gebhart/patrepeval huggingface dataset:
miRNome profiling of clonal stem cells in Ph + CML (2020)

Abstract Chronic myeloid leukemia (CML) is a myeloid stem cell neoplasm characterized by an expansion of myeloid progenitor cells and the presence of BCR-ABL1 oncoprotein. Since the introduction of specific BCR-ABL1 tyrosine kinase inhibitors (TKI), overall survival has improved significantly. However, under long-term therapy patients may have residual disease that originates from TKI-resistant leukemic stem cells (LSC). In this work, we analyzed the miRNome of CML LSC, normal hematopoietic stem cells (HSC) obtained from the same CML patients, and stem and progenitor cells obtained from healthy donors (HD) by next-generation sequencing. We detected a global decrease of microRNA levels in LSC and HSC from CML patients, and decreased levels of microRNAs and snoRNAs from a genomic cluster in chromosome 14, suggesting a mechanism of silencing of multiple non-coding RNAs. Surprisingly, HSC from CML patients, despite the absence of BCR-ABL1 expression, showed an altered miRNome. In silico analysis revealed an association between validated microRNAs and multiple metabolic pathways, suggesting that these molecules may be mediators of the previously reported dysregulation of LSC metabolism. This is the first report of the LSC miRNome that distinguishes between BCR-ABL1 + LSC and their BCR-ABL1 - counterparts, providing valuable data for future studies.
Speech Recovery For Real-World Self-Powered Intermittent Devices (2022)

The incompleteness of speech inputs severely degrades the performance of all the related speech signal processing applications. Although many researches have been proposed to address this issue, they controlled the data missing conditions by simulation with self-defined masking lengths or sizes. Besides, the masking definitions are different among all these experimental settings. This paper presents a novel intermittent speech recovery (ISR) system for real-world self-powered intermittent devices. Three contributive stages: interpolation, enhancement, and combination are applied to the ISR system for speech reconstruction. The experimental results show that our recovery system increases speech quality by up to 591.7%, while increasing speech intelligibility by up to 80.5%. Most importantly, the proposed ISR system improves the WER scores by up to 52.6%. The promising results not only confirm the effectiveness of the reconstruction but also encourage the utilization of these battery-free wearable/IoT devices.
Experimental Demonstration of Orbital-Angular-Momentum Demultiplexing using an Optical FFT in the Spatial Domain (2014)

we demonstrate orbital angular momentum modes separation using a geometrical transform-based mode sorter combined with a spatial Fast Fourier Transform. The observed crosstalk between the adjacent modes is <-11.8 dB. A lower crosstalk of <-18.6 dB is anticipated by simulation results.
Mathematical Analysis of Computer Generated Binary Fourier Transform Holograms (1995)

A rigorous mathematical treatment of a general binarization process for computer generated binary Fourier transform hologram is developed. Further a generalized error diffusion coefficient matrix is derived. In the view of these mathematical results we distinguish different binarization methods by the error diffusion process. Some binarization methods, their properties, and computational demands are investigated. Examples are presented.
34. Characterization of fibrinogen synthesis and secretion from MCF-7 cells (1998)

University of Rochester, Departments of 1 Pathology, 2Medicine-Vascular and 3 Microbiology and Immunology, Rochester, New York, USA
Sustaining and Enhancing High OPTEMPO Performance of Soldiers in the Transformed Military (2008)

Abstract : The state of warfare over the past several decades has rapidly evolved, requiring an equally agile adaptation by Army forces. One of the most prevalent consequences of warfare is a lack of adequate rest. Soldiers can receive as little as 0-5 hours of sleep per night for the duration of deployments lasting 12-15 months. In those situations for which adequate sleep is not possible, it would be of value for the Army to understand which skills and abilities are most resilient to sleep deprivation, to pinpoint the underlying brain activity changes, and to determine which remote and reliable measures can serve as a surrogate for metrics that are difficult to measure in mobile individuals in a rugged environment. From the projects described in this paper, it has been possible to identify the regions of neural activity, cognitive abilities, and performance and physiological characteristics that are most robustly altered by sleep deprivation, as well as those that remain relatively unaffected. These deliverables will enable Soldiers on the field to maintain decision-making abilities, manage sustained operations, comprehend high rates of data presentation, and augment leadership effectiveness and cognitive flexibility. From these metrics, a model of human performance under sleep deprivation and physical strain is being developed for use in high optempo training. We are also investigating the use of optimized auditory, visual, and tactile cues for improved signaling communication, and for maintaining and renewing concentration to task.
BIOACTIVE FORMS OF SERUM LACTOGENS: EFFECTS OF TREATMENT OF PROLACTINOMA PATIENTS WITH BROMOCRIPTINE (1985)

