gebhart/patrepeval huggingface dataset:
Dropout improves Recurrent Neural Networks for Handwriting Recognition (2016)

Abstract—Recurrent neural networks (RNNs) with Long Short-Term memory cells currently hold the best known results in unconstrained handwriting recognition. We show that their performance can be greatly improved using dropout- a recently proposed regularization method for deep architectures. While previous works showed that dropout gave superior performance in the context of convolutional networks, it had never been applied to RNNs. In our approach, dropout is carefully used in the network so that it does not affect the recurrent connections, hence the power of RNNs in modeling sequences is preserved. Extensive experiments on a broad range of handwritten databases confirm the effectiveness of dropout on deep architectures even when the network mainly consists of recurrent and shared connections.
Large-Scale Object Discovery and Detector Adaptation from Unlabeled Video (2017)

We explore object discovery and detector adaptation based on unlabeled video sequences captured from a mobile platform. We propose a fully automatic approach for object mining from video which builds upon a generic object tracking approach. By applying this method to three large video datasets from autonomous driving and mobile robotics scenarios, we demonstrate its robustness and generality. Based on the object mining results, we propose a novel approach for unsupervised object discovery by appearance-based clustering. We show that this approach successfully discovers interesting objects relevant to driving scenarios. In addition, we perform self-supervised detector adaptation in order to improve detection performance on the KITTI dataset for existing categories. Our approach has direct relevance for enabling large-scale object learning for autonomous driving.
Flow cytometric measurement of telomere length (2000)

The regulation of telomere length may be involved in the cellular physiology of senescence, reproduction, cancer, immune response to infection, and possibly immune deficiency. The measurement of telomere length, critical to research in this area, has traditionally been performed by Southern blot analysis, which is cumbersome and time consuming. Several alternative methods have been described in recent years. Some, such as pulsed-field electrophoresis, slot blots, and centromere-to-telomere ratio measurements are essentially improvements to the Southern blot technique. However, other methods such as fluorescent in situ hybridization on metaphase chromosome spreads and flow cytometry-based fluorescent in situ hybridization represent a completely new technical approach to the problem. In this review, we compare methods, with particular emphasis placed on flow cytometric techniques for measuring telomere length in situ and identifying potential areas where improvements may still be made.
Interleukin 4 receptor targeted cytotoxicity: Genetic construction and in vivo immunosuppressive activity of a diphtheria toxin‐related murine interleukin 4 fusion protein (1991)

The interleukin 4 (IL 4) receptor is expressed on various cells of the immune system, including T and B lymphocytes, macrophages and mast cells. We have constructed a recombinant protein, DAB389-mIL 4, that is composed of the enzymatically active and membrane translocation domains of diphtheria toxin fused to murine IL 4. We demonstrate that this fusion toxin selectively inhibits protein synsthesis in eukaryotic cells which express the murine IL 4 receptor. The cytotoxic potency of this fusion toxin is shown to be directly proportional to the reported number of IL 4 receptors on the surface of target cells. Since the action of DAB389-mIL 4 can be blocked with either excess mIL 4 or antibody to mIL 4, we conclude that its entry into target cells is mediated through the mIL 4 receptor. A mutant form of DAB389-mIL 4, DA(197)B389-mIL 4, in which the fragment A-associated ADP-ribosyltransferase is inactive, is not cytotoxic to murine IL 4 receptor-bearing cells. Finally, we demonstrate that DAB389-mIL 4 administered subcutaneously to DBA/2 mice results in suppression of delayed-type hypersensitivity (DTH); whereas, the non-toxic DA(197)B389-mIL 4 fails to dampen the DTH response.
Dubious Bargain: Trading Sleep for Leno and Letterman (2009)

Watching television may be an important social Zeitgeber for the time of going to bed. Watching less television in the evening and postponing work start time in the morning appear to be the candidate behavioral changes for achieving additional sleep. While the timing of work may not be flexible, giving up some TV viewing in the evening should be possible to reduce chronic sleep debt and promote adequate sleep in those who need it.
Glutaminyl‐Cyclase Expression in the Bovine/Porcine Hypothalamus and Pituitary (1995)

