resonance with electronic transitions. Similar shear modes are expected in all layered materials, providing a direct probe of interlayer interactions
Additional file 1 of Aspirin or statin use in relation to survival after surgery for esophageal cancer: a population-based cohort study
Creators: name: Holmberg, Dag
name: Gottlieb-Vedi, Eivind
name: Hedberg, Jakob
name: Lindblad, Mats
name: Mattsson, Fredrik
name: Lagergren, Jesper
Publisher: name: figshare
Year: 2023
Subjects: subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Biotechnology
subject: Marine Biology
subject: Cancer
subject: Science Policy

description: Additional file 1.
Superoxygenation : analysis of oxygen transfer design parameters using high purity oxygen and a pressurized aeration column
Creators: name: Barber, Tyler William
Publisher: name: University of British Columbia
Year: 2014

description: Supplying oxygen to water via the physical process of aeration is the most widely used water treatment technology. It supports microbial growth in water and wastewaters by introducing dissolved oxygen to the water, stabilizing organic matter and providing the necessary oxygen for many other aquatic species to survive. There exists the potential for much improvement in aeration techniques, which can account for 60 percent of the energy required for water treatment. This research aimed to analyze one such technique that has limited research of this magnitude, aerating water under high pressures with high-purity oxygen. Increasing the partial pressure of oxygen in the aeration gas, by way of Henry's law, increases the saturation concentration of the water and, thus, several aeration design parameters. The parameters required for aeration design and sought after in this research are: the mass transfer coefficient (KLa), saturation concentration (C*sat), standard oxygen transfer rate (SOTR), standard aeration efficiency (SAE), and the standard oxygen transfer efficiency (SOTE). This research compared the obtained design values under gauge pressures of 0, 50, 100, 150, and 200 kPa using air and Pressure Swing Adsorption (PSA) oxygen in an 18.5 foot (5.6 meter) aeration column, allowing for comparative analysis of the design parameters for aeration. Results show that, with increasing pressure for both air and PSA oxygen: KLa decreases, C*sat increases; however, at a rate other than predicted by Henry's law, the SOTR remains constant, the SAE decreases, and the SOTE increases. Between air and PSA oxygen, PSA was found to have a slightly larger KLa, larger C*sat, larger SOTR, lower SAE, and a higher SOTE.
Effect of annealing on the specific heat of optimally doped Ba(Fe$_{0.92}$Co$_{0.08}$)$_{2}$As$_{2}$
Creators: name: Gofryk, K.
name: Sefat, A. S.
name: McGuire, M. A.
name: Sales, B. C.
name: Mandrus, D.
name: Imai, T.
name: Thompson, J. D.
name: Bauer, E. D.
name: Ronning, F.
Publisher: name: arXiv
Year: 2010
Subjects: subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: We report the temperature dependence of the low-temperature specific heat down to 400 mK of the electron-doped Ba(Fe$_{0.92}$Co$_{0.08}$)$_{2}$As$_{2}$ superconductors. We have measured two samples extracted from the same batch: first sample has been measured just after preparation with no additional heat treatment. The sample shows $T_{c}$=20 K, residual specific heat $γ_{0}$=3.6 mJ/mol K$^{2}$ and a Schottky-like contribution at low temperatures. A second sample has been annealed at 800 $^{o}C$ for two weeks and shows $T_{c}$ = 25 K and $γ_{0}$=1.4 mJ/mol~K$^{2}$. By subtracting the lattice specific heat, from pure BaFe$_{2}$As$_{2}$, the temperature dependence of the electronic specific heat has been obtained and studied. For both samples the temperature dependence of $C_{el}(T)$ clearly indicate the presence of low-energy excitations in the system. Their specific heat data cannot be described by single clean s- or d-wave models and the data requires an anisotropic gap scenario which may or may not have nodes
description: SCES 2010, 5 pages, 2 figures
Probing the twist-3 multi-gluon correlation functions by pp \to DX
Creators: name: Koike, Yuji
name: Yoshida, Shinsuke
Publisher: name: arXiv
Year: 2010
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We study the single spin asymmetry (SSA) for the D-meson production $A_N^D$ in the $pp$ collision, $p^\uparrow p\to DX$, in the framework of the collinear factorization. Since the charm quark is mainly produced through the $c\bar{c}$-pair creation from the gluon-fusion process, this is an ideal process to probe the twist-3 triple-gluon correlation functions in the polarized nucleon. We derive the corresponding cross section formula for the contribution of the triple-gluon correlation function to $A_N^D$ in $p^\uparrow p\to DX$, applying the method developed for $ep^\uparrow\to eDX$ in our previous study. As in the case of $ep^\uparrow\to eDX$, our result differs from a previous study in the literature. We will also present a simple estimate of the triple-gluon correlation functions based on the preliminary data on $A_N^D$ by RHIC.
description: to appear in the proceedings of the 19th International Spin Physics Symposium (Spin2010), Sept.27 - Oct.2, 2010, Juelich, Germany, 5 pages, 2 figures
Combined Spoken Language Translation
Creators: name: Freitag, Markus
name: Wuebker, Joern
name: Peitz, Stephan
name: Ney, Hermann
name: Huck, Matthias
name: Birch, Alexandra
name: Durrani, Nadir
name: Koehn, Philipp
name: Mediani, Mohammed
name: Slawik, Isabel
name: Niehues, Jan
name: Cho, Eunah
name: Waibel, Alex
name: Bertoldi, Nicola
name: Cettolo, Mauro
name: Frederico, Marcello
Publisher: name: Association for Computational Linguistics (ACL)
Year: 2014

