gebhart/patrepeval huggingface dataset:
A Type Architecture for Hybrid Micro-Parallel Computers (2006)

Platform FPGAs that integrate sequential processors with a spatial fabric have become prevalent. While these hybrid architectures ease the burden of integrating sequential and spatial code in a single application, programming them, and particularly their spatial fabrics remains challenging. The difficulty arises in part from the lack of an agreed upon computational model and family of programming languages. In addition, moving algorithms into hardware is an arcane art far removed from the experience of most programmers. To address this challenge, we present a new type architecture, an abstract model analogous to the von Neumann machine for sequential computers, that can serve as common ground for algorithm designers, language designers, and hardware architects. We show that many parallel architectures, including platform FPGAs, are implementations of this type architecture. Using examples from a variety of application domains, we show how algorithms can be analyzed to estimate their performance on implementations of this type architecture. This analysis is done without having to delve into the details of any architecture in particular. Finally, we describe some of the common features of languages designed for expressing micro-parallelism, highlighting connections with the type architecture
Purification and Properties of 4-Hydroxy-2-Ketopimelate Aldolase from Acinetobacter (1974)

The chemical synthesis of 4-hydroxy-2-ketopimelic acid is described. An aldolase that cleaves this compound to succinic semialdehyde and pyruvate has been purified from Acinetobacter grown at the expense of 4-hydroxyphenylacetic acid. The molecular weight of the enzyme was about 158,000 from sedimentation equilibrium data; other physical determinations gave values in reasonable agreement. The protein was globular and was dissociated in sodium dodecyl sulfate to give a species of molecular weight 25,700. The enzyme attacked both enantiomers of synthetic 4-hydroxy-2-ketopimelate and was stimulated by Mg(2+) and Mn(2+) ions.
BET Protein Antagonist JQ1 Is Synergistically Lethal with FLT3 Tyrosine Kinase Inhibitor (TKI) and Overcomes Resistance to FLT3-TKI in AML Cells Expressing FLT-ITD (2014)

Recently, treatment with bromodomain and extraterminal protein antagonist (BA) such as JQ1 has been shown to inhibit growth and induce apoptosis of human acute myelogenous leukemia (AML) cells, including those expressing FLT3-ITD. Here, we demonstrate that cotreatment with JQ1 and the FLT3 tyrosine kinase inhibitor (TKI) ponatinib or AC220 synergistically induce apoptosis of cultured and primary CD34(+) human AML blast progenitor cells (BPC) expressing FLT3-ITD. Concomitantly, as compared with each agent alone, cotreatment with JQ1 and the FLT3-TKI caused greater attenuation of c-MYC, BCL2, and CDK4/6. Simultaneously, cotreatment with JQ1 and the FLT3-TKI increased the levels of p21, BIM, and cleaved PARP, as well as mediated marked attenuation of p-STAT5, p-AKT, and p-ERK1/2 levels in AML BPCs. Conversely, cotreatment with JQ1 and FLT3-TKI was significantly less active against CD34(+) normal bone marrow progenitor cells. Knockdown of BRD4 by short hairpin RNA also sensitized AML cells to FLT3-TKI. JQ1 treatment induced apoptosis of mouse Ba/F3 cells ectopically expressing FLT3-ITD with or without FLT3-TKI-resistant mutations F691L and D835V. Compared with the parental human AML FLT3-ITD-expressing MOLM13, MOLM13-TKIR cells resistant to AC220 were markedly more sensitive to JQ1-induced apoptosis. Furthermore, cotreatment with JQ1 and the pan-histone deacetylase inhibitor (HDI) panobinostat synergistically induced apoptosis of FLT3-TKI-resistant MOLM13-TKIR and MV4-11-TKIR cells. Collectively, these findings support the rationale for determining the in vivo activity of combined therapy with BA and FLT3-TKI against human AML cells expressing FLT3-ITD or with BA and HDI against AML cells resistant to FLT3-TKI.
Analysis of Damage Tolerance Pathways in Saccharomyces cerevisiae: a Requirement for Rev3 DNA Polymerase in Translesion Synthesis (1998)

