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https://www.readbyqxmd.com/read/29318668/vibrational-entropy-estimation-can-improve-binding-affinity-prediction-for-non-obligatory-protein-complexes
#1
Tatjana Škrbić, Stefano Zamuner, Rolando Hong, Flavio Seno, Alessandro Laio, Antonio Trovato
Predicting the binding affinity between protein monomers is of paramount importance for the understanding of thermodynamical and structural factors that guide the formation of a complex. Several numerical techniques have been developed for the calculation of binding affinities with different levels of accuracy. Approaches such as thermodynamic integration and Molecular Mechanics/Poisson-Boltzmann Surface Area (MM/PBSA) methodologies which account for well defined physical interactions offer good accuracy but are computationally demanding...
January 10, 2018: Proteins
https://www.readbyqxmd.com/read/29308273/bacterial-bioluminescence-onset-and-quenching-a-dynamical-model-for-a-quorum-sensing-mediated-property
#2
Domenico Delle Side, Vincenzo Nassisi, Cecilia Pennetta, Pietro Alifano, Marco Di Salvo, Adelfia Talà, Aleksei Chechkin, Flavio Seno, Antonio Trovato
We present an effective dynamical model for the onset of bacterial bioluminescence, one of the most studied quorum sensing-mediated traits. Our model is built upon simple equations that describe the growth of the bacterial colony, the production and accumulation of autoinducer signal molecules, their sensing within bacterial cells, and the ensuing quorum activation mechanism that triggers bioluminescent emission. The model is directly tested to quantitatively reproduce the experimental distributions of photon emission times, previously measured for bacterial colonies of Vibrio jasicida, a luminescent bacterium belonging to the Harveyi clade, growing in a highly drying environment...
December 2017: Royal Society Open Science
https://www.readbyqxmd.com/read/29234806/diagnostic-assessment-of-deep-learning-algorithms-for-detection-of-lymph-node-metastases-in-women-with-breast-cancer
#3
COMPARATIVE STUDY
Babak Ehteshami Bejnordi, Mitko Veta, Paul Johannes van Diest, Bram van Ginneken, Nico Karssemeijer, Geert Litjens, Jeroen A W M van der Laak, Meyke Hermsen, Quirine F Manson, Maschenka Balkenhol, Oscar Geessink, Nikolaos Stathonikos, Marcory Crf van Dijk, Peter Bult, Francisco Beca, Andrew H Beck, Dayong Wang, Aditya Khosla, Rishab Gargeya, Humayun Irshad, Aoxiao Zhong, Qi Dou, Quanzheng Li, Hao Chen, Huang-Jing Lin, Pheng-Ann Heng, Christian Haß, Elia Bruni, Quincy Wong, Ugur Halici, Mustafa Ümit Öner, Rengul Cetin-Atalay, Matt Berseth, Vitali Khvatkov, Alexei Vylegzhanin, Oren Kraus, Muhammad Shaban, Nasir Rajpoot, Ruqayya Awan, Korsuk Sirinukunwattana, Talha Qaiser, Yee-Wah Tsang, David Tellez, Jonas Annuscheit, Peter Hufnagl, Mira Valkonen, Kimmo Kartasalo, Leena Latonen, Pekka Ruusuvuori, Kaisa Liimatainen, Shadi Albarqouni, Bharti Mungal, Ami George, Stefanie Demirci, Nassir Navab, Seiryo Watanabe, Shigeto Seno, Yoichi Takenaka, Hideo Matsuda, Hady Ahmady Phoulady, Vassili Kovalev, Alexander Kalinovsky, Vitali Liauchuk, Gloria Bueno, M Milagro Fernandez-Carrobles, Ismael Serrano, Oscar Deniz, Daniel Racoceanu, Rui Venâncio
Importance: Application of deep learning algorithms to whole-slide pathology images can potentially improve diagnostic accuracy and efficiency. Objective: Assess the performance of automated deep learning algorithms at detecting metastases in hematoxylin and eosin-stained tissue sections of lymph nodes of women with breast cancer and compare it with pathologists' diagnoses in a diagnostic setting. Design, Setting, and Participants: Researcher challenge competition (CAMELYON16) to develop automated solutions for detecting lymph node metastases (November 2015-November 2016)...
