gebhart/patrepeval huggingface dataset:
Scan, Attend and Read: End-to-End Handwritten Paragraph Recognition with MDLSTM Attention (2017)

We present an attention-based model for end-to-end handwriting recognition. Our system does not require any segmentation of the input paragraph. The model is inspired by the differentiable attention models presented recently for speech recognition, image captioning or translation. The main difference is the implementation of covert and overt attention with a multi-dimensional LSTM network. Our principal contribution towards handwriting recognition lies in the automatic transcription without a prior segmentation into lines, which was critical in previous approaches. Moreover, the system is able to learn the reading order, enabling it to handle bidirectional scripts such as Arabic. We carried out experiments on the well-known IAM Database and report encouraging results which bring hope to perform full paragraph transcription in the near future.
A Novel Mutagenesis Strategy Identifies Distantly Spaced Amino Acid Sequences That Are Required for the Phosphorylation of Both the Oligosaccharides of Procathepsin D by N-Acetylglucosamine 1-Phosphotransferase (1995)

A novel combinatorial mutagenesis strategy (shuffle mutagenesis) was developed to identify sequences in the propiece and amino lobe of cathepsin D which direct oligosaccharide phosphorylation by UDP-GlcNAc:lysosomal enzyme N-acetylglucosamine 1-phosphotransferase. Propiece restriction fragments and oligonucleotide cassettes corresponding to 13 regions of the cathepsin D and glycopepsinogen amino lobes were randomly shuffled together to generate a large library of chimeric molecules. The library was inserted into an expression vector encoding the carboxyl lobe of cathepsin D with a carboxyl-terminal myc epitope and a CD8 transmembrane extension. Transfected COS1 cells expressing the membrane-anchored forms of the cathepsin D/glycopepsinogen chimeras at the cell surface were selected with solid phase mannose 6-phosphate receptor or an antibody to the myc epitope. Plasmids were rescued in Escherichia coli and sequenced by hybridization to the original oligonucleotide cassettes. Two regions of the cathepsin D amino lobe (segments 7 and 12) were found to contribute to proper folding, surface expression, and selective phosphorylation of the carboxyl lobe oligosaccharide. Two different cathepsin D regions (the propiece and segment 5) cooperated with a previously identified recognition element in the carboxyl lobe to allow efficient phosphorylation of both the amino and carboxyl lobe oligosaccharides. Three general models for extending the catalytic reach of N-acetylglucosamine 1-phosphotransferase to widely spaced oligosaccharides are presented.
Assessing baroreflex sensitivity in the sequences technique: local versus global approach (2005)

The sequences technique is the most used time domain technique for the assessment of arterial baroreceptor reflex sensitivity (BRS) and is based in the analysis of the beat-to-beat spontaneous variability of systolic blood pressure and heart period. Although a common used method, the sequences technique imposes the setting of several parameters to determine what is a valid baroreflex event and no consensual opinion about these parameters is found in the literature. The theory is overlooked, and linear regression over three values is the usual procedure. The methodology itself can be questionable and the estimator has not been clearly examined regarding its statistical properties, namely bias and variance. In this work, an alternative estimator that we have been using is evaluated and compared with the traditional approach, considering real and simulated data. The results obtained show that the proposed estimator is less biased and presents lower variance than the traditional approach
Regional review [December 1997] (1997)

In this Regional Review the relative economic performance of the Local Enterprise Companies (LECs) are examined. Regional GDP, regional employment and sectoral performance are described. The focus is forward looking and forecasts over 1997-2001 for each LEC are discussed. The strengths, weaknesses and opportunities of each LEC are also considered.
Epitope map of two polyclonal antibodies that recognize amyloid lesions in patients with Alzheimer's disease (1992)

Two synthetic peptides with sequences identical with those of fragments of the extracellular domain of the Alzheimer's-disease amyloid precursor protein (APP) were used to raise antibodies. SP28 comprises positions 597-624 of the APP695 isoform, whereas SP41 extends towards the N-terminus (amino acids 584-624) and contains the entire SP28 peptide. Using e.l.i.s.a. and inhibition experiments we identified the two beta-turn-containing segments 602-607 and 617-624 as the epitopes recognized by anti-SP41 and anti-SP28 respectively. Both antibodies immunolabelled amyloid lesions in brains from Alzheimer's-disease patients and patients with related disorders, whereas they were unreactive in control brains. However, when probed on immunoblots, anti-SP28 failed to detect full-length APP from baculovirus-infected Sf9 cells, and anti-SP41 reacted weakly compared with other anti-APP antisera. The data suggest that these antibodies are directed to conformational epitopes not existent in the native molecules but present after alternative APP processing.
Effect of emitter-base spacing on the current gain of AlGaAs/GaAs heterojunction bipolar transistors (1989)

