gebhart/patrepeval huggingface dataset:
Reversible Acetylation Regulates Salt-inducible Kinase (SIK2) and Its Function in Autophagy* (2013)

Salt-inducible kinase 2 (SIK2) is a serine/threonine protein kinase belonging to the AMP-activated protein kinase (AMPK) family. SIK2 has been shown to function in the insulin-signaling pathway during adipocyte differentiation and to modulate CREB-mediated gene expression in response to hormones and nutrients. However, molecular mechanisms underlying the regulation of SIK2 kinase activity remains largely elusive. Here we report a dynamic, post-translational regulation of its kinase activity that is coordinated by an acetylation-deacetylation switch, p300/CBP-mediated Lys-53 acetylation inhibits SIK2 kinase activity, whereas HDAC6-mediated deacetylation restores the activity. Interestingly, overexpression of acetylation-mimetic mutant of SIK2 (SIK2-K53Q), but not the nonacetylatable K53R variant, resulted in accumulation of autophagosomes. Further consistent with a role in autophagy, knockdown of SIK2 abrogated autophagosome and lysosome fusion. Consequently, SIK2 and its kinase activity are indispensable for the removal of TDP-43Δ inclusion bodies. Our findings uncover SIK2 as a critical determinant in autophagy progression and further suggest a mechanism in which the interplay among kinase and deacetylase activities contributes to cellular protein pool homeostasis.
<title>Subjective image position in stereoscopic TV systems: considerations on comfortable stereoscopic images</title> (1994)

In stereoscopic picture systems, the image should be reproduced in a psychologically proper position that allows comfortable stereoscopic perception. Position matching in observer space between the stereoscopic image and a small marker was successfully adopted to measure the subjective image position. The subjective image position was measured for geometric figures and actual scenes while varying the resolution, contrast, brightness, and color between the L- and R-pictures. The image moves closer to the screen in proportion to the increase in resolution difference. A pair of color and darker monochrome pictures can reproduce acceptable stereoscopic images without conspicuous color rivalry. Mental fatigue is also an important factor in comfortable stereoscopic image viewing. The CFF is discussed together with other factors such as accommodation characteristics, picture quality, and viewing conditions that relate to future stereoscopic TV systems that allow comfortable viewing.
Potential of in vivo real-time gastric gas profiling: a pilot evaluation of heat-stress and modulating dietary cinnamon effect in an animal model (2016)

Gastroenterologists are still unable to differentiate between some of the most ordinary disorders of the gut and consequently patients are misdiagnosed. We have developed a swallowable gas sensor capsule for addressing this. The gases of the gut are the by-product of the fermentation processes during digestion, affected by the gut state and can consequently provide the needed information regarding the health of the gut. Here we present the first study on gas sensor capsules for revealing the effect of a medical supplement in an animal (pig) model. We characterise the real-time alterations of gastric-gas in response to environmental heat-stress and dietary cinnamon and use the gas profiles for understanding the bio-physiological changes. Under no heat-stress, feeding increases gastric CO2 concentration, while dietary cinnamon reduces it due to decrease in gastric acid and pepsin secretion. Alternatively, heat-stress leads to hyperventilation in pigs, which reduces CO2 concentration and with the cinnamon treatment, CO2 diminishes even more, resulting in health improvement outcomes. Overall, a good repeatability in gas profiles is also observed. The model demonstrates the strong potential of real-time gas profiler in providing new physiological information that will impact understanding of therapeutics, presenting a highly reliable device for monitoring/diagnostics of gastrointestinal disorders.
Continuous hydrolysis of caseinomacropeptide in a membrane reactor: kinetic study and gram-scale production of antithrombotic peptides (1995)