The expression of the glutaminyl cyclase (QC), an enzyme responsible for the post-translational modification of N-terminal pyroglutamyl residues of neuropeptide precursors, was examined in bovine/porcine hypothalamic and pituitary tissue by means of immunocytochemistry and in situ hybridization. In the anterior pituitary a distinct pattern of QC immunoreactivity and mRNA expression was found associated exclusively with somatotrophs. In corticotrophs of the pars intermedia QC expression was undetectable, whereas a small portion of putative pars tuberalis cells in the rostral part of the pars distalis were heavily labelled. The neurointermediate lobe was devoid of signals for QC mRNA, but showed significant QC-immunoreactivity on secretory granules of axonal nerve endings. Also nuclei of the hypothalamus were found to be positive for QC-immunoreactivity. Intense labelling was observed in the nucleus supraopticus and nucleus paraventricularis. Staining of the nucleus periventricularis was found to be moderate, whereas no labelling of perikarya in the nucleus arcuatus, the preoptic area and the nucleus suprachiasmaticus was detectable. Moreover, varicose fibers stained positive for QC-immunoreactivity and could be identified in the main transport route from the hypothalamus to the pars neuronalis (tractus hypothalamo hypophysialis). These results suggest that the enzyme is transported via the same routes as its substrate/product to the median eminence or the neural lobe. Furthermore, the mapping of the cellular QC distribution reveals a strikingly distinctive expression pattern, that should be useful for the identification of yet undiscovered places of peptide synthesis and processing.
Glycated human serum albumin induces IL-8 and MCP-1 gene expression in human corneal keratocytes (1998)

This differential stimulation of keratocytes, not HUVEC, suggests that GHSA may be a plasma-borne inducer of chemokines acting on resident corneal cells at sites of inflammation where plasma leakage occurs.
Biosynthesis of glycosylphosphatidylinositol membrane anchors (1995)

Research Article| September 01 1995 Biosynthesis of glycosylphosphatidylinositol membrane anchors V L Stevens V L Stevens 1Division of Cancer Biology, Department of Radiation Oncology, and Department of Biochemistry, Emory University School of Medicine, Atlanta, GA 30335, U.S.A. Search for other works by this author on: This Site PubMed Google Scholar Biochem J (1995) 310 (2): 361–370. https://doi.org/10.1042/bj3100361 Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Facebook Twitter LinkedIn Email Cite Icon Cite Get Permissions Citation V L Stevens; Biosynthesis of glycosylphosphatidylinositol membrane anchors. Biochem J 1 September 1995; 310 (2): 361–370. doi: https://doi.org/10.1042/bj3100361 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentAll JournalsBiochemical Journal Search Advanced Search This content is only available as a PDF. © 1995 The Biochemical Society, London1995 Article PDF first page preview Close Modal You do not currently have access to this content.
The mer receptor tyrosine kinase: expression and function suggest a role in innate immunity (2003)

The mer receptor tyrosine kinase mediates phagocytosis of apoptotic cells and modulates cytokine production; it is also required for prevention of systemic autoimmune disease. Using a mer-specific antibody, we have confirmed the presence of mer on macrophages and now report its expression on NK cells, NKT cells, and dendritic cells (DC). We found that DC do not require mer for ingestion of apoptotic cells, as DC from mer-deficient mice phagocytose apoptotic cells normally. Mer was observed in splenic sections on cells outside follicular areas, probably representing DC and macrophages. Mer apparently participates in NKT-cell antigen-induced signaling, as NKT cells from mer-deficient mice evinced much lower cytokine production after in vivo alpha-galactosylceramide stimulation; this defect was intrinsic to the mer-deficient NKT cells. Taken together, these studies show mer expression on cells of the innate immune system. Mer, through its binding of lipid antigens, may not only mediate ingestion of apoptotic cells, but also signal events in NK cells, NKT cells, and DC.
Development of Novel Combination Therapies (2011)

