gebhart/patrepeval huggingface dataset:
A genome-wide identification of the miRNAome in response to salinity stress in date palm (Phoenix dactylifera L.) (2015)

Although date palm is relatively salt-tolerant, little is known about the underlying molecular mechanisms that contribute to its salt tolerance. Only recently, investigators have uncovered microRNA-mediated post-transcriptional gene regulation, which is critical for typical plant development and adaptation to stress conditions such as salinity. To identify conserved and novel miRNAs in date palm and to characterize miRNAs that could play a role in salt tolerance, we have generated sRNA libraries from the leaves and roots of NaCl-treated and untreated seedlings of date palm. Deep sequencing of these four sRNA libraries yielded approximately 251 million reads. The bioinformatics analysis has identified 153 homologs of conserved miRNAs, 89 miRNA variants, and 180 putative novel miRNAs in date palm. Expression profiles under salinity revealed differential regulation of some miRNAs in date palm. In leaves, 54 of the identified miRNAs were significantly affected and the majority (70%) of them were upregulated, whereas in roots, 25 of the identified miRNAs were significantly affected and 76% of them were upregulated by the salinity stress. The salt-responsiveness of some of these miRNAs was further validated using semi-quantitative PCR (qPCR). Some of the predicted targets for the identified miRNA include genes with known functions in plant salt tolerance, such as potassium channel AKT2-like proteins, vacuolar protein sorting-associated protein, calcium-dependent and mitogen-activated proteins. As one of the first cultivated trees in the world that can tolerate a wide range of abiotic stresses, date palm contains a large population of conserved and non-conserved miRNAs that function at the post-transcriptional level. This study provided insights into miRNA-mediated gene expression that are important for adaptation to salinity in date palms.
A case series of triplet anti-hormonal therapy in androgen receptor-positive recurrent adult ovarian granulosa cell tumor (2022)

Therapeutic options for recurrent adult granulosa cell tumors (AGCT) are limited. After examining the hormonal pathways involved in <i>FOXL2</i>-mutated granulosa cell tumor development, a novel treatment regimen was utilized for recurrent AGCT: a combination of an androgen receptor antagonist, a gonadotropin-releasing hormone receptor agonist, and an aromatase inhibitor for hormonal blockade. In this case series, seven patients at our institution were treated with bicalutamide 50 mg orally once daily, Leuprolide acetate 7.5 mg intramuscular (IM) injection every 4 weeks, and a daily oral aromatase inhibitor. These patients had recurrent AGCT with androgen receptor positive tumors and had failed prior aromatase inhibitor therapy. All patients had undergone multiple surgical resections and many cycles of chemotherapy. Patients were monitored for toxicities and for response to treatment. Of the seven patients receiving the triple therapy, six saw clinical benefit. Two patients demonstrated a partial response and four patients had stable disease. One patient had progressive disease on the regimen. For the two patients who had a partial response to the triple therapy, there was strong expression of the androgen receptor (AR) noted on tumor immunohistochemistry. This drug combination was well-tolerated except for severe hot flashes in one patient. In conclusion, the triple therapy combination of an androgen receptor antagonist, aromatase inhibitor, and GnRH agonist demonstrated measurable responses in patients with recurrent AGCTs after multiple previous treatments. A prospective clinical trial is planned to further investigate these findings.
LU-NeRF: Scene and Pose Estimation by Synchronizing Local Unposed NeRFs (2023)

A critical obstacle preventing NeRF models from being deployed broadly in the wild is their reliance on accurate camera poses. Consequently, there is growing interest in extending NeRF models to jointly optimize camera poses and scene representation, which offers an alternative to off-the-shelf SfM pipelines which have well-understood failure modes. Existing approaches for unposed NeRF operate under limited assumptions, such as a prior pose distribution or coarse pose initialization, making them less effective in a general setting. In this work, we propose a novel approach, LU-NeRF, that jointly estimates camera poses and neural radiance fields with relaxed assumptions on pose configuration. Our approach operates in a local-to-global manner, where we first optimize over local subsets of the data, dubbed mini-scenes. LU-NeRF estimates local pose and geometry for this challenging few-shot task. The mini-scene poses are brought into a global reference frame through a robust pose synchronization step, where a final global optimization of pose and scene can be performed. We show our LU-NeRF pipeline outperforms prior attempts at unposed NeRF without making restrictive assumptions on the pose prior. This allows us to operate in the general SE(3) pose setting, unlike the baselines. Our results also indicate our model can be complementary to feature-based SfM pipelines as it compares favorably to COLMAP on low-texture and low-resolution images.
Development of High Strength High Ductility Concrete (2011)

