gebhart/patrepeval huggingface dataset:
Next-Generation Performance Counters: Towards Monitoring Over Thousand Concurrent Events (2008)

We present a novel performance monitor architecture, implemented in the Blue Gene/P™ supercomputer. This performance monitor supports the tracking of a large number of concurrent events by using a hybrid counter architecture. The counters have their low order data implemented in registers which are concurrently updated, while the high order counter data is maintained in a dense SRAM array that is updated from the registers on a regular basis. The per formance monitoring architecture includes support for per- event thresholding and fast event notification, using a two- phase interrupt-arming and triggering protocol. A first implementation provides 256 concurrent 64b counters which offers an up to 64x increase in counter number compared to performance monitors typically found in microprocessors today, and thereby dramatically expands the capabilities of counter-based performance tuning.
Sensitive Wavelength Dependence of PdC And Pd Formation from Photolysis of Bis(hexafluoroacetylacetonato)palladium(II) (2000)

ADVERTISEMENT RETURN TO ISSUEPREVCommunicationNEXTADDITION / CORRECTIONThis article has been corrected. View the notice.Sensitive Wavelength Dependence of PdC And Pd Formation from Photolysis of Bis(hexafluoroacetylacetonato)palladium(II)Peter Muraoka, Daniel Byun, and Jeffrey I. ZinkView Author Information Department of Chemistry and Biochemistry University of California, Los Angeles, California 90095 Cite this: J. Am. Chem. Soc. 2000, 122, 6, 1227–1228Publication Date (Web):January 29, 2000Publication History Received27 September 1999Published online29 January 2000Published inissue 1 February 2000https://pubs.acs.org/doi/10.1021/ja993476vhttps://doi.org/10.1021/ja993476vrapid-communicationACS PublicationsCopyright © 2000 American Chemical SocietyRequest reuse permissionsArticle Views179Altmetric-Citations11LEARN 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-Alertsclose SUBJECTS:Ions,Molecules,Palladium,Quantum mechanics,Resonance structures Get e-Alerts
RF Transceivers for Wireless Applications (2012)

This chapter contains sections titled: Transmitter Architectures Cartesian Transmitters Constant-Envelope Transmitters Using Phase Modulated Loops Polar Transmitters Case Studies References
Experimentally Validated Reconstruction and Analysis of a Genome-Scale Metabolic Model of an Anaerobic Neocallimastigomycota Fungus (2021)

Anaerobic gut fungi in the phylum Neocallimastigomycota typically inhabit the digestive tracts of large mammalian herbivores, where they play an integral role in the decomposition of raw lignocellulose into its constitutive sugar monomers. However, quantitative tools to study their physiology are lacking, partially due to their complex and unresolved metabolism that includes the largely uncharacterized fungal hydrogenosome. Modern omics approaches combined with metabolic modeling can be used to establish an understanding of gut fungal metabolism and develop targeted engineering strategies to harness their degradation capabilities for lignocellulosic bioprocessing. Here, we introduce a high-quality genome of the anaerobic fungus <i>Neocallimastix lanati</i> from which we constructed the first genome-scale metabolic model of an anaerobic fungus. Relative to its size (200 Mbp, sequenced at 62× depth), it is the least fragmented publicly available gut fungal genome to date. Of the 1,788 lignocellulolytic enzymes annotated in the genome, 585 are associated with the fungal cellulosome, underscoring the powerful lignocellulolytic potential of <i>N. lanati</i> The genome-scale metabolic model captures the primary metabolism of <i>N. lanati</i> and accurately predicts experimentally validated substrate utilization requirements. Additionally, metabolic flux predictions are verified by <sup>13</sup>C metabolic flux analysis, demonstrating that the model faithfully describes the underlying fungal metabolism. Furthermore, the model clarifies key aspects of the hydrogenosomal metabolism and can be used as a platform to quantitatively study these biotechnologically important yet poorly understood early-branching fungi.<b>IMPORTANCE</b> Recent genomic analyses have revealed that anaerobic gut fungi possess both the largest number and highest diversity of lignocellulolytic enzymes of all sequenced fungi, explaining their ability to decompose lignocellulosic substrates, e.g., agricultural waste, into fermentable sugars. Despite their potential, the development of engineering methods for these organisms has been slow due to their complex life cycle, understudied metabolism, and challenging anaerobic culture requirements. Currently, there is no framework that can be used to combine multi-omic data sets to understand their physiology. Here, we introduce a high-quality PacBio-sequenced genome of the anaerobic gut fungus <i>Neocallimastix lanati</i> Beyond identifying a trove of lignocellulolytic enzymes, we use this genome to construct the first genome-scale metabolic model of an anaerobic gut fungus. The model is experimentally validated and sheds light on unresolved metabolic features common to gut fungi. Model-guided analysis will pave the way for deepening our understanding of anaerobic gut fungi and provides a systematic framework to guide strain engineering efforts of these organisms for biotechnological use.
Activated Notch1 Modulates Gene Expression in B Cells Similarly to Epstein-Barr Viral Nuclear Antigen 2 (2000)