An investigation of the effect of surface recombination and emitter-base-contact spacing on the DC current-gain of AlGaAs/GaAs heterojunction bipolar transistor (HBT) using thin AlGaAs emitter structures is discussed. The selectively-etched, thin-AlGaAs-emitter layer has been used to prevent an exposed extrinsic base region, which has previously limited current gain because of high surface recombination. It is found that a factor of approximately 50 improvement in the current gain can be achieved by proper surface passivation and emitter-base-contact spacing.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
The Molecular Descent of the Major Histocompatibility Complex (1993)

In the last few years, more than 500 primate major histocompatibility complex (Mhc) genes or parts thereof have been sequenced. The extraordinary sequence information is used here to draw conclusions about the manner of Mhc evolution. The Mhc genes are found to evolve at a relatively slow rate with the regularity of a clock. It takes from 1 to 6 million years for a new mutation to be incorporated into an Mhc allele, and the mutation rate is comparable to that of most other primate genes. The nonsynonymous sites coding for the peptide-binding region (PBR) are under relatively weak positive selection pressure (selection coefficient of a few percent only); the nonsynonymous non-PBR sites are under moderate negative selection pressure. The positive pressure is probably provided by parasites and is responsible for the trans-species persistence of allelic lineages at functional Mhc loci for more than 40 million years.
The Open Physiology workflow: modeling processes over physiology circuitboards of interoperable tissue units (2015)

A key challenge for the physiology modeling community is to enable the searching, objective comparison and, ultimately, re-use of models and associated data that are interoperable in terms of their physiological meaning. In this work, we outline the development of a workflow to modularize the simulation of tissue-level processes in physiology. In particular, we show how, via this approach, we can systematically extract, parcellate and annotate tissue histology data to represent component units of tissue function. These functional units are semantically interoperable, in terms of their physiological meaning. In particular, they are interoperable with respect to [i] each other and with respect to [ii] a circuitboard representation of long-range advective routes of fluid flow over which to model long-range molecular exchange between these units. We exemplify this approach through the combination of models for physiology-based pharmacokinetics and pharmacodynamics to quantitatively depict biological mechanisms across multiple scales. Links to the data, models and software components that constitute this workflow are found at http://open-physiology.org/.
"Living" titanium(IV) catalyzed coordination polymerizations of isocyanates (1991)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXT"Living" titanium(IV) catalyzed coordination polymerizations of isocyanatesTimothy E. Patten and Bruce M. NovakCite this: J. Am. Chem. Soc. 1991, 113, 13, 5065–5066Publication Date (Print):June 1, 1991Publication History Published online1 May 2002Published inissue 1 June 1991https://pubs.acs.org/doi/10.1021/ja00013a055https://doi.org/10.1021/ja00013a055research-articleACS PublicationsRequest reuse permissionsArticle Views569Altmetric-Citations117LEARN 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 Get e-Alerts
Guest Editorial (1996)

ADVERTISEMENT RETURN TO ISSUEPREVEditorialNEXTGuest EditorialAnthony W. CzarnikView Author Information Parke-Davis Pharmaceutical Research Division of Warner-Lambert Company 2800 Plymouth Road, Ann Arbor, Michigan 48105Cite this: Acc. Chem. Res. 1996, 29, 3, 112–113Publication Date (Web):March 13, 1996Publication History Published online13 March 1996Published inissue 13 March 1996https://pubs.acs.org/doi/10.1021/ar950256nhttps://doi.org/10.1021/ar950256neditorialACS PublicationsCopyright © 1996 American Chemical Society. This publication is available under these Terms of Use. Request reuse permissions This publication is free to access through this site. Learn MoreArticle Views1951Altmetric-Citations166LEARN 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 PDF (192 KB) Get e-AlertscloseSUBJECTS:Color,Combinatorial chemistry,Ligands,Molecules,Organic reactions Get e-Alerts
Peptide design by optimization on a data-parameterized protein interaction landscape (2018)

Many applications in protein engineering require optimizing multiple protein properties simultaneously, such as binding one target but not others or binding a target while maintaining stability. Such multistate design problems require navigating a high-dimensional space to find proteins with desired characteristics. A model that relates protein sequence to functional attributes can guide design to solutions that would be hard to discover via screening. In this work, we measured thousands of protein-peptide binding affinities with the high-throughput interaction assay amped SORTCERY and used the data to parameterize a model of the alpha-helical peptide-binding landscape for three members of the Bcl-2 family of proteins: Bcl-x<sub>L</sub>, Mcl-1, and Bfl-1. We applied optimization protocols to explore extremes in this landscape to discover peptides with desired interaction profiles. Computational design generated 36 peptides, all of which bound with high affinity and specificity to just one of Bcl-x<sub>L</sub>, Mcl-1, or Bfl-1, as intended. We designed additional peptides that bound selectively to two out of three of these proteins. The designed peptides were dissimilar to known Bcl-2-binding peptides, and high-resolution crystal structures confirmed that they engaged their targets as expected. Excellent results on this challenging problem demonstrate the power of a landscape modeling approach, and the designed peptides have potential uses as diagnostic tools or cancer therapeutics.
Lipid Accumulation in an Oleaginous Yeast ( Candida 107) Growing on Glucose Under Various Conditions in a One- and Two-Stage Continuous Culture (1977)

