gebhart/patrepeval huggingface dataset:
A 26-base-pair repetitive sequence specific for Neisseria gonorrhoeae and Neisseria meningitidis genomic DNA (1986)

Two-dimensional heteroduplex mapping of Neisseria gonorrhoeae genomic DNA revealed a number of spots, indicating the existence of repetitive sequences. When one of the spots was extracted and used as a probe for Southern blot analysis, two HindIII bands (11.0 and 3.6 kilobases [kb]) of the genomic digest hybridized with approximately equal intensity. The 3.6-kb fragment was cloned and found to contain two different types of repeated sequence. One type was approximately 1.1 kb in length and was found at least twice in the entire genome. The other consisted of a 26-base-pair family GT(C/A)C(Py)G(Pu)TTTTTGTTAAT(Py)C(Pu)CTATA (Py, pyrimidine; Pu, purine) that was repeated at least 20 times in the entire genome. This repetitive sequence was found also in Neisseria meningitidis but not in various other gram-negative bacteria.
Total synthesis of cephalotaxine (1972)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTTotal synthesis of cephalotaxineJoseph Auerbach and Steven M. WeinrebCite this: J. Am. Chem. Soc. 1972, 94, 20, 7172–7173Publication Date (Print):October 1, 1972Publication History Published online1 May 2002Published inissue 1 October 1972https://pubs.acs.org/doi/10.1021/ja00775a062https://doi.org/10.1021/ja00775a062research-articleACS PublicationsRequest reuse permissionsArticle Views961Altmetric-Citations85LEARN 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
Efficacy and Safety of Doxepin 1 mg, 3 mg, and 6 mg in Adults with Primary Insomnia (2007)

In adults with primary insomnia, doxepin 1 mg, 3 mg, and 6 mg was well-tolerated and produced improvement in objective and subjective sleep maintenance and duration endpoints that persisted into the final hour of the night. The side-effect profile was comparable to placebo, with no reported anticholinergic effects, no memory impairment, and no significant hangover/next-day residual effects. These data demonstrate that doxepin 1 mg, 3 mg, and 6 mg is efficacious in improving the sleep of patients with chronic primary insomnia.
Carbon Nanotube Field-Effect Transistors with Integrated Ohmic Contacts and High-κ Gate Dielectrics (2004)

High-performance enhancement-mode semiconducting carbon nanotube field-effect transistors (CNTFETs) are obtained by combining ohmic metal−tube contacts, high-dielectric-constant HfO2 films as gate insulators, and electrostatically doped nanotube segments as source/drain electrodes. The combination of these elements affords high ON currents and subthreshold swings of ∼70−80 mV/decade and allows for low OFF currents and suppressed ambipolar conduction. The doped source and drain approach resembles that of MOSFETs and can impart excellent OFF states to nanotube FETs under aggressive vertical scaling. This presents an important advantage over devices with a metal source/drain, or devices commonly referred to as Schottky barrier FETs.
Allopurinol Increases Ear Swelling and Mortality in a Dinitrofluorobenzene-Induced Contact Hypersensitivity Mouse Model. (1999)

The immunomodulatory effects of allopurinol were investigated in a mouse contact hypersensitivity model. Allopurinol caused a time- and dose-dependent lethal effect in dinitrofluorobenzene (DNFB)-sensitized mice. Furthermore, allopurinol markedly increased ear swelling in the remaining mice. In contrast, TMX-67, a newly synthesized xanthine oxidase/xanthine dehydrogenase (XOD/XDH) inhibitor, had almost no effect on DNFB-sensitized mice. Allopurinol reduced both the spleen weight and white blood cell count in DNFB-sensitized mice without affecting the T cell subset of splenocytes. The production of interferon (IFN)-gamma, in the splenocytes of DNFB-sensitized mice was reduced by allopurinol administration. Death due to allopurinol was much lower in the non-sensitized mice than in the DNFB-sensitized mice. These findings indicate that allopurinol may interact with DNFB to enhance its toxicity and allopurinol might also modulate or enhance the inflammatory effect of DNFB. Also, DNFB may cause metabolic alterations via inflammation, leading to enhanced allopurinol toxicity.
Multivalent, bifunctional dendrimers prepared by click chemistry (2005)