The development of a new material, High Strength High Ductility Concrete (HSHDC), and its unique composite properties are reported in this paper. HSHDC attains an average compressive strength of 160 MPa (23 ksi) and average tensile strain capacity of 3.5%. The micromechanics-based design approach, which guided the development of HSHDC, is highlighted. A comparison of the specific energy absorption under direct tension of HSHDC with other concretes of this class is also presented.
Nonlinear optical coupler using a doped optical waveguide (1994)

An optical mode coupling apparatus includes an Erbium-doped optical waveguide in which an optical signal at a signal wavelength propagates in a first spatial propagation mode and a second spatial propagation mode of the waveguide. The optical signal propagating in the waveguide has a beat length. The coupling apparatus includes a pump source of perturbational light signal at a perturbational wavelength that propagates in the waveguide in the first spatial propagation mode. The perturbational signal has a sufficient intensity distribution in the waveguide that it causes a perturbation of the effective refractive index of the first spatial propagation mode of the waveguide in accordance with the optical Kerr effect. The perturbation of the effective refractive index of the first spatial propagation mode of the optical waveguide causes a change in the differential phase delay in the optical signal propagating in the first and second spatial propagation modes. The change in the differential phase delay is detected as a change in the intensity distribution between two lobes of the optical intensity distribution pattern of an output signal. The perturbational light signal can be selectively enabled and disabled to selectively change the intensity distribution in the two lobes of the optical intensity distribution pattern.
β‐Hydroxy‐tetrahydroquinolines from Quinolines Using Chloroborane: Synthesis of the Peptidomimetic FISLE‐412 (2017)

A new synthetic protocol provides a simple and direct method to generate functionalized β-hydroxy-tetrahydroquinolines (THQs). Hydroboration of quinolines using chloroboranes followed by oxidation with NaBO<sub>3</sub> ⋅H<sub>2</sub> O led to the formation of functionalized β-hydroxy THQs. High regio- and diastereoselectivities were observed in α and γ substituted quinolines and the trans diastereomer of the β-hydroxy-THQ was the major isostere. This new protocol was utilized to build the novel antibody-targeted lupus peptidomimetic, FISLE-412.
Similarity of sli-1 , a Regulator of Vulval Development in C. elegans , to the Mammalian Proto-Oncogene c- cbl (1995)

Vulval induction during Caenorhabditis elegans development is mediated by LET-23, a homolog of the mammalian epidermal growth factor receptor tyrosine kinase. The sli-1 gene is a negative regulator of LET-23 and is shown here to encode a protein similar to c-Cbl, a mammalian proto-oncoprotein. SLI-1 and c-Cbl share approximately 55 percent amino acid identity over a stretch of 390 residues, which includes a C3HC4 zinc-binding motif known as the RING finger, and multiple consensus binding sites for Src homology 3 (SH3) domains. SLI-1 and c-Cbl may define a new class of proteins that modify receptor tyrosine kinase-mediated signal transduction.
The Effects of Inorganic-Organic Cations on EVA-Magadiite Nanocomposite Flammability (2005)

There are several organoclays which have been used in polyethylene-co-vinyl acetate (EVA) nanocomposite synthesis, most commonly montmorillonite and fluorinated synthetic mica. One type of clay, magadiite, and the effects of its cations on nanocomposite flammability has not been thoroughly studied in EVA. In our study we investigated the effects of an organically treated magadiite and four inorganic magadiites on EVA flammability. Thermogravimetric analysis, transmission electron microscopy, and X-ray diffraction analyses found that the organically treated magadiite led to nanocomposite formation whereas the inorganic magadiites gave microcomposite structures. Flammability performance by cone calorimeter testing showed that the organically treated magadiite nanocomposite gave the best flammability performance.
Data from Locus-Specific Characterization of Human Endogenous Retrovirus Expression in Prostate, Breast, and Colon Cancers (2023)