Successful development of future targeted therapies will require the flexibility to rapidly evaluate combination regimens involving new targeted agents in a single development program. The FDA has therefore developed draft guidance on drug co-development.
New development of nonlinear optical crystals for the ultraviolet region with molecular engineering approach (1995)

Potassium fluoroboratoberyllate KBe2BO3F2 (KBBF) has been revealed theoretically and experimentally as a novel ultraviolet nonlinear optical crystal, but it is found to be very difficult to grow in a large size, because of the weak binding interaction between the (Be2BO3)∞ units, which leads to an apparent layer habit in the growth. By using a molecular engineering approach, oxygen bridges when brought in to strengthen the binding between the infinite units are found to be useful to overcome the above shortcoming of KBBF, and in the light of it another new ultraviolet nonlinear optical crystal—strontium boratoberyllate Sr2Be2B2O7 (SBBO) has been discovered. The linear optical properties of SBBO are similar to KBBF’s, but its nonlinear optical properties are better than that of the latter. d22(SBBO)≂d22(β-BaB2O4), which is two times higher than d11 of KBBF. SBBO has very good mechanical properties, and it is also not deliquescent. So SBBO is expected to have great potential for the application in ultraviolet nonlinear optical devices.
Targeted gene addition into a specified location in the human genome using designed zinc finger nucleases (2007)

Efficient incorporation of novel DNA sequences into a specific site in the genome of living human cells remains a challenge despite its potential utility to genetic medicine, biotechnology, and basic research. We find that a precisely placed double-strand break induced by engineered zinc finger nucleases (ZFNs) can stimulate integration of long DNA stretches into a predetermined genomic location, resulting in high-efficiency site-specific gene addition. Using an extrachromosomal DNA donor carrying a 12-bp tag, a 900-bp ORF, or a 1.5-kb promoter-transcription unit flanked by locus-specific homology arms, we find targeted integration frequencies of 15%, 6%, and 5%, respectively, within 72 h of treatment, and with no selection for the desired event. Importantly, we find that the integration event occurs in a homology-directed manner and leads to the accurate reconstruction of the donor-specified genotype at the endogenous chromosomal locus, and hence presumably results from synthesis-dependent strand annealing repair of the break using the donor DNA as a template. This site-specific gene addition occurs with no measurable increase in the rate of random integration. Remarkably, we also find that ZFNs can drive the addition of an 8-kb sequence carrying three distinct promoter-transcription units into an endogenous locus at a frequency of 6%, also in the absence of any selection. These data reveal the surprising versatility of the specialized polymerase machinery involved in double-strand break repair, illuminate a powerful approach to mammalian cell engineering, and open the possibility of ZFN-driven gene addition therapy for human genetic disease.
Liquid Rope Coiling on a Solid Surface (2004)

We present an experimental study of the coiling instability of a liquid "rope" falling on a solid surface. Coiling can occur in three different regimes--viscous, gravitational, or inertial--depending on the fluid viscosity and density, the fall height, and the flow rate. The competition among the different forces causes the coiling frequency first to decrease and subsequently to increase with increasing height. We also observe an oscillation between two coiling states in the gravitational-to-inertial transitional range, reflecting the multivaluedness of the dependence of coiling frequency on fall height. The data can be rescaled in a universal way, and agree very well with numerically predicted coiling frequencies.
EGFR mediates activation of RET in lung adenocarcinoma with neuroendocrine differentiation characterized by ASCL1 expression (2017)