December 12, 2017: JAMA: the Journal of the American Medical Association
https://www.readbyqxmd.com/read/29228699/iron-depletion-is-a-novel-therapeutic-strategy-to-target-cancer-stem-cells
#4
Takayuki Ninomiya, Toshiaki Ohara, Kazuhiro Noma, Yuki Katsura, Ryoichi Katsube, Hajime Kashima, Takuya Kato, Yasuko Tomono, Hiroshi Tazawa, Shunsuke Kagawa, Yasuhiro Shirakawa, Fumiaki Kimura, Ling Chen, Tomonari Kasai, Masaharu Seno, Akihiro Matsukawa, Toshiyoshi Fujiwara
Adequate iron levels are essential for human health. However, iron overload can act as catalyst for the formation of free radicals, which may cause cancer. Cancer stem cells (CSCs), which maintain the hallmark stem cell characteristics of self-renewal and differentiation capacity, have been proposed as a driving force of tumorigenesis and metastases. In the present study, we investigated the role of iron in the proliferation and stemness of CSCs, using the miPS-LLCcm cell model. Although the anti-cancer agents fluorouracil and cisplatin suppressed the proliferation of miPS-LLCcm cells, these drugs did not alter the expression of stemness markers, including Nanog, SOX2, c-Myc, Oct3/4 and Klf4...
November 17, 2017: Oncotarget
https://www.readbyqxmd.com/read/29225172/role-of-allograft-inflammatory-factor-1-in-bleomycin-induced-lung-fibrosis
#5
Hidetake Nagahara, Takahiro Seno, Aihiro Yamamoto, Hiroshi Obayashi, Takuya Inoue, Takashi Kida, Amane Nakabayashi, Yuji Kukida, Kazuki Fujioka, Wataru Fujii, Ken Murakami, Masataka Kohno, Yutaka Kawahito
Allograft inflammatory factor-1 (AIF-1) is a protein expressed by macrophages infiltrating the area around the coronary arteries in a rat ectopic cardiac allograft model. We previously reported that AIF-1 is associated with the pathogenesis of rheumatoid arthritis and skin fibrosis in sclerodermatous graft-versus-host disease mice. Here, we used an animal model of bleomycin-induced lung fibrosis to analyze the expression of AIF-1 and examine its function in lung fibrosis. The results showed that AIF-1 was expressed on lung tissues, specifically macrophages, from mice with bleomycin-induced lung fibrosis...
December 7, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/29223381/a-case-of-ceco-colonic-intussusception-after-the-endoscopic-submucosal-dissection-of-a-cecal-adenoma
#6
Osamu Araki, Akihisa Fukuda, Toshihiro Kusaka, Hiroshi Seno
No abstract text is available yet for this article.
December 6, 2017: Gastrointestinal Endoscopy
https://www.readbyqxmd.com/read/29212801/roles-of-high-mobility-group-box-1-and-thrombin-in-murine-pulmonary-fibrosis-and-the-therapeutic-potential-of-thrombomodulin
#7
Takashi Kida, Takahiro Seno, Hidetake Nagahara, Takuya Inoue, Amane Nakabayashi, Yuji Kukida, Kazuki Fujioka, Wataru Fujii, Makoto Wada, Masataka Kohno, Yutaka Kawahito
Cross-talk between inflammation and coagulation plays important roles in acute or subacute progressive pulmonary fibrosis characterized by diffuse alveolar damage. Thrombomodulin is a physiological inhibitor of high-mobility group box 1 (HMGB1) and thrombin, and may be effective for this condition. This study investigated the roles of HMGB1 and thrombin in the pathophysiology of bleomycin-induced pulmonary fibrosis and the efficacy of recombinant human soluble thrombomodulin (rhTM). Pulmonary fibrosis was induced in wild-type C57BL/6 mice by intratracheal instillation of bleomycin...
