gebhart/patrepeval huggingface dataset:
Efficient Processing of Deep Neural Networks: A Tutorial and Survey (2017)

Deep neural networks (DNNs) are currently widely used for many artificial intelligence (AI) applications including computer vision, speech recognition, and robotics. While DNNs deliver state-of-the-art accuracy on many AI tasks, it comes at the cost of high computational complexity. Accordingly, techniques that enable efficient processing of DNNs to improve energy efficiency and throughput without sacrificing application accuracy or increasing hardware cost are critical to the wide deployment of DNNs in AI systems. This article aims to provide a comprehensive tutorial and survey about the recent advances toward the goal of enabling efficient processing of DNNs. Specifically, it will provide an overview of DNNs, discuss various hardware platforms and architectures that support DNNs, and highlight key trends in reducing the computation cost of DNNs either solely via hardware design changes or via joint hardware design and DNN algorithm changes. It will also summarize various development resources that enable researchers and practitioners to quickly get started in this field, and highlight important benchmarking metrics and design considerations that should be used for evaluating the rapidly growing number of DNN hardware designs, optionally including algorithmic codesigns, being proposed in academia and industry. The reader will take away the following concepts from this article: understand the key design considerations for DNNs; be able to evaluate different DNN hardware implementations with benchmarks and comparison metrics; understand the tradeoffs between various hardware architectures and platforms; be able to evaluate the utility of various DNN design techniques for efficient processing; and understand recent implementation trends and opportunities.
Classification of whale and ice sounds with a cochlear model (1992)

The authors analyze a cochlear model data representation for use in classifying acoustic transient signals. Comparisons of the cochlear model, short time Fourier transform, and wavelet transform from a filter bank perspective are made. The cochleagram and the spectrogram are used to classify a set of bowhead whales and ice sounds from the Arctic.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Sexual behavior of the navel OrangeWorm, Amyelois transitella (Walker) (Lepidoptera: Pyralidae) (2006)

To get a better understanding of the mating behavior of the navel orangeworm, Amyelois transitella (Walker), we developed a robust laboratory colony derived from larvae collected in Bakersfield, California and fed on dried, roasted pistachio. In the lab at 25 degrees C, most of the mating activity was observed during the last hour of the scotophase and for the first 30 min of the photophase. Female calling was characterized by the abdomen being protruded between the wings with the distal segments perpendicular to the body and exposing a pheromone gland, as well as by continuous antennation. Males approached calling females from a short distance by displaying wing fanning and antennation. When a male antennated on a calling female's abdomen, she either accepted the male and lowered the abdomen, or walked away. The accepted male made a final approach parallel to the female's body, but after coupling he rotated 180 masculine with male and female remaining in a linear, abdomen-to-abdomen position for over 3 h in average. In a possible strategy to maximize the chances of mating, the sex ratio was significantly skewed towards males in the first two days of emergence. Almost 80% of mating took place in the first two days after adult emergence, with females mating only once. About 55% of males mated only once and approximately 40% of the observed males mated twice and 5% tree times.
Anti-CD45–mediated cytoreduction to facilitate allogeneic stem cell transplantation (2003)

The CD45 antigen is present on all cells of the hematopoietic lineage. Using a murine model, we have determined whether a lytic CD45 monoclonal antibody can produce persistent aplasia and whether it could facilitate syngeneic or allogeneic stem cell engraftment. After its systemic administration, we found saturating quantities of the antibody on all cells expressing the CD45 antigen, both in marrow and in lymphoid organs. All leukocyte subsets in peripheral blood were markedly diminished during or soon after anti-CD45 treatment, but only the effect on the lymphoid compartment was sustained. In contrast to the prolonged depletion of T and B lymphocytes from the thymus and spleen, peripheral blood neutrophils began to recover within 24 hours after the first anti-CD45 injection and marrow progenitor cells were spared from destruction, despite being coated with saturating quantities of anti-CD45. Given the transient effects of the monoclonal antibody on myelopoiesis and the more persistent effects on lymphopoiesis, we asked whether this agent could contribute to donor hematopoietic engraftment following nonmyeloablative transplantation. Treatment with anti-CD45 alone did not enhance syngeneic engraftment, consistent with its inability to destroy progenitor cells and permit competitive repopulation with syngeneic donor stem cells. By contrast, the combination of anti-CD45 and an otherwise inactive dose of total-body irradiation allowed engraftment of H2 fully allogeneic donor stem cells. We attribute this result to the recipient immunosuppression produced by depletion of CD45(+) lymphocytes. Monoclonal antibodies of this type may therefore have an adjunctive role in nonmyeloablative conditioning regimens for allogeneic stem cell transplantation.
The United States Role in the Malvinas Crisis, 1982: Misguidance and Misperception in Argentina's Decision to Go to War (1985)

