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https://www.readbyqxmd.com/read/28092028/sh2-ligand-prediction-guidance-for-in-silico-screening
#1
Shawn S C Li, Lei Li
Systematic identification of binding partners for SH2 domains is important for understanding the biological function of the corresponding SH2 domain-containing proteins. Here, we describe two different web-accessible computer programs, SMALI and DomPep, for predicting binding ligands for SH2 domains. The former was developed using a Scoring Matrix method and the latter based on the Support Vector Machine model.
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28091819/the-status-of-diagnosis-and-treatment-to-intracranial-hypotension-including-sih
#2
REVIEW
Jin-Ping Lin, Shu-Dong Zhang, Fei-Fang He, Min-Jun Liu, Xiao-Xu Ma
Intracranial hypotension, especially spontaneous intracranial hypotension (SIH), is a well-recognized entity associated with cerebrospinal fluid (CSF) leaks, and has being recognized better in resent years, while still woefully inadequate. An increasing number of factors including iatrogenic factors are realized to involve in development and progression of intracranial hypotension. The diagnosis remains difficult due to the various clinical manifestations, some of which are nonspecific and easily to be neglected...
December 2017: Journal of Headache and Pain
https://www.readbyqxmd.com/read/28091344/a-comprehensive-systematic-review-and-meta-analysis-of-pharmacological-and-dietary-supplement-interventions-in-paediatric-autism-moderators-of-treatment-response-and-recommendations-for-future-research
#3
A Masi, A Lampit, M M DeMayo, N Glozier, I B Hickie, A J Guastella
BACKGROUND: Autism spectrum disorders (ASDs) are pervasive and multifactorial neurodevelopmental conditions, characterized by impairments in social communication and interaction, and restricted, repetitive patterns of behaviour, interests or activities. Treatment options to ameliorate symptoms of ASDs are limited. Heterogeneity complicates the quest for personalized medicine in this population. Our aim was to investigate if there are baseline characteristics of patients that moderate response or trial design features that impede the identification of efficacious interventions for ASDs...
January 16, 2017: Psychological Medicine
https://www.readbyqxmd.com/read/28090632/identification-of-highly-selective-mmp-14-inhibitory-fabs-by-deep-sequencing
#4
Tyler Lopez, Dong Hyun Nam, Evan Kaihara, Zahid Mustafa, Xin Ge
Matrix metalloproteinase (MMP)-14 is an important target for cancer treatment due to its critical roles in tumor invasion and metastasis. Previous failures of all compound-based broad-spectrum MMP inhibitors in clinical trials suggest that selectivity is the key for a successful therapy. With inherent high specificity, monoclonal antibodies (mAbs) therefore arise as attractive inhibitors able to target the particular MMP of interest. As a routine screening method, enzyme-linked immunosorbent assays (ELISA) have been applied to panned phage libraries for the isolation of mAbs inhibiting MMP-14...
January 16, 2017: Biotechnology and Bioengineering
https://www.readbyqxmd.com/read/28089995/systematic-evaluation-of-markers-used-for-the-identification-of-human-induced-pluripotent-stem-cells
#5
Sumitha Prameela Bharathan, Kannan Vrindavan Manian, Syed Mohammed Musheer Aalam, Dhavapriya Palani, Prashant Ajit Deshpande, Mankuzhy Damodaran Pratheesh, Alok Srivastava, Shaji Ramachandran Velayudhan
Low efficiency of somatic cell reprogramming and heterogeneity among human induced pluripotent stem cells (hiPSCs) demand extensive characterization of isolated clones before their use in downstream applications. By monitoring human fibroblasts undergoing reprogramming for their morphological changes and expression of fibroblast (CD13), pluripotency markers (SSEA-4 and TRA-1-60) and a retrovirally expressed red fluorescent protein (RV-RFP), we compared the efficiency of these features to identify bona fide hiPSC colonies...
January 15, 2017: Biology Open
https://www.readbyqxmd.com/read/28089984/achieving-consensus-on-total-joint-replacement-trial-outcome-reporting-using-the-omeract-filter-endorsement-of-the-final-core-domain-set-for-total-hip-and-total-knee-replacement-trials-for-endstage-arthritis
#6
Jasvinder A Singh, Michelle M Dowsey, Michael Dohm, Susan M Goodman, Amye L Leong, Marieke M J H Scholte Voshaar, Peter F Choong
OBJECTIVE: Discussion and endorsement of the OMERACT total joint replacement (TJR) core domain set for total hip replacement (THR) and total knee replacement (TKR) for endstage arthritis; and next steps for selection of instruments. METHODS: The OMERACT TJR working group met at the 2016 meeting at Whistler, British Columbia, Canada. We summarized the previous systematic reviews, the preliminary OMERACT TJR core domain set and results from previous surveys. We discussed preliminary core domains for TJR clinical trials, made modifications, and identified challenges with domain measurement...