Unsymmetrical dendrimers, containing both mannose binding units and coumarin fluorescent units, have been prepared using click chemistry and shown to be highly efficient, dual-purpose recognition/detection agents for the inhibition of hemagglutination.
Aminooxy-, Hydrazide-, and Thiosemicarbazide-Functionalized Saccharides:  Versatile Reagents for Glycoconjugate Synthesis (1998)

ADVERTISEMENT RETURN TO ISSUEPREVCommunicationNEXTAminooxy-, Hydrazide-, and Thiosemicarbazide-Functionalized Saccharides: Versatile Reagents for Glycoconjugate SynthesisElena C. Rodriguez, Lisa A. Marcaurelle, and Carolyn R. BertozziView Author Information Department of Chemistry, University of California, Berkeley, California 94720 Cite this: J. Org. Chem. 1998, 63, 21, 7134–7135Publication Date (Web):October 1, 1998Publication History Received13 July 1998Published online1 October 1998Published inissue 1 October 1998https://pubs.acs.org/doi/10.1021/jo981351nhttps://doi.org/10.1021/jo981351nrapid-communicationACS PublicationsCopyright © 1998 American Chemical SocietyRequest reuse permissionsArticle Views2354Altmetric-Citations88LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-AlertscloseSupporting Info (1)»Supporting Information Supporting Information SUBJECTS:Carbohydrates,Peptides and proteins,Reaction products,Reagents,Scaffolds Get e-Alerts
A Promoter Recruitment Mechanism for Tumor Necrosis Factor-α-induced Interleukin-8 Transcription in Type II Pulmonary Epithelial Cells (1998)

The alveolar macrophage-derived peptide tumor necrosis factor-alpha (TNFalpha) initiates pulmonary inflammation through its ability to stimulate interleukin-8 (IL-8) synthesis in alveolar epithelial cells through an incompletely described transcriptional mechanism. In this study, we use the technique of ligation-mediated polymerase chain reaction (LMPCR) to record changes in transcription factor occupancy of the IL-8 promoter after TNFalpha stimulation of A549 human alveolar cells. Using dimethylsulfate/LMPCR, no detectable proteins bind the TATA box in unstimulated cells. By contrast, TNFalpha rapidly induces protection of G residues at -79 and -80 coincident with endogenous IL-8 gene transcription. Using DNase I/LMPCR, we observe inducible protection of nucleotides -60 to -99 (the TNF response element) and nucleotides -3 to -32 (containing the TATA box). Surprisingly, extensive TATA box protection is only seen after TNFalpha stimulation. Using a two-step microaffinity isolation/Western immunoblot DNA binding assay, we observe that the NF-kappaB subunits Rel A, NF-kappaB1, and c-Rel inducibly bind the TNF response element; these proteins undergo rapid TNFalpha-inducible increases in nuclear abundance as a consequence of IkappaBalpha proteolysis. Furthermore, the peptide aldehyde N-acetyl-Leu-Leu-norleucinal, an agent that blocks both IkappaBalpha proteolysis and NF-kappaB subunit translocation, abrogates recombinant human TNFalpha-inducible IL-8 gene transcription. These studies demonstrate that IL-8 is activated by a promoter recruitment mechanism in alveolar epithelial cells, where NF-kappaB subunit translocation is required for (and coincident with) binding of the constitutively active TATA box-binding proteins.
Role-based access control and distributed object-based enterprise computing (1996)

Article Free Access Share on Role-based access control and distributed object-based enterprise computing Author: Roshan Thomas Odyssey Research Associates, 301 Dates Drive Ithaca, NY Odyssey Research Associates, 301 Dates Drive Ithaca, NYView Profile Authors Info & Claims RBAC '95: Proceedings of the first ACM Workshop on Role-based access controlDecember 1996 Pages 21–eshttps://doi.org/10.1145/270152.270194Online:01 December 1996Publication History 1citation414DownloadsMetricsTotal Citations1Total Downloads414Last 12 Months4Last 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 Alerts New Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteeReaderPDF
Modulation of gene expression during aging of human vascular endothelial cells. (1993)