The Malvinas (Falklands) war of April-June 1982 has generated little attention among international scholars largely because neither its causes or consequences are. assumed to have great power significance. The thesis of this article is that the timing of the Malvinas invasion, and the subsequent miscalculation that the United States would tacitly assist Argentina, were partly shaped by U. S. policies. Although the principal motive for the invasion was to vindicate a claim stretching back to the early 19th century (U.S. House 1982c: 50-51; Etchepareborda, 1983:48-58), the abruptness of Argentina's actions was conditioned by Reagan administration overtures towards a grand “anti-Communist” alliance (Maechling, 1982:75-82; Sunday Times, 1982: 63); an increase in the frequency and prestige of high-level contacts between the U.S. and Argentina between 1980-1982; the cultivation of official links between Galtieri and high-ranking U.S. national security officials (U.S. House, 1982d: 67; Hastings and Jenkins, 1983:46); the intense, personal diplomacy of former Secretary of State Haig during the conflict (Hastings and Jenkins, 1983: 104-113); and by covert efforts by Argentina to extend and strengthen U.S.-Argentine ties (Cardoso et al. , 1983: 60-61).
Effect of zinc intake on fetal and infant growth among Chinese pregnant and lactating women. (2000)

The relationship between maternal nutrient intake and fetal size or infant growth was studied in 1956 pregnant women, 599 parturients and 1043 lactating women, 318 non-pregnant women included as controls. The study was conducted in eight regions that were representative of all geographical areas of China. The diet was comprised primarily of cereal products with 70% to 85% of the zinc intake derived from plant sources. Women in the third trimester of pregnancy, parturients and lactating women consumed more food than non-pregnant women or women in the first two trimesters of pregnancy. Total energy, protein and iron intakes met the recommended allowances for each stage of reproduction. Calcium and zinc intakes, however, were 50% and 47% of the amount recommended, respectively. Only 7.2% of the women exceeded two-thirds of the recommended zinc intake. The mean intake of zinc was 6.5 mg to 9.0 mg each day among all the subjects. Correlation and stepwise regression analysis showed that maternal zinc intake was a predictor factor for fetal dimensions and birthweight. The results of this study show that fetal growth and birthweight are directly related to maternal zinc intake among Chinese women, and that there is no relationship between maternal zinc intake during lactation and infant height, weight, or weight gain from birth.
Effects of policosanol treatment on the susceptibility of low density lipoprotein (LDL) isolated from healthy volunteers to oxidative modification in vitro (2000)

The present study demonstrated that policosanol administered within its therapeutic dosage for lowering cholesterol (5 and 10 mg day(-1)), decreased the susceptibility of LDL-C to lipid peroxidation in vitro.
Arginine Methylation of the Histone H3 Tail Impedes Effector Binding (2007)

Histone tail post-translational modification results in changes in cellular processes, either by generating or blocking docking sites for histone code readers or by altering the higher order chromatin structure. H3K4me3 is known to mark the promoter regions of active transcription. Proteins bind H3K4 in a methyl-dependent manner and aid in the recruitment of histone-remodeling enzymes and transcriptional cofactors. The H3K4me3 binders harbor methyl-specific chromatin binding domains, including plant homeodomain, Chromo, and tudor domains. Structural analysis of the plant homeodomains present in effector proteins, as well as the WD40 repeats of WDR5, reveals critical contacts between residues in these domains and H3R2. The intimate contact between H3R2 and these domain types leads to the hypothesis that methylation of this arginine residue antagonizes the binding of effector proteins to the N-terminal tail of H3. Here we show that H3 tail binding effector proteins are indeed sensitive to H3R2 methylation and that PRMT6, not CARM1/PRMT4, is the primary methyltransferase acting on this site. We have tested the expression of a select group of H3K4 effector-regulated genes in PRMT6 knockdown cells and found that their levels are altered. Thus, PRMT6 methylates H3R2 and is a negative regulator of N-terminal H3 tail binding.
Blockade of Interleukin-6 Signaling Suppresses Not Only Th17 but Also Interphotoreceptor Retinoid Binding Protein–Specific Th1 by Promoting Regulatory T Cells in Experimental Autoimmune Uveoretinitis (2011)