A recycle ultrafiltration membrane reactor was used for continuous production of antithrombotic peptides from enzymatic digestion of caseinomacropeptide (CMP). The kinetic parameters of the continuous process were determined on hydrolysis of various substrate concentrations and compared to those of the batch reactor. On the basis of peptide Iiberation, enzymatic activity was 10-fold lower during the continuous process (according to kcat values) while the Km value was not modified. Taking into account these data, an experiment for bioactive peptide production from continuous hydrolysis of 34 9 of CMP was carried out. Alter 6 h of continuous operation, permeate was concentrated by nanofiltration (volume concentration ratio = 12.5), freeze-dried, and the productivity as weil as peptide yield determined. Although desired peptides were partially rejected by the ultrafiltration membrane du ring the continuous process, 2.65 9 of these small molecules (500 to 780 Da) were obtained in the final powder. caseinomacropeptide / hydrolysis / kinetic / antithrombotic peptide / production Rsum -Hydrolyse continue du casinomacropeptide en racteur enzymatique membrane : tude cintique et production de peptides antithrombotiques. Le racteur enzymatique membrane a t utilis pour l'hydrolyse en rgime continu du casinomacropeptide (CMP) en vue de la production d'une famille de peptides de faible masse molculaire, dots d'activit antithrombotique. La transformation de diverses concentrations de substrat a permis de dterminer les paramtres cintiques en rgime continu et de les comparer ceux obtenus en batch. Alors que la valeur de la constante de Michaelis-Menten
Sparse-Graph Codes for Quantum Error Correction (2004)

Sparse-graph codes appropriate for use in quantum error-correction are presented. Quantum error-correcting codes based on sparse graphs are of interest for three reasons. First, the best codes currently known for classical channels are based on sparse graphs. Second, sparse-graph codes keep the number of quantum interactions associated with the quantum error-correction process small: a constant number per quantum bit, independent of the block length. Third, sparse-graph codes often offer great flexibility with respect to block length and rate. We believe some of the codes we present are unsurpassed by previously published quantum error-correcting codes.
Detector for an optical-fiber acoustic sensor using dynamic holographic interferometry (1980)

It is shown that the acoustically induced phase modulation of coherent light propagating within a multimode optical fiber may be linearly detected by an interferometer employing an unmodulated replica of the fiber beam as the reference. It is proposed that a dynamic hologram provide such a reference. This technique allows a performance comparable with that of a monomode interferometric sensor to be obtained, but with considerably relaxed alignment tolerances.
A fine grained heuristic to capture web navigation patterns (2000)

article Free Access Share on A fine grained heuristic to capture web navigation patterns Authors: José Borges Department of Computer Science, University College London, Gower Street, London WC1E 6BT, U.K. Department of Computer Science, University College London, Gower Street, London WC1E 6BT, U.K.View Profile , Mark Levene Department of Computer Science, University College London, Gower Street, London WC1E 6BT, U.K. Department of Computer Science, University College London, Gower Street, London WC1E 6BT, U.K.View Profile Authors Info & Claims ACM SIGKDD Explorations NewsletterVolume 2Issue 1June, 2000 pp 40–50https://doi.org/10.1145/360402.360416Published:01 June 2000Publication History 34citation567DownloadsMetricsTotal Citations34Total Downloads567Last 12 Months17Last 6 weeks1 Get Citation AlertsNew Citation Alert added!This alert has been successfully added and will be sent to:You will be notified whenever a record that you have chosen has been cited.To manage your alert preferences, click on the button below.Manage my AlertsNew Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteeReaderPDF
Calpain Inhibitors as Therapeutic Agents in Nerve and Muscle Degeneration (1999)

It seems plausible to hypothesize that in all forms of neurodegeneration or other forms of tissue degeneration, a common pathway exists that, when deciphered, could lead to our understanding of a variety of diseases that result in tissue necrosis, as well as offer potential for therapeutic intervention. In recent years progress toward elucidating this common pathway has been accelerated through the studies of a number of laboratories, including our own, on the role of the protease calpain in this process. Thus, in a variety of disorders, such as stroke, spinal cord injury, traumatic nerve injury, Parkinson's disease, amyotrophic lateral sclerosis (ALS), Alzheimer's disease, muscular dystrophy, cataract formation, unregulated calpain proteolysis, initiated via dysregulation of calcium ion homeostasis, participates in the pathogenesis and is a potentially unifying mechanistic event. In order to demonstrate the feasibility of the approach we have taken in using the calpain inhibitor leupeptin as a therapeutic agent, I will describe two areas of research in which we have been engaged over the past 20 years. One is our long-standing interest in muscular dystrophy. The other is of more recent vintage, and involves the use of calpain inhibitors to protect sensory hair cells and spiral ganglion neurons from damage associated with acoustic trauma, this latter in collaboration with Dr. R. Salvi at SUNY-Buffalo and Dr. A. Shulman at SUNY-Downstate.
Ribonucleic acid polymerase activities in Jerusalem-artichoke tissue (1974)