Lipid accumulation and fatty acid composition in Candida 107 have been studied using a two-stage continuous culture system in which the first vessel was run under carbon-limited conditions and then the entire output was passed into a second vessel, where lipid accumulation was stimulated by adding only glucose. Maximum lipid accumulation (28% of yeast [dry weight]) occurred for a volume ratio of vessel 1 to vessel 2 of 3:5, with 30 g of glucose per liter being added to vessel 2 operated at 25 degrees C with an aeration rate of between 0.1 and 1.0 volume of air/volume of medium per min. Although the maximum specific rate of lipid formation (0.05 g of lipid/g of yeast per h) was higher than in a nitrogen-limited, single-stage system, the efficiency of lipid formation was much less and never exceeded 14 g of lipid produced per 100 g of glucose consumed. The fatty acid composition was not significantly altered in either the two-stage or single-stage culture (nitrogen-limited) systems by changes in growth temperature (from 19 to 33 degrees C) or aeration rates (0.05 to 1.0 volume of air/volume of medium per min); or, in the two-stage system, by changes in the residence time of the yeast in the second vessel (from 3.2 to 24.4 h), or, in the single-stage system, by changes in pH (from 3.5 to 7.5). Only when the concentration of glucose entering vessel 2 of the two-stage system was less than 30 g/liter did significant changes in the fatty acids occur. Thus, although a two-stage continuous culture system allows lipid accumulation to be separated from the growth phase, it offers no practical advantages over a single-stage system as a means of producing microbial oils and fats.
Salmonella typhimurium Lacking Ribose Chemoreceptors Localize in Tumor Quiescence and Induce Apoptosis (2007)

The effectiveness of most chemotherapeutics is limited by their inability to penetrate deep into tumor tissue and their ineffectiveness against quiescent cells. Motile Salmonella typhimurium, which are specifically attracted to compounds produced by quiescent cancer cells, could overcome this therapeutic barrier. We hypothesized that individual chemoreceptors target S. typhimurium to specific tumor microenvironments. To test this hypothesis, we used time-lapse fluorescent microscopy and tumor cylindroids to quantify the accumulation of chemotaxis machinery knockouts, including strains lacking individual cell surface chemoreceptors, chemotaxis signal transduction pathway enzymes, and the flagella and motor assemblies. To measure the extent of apoptosis induced by individual bacterial strains, caspase-3 activity was measured as a function of time. Our results showed how chemoreceptors directed bacterial chemotaxis within cylindroids: the aspartate receptor initiated chemotaxis toward cylindroids, the serine receptor initiated penetration, and the ribose/galactose receptor directed S. typhimurium toward necrosis. In addition, strains lacking proper flagella constructs, signal transduction proteins, or active motor function did not chemotax toward tumor cylindroids, indicating that directed chemotaxis is necessary to promote accumulation in tumors. By deleting the ribose/galactose receptor, bacterial accumulation localized to tumor quiescence and had a greater individual effect on inducing apoptosis than wild-type S. typhimurium. This new understanding of the mechanisms of Salmonella migration in tumors will allow for the development of bacterial therapies with improved targeting to therapeutically inaccessible regions of tumors.
Verschreibungsmuster und Wirksamkeitsvermutung von Antidementiva (2005)

Zusammenfassung In wissenschaftlichen und berufspolitischen Aufsätzen der Neuropsychiatrie besteht weit gehende Einigkeit darüber, dass Acetylcholinesterase-Hemmer (AChEH) und Memantine bei Alzheimer-Demenz Präparate der ersten Wahl sind. Zwei gängige Thesen zur Arzneimittelversorgung werden in diesem Artikel untersucht: 1. Die einfache Dichotomisierung, nach der Hausärzte Ginkgo verschreiben, Neurologen und Psychiater hingegen AChEH und Memantine. 2. Die These der massiven Unterversorgung von dementen Patienten mit AChEH. Ergebnisse: Bezüglich der subjektiven Wahrnehmung der Wirksamkeit und Verschreibungshäufigkeit von AChEH und Memantine unterscheiden sich Hausärzte relativ wenig von niedergelassenen Neurologen und Psychiatern. Zwischen der subjektiven Wahrnehmung der Ärzte und der objektiven Verschreibungsrealität gibt es jedoch beträchtliche Unterschiede. Die These der massiven medikamentösen Unterversorgung von dementen Patienten mit AChEH muss bei differenzierter Betrachtung der Indikationsgruppe und Beachtung der kaum strittigen Erkenntnisse zur Wirksamkeit kritisiert werden. Als Fazit wird vorgeschlagen, die Verschreibung von AChEH in Deutschland klarer zu regeln und zu kontrollieren.
Cell killing and DNA damage by hydrogen peroxide are mediated by intracellular iron (1984)