&lt;div&gt;Abstract&lt;p&gt;Human endogenous retroviruses (HERV) have been implicated in a variety of diseases including cancers. Recent research implicates HERVs in epigenetic gene regulation. Here we utilize a recently developed bioinformatics tool for identifying HERV expression at the locus-specific level to identify differential expression of HERVs in matched tumor-normal RNA-sequencing (RNA-seq) data from The Cancer Genome Atlas. Data from 52 prostate cancer, 111 breast cancer, and 24 colon cancer cases were analyzed. Locus-specific analysis identified active HERV elements and differentially expressed HERVs in prostate cancer, breast cancer, and colon cancer. In addition, differentially expressed host genes were identified across prostate, breast, and colon cancer datasets, respectively, including several involved in demethylation and antiviral response pathways, supporting previous findings regarding the pathogenic mechanisms of HERVs. A majority of differentially expressed HERVs intersected protein coding genes or lncRNAs in each dataset, and a subset of differentially expressed HERVs intersected differentially expressed genes in prostate, breast, and colon cancers, providing evidence towards regulatory function. Finally, patterns in HERV expression were identified in multiple cancer types, with 155 HERVs differentially expressed in all three cancer types. This analysis extends previous results identifying HERV transcription in cancer RNA-seq datasets to a locus-specific level, and in doing so provides a foundation for future studies investigating the functional role of HERV in cancers and identifies a number of novel targets for cancer biomarkers and immunotherapy.&lt;/p&gt;Significance:&lt;p&gt;Expressed human endogenous retroviruses are mapped at locus-specific resolution and linked to specific pathways to identify potential biomarkers and therapeutic targets in prostate, breast, and colon cancers.&lt;/p&gt;&lt;/div&gt;
Bionanotechnology Progress and Advances (2006)

Advances in the nanotechnology research have provided a new set of research tools, materials, structures, and systems for biological and medical research and applications. These nanotechnologies include the application of fluorescent quantum dots for optical imaging, the design of metallic nanoparticle surfaces for ultrasensitive biomolecular fingerprinting, and the use of nanostructures as hyperthermia agents for cancer therapy. Unlike conventional technologies, unique properties can be incorporated into nanometer-size particles, structures, and systems simply by changing their size, shape, and composition. Because of the tunable properties, biologists and clinicians could custom-design a material for a specific research need. In this review article, we highlight the recent advances and progress in Bionanotechnology research as well as provide future perspective on this integrative field.
Supporting broadband communications needs of the International Space Station using commercial satellites (2000)

NASA is interested in using commercial satellites to provide broadband communications support for the International Space Station. We describe a large-scale simulation model that we plan to use for detailed performance studies of critical parameters such as QoS guarantees for specific services, traffic routing schemes, transport protocol support, dynamic bandwidth allocation methods, queuing disciplines, and handoff strategies. In this paper we focus on the unique challenges we face and how we plan to use simulations to investigate: (a) the feasibility of using proposed commercial constellations to carry mission telemetry, command and control, and tele-science traffic between ground terminals and near-earth spacecraft; and (b) the end-to-end performance optimization of this system.
Rapamycin-Eluting Stents in the Arterial Duct (2009)

Rapamycin has antiproliferative actions on the arterial duct. Drug-eluting stents may be a more efficient tool than current palliative options for maintaining patency in critically duct-dependent states, but there may be a finite time-related benefit.
Electrically Conductive In Situ Formed Nano‐Si 3 N 4 /SiC/TiC x N 1− x Ceramic Composite Consolidated by Pulse Electric Current Sintering (PECS) (2004)