January 15, 2017: Journal of Rheumatology
https://www.readbyqxmd.com/read/28089112/predictive-utility-of-the-total-glasgow-coma-scale-versus-the-motor-component-of-the-glasgow-coma-scale-for-identification-of-patients-with-serious-traumatic-injuries
#7
REVIEW
Roger Chou, Annette M Totten, Nancy Carney, Spencer Dandy, Rongwei Fu, Sara Grusing, Miranda Pappas, Ngoc Wasson, Craig D Newgard
STUDY OBJECTIVE: The motor component of the Glasgow Coma Scale (mGCS) has been proposed as an easier-to-use alternative to the total GCS (tGCS) for field assessment of trauma patients by emergency medical services. We perform a systematic review and meta-analysis to compare the predictive utility of the tGCS versus the mGCS or Simplified Motor Scale in field triage of trauma for identifying patients with adverse outcomes (inhospital mortality or severe brain injury) or who underwent procedures (neurosurgical intervention or emergency intubation) indicating need for high-level trauma care...
January 11, 2017: Annals of Emergency Medicine
https://www.readbyqxmd.com/read/28088073/strategies-to-design-clinical-studies-to-identify-predictive-biomarkers-in-cancer-research
#8
REVIEW
Jose Luis Perez-Gracia, Miguel F Sanmamed, Ana Bosch, Ana Patiño-Garcia, Kurt A Schalper, Victor Segura, Joaquim Bellmunt, Josep Tabernero, Christopher J Sweeney, Toni K Choueiri, Miguel Martín, Juan Pablo Fusco, Maria Esperanza Rodriguez-Ruiz, Alfonso Calvo, Celia Prior, Luis Paz-Ares, Ruben Pio, Enrique Gonzalez-Billalabeitia, Alvaro Gonzalez Hernandez, David Páez, Jose María Piulats, Alfonso Gurpide, Mapi Andueza, Guillermo de Velasco, Roberto Pazo, Enrique Grande, Pilar Nicolas, Francisco Abad-Santos, Jesus Garcia-Donas, Daniel Castellano, María J Pajares, Cristina Suarez, Ramon Colomer, Luis M Montuenga, Ignacio Melero
The discovery of reliable biomarkers to predict efficacy and toxicity of anticancer drugs remains one of the key challenges in cancer research. Despite its relevance, no efficient study designs to identify promising candidate biomarkers have been established. This has led to the proliferation of a myriad of exploratory studies using dissimilar strategies, most of which fail to identify any promising targets and are seldom validated. The lack of a proper methodology also determines that many anti-cancer drugs are developed below their potential, due to failure to identify predictive biomarkers...
December 30, 2016: Cancer Treatment Reviews
https://www.readbyqxmd.com/read/28087644/u-s-fda-approval-summary-nivolumab-for-treatment-of-unresectable-or-metastatic-melanoma-following-progression-on-ipilimumab
#9
Maitreyee Hazarika, Meredith K Chuk, Marc R Theoret, Sirisha Mushti, Kun He, Shawna L Weis, Alexander H Putman, Whitney S Helms, Xianhua Cao, Hongshan Li, Hong Zhao, Liang Zhao, Joel Welch, Laurie Graham, Meredith Libeg, Rajeshwari Sridhara, Patricia Keegan, Richard Pazdur
On December 22, 2014, the U. S. Food and Drug Administration (FDA) granted accelerated approval to nivolumab (OPDIVO®, Bristol-Myers Squibb) for the treatment of patients with unresectable or metastatic melanoma and disease progression following ipilimumab and, if BRAF V600 mutation-positive, a BRAF inhibitor. Approval was based on a clinically meaningful, durable objective response rate (ORR) in a non-comparative analysis of 120 patients who received nivolumab 3 mg/kg intravenously every 2 weeks with at least 6 months follow-up in an ongoing, randomized, open-label, active-controlled clinical trial...
January 13, 2017: Clinical Cancer Research: An Official Journal of the American Association for Cancer Research
https://www.readbyqxmd.com/read/28087569/exercise-as-treatment-for-alcohol-use-disorders-systematic-review-and-meta-analysis
#10
Mats Hallgren, Davy Vancampfort, Esther S Giesen, Andreas Lundin, Brendon Stubbs
OBJECTIVES: To conduct a systematic review and meta-analysis investigating effects of exercise for people with alcohol use disorders (AUDs) across multiple health outcomes. We also investigated the prevalence and predictors of dropout from exercise studies in AUDs. DESIGN: Systematic review and random effects meta-analysis with meta-regression analyses. DATA SOURCES: 3 major electronic databases were searched from inception until April 2016 for exercise intervention studies in adults with AUDs...