description: EU-BRIDGE is a European research project which is aimed at developing innovative speech translation technology. One of the collaborative efforts within EU-BRIDGE is to produce joint submissions of up to four different partners to the evaluation campaign at the 2014 International Workshop on Spoken Language Translation (IWSLT). We submitted combined translations to the German→English spoken language translation (SLT) track as well as to the German→English, English→German and English→French machine translation (MT) tracks. In this paper, we present the techniques which were applied by the different individual translation systems of RWTH Aachen University, the University of Edinburgh, Karlsruhe Institute of Technology, and Fondazione Bruno Kessler. We then show the combination approach developed at RWTH Aachen University which combined the individual systems. The consensus translations yield empirical gains of up to 2.3 points in BLEU and 1.2 points in TER compared to the best individual system.
Perlesta Banks 1906
Creators: name: Grubbs, Scott A.
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Plecoptera
Perlidae
Perlesta

description: Perlesta MD-5 (Figs. 1–6, 21) Female. Forewing length 9.5–11.0 mm (n = 3). Head light pale yellow with a golden brown intraocellar patch that is slightly open anteriorly, plus a light golden-brown triangular patch anterior to the anterior ocellus; m-line indistinguishable (Figs. 1– 2). Pronotum light golden brown with no medial stripe (Figs. 1–2). Subgenital plate ca. ½ width of 8 th abdominal sternum, lacking pigmentation. Lobes distinct, rounded laterally, bordered by a v-shaped notch. Egg. Oval (Fig. 3). Collar small and straight-sided, raised about chorionic surface, flange lacking (Figs. 4–5); chorion covered by a patchwork of amoeboidlike polygons (Figs. 4, 6); micropyles present in anterior ¼ (Fig. 6). Material examined. USA, Maryland, Allegany Co., Sideling Hill Creek, near Bellegrove, at light, 39.70443, -78.32840, 3 August 1996, S.A. Grubbs, 2♀ (WKUC); same but 14 July 1998, S.A. Grubbs, ♀ (WKUC). Remarks. The eggs appear different from all other species of eastern Nearctic Perlesta. A brief description was provided here in hope that females can be associated with males at some point in the future. These eggs may pertain to one of three Perlesta species whose eggs are unknown and found along the Atlantic Coastal Plain region of Virginia and North Carolina: P. beatyi Kondratieff, Zuellig & Lenat, 2011, P. bjostadi Kondratieff & Kirchner, 2006, and P. durfeei Kondratieff, Zuellig & Kirchner, 2008. The egg of P. leathermani Kondratieff & Zuellig, 2006 also has a small, “button- like” collar (their Fig. 8.). The light head pigmentation of MD-5 (Figs. 1–2), however, appears different from the darker P. leathermani (Kondratieff et al. 2006, their Fig. 1).
description: Published as part of Grubbs, Scott A., 2018, An Update On The Stonefly Fauna (Insecta, Plecoptera) Of Maryland, Including New And Emended State Records And An Updated State Checklist, pp. 65-80 in Illiesia 14 (4) on page 67, DOI: 10.5281/zenodo.4761234
The collisions of high-velocity clouds with the galactic halo
Creators: name: Jelinek, Petr
name: Hensler, Gerhard
Publisher: name: arXiv
Year: 2011
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: Computational Physics (physics.comp-ph)
subject: Plasma Physics (physics.plasm-ph)
subject: FOS: Physical sciences

description: Spiral galaxies are surrounded by a widely distributed hot coronal gas and seem to be fed by infalling clouds of neutral hydrogen gas with low metallicity and high velocities. We numerically study plasma waves produced by the collisions of these high-velocity clouds (HVCs) with the hot halo gas and with the gaseous disk. In particular, we tackle two problems numerically: 1) collisions of HVCs with the galactic halo gas and 2) the dispersion relations to obtain the phase and group velocities of plasma waves from the equations of plasma motion as well as further important physical characteristics such as magnetic tension force, gas pressure, etc. The obtained results allow us to understand the nature of MHD waves produced during the collisions in galactic media and lead to the suggestion that these waves can heat the ambient halo gas. These calculations are aiming at leading to a better understanding of dynamics and interaction of HVCs with the galactic halo and of the importance of MHD waves as a heating process of the halo gas.
description: 8 pages, 7 figures, Computer Physics Communications (2011), in press