Both Epstein-Barr viral nuclear antigen 2 (EBNA2) and activated Notch transactivate genes by interacting with the transcription factor RBP-Jkappa. The viral protein EBNA2 may hence be regarded as a functional equivalent of an activated Notch receptor. Until now, nothing has been known about the physiological role of Notch signaling in B cells. Here we investigated whether activated Notch can induce the same phenotypic changes as EBNA2 in Burkitt's lymphoma cells. An estrogen receptor fusion protein of the intracellular part of mouse Notch 1 (mNotch1-IC), mimicking in the presence of estrogen a constitutively active Notch receptor, was stably transfected into the Burkitt's lymphoma cell lines BL41-P3HR1 and HH514. Northern blot analysis revealed that the LMP2A gene is induced by Notch-IC in the presence of estrogen, whereas increased expression of LMP1 could be detected only if cycloheximide was simultaneously added. Concerning the cellular genes regulated by EBNA2, Notch-IC was able to upregulate CD21 but not CD23 expression. Immunoglobulin mu (Igmu) expression, which is downregulated by EBNA2, was also negatively regulated by Notch-IC. Similarly to EBNA2, Notch-IC was able to repress c-myc expression, which is under the control of the immunoglobulin heavy-chain locus in Burkitt's lymphoma cells with a t(8;14) translocation. The data show that Notch-IC is able to participate in gene regulation in B cells.
Alteration of the bZIP60/IRE1 Pathway Affects Plant Response to ER Stress in Arabidopsis thaliana (2012)

The Unfolded Protein Response (UPR) is elicited under cellular and environmental stress conditions that disrupt protein folding in the endoplasmic reticulum (ER). Through the transcriptional induction of genes encoding ER resident chaperones and proteins involved in folding, the pathway contributes to alleviating ER stress by increasing the folding capacity in the ER. Similarly to other eukaryotic systems, one arm of the UPR in Arabidopsis is set off by a non-conventional splicing event mediated by ribonuclease kinase IRE1b. The enzyme specifically targets mature bZIP60 RNA for cleavage, which results in a novel splice variant encoding a nuclear localized transcription factor. Although it is clear that this molecular switch widely affects the transcriptome, its exact role in overall plant response to stress has not been established and mutant approaches have not provided much insight. In this study, we took a transgenic approach to manipulate the pathway in positive and negative fashions. Our data show that the ER-resident chaperone BiP accumulates differentially depending on the level of activation of the pathway. In addition, phenotypes of the transgenic lines suggest that BiP accumulation is positively correlated with plant tolerance to chronic ER stress.
ChemInform Abstract: SYNTH. EINIGER LOKALANAESTHETICA (1970)

Abstract 2‐Amino‐benzothiazole (I) wurden mit Chloracetylchlorid zu (II) und weiter mit Morpholin zu (III) substituiert.
Low-phase-noise, single-frequency, single-mode 608 W thulium fiber amplifier (2009)