Phenanthroline, a strong iron chelator, prevents both the formation of DNA single-strand breaks and the killing of mouse cells produced by H2O2. These results, taken together with our previous findings, indicate that the DNA damage is produced by hydroxyl radicals formed when H2O2 reacts with chromatin-bound Fe2+ and that this damage is responsible for the killing effect.
Preliminary Report on the Use of Fetal Tissue Transplantation to Correct MPTP-Induced Parkinson-Like Syndrome in Primates (1985)

A Parkinson-like syndrome was produced in nonhuman primates and successfully reversed through transplantation of heterologous fetal mesencephalic brain tissue. Rigidity and bradykinesia were induced by the chronic administration of N-methyl-4-phenyl-1,2,3,6-tetrahydropyridine. Once the deficits were fixed, Macaca mulatta with well-developed Parkinson-like behavior received fetal mesencephalic cell preparations stereotactically implanted into multiple sites of the head of the caudate bilaterally. Both animals demonstrated a normalization of CSF L-dopa and significant improvement in observed activity. The neuropathological studies performed 2 months following transplantation demonstrated successful integration of fetal cells in the caudate.
B7‐H1 (CD274) inhibits the development of herpetic stromal keratitis (HSK) (2005)

The co-signaling molecule B7-H1 (CD274) functions as both a co-inhibitor through programmed death-1 (PD-1) receptor and a co-stimulator via an as-yet-unidentified receptor on T cells. We investigated the physiological role of endogenous B7-H1 in the pathogenesis of herpetic stromal keratitis (HSK) caused by herpes simplex virus type 1 (HSV-1). Following HSV-1 infection of the cornea of mice, B7-H1 expression was up-regulated in the CD11b+ macrophage population in the draining lymph nodes (dLN) and in the inflamed cornea. In addition, HSV-1 infection significantly increased PD-1 expression on CD4+ T cells in the dLN and inflamed cornea. The administration of antagonistic B7-H1 monoclonal antibody resulted in the proliferation of HSV-specific CD4+ T cells that secreted interferon (INF)-gamma, and inhibited the apoptosis of HSV-specific CD4+ T cells, which exaggerated HSK. These results strongly suggest that the B7-H1 may be involved in suppression of the development of HSK.
Four-helix bundle topology re-engineered: monomeric Rop protein variants with different loop arrangements (2001)

We converted the small homodimeric four-helix bundle repressor of primer protein (Rop) into a monomeric four-helix bundle by introduction of connecting loops. Both left- and right-handed four-helix bundles were produced. The left-handed bundles were more stable and were used to introduce biologically interesting peptides in one of the loops.
Occurrence of multiple myeloma in both donor and recipient after bone marrow transplantation (2002)

The transplantation of malignant cells during allogeneic transplant is a rare occurrence. 27 months after donating progenitor cells, a diagnosis of multiple myeloma was made in a 6/6 HLA-phenotypically matched unrelated donor. The 42-year-old recipient transplanted for chronic phase chronic myeloid leukemia developed IgA myeloma 40 months after transplantation. Serum electrophoresis and bone marrow investigations established the diagnosis of IgA K multiple myeloma in both. This case illustrates the natural history and biology of multiple myeloma.
Opportunities and Challenges in the Era of Molecularly Targeted Agents and Radiation Therapy (2013)

The first annual workshop for preclinical and clinical development of radiosensitizers took place at the National Cancer Institute on August 8-9, 2012. Radiotherapy is one of the most commonly applied and effective oncologic treatments for solid tumors. It is well recognized that improved clinical efficacy of radiotherapy would make a substantive impact in clinical practice and patient outcomes. Advances in genomic technologies and high-throughput drug discovery platforms have brought a revolution in cancer treatment by providing molecularly targeted agents for various cancers. Development of predictive biomarkers directed toward specific subsets of cancers has ushered in a new era of personalized therapeutics. The field of radiation oncology stands to gain substantial benefit from these advances given the concerted effort to integrate this progress into radiation therapy. This workshop brought together expert clinicians and scientists working in various disease sites to identify the exciting opportunities and expected challenges in the development of molecularly targeted agents in combination with radiation therapy.
ChemInform Abstract: Stereoselective Syntheses Using Microbial Epoxide Hydrolases (2001)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.