1. Artichoke tuber tissue contained RNA polymerase activity bound to the chromatin and in the supernatant after chromatin sedimentation. 2. The activity in the supernatant, the soluble polymerase, was fractionated into polymerases I and II by DEAE-cellulose chromatography, and the properties of each activity were determined. 3. The proportions of chromatin-bound and soluble activities varied with growth of the tissue, and there was a correlation between chromatin-bound activity and RNA accumulation. 4. The properties of the solubilized chromatin activity were compared with those of the soluble activity, and the relationship between these two activities is discussed.
Synthesis of a benzene-annulated analogue of resolving E1 and other lipid mediators (2015)

The resolvins are a class of short-lived, naturally occurring compounds with potent anti-inflammatory effects. Using a sequential Sonogashira-Stille reaction, the formal total synthesis of resolvin E1 and the synthesis of a benzene annulated analogue of this compound were completed. The fusion of the benzene ring improves the stability and retains the molecules activity towards the BLT-1 receptor.
Experimental Research on Hiding Capacity of Echo Hiding in Voice (2010)

Many improvements are developed for echo hiding system, but there is not an intensive study on the hiding capacity of echo hiding. Based on the speech signals with various sampling rate and single echo hiding scheme, this work explores the regular pattern of recovery accuracy and fragment length, and presents that the hiding capacity of speech clip is 55bit/s, and the capacity is not related to the sample frequency of speech signals. Experimental results reveal that the proposed values range of fragment length can yield well performance in recovery accuracy. The results are useful for practical applications.
Covalently Bonded Adducts of Deoxyribonucleic Acid (DNA) Oligonucleotides with Single-Wall Carbon Nanotubes: Synthesis and (2002)

We have developed a multistep route to the formation of covalently linked adducts of single-wall carbon nanotubes (SWNT) and deoxyribonucleic acid (DNA) oligonucleotides. X-ray photoelectron spectroscopy was used to characterize the initial chemical modification to form amineterminated SWNTs, which were then covalently linked to DNA. The resulting DNA-SWNT adducts hybridize selectively with complementary sequences, with only minimal interaction with noncomplementary sequences.
Combined TLR Stimulation With Pam3Cys and Poly I (2012)

The cytokines granulocyte macrophage colony-stimulating factor (GM-CSF) and interleukin (IL)-4 are frequently used for generating dendritic cells (DCs) for therapeutic vaccination against cancer. These in vitro DCs share several characteristics with inflammatory monocyte-derived DCs in vivo. In contrast, culture of bone marrow cells in Flt3-ligand (Flt3L) generates a heterogeneous population of DCs, which comprise conventional DCs (cDCs) and plasmacytoid DCs similar to the steady-state populations found in vivo. Although previous studies have identified combinations of toll-like receptor ligands (TLR-Ls) that induce optimal activation of GM-CSF/IL-4 DCs in vitro, the conditions for optimal activation of Flt3L-DCs have not been established. In this study, we show that various combinations of the TLR-Ls Pam3Cys, Poly I:C, lipopolysaccharide, and CpG all increased Flt3L-DC maturation, but only the combination of Pam3Cys/Poly I:C showed a trend to enhanced production of IL-12p70 and tumor necrosis factor-α by cDCs. Pam3Cys/Poly I:C-treated cDCs also displayed enhanced capacity to present antigen to CD4(+) T cells, and cross-present to CD8(+) T cells, increasing T-cell proliferation in vitro. Within a prophylactic vaccination setting, cDCs activated with Pam3Cys/Poly I:C conferred tumor protection in mice. However, the numbers of cDCs required for protection were higher than the numbers of optimally activated GM-CSF/IL-4 DCs required for a similar effect. Our results show that combined TLR stimulation can enhance both the phenotypic and functional properties of Flt3L-DCs, but even under conditions of optimal activation these cells are not superior in activity to GM-CSF/IL-4 DCs in vivo.
Aquatic Tendencies in the Jumping Mouse (1956)