December 6, 2017: American Journal of Physiology. Lung Cellular and Molecular Physiology
https://www.readbyqxmd.com/read/29204263/the-oscillating-potential-model-of-visually-induced-vection
#8
Takeharu Seno, Ken-Ichi Sawai, Hidetoshi Kanaya, Toshihiro Wakebe, Masaki Ogawa, Yoshitaka Fujii, Stephen Palmisano
Visually induced illusions of self-motion are often referred to as vection. This article developed and tested a model of responding to visually induced vection. We first constructed a mathematical model based on well-documented characteristics of vection and human behavioral responses to this illusion. We then conducted 10,000 virtual trial simulations using this Oscillating Potential Vection Model (OPVM). OPVM was used to generate simulated vection onset, duration, and magnitude responses for each of these trials...
November 2017: I-Perception
https://www.readbyqxmd.com/read/29181859/tumor-invasion-to-the-arteries-feeding-the-gallbladder-as-a-novel-risk-factor-for-cholecystitis-after-metallic-stent-placement-in-distal-malignant-biliary-obstruction
#9
Yuko Sogabe, Yuzo Kodama, Hajime Honjo, Ikuo Aoyama, Yuya Muramoto, Eri Koga, Takafumi Yanaidani, Munenori Kawai, Teppei Yoshikawa, Shimpei Matsumoto, Astushi Matsumoto, Yoshiharu Mori, Chikage Ono, Miyu Nishida, Yoshihiro Nishida, Takao Mikami, Yasuhiro Matsunaga, Yukiko Miyamoto, Motoya Kitami, Koji Nishikawa, Masahiko Kondo, Naoki Miyake, Chiharu Kawanami, Hiroshi Seno
BACKGROUND AND AIM: Cholecystitis is a major complication after self-expandable metallic stent (SEMS) placement for malignant biliary obstruction. Ischemia is one of the risk factors for cholecystitis, but little is known about the influence of tumor invasion to the feeding artery of the gallbladder on the onset of cholecystitis after SEMS placement. The aim of the present study was to identify risk factors for cholecystitis after SEMS placement. METHODS: Incidence and nine predictive factors of cholecystitis were retrospectively evaluated in 107 patients who underwent SEMS placement for unresectable distal malignant biliary obstruction at Kyoto University Hospital and Otsu Red Cross Hospital between January 2012 and June 2016...
November 27, 2017: Digestive Endoscopy: Official Journal of the Japan Gastroenterological Endoscopy Society
https://www.readbyqxmd.com/read/29174787/updated-trends-in-gallbladder-and-other-biliary-tract-cancers-worldwide
#10
EDITORIAL
Tomonori Matsumoto, Hiroshi Seno
No abstract text is available yet for this article.
November 22, 2017: Clinical Gastroenterology and Hepatology
https://www.readbyqxmd.com/read/29159420/smoothness-of-stimulus-motion-can-affect-vection-strength
#11
Yoshitaka Fujii, Takeharu Seno, Robert S Allison
We examined the effect of the smoothness of motion on vection strength. The smoothness of stimulus motion was modulated by varying the number of frames comprising the movement. In this study, a horizontal grating translated through 360° of phase in 1 s divided into steps of 3, 4, 6, 12, 20, 30, or 60 frames. We hypothesized that smoother motion should induce stronger vection because the smoother stimulus is more natural and contains more motion energy. We examined this effect of frame number on vection for both downward (Experiment 1) and expanding (Experiment 2) optical flow...
November 20, 2017: Experimental Brain Research. Experimentelle Hirnforschung. Expérimentation Cérébrale
https://www.readbyqxmd.com/read/29130299/-role-of-vitamin-d-in-female-reproduction
#12
Vincenzo DE Leo, Valentina Cappelli, Giuseppe Morgante, Alessandra DI Sabatino
La vit. D, o calcitriolo, è stata identificata inizialmente nei primi anni '20 ed ha un ruolo chiave nella regolazione del metabolismo osseo, nell'omeostasi del calcio e del fosforo e nel promuovere la mineralizzazione ossea. Le azioni della vit. D sono mediante tramite un recettore nucleare (VDR), che è espresso in numerosi organi come l'intestino, l'osso e il rene, ma anche nelle gonadi, nel seno, nel pancreas, nel sistema cardiovascolare, nel cervello (microglia) e nelle cellule del sistema immunitario...