A chain of four Tm-doped fibers amplified a single-frequency, 2040 nm diode laser to 608 W with M(2)=1.05+/-0.03, limited by available pump power. Stimulated Brillouin scattering limits were investigated by splicing different lengths of passive fiber to the output of the final amplifier stage. Integrated rms phase noise above 1 kHz was less than lambda/30, suggesting the possibility of further scaling via coherent beam combining. To our knowledge, this is the highest power obtained from any single-frequency, single-mode fiber laser.
Diarylurea Compounds Inhibit Caspase Activation by Preventing the Formation of the Active 700-Kilodalton Apoptosome Complex (2003)

The release of mitochondrial proapoptotic proteins into the cytosol is the key event in apoptosis signaling, leading to the activation of caspases. Once in the cytosol, cytochrome c triggers the formation of a caspase-activating protein complex called the apoptosome, whereas Smac/Diablo and Omi/htra2 antagonize the caspase inhibitory effect of inhibitor of apoptosis proteins (IAPs). Here, we identify diarylurea compounds as effective inhibitors of the cytochrome c-induced formation of the active, approximately 700-kDa apoptosome complex and caspase activation. Using diarylureas to inhibit the formation of the apoptosome complex, we demonstrated that cytochrome c, rather than IAP antagonists, is the major mitochondrial caspase activation factor in tumor cells treated with tumor necrosis factor. Thus, we have identified a novel class of compounds that inhibits apoptosis by blocking the activation of the initiator caspase 9 by directly inhibiting the formation of the apoptosome complex. This mechanism of action is different from that employed by the widely used tetrapeptide inhibitors of caspases or known endogenous apoptosis inhibitors, such as Bcl-2 and IAPs. Thus, these compounds provide a novel specific tool to investigate the role of the apoptosome in mitochondrion-dependent death paradigms.
Consequences of Periodic α-to-β3 Residue Replacement for Immunological Recognition of Peptide Epitopes (2015)

Oligomers that contain both α- and β-amino acid residues, or "α/β-peptides", have emerged as promising mimics of signal-bearing polypeptides that can inhibit or augment natural protein-protein interactions. α/β-Peptides that contain a sufficient proportion of β residues evenly distributed along the sequence can be highly resistant to enzymatic degradation, which is favorable with regard to in vivo applications. Little is known, however, about recognition of α/β-peptides by the immune system. Prior studies have focused almost entirely on examples that contain a single β residue; such α/β-peptides frequently retain the immunological profile of the analogous α-peptide. We have conducted α-peptide vs α/β-peptide comparisons involving higher β residue content, focusing on molecules with αααβ and ααβαααβ backbone repeat patterns. Among analogues of an 18-mer derived from the Bim BH3 domain and an 8-mer derived from secreted phospholipase-2 (sPLA2), we find that recognition by antibodies raised against the prototype α-peptide is suppressed by periodic α → β replacements. Complementary studies reveal that antibodies raised against Bim BH3- or sPLA2-derived α/β-peptides fail to recognize prototype α-peptides displaying identical side chain repertoires. Because polypeptides containing d-α-amino acid residues are of growing interest for biomedical applications, we included the enantiomer of the sPLA2-derived α-peptide in these studies; this d-peptide is fully competent as a hapten, but the resulting antibodies do not cross react with the enantiomeric peptide. Among analogues of the 9-mer CD8(+) T-cell viral epitope GP33, we observe that periodic α → β replacements suppress participation in the MHC I + peptide + T-cell receptor ternary complexes that activate cytotoxic T-lymphocytes, due in part to disruption of MHC binding.
Robust digit recognition using phase-dependent time-frequency masking (2003)

A technique using the time-frequency phase information of two microphones is proposed to estimate an ideal time-frequency mask using time-delay-of-arrival (TDOA) of the signal of interest. At a signal-to-noise ratio (SNR) of 0 dB, the proposed technique using two microphones achieves a digit recognition rate (average over 5 speakers, each speaking 20-30 digits) of 71%. In contrast, delay-and-sum beamforming only achieves a 40% recognition rate with two microphones and 60% with four microphones. Superdirective beamforming achieves a 44% recognition rate with two microphones and 65% with four microphones.
Outcomes of Acellular Dermal Matrix for Immediate Tissue Expander Reconstruction with Radiotherapy (2014)