January 13, 2017: British Journal of Sports Medicine
https://www.readbyqxmd.com/read/28087533/polysaccharide-degradation-capability-of-actinomycetales-soil-isolates-from-a-semi-arid-grassland-of-the-colorado-plateau
#11
Chris M Yeager, La Verne Gallegos-Graves, John Dunbar, Cedar N Hesse, Hajnalka Daligault, Cheryl R Kuske
: Among the bacteria, members of the Actinomycetales are considered quintessential degraders of complex polysaccharides in soils. However, studies examining complex polysaccharide degradation by Actinomycetales (other than Streptomyces spp.) in soils are limited. Here, we examine the lignocellulolytic and chitinolytic potential of 112 Actinomycetales strains, encompassing 13 families, isolated from a semi-arid grassland of the Colorado Plateau, Utah, USA. Members of the Streptomycetaceae, Pseudonocardiaceae, Micromonosporaceae and Promicromonosporaceae exhibited robust activity against carboxymethylcellulose, xylan, chitin and pectin substrates (except for low/no pectinase activity by the Micromonosporaceae)...
January 13, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28087491/dynamics-of-bacterial-class-bacilli-in-the-deepest-valley-lake-of-kashmir-the-manasbal-lake
#12
Sana Shafi, Azra N Kamili, Manzoor A Shah, Suhaib A Bandh, Rubiya Dar
In recognition of the importance of bacteria as ecological indicators of the aquatic systems a comprehensive and systematic analysis was carried out on Manasbal Lake, the deepest spring fed valley lake of Kashmir. The main objective envisaged was to analyze bacterial community composition (BCC) and for this purpose systematic and regular sampling of waters from ten different sampling stations, predetermined in the Lake according to differences in degree of human interference and also as zones of special ecological interests were selected...
January 10, 2017: Microbial Pathogenesis
https://www.readbyqxmd.com/read/28081198/molecular-analysis-of-chinese-celastrus-and-tripterygium-and-implications-in-medicinal-and-pharmacological-studies
#13
Xian-Yun Mu, Liang-Cheng Zhao, Zhi-Xiang Zhang
Celastrus and Tripterygium species, which are used in traditional Chinese medicine, have attracted much attention due to their anti-tumor promoting and neuroprotective activities, in addition to their applications in autoimmune disorders. However, systematic relationships between them and among species are unclear, and it may disturb their further medicinal utilization. In the present study, the molecular analysis of combined chloroplast and nuclear markers of all Chinese Celastrus and Tripterygium was performed, and clear inter- and intra-genus relationships were presented...
2017: PloS One
https://www.readbyqxmd.com/read/28079603/genital-use-of-talc-and-risk-of-ovarian-cancer-a-meta-analysis
#14
Wera Berge, Kenneth Mundt, Hung Luu, Paolo Boffetta
Some epidemiological studies suggest an association between genital use of talc powders and increased risk of ovarian cancer, but the evidence is not consistent. We performed a meta-analysis of epidemiological studies to formally evaluate this suspected association. A systematic search was conducted in Medline, Embase, and Scopus, leading to the identification of 24 case-control studies and three cohort studies, including 302 705 women with ovarian cancer. In the meta-analysis, we used a random-effect model to calculate summary estimates of the association between genital use of talc and occurrence of ovarian cancer...
January 11, 2017: European Journal of Cancer Prevention
https://www.readbyqxmd.com/read/28078827/fam83-family-oncogenes-are-broadly-involved-in-human-cancers-an-integrative-multi-omics-approach
#15
Antoine M Snijders, Sun-Young Lee, Bo Hang, Wenshan Hao, Mina J Bissell, Jian-Hua Mao
The development of novel targeted therapies for cancer treatment requires identification of reliable targets. FAM83 ('family with sequence similarity 83') family members A, B, and D were shown recently to have oncogenic potential. However, the overall oncogenic abilities of FAM83 family genes remain largely unknown. Here, we used a systematic and integrative genomics approach to investigate oncogenic properties of the entire FAM83 family members. We assessed transcriptional expression patterns of eight FAM83 family genes (FAM83A-H) across tumor types, the relationship between their expression and changes in DNA copy number, and the association with patient survival...