Vascular endothelial cells are thought to play an important role in human aging as their senescence and detachment from a vascular wall may contribute to arteriosclerosis and high blood pressure in the elderly. We investigated the level of fibronectin (FN) expression in aortic endothelial cells aged in vivo, because FN is necessary for cell attachment and spreading and its increased expression had been shown in aging fibroblasts. The results showed that the steady state level of expression of FN mRNA increased with advancing donor age, while the labeling index of cultured cells decreased with age. Furthermore, the increased level of FN expression clearly correlated with an increase in cell area. In order to explore whether these changes reflected exhaustion of proliferation potential in vivo, we examined FN expression in human umbilical vein endothelial (HUVE) cells aging in vitro. Very similar results were obtained, supporting the idea that vascular endothelial cells age in vivo by using up division potential. Furthermore, we investigated the level of endothelin (ET) -1 mRNA expression during in vitro cellular aging of HUVE cells. The results showed that the expression of ET-1 gene was also up-regulated when the culture became old. It is very interesting that the genes for quite different proteins of FN and ET-1 are both up-regulated during cellular aging.
Prostate cancer : the second Tokyo symposium (1989)

FUNDAMENTAL STUDIES. Limitations of Androgen Withdrawal Therapy of Prostatic Carcinoma - The Next Step? (N. Bruchovsky et al). Androgen Dependency of Androgen-Dependent Mouse Tumor (Shionogi Carcinoma 115) (Jan Shimazaki et al). The Mechanism of Hormonal Resistance in the Treatment of Prostate Cancer (D.S. Coffey). Genetic and Cytogenetic Aspects of Human Prostate Cancer (A.A. Sandberg). CARCINOGENESIS . Carcinogenesis of Prostate Cancer (J.F. Lechner). Rat Prostatic Carcinogenesis Induced by 3.2'Dimethyl-4-Aminobiphenyl (Tomoyuki Shirai and Nobuyuki Ito). Biological Features of the Prostatic Ductal System and Experimental Induction of Abnormal Ductal Morphology (Yoshiki Sugimura et al). PROGRAMS. (USA-Japan) . NCI's Organ Systems Program for Prostate Cancer: Progress and Future Directions (J.P. Karr). Mass Screening for Prostate Cancer in Japan Prostate Cancer Screening Cooperative Group. PATHOLOGY. Histopathological Comparison of Prostatic Carcinoma Between Japanese in Japan and Japanese-Americans in Hawaii (Ryuichi Yatani et al). Prostatic Carcinoma with Melanosis (Izuru Matsumoto et al). Two Central Types of Papillary Adenocarcinoma of the Prostate (Mitsuru Kinjo et al). DIAGNOSIS. Clinical Evaluation of Prostate-Specific Antigen in Prostate Cancer (Manabu Kuriyama). Clinical Evaluation of Gamma-Seminoprotein (g-Sm) in Prostate Cancer (Kei Matsuoka and Kosaku Eto). Diagnostic Modalities in Prostate Cancer - Biological Markers, Transrectal Ultrasound, Magnetic Resonance (J. Edson Pontes). SURGICAL MANAGEMENT. Radical Prostatectomy for Localized Prostatic Cancer: Prognostic Factors (J. Edson Pontes). Clinical Experience of Nerve Sparing Radical Prostatectomy through Campbell's Procedure (Kiyoki Okada et al). Significance of Surgical Management for Advanced Prostatic Cancer (Keiichi Matsumoto). HORMONE THERAPY. Clinical Evaluation of Prostate Cancer Treatment with an LH-RH Agonist Depot Formulation, TAP 144-SR (Sustained Release Leuprolide) Based on New Response Evaluation Criteria TAP 144-SR Study Group. Endocrine Therapy for Prostatic Carcinoma with an LH-RH Analogue ICI 118,630 (Zoladex) Zoladex Multicenter Study Group. Treatment of Newly Diagnosed Stage D2 Prostate Cancer with a Combination of LH-RH Analogue and Flutamide (E.D. Crawford). CHEMOTHERAPY. Chemotherapy for Advanced Prostate Cancer (R.P. Huben). Chemotherapy for Advanced Adenocarcinoma of the Prostate with Alternating VIP/DMF Regimen (Yosuke Matsumura and Jun Yoshimoto). Chemotherapy for Prostate Cancer with Combination of Cis-Diamminedichloroplatinum (II)(CDDP) (Yoshihiko Hirao et al). RADIOTHERAPY. Treatment of Localized Prostate Cancer by Interstitial (W.F. Whitmore Jr and B. Hilaris). Supervoltage Radiotherapy of Stage B and C Prostatic Cancer (Tsuneo Kawai et al). Intraoperative Radiotherapy of Localized Carcinoma of the Prostate (Kenichiro Okada et al).
A Randomized Multicentre Phase II Trial Comparing Adjuvant Therapy in Patients with Interferon Alpha-2b and 5-FU Alone or in Combination with Either External Radiation Treatment and Cisplatin (CapRI) or Radiation alone regarding Event-Free Survival – CapRI-2 (2009)

