1. P856 : a single-cell functional precision medicine landscape of multiple myelomaKlara Kropivšek, Paul Kachel, Sandra Goetze, Rebekka Wegmann, Yannik Severin, Benjamin D. Hale, Yasmin Festl, Julien Mena, Audrey Van Drogen, Nadja Dietliker, 2022, objavljeni povzetek znanstvenega prispevka na konferenci Opis: Multiple myeloma (MM) is a cancer of plasma cells, defined by complex genetics and extensive intra- and inter-patient heterogeneity. Despite improved patient survival driven by a plethora of treatment options, the disease remains incurable.
Molecularly-guided precision medicine to individualize treatment strategies in MM has had limited success, in part due to the genetic and molecular complexity of the disease. Functional precision medicine, a complementary approach in which patient treatment is guided by the ex vivo drug response of patient cells, has not yet been evaluated for MM systematically. Ključne besede: mutliple myeloma, hematology, precision medicine, microscopy, deep learning, phenotyping, oncology, proteotype Objavljeno v RUNG: 11.11.2024; Ogledov: 212; Prenosov: 2 Povezava na datoteko Gradivo ima več datotek! Več... |
2. A roadmap of therapeutic strategies for patients with multiple myelomaBerend Snijder, Klara Kropivšek, 2023, drugi znanstveni članki Opis: Multiple myeloma is a rare and incurable cancer of plasma cells. To characterize this cancer, we developed an ex vivo drug screening method that combines imaging, deep learning and multiomics and applied it in an observational trial, uncovering new potential therapeutic strategies and underlying disease mechanisms. Ključne besede: multiple myeloma, multiomics, deep learning, imaging, ex vivo drug screening Objavljeno v RUNG: 11.11.2024; Ogledov: 216; Prenosov: 3 Povezava na datoteko Gradivo ima več datotek! Več... |
3. Search for a signal from dark matter sub-halos with the galactic plane survey of CTA Observatory : master's thesisZoja Rokavec, 2024, magistrsko delo Opis: Dark matter (DM), known to be a dominant matter component in the Universe,
has been searched for extensively, yet remains undetected. One of the promising
avenues of detecting a DM signal is to observe the so called ’DM sub-halos’ within
our galaxy. These sub-halos, which are numerous within the Milky Way, are formed
by the clustering of DM, as predicted by cosmological simulations, and most of
them lack baryonic matter counterparts, making them challenging to detect. How-
ever, the annihilation or decay of Weakly Interacting Massive Particles (WIMPs),
a leading candidate for DM, within these sub-halos is expected to produce very
high-energy (VHE) photons (called gamma-rays) at TeV energies, offering possible
indirect DM detection.
In this thesis, we focus on the Galactic Plane Survey (GPS) of the Cherenkov Tele-
scope Array Observatory (CTAO), an upcoming ground-based gamma-ray obser-
vatory, which promises unprecedented sensitivity and resolution in the detection
of cosmic gamma-ray sources in the ∼ 30 GeV to ∼ 100 TeV energy range. As
dark sub-halos are expected to appear as unidentified (point) sources in the CTAO
GPS data, we employ a machine learning (ML)-based approach, the AutoSour-
ceID framework, leveraging U-shaped networks (U-Nets) and Laplacian of Gaus-
sian (LoG) filter, for automatic source detection and localization, and apply it to
simulated GPS data. We establish detection thresholds for U-Nets trained on dif-
ferently scaled counts (counts, square root or log of counts) and identify which
approach offers best results (in terms of flux sensitivity and location accuracy).
Our findings suggest that using log-scaled counts yields a factor of 1.7 lower flux
threshold compared to counts alone. In addition, we compare our ML outcomes
with traditional methods; however, this comparison is not straightforward, as ML
and traditional approaches fundamentally differ in their methodologies and un-
derlying assumptions. Nevertheless, The flux threshold obtained using log-scaled
counts is comparable to that of the traditional likelihood-based detection method
implemented in the Gammapy library, although further study is needed to estab-
lish a more definitive comparison. These preliminary results also suggest that the
flux threshold for detecting 90% of true sources with the ML approach is approx-
imately two times lower than the sensitivity reported for the GPS in the CTAO
publication. Although these results are not directly comparable due to differences
in methodology, they hint that ML methods may offer superior performance in
certain scenarios. Furthermore, we discuss the implications of our results on the
sensitivity to DM sub-halos, improving it by a factor of 4, highlighting the possi-
bility of detecting at least one sub-halo with a cross section approximately ⟨σv⟩ =
2.4 × 10−23 cm3 /s. Ključne besede: Cherenkov Telescope Array Observatory, dark matter, sub-halos, machine learning, gamma-rays, master's thesis Objavljeno v RUNG: 06.09.2024; Ogledov: 589; Prenosov: 12 Celotno besedilo (5,39 MB) |
4. Promoting the use of open educational resources to improve teaching and learning of science subjects in secondary schools in Tanzania : master's thesisLucian Vumilia Ngeze, 2024, magistrsko delo Opis: A number of challenges have hindered the integration of Open Educational Resources (OERs) in schools from developing countries. The rate of adoption of OERs in teaching and learning in schools in Tanzania is low. This research focused on capacity of secondary school science teachers on creating and adapting open educational resources to improve the teaching and learning of science subjects. The research used a Design-based Research methodology to achieve research objectives.