PURPOSE: Despite increasing literature support for the use of acellular dermal matrix (ADM) in expander based breast reconstruction, its effect on clinical outcomes in the presence of radiation therapy (RT) has not been well described. METHODS: A retrospective review of a prospectively maintained database was performed of consecutive patients who underwent immediate tissue expander (ITE) breast reconstruction from 2004 to present at the University of Texas M.D. Anderson Cancer Center. Patients were categorized into four cohorts: acellular dermal matrix (ADM), ADM with radiation therapy (RT), total muscle coverage (TMC) with RT, TMC without RT. Indications, comorbidities, surgical technique, and complications were evaluated. Primary outcomes included: explantation, seroma, infection, skin necrosis, and delayed wound healing. Univariate and multivariate regression models were used to analyze for potential confounding variables. RESULTS: 1376 patients underwent ITE reconstruction. 683 patients non-ADM, 113 non-ADM with RT, 486 ADM, and 88 ADM with RT. Overall complication rate between ADM and TMC cohorts were 39% and 16.7% respectively (p <0.001). Within both cohorts, mastectomy skin necrosis was the most common complication, followed by infection. Infections occurred more frequently, and were more severe within the ADM cohort (11.5% and 15.9 versus 3.7% and 11.5%, p < 0.001). Incidence of seroma tended to be higher in the ADM cohort and highest within patients that did receive RT when compared to non-ADM (13.6 %versus 10.9% p >0.001). Incidence of explantation was highest in the no-ADM group overall, and highest in non-ADM with RT when compared to the ADM group (20.4% vs11.4%, p = 0.0012). CONCLUSIONS: While overall complication rate, as well as incidence of infection and seroma appears to be higher in the patients undergoing ITE with ADM and RT; if recognized and appropriately treated the expander reconstruction is often salvaged. In fact, the use of ADM, appears to play a protective role in preventing the need for re-operations and potentially explantations in patients undergoing RT.
Protection against oxidation of internal cooling passageways in turbine blades and vanes (1998)

The new generation of advanced gas turbines used for power generation require on the highly stressed blades a protective layer applying to the internal cooling passageways. This layer must protect the underlying substrate against high temperature oxidation. Without this protection surface degradation of the alloy would occur causing it to weaken significantly. This paper describes a technique used to apply such a protective coating using chemical vapor deposition. Results obtained from applying this coating to two different turbine blade configurations are presented and discussed.
A synthetically useful conversion of benzoic acid derivatives to 4-alkylphenols and 4-alkyl-3-carbalkoxyphenols (1987)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTA synthetically useful conversion of benzoic acid derivatives to 4-alkylphenols and 4-alkyl-3-carbalkoxyphenolsArthur G. Schultz, Roger E. Harrington, Mark Macielag, Parag G. Mehta, and Arthur G. TaverasCite this: J. Org. Chem. 1987, 52, 24, 5482–5484Publication Date (Print):November 1, 1987Publication History Published online1 May 2002Published inissue 1 November 1987https://pubs.acs.org/doi/10.1021/jo00233a039https://doi.org/10.1021/jo00233a039research-articleACS PublicationsRequest reuse permissionsArticle Views252Altmetric-Citations17LEARN 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-Alertsclose Get e-Alerts
Adaptive HARQ and scheduling for video over LTE (2013)

This paper proposes a cross-layer approach to the delivery of real-time video streams over LTE cellular systems. The objective is to maximally improve video quality by adapting the wireless system (specifically, HARQ retransmission and scheduling rules) to video packet importance. Complying with the LTE framework, video packets are given priorities and assigned to different radio bearers or logical channels based on their importance. Applicable to both uplink (UL) and downlink (DL), the adaptive HARQ minimizes the effect of transmission errors by performing potentially more HARQ retransmissions for high-priority video packets while the scheduling algorithm deals with congestion by giving high priority to important packets to minimize their transmission timeout. We show that the combination of adaptive HARQ and priority-based scheduling offers significant gains in video quality by enabling the wireless system to handle congestion and transmission errors, two of the main challenges to cellular delivery of real-time video.
Antimalarial Drugs Enhance the Cytotoxicity of 5-Aminolevulinic Acid-Based Photodynamic Therapy against the Mammary Tumor Cells of Mice In Vitro (2019)

