gebhart/patrepeval huggingface dataset:
A Novel Atoh1 “Self-Terminating” Mouse Model Reveals the Necessity of Proper Atoh1 Level and Duration for Hair Cell Differentiation and Viability (2012)

Atonal homolog1 (Atoh1) is a bHLH transcription factor essential for inner ear hair cell differentiation. Targeted expression of Atoh1 at various stages in development can result in hair cell differentiation in the ear. However, the level and duration of Atoh1 expression required for proper hair cell differentiation and maintenance remain unknown. We generated an Atoh1 conditional knockout (CKO) mouse line using Tg(Atoh1-cre), in which the cre expression is driven by an Atoh1 enhancer element that is regulated by Atoh1 protein to "self-terminate" its expression. The mutant mice show transient, limited expression of Atoh1 in all hair cells in the ear. In the organ of Corti, reduction and delayed deletion of Atoh1 result in progressive loss of almost all the inner hair cells and the majority of the outer hair cells within three weeks after birth. The remaining cells express hair cell marker Myo7a and attract nerve fibers, but do not differentiate normal stereocilia bundles. Some Myo7a-positive cells persist in the cochlea into adult stages in the position of outer hair cells, flanked by a single row of pillar cells and two to three rows of disorganized Deiters cells. Gene expression analyses of Atoh1, Barhl1 and Pou4f3, genes required for survival and maturation of hair cells, reveal earlier and higher expression levels in the inner compared to the outer hair cells. Our data show that Atoh1 is crucial for hair cell mechanotransduction development, viability, and maintenance and also suggest that Atoh1 expression level and duration may play a role in inner vs. outer hair cell development. These genetically engineered Atoh1 CKO mice provide a novel model for establishing critical conditions needed to regenerate viable and functional hair cells with Atoh1 therapy.
Learning to predict where to look in interactive environments using deep recurrent q-learning (2016)

Bottom-Up (BU) saliency models do not perform well in complex interactive environments where humans are actively engaged in tasks (e.g., sandwich making and playing the video games). In this paper, we leverage Reinforcement Learning (RL) to highlight task-relevant locations of input frames. We propose a soft attention mechanism combined with the Deep Q-Network (DQN) model to teach an RL agent how to play a game and where to look by focusing on the most pertinent parts of its visual input. Our evaluations on several Atari 2600 games show that the soft attention based model could predict fixation locations significantly better than bottom-up models such as Itti-Kochs saliency and Graph-Based Visual Saliency (GBVS) models.
Synthesis of [<sup>2</sup>H<sub>3</sub>]‐dextromethorphan and its major urinary metabolites [<sup>2</sup>H<sub>3</sub>]‐dextrorphan and [<sup>2</sup>H<sub>3</sub>]‐dextrorphan‐<i>β</i>‐glucuronide (2002)

Abstract Starting from dextromethorphan, [ 2 H 3 ]‐dextrorphan‐ β ‐glucuronide was synthesized in four steps with [ 2 H 3 ]‐dextromethorphan and [ 2 H 3 ]‐dextrorphan as intermediates with an overall yield of 11%. Copyright © 2002 John Wiley &amp; Sons, Ltd.
A spatial extension of CIELAB for digital color‐image reproduction (1997)

Abstract— We describe a spatial extension to the CIELAB color metric that is useful for measuring color reproduction errors of digital images. To compute the error, digital color images are spatially filtered using a pattern‐color separable method and then converted into the CIELAB representation. Over patterned regions of the image, the reproduction errors measured using the spatial extension of CIELAB correspond to perceived color errors better than errors computed without the spatial extension. Over uniform spatial regions of the image, errors computed with the extension are equal to errors computed using the standard CIELAB formulae.
Improved Success of Sparse Matrix Protein Crystallization Screening with Heterogeneous Nucleating Agents (2007)

Our results suggest that the addition of heterogeneous nucleating agents increases the chances of crystal formation when using sparse matrix screens.
Haemophilus influenzae type b polysaccharidetetanus protein conjugate vaccine does not depress serologic responses to diphtheria, tetanus or pertussis antigens when coadministered in the same syringe with diphtheria-tetanus-pertussis vaccine at two, four and six months of age (1993)

