gebhart/patrepeval huggingface dataset:
Adaptive strip compression for panorama video streaming (2004)

In a traditional streaming system, the field of view (FOV) of an image is limited based on the FOV of the camera. One solution is the use of a pan/tilt camera, yet this is difficult for multiple clients to handle, plus there is a delay between the client and the server due to camera motion. Therefore, to solve these problems, a new streaming system is proposed that uses panorama image. However, the server does not compress the whole panorama image, which would involve sending huge amounts of data through the Internet. Instead, only parts of the panorama image are compressed and transmitted based on the navigation requests of the client, thereby reducing the compression burden on the server
Towards transparent electronics: fabrication of an organic transistor with a wide bandgap polymer (2011)

We have fabricated organic thin film transistors (OTFTs) with a solution process by utilizing a novel wide bandgap conjugated polymer poly(N-(4-(9,9-dioctyl-fluoren-2-yl)phenyl)-N,N′,N′-triphenyl-l,4-phenylenediamine) (P1) as the active channel material. The transistor was constituted with a bottom-gate configuration, in which P1 was deposited on the substrate, SiO2 insulator served as the gate dielectric material and Ti/Au were used as the electrodes. The hole-transporting properties of the transistor were examined by analyzing the current–voltage (I–V) characteristics. The carrier mobility was 0.95 × 10−2 cm2 V−1 s−1 and the on/off current ratio was about 5.8 × 104. Moreover, the thin film of the novel polymer P1 exhibits very high transparency for visible light since the bandgap of P1 is 2.84 eV. The excellent electrical properties of the P1 based transistor and the nature of the high transparency of such a polymer suggest that the novel polymer P1 can potentially serve as a superior material for transparent organic electronics.
Selective, high efficiency reduction of CO2 in a non-diaphragm-based electrochemical system at low applied voltage (2014)

Electrochemical CO<sub>2</sub> reduction in a diaphragm-less cell selectively afforded CH<sub>4</sub> and H<sub>2</sub> in methanolic NaOH and KOH electrolytes, respectively.
c-Kit Is Suppressed in Human Colon Cancer Tissue and Contributes to L1-Mediated Metastasis (2013)

The transmembrane neural cell adhesion receptor L1 is a Wnt/β-catenin target gene expressed in many tumor types. In human colorectal cancer, L1 localizes preferentially to the invasive front of tumors and when overexpressed in colorectal cancer cells, it facilitates their metastasis to the liver. In this study, we investigated genes that are regulated in human colorectal cancer and by the L1-NF-κB pathway that has been implicated in liver metastasis. c-Kit was the most highly suppressed gene in both colorectal cancer tissue and the L1-NF-κB pathway. c-Kit suppression that resulted from L1-mediated signaling relied upon NF-κB, which directly inhibited the transcription of SP1, a major activator of the c-Kit gene promoter. Reconstituting c-Kit expression in L1-transfected cells blocked the biological effects conferred by L1 overexpression in driving motility and liver metastasis. We found that c-Kit expression in colorectal cancer cells is associated with a more pronounced epithelial morphology, along with increased expression of E-cadherin and decreased expression of Slug. Although c-Kit overexpression inhibited the motility and metastasis of L1-expressing colorectal cancer cells, it enhanced colorectal cancer cell proliferation and tumorigenesis, arguing that separate pathways mediate tumorigenicity and metastasis by c-Kit. Our findings provide insights into how colorectal cancer metastasizes to the liver, the most common site of dissemination in this cancer.
Demand Response Architecture: Integration into the Distribution Management System (2010)