Current Controlled Trials ISRCTN79802092.
Displacement Mapping on the GPU — State of the Art (2008)

Abstract This paper reviews the latest developments of displacement mapping algorithms implemented on the vertex, geometry, and fragment shaders of graphics cards. Displacement mapping algorithms are classified as per‐vertex and per‐pixel methods. Per‐pixel approaches are further categorized as safe algorithms that aim at correct solutions in all cases, to unsafe techniques that may fail in extreme cases but are usually much faster than safe algorithms, and to combined methods that exploit the robustness of safe and the speed of unsafe techniques. We discuss the possible roles of vertex, geometry and fragment shaders to implement these algorithms. Then the particular GPU‐based bump, parallax, relief, sphere, horizon mapping, cone stepping, local ray tracing, pyramidal and view‐dependent displacement mapping methods, as well as their numerous variations are reviewed providing also implementation details of the shader programs. We present these methods using uniform notations and also point out when different authors called similar concepts differently. In addition to basic displacement mapping, self‐shadowing and silhouette processing are also reviewed. Based on our experiences gained having reimplemented these methods, their performance and quality are compared, and the advantages and disadvantages are fairly presented.
Therapy of Small Cell Lung Cancer (SCLC) with a Topoisomerase-I–inhibiting Antibody–Drug Conjugate (ADC) Targeting Trop-2, Sacituzumab Govitecan (2017)

<b>Purpose:</b> We evaluated a Trop-2-targeting antibody conjugated with SN-38 in metastatic small cell lung cancer (mSCLC) patients.<b>Experimental Design:</b> Sacituzumab govitecan was studied in patients with pretreated (median, 2; range, 1-7) mSCLC who received either 8 or 10 mg/kg i.v. on days 1 and 8 of 21-day cycles. The primary endpoints were safety and objective response rate (ORR); duration of response, progression-free survival (PFS), and overall survival (OS) were secondary endpoints.<b>Results:</b> Sixty percent of patients showed tumor shrinkage from baseline CTs. On an intention-to-treat basis (<i>N</i> = 50), the ORR was 14% (17% for the 10-mg/kg group); the median response duration, 5.7 months; the clinical benefit rate (CBR ≥4 months), 34%; median PFS, 3.7 months; and median OS, 7.5 months. There was a suggested improvement in PR, CBR, and PFS with sacituzumab govitecan in second-line patients who were sensitive to first-line therapy, but no difference between first-line chemosensitive versus chemoresistant patients in the overall population. There was a statistically significant higher OS in those patients who received prior topotecan versus no topotecan therapy in a small subgroup. Grade ≥3 adverse events included neutropenia (34%), fatigue (13%), diarrhea (9%), and anemia (6%). Trop-2 tumor staining was not required for patient selection. No antibodies to the drug conjugate or its components were detected on serial blood collections.<b>Conclusions:</b> Sacituzumab govitecan appears to have a safe and effective therapeutic profile in heavily pretreated mSCLC patients, including those who are chemosensitive or chemoresistant to first-line chemotherapy. Additional studies as a monotherapy or combination therapy are warranted. <i>Clin Cancer Res; 23(19); 5711-9. ©2017 AACR</i>.
Immunocytochemical localization of extracellular superoxide dismutase in human lung. (1994)

The labeling distribution of EC-SOD in human lungs was defined using immunohistochemistry and immunocytochemical techniques. The findings suggest that EC-SOD is not diffusely located throughout the lung, but has a specific distribution in the extracellular matrix. These findings on the distribution of EC-SOD suggest that specific roles for EC-SOD may include the protection of matrix elements such as collagen from oxidative stress and that it may also function in the regulation of intercellular signals that are modulated by reactive oxygen species.
Oil accumulation mechanisms of the oleaginous microalga Chlorella protothecoides revealed through its genome, transcriptomes, and proteomes (2014)