The safety and immunogenicity of a vaccine against Haemophilus influenzae type b consisting of purified polyribosylribitol phosphate conjugated to tetanus toxoid (PRP-T) were evaluated in 277 Chilean infants who were randomly assigned to one of three treatment groups: Group A, PRP-T mixed with diphtheria-tetanus-pertussis (DTP) vaccine in a single syringe and given as a single inoculation in one arm and placebo in the other arm; Group B, PRP-T given in one arm and DTP in the other arm; Group C, DTP given in one arm and placebo in the other. Infants were immunized at 2, 4 and 6 months of age and examined daily for 4 days after each immunization. Serum PRP antibodies; tetanus, diphtheria and pertussis antitoxin; pertussis agglutinins; and antibodies to Bordetella pertussis filamentous hemagglutinin were measured at baseline and 2 months after each dose. PRP-T was well-tolerated. After three doses of PRP-T vaccine 100% of infants attained PRP antibody concentrations > or = 0.15 micrograms/ml and 96 to 99% achieved high anti-PRP concentrations (> or = 1.0 micrograms/ml). The post-third dose anti-PRP geometric mean titer was high (6.94 micrograms/ml) in infants who were given PRP-T combined with DTP, although it was somewhat lower than the geometric mean titer of the group who received PRP-T in a separate arm (9.93 micrograms/ml) (P not significant).(ABSTRACT TRUNCATED AT 250 WORDS)
Laser Printing of Pluripotent Embryonal Carcinoma Cells (2004)

A technique by which to print patterns and multilayers of scaffolding and living cells could be used in tissue engineering to fabricate tissue constructs with cells, materials, and chemical diversity at the micron scale. We describe here studies using a laser forward transfer technology to print single-layer patterns of pluripotent murine embryonal carcinoma cells. This report focuses on verifying cell viability and functionality as well as the ability to differentiate cells after laser transfer. We find that when cells are printed onto model tissue scaffolding such as a layer of hydrogel, greater than 95% of the cells survive the transfer process and remain viable. In addition, alkaline comet assays were performed on transferred cells, showing minimal single-strand DNA damage from potential ultraviolet-cell interaction. We also find that laser-transferred cells express microtubular associated protein 2 after retinoic acid stimulus and myosin heavy chain protein after dimethyl sulfoxide stimulus, indicating successful neural and muscular pathway differentiation. These studies provide a foundation so that laser printing may next be used to build heterogeneous multilayer cellular structures, enabling cell growth and differentiation in heterogeneous three-dimensional environments to be uniquely studied.
Bisphosphonate metal complexes as selective inhibitors of Trypanosoma cruzi farnesyl diphosphate synthase (2012)

In the search for a pharmacological answer to treat Chagas disease, eight metal complexes with two bioactive bisphosphonates, alendronate (Ale) and pamidronate (Pam), were described. Complexes of the formula [M(2)(II)(Ale)(4)(H(2)O)(2)]·2H(2)O, with M = Cu, Co, Mn, Ni, and ([CuPam]·H(2)O)(n) as well as [M(II)(Pam)(2)(H(2)O)(2)]·3H(2)O, with M = Co, Mn and Ni, were synthesized and fully characterized. Crystal structure of [Cu(2)(II)(Ale)(4)(H(2)O)(2)]·2H(2)O, [Co(II)(Pam)(2)(H(2)O)(2)] and [Ni(II)(Pam)(2)(H(2)O)(2)] were solved by X-ray single crystal diffraction methods and the structures of [M(2)(II)(Ale)(4)(H(2)O)(2)]·2H(2)O complexes M = Co, Mn and Ni were studied by X-ray powder diffraction methods. All obtained complexes were active against the amastigote form of Trypanosoma cruzi (T. cruzi), etiological agent of Chagas disease. Most of them were more active than the corresponding free ligands showing no toxicity for mammalian cells. The main mechanism of the antiparasitic action of bisphosphonates, inhibition of parasitic farnesyl diphosphate synthase (TcFPPS), remains in the obtained metal complexes and an increase in the inhibiting enzyme levels was observed upon coordination. Observed enzymatic inhibition was selective for TcFPPS as the metal complexes showed no or little inhibition of human FPPS. Additionally, metal complexation might improve the bioavailability of the complexes through the hindrance of the phosphonate group's ionization at physiological pH and, eventually, through the ability of plasma proteins to work as complex transporters.
Role of Lipids in Virus Replication (2011)