Results show that challenges such as lack of ICT devices, poor Internet connection, network accessibility issues, unstable power supply and large class sizes hindered the integration of OER in the teaching of science subjects. As teachers created OERs, they stated factors such as levels of the learners, developing engaging content, simple and self-explanatory content, alignment with learning objectives and relevancy of OER as initial considerations they considered when creating OERs. It was important to investigate the change in teachers’ attitude towards the use of OER in teaching science subjects OER creation ability, OER in teaching, teaching improvements, increased teaching resources, and application of skills.
It was concluded that regular teacher professional development programmes must be set to support school teachers in using OERs to improve teaching and learning and in creating OER for teaching. Engaging with relevant government bodies is encouraged to ensure that more teachers are involved in such developed online courses. Ključne besede: Open Educational Resources, OER in Teaching and Learning, Online Courses, Design Based Research Objavljeno v RUNG: 02.08.2024; Ogledov: 1219; Prenosov: 22 Celotno besedilo (834,31 KB) Gradivo ima več datotek! Več... |
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6. A sublexicon approach to the paradigm cell filling problem : lecture at the 5th American International Morphology Meeting, 29. 8. 2021, on-lineGuy Tabachnick, 2001, prispevek na konferenci brez natisa Opis: How do learners figure out an inflected form of a word when they haven’t seen it before and a language allows for more than one option? In some cases, learners can make generalizations about a word’s phonological form (e.g. English verbs ending in [ɪŋ] like sting often have past tenses with [ʌŋ]). In others, as Ackerman et al. (2009) and Ackerman and Malouf (2013) show, knowing some of a word’s inflected forms often allows one to efficiently solve the Paradigm Cell Filling Problem—that is, predicting an additional form. They argue for a morphological model in which the paradigm is a fundamental unit of structure.
I propose a model for how learners may use some forms of a word to predict others outside a paradigm-based formal system. In particular, I extend the sublexicon model (Gouskova et al., 2015; Becker and Gouskova, 2016), used for capturing phonological generalizations, to include dependencies between morphophonological behaviors. This can account for Hungarian possessive allomorphy, in which a noun’s choice of possessive suffix can be substantially, but not entirely, predicted both by its phonological characteristics and its membership in a certain morphological class. Ključne besede: lexically specified allomorphy, rules of exponence, Paradigm Cell Filling Problem, sublexicons, morphological learning Objavljeno v RUNG: 04.03.2024; Ogledov: 1241; Prenosov: 4 Povezava na datoteko Gradivo ima več datotek! Več... |
7. Bodies of noise at the Bell Laboratories : early automated speech recognition, contribution at the Editorial Workshop - A Special Issue on Acoustic Space, November 9-10, 2022, Frankfurt/MainEszter Polónyi, 2022, druga izvedena dela Opis: This paper is about the first automated systems developed to recognize identity. While automated recognition in the twenty-first century is widely associated with images of the human face, its roots are to be found in attempts to visualize identity in other, non-figural types of trace left by human bodies, ranging as widely as shadows, astrological signs, handwriting, the prints left by palms and fingers and the acoustics of the human voice. This paper investigates one such system of recognition as it emerged from within the telecommunications industry context in the midcentury U.S. Ostensibly built to reduce human labor and cable bandwidth, Bell Labs developed three different phone devices in the 1950s to photograph, formalize and analyze the sounds of speech as they traveled through the telephony system. And while the device called “Audrey” indeed succeeded in recognizing spoken digits, it was its failure to recognize the speech contents without prior awareness of the identity of the speaker, that is to distinguish between the individuality of the speaking “medium” and their intended meaning, that arguably made the experiment a landmark in the history of machine-driven recognition. Accounting for the “noise” made by the body and the environment from which sound emanated into the device, which the lab’s technicians defined as ranging from “speech defects” to “inflection” and “background interference” proved more important than phonetic analysis in determining the intended message of given speech spectogram. Similarly to a range of experiments with noise by formalist filmmakers such as Tony Conrad, John Cage, Kurt Kren and others, it was on the principle of contingency and irreproducible uniqueness that Bell Lab technicians sought to train machine-driven intelligence. Ključne besede: History of computer science, machine learning, Bell Labs, history of telecommunications, sound studies Objavljeno v RUNG: 19.02.2024; Ogledov: 1303; Prenosov: 8 Celotno besedilo (31,80 MB) |
8. Deep-learning-based cosmic-ray mass reconstruction using the water-Cherenkov and scintillation detectors of AugerPrimeNiklas Langner, Andrej Filipčič, Jon Paul Lundquist, Shima Ujjani Shivashankara, Samo Stanič, Serguei Vorobiov, Danilo Zavrtanik, Marko Zavrtanik, 2023, objavljeni znanstveni prispevek na konferenci Opis: At the highest energies, cosmic rays can be detected only indirectly by the extensive air showers they create upon interaction with the Earth’s atmosphere. While high-statistics measurements of the energy and arrival directions of cosmic rays can be performed with large surface detector arrays like the Pierre Auger Observatory, the determination of the cosmic-ray mass on an event-by-event basis is challenging. Meaningful physical observables in this regard include the depth of maximum of air-shower profiles, which is related to the mean free path of the cosmic ray in the atmosphere and the shower development, as well as the number of muons that rises with the
number of nucleons in a cosmic-ray particle.