Despite similarities to other Chlorella, C. protothecoides has a smaller genome than its close relatives. Genes involved in glucose utilization were identified, and these genes explained its ability to grow heterotrophically. Transcriptomic and proteomic results provided insight into its extraordinary ability to accumulate large amounts of lipid. The C. protothecoides draft genome will promote the use of this species as a research model.
Ionic Effects on the Stability and Conformation of Peptide Nucleic Acid Complexes (1996)

Peptide nucleic acid (PNA) is a DNA analogue in which the negatively charged sugar phosphate backbone has been substituted by uncharged N-(2-aminoethyl)glycine units. The study of a PNA−DNA duplex and the corresponding DNA−DNA duplex gives a unique opportunity to compare two polyelectrolytes with virtually identical geometry but greatly different linear charge density. The results provide a basis for a study of the applicability of the Poisson−Boltzmann (PB) and counterion condensation (CC) theories. UV and circular dichroism spectroscopy as well as isothermal titration calorimetry (ITC) have been used to study the effect of different ions on the stability and conformation of PNA−DNA, PNA−PNA, and DNA−DNA duplexes having the same base sequences. Cations in general destabilize both antiparallel (N/3‘) and parallel (N/5‘) PNA−DNA duplexes whereas they stabilize the DNA−DNA duplex. Studies on the effect of monovalent salt such as NaCl on Tm were carried out over a wide range of salt concentrations (0.01 to 5 M). The decrease in the Tm of the N/3‘ PNA−DNA duplex with increasing ionic strength in the range of concentrations of 0.01 to 0.5 M, where electrostatic effects predominate, is explained in terms of counterion release upon duplex formation in contrast to the counterion association accompanying the formation of a DNA duplex. The uncharged PNA−PNA duplex shows no significant destabilization in this concentration range. The higher stability of the N/3‘ PNA−DNA compared to the DNA−DNA duplex (ΔΔG ∼ −7 kcal/mol) is ascribed to more favorable entropic contributions consistent with the counterion release that accompanies the PNA−DNA duplex formation. At high salt concentration (>1 M), where electrostatic contributions saturate, similar trends in the decrease in Tm were observed for the three types of duplexes irrespective of their backbone charges. The destabilizing effects of a series of Na salts with various monovalent anions on N/3‘ PNA−DNA and PNA−PNA duplexes were found to follow the Hofmeister series, emphasizing the importance of the hydrophobic interaction between nucleobases for the stability of the PNA complexes in high salt concentration.
Differential expression proteomics of human colorectal cancer based on a syngeneic cellular model for the progression of adenoma to carcinoma (2009)

This is the first differential expression proteomics study on a human syngeneic cellular in vitro progression model of the colorectal adenoma-to-carcinoma sequence, the anchorage-dependent non-tumorigenic adenoma derived cell line AA/C1 and the derived anchorage-independent and tumorigenic carcinoma cell line AA/C1/SB10C. The study is based on quantitative 2-DE and is complemented by Western blot validation. Excluding redundancies due to proteolysis and post-translational modified isoforms of over 2000 protein spots, 13 proteins were revealed as regulated with statistical variance being within the 95th confidence level and were identified by peptide mass fingerprinting in MALDI MS. Progression-associated proteins belong to the functional complexes of anaerobic glycolysis/gluconeogenesis, steroid biosynthesis, prostaglandin biosynthesis, the regulation and maintenance of the cytoskeleton, protein biosynthesis and degradation, the regulation of apoptosis or other functions. Partial but significant overlap was revealed with previous proteomics and transcriptomics studies in colorectal carcinoma. Among upregulated proteins we identified 3-HMG-CoA synthase, protein phosphatase 1, prostaglandin E synthase 2, villin 1, annexin A1, triosephosphate isomerase, phosphoserine aminotransferase 1, fumarylacetoacetate hydrolase and pyrroline-5-carboxylate reductase 1 (PYCR1), while glucose-regulated protein 78, cathepsin D, lamin A/C and quinolate phosphoribosyltransferase were downregulated.