PURPOSE. Both Th17 and Th1 cells contribute to experimental autoimmune uveoretinitis (EAU). Interleukin-6 (IL-6) blockade inhibits Th17 differentiation in EAU and potently suppresses ocular inflammation, although its effect on Th1 cells is unknown. To clarify the mechanism of IL-6 blockade, the authors investigated T helper cells with particular focus on Th1 and regulatory T cells (Treg) in EAU of IL-6 gene knockout (KO) mice. METHODS. EAU was induced in wild-type (WT) mice and in mice lacking IL-6 (IL-6KO), IL-17 (IL-17KO), and IFN-γ (GKO) on a C57BL/6 background. Clinical scores of EAU, cytokine levels in supernatants from ocular tissue homogenates, and T helper cell differentiation in lymph nodes in each mouse were examined. To study the roles of Treg cells, EAU was induced in IL-6KO mice treated with anti-CD25 monoclonal antibody (mAb) to deplete Treg cells in vivo. RESULTS. Inflammation was comparable between WT, IL-17KO, and GKO mice but was absent in IL-6KO mice. Th17 and interphotoreceptor retinoid binding protein (IRBP)-specific Th1 cells were increased in GKO and IL-17KO mice, respectively, whereas both populations were reduced in IL-6KO mice. Th1-dominant EAU in IL-17KO mice was suppressed by anti-IL-6R mAb treatment. Treg cell depletion in vivo induced EAU in IL-6KO mice. CONCLUSIONS. After the induction of EAU, IL-6 deficiency resulted in the inhibition of the IRBP-specific Th1 response and enhanced the generation of IRBP-specific Treg cells. Furthermore, Treg was needed to inhibit Th1 responses and ocular inflammation in IL-6KO mice. Protective effects of IL-6 signaling blockade in EAU involve not only Th17 cell inhibition but also IRBP-specific Treg cell promotion.
The Tinetti Performance-Oriented Mobility Assessment Tool (1998)

POMA can help identify impairments in gait and balance that affect a person's chances of falling; and it can tell you more.
An Integrated Approach to Empirical Discovery (1989)

Abstract : In recent years, researchers in machine learning have investigated three main aspects of empirical discovery: forming taxonomies, finding qualitative laws, and finding quantitative laws. In this paper, we introduce IDS (Integrated Discovery System), a system that integrates these aspects of scientific discovery. We begin by examining the system's representation, showing how it describes events like chemical reactions as sequences of qualitative states. IDS incrementally processes these sequences to build a hierarchy of states, forming qualitative laws and numeric relations to augment this hierarchy. We discuss the three learning components that produce this behavior, using examples to illustrate the processes. Since this work is still in progress, we describe the current status of IDS and close with our plans for extending the system. Keywords: Machine learning, Conceptual clustering, Taxonomy formation, Qualitative discovery, Quantitative discovery, Empirical laws. (
EGFR phosphorylation of DCBLD2 recruits TRAF6 and stimulates AKT-promoted tumorigenesis (2014)