Viruses intricately interact with and modulate cellular membranes at several stages of their replication, but much less is known about the role of viral lipids compared to proteins and nucleic acids. All animal viruses have to cross membranes for cell entry and exit, which occurs by membrane fusion (in enveloped viruses), by transient local disruption of membrane integrity, or by cell lysis. Furthermore, many viruses interact with cellular membrane compartments during their replication and often induce cytoplasmic membrane structures, in which genome replication and assembly occurs. Recent studies revealed details of membrane interaction, membrane bending, fission, and fusion for a number of viruses and unraveled the lipid composition of raft-dependent and -independent viruses. Alterations of membrane lipid composition can block viral release and entry, and certain lipids act as fusion inhibitors, suggesting a potential as antiviral drugs. Here, we review viral interactions with cellular membranes important for virus entry, cytoplasmic genome replication, and virus egress.
Relational Deep Reinforcement Learning (2018)

We introduce an approach for deep reinforcement learning (RL) that improves upon the efficiency, generalization capacity, and interpretability of conventional approaches through structured perception and relational reasoning. It uses self-attention to iteratively reason about the relations between entities in a scene and to guide a model-free policy. Our results show that in a novel navigation and planning task called Box-World, our agent finds interpretable solutions that improve upon baselines in terms of sample complexity, ability to generalize to more complex scenes than experienced during training, and overall performance. In the StarCraft II Learning Environment, our agent achieves state-of-the-art performance on six mini-games -- surpassing human grandmaster performance on four. By considering architectural inductive biases, our work opens new directions for overcoming important, but stubborn, challenges in deep RL.
VEGFR and Type-V RTK Activation and Signaling (2013)

Vascular endothelial growth factor receptors (VEGFRs) in vertebrates play essential roles in the regulation of angiogenesis and lymphangiogenesis. VEGFRs belong to the receptor-type tyrosine kinase (RTK) supergene family. They consist of a ligand-binding region with seven immunoglobulin (7 Ig) -like domains, a trans-membrane (TM) domain, and a tyrosine kinase (TK) domain with a long kinase insert (KI) (also known as a type-V RTK). Structurally, VEGFRs are distantly related to the members of the M-colony stimulating factor receptor/platelet-derived growth factor receptor (CSFR)/(PDGFR) family, which have five immunoglobulin (5 Ig)-like domains. However, signal transduction in VEGFRs significantly differs from that in M-CSFR/PDGFRs. VEGFR2, the major signal transducer for angiogenesis, preferentially uses the phospholipase Cγ-protein kinase C (PLC-γ-PKC)-MAPK pathway, whereas M-CSFR/PDGFRs use the PI3 kinase-Ras-MAPK pathway for cell proliferation. In phylogenetic development, the VEGFR-like receptor in nonvertebrates appears to be the ancestor of the 7 Ig- and 5 Ig-RTK families because most nonvertebrates have only a single 7 Ig-RTK gene. In mammals, VEGFRs are deeply involved in pathological angiogenesis, including cancer and inflammation. Thus, an efficient inhibitor targeting VEGFRs could be useful in suppressing various diseases.
Physics-based modeling of submicron GaN permeable base transistors (2002)

We present the first physics-based nonstationary modeling of a submicron GaN permeable base transistor. Three different transport models are compared: drift-diffusion, energy balance, and ensemble Monte Carlo. Transport parameters and relaxation times used by the carrier transport equations are consistently derived from particle simulation. The current-voltage (I-V) characteristics predicted with the energy balance model are in good agreement with those obtained from direct Monte Carlo device simulation. On the other hand, the drift-diffusion approach appears to be inadequate for the device under study, even if improved high-field mobility models are adopted.
Practical Digital Video Programming with Examples in C (1994)