November 10, 2017: Minerva Ginecologica
https://www.readbyqxmd.com/read/29084399/hepatitis-c-treatment-with-sofosbuvir-and-ledipasvir-accompanied-by-immediate-improvement-in-hemoglobin-a1c
#13
Atsuyuki Ikeda, Kaori Ikeda, Atsushi Takai, Ken Takahashi, Yoshihide Ueda, Hiroyuki Marusawa, Horoshi Seno, Nobuya Inagaki, Hiroyuki Kokuryu
BACKGROUND/AIMS: Direct-acting antiviral agents (DAAs) have increased the sustained viral response rate with minimal adverse effects and short treatment duration. In addition, recent data suggest the possibility that hepatitis C virus (HCV) clearance results in rapid improvement in metabolic pathways. The aim of the present study was to evaluate whether the DAA treatment without ribavirin lowers hemoglobin A1c (HbA1c) at 12 weeks after therapy completion. METHODS: We performed an observational study to assess the effect of sofosbuvir and ledipasvir (SOF/LED) treatment on glycemic control...
October 30, 2017: Digestion
https://www.readbyqxmd.com/read/29080485/suppression-of-the-release-of-arsenic-from-arsenopyrite-by-carrier-microencapsulation-using-ti-catechol-complex
#14
Ilhwan Park, Carlito Baltazar Tabelin, Kagehiro Magaribuchi, Kensuke Seno, Mayumi Ito, Naoki Hiroyoshi
Arsenopyrite is the most common arsenic-bearing sulfide mineral in nature, and its weathering contributes to acid mine drainage (AMD) formation and the release of toxic arsenic (As). To mitigate this problem, carrier-microencapsulation (CME) using titanium (Ti)-catechol complex (i.e., Ti-based CME) was investigated to passivate arsenopyrite by forming a protective coating. Ti(4+) ion dissolved in sulfuric acid and catechol were used to successfully synthesize Ti(IV) tris-catecholate complex, [Ti(Cat)3](2-), which was stable in the pH range of 5-12...
October 14, 2017: Journal of Hazardous Materials
https://www.readbyqxmd.com/read/29067115/advanced-glycation-end-products-and-lipopolysaccharides-stimulate-interleukin-6-secretion-via-the-rage-tlr4-nf-%C3%AE%C2%BAb-ros-pathways-and-resveratrol-attenuates-these-inflammatory-responses-in-mouse-macrophages
#15
Ayaka Ohtsu, Yui Shibutani, Kotomi Seno, Hisataka Iwata, Takehito Kuwayama, Koumei Shirasuna
Macrophages are essential for regulating the physiology of pregnancy; however, excessive inflammatory responses to macrophages, induced by infection and/or endogenous danger signals, may potentially result in complications during pregnancy. Advanced glycation end-products (AGE) and lipopolysaccharides (LPS) are known to induce inflammation and are associated with adverse developmental outcomes. The aim of the present study was to examine the effect of AGE and LPS on cytokines in the J774 murine macrophage cell line and the potential effect of resveratrol on AGE- and LPS-induced inflammation in macrophages...
November 2017: Experimental and Therapeutic Medicine
https://www.readbyqxmd.com/read/29055675/a-transient-insulin-system-dysfunction-in-newborn-rat-brain-followed-by-neonatal-intracerebroventricular-administration-of-streptozotocin-could-be-accompanied-by-a-labile-cognitive-impairment
#16
Zohreh Abbasi, Fatemeh Behnam-Rassouli, Mohammad Mahdi Ghahramani Seno, Masoud Fereidoni
The early postnatal period is a critical period of hippocampus development, which is highly dependent on insulin receptor (IR) signaling and very important in cognitive function. The present study was conducted in order to present a model of neonatal transient brain insulin system dysfunction through finding an appropriate dose of injection of streptozotocin (STZ) during the neonatal period. Sixty male Wistar rat pups were divided into 4 groups of 15 and received intracerebroventricular saline or STZ (icv-STZ) (15, 20 and 25μg/kg) on postnatal day 7...