Aberrant activation of EGFR in human cancers promotes tumorigenesis through stimulation of AKT signaling. Here, we determined that the discoidina neuropilin-like membrane protein DCBLD2 is upregulated in clinical specimens of glioblastomas and head and neck cancers (HNCs) and is required for EGFR-stimulated tumorigenesis. In multiple cancer cell lines, EGFR activated phosphorylation of tyrosine 750 (Y750) of DCBLD2, which is located within a recently identified binding motif for TNF receptor-associated factor 6 (TRAF6). Consequently, phosphorylation of DCBLD2 Y750 recruited TRAF6, leading to increased TRAF6 E3 ubiquitin ligase activity and subsequent activation of AKT, thereby enhancing EGFR-driven tumorigenesis. Moreover, evaluation of patient samples of gliomas and HNCs revealed an association among EGFR activation, DCBLD2 phosphorylation, and poor prognoses. Together, our findings uncover a pathway in which DCBLD2 functions as a signal relay for oncogenic EGFR signaling to promote tumorigenesis and suggest DCBLD2 and TRAF6 as potential therapeutic targets for human cancers that are associated with EGFR activation.
Experimental approaches for the generation of induced pluripotent stem cells (2010)

Derivation of autologous induced pluripotent stem cells (iPSCs) through direct reprogramming of easily accessible somatic cells holds the potential to transform the field of regenerative medicine. Since Takahashi and Yamanaka's groundbreaking study describing the generation of iPSCs by retroviral-mediated delivery of defined transcription factors, substantial progress has been made to improve both the efficiency and safety of the method. These advances have provided new insights into the molecular mechanisms of reprogramming and promise to accelerate the clinical translation of iPSC technology. Here, we summarize current reprogramming methodologies with a focus on the production of transgene-free or genetically unmanipulated iPSCs and highlight important technical details that ultimately may influence the biological properties of pluripotent stem cells.
Non-invasive diagnostics of the maxillary and frontal sinuses based on diode laser gas spectroscopy (2012)

The laser-based technique presents real-time clinical data that correlate well to CT findings, while being non-intrusive and avoiding the use of ionizing radiation.
Toward a Biosynthetic Route to Sclareol and Amber Odorants (2012)

Ambergris, a waxy substance excreted by the intestinal tract of the sperm whale, has been a highly prized fragrance ingredient for millenia. Because of supply shortage and price inflation, a number of ambergris substitutes have been developed by the fragrance industry. One of the key olfactory components and most appreciated substitutes of ambergris, Ambrox is produced industrially by semisynthesis from sclareol, a diterpene-diol isolated from Clary sage. In the present study, we report the cloning and functional characterization of the enzymes responsible for the biosynthesis of sclareol. Furthermore, we reconstructed the sclareol biosynthetic pathway in genetically engineered Escherichia coli and reached sclareol titers of ~1.5 g/L in high-cell-density fermentation. Our work provides a basis for the development of an alternative, sustainable, and cost-efficient route to sclareol and other diterpene analogues.
Enzymatic cleavage of RNA by RNA (1990)

The discovery and characterization of the catalytic RNA subunit of the enzyme ribonuclease P of Escherichia coli is described.
Automated Detection of Inaccurate and Imprecise Transitions in Peptide Quantification by Multiple Reaction Monitoring Mass Spectrometry (2009)

This algorithm for automated detection of inaccurate and imprecise transitions (AuDIT) in MRM-MS data reduces the time required for manual and subjective inspection of data, improves the overall accuracy of data analysis, and is easily implemented into the standard data-analysis work flow. AuDIT currently works with results exported from MRM-MS data-processing software packages and may be implemented as an analysis tool within such software.
Products, genetic linkage and limb patterning activity of a murine hedgehog gene (1994)

The hedgehog (hh) segmentation gene of Drosophila melanogaster encodes a secreted signaling protein that functions in the patterning of larval and adult structures. Using low stringency hybridization and degenerate PCR primers, we have isolated complete or partial hh-like sequences from a range of invertebrate species including other insects, leech and sea urchin. We have also isolated three mouse and two human DNA fragments encoding distinct hh-like sequences. Our studies have focused upon Hhg-1, a mouse gene encoding a protein with 46% amino acid identity to hh. The Hhg-1 gene, which corresponds to the previously described vhh-1 or sonic class, is expressed in the notochord, ventral neural tube, lung bud, hindgut and posterior margin of the limb bud in developing mouse embryos. By segregation analysis the Hhg-1 gene has been localized to a region in proximal chromosome 5, where two mutations affecting mouse limb development previously have been mapped. In Drosophila embryos, ubiquitous expression of the Hhg-1 gene yields effects upon gene expression and cuticle pattern similar to those observed for the Drosophila hh gene. We also find that cultured quail cells transfected with a Hhg-1 expression construct can induce digit duplications when grafted to anterior or mid-distal but not posterior borders within the developing chick limb; more proximal limb element duplications are induced exclusively by mid-distal grafts. Both in transgenic Drosophila embryos and in transfected quail cells, the Hhg-1 protein product is cleaved to yield two stable fragments from a single larger precursor. The significance of Hhg-1 genetic linkage, patterning activity and proteolytic processing in Drosophila and chick embryos is discussed.
Identification of promoter targets of enhancers by epigenetic knockdown using TAL DNA binding proteins (2013)