The replication of double-stranded plasmids containing a single N-2-acetylaminofluorene (AAF) adduct located in a short, heteroduplex sequence was analyzed in Saccharomyces cerevisiae. The strains used were proficient or deficient for the activity of DNA polymerase zeta (REV3 and rev3delta, respectively) in a mismatch and nucleotide excision repair-defective background (msh2delta rad10delta). The plasmid design enabled the determination of the frequency with which translesion synthesis (TLS) and mechanisms avoiding the adduct by using the undamaged, complementary strand (damage avoidance mechanisms) are invoked to complete replication. To this end, a hybridization technique was implemented to probe plasmid DNA isolated from individual yeast transformants by using short, 32P-end-labeled oligonucleotides specific to each strand of the heteroduplex. In both the REV3 and rev3delta strains, the two strands of an unmodified heteroduplex plasmid were replicated in approximately 80% of the transformants, with the remaining 20% having possibly undergone prereplicative MSH2-independent mismatch repair. However, in the presence of the AAF adduct, TLS occurred in only 8% of the REV3 transformants, among which 97% was mostly error free and only 3% resulted in a mutation. All TLS observed in the REV3 strain was abolished in the rev3delta mutant, providing for the first time in vivo biochemical evidence of a requirement for the Rev3 protein in TLS.
Studies on the Synthesis of Insulin from Natural and Synthetic A and B Chains. I. Splitting of Insulin and Isolation of the S-Sulfonated Derivatives of the A and B Chains* (1967)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTStudies on the Synthesis of Insulin from Natural and Synthetic A and B Chains. I. Splitting of Insulin and Isolation of the S-Sulfonated Derivatives of the A and B Chains*Panayotis G. Katsoyannis, Andrew Tometsko, Clyde Zalut, Stanley Johnson, and Anthony C. TrakatellisCite this: Biochemistry 1967, 6, 9, 2635–2642Publication Date (Print):September 1, 1967Publication History Published online1 May 2002Published inissue 1 September 1967https://pubs.acs.org/doi/10.1021/bi00861a001https://doi.org/10.1021/bi00861a001research-articleACS PublicationsRequest reuse permissionsArticle Views174Altmetric-Citations46LEARN 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
Echocardiographic assessment of global left ventricular function in mice (2009)

Doppler-echocardiographic assessment of cardiovascular structure and function in murine models has developed into one of the most commonly used non-invasive techniques during the last decades. Recent technical improvements even expanded the possibilities. In this review, we summarize the current options to assess global left ventricular (LV) function in mice using echocardiographic techniques. In detail, standard techniques as structural and functional assessment of the cardiovascular phenotype using one-dimensional M-mode echocardiography, two-dimensional B-mode echocardiography and spectral Doppler signals from mitral inflow respective aortal outflow are presented. Further pros and contras of recently implemented techniques as three-dimensional echocardiography and strain and strain rate measurements are discussed. Deduced measures of LV function as the myocardial performance index according to Tei, estimation of the mean velocity of circumferential fibre shortening, LV wall stress and different algorithms to estimate the LV mass are described in detail. Last but not least, specific features and limitations of murine echocardiography are presented. Future perspectives in respect to new examination techniques like targeted molecular imaging with advanced ultrasound contrast bubbles or improvement of equipment like new generation matrix transducers for murine echocardiography are discussed.
Chemical and Radiological Toxicity of Depleted Uranium (2004)

A by-product of the uranium enrichment process, depleted uranium (DU) contains approximately 40% of the radioactivity of natural uranium yet retains all of its chemical properties. After its use in the 1991 Gulf War, public concern increased regarding its potential radiotoxicant properties. Whereas in vitro and rodent data have suggested the potential for uranium-induced carcinogenesis, human cohort studies assessing the health effects of natural and DU have failed to validate these findings. Heavy-metal nephrotoxicity has not been noted in either animal studies or Gulf War veteran cohort studies despite markedly elevated urinary uranium excretion. No significant residual environmental contamination has been found in geographical areas exposed to DU. As such, although continued surveillance of exposed cohorts and environments (particularly water sources) are recommended, current data would support the position that DU poses neither a radiological nor chemical threat.
B-cell maturation antigen (BCMA) in multiple myeloma: rationale for targeting and current therapeutic approaches (2020)