October 26, 2016: Molecular Oncology
https://www.readbyqxmd.com/read/28078711/systematics-of-cladophora-spp-chlorophyta-from-north-carolina-usa-based-upon-morphology-and-dna-sequence-data-with-a-description-of-cladophora-subtilissima-sp-nov
#16
Robin L Taylor, Craig J Bailey, D Wilson Freshwater
Identification of Cladophora species is challenging due to conservation of gross morphology, few discrete autapomorphies, and environmental influences on morphology. Twelve species of marine Cladophora were reported from North Carolina waters. Cladophora specimens were collected from inshore and offshore marine waters for DNA sequence and morphological analyses. The nuclear-encoded rRNA internal transcribed spacer regions (ITS) were sequenced for 105 specimens and used in Molecular Assisted Identification (MAI)...
January 12, 2017: Journal of Phycology
https://www.readbyqxmd.com/read/28078420/comprehensive-polyphenol-profiling-of-a-strawberry-extract-fragaria-%C3%A3-ananassa-by-ultra-high-performance-liquid-chromatography-coupled-with-high-resolution-mass-spectrometry
#17
Giorgia La Barbera, Anna Laura Capriotti, Chiara Cavaliere, Susy Piovesana, Roberto Samperi, Riccardo Zenezini Chiozzi, Aldo Laganà
The aim of metabolic untargeted profiling is to detect and identify unknown compounds in a biological matrix to achieve the most comprehensive metabolic coverage. In phytochemical mixtures, however, the complexity of the sample could present significant difficulties in compound identification. In this case, the optimization of both the chromatographic and the mass-spectrometric conditions is supposed to be crucial for the detection and identification of the largest number of compounds. In this work, a systematic investigation of different chromatographic and mass-spectrometric conditions is presented to achieve a comprehensive untargeted profiling of a strawberry extract (Fragaria × ananassa)...
January 11, 2017: Analytical and Bioanalytical Chemistry
https://www.readbyqxmd.com/read/28077236/high-resolution-ultrahigh-pressure-long-column-reversed-phase-liquid-chromatography-for-top-down-proteomics
#18
Yufeng Shen, Nikola Tolić, Paul D Piehowski, Anil K Shukla, Sangtae Kim, Rui Zhao, Yi Qu, Errol Robinson, Richard D Smith, Ljiljana Paša-Tolić
Separation of proteoforms for global intact protein analysis (i.e. top-down proteomics) has lagged well behind what is achievable for peptides in traditional bottom-up proteomic approach and is becoming a true bottle neck for top-down proteomics. Herein, we report use of long (≥1M) columns containing short alkyl (C1-C4) bonded phases to achieve high-resolution RPLC for separation of proteoforms. At a specific operation pressure limit (i.e., 96.5MPa or 14Kpsi used in this work), column length was found to be the most important factor for achieving maximal resolution separation of proteins when 1...
January 5, 2017: Journal of Chromatography. A
https://www.readbyqxmd.com/read/28076302/detecting-paraprotein-interference-on-a-direct-bilirubin-assay-by-reviewing-the-photometric-reaction-data
#19
Elena García-González, Maite Aramendía, Ricardo González-Tarancón, Naiara Romero-Sánchez, Luis Rello
BACKGROUND: The direct bilirubin (D-Bil) assay on the AU Beckman Coulter instrumentation can be interfered by paraproteins, which may result in spurious D-Bil results. In a previous work, we took advantage of this fact to detect this interference, thus helping with the identification of patients with unsuspected monoclonal gammopathies. In this work, we investigate the possibility to detect interference based on the review of the photometric reactions, regardless of the D-Bil result. METHODS: The D-Bil assay was carried out in a set of 2164 samples...
January 11, 2017: Clinical Chemistry and Laboratory Medicine: CCLM
https://www.readbyqxmd.com/read/28073051/older-peoples-strategies-for-coping-with-chronic-non-malignant-pain-a-qualitative-meta-synthesis
#20
REVIEW
Marie Crowe, Deborah Gillon, Jennifer Jordan, Cate McCall
BACKGROUND: There is evidence that chronic pain is not recognised or managed effectively in older people. It is important to examine how older people cope with this because of the impact it can have on their quality of life and mortality. It will also enable nurses to work with older people to support effective coping skills and provide information on other useful coping strategies. OBJECTIVES: To examine how older people cope with non-malignant chronic pain. DESIGN: This is a qualitative meta-synthesis using Confidence in the Evidence from Reviews of Qualitative Research developed by Grading of Recommendations Assessment Development and Evaluation working group to evaluate the strength of the evidence...
December 23, 2016: International Journal of Nursing Studies
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