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1. Cha JH, Bae SH, Kim HL, Park NR, Choi ES, Jung ES, Choi JY, Yoon SK: Branched-chain amino acids ameliorate fibrosis and suppress tumor growth in a rat model of hepatocellular carcinoma with liver cirrhosis. PLoS One; 2013;8(11):e77899
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  • RESULTS: The mean area and number of dysplastic nodules (DNs) and tumors in the casein group tended to be larger than those in the BCAA group 16 weeks after DEN administration.

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  • (PMID = 24223741.001).
  • [ISSN] 1932-6203
  • [Journal-full-title] PloS one
  • [ISO-abbreviation] PLoS ONE
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Amino Acids, Branched-Chain; 0 / Anticarcinogenic Agents; 3IQ78TTX1A / Diethylnitrosamine
  • [Other-IDs] NLM/ PMC3815299
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2. Ogundajo A, Ashafa AT: Phytochemical Compositions and <i>In vitro</i> Assessments of Antioxidant and Antidiabetic Potentials of Fractions from <i>Ehretia cymosa</i> Thonn. Pharmacogn Mag; 2017 Oct;13(Suppl 3):S470-S480
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  • <b>Abbreviations used:</b> ABTS: 2,2- Azino-bis (3-ethylbenzothiazoline)-6-sulfonic acid, DPPH: 1,1-diphenyl-2-picryl-hydrazyl, PMS: Phenazine methosulfate, NBT: Nitroblue tetrazolium, NADH: Nicotinamide adenine dinucleotide, TCA: Trichloroacetic acid, TBA: Thiobarbituric acid, DNS: Dinitrosalicylic acid.

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  • (PMID = 29142401.001).
  • [ISSN] 0973-1296
  • [Journal-full-title] Pharmacognosy magazine
  • [ISO-abbreviation] Pharmacogn Mag
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] India
  • [Keywords] NOTNLM ; Ehretia cymosa / antioxidant / bioactive / diabetes / α-amylase / α-glucosidase
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3. Gaasbeek EJ, Wagenaar JA, Guilhabert MR, van Putten JP, Parker CT, van der Wal FJ: Nucleases encoded by the integrated elements CJIE2 and CJIE4 inhibit natural transformation of Campylobacter jejuni. J Bacteriol; 2010 Feb;192(4):936-41
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  • For a subset of strains we previously showed that a periplasmic DNase, encoded by dns, inhibits natural transformation in C. jejuni.
  • In the present study, genetic factors coding for DNase activity in the absence of dns were identified.
  • DNA arrays indicated that nonnaturally transformable dns-negative strains contain putative DNA/RNA nonspecific endonucleases encoded by CJE0566 and CJE1441 of strain RM1221.

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  • (PMID = 20023031.001).
  • [ISSN] 1098-5530
  • [Journal-full-title] Journal of bacteriology
  • [ISO-abbreviation] J. Bacteriol.
  • [Language] eng
  • [Databank-accession-numbers] GEO/ GSE18399
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Bacterial Proteins; 0 / DNA, Bacterial; 0 / RNA, Bacterial; EC 3.1.- / Deoxyribonucleases
  • [Other-IDs] NLM/ PMC2812962
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4. Seper A, Fengler VH, Roier S, Wolinski H, Kohlwein SD, Bishop AL, Camilli A, Reidl J, Schild S: Extracellular nucleases and extracellular DNA play important roles in Vibrio cholerae biofilm formation. Mol Microbiol; 2011 Nov;82(4):1015-37
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  • Biofilms are a preferred mode of survival for many microorganisms including Vibrio cholerae, the causative agent of the severe secretory diarrhoeal disease cholera.
  • Thus, a better understanding of biofilm formation and transmission of V. cholerae is an important target to control the disease.
  • Furthermore, we show that extracellular DNA is modulated and controlled by the two extracellular nucleases Dns and Xds.