From the Publisher:
Written by an innovator in motion video, this practical, user-friendly guide synthesizes all the vital elements of PC motion video technology in an accessible, nonmathematical way. It helps software developers gain a comprehensive working knowledge of video and multimedia programming. Requiring an essential understanding of electronics and PCs, the book includes twenty software examples with source code to demonstrate state-of-the-art technology and the use of commercial products. This unique resource details the differences between graphical and natural images, and the reasons for compressing image data; describes and compares various kinds of computer displays, including their suitability to natural video; explains various methods of color representation and their particular uses in multimedia; highlights major data compression techniques and their application in multimedia; discusses the full range of available video storage techniques; presents several PC video hardware systems and illustrates their effective use; covers two mainstream PC video environments - Microsoft Video for Windows and Apple Quicktime; spotlights the various ways of processing video information; and includes detailed references for major digital video standards and storage formats.
The Pathophysiology of Tumor Necrosis Factors (1992)

Exhausted CD8 T (Tex) cells are a distinct cell lineage that arise during chronic infections and cancers in animal models and humans. Tex cells are characterized by progressive loss of effector functions, high and sustained inhibitory receptor expression, ...Read More
Respiratory syncytial virus matures at the apical surfaces of polarized epithelial cells (1995)

Respiratory syncytial (RS) virus infects the epithelium of the respiratory tract. We examined the replication and maturation of RS virus in two polarized epithelial cell lines, Vero C1008 and MDCK. Electron microscopy of RS virus-infected Vero C1008 cells revealed the presence of pleomorphic viral particles budding exclusively from the apical surface, often in clusters. The predominant type of particle was filamentous, 80 to 100 nm in diameter, and 4 to 8 microns in length, and evidence from filtration studies indicated that the filamentous particles were infectious. Cytopathology produced by RS virus infection of polarized Vero C1008 cells was minimal, and syncytia were not observed, consistent with the maintenance of tight junctions and the exclusively apical maturation of the virus. Infectivity assays with MDCK cells confirmed that in this cell line, RS virus was released into the apical medium but not into the basolateral medium. In addition, the majority of the RS virus transmembrane fusion glycoprotein on the cell surface was localized to the apical surface of the Vero C1008 cells. Taken together, these results demonstrate that RS virus matures at the apical surface of polarized epithelial cell lines.
Magnetic Field of a Nerve Impulse: First Measurements (1980)

The magnetic field of the action potential from an isolated frog sciatic nerve was measured by a SQUID magnetometer with a novel room-temperature pickup coil. The 1.2 x 10(-10) tesla field was measured 1.3 millimeters from the nerve with a signal-to-noise ratio of 40 to 1.
Osteogenic induction by cell-free material from murine osteosarcoma and its cultured cell line. (1975)

A bone-inducing factor was detected in murine osteosarcoma and its cultured cells. The factor was partially purified from the osteosarcoma and its biological properties were examined. The ectopic formation of the bone with hematopoietic marrow was observed in situ histologically 4 weeks after inoculation of the cell-free material intramuscularly or subcutaneously. Non-osteogenic tumors do not produce this factor. This factor seems to be a protein which is relatively resistant to heating yet labile to mechanical shaking.
A Windowing Technique for Optimal Time-Frequency Concentration and ACI Rejection in OFDM-Based Systems (2015)

In this paper, we introduce a windowing technique, which provides optimal time-frequency containment and maximal adjacent channel interference (ACI) rejection for orthogonal frequency-division multiplexing (OFDM)-based systems. Instead of using a single pulse shape function for all subcarriers, multiple functions are considered in order to maximize the time-frequency containment of the OFDM waveform. The main strategy is to concentrate the spectrum of windowing functions into a given bandwidth while achieving maximum suppression in the out-of-band region. This is achieved by employing prolate-based windowing functions which give optimal spectral concentration for time-limited pulse shapes. The windowing functions are designed per-subcarrier basis in order to exploit available concentration band for each subcarrier. In addition, the proposed concept is considered for the receive filtering in the presence of ACI. It is shown that the optimal spectral concentration property also maximizes ACI rejection for OFDM receivers.
Top 10 Tech Cars It's The Environment, Stupid (2008)