October 18, 2017: Neuroscience Research
https://www.readbyqxmd.com/read/29040364/preliminary-3-year-evaluation-of-experience-with-silksurface-and-velvetsurface-motiva-silicone-breast-implants-a-single-center-experience-with-5813-consecutive-breast-augmentation-cases
#17
Marcos Sforza, Renato Zaccheddu, Angelo Alleruzzo, Adriano Seno, Domenico Mileto, Arnaldo Paganelli, Hassan Sulaiman, Michael Payne, Lajos Maurovich-Horvat
Background: Silicone breast implants have been in use for breast augmentation for more than 50 years, but technological innovation has been lacking in implant design until recently. Objectives: This study was designed to evaluate the complication and reoperation rates following breast augmentation utilizing the Motiva silicone breast implants. Methods: This retrospective study evaluated the safety of Motiva implants in 5813 consecutive cases of breast augmentation...
September 14, 2017: Aesthetic Surgery Journal
https://www.readbyqxmd.com/read/29033437/acute-anorectal-thrombophlebitis-caused-by-a-protein-c-deficiency
#18
Yuji Eso, Satoshi Yoshiji, Yuto Nakakubo, Minoru Matsuura, Hiroshi Seno
A 46-year-old man visited the emergency department of our hospital with a 3-day history of anal pain, hemorrhaging, and a slight fever. He had previously been diagnosed with protein C deficiency and was prescribed dabigatran, a direct oral anticoagulant. Contrast-enhanced computed tomography showed severe rectal wall thickening with partial defect of enhancement. In addition, sigmoidoscopy revealed a dusky purplish swollen anorectal mucosa just above the dentate line. He was diagnosed with acute anorectal thrombophlebitis, and anticoagulant therapy with heparin was initiated...
October 16, 2017: Internal Medicine
https://www.readbyqxmd.com/read/29030203/characterization-and-clinical-evaluation-of-a-novel-2d-detector-array-for-conventional-and-flattening-filter-free-fff-imrt-pre-treatment-verification
#19
Yuvaraj Sekar, Johannes Thoelking, Miriam Eckl, Irakli Kalichava, Dwi Seno Kuncoro Sihono, Frank Lohr, Frederik Wenz, Hansjoerg Wertz
BACKGROUND AND PURPOSE: The novel MatriXX(FFF) (IBA Dosimetry, Germany) detector is a new 2D ionization chamber detector array designed for patient specific IMRT-plan verification including flattening-filter-free (FFF) beams. This study provides a detailed analysis of the characterization and clinical evaluation of the new detector array. MATERIAL AND METHODS: The verification of the MatriXX(FFF) was subdivided into (i) physical dosimetric tests including dose linearity, dose rate dependency and output factor measurements and (ii) patient specific IMRT pre-treatment plan verifications...
October 10, 2017: Zeitschrift Für Medizinische Physik
https://www.readbyqxmd.com/read/29028431/interferon-tau-regulates-cytokine-production-and-cellular-function-in-human-trophoblast-cell-line
#20
Nao Tanikawa, Kotomi Seno, Ryouka Kawahara-Miki, Koji Kimura, Shuichi Matsuyama, Hisataka Iwata, Takehito Kuwayama, Koumei Shirasuna
Type I interferons (IFN), including IFN-beta (IFNB), activate multiple STAT signaling to drive various biological responses. Another type I IFN, IFN-tau (IFNT), secreted by ruminant embryonic trophoblast cells, has multiple functions with low cytotoxicity. Here, we examined the effects of IFNT on human trophoblast cell functions. First, we performed next-generation sequencing and demonstrated that IFNT-dependent changes in the human Sw.71 trophoblast cell line are partly mediated by proinflammatory as well as IFN signaling...
October 2017: Journal of Interferon & Cytokine Research
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