Artemisinin and its derivatives, including artesunate (ART) and artemether (ARM), exert anticancer effects in the micromolar range in drug and radiation-resistant cell lines. Artemisinin has been reported to sensitize cervical cancer cells to radiotherapy. In the present study, we determined whether ART and ARM could enhance the cytotoxicity of 5-aminolevulinic acid (5-ALA)-based photodynamic therapy (PDT) against the mammary tumor cells of mice. The corrected PpIX fluorescence intensities in the control, 5-ALA, 5-ALA + ART, and 5-ALA + ARM groups were 3.385 ± 3.730, 165.7 ± 33.45, 139.0 ± 52.77, and 165.4 ± 51.10 a.u., respectively. At light doses of 3 and 5 J/cm<sup>2</sup>, the viability of 5-ALA-PDT-treated cells significantly decreased with ART (<i>p</i> < 0.01 and <i>p</i> < 0.01) and ARM treatment (<i>p</i> < 0.01 and <i>p</i> < 0.01). Besides, the number of annexin V-FITC and ethidium homodimer III-positive cells was greater in the 5-ALA-PDT with ARM group than that in the other groups. <i>N</i>-acetylcysteine could not significantly inhibit the percentages of apoptotic cells or inviable cells induced by 5-ALA-PDT with ARM. These reactive oxygen species-independent mechanisms might enhance cytotoxicity in 5-ALA-PDT with ARM-treated tumor cells, suggesting that the use of 5-ALA-PDT with ARM could be a new strategy to enhance PDT cytotoxicity against tumor cells. However, as these results are only based on in vitro studies, further in vivo investigations are required.
Internet-based tool for system-on-chip integration (2004)

A tool has been created for use in a design course to automate integration of new components into a System-On-Chip(SOC). Students used this tool to implement a complete SOC Internet firewall, which was prototyped and tested using a field-programmable gate array (FPGA). Common components of the framework were completed as machine problem assignments throughout the first half of the semester. During the second half of the semester, students worked in small groups to design extensible modules, which included additional packet filters, a packet encryption engine, and replacement schedulers to enhance the functionality of the SoC firewall. The integration tool was used to manage project submissions and to synthesize designs for testing and project evaluation.
A graph algorithm for linearizing simulink models (2013)

This paper presents a new efficient approach for performing linearization of Simulink® models. It improves the efficiency of existing linearization algorithms using a Jacobian graph, a graph-based data structure that captures the linear relationship between input, output and state variables. The graph-based algorithm enables the use of graph transformations to reduce the size of the Jacobian data structure, thereby improving the efficiency of subsequent computations. This paper presents a heuristic implementation of the graph-based algorithm. Experimental results on a number of Simulink models of different sizes show how the approach is able to significantly improve computational efficiency and memory use especially in models with large numbers of blocks and states.
Long‐term epilepsy outcome dynamics revealed by natural language processing of clinic notes (2023)

Our findings demonstrate that epilepsy outcome measures can be extracted accurately from unstructured clinical note text using NLP. At our tertiary center, the disease course often followed a remitting and relapsing pattern. This method represents a powerful new tool for clinical research with many potential uses and extensions to other clinical questions.
Complications and Management of Eptifibatide-Induced Thrombocytopenia (2021)

Most cases of EIT were managed by withholding eptifibatide with platelet transfusion if necessary. The majority of complications included bleeding. However, significant procedure delays, prolonged hospital stay, thrombosis, and allergic reactions were also reported.
Supplementary Figure 1 from MicroRNA Alterations of Pancreatic Intraepithelial Neoplasias (2023)

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Statistical Shape and Probability Prior Model for Automatic Prostate Segmentation (2011)

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