Despite considerable advances in the treatment of multiple myeloma (MM) in the last decade, a substantial proportion of patients do not respond to current therapies or have a short duration of response. Furthermore, these treatments can have notable morbidity and are not uniformly tolerated in all patients. As there is no cure for MM, patients eventually become resistant to therapies, leading to development of relapsed/refractory MM. Therefore, an unmet need exists for MM treatments with novel mechanisms of action that can provide durable responses, evade resistance to prior therapies, and/or are better tolerated. B-cell maturation antigen (BCMA) is preferentially expressed by mature B lymphocytes, and its overexpression and activation are associated with MM in preclinical models and humans, supporting its potential utility as a therapeutic target for MM. Moreover, the use of BCMA as a biomarker for MM is supported by its prognostic value, correlation with clinical status, and its ability to be used in traditionally difficult-to-monitor patient populations. Here, we review three common treatment modalities used to target BCMA in the treatment of MM: bispecific antibody constructs, antibody-drug conjugates, and chimeric antigen receptor (CAR)-modified T-cell therapy. We provide an overview of preliminary clinical data from trials using these therapies, including the BiTE® (bispecific T-cell engager) immuno-oncology therapy AMG 420, the antibody-drug conjugate GSK2857916, and several CAR T-cell therapeutic agents including bb2121, NIH CAR-BCMA, and LCAR-B38M. Notable antimyeloma activity and high minimal residual disease negativity rates have been observed with several of these treatments. These clinical data outline the potential for BCMA-targeted therapies to improve the treatment landscape for MM. Importantly, clinical results to date suggest that these therapies may hold promise for deep and durable responses and support further investigation in earlier lines of treatment, including newly diagnosed MM.
Perceptual Organization and Recognition of Indoor Scenes from RGB-D Images (2013)

We address the problems of contour detection, bottom-up grouping and semantic segmentation using RGB-D data. We focus on the challenging setting of cluttered indoor scenes, and evaluate our approach on the recently introduced NYU-Depth V2 (NYUD2) dataset [27]. We propose algorithms for object boundary detection and hierarchical segmentation that generalize the gPb-ucm approach of [2] by making effective use of depth information. We show that our system can label each contour with its type (depth, normal or albedo). We also propose a generic method for long-range amodal completion of surfaces and show its effectiveness in grouping. We then turn to the problem of semantic segmentation and propose a simple approach that classifies super pixels into the 40 dominant object categories in NYUD2. We use both generic and class-specific features to encode the appearance and geometry of objects. We also show how our approach can be used for scene classification, and how this contextual information in turn improves object recognition. In all of these tasks, we report significant improvements over the state-of-the-art.
Temperament: Early Developing Personality Traits (1984)

1. Introduction 2. Evolution and Development 3. The Pediatric Approach 4. Arousal 5. Emotionality 6. Sociability 7. Theory and Measurement of EAS 8. Behavioral Genetics 9. Heredity and the EAS Temperaments 10. Continuity, Environment and the EAS 11. Concluding Comments. References. Author Index. Subject Index.
Nitroimidazoles in the treatment of trichomoniasis, giardiasis, and amebiasis. (1984)

Nitroimidazoles have been extensively evaluated in the treatment of trichomoniasis, giardiasis, liver and intestinal amebiasis. The most widely used are metronidazole, tinidazole, ornidazole, and secnidazole. Tinidazole, ornidazole, and secnidazole have a much longer half-life than metronidazole, allowing single-dose or once daily administration. Nitro-5-imidazoles remain extremely effective drugs for treating protozoans, Trichomonas vaginalis, Entamoeba histolytica, and Giardia intestinalis. Although all are suspected of potential carcinogenicity, they are the drugs of choice for treating protozoal infections.
Identification of Serum Amyloid A Protein As a Potentially Useful Biomarker to Monitor Relapse of Nasopharyngeal Cancer by Serum Proteomic Profiling (2004)