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  • [Copyright] © 2011 Blackwell Publishing Ltd.
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  • (PMID = 22032623.001).
  • [ISSN] 1365-2958
  • [Journal-full-title] Molecular microbiology
  • [ISO-abbreviation] Mol. Microbiol.
  • [Language] eng
  • [Grant] United States / Howard Hughes Medical Institute / / ; United States / NIAID NIH HHS / AI / R01 AI055058; United States / NIAID NIH HHS / AI / R01 AI055058-09; United States / NIAID NIH HHS / AI / AI055058
  • [Publication-type] Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 0 / DNA, Bacterial; EC 3.1.- / Deoxyribonucleases
  • [Other-IDs] NLM/ NIHMS330678; NLM/ PMC3212620
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5. Spencer M, Eickholt J, Jianlin Cheng: A Deep Learning Network Approach to ab initio Protein Secondary Structure Prediction. IEEE/ACM Trans Comput Biol Bioinform; 2015 Jan-Feb;12(1):103-12
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  • [Title] A Deep Learning Network Approach to ab initio Protein Secondary Structure Prediction.
  • Ab initio protein secondary structure (SS) predictions are utilized to generate tertiary structure predictions, which are increasingly demanded due to the rapid discovery of proteins.
  • Although recent developments have slightly exceeded previous methods of SS prediction, accuracy has stagnated around 80 percent and many wonder if prediction cannot be advanced beyond this ceiling.
  • Disciplines that have traditionally employed neural networks are experimenting with novel deep learning techniques in attempts to stimulate progress.
  • Since neural networks have historically played an important role in SS prediction, we wanted to determine whether deep learning could contribute to the advancement of this field as well.
  • We developed an SS predictor that makes use of the position-specific scoring matrix generated by PSI-BLAST and deep learning network architectures, which we call DNSS.
  • Graphical processing units and CUDA software optimize the deep network architecture and efficiently train the deep networks.
  • Optimal parameters for the training process were determined, and a workflow comprising three separately trained deep networks was constructed in order to make refined predictions.
  • This deep learning network approach was used to predict SS for a fully independent test dataset of 198 proteins, achieving a Q3 accuracy of 80.7 percent and a Sov accuracy of 74.2 percent.

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  • (PMID = 25750595.001).
  • [ISSN] 1557-9964
  • [Journal-full-title] IEEE/ACM transactions on computational biology and bioinformatics
  • [ISO-abbreviation] IEEE/ACM Trans Comput Biol Bioinform
  • [Language] ENG
  • [Grant] United States / NIGMS NIH HHS / GM / R01 GM093123; United States / NIGMS NIH HHS / GM / T32 GM008396; United States / NIGMS NIH HHS / GM / R01GM093123
  • [Publication-type] Journal Article; Research Support, N.I.H., Extramural
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Proteins
  • [Other-IDs] NLM/ NIHMS635792; NLM/ PMC4348072
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6. Tschida K, Bhandawat V: Activity in descending dopaminergic neurons represents but is not required for leg movements in the fruit fly Drosophila. Physiol Rep; 2015 Mar;3(3)
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  • Modulatory descending neurons (DNs) that link the brain to body motor circuits, including dopaminergic DNs (DA-DNs), are thought to contribute to the flexible control of behavior.
  • Dopamine elicits locomotor-like outputs and influences neuronal excitability in isolated body motor circuits over tens of seconds to minutes, but it remains unknown how and over what time scale DA-DN activity relates to movement in behaving animals.
  • To address this question, we identified DA-DNs in the Drosophila brain and developed an electrophysiological preparation to record and manipulate the activity of these cells during behavior.
  • We find that DA-DN spike rates are rapidly modulated during a subset of leg movements and scale with the total speed of ongoing leg movements, whether occurring spontaneously or in response to stimuli.
  • However, activating DA-DNs does not elicit leg movements in intact flies, nor do acute bidirectional manipulations of DA-DN activity affect the probability or speed of leg movements over a time scale of seconds to minutes.
  • Our findings indicate that in the context of intact descending control, changes in DA-DN activity are not sufficient to influence ongoing leg movements and open the door to studies investigating how these cells interact with other descending and local neuromodulatory inputs to influence body motor output.

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  • [Copyright] © 2015 The Authors. Physiological Reports published by Wiley Periodicals, Inc. on behalf of the American Physiological Society and The Physiological Society.
  • (PMID = 25742959.001).
  • [ISSN] 2051-817X
  • [Journal-full-title] Physiological reports
  • [ISO-abbreviation] Physiol Rep
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] United States
  • [Other-IDs] NLM/ PMC4393157
  • [Keywords] NOTNLM ; Dopamine / Drosophila / in vivo electrophysiology / motor control / neuromodulation
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7. Steed ME, Vidaillac C, Rybak MJ: Evaluation of telavancin activity versus daptomycin and vancomycin against daptomycin-nonsusceptible Staphylococcus aureus in an in vitro pharmacokinetic/pharmacodynamic model. Antimicrob Agents Chemother; 2012 Feb;56(2):955-9
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  • Daptomycin-nonsusceptible (DNS) Staphylococcus aureus strains have been reported over the last several years.
  • Three clinical DNS S. aureus strains, CB1814, R6212, and SA-684, were evaluated in an in vitro pharmacokinetic/pharmacodynamic (PK/PD) model with simulated endocardial vegetations (starting inoculum, 10(8.5) CFU/g) for 120 h.
  • Telavancin displayed bactericidal activity in vitro against DNS S. aureus isolates.