Demand Response (DR) refers to actions taken by the utility to respond to a shortage of supply for a short duration of time in the future. DR is one of the enablers of the Smart Grid paradigm as it promotes interaction and responsiveness of the customers and changes the grid from a vertically integrated structure to one that is affected by the behavior of the demand side. In Principle, it is possible to perform DR at the substation level for the customers connected to the feeders downstream or at the demand response service provider (aggregator) for the customers under its territory. This would allow for an area based solution driven mostly by the financial aspects as well as terms and conditions of the mutual agreements between the individual customers and the utility. However, as the penetration of DR increases, incorporating the network model into the DR analysis algorithm becomes necessary. This ensures the proper performance of the DR process and achieves peripheral objectives in addition to achieving the target demand reduction. The added value to the DR algorithm by incorporating the model of the distribution network can only be realized if the engine is developed as an integrated function of the Distribution Management System (DMS) at the network control center level. This paper focuses on the demand response architecture implemented at the DMS level and discusses some practical considerations associated with this approach.
Response to Letter Regarding Article, “Biological Basis of Therapeutic Lymphangiogenesis” (2011)

We would like to thank Dr Toska for pointing out an inaccuracy pertaining to Figure According to current view, there is very little reabsorption in the venules simply because the tissue forces, which were not considered in the initial experiments by Landis and Pappenheimer, would prevent such a continuous process (reviewed in Levick and Michel 2 ). Fresh lines of evidence suggest that the lymphatic vessels have a much more important role in the absorption of interstitial fluid in most tissues than previously thought (reviewed in Wiig 3 ). In fact, it seems that most of the filtrate is cleared by the lymphatic vessels, which are the focus of our review. Most likely, fluid is transported by a pressure gradient in the interstitium to the next available lymphatic, 2 which is not surprising, considering how aptly lymphatic vessels absorb fluid and proteins unselectively by bulk flow from the interstitial space (as opposed to the venules, which have considerably tighter walls and higher hydrostatic pressure). We have now corrected our online article accordingly, including Figure
Nucleotide and Nucleoside Analogues as Inhibitors of Cytosolic 5‘-Nucleotidase I from Heart (1998)

Substrate and product specificity studies were used to develop inhibitors of the cytosolic 5‘-nucleotidase I (c-N-I) from myocardium. As measured by Vmax/Km, c-N-I preferred pyrimidine 2‘-deoxyribonucleotides as substrates with thymidine monophosphate (TMP) being the most efficient. In product inhibition studies, thymidine inhibited noncompetitively and inorganic phosphate inhibited competitively, consistent with an ordered release of nucleoside prior to phosphate. Mirroring nucleotide substrate specificities, pyrimidine nucleosides were more potent product inhibitors than purine nucleosides. Thus, pyrimidine nucleotide and nucleoside analogues were developed as inhibitors. Phosphonate analogues of TMP were synthesized by a novel method. The most potent was the 5‘-phosphonate of 3‘-deoxythymidine (ddT) (apparent Ki value of 63 nM). In addition, pyrimidine nucleoside analogues were inhibitors with 5-ethynyl-2‘,3‘-dideoxyuridine being the most potent (apparent Ki value of 3.7 μM). The most potent nucleotide and nucleoside inhibitor were both greater than 1000-fold more potent inhibiting c-N-I than the cytosolic 5‘-nucleotidase II. The nucleoside analogue was also greater than 1000-fold more potent against c-N-I than the membrane ecto-5‘-nucleotidase (e-N). Because the phosphonate analogues measurably inhibited e-N (apparent Ki values of 6−12 μM), the selectivity of the phosphonates for c-N-I versus e-N was less (40−200-fold). Because of the high selectivity for c-N-I versus both of the other 5‘-nucleotidases, the nucleoside inhibitors of c-N-I may be useful biochemical tools in discerning the role that c-N-I plays in generating adenosine within myocardium.
Preparation and Characterization of Conjugated Polymers Made by Postpolymerization Reactions of Alternating Polyketones (2011)

Conjugated polymers possessing a poly(2,5-dimethylene-2,5-dihydrofuran) backbone were prepared through postpolymerization reaction of styrenic polyketones with bromine in one-pot reactions. The modification is proposed to proceed via condensation of two repeating units to form a fully characterized polymer with a poly(2,5-dimethylenetetrahydrofuran) backbone. Subsequent bromination and elimination of HBr yield a polymer with a fully conjugated carbon backbone. The new conjugated polymers were characterized by NMR, IR, and UV-vis spectroscopies and by CV. These polymers have strong absorption in the visible region, with the absorption peaks shifted to the NIR region upon doping with acids. The ease of the synthesis of the starting polyketone and of the modifications allows large-scale preparation of those conjugated polymers.
An experimental multilingual speech translation system (2001)