Notes on the swimming ability of the jumping mouse are recorded by Preble (Jour. Mamm., 25: 200–201, 1944) and Jones (Jour. Mamm., 31: 453–454, 1950). Further to these notes, the writer feels that the following observations might be of interest: In September 1953, while camping by a small river in northern Manitoba, my attention was attracted by continued splashing sounds at the border of the stream. Investigation with a flashlight showed a jumping mouse, Zapus hudsonius sp., swimming from tussock to tussock in a quiet backwater. The mouse showed no alarm at the light and continued its journeys from one small island to another for half an hour, with frequent returns to shore. In this instance, the mouse swam on the surface of the water at all times. Similar activities of presumably the same mouse were observed on the following evening, with the mouse showing no alarm and returning to...
Bibliometric studies on single journals: a review (2009)

This paper covers a total of 82 bibliometric studies on single journals (62 studies cover unique titles) published between 1998 and 2008 grouped into the following fields; Arts, Humanities and Social Sciences (12 items); Medical and Health Sciences (19 items); Sciences and Technology (30 items) and Library and Information Sciences (21 items). Under each field the studies are described in accordance to their geographical location in the following order, United Kingdom, United States and Americana, Europe, Asia (India, Africa and Malaysia). For each study, elements described are (a) the journal’s publication characteristics and indexation information; (b) the objectives; (c) the sampling and bibliometric measures used; and (d) the results observed. A list of journal titles studied is appended. The results show that (a)bibliometric studies cover journals in various fields; (b) there are several revisits of some journals which are considered important; (c) Asian and African contributions is high (41.4% of total studies; 43.5% covering unique titles), United States (30.4% of total; 31.0% on unique titles), Europe (18.2% of total and 14.5% on unique titles) and the United Kingdom (10% of total and 11% on unique titles); (d) a high number of bibliometrists are Indians and as such coverage of Indian journals is high (28% of total studies; 30.6% of unique titles); and (e) the quality of the journals and their importance either nationally or internationally are inferred from their indexation status.
Measurement of regional compliance using 4DCT images for assessment of radiation treatment (2011)

A 4DCT-based mechanical model has been developed to calculate the ventilation and stress images of the lung. The resultant regional compliance represents the lung's elasticity property and is potentially useful in correlating regions of lung damage with radiation dose following a course of radiation therapy.
The isotopic composition of atmospheric methane (1999)

Measurements of the 13 C/ 12 C, D/H and 14 C composition of atmospheric methane (CH 4 ) between 1988 and 1995 are presented. The 13 C/ 12 C measurements represent the first global data set with time series records presented for Point Barrow, Alaska (71°N), Olympic Peninsula, Washington (48°N), Mauna Loa, Hawaii (20°N), American Samoa (14°S), Cape Grim, Australia (41°S), and Baring Head, New Zealand (41°S). North‐south trends of the 13 C/ 12 C and D/H of atmospheric CH 4 from air samples collected during oceanographic research cruises in the Pacific Ocean are also presented. The mean annual δ 13 C increased southward from about −47.7 ‰ at 71°N to −41.2 ‰ at 41°S. The amplitude of the seasonal cycle in δ 13 C ranged from about 0.4 ‰ at 71°N to 0.1 ‰ at 14°S. The seasonal δ 13 C cycle at sites in tropical latitudes could be explained by CH 4 loss via reaction with OH radical, whereas at temperate and polar latitudes in the northern hemisphere seasonal changes in the δ 13 C of the CH 4 source were needed to explain the seasonal cycle. The higher δ 13 C value in the southern (−47.2 ‰) versus northern (−47.4 ‰) hemisphere was a result of interhemispheric transport of CH 4 . A slight interannual δ 13 C increase of 0.02±0.005 ‰ yr −1 was measured at all sites between 1990 and 1995. The mean δD of atmospheric CH 4 was −86±3 ‰ between 1989 and 1995 with a 10 ‰ depletion in the northern versus southern hemisphere. The 14 C content of CH 4 measured at 48°N increased from 122 to 128 percent modern between 1987 and 1995. The proportion of CH 4 released from fossil sources was 18±9% in the early 1990s as derived from the 14 C content of CH 4 .
Large Linear Classification When Data Cannot Fit in Memory (2012)

Recent advances in linear classification have shown that for applications such as document classification, the training process can be extremely efficient. However, most of the existing training methods are designed by assuming that data can be stored in the computer memory. These methods cannot be easily applied to data larger than the memory capacity due to the random access to the disk. We propose and analyze a block minimization framework for data larger than the memory size. At each step a block of data is loaded from the disk and handled by certain learning methods. We investigate two implementations of the proposed framework for primal and dual SVMs, respectively. Because data cannot fit in memory, many design considerations are very different from those for traditional algorithms. We discuss and compare with existing approaches that are able to handle data larger than memory. Experiments using data sets 20 times larger than the memory demonstrate the effectiveness of the proposed method.
Construction and Adhesive Properties of a Soluble MAdCAM‐1‐Fc Chimera Expressed in a Baculovirus System: Phylogenetic Conservation of Receptor‐Ligand Interaction (1995)