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  • (PMID = 22123693.001).
  • [ISSN] 1098-6596
  • [Journal-full-title] Antimicrobial agents and chemotherapy
  • [ISO-abbreviation] Antimicrob. Agents Chemother.
  • [Language] eng
  • [Publication-type] Evaluation Studies; Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Aminoglycosides; 0 / Anti-Bacterial Agents; 6Q205EH1VU / Vancomycin; NWQ5N31VKK / Daptomycin; XK134822Z0 / telavancin
  • [Other-IDs] NLM/ PMC3264278
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9. Tchernev G, Ananiev J, Cardoso JC, Chokoeva AA, Philipov S, Penev PK, Lotti T, Wollina U: Multiple primary cutaneous melanomas in patients with FAMMM syndrome and sporadic atypical mole syndrome (AMS): what's worse? Wien Med Wochenschr; 2014 Aug;164(15-16):302-7
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  • [Title] Multiple primary cutaneous melanomas in patients with FAMMM syndrome and sporadic atypical mole syndrome (AMS): what's worse?
  • Atypical Mole Syndrome is the most important phenotypic risk factor for cutaneous melanoma, a malignancy that accounts for about 80% of deaths from skin cancer.
  • Since early diagnosis of melanoma is of great prognostic relevance, the identification of Atypical Mole Syndrome carriers (sporadic and familial) is essential, as well as the recommendation of preventative measures that must be undertaken by these patients.We report two rare cases concerning patients with multiple primary skin melanomas in the setting of a familial and a sporadic syndrome of dysplastic nevi: the first patient is a 67-year-old patient with a history of multiple superficial spreading melanomas localized on his back.
  • The second patient presented with multiple primary melanomas in advanced stage in the context of the so-called sporadic form of the syndrome of dysplastic nevi-AMS (atypical mole syndrome).
  • We classified the second case as a sporadic form of the atypical mole syndrome, associated with one nodular and two superficial spreading melanomas.There are no data in the literature to allow us to understand if, in patients with multiple primary melanomas, there is any difference in terms of prognosis between those with and without a family history of a similar phenotype.
  • [MeSH-major] Melanoma / diagnosis. Neoplasms, Multiple Primary / diagnosis. Nevus / diagnosis. Precancerous Conditions / diagnosis. Skin Neoplasms / diagnosis
  • [MeSH-minor] Aged. Biopsy. Dermoscopy. Disease Progression. Fatal Outcome. Humans. Male. Skin / pathology. Syndrome

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  • (PMID = 25096163.001).
  • [ISSN] 1563-258X
  • [Journal-full-title] Wiener medizinische Wochenschrift (1946)
  • [ISO-abbreviation] Wien Med Wochenschr
  • [Language] eng
  • [Publication-type] Case Reports; Journal Article
  • [Publication-country] Austria
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10. Couvé S, Ladroue C, Laine E, Mahtouk K, Guégan J, Gad S, Le Jeune H, Le Gentil M, Nuel G, Kim WY, Lecomte B, Pagès JC, Collin C, Lasne F, Benusiglio PR, Bressac-de Paillerets B, Feunteun J, Lazar V, Gimenez-Roqueplo AP, Mazure NM, Dessen P, Tchertanov L, Mole DR, Kaelin W, Ratcliffe P, Richard S, Gardie B: Genetic evidence of a precisely tuned dysregulation in the hypoxia signaling pathway during oncogenesis. Cancer Res; 2014 Nov 15;74(22):6554-64
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  • The classic model of tumor suppression implies that malignant transformation requires full "two-hit" inactivation of a tumor-suppressor gene.
  • Homozygotes or compound heterozygotes for the R200W germline mutation in VHL have Chuvash polycythemia, whereas heterozygous carriers are free of disease.
  • Individuals with classic, heterozygous VHL mutations have VHL disease and are at high risk of multiple tumors (e.g., CNS hemangioblastomas, pheochromocytoma, and renal cell carcinoma).
  • We report here an atypical family bearing two VHL gene mutations in cis (R200W and R161Q), together with phenotypic analysis, structural modeling, functional, and transcriptomic studies of these mutants in comparison with classical mutants involved in the different VHL phenotypes.
  • We demonstrate that the complex pattern of disease manifestations observed in VHL syndrome is perfectly correlated with a gradient of VHL protein (pVHL) dysfunction in hypoxia signaling pathways.
  • Thus, by studying naturally occurring familial mutations, our work validates in humans the "continuum" model of tumor suppression.

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  • [Copyright] ©2014 American Association for Cancer Research.
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  • (PMID = 25371412.001).
  • [ISSN] 1538-7445
  • [Journal-full-title] Cancer research
  • [ISO-abbreviation] Cancer Res.
  • [Language] eng
  • [Grant] United States / Howard Hughes Medical Institute / / ; United States / NCI NIH HHS / CA / P50 CA101942; United States / NCI NIH HHS / CA / R01 CA068490
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Basic Helix-Loop-Helix Transcription Factors; 0 / endothelial PAS domain-containing protein 1; EC 2.3.2.27 / Von Hippel-Lindau Tumor Suppressor Protein; EC 6.3.2.- / VHL protein, human
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