In this paper, we describe an experimental speech translation system utilizing small, PC-based hardware with multi-modal user interface. Two major problems for people using an automatic speech translation device are speech recognition errors and language translation errors. In this paper we focus on developing techniques to overcome these problems. The techniques include a new language translation approach based on example sentences, simplified expression rules, and a multi-modal user interface which shows possible speech recognition candidates retrieved from the example sentences. Combination of the proposed techniques can provide accurate language translation performance even if the speech recognition result contains some errors. We propose to use keyword classes by looking at the dependency between keywords to detect the misrecognized keywords and to search the example expressions. Then, the suitable example expression is chosen using a touch panel or by pushing buttons. The language translation picks up the expression in the other language, which should always be grammatically correct. Simplified translated expressions are realized by speech-act based simplifying rules so that the system can avoid various redundant expressions. A simple comparison study showed that the proposed method outputs almost 2 to 10 times faster than a conventional translation device.
A new conceptual paradigm for the haemodynamics of salt‐sensitive hypertension: a mathematical modelling approach (2012)

A conceptually novel mathematical model of neurogenic angiotensin II-salt hypertension is developed and analysed. The model consists of a lumped parameter circulatory model with two parallel vascular beds; two distinct control mechanisms for both natriuresis and arterial resistances can be implemented, resulting in four versions of the model. In contrast with the classical Guyton-Coleman model (GC model) of hypertension, in the standard version of our new model natriuresis is assumed to be independent of arterial pressure and instead driven solely by sodium intake; arterial resistances are driven by increased sympathetic nervous system activity in response to the elevated plasma angiotensin II and increased salt intake (AngII-salt). We compare the standard version of our new model against a simplified Guyton-Coleman model in which natriuresis is a function of arterial pressure via the pressure-natriuresis mechanism, and arterial resistances are controlled via the whole-body autoregulation mechanism. We show that the simplified GC model and the new model correctly predict haemodynamic and renal excretory responses to induced changes in angiotensin II and sodium inputs. Importantly, the new model reproduces the pressure-natriuresis relationship--the correlation between arterial pressure and sodium excretion--despite the assumption of pressure-independent natriuresis. These results show that our model provides a conceptually new alternative to Guyton's theory without contradicting observed haemodynamic changes or pressure-natriuresis relationships. Furthermore, the new model supports the view that hypertension need not necessarily have a renal aetiology and that long-term arterial pressure could be determined by sympathetic nervous system activity without involving the renal sympathetic nerves.
Reagentless Oxidative Folding of Disulfide‐Rich Peptides Catalyzed by an Intramolecular Diselenide (2012)

Building bridges: In cysteine-rich peptides, diselenides can be used as a proxy for disulfide bridges as the energetic preference for SeSe bonds over mixed SeS bonds simplifies folding (see picture). An intramolecular diselenide bond efficiently catalyzes the oxidative folding of selenopeptide analogues of conotoxins, and serves as a reagentless method to accelerate formation of various native disulfide bridging patterns.
Cellular Response of Shewanella oneidensis to Strontium Stress (2006)

The physiology and transcriptome dynamics of the metal ion-reducing bacterium Shewanella oneidensis strain MR-1 in response to nonradioactive strontium (Sr) exposure were investigated. Studies indicated that MR-1 was able to grow aerobically in complex medium in the presence of 180 mM SrCl2 but showed severe growth inhibition at levels above that concentration. Temporal gene expression profiles were generated from aerobically grown, mid-exponential-phase MR-1 cells shocked with 180 mM SrCl2 and analyzed for significant differences in mRNA abundance with reference to data for nonstressed MR-1 cells. Genes with annotated functions in siderophore biosynthesis and iron transport were among the most highly induced (>100-fold [P < 0.05]) open reading frames in response to acute Sr stress, and a mutant (SO3032::pKNOCK) defective in siderophore production was found to be hypersensitive to SrCl2 exposure, compared to parental and wild-type strains. Transcripts encoding multidrug and heavy metal efflux pumps, proteins involved in osmotic adaptation, sulfate ABC transporters, and assimilative sulfur metabolism enzymes also were differentially expressed following Sr exposure but at levels that were several orders of magnitude lower than those for iron transport genes. Precipitate formation was observed during aerobic growth of MR-1 in broth cultures amended with 50, 100, or 150 mM SrCl2 but not in cultures of the SO3032::pKNOCK mutant or in the abiotic control. Chemical analysis of this precipitate using laser-induced breakdown spectroscopy and static secondary ion mass spectrometry indicated extracellular solid-phase sequestration of Sr, with at least a portion of the heavy metal associated with carbonate phases.
Transient elastography (2010)