Achaete-scute homolog 1 (ASCL1) is a neuroendocrine transcription factor specifically expressed in 10-20% of lung adenocarcinomas (AD) with neuroendocrine (NE) differentiation (NED). ASCL1 functions as an upstream regulator of the RET oncogene in AD with high ASCL1 expression (A+AD). RET is a receptor tyrosine kinase with two main human isoforms; RET9 (short) and RET51 (long). We found that elevated expression of RET51 associated mRNA was highly predictive of poor survival in stage-1 A+AD (p=0.0057). Functional studies highlighted the role of RET in promoting invasive properties of A+AD cells. Further, A+AD cells demonstrated close to 10 fold more sensitivity to epidermal growth factor receptor (EGFR) inhibitors, including gefitinib, than AD cells with low ASCL1 expression. Treatment with EGF robustly induced phosphorylation of RET at Tyr-905 in A+AD cells with wild type EGFR. This phosphorylation was blocked by gefitinib and by siRNA-EGFR. Immunoprecipitation experiments found EGFR in a complex with RET in the presence of EGF and suggested that RET51 was the predominant RET isoform in the complex. In the microarray datasets of stage-1 and all stages of A+AD, high levels of EGFR and RET RNA were significantly associated with poor overall survival (p < 0.01 in both analyses). These results implicate EGFR as a key regulator of RET activation in A+AD and suggest that EGFR inhibitors may be therapeutic in patients with A+AD tumors even in the absence of an EGFR or RET mutation.
The Dynamics of Signal Triggering in a gp130-Receptor Complex (2007)

gp130 is a shared signal-transducing membrane-associated receptor for several hematopoietic cytokines. The 30 A resolution cryo-electron microscopy (cryo-EM) structure of the Interleukin 11(IL-11)-IL-11 Receptor-gp130 extracellular complex reveals the architecture and dynamics of this gp130-containing signaling complex. Normal-mode analysis reveals a repertoire of conformational changes that could function in signal triggering. This suggests a concerted mechanism of signaling involving all the components of the complex. This could provide a general mechanism of signal transfer for cytokines utilizing the JAK-STAT signaling cascade.
Improved Cell-Free RNA and Protein Synthesis System (2014)

Cell-free RNA and protein synthesis (CFPS) is becoming increasingly used for protein production as yields increase and costs decrease. Advances in reconstituted CFPS systems such as the Protein synthesis Using Recombinant Elements (PURE) system offer new opportunities to tailor the reactions for specialized applications including in vitro protein evolution, protein microarrays, isotopic labeling, and incorporating unnatural amino acids. In this study, using firefly luciferase synthesis as a reporter system, we improved PURE system productivity up to 5 fold by adding or adjusting a variety of factors that affect transcription and translation, including Elongation factors (EF-Ts, EF-Tu, EF-G, and EF4), ribosome recycling factor (RRF), release factors (RF1, RF2, RF3), chaperones (GroEL/ES), BSA and tRNAs. The work provides a more efficient defined in vitro transcription and translation system and a deeper understanding of the factors that limit the whole system efficiency.
A Strong Strand Displacement Activity of Thermostable DNA Polymerase Markedly Improves the Results of DNA Amplification (2014)

The sensitivity and robustness of various DNA detection and amplification techniques are to a large extent determined by the properties of the DNA polymerase used. We have compared the performance of conventional Taq and Bst DNA polymerases to a novel Taq DNA polymerase mutant (SD DNA polymerase), which has a strong strand displacement activity, in PCR (including amplification of GC-rich and complex secondary structure templates), long-range PCR (LR PCR), loop-mediated amplification (LAMP), and polymerase chain displacement reaction (PCDR). Our results demonstrate that the strand displacement activity of SD DNA polymerase, in combination with the robust polymerase activity, provides a notable improvement in the sensitivity and efficiency of all these methods.
At the Crossroads : America, Public Relations & You (1992)