This paper has described the carbon emission from vehicles and its impact on environmental factors in Europe. The author has considered that Europe is debating not whether to cut carbon emissions from vehicles but simply when to do it and by how much. The average new car on Europe's roads now emits roughly 160 grams of carbon dioxide per kilometer; the European Commission proposed last year to lower that to 130 g/km by 2012. But Europe's carmakers seem likely to have missed a voluntary 2008 target of 140 g/km. Biofuel is one of the reason making the environment black, according to one of the car maker. This paper has also explained the hurdles due to CO <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> emission in hybrid electric vehicles in some parts of the Asia.
Islet amyloid deposition limits the viability of human islet grafts but not porcine islet grafts (2010)

Islet transplantation is a promising treatment for diabetes but long-term success is limited by progressive graft loss. Aggregates of the beta cell peptide islet amyloid polypeptide (IAPP) promote beta cell apoptosis and rapid amyloid formation occurs in transplanted islets. Porcine islets are an attractive alternative islet source as they demonstrate long-term graft survival. We compared the capacity of transplanted human and porcine islets to form amyloid as an explanation for differences in graft survival. Human islets were transplanted into streptozotocin-diabetic immune-deficient mice. Amyloid deposition was detectable at 4 weeks posttransplantation and was associated with islet graft failure. More extensive amyloid deposition was observed after 8 weeks. By contrast, no amyloid was detected in transplanted neonatal or adult porcine islets that had maintained normoglycemia for up to 195 days. To determine whether differences in IAPP sequence between humans and pigs could explain differences in amyloid formation and transplant viability, we sequenced porcine IAPP. Porcine IAPP differs from the human sequence at 10 positions and includes substitutions predicted to reduce its amyloidogenicity. Synthetic porcine IAPP was considerably less amyloidogenic than human IAPP as determined by transmission electron microscopy, circular dichroism, and thioflavin T binding. Viability assays indicated that porcine IAPP is significantly less toxic to INS-1 beta cells than human IAPP. Our findings demonstrate that species differences in IAPP sequence can explain the lack of amyloid formation and improved survival of transplanted porcine islets. These data highlight the potential of porcine islet transplantation as a therapeutic approach for human diabetes.
Sensitivity of human pancreatic islets to peroxynitrite‐induced cell dysfunction and death (1996)

Nitric oxide and peroxynitrite (generated by the reaction of nitric oxide with the superoxide anion) may both be mediators of beta-cell damage in early insulin-dependent diabetes mellitus. We observed that acute exposure of primary cultured human pancreatic islets to peroxynitrite results in a significant decrease in glucose oxidation and islet retrieval. DNA strand breaks in single human and rat islet cells are detectable after acute peroxynitrite exposure, followed by a decrease in islet cell survival after 1 h and 24 h. Cell death appeared to occur via a toxic cell death mechanism (necrosis) rather than apoptosis, as suggested by vital staining and ultrastructural evidence of early membrane and organelle degradation, mitochondrial swelling and loss of matrix. This study demonstrates for the first time that cultured human pancreatic islets are susceptible to the noxious effects of peroxynitrite.
Ultrasound-Induced Site-Specific Cleavage of Azo-Functionalized Poly(ethylene glycol) (2005)

ADVERTISEMENT RETURN TO ISSUEPREVCommunication to the...Communication to the EditorNEXTUltrasound-Induced Site-Specific Cleavage of Azo-Functionalized Poly(ethylene glycol)Kimberly L. Berkowski, Stephanie L. Potisek, Charles R. Hickenboth, and Jeffrey S. MooreView Author Information The Department of Chemistry & The Beckman Institute for Advanced Science and Technology, The University of Illinois at UrbanaChampaign, Urbana, Illinois 61801 Cite this: Macromolecules 2005, 38, 22, 8975–8978Publication Date (Web):September 27, 2005Publication History Received29 June 2005Revised6 September 2005Published online27 September 2005Published inissue 1 November 2005https://pubs.acs.org/doi/10.1021/ma051394nhttps://doi.org/10.1021/ma051394nrapid-communicationACS PublicationsCopyright © 2005 American Chemical SocietyRequest reuse permissionsArticle Views7198Altmetric-Citations236LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-AlertscloseSupporting Info (1)»Supporting Information Supporting Information SUBJECTS:Bond cleavage,Crystal cleavage,Degradation,Polymers,Ultrasound Get e-Alerts