In this contribution, we present an approach to determine both of these observables from combined measurements of water-Cherenkov detectors and scintillation detectors, which are part of the AugerPrime upgrade of the Observatory. To characterize the time-dependent signals of the two detectors both separately as well as in correlation to each other, we apply deep learning techniques. Transformer networks employing the attention mechanism are especially well-suited for this task. We present the utilized network concepts and apply them to simulations to determine the precision of the event-by-event mass reconstruction that can be achieved by the combined measurements of the depth of shower maximum and the number of muons. Ključne besede: Pierre Auger Observatory, ultra-high energy cosmic rays, muons, extensive air showers, surface detectors, AugerPrime, deep learning techiniques Objavljeno v RUNG: 23.01.2024; Ogledov: 1270; Prenosov: 9 Celotno besedilo (2,93 MB) Gradivo ima več datotek! Več... |
9. Search for EeV photon-induced events at the Telescope ArrayI. Kharuk, R. U. Abbasi, Y. Abe, T. Abu-Zayyad, M. Allen, Yasuhiko Arai, R. Arimura, E. Barcikowski, J. W. Belz, Douglas R. Bergman, 2023, objavljeni znanstveni prispevek na konferenci Opis: We report on the updated results on the search for photon-like-induced events in the data, collected by Telescope Array's Surface Detectors during the last 14 years. In order to search for photon-like-induced events, we trained a neural network on Monte-Carlo simulated data to distinguish between the proton-induced and photon-induced air showers. Both reconstructed composition-sensitive parameters and raw signals registered by the Surface Detectors are used as input data for the neural network. The classification threshold was optimized to provide the strongest possible constraint on the photons' flux. Ključne besede: Telescope Array, indirect detection, surface detection, ground array, ultra-high energy, cosmic rays, photons, neural network, machine learning Objavljeno v RUNG: 09.10.2023; Ogledov: 1889; Prenosov: 8 Celotno besedilo (543,46 KB) Gradivo ima več datotek! Več... |
10. An improved harmony search algorithm using opposition-based learning and local search for solving the maximal covering location problemSoumen Atta, 2024, izvirni znanstveni članek Opis: In this article, an improved harmony search algorithm (IHSA) that utilizes opposition-based learning is presented for solving the maximal covering location problem (MCLP). The MCLP is a well-known facility location problem where a fixed number of facilities are opened at a given potential set of facility locations such that the sum of the demands of customers covered by the open facilities is maximized. Here, the performance of the harmony search algorithm (HSA) is improved by incorporating opposition-based learning that utilizes opposite, quasi-opposite and quasi-reflected numbers. Moreover, a local search heuristic is used to improve the performance of the HSA further. The proposed IHSA is employed to solve 83 real-world MCLP instances. The performance of the IHSA is compared with a Lagrangean/surrogate relaxation-based heuristic, a customized genetic algorithm with local refinement, and an improved chemical reaction optimization-based algorithm. The proposed IHSA is found to perform well in solving the MCLP instances. Ključne besede: maximal covering location problem, harmony search algorithm, opposition-based learning, facility location problem, opposite number Objavljeno v RUNG: 05.10.2023; Ogledov: 1990; Prenosov: 11 Celotno besedilo (2,69 MB) Gradivo ima več datotek! Več... |