Fully dense nano‐sized Si 3 N 4 /SiC/TiC x N 1− x conductive composites have been synthesized through the reactive‐consolidation of a powder mixture of amorphous polymer precursor‐derived silicon carbonitride and nanocrystalline TiO 2 by pulse electric current sintering. The nano‐Si 3 N 4 and SiC grains, with sizes ranging from 15 to 30 nm, form large aggregate regions up to 20 μm in size. The nano‐TiC 0.3 N 0.7 grains, ranging from 100 to 300 nm in size, form a connected matrix in which the micro‐sized Si 3 N 4 /SiC aggregate regions are distributed. The resultant ceramic composite possesses an excellent electrical conductivity, ∼3.40 × 10 4 (Ω·m) −1 . This ceramic also exhibits favorable mechanical properties, including ∼14 GPa hardness and 6.7 MPa·m 1/2 fracture toughness.
Real-Time Diagnosis of Multiple Transistor Open-Circuit Faults in a T-Type Inverter Based on Finite-State Machine Model (2020)

This paper proposes a fault diagnosis method to diagnose multiple transistor open-circuit faults in a T-type three-level inverter. In this method, a finite-state machine (FSM) tracks state transitions caused by abnormal fault-linked current paths, and rough set theory (RST) is employed to optimize and obtain a minimum set of variables necessary to distinguish state transitions under various fault scenarios. After applying RST, voltage state variables expressed by Boolean logic relationships are adopted in the FSM to identify faults. This can also effectively reflect state transitions between single and multiple fault cases. The approach is immune to load disturbances and dead times. Through logic relationships, a circuit is designed for fast online fault location to minimize the impact of sampling frequency on diagnosis. Factors that affect diagnosis time and accuracy are considered and analyzed to ensure the reliability of the proposed method. Experimental results obtained under various conditions verify the effectiveness of this approach.
Resolution enhancement in the recovery of underdrawings via style\n transfer by generative adversarial deep neural networks (2021)

We apply generative adversarial convolutional neural networks to the problem\nof style transfer to underdrawings and ghost-images in x-rays of fine art\npaintings with a special focus on enhancing their spatial resolution. We build\nupon a neural architecture developed for the related problem of synthesizing\nhigh-resolution photo-realistic image from semantic label maps. Our neural\narchitecture achieves high resolution through a hierarchy of generators and\ndiscriminator sub-networks, working throughout a range of spatial resolutions.\nThis coarse-to-fine generator architecture can increase the effective\nresolution by a factor of eight in each spatial direction, or an overall\nincrease in number of pixels by a factor of 64. We also show that even just a\nfew examples of human-generated image segmentations can greatly improve --\nqualitatively and quantitatively -- the generated images. We demonstrate our\nmethod on works such as Leonardo's Madonna of the carnation and the\nunderdrawing in his Virgin of the rocks, which pose several special problems in\nstyle transfer, including the paucity of representative works from which to\nlearn and transfer style information.\n
Fabrication of structural components from commercial aluminum alloys using superplastic forming (1990)

SPF technology was used to fabricate structural components from the 7475 Al and 8090 Al-Li commercial alloys. Gas-pressurization cycles were established for SPF three-hat stiffener configurations on the basis of uniaxial data and component-geometry considerations. It is established that higher forming rates than the optimum strain rates selected from the uniaxial data for each alloy could be used in the later stages of forming without reducing SPF components' dimensional conformity. Cavitation was precluded through the use of back pressure during forming.
Cover Picture: Biologically Active Compounds through Catalysis: Efficient Synthesis of N‐(Heteroarylcarbonyl)‐N′‐(arylalkyl)piperazines (Chem. Eur. J. 3/2004) (2004)

The cover picture shows the combination of catalysis with the synthesis of biologically active substances that are active as central nervous system agents. In the background autoclave equipment is shown, which is necessary to perform these reactions. For more details please see the article by M. Beller et al. on p. 746ff.
Effects of the vital DNA probe fluorochrome Hoechst 33342 on PtK cell chromatin (1985)