MAdCAM-1 is a high endothelial venule adhesion molecule composed of immunoglobulin and mucin-like domains which binds the leucocyte integrin LPAM-1 (alpha 4 beta 7), and is largely responsible for the selective homing of lymphocytes to mucosal tissues. A novel soluble form of mouse MAdCAM-1 which is normally membrane bound has been produced by joining the extracellular region of the receptor to the Fc domain of human IgG1. The MAdCAM-1-Fc cDNA was inserted into the genome of Autographa californica nuclear polyhedrosis virus (AcNPV). Spodoptera frugiperda insect cells infected with the recombinant virus produced MAdCAM-1-Fc as a disulfide-linked homodimer of 82 kDa polypeptides, which was secreted into the culture medium at > 1 microgram/ml. The product purified by Protein G-Sepharose was identified as authentic MAdCAM-1-Fc by the anti-MAdCAM-1 monoclonal antibody (MoAb) MECA-367 using Western blot and ELISA analysis. When immobilized on glass it was fully functional in supporting the binding of mouse alpha 4 beta 1+ alpha 4 beta 7+ mesenteric lymph node lymphocytes, and the alpha 4 beta 1- alpha 4 beta 7+ TK1 T cell lymphoma. Binding was enhanced by Mn(++)-induced integrin activation, and specifically blocked by anti-integrin alpha 4 subunit and anti-MAdCAM-1 MoAbs. Binding was blocked by pretreatment of cells with sodium azide, and EDTA, indicating that binding is an energy-dependent process which requires divalent cations. Thus the mouse MAdCAM-1-Fc chimera produced in insect cells retains certain functional properties that typify the native receptor, and should be valuable in analysing the role of MAdCAM-1 in lymphocyte recirculation and emigration. However it was not sialylated despite being post-translational modified with N- and O-linked carbohydrate moieties, suggesting that the ability of MAdCAM-1 to support cell adhesion under static conditions is sialylation-independent. A rabbit polyclonal antibody raised against the entire cytoplasmic domain of the human integrin beta 7 subunit recognized LPAM-1-like molecules in human, rat, and mouse cells, suggesting a high degree of conservation of the MAdCAM-1 receptor across species. In agreement with this notion MAdCAM-1-Fc immobilized on glass was fully functional in supporting the cation-dependent binding of peripheral blood or spleen cells from a range of other species including human, rat, and guinea pig; and for human myeloid HL60 cells, binding was mediated by alpha 4 integrins.
Pitfalls in public key watermarking (2003)

The cryptographic concept of digital signatures is well suited to image watermarking for authentication and integrity verification. However, the peculiar nature of watermarks demands special care in the application of digital signatures for this purpose. We cryptanalyze a recently proposed watermarking scheme and show how it can be strengthened to thwart our attacks, exploring the use of hashing function contexts and signature algorithms based on elliptic curve cryptography.
Mutations Affecting Amino Sugar Metabolism in <i>Escherichia coli</i> K-12 (1972)

The genetic loci determining N-acetylglucosamine-6-phosphate deacetylase and glucosamine-6-phosphate deaminase have been located at min 16 on the Escherichia coli K-12 genetic map.
Combined Antibiotic Therapy. (1965)

THE INDICATIONS FOR COMBINED ANTIBIOTIC THERAPY ARE REVIEWED, AND TWO MAJOR INDICATIONS ARE DISCUSSED AT LENGTH: the prevention of development of antibiotic resistance and the possibility of achieving antibiotic synergism.Since micro-organisms vary in their behaviour in the presence of different antibiotic combinations, careful evaluation of clinical response and close laboratory control are necessary.Antibiotics are divided into four groups and their possible combinations are described. It is emphasized that bactericidal antibiotics, e.g. penicillin and streptomycin, which act only on multiplying bacteria, may be antagonized by some bacteriostatic antibiotics, e.g. tetracycline. Clinical observations appear to confirm the usefulness of this division of the antibiotics.