America -- like a weary traveler who comes to a fork in the road and must decide between two divergent paths -- is at a crossroads. Public relations practitioners can play an important role in helping America choose its future path. Unlike a road which leads to a specific destination, the America of today is one which can be transformed into many possible Americas of tomorrow. What shape the future America will ultimately take has yet to be defined. That's because the future agenda has yet to be set. But one thing is certain, the country's future will be shaped by people who have the courage, leadership and influence to chart a new course for America -- people such as you and I. Indeed, public relations professionals have a golden opportunity to play a proactive role in making sure America does not make a wrong turn in its journey to reinvent itself. For practitioners who want to get involved in the redefining of America, PRSA's 45th National Conference, At The Crossroads: America, Public Relations & You, to be held Oct. 25-28 in Kansas City, MO, couldn't come at a better time. With input from attendees, the three-day Conference program will seek answers to these pressing questions: What should the new America stand for? What priorities should public relations professionals focus on? How can practitioners ensure that their voices are heard by policy makers? Will practitioners need to develop new skills to survive? The Kansas City meeting -- strategically located in the nation's heartland -- will also offer a significant educational experience and provide attendees with professional development opportunities to help guide them at this important time. Says John Paluszek, APR, 1992 National Conference chairman: We are at a critical juncture. This is truly a pivotal time for America, for public relations and for many public relations professionals. America must decide how to reshape itself. The public relations profession must achieve new understanding and appreciation. And individual practitioners must develop new skills to achieve greater impact. There's no question that America -- and public relations -- is at a turning point. The collapse of the Soviet empire put an end to the Cold War. U.S. business has been challenged by a recession. Globalization has changed forever how businesses operate. And social problems continue to baffle policymakers. All these changes impact how public relations practitioners perform their jobs. Rapid change has made it even more important for practitioners to be informed about trends and issues affecting their companies, their clients and themselves. But it's no longer enough to simply be informed about what's going on in the world. …
pλZd39: a new type of cDNA expression vector for low background, high efficiency directional cloning (1991)

We have developed a new type of bacteriophage lambda vector which provides a strong biological selection against non-recombinants that is independent of the sequences immediately surrounding the cloning site. This system, which we call 'selective substitution', is ideally suited for cDNA expression vectors where it is necessary to flank the cDNA insert with sequence elements (promoters etc.) required to produce a biologically active mRNA in vivo. Selective substitution is a general method, which may be applied to many types of vectors. In this report, we have specifically applied selective substitution to the construction of a new mammalian retrovirus expression vector. The level of background obtained with this vector (that is, the number of plaques obtained when the vector is ligated in the absence of insert DNA) is 0.02% when compared to ligation with restriction fragments and 0.1% to 0.4% when compared to ligation with newly synthesized cDNA. These features have allowed us to easily and efficiently generate several large cDNA libraries using total and size selected cDNA.
Induction of Mucosal and Systemic Responses against Human Immunodeficiency Virus Type 1 Glycoprotein 120 in Mice after Oral Immunization with a Single Dose of a Salmonella -HIV Vector (1997)

Previous studies from our group showed that a Salmonella-HIV vector vaccine that expressed recombinant HIV-1 envelope protein gp120 stably in the vector cytoplasm elicited type 1 helper T cell (Th1) responses to gp120. Despite the promise of such vaccines, a major limitation in their use was that multiple immunizations were required to elicit even small responses. For this reason, we sought a modified vector configuration that would induce more potent gp120-specific T cell responses exhibiting a broader spectrum of effector functions after a single inoculation. In this article we describe the construction and immunogenicity of a Salmonella-HIV vector that displays a truncated derivative of HIV-1(IIIB) envelope in the periplasm of the vector. A single oral dose of this Salmonella vector, called H683(pW58-asd+), generated a gp120-specific proliferation response in the spleen 14 days after immunization. In agreement with our previous findings, the gp120-specific splenic CD4+ T cells elicited by H683(pW58-asd+) displayed a Th1 phenotype; however, gp120-specific splenic CD4+ Th2 cells were also evident. In addition, this strain induced strong gp120-specific IgA antibody-secreting cell (ASC) responses in the intestinal lamina propria and mesenteric lymph nodes. As many as 2% of the total lamina propria and mesenteric lymph node IgA ASCs were found to be specific for gp120 28 days after a single oral dose of H683(pW57-asd+). Because the proliferative response following a single dose of H683(pW58-asd+) was comparable to that seen previously after three doses of an analogous construct expressing recombinant gp120 in the cytoplasm, these observations suggest that Salmonella-vectored secreted HIV-1 antigens elicit higher T cell responses than their cytoplasmically bound analogs.