A fundamental question in biology is how an organism’s genome controls cellular differentiation and identity to produce numerous distinct cell types. At the epigenome level, this is partially influenced by cell type specific regulatory regions marked by accessible chromatin. Recent genome-wide maps of chromatin modifications and DNA associated proteins have identified over a million candidate regulatory elements in the human genome. These DNA sequence elements are proposed to drive the activation or repression of nearby genes, however new tools are needed to do a thorough and systematic functional analysis of these elements in an endogenous context. Materials and methods To directly test distal elements in a loss of function manner, we have fused the chromatin modifying enzyme lysine specific demethylase 1 (LSD1, also known as KDM1A) to transcription activator-like (TAL) effector DNA binding proteins. The TAL:LSD1 fusions are designed to specifically bind target DNA sequences and alter the nearby chromatin state, specifically demethylation of histone H3 lysine 4 di and mono-methylation (H3K4me2/1), a mark of distal enhancers. We have designed TALs to target over 50 putative distal enhancers. These constructs were individually transfected into the erythroleukemic cell line K562, after which we examined changes in H3K4me2 and H3K27acetylation by ChIP, or examined gene expression changes by RNA-seq. Additionally we designed TALs fused to a 3X FLAG epitope to do ChIP-seq analysis and determine the specificity of TAL targeting. Results We show using TAL:3XFLAG ChIP-seq that binding of TALs is virtually exclusive to their target sequence. We show the TAL:LSD1 fusions have the ability to specifically decrease H3K4me2, as well as H3K27acetyl, another mark of distal enhancers, at their intended target sites. We find roughly 50% of TALs significantly reduce the chromatin modifications at the target enhancer, but not at non-target control enhancers. For a subset of these TAL:LSD1 fusions, we used RNA-seq to identify a nearby gene that is downregulated upon loss of the chromatin state at the enhancer. These nearby target genes show a range of decreased expression, allowing us to relatively quantitate the contribution on transcriptional activation of the target enhancer. Conclusions
Ocular Toxicity of Intravitreal Tacrolimus (2002)

Doses of 10 and 50 microg of tacrolimus are nontoxic to rabbit eyes. Only transient vitreous opacities were observed in the groups that received 100 and 250 microg. Intravitreal doses of 500 and 1000 microg of tacrolimus proved to be toxic to the retina.
Ferritin on the surface of lymphocytes in Hodgkin's disease patients. A possible blocking substance removed by levamisole. (1977)

Enzymatic radioiodination of surface proteins of Hodgkin's disease peripheral blood mononuclear cells revealed the presence of a blocking protein on their surface. This protein shed into the medium after incubation with levamisole, which resulted in the unmasking of surface proteins similar to those on normal monunuclear cells. The blocking substance was identified. It reacted with anti-human spleen ferritin. It had no detectable iron and dissociated into monomeric subunits of 18,000 mol. wt. by reduction and alkylation, and therefore it is most probably apoferritin rather than ferritin.
The light‐harvesting and protective functions of carotenoids in photosynthetic membranes (1987)

Siefermann‐Harms, D. 1987. The light‐harvesting and protective functions of carotenoids in photosynthetic membranes.
Highly efficient uneven multi-level LINC transmitter (2009)

To improve power efficiency in a transmitter, a novel method is proposed, this being an uneven multi-level linear amplifier with a nonlinear component (UMLINC). Compared to a normal multi-level LINC (MLINC), the UMLINC employs a new uneven multi-level signal component separator (UMSCS) that significantly improves transmitter efficiency.