SAA could be a useful biomarker to monitor relapse of NPC.
P16 INK4A overexpression predicts lymph node metastasis in cervical carcinomas (2011)

Results suggest that p16 expression is an important predictive factor of LN metastasis in cervical cancer patients. Moreover, p16 overexpression is associated with a poor prognosis. Therefore, immunohistochemical evaluation of p16 expression is of potential value for treatment planning in cervical carcinomas.
Natural antibodies specific to the 2,4-dinitrophenyl group. (1973)

The immunoadsorbent 2,4-dinitrophenyl-amino-ethyl cellulose (DNP—AEC) was prepared by the reaction of dinitrofluorobenzene and aminoethyl cellulose in an alkaline medium. It was found to be an insoluble stable complex, specific for dinitro-phenyl antibody. The immunoadsorbent specifically retained a protein fraction (Fr. C) from pooled and individual human γ-globulins. This fraction was shown to behave like anti-DNP antibody when tested by equilibrium dialysis, fluorescent quenching and spectral shift analysis. The antibody activity was found to reside in the Fab fragment. The significance of finding naturally occuring anti-DNP antibodies in normal serum is discussed.
Agouti structure and function: characterization of a potent .alpha.-melanocyte stimulating hormone receptor antagonist (1995)

The murine agouti gene encodes for a novel 131 amino acid protein. The sequence includes a 22 residue putative secretion signal, an internal basic region, and a C-terminal domain containing 10 cysteines. Agouti has been found to antagonize the binding of certain pro-opiomelanocortin peptides, such as alpha-melanocyte stimulating hormone (alpha-MSH), to the murine melanocortin-1 receptor (MC1-R). We report the purification of a secreted murine agouti to homogeneity by a two-step procedure from baculovirus-infected Trichoplusia ni (T. ni). The protein is glycosylated and exhibits competitive, high-affinity antagonism (Ki = 0.8 nM) versus alpha-MSH in cell-based assays employing B16F10 cells. Association state analysis by analytical ultracentrifugation reveals that agouti exists in a monomer--dimer plus aggregate equilibrium at low micromolar concentrations. Data from secondary structure studies indicate that the protein is highly stable to thermal denaturation. Enzymatic digestion to probe disulfide bond arrangement yielded a discrete C-terminal (Val 83-Cys 131) domain. The isolated highly cysteine-rich C-terminal domain retains alpha-MSH antagonism equipotent with mature agouti. This bioactive domain contains all 10 cysteines which exhibit sequence homology when aligned with several conotoxins.
Plasma homocysteine, a risk factor for vascular disease: plasma levels in health, disease, and drug therapy. (1989)

The present article reviews the central features of homocysteine metabolism, and the evidence that moderate homocystinemia may be a risk factor for arteriosclerosis. A survey of the literature of homocysteine in various pathologic conditions is presented, with emphasis on disease states other than homocystinuria, which has been covered recently in excellent review articles. Finally, agents that modulate plasma homocysteine level are reviewed
A high-throughput method for the detection of homoeologous gene deletions in hexaploid wheat (2010)

We have developed a method for automated, high-throughput screening to identify deletions of individual homologues of a wheat gene. This method is also potentially applicable to other polyploidy plants.
NATURALLY OCCURRING PRIMARY DEFICIENCIES OF THE IMMUNE SYSTEM (1997)

Naturally occurring genetic disorders of the immune system provide many models for the study of its development and function. In a way, their analysis complements the information provided by the generation of genetic defects in mice created using homologous recombination techniques. In this review, the recent findings made in three areas are focused upon deficiencies in T cell differentiation and in T lymphocyte activation, and on the control process of peripheral immune response.
New approaches in the immunotherapy of haematological malignancies (2003)