An in vitro bioassay for lactogenic hormones, based on the specific mitogenic effects of lactogens on cultured Nb2 node rat lymphoma cells, was used to measure the levels of lactogens in whole serum and in fractionated serum samples from three patients with prolactin (PRL) secreting pituitary adenomas. Under basal conditions, after pituitary stimulation, and following treatment with bromocriptine which greatly decreased the serum PRL levels, the bioassay (BA) results closely paralleled fluctuations in the sum of radioimmunoassay (RIA) estimates of serum PRL and growth hormone concentrations. The extreme sensitivity (10 pg/ml) of the BA facilitated measurement of PRL in fractions obtained after Sephadex G-100 chromatography of only 0.1 to 0.3 ml of sera from both untreated and bromocriptine-treated prolactinoma patients. In both types of samples, similar heterogenous patterns of bioactive PRL were observed, although most of the recovered activity appeared to be due to monomeric PRL. BA and RIA of fractions obtained after DEAE cellulose chromatography of sera from untreated prolactinoma patients revealed two PRL peaks, the first one containing 75% of the activity. Therapy with bromocriptine led to a reduction in the total serum PRL activity and, in particular, in the activity of the second peak.
Emotional experience and perception in the absence of facial feedback (2002)

The facial feedback hypothesis suggests that facial expressions are either necessary or sufficient to produce emotional experience. Researchers have noted that the ideal test of the necessity aspect of this hypothesis would be an evaluation of emotional experience in a patient suffering from a bilateral facial paralysis; however, this condition is rare and no such report has been documented. We examined the role of facial expressions in the determination of emotion by studying a patient (F.P.) suffering from a bilateral facial paralysis. Despite her inability to convey emotions through facial expressions, F.P. reported normal emotional experience. When F.P. viewed emotionally evocative slides her reactions were not dampened relative to the normative sample. F.P. retained her ability to detect, discriminate, and image emotional expressions. These findings are not consistent with theories stating that feedback from an active face is necessary to experience emotion, or to process emotional facial expressions. ( JINS , 2002, 8 , 130–135.)
Long Distance Transmission in a Multi-Core Fiber with Self-Homodyne Detection (2015)

We investigate long-distance space-division multiplexed self-homodyne transmission in two synchronized recirculating loops. Compared to intradyne detection, PDM-64QAM transmission distance with DFB lasers is doubled and 6800km PDM-QPSK transmission, within 1dB of intradyne detection, is achieved.
Surfactant-Assisted Self-Organization of Cobalt Nanoparticles in a Magnetic Fluid (1998)

Stabilization of magnetic fluids can be achieved by coating the particles, e.g., amorphous cobalt nanoparticles, with long-chain surfactant molecules, e.g., oleic acid. What is the driving mechanism? It is shown that the particles try to self-organize, growth proceeding until uniform acicular-shaped particles (see Figure) are reached. A mechanism is proposed and the role of the surfactant discussed.
Efficient and Practical Syntheses of ( R )‐(5‐Amino‐2,3‐dihydro‐1 H ‐inden‐2‐yl)‐carbamic Acid Methyl Ester (2001)

Efficient and practical syntheses of enantiomerically pure (R)-(5-amino-2,3-dihydro-1H-inden-2-yl)-carbamic acid methyl ester (1) by three different routes via the resolution of different aminoindan intermediates are described.
Naturally Occurring Resistance-Associated Variants of Hepatitis C Virus Protease Inhibitors in Poor Responders to Pegylated Interferon-Ribavirin (2015)