We investigated the effects of DNA labelling by fluorochrome Hoechst 33342, on chromatin distribution and transcription during a short-term non-toxic staining procedure which did not prevent the cell growth. By electron microscope examination we found chromatin condensation and nucleolar fragmentation just after the staining. Both effects appeared to be reversible 24h after staining; 48h afterwards, the morphological pattern was similar to that of control cells. The rate of RNA transcription was reduced at the end of staining, increased at 24h, and was comparable to the control at 48h. We also observed an effect on the cell cycle when the staining pasted 6h. Consequently, 24h after Hoechst vital staining, the effects on chromatin vanished whereas the cells remained fluorescent.
Behavior Of Broadband Fiber Sources In A Fiber Gyroscope (1990)

Two fiber laser sources, a resonant fiber laser (RFL) and a superfluorescent fiber laser (SFL), have been given initial tests as gyro sources using a medium quality gyro test bed. The RFL reacted strongly to optical feedback from the gyro circuit resulting in very large unstable errors in the gyro output. These were suppressed substantially by an optical isolator which reduced feedback from the gyro, or by a phase modulator within the laser cavity. The SFL was found to be free of errors of this type when operated at output power levels below a threshold level (about 0.5 mw) for self oscillation due to external optical circuit reflections.
Joint optimization for social content delivery in heterogeneous wireless networks (2016)

Over the past decade, success of social networks has significantly reshaped how people consume information. Recommendation of contents based on user profiles is well-received. However, as users become dominantly mobile in content consumption, little is done to consider the optimization regarding the wireless environment. In this paper, we investigate a centralized wireless content delivery system with heterogeneous base stations, aiming to optimize overall user rewards given the capacity constraints of the wireless networks. We propose a scalable two-phase scheduling framework, consisting of: 1) distributed delivery decisions by each base station, and 2) resource consolidation by the system. Results indicate this novel joint optimization approach is both efficient and scalable.
Immune system and intestinal microbiota determine efficacy of androgen deprivation therapy against prostate cancer (2022)

These findings suggest the potential clinical utility of reversing intestinal dysbiosis and repairing acquired immune defects in PC patients.
STAT2 is a determinant of yellow fever virus host tropism (2019)

Abstract The recent yellow fever virus (YFV) epidemic in Brazil in 2017 and Zika virus (ZIKV) epidemic in 2015 serve to remind us of the importance of flaviviruses as emerging human pathogens. With the current global flavivirus threat, there is an urgent need for antivirals and vaccines to curb the spread of these viruses. However, the lack of suitable small animal models limits the research questions that can be answered. A common trait of all flaviviruses studied thus far is their ability to antagonize interferon (IFN) signaling so as to establish infection and subsequent dissemination. Previously, we reported that YFV NS5 requires the presence of type I IFN (IFNα/β) for its engagement with human Signal Transducer and Activator of Transcription 2 (hSTAT2). We now report that like the NS5 proteins of ZIKV and dengue virus (DENV), YFV NS5 protein is able to bind hSTAT2 but not murine STAT2 (mSTAT2). Contrary to what has been demonstrated with ZIKV NS5 and DENV NS5, replacing mSTAT2 with hSTAT2 cannot rescue the YFV NS5-STAT2 interaction, as YFV NS5 is also unable to interact with hSTAT2 in murine cells. We show that the IFNα/β-dependent ubiquitination of YFV NS5 that is required for STAT2 binding in human cells is absent in murine cells. In addition, we demonstrate that mSTAT2 restricts YFV replication in vivo. These data serve as further impetus for the development of an immunocompetent mouse model that can serve as a disease model for multiple flaviviruses.
Application of Microholes in Sustain Electrode to Improving UV Efficiency in Macroscopic Plasma Display Panel Cells (2005)

A front-panel structure with microholes in its sustain electrode for use as a macroscopic plasma display panel to achieve high UV radiation efficiency through the micro-hollow effect is proposed. When the Xe/Ne/Ar (4/76/20) pressure is 50 Torr and the driving frequency is AC 20 kH, compared with a conventional structure, the electrode with a microholes produces a high IR intensity and low a electron energy. The excitation energy measured by optical emission spectroscope is 1.4 eV. The IR intensity of the structure with microholes is about 20% higher than that of conventional plasma display panel cells.