In clinical practice, it is important to assess the severity of liver fibrosis in patients with various liver diseases to determine the prognosis, decide treatment, and monitor disease progression and response to treatment. Liver biopsy is limited by its invasiveness and patient acceptability. The development of transient elastography provides clinicians with a non-invasive, accurate, and reproducible tool to estimate liver fibrosis. The technique has been validated among many liver diseases and requires only simple training. Due to its non-invasive nature and ease of use, transient elastography can be used repeatedly on patients, and is optimal for large-scale epidemiological studies, in which stable patients with no indication for liver biopsy can also be included. However, falsely-high liver stiffness measurements might occur during acute hepatitis, extrahepatic cholestasis, congestive heart failure, and amyloidosis. Failed acquisition is also common in obese patients. The development of S and XL probes might cater for different population groups, but calibration in patients with liver biopsy is essential.
Isolation of Mycobacterium avium Subspecies paratuberculosis Reactive CD4 T Cells from Intestinal Biopsies of Crohn's Disease Patients (2009)

The presence of MAP reactive T cells with a Th1 or Th1/Th17 phenotype may suggest a possible role of mycobacteria in the inflammation seen in CD. The isolation of intestinal T cells followed by characterization of their specificity is a valuable tool to study the relative importance of different bacteria in CD.
Extracellular matrix derived from chondrocytes promotes rapid expansion of human primary chondrocytes in vitro with reduced dedifferentiation (2018)

A significant expansion of autologous chondrocytes in vitro is required for cell-based cartilage repair. However, the in vitro expansion of chondrocytes under standard culture conditions inevitably leads to the dedifferentiation of chondrocytes and contributes to suboptimal clinical outcomes. To address this challenge, we focused our efforts on developing an improved in vitro expansion protocol, which shortens the expansion time with decreased dedifferentiation. It is known that the tissue microenvironment plays a critical role in regulating the cellular functions of resident cells and provides guidance in tissue-specific regeneration. We hypothesized that chondrocyte extracellular matrix (ECM) mimics a native microenvironment and that it may support chondrocyte expansion in vitro. To test this hypothesis, we prepared decellularized ECMs from allogeneic human articular chondrocytes (HAC) (AC-ECM) and bone marrow stromal cells (BM-ECM) and studied their effects on the in vitro expansion of primary HAC. The differential composition and physical properties of these two ECMs were revealed by mass spectrometry and atomic force microscopy. Compared with standard tissue culture polystyrene (TCP) or BM-ECM, HAC cultured on AC-ECM proliferated faster and maintained the highest ratio of COL2A1/COL1A1. Furthermore, a pellet culture study demonstrated that cells expanded on AC-ECM produced a more cartilage-like ECM than cells expanded on BM-ECM or TCP. This is the first report on modulating chondrocyte expansion and dedifferentiation using cell type-specific ECM and on identifying AC-ECM as a preferred substrate for in vitro expansion of HAC cell-based therapies. STATEMENT OF SIGNIFICANCE: To reduce the dedifferentiation of chondrocytes during in vitro expansion, cell type-specific extracellular matrix (ECM), which mimics a native microenvironment, was prepared from human articular chondrocytes (AC-ECM) or bone marrow stromal cells (BM-ECM). As demonstrated by mass spectrometry and atomic force microscopy, AC-ECM and BM-ECM have differential ECM compositions and physical characteristics. Human articular chondrocytes (HAC) expanded faster and maintained a better chondrocyte phenotype on AC-ECM than on BM-ECM or a standard culture surface. AC-ECM has potential to be developed for expanding HAC for cell-based therapies.
The human myc gene family: structure and activity of L-myc and an L-myc pseudogene. (1987)