The pretherapeutic presence of protease inhibitor (PI) resistance-associated variants (RAVs) has not been shown to be predictive of triple-therapy outcomes in treatment-naive patients. However, they may influence the outcome in patients with less effective pegylated interferon (pegIFN)-ribavirin (RBV) backbones. Using hepatitis C virus (HCV) population sequence analysis, we retrospectively investigated the prevalence of baseline nonstructural 3 (NS3) RAVs in a multicenter cohort of poor IFN-RBV responders (i.e., prior null responders or patients with a viral load decrease of <1 log IU/ml during the pegIFN-RBV lead-in phase). The impact of the presence of these RAVs on the outcome of triple therapy was studied. Among 282 patients, the prevalances (95% confidence intervals) of baseline RAVs ranged from 5.7% (3.3% to 9.0%) to 22.0% (17.3% to 27.3%), depending to the algorithm used. Among mutations conferring a >3-fold shift in 50% inhibitory concentration (IC50) for telaprevir or boceprevir, T54S was the most frequently detected mutation (3.9%), followed by A156T, R155K (0.7%), V36M, and V55A (0.35%). Mutations were more frequently found in patients infected with genotype 1a (7.5 to 23.6%) than 1b (3.3 to 19.8%) (P = 0.03). No other sociodemographic or viroclinical characteristic was significantly associated with a higher prevalence of RAVs. No obvious effect of baseline RAVs on viral load was observed. In this cohort of poor responders to IFN-RBV, no link was found with a sustained virological response to triple therapy, regardless of the algorithm used for the detection of mutations. Based on a cross-study comparison, baseline RAVs are not more frequent in poor IFN-RBV responders than in treatment-naive patients and, even in these difficult-to-treat patients, this study demonstrates no impact on treatment outcome, arguing against resistance analysis prior to treatment.
The Schistosoma mansoni nuclear receptor FTZ-F1 maintains esophageal gland function via transcriptional regulation of meg-8.3 (2021)

Schistosomes infect over 200 million of the world's poorest people, but unfortunately treatment relies on a single drug. Nuclear hormone receptors are ligand-activated transcription factors that regulate diverse processes in metazoans, yet few have been functionally characterized in schistosomes. During a systematic analysis of nuclear receptor function, we found that an FTZ-F1-like receptor was essential for parasite survival. Using a combination of transcriptional profiling and chromatin immunoprecipitation (ChIP), we discovered that the micro-exon gene meg-8.3 is a transcriptional target of SmFTZ-F1. We found that both Smftz-f1 and meg-8.3 are required for esophageal gland maintenance as well as integrity of the worm's head. Together, these studies define a new role for micro-exon gene function in the parasite and suggest that factors associated with the esophageal gland could represent viable therapeutic targets.
3D Clumped Cell Segmentation Using Curvature Based Seeded Watershed (2016)

Image segmentation is an important process that separates objects from the background and also from each other. Applied to cells, the results can be used for cell counting which is very important in medical diagnosis and treatment, and biological research that is often used by scientists and medical practitioners. Segmenting 3D confocal microscopy images containing cells of different shapes and sizes is still challenging as the nuclei are closely packed. The watershed transform provides an efficient tool in segmenting such nuclei provided a reasonable set of markers can be found in the image. In the presence of low-contrast variation or excessive noise in the given image, the watershed transform leads to over-segmentation (a single object is overly split into multiple objects). The traditional watershed uses the local minima of the input image and will characteristically find multiple minima in one object unless they are specified (marker-controlled watershed). An alternative to using the local minima is by a supervised technique called seeded watershed, which supplies single seeds to replace the minima for the objects. Consequently, the accuracy of a seeded watershed algorithm relies on the accuracy of the predefined seeds. In this paper, we present a segmentation approach based on the geometric morphological properties of the 'landscape' using curvatures. The curvatures are computed as the eigenvalues of the Shape matrix, producing accurate seeds that also inherit the original shape of their respective cells. We compare with some popular approaches and show the advantage of the proposed method.
Single crystal functional oxides on silicon (2016)