Advances in the management of haematological malignancies have allowed to obtain improved remission rates. Nonetheless, relapses impair these results and justify the search for novel therapeutic strategies. Clinical data demonstrate that the immune system plays an important role in the control of haematological malignancies. An increased frequency of haematological malignancies is observed in immunodeficiency states. Reversal of the immunosuppression is sometimes sufficient to induce tumour regression (withdrawal of cyclosporine in post-transplant lymphoproliferations, highly active anti-retroviral treatment in human immunodeficiency virus related Kaposi's disease). Another line of evidence for the involvement of the immune system in the anti-tumour response comes from the observation of spontaneous anti-tumour responses that parallel the occurrence of paraneoplastic immune-mediated syndromes. Finally, the efficiency of allogeneic transplantation in the haematological field has been clearly demonstrated to depend on the immune-mediated graft vs. leukaemia effect. Nonetheless, tumours develop in immune competent patients because of various tumour escape mechanisms, such as loss of human leucocyte antigen class I antigens, absence of target recognition by deficient adhesion/co-stimulatory molecule expression, tumour cell counterattack against immune effectors, direct (contact-dependent) or indirect (cytokine-mediated) impairment of T-lymphocyte activation. Novel immunotherapy approaches are now orientated in a convergent direction, i.e. the reversal of immune escape mechanisms either via the correction of deficient phases of the immune response or by the amplification of physiological mechanisms.
Recurrent neural networks for noise reduction in robust ASR (2012)

Recent work on deep neural networks as acoustic models for automatic speech recognition (ASR) have demonstrated substantial performance improvements. We introduce a model which uses a deep recurrent auto encoder neural network to denoise input features for robust ASR. The model is trained on stereo (noisy and clean) audio features to predict clean features given noisy input. The model makes no assumptions about how noise affects the signal, nor the existence of distinct noise environments. Instead, the model can learn to model any type of distortion or additive noise given sufficient training data. We demonstrate the model is competitive with existing feature denoising approaches on the Aurora2 task, and outperforms a tandem approach where deep networks are used to predict phoneme posteriors directly.
Collapse of Gels in an Electric Field (1982)

An infinitesimal change in electric potential across a polyelectrolyte gel produces a discrete, reversible volume change. The volume of the collapsed gel can be several hundred times smaller than that of the swollen gel.
Chondral Resurfacing of Articular Cartilage Defects in the Knee with the Microfracture Technique (2006)

Microfracture repair of articular cartilage lesions in the knee results in significant functional improvement at a minimum follow-up of two years. The best short-term results are observed with good fill grade, low body-mass index, and a short duration of preoperative symptoms. A high body-mass index adversely affects short-term outcome, and a poor fill grade is associated with limited short-term durability.
Malate dehydrogenase: viability of cytosolic nulls and lethality of mitochondrial nulls in maize. (1981)

Five independently inherited loci on five distinct chromosomes encode the mitochondrial and cytosolic isozymes of NAD-dependent malate dehydrogenase (MDH; L-malate:NAD+ oxidoreductase, EC 1.1.1.37). Multiple alleles, including electrophoretic nulls, occur for each locus. However, a single allele of normal activity at one of the three loci encoding the mitochondrial MDHs is sufficient for normal development, whereas plants with essentially no cytosolic MDH activity function normally. The requirement of a normal activity allele at one of the three structural loci encoding the mitochondrial MDHs demonstrates in plants that a commonly studied dehydrogenase enzyme is essential for normal embryogenesis.
The Effect of Carbon Dioxide on the Absorption of Manganese by Root Tissues of Red Beet (1957)

The absorption of manganese by beetroot tissue is shown to be partially inhibited by the presence of carbon dioxide. Preliminary treatment of well-washed tissue slices with carbon dioxide also produces, after placing them in manganese solutions, an inhibition of absorption for a time similar to that shown by tissue slices when first excised from stored roots. It is suggested that an inhibitory substance is formed in bulky storage roots and tubers by dark fixation of accumulated respiratory carbon dixoide. On cutting thin slices from such organs, the removal of inhibitor may take place by diffusion into water during washing, by reversal of the fixation reaction when the partial pressure of carbon dioxide is reduced, and possibly also by oxidation to form a substance capable of stimulating manganese absorption when sufficiently high oxygen concentrations are available.