We have determined the nucleotide sequence and transforming activity of the human L-myc gene and a processed L-myc pseudogene (L-myc psi). We demonstrate by cotransformation assays that a 10.6-kb EcoRI fragment derived from a human placental library contains a complete and functional L-myc gene including transcriptional regulatory sequences sufficient for expression in rat embryo fibroblasts. Organization of the L-myc gene was determined by comparing its sequence to those of the L-myc psi gene and an L-myc cDNA clone derived from a human small cell lung carcinoma. Our results show that L-myc has a three-exon organization similar to that of the c-myc and N-myc genes. The putative L-myc gene product consists of 364 amino acids and contains five of the seven homology regions highly conserved between c-myc and N-myc. These conserved regions are located along the entire length of the putative L-myc protein and are interspersed among nonconserved regions. While the putative L-myc gene product is of a smaller size when compared to the c- and N-myc proteins, the relative positions of certain conserved residues occur in corresponding locations along the peptide backbone of the three proteins. In addition, comparison of the human and murine L-myc gene sequences indicate that the relatively large 5' and 3' untranslated regions are evolutionarily conserved, but that these sequences are totally divergent between the L-, c-, and N-myc genes. Finally, we demonstrate that, like the N- and c-myc genes, the L-myc gene can cooperate with a mutant Ha-ras gene to cause malignant transformation of rat embryo fibroblasts in culture. Our analyses clearly prove that L-myc represents a functional member of the myc oncogene family and further delineate structural features that may be important for the common and divergent functions of the members of this gene family.
An implantable microdevice to perform high-throughput in vivo drug sensitivity testing in tumors (2015)

Current anticancer chemotherapy relies on a limited set of in vitro or indirect prognostic markers of tumor response to available drugs. A more accurate analysis of drug sensitivity would involve studying tumor response in vivo. To this end, we have developed an implantable device that can perform drug sensitivity testing of several anticancer agents simultaneously inside the living tumor. The device contained reservoirs that released microdoses of single agents or drug combinations into spatially distinct regions of the tumor. The local drug concentrations were chosen to be representative of concentrations achieved during systemic treatment. Local efficacy and drug concentration profiles were evaluated for each drug or drug combination on the device, and the local efficacy was confirmed to be a predictor of systemic efficacy in vivo for multiple drugs and tumor models. Currently, up to 16 individual drugs or combinations can be assessed independently, without systemic drug exposure, through minimally invasive biopsy of a small region of a single tumor. This assay takes into consideration physiologic effects that contribute to drug response by allowing drugs to interact with the living tumor in its native microenvironment. Because these effects are crucial to predicting drug response, we envision that these devices will help identify optimal drug therapy before systemic treatment is initiated and could improve drug response prediction beyond the biomarkers and in vitro and ex vivo studies used today. These devices may also be used in clinical drug development to safely gather efficacy data on new compounds before pharmacological optimization.
Multi-modal imaging of histological tissue sections (2008)

Two common imaging modalities for histological sections are brightfield and fluorescence microscopy imaging. Hematoxylin-Eosin (H&E) based brightfield microscopy has been the traditional imaging technique for imaging morphology, while an epi-fluorescent microscope is used for immunofluorescent staining of specific proteins or fluorescent in situ hybridization (FISH) for genetic based analysis of DNA. Simultaneous imaging of both microscopy modalities has been difficult due to optical and chemical effects of the H&E dyes. We present a novel sequential imaging and registration technique that enables brightfield and fluorescent imaging on the same tissue section, hence combining the traditional anatomic pathology with the newly emerging field of molecular pathology. First the tissue is labeled with fluorescent biomarkers, and imaged through a fluorescence microscope, and then the tissue is re-labeled with H&E dyes, and imaged again with traditional brightfield. Our robust registration algorithms achieve 99.8% registration success rate on tissue micro array (TMA) sections.