Single-crystalline thin films of complex oxides show a rich variety of functional properties such as ferroelectricity, piezoelectricity, ferro and antiferromagnetism and so on that have the potential for completely new electronic applications. Direct synthesis of such oxides on silicon remains challenging because of the fundamental crystal chemistry and mechanical incompatibility of dissimilar interfaces. Here we report integration of thin (down to one unit cell) single crystalline, complex oxide films onto silicon substrates, by epitaxial transfer at room temperature. In a field-effect transistor using a transferred lead zirconate titanate layer as the gate insulator, we demonstrate direct reversible control of the semiconductor channel charge with polarization state. These results represent the realization of long pursued but yet to be demonstrated single-crystal functional oxides on-demand on silicon.
A maxi Cl‐ channel coupled to endothelin B receptors in the basolateral membrane of guinea‐pig parietal cells. (1995)

1. To study endothelin (ET) receptors in guinea-pig stomach, ET-binding assays and in vitro autoradiography were performed on fundic cell suspensions and on sections of the fundus, respectively. ETA and ETB receptor subtypes were found to coexist in the parietal cells. 2. Endothelin 1 (ET-1) added to the (basolateral) bathing solution was found to activate noisy whole-cell Cl- currents within about 1 min in both single, isolated parietal cells and those within gastric glands obtained from the fundus. 3. ET-1-induced Cl- currents were rapidly blocked by a Cl- channel blocker (NPPB) added to the (basolateral) bathing solution in a concentration-dependent manner with a half-maximum inhibition concentration of 33 microM. 4. The anion selectivity sequence of the ET-1-induced conductance was I- > Br- > Cl- > F-, corresponding to Eisenman's sequence I. 5. Changes in extracellular pH between 5 and 8 did not affect the ET-1-induced activation of Cl- currents. 6. Similar activating effects were also observed with ET-3 and a specific ETB receptor agonist (IRL1620). An ETB receptor antagonist (IRL1720) prevented the ET-1 effect, whereas an ETA-selective antagonist (FR139317 or BQ123) failed to antagonize the ET-1 effect. 7. In the whole-cell mode, unitary Cl- channel events could be observed in association with ET-1-activated macroscopic currents. The single-channel conductances were around 200 and 350 pS at negative and positive membrane potentials, respectively. 8. It is concluded that gastric parietal cells of guinea-pig possess pH-insensitive 'maxi' Cl- channels coupled to ETB receptors in the basolateral membrane.
Turning light bulbs into objects (1997)

40% of the United States' energy is used for heating, cooling, ventilating, and lighting buildings. Given the efficacy of current righting systems of about 2-6% when measured from the power plant, we are wasting a lot of energy. In this context, the goal of the OWL (Object-oriented Workplace Laboratory) system is to provide a testbed that supports the operation of buildings with more efficient lighting systems. OWL's software architecture is based on a tiework using a combination of web and object technology. It offers location-transparent and manufacturer-independent access to a variety of lighting systems. The OWL system supports a user-driven lighting control scheme for the Intelligent Workplace at Carnegie Mellon University. Both on-line remote control and diagnosis of lighting systems are facilitated by the system. With OWL, a lighting fixture failme triggers a "push" type notification event and sends it to a process for further diagnosis and treatment, This paper describes the requirements, design decisions, and the implementation specific experience in the OWL system development. We discuss the "legacy" system interface, the extendable system design using design patterns, and a component-based multi-modal user interface with Java Beans technology.
Factors influencing tumor response to photodynamic therapy sensitized by intratumor administration of methylene blue (2010)

Sensitizer delivery vehicle, drug-light interval, and fluence contribute significantly to the tumor response to MB-mediated PDT.
Study on power efficiency in wireless multicast communication system (2011)

This paper presents an optimal transmission power that maximizes the normalized total throughput with respect to power. The problem formulation for the environment is presented. By numerical analysis, the most plausible level of transmission power is taken in the simple wireless multicasting model. It is also analyzed that the distribution and the attenuation can produce the variance of the optimal power.
Local Adeno-Associated Virus-Mediated Interleukin 10 Gene Transfer Has Disease-Modifying Effects in a Murine Model of Sjögren's Syndrome (2003)

Female nonobese diabetic (NOD) mice develop spontaneous autoimmune sialadenitis and loss of salivary flow, and are a widely used model of Sjögren's syndrome. We examined the feasibility of local salivary gland immunomodulatory gene delivery to alter these sequelae in NOD mice. We constructed recombinant adeno-associated virus (rAAV) vectors encoding either human interleukin 10 (rAAVhIL-10) or beta-galactosidase (rAAVLacZ, control vector). Mice received rAAVhIL-10 or rAAVLacZ by retrograde submandibular ductal instillation either at age 8 weeks (early, before onset of sialadenitis), or at 16 weeks (late, after onset of sialadenitis). As a systemic treatment control, separate mice received intramuscular delivery of rAAVhIL-10 at each time point. Both submandibular and intramuscular delivery of vector led to low circulating levels of hIL-10. After submandibular administration of rAAVhIL-10, salivary flow rates at 20 weeks for both the early and late treatment groups were significantly higher than for both rAAVLacZ-administered and untreated mice. Systemic delivery of rAAVhIL-10 led to improved salivary flow in the late treatment group. Inflammatory infiltrates in submandibular glands, however, were significantly reduced only in mice receiving rAAVhIL-10 locally in the salivary gland compared with mice receiving this vector intramuscularly, or rAAVLacZ or no treatment. In addition, after submandibular rAAVhIL-10 delivery, NOD mice exhibited significantly lower blood glucose, and higher serum insulin, levels than all other groups, indicating some systemic benefit of this treatment. These studies show that expression of hIL-10 by rAAV vectors can have disease-modifying effects in the salivary glands of NOD mice, and suggest that local immunomodulatory gene transfer may be useful for managing the salivary gland pathology in Sjögren's syndrome.
Cache-conscious coallocation of hot data streams (2006)

The memory system performance of many programs can be improved by coallocating contemporaneously accessed heap objects in the same cache block. We present a novel profile-based analysis for producing such a layout. The analysis achieves cacheconscious coallocation of a hot data stream H (i.e., a regular data access pattern that frequently repeats) by isolating and combining allocation sites of object instances that appear in H such that intervening allocations coming from other sites are separated. The coallocation solution produced by the analysis is enforced by an automatic tool, cminstr, that redirects a program's heap allocations to a run-time coallocation library comalloc. We also extend the analysis to coallocation at object field granularity. The resulting field coallocation solution generalizes common data restructuring techniques, such as field reordering, object splitting, and object merging, and allows their combination. Furthermore, it provides insight into object restructuring by breaking down the coallocation benefit on a per-technique basis, which provides the opportunity to pick the "sweet spot" for each program. Experimental results using a set of memory-performance-limited benchmarks, including a few SPECInt2000 programs, and Microsoft VisualFoxPro, indicate that programs possess significant coallocation opportunities. Automatic object coallocation improves execution time by 13% on average in the presence of hardware prefetching. Hand-implemented field coallocation solutions for two of the benchmarks produced additional improvements (12% and 22%) but the effort involved suggests implementing an automated version for type-safe languages, such as Java and C#.
SiC Power Devices: Product Improvement Using Diffusion Soldering (2009)

SiC power devices have reached a high market penetration, especially for high-voltage applications like switch mode power supplies. In the past, however, the superior material properties like, e.g., good thermal conductivity, have often not been put to full use due to the limitations of current packaging techniques. Especially the inferior thermal conductivity of current die attach materials have been an obstacle to realise the full potential of SiC technologies. In this paper, we describe in detail the use of diffusion solder for the die attach of SiC chips. Replacing the conventional solder layer by a thin metal stack for diffusion soldering, the thermal conductivity of the device is significantly improved. In addition, we show the positive impact of diffusion soldering on the assembly process and on the device reliability. These results are interesting for, both, SiC diodes and switches.
COMBINED INTERNAL LIMITING MEMBRANE FLAP AND AUTOLOGOUS PLASMA CONCENTRATE TO CLOSE A LARGE TRAUMATIC MACULAR HOLE IN A PEDIATRIC PATIENT (2018)

The combined use of APC with the internal limiting membrane flap is advantageous because the APC acts to hold the internal limiting membrane in proper position and promotes the proliferation of glial cells through the presence of growth factors. This technique may be particularly advantageous in chronic or recalcitrant